SUPERFAMILY 1.75 HMM library and genome assignments server


Nucleic acid-binding proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   OB-fold [ 50198] (16)
Superfamily:   Nucleic acid-binding proteins [ 50249] (16)
Families:   Anticodon-binding domain [ 50250] (2)
  RecG "wedge" domain [ 69259]
  DNA helicase RuvA subunit, N-terminal domain [ 50259]
  Single strand DNA-binding domain, SSB [ 50263] (12)
  Myf domain [ 50277] (6)
  Cold shock DNA-binding domain-like [ 50282] (30)
  TRAM domain [ 101768] (3)
  Hypothetical protein MTH1 (MT0001), insert domain [ 74955]
  DNA ligase/mRNA capping enzyme postcatalytic domain [ 50307] (5)
  Phage ssDNA-binding proteins [ 50315] (3)
  DNA replication initiator (cdc21/cdc54) N-terminal domain [ 89332]
  RNA polymerase subunit RBP8 [ 50321]
  RecO N-terminal domain-like [ 117204]
  TIP49 domain [ 141315]
  SSO2064-like [ 159109]
  RNB domain-like [ 159112] (3)


Superfamily statistics
Genomes (3,254) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 146,254 702,208 241
Proteins 113,289 553,506 208


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biosynthetic process3.219e-110Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process7.462e-140Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.019830.02794Least InformativeInherited
Biological Process (BP)single-organism cellular process0.97621Least InformativeInherited
Biological Process (BP)protein metabolic process9.951e-051Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.086760Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.22910Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.080150Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.19110Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0093769.619e-06Least InformativeInherited
Biological Process (BP)organelle organization0.00043088.969e-14Moderately InformativeDirect
Biological Process (BP)gene expression01.944e-15Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process00Moderately InformativeDirect
Biological Process (BP)regulation of gene expression0.058591Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.85590.9623Moderately InformativeInherited
Biological Process (BP)homeostatic process0.52090.004599Moderately InformativeInherited
Biological Process (BP)translation00InformativeDirect
Biological Process (BP)ribonucleoprotein complex biogenesis8.917e-052.282e-10InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.019011.028e-10InformativeInherited
Biological Process (BP)chromosome organization0.3113.047e-10InformativeInherited
Biological Process (BP)DNA metabolic process0.43940InformativeInherited
Biological Process (BP)translational initiation1.24e-096.393e-07Highly InformativeDirect
Molecular Function (MF)binding0.0007433.753e-13Least InformativeDirect
Molecular Function (MF)transferase activity11Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)structural molecule activity1.827e-132.113e-09Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.53881Moderately InformativeInherited
Molecular Function (MF)chromatin binding2.716e-072.222e-10InformativeDirect
Molecular Function (MF)structural constituent of ribosome00InformativeDirect
Molecular Function (MF)DNA binding0.60820.9403InformativeInherited
Molecular Function (MF)nucleotidyltransferase activity0.0014792.332e-15InformativeInherited
Molecular Function (MF)RNA polymerase activity1.064e-050.0003556Highly InformativeDirect
Molecular Function (MF)ribonucleoprotein complex binding0.00038324.033e-07Highly InformativeDirect
Molecular Function (MF)structure-specific DNA binding00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)intracellular organelle part1.957e-073.769e-14Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle10.7557Least InformativeInherited
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.25551Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex00Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen2.086e-082.503e-13Moderately InformativeDirect
Cellular Component (CC)cytosol0.06950.001806Moderately InformativeInherited
Cellular Component (CC)mitochondrial part0.0094240.01526Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0091620Moderately InformativeInherited
Cellular Component (CC)small ribosomal subunit00.0006528InformativeDirect
Cellular Component (CC)nuclear DNA-directed RNA polymerase complex0.0008660.0001013InformativeDirect
Cellular Component (CC)mitochondrial matrix1.61e-060.2255InformativeInherited
Cellular Component (CC)chromosome0.9573.128e-15InformativeInherited
Cellular Component (CC)cytosolic ribosome0.4390.005897InformativeInherited
Cellular Component (CC)nucleoplasm part0.24611InformativeInherited
Cellular Component (CC)DNA-directed RNA polymerase II, core complex4.847e-105.391e-09Highly InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit2.874e-051.479e-07Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.031630Highly InformativeInherited

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 9.619e-06 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.6187 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.02794 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) organelle organization 8.969e-14 Moderately Informative Direct
Biological Process (BP) gene expression 1.944e-15 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 5.834e-07 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.6631 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.9623 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.05202 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.004599 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.001473 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.8407 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.02017 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.07448 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.7 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.9436 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.02207 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.07392 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.01883 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.65 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) translation 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 2.477e-05 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 1.488e-06 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 1.028e-10 Informative Direct
Biological Process (BP) sexual reproduction 0.0001494 Informative Direct
Biological Process (BP) cell cycle process 5.368e-12 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 2.282e-10 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.0008039 Informative Direct
Biological Process (BP) ncRNA metabolic process 7.091e-13 Informative Direct
Biological Process (BP) single organism reproductive process 1.815e-05 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.722e-07 Informative Direct
Biological Process (BP) organophosphate catabolic process 4.407e-05 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0003874 Informative Direct
Biological Process (BP) chromosome organization 3.047e-10 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 8.763e-05 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 2.903e-05 Informative Direct
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.8412 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.3012 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.9284 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.2135 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) organelle localization 0.9492 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.03716 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.636 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.6025 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.6815 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.8667 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.4716 Informative Inherited
Biological Process (BP) cellular membrane organization 1 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.3159 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.7565 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.04287 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.03988 Informative Inherited
Biological Process (BP) transcription, DNA-dependent 1 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.002001 Informative Inherited
Biological Process (BP) leukocyte activation 1 Informative Inherited
Biological Process (BP) immune effector process 0.8102 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 1 Informative Inherited
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) double-strand break repair 0 Highly Informative Direct
Biological Process (BP) DNA recombination 3.41e-06 Highly Informative Direct
Biological Process (BP) translational initiation 6.393e-07 Highly Informative Direct
Biological Process (BP) regulation of translation 1.663e-07 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 1.784e-14 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 1.748e-09 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 3.238e-10 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 9.182e-15 Highly Informative Direct
Biological Process (BP) gene silencing 2.017e-08 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 1.253e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 8.818e-14 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 1.167e-09 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.4709 Highly Informative Inherited
Biological Process (BP) negative regulation of cell cycle 0.5391 Highly Informative Inherited
Biological Process (BP) mRNA catabolic process 0.256 Highly Informative Inherited
Biological Process (BP) positive regulation of catabolic process 0.142 Highly Informative Inherited
Biological Process (BP) cell cycle phase 0.05816 Highly Informative Inherited
Biological Process (BP) chromosome segregation 0.02607 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.06357 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.08772 Highly Informative Inherited
Biological Process (BP) establishment of RNA localization 0.004491 Highly Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.05757 Highly Informative Inherited
Biological Process (BP) B cell activation 0.08693 Highly Informative Inherited
Biological Process (BP) protein methylation 0.2092 Highly Informative Inherited
Biological Process (BP) histone modification 0.4313 Highly Informative Inherited
Biological Process (BP) stem cell development 0.02582 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.1414 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.4012 Highly Informative Inherited
Biological Process (BP) meiosis 0.003269 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.2585 Highly Informative Inherited
Biological Process (BP) cell division 0.4846 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.0275 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle phase transition 0.02896 Highly Informative Inherited
Molecular Function (MF) binding 3.753e-13 Least Informative Direct
Molecular Function (MF) hydrolase activity 4.869e-07 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 2.113e-09 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.09219 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 2.222e-10 Informative Direct
Molecular Function (MF) structural constituent of ribosome 0 Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 2.332e-15 Informative Direct
Molecular Function (MF) DNA binding 0.9403 Informative Inherited
Molecular Function (MF) RNA binding 0.006726 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0.1389 Informative Inherited
Molecular Function (MF) RNA polymerase activity 0.0003556 Highly Informative Direct
Molecular Function (MF) ribonucleoprotein complex binding 4.033e-07 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 3.769e-14 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.7557 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 2.503e-13 Moderately Informative Direct
Cellular Component (CC) cytosol 0.001806 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.01526 Moderately Informative Inherited
Cellular Component (CC) chromosome 3.128e-15 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.0006528 Informative Direct
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.0001013 Informative Direct
Cellular Component (CC) mitochondrial matrix 0.2255 Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.005897 Informative Inherited
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) cytoplasmic mRNA processing body 6.2e-07 Highly Informative Direct
Cellular Component (CC) DNA-directed RNA polymerase II, core complex 5.391e-09 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 1.479e-07 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0 Highly Informative Direct
Cellular Component (CC) nuclear body 0.7208 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0Moderately InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters1Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phenylalanine--tRNA ligase0InformativeDirect
Enzyme Commission (EC)Ligases that form phosphoric-ester bonds1InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0.1092InformativeInherited
Enzyme Commission (EC)Methionine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Aspartate--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)DNA ligase (NAD(+))6.306e-13Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase3.114e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.002372Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.00845Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.1572Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body phenotype0.2529Least InformativeInherited
Mammalian Phenotype (MP)preweaning lethality0.0002489Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal tumor incidence0.0004475Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal metabolism0.005783Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.05065Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.06672Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.7031Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.8117Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number9.604e-05InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.0002771InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.0003719InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.0006785InformativeDirect
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.0009318InformativeDirect
Mammalian Phenotype (MP)abnormal internal female genitalia morphology0.005719InformativeInherited
Mammalian Phenotype (MP)decreased cell proliferation0.005808InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.00644InformativeInherited
Mammalian Phenotype (MP)abnormal induced cell death0.01147InformativeInherited
Mammalian Phenotype (MP)abnormal sex gland morphology0.01566InformativeInherited
Mammalian Phenotype (MP)chromosomal instability2.134e-14Highly InformativeDirect
Mammalian Phenotype (MP)decreased fetal size2.272e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal ovary size2.928e-05Highly InformativeDirect
Mammalian Phenotype (MP)increased sensitivity to induced cell death0.0007899Highly InformativeDirect
Mammalian Phenotype (MP)abnormal female germ cell morphology0.01583Highly InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.01717Highly InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.02081Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant1.849e-11Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.7785Least InformativeInherited
Worm Phenotype (WP)growth variant1Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal1.125e-09Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect2.739e-05Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.009473Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.02999Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.0449Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.05699Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.6343Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.8606Moderately InformativeInherited
Worm Phenotype (WP)sick5.096e-09InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb3.473e-08InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant2.454e-07InformativeDirect
Worm Phenotype (WP)germ cell compartment expansion variant1.103e-05InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0002954InformativeDirect
Worm Phenotype (WP)germline nuclear positioning variant0.0006507InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.06895InformativeInherited
Worm Phenotype (WP)cell division variant0.1339InformativeInherited
Worm Phenotype (WP)oocyte number decreased4.784e-07Highly InformativeDirect
Worm Phenotype (WP)nuclear number variant9.87e-05Highly InformativeDirect
Worm Phenotype (WP)excessive blebbing early emb0.0001555Highly InformativeDirect
Worm Phenotype (WP)embryonic cell morphology variant0.0002173Highly InformativeDirect
Worm Phenotype (WP)cell cycle variant0.002204Highly InformativeInherited
Worm Phenotype (WP)cleavage furrow defective early emb0.8074Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)chromosome/plasmid maintenance1.651e-06InformativeDirect
Yeast Phenotype (YP)heat sensitivity3.355e-05InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0007051InformativeDirect

Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo2.112e-05Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0.001388Least InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

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AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell5.537e-05Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.0003556Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

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EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0.1064Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups1Moderately InformativeInherited
Enzyme Commission (EC)Acyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups1InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters1InformativeInherited
Enzyme Commission (EC)Other carbon--nitrogen ligases1InformativeInherited
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Phenylalanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)mRNA guanylyltransferase1.531e-09Highly InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.08492Highly InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1Highly InformativeInherited
Enzyme Commission (EC)Ligases that form phosphoric-ester bonds1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

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KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processTranscription regulation1Moderately InformativeInherited
Biological processDNA recombination0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processTranscription termination7.056e-16Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome1InformativeInherited
Cellular componentPrimosome0Highly InformativeDirect
Cellular componentTelomere1.549e-08Highly InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionNucleotide-binding1.382e-15Least InformativeDirect
Molecular functionMetal-binding2.793e-11Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationNuclease0.2039Moderately InformativeInherited
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect
Post-translational modificationExonuclease0InformativeDirect
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationHydroxylation0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect

Document: UP annotation of SCOP domains

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Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 131 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Nucleic acid-binding proteins domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 131 hidden Markov models representing the Nucleic acid-binding proteins superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]