SUPERFAMILY 1.75 HMM library and genome assignments server


Ribosomal protein S5 domain 2-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ribosomal protein S5 domain 2-like [ 54210]
Superfamily:   Ribosomal protein S5 domain 2-like [ 54211] (12)
Families:   Translational machinery components [ 54212] (4)
  RNase P protein [ 54220]
  DNA gyrase/MutL, second domain [ 54224] (6)
  Hsp90 middle domain [ 102755]
  Ribonuclease PH domain 1-like [ 54229] (10)
  GHMP Kinase, N-terminal domain [ 54232] (6)
  Early switch protein XOL-1, N-terminal domain [ 89824]
  UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC [ 89827]
  Imidazole glycerol phosphate dehydratase [ 102766]
  ATP-dependent protease Lon (La), catalytic domain [ 102769]
  YigZ N-terminal domain-like [ 102772] (2)
  Formaldehyde-activating enzyme, FAE [ 117795]


Superfamily statistics
Genomes (3,248) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 72,774 0 102
Proteins 65,897 0 93


Functional annotation
General category Information
Detailed category Translation

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)cellular macromolecule metabolic process0.011697.897e-13Least InformativeInherited
Biological Process (BP)biosynthetic process0.089051.147e-07Least InformativeInherited
Biological Process (BP)protein metabolic process0.032860.4203Least InformativeInherited
Biological Process (BP)gene expression5.461e-060Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.00054336.032e-12Moderately InformativeDirect
Molecular Function (MF)structural molecule activity5.559e-074.355e-06Moderately InformativeDirect
Molecular Function (MF)structural constituent of ribosome3.318e-089.601e-14InformativeDirect
Cellular Component (CC)intracellular organelle part0.062230.6862Least InformativeInherited
Cellular Component (CC)intracellular non-membrane-bounded organelle0.00029660.001765Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.33520.08463Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex2.876e-096.161e-15Moderately InformativeDirect
Cellular Component (CC)cytosol0.028180.03424Moderately InformativeInherited
Cellular Component (CC)small ribosomal subunit6.271e-130InformativeDirect
Cellular Component (CC)cytosolic small ribosomal subunit0.00028228.865e-06Highly InformativeDirect

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 macromolecule metabolic process 7.897e-13 Least Informative Direct
Biological Process (BP) biosynthetic process 1.147e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 7.281e-15 Least Informative Direct
Biological Process (BP) single-organism metabolic process 8.079e-06 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0002445 Least Informative Direct
Biological Process (BP) protein metabolic process 0.4203 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 6.032e-12 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0 Moderately Informative Direct
Biological Process (BP) organelle organization 2.261e-11 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 8.664e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0004582 Moderately Informative Direct
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.9895 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.5019 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5189 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0.9681 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.622 Moderately Informative Inherited
Biological Process (BP) reproduction 0.8444 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.4788 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.8967 Moderately Informative Inherited
Biological Process (BP) immune system process 0.03946 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 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) purine ribonucleoside metabolic process 0 Informative Direct
Biological Process (BP) organophosphate catabolic process 0 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 0 Informative Direct
Biological Process (BP) mitochondrion organization 0 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0 Informative Direct
Biological Process (BP) cellular component disassembly 4.546e-13 Informative Direct
Biological Process (BP) isoprenoid metabolic process 3.157e-08 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 1.231e-07 Informative Direct
Biological Process (BP) response to DNA damage stimulus 4.774e-06 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 8.877e-06 Informative Direct
Biological Process (BP) DNA metabolic process 5.639e-05 Informative Direct
Biological Process (BP) cell cycle process 0.0006458 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.2841 Informative Inherited
Biological Process (BP) response to cytokine stimulus 0.6073 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.001271 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.1212 Informative Inherited
Biological Process (BP) chromosome organization 1 Informative Inherited
Biological Process (BP) organelle localization 0.6207 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 0.8276 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.8514 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.3051 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.8241 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.9557 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.5314 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) protein catabolic process 1 Informative Inherited
Biological Process (BP) hexose metabolic process 0.07323 Informative Inherited
Biological Process (BP) carbohydrate catabolic process 1 Informative Inherited
Biological Process (BP) nucleoside monophosphate metabolic process 0.6454 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.001292 Informative Inherited
Biological Process (BP) aspartate family amino acid metabolic process 0.0711 Informative Inherited
Biological Process (BP) immune effector process 0.3591 Informative Inherited
Biological Process (BP) immune response 0.7656 Informative Inherited
Biological Process (BP) leukocyte activation 1 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.001246 Informative Inherited
Biological Process (BP) RNA processing 1 Informative Inherited
Biological Process (BP) alpha-amino acid biosynthetic process 0.0014 Informative Inherited
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0 Highly Informative Direct
Biological Process (BP) galactose metabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 8.287e-13 Highly Informative Direct
Biological Process (BP) regulation of nitric oxide biosynthetic process 2.038e-11 Highly Informative Direct
Biological Process (BP) meiosis 1.651e-10 Highly Informative Direct
Biological Process (BP) guanosine-containing compound metabolic process 3.896e-10 Highly Informative Direct
Biological Process (BP) steroid biosynthetic process 5.807e-08 Highly Informative Direct
Biological Process (BP) sterol metabolic process 1.002e-07 Highly Informative Direct
Biological Process (BP) mRNA catabolic process 5.982e-06 Highly Informative Direct
Biological Process (BP) chromosome segregation 6.143e-06 Highly Informative Direct
Biological Process (BP) response to heat 1.347e-05 Highly Informative Direct
Biological Process (BP) carbohydrate phosphorylation 2.777e-05 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 7.279e-05 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 9.081e-05 Highly Informative Direct
Biological Process (BP) alcohol biosynthetic process 0.0001561 Highly Informative Direct
Biological Process (BP) DNA recombination 0.1471 Highly Informative Inherited
Biological Process (BP) leukocyte activation involved in immune response 0.01012 Highly Informative Inherited
Biological Process (BP) B cell activation 0.01677 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.2335 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.04084 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) nucleoside monophosphate catabolic process 1 Highly Informative Inherited
Biological Process (BP) acyl-CoA metabolic process 0.03592 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.03274 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.009102 Least Informative Inherited
Molecular Function (MF) structural molecule activity 4.355e-06 Moderately Informative Direct
Molecular Function (MF) isomerase activity 5.052e-09 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1.918e-08 Moderately Informative Direct
Molecular Function (MF) anion binding 0.01708 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.00194 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.4827 Moderately Informative Inherited
Molecular Function (MF) lyase activity 0.1989 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) structural constituent of ribosome 9.601e-14 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) nuclease activity 6.347e-14 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 1.972e-09 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 6.343e-09 Informative Direct
Molecular Function (MF) RNA binding 3.846e-08 Informative Direct
Molecular Function (MF) nucleotide binding 2.728e-06 Informative Direct
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) carbon-carbon lyase activity 0.03069 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.168 Informative Inherited
Molecular Function (MF) hydro-lyase activity 0.00313 Informative Inherited
Molecular Function (MF) kinase activity 0.6333 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.7685 Informative Inherited
Molecular Function (MF) peptidase activity 1 Informative Inherited
Molecular Function (MF) translation factor activity, nucleic acid binding 0 Highly Informative Direct
Molecular Function (MF) carbohydrate kinase activity 2.327e-15 Highly Informative Direct
Molecular Function (MF) carboxy-lyase activity 1.642e-05 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 2.915e-05 Highly Informative Direct
Molecular Function (MF) unfolded protein binding 0.0004058 Highly Informative Direct
Molecular Function (MF) ATP binding 0.0004803 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.004705 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0.6862 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1228 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.08463 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.001765 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 6.161e-15 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.0003292 Moderately Informative Direct
Cellular Component (CC) cytosol 0.03424 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.06736 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.001851 Moderately Informative Inherited
Cellular Component (CC) small ribosomal subunit 0 Informative Direct
Cellular Component (CC) plastid 0.002411 Informative Inherited
Cellular Component (CC) cell-cell junction 0.3382 Informative Inherited
Cellular Component (CC) mitochondrial matrix 0.001581 Informative Inherited
Cellular Component (CC) chromosome 0.04655 Informative Inherited
Cellular Component (CC) cytosolic small ribosomal subunit 8.865e-06 Highly Informative Direct
Cellular Component (CC) symplast 0.0003953 Highly Informative Direct
Cellular Component (CC) mitochondrial ribosome 0.001169 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.4013 Highly Informative Inherited
Cellular Component (CC) condensed chromosome 0.008291 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)Lyases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.03273Least InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Sole sub-subclass for isomerases that do not belon1InformativeInherited
Enzyme Commission (EC)Aldehyde-lyases0.3584InformativeInherited
Enzyme Commission (EC)Endopeptidase La0Highly InformativeDirect
Enzyme Commission (EC)Homoserine kinase0Highly InformativeDirect
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Ribonuclease P0Highly InformativeDirect
Enzyme Commission (EC)Histidinol-phosphatase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the abdomen0.01237Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.2041Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.00325Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.03067Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal genital system morphology0.1738Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.2557Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal bleeding0.01197InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.02281InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by anatomical site0.023InformativeInherited
Phenotypic Abnormality (PA)Abnormality of female internal genitalia0.02489InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system physiology0.134InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the intestine0.3053InformativeInherited
Phenotypic Abnormality (PA)Uterine neoplasm1.587e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the large intestine4.284e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Urinary tract neoplasm0.0003177Highly InformativeDirect
Phenotypic Abnormality (PA)Sarcoma0.0003918Highly InformativeDirect
Phenotypic Abnormality (PA)Migraine0.0005206Highly InformativeDirect
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.04215Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal reproductive system morphology0.09056Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.009269InformativeInherited
Mammalian Phenotype (MP)abnormal male germ cell morphology0.0136InformativeInherited
Mammalian Phenotype (MP)abnormal spermatogenesis0.01904InformativeInherited
Mammalian Phenotype (MP)azoospermia0.0004682Highly InformativeDirect
Mammalian Phenotype (MP)abnormal meiosis0.0005316Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)larval development variant0.3432Least InformativeInherited
Worm Phenotype (WP)growth variant0.3714Least InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01511Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.03872Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.07052Moderately InformativeInherited
Worm Phenotype (WP)germ cell compartment expansion variant0.0001344InformativeDirect
Worm Phenotype (WP)pachytene progression during oogenesis variant0.0001353InformativeDirect
Worm Phenotype (WP)rachis morphology variant0.0001518InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0.0001846InformativeDirect
Worm Phenotype (WP)early larval arrest6.174e-05Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.0001192Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)immune system0.02298Moderately InformativeInherited
Xenopus ANatomical entity (XAN)endocrine system0.001271InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0.000278Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.0207Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases1Moderately InformativeInherited
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0InformativeDirect
Enzyme Commission (EC)Pentosyltransferases1InformativeInherited
Enzyme Commission (EC)Phosphotransferases with a phosphate group as acceptor1InformativeInherited
Enzyme Commission (EC)Carboxy-lyases1InformativeInherited
Enzyme Commission (EC)Polyribonucleotide nucleotidyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Ribonuclease P0Highly InformativeDirect
Enzyme Commission (EC)DNA topoisomerase (ATP-hydrolyzing)0Highly InformativeDirect
Enzyme Commission (EC)Aldehyde-lyases0.4347Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processLipid metabolism1.319e-12Moderately InformativeDirect
Biological processCarbohydrate metabolism0.001063Moderately InformativeInherited
Biological processStress response0InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processtRNA processing0InformativeDirect
Biological processSteroid metabolism0.0911InformativeInherited
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Biological processLipid A biosynthesis0Highly InformativeDirect
Biological processSterol biosynthesis6.239e-09Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentPeroxisome0.0002705InformativeDirect
DomainTransit peptide5.458e-06Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functionGTP-binding0InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationLyase4.452e-11Moderately InformativeDirect
Post-translational modificationProtease4.788e-05Moderately InformativeDirect
Post-translational modificationIsomerase1Moderately InformativeInherited
Post-translational modificationChaperone0InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect
Post-translational modificationSerine protease0InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationTopoisomerase0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amino-acid metabolism0Least InformativeDirect
UniPathway (UP)lipid metabolism0Least InformativeDirect
UniPathway (UP)biopolymer metabolism1.169e-11Least InformativeDirect
UniPathway (UP)cofactor metabolism1Least InformativeInherited
UniPathway (UP)carbohydrate metabolism1Least InformativeInherited
UniPathway (UP)biopolymer biosynthesis0Moderately InformativeDirect
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)lipid biosynthesis0Moderately InformativeDirect
UniPathway (UP)cellular component biogenesis3.421e-13Moderately InformativeDirect
UniPathway (UP)carbohydrate biosynthesis1Moderately InformativeInherited
UniPathway (UP)alcohol metabolism1Moderately InformativeInherited
UniPathway (UP)membrane lipid metabolism1Moderately InformativeInherited
UniPathway (UP)lipopolysaccharide biosynthesis0InformativeDirect
UniPathway (UP)L-histidine biosynthesis0InformativeDirect
UniPathway (UP)isoprenoid biosynthesis0InformativeDirect
UniPathway (UP)protein biosynthesis0InformativeDirect
UniPathway (UP)alcohol biosynthesis0.04481InformativeInherited
UniPathway (UP)terpene metabolism0.588InformativeInherited
UniPathway (UP)glycolipid biosynthesis1InformativeInherited
UniPathway (UP)L-threonine biosynthesis0Highly InformativeDirect
UniPathway (UP)galactose metabolism0Highly InformativeDirect
UniPathway (UP)lipid IV(A) biosynthesis0Highly InformativeDirect
UniPathway (UP)cholesterol metabolism5.194e-06Highly InformativeDirect
UniPathway (UP)sterol biosynthesis0.001237Highly InformativeInherited

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 58 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 Ribosomal protein S5 domain 2-like 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 58 hidden Markov models representing the Ribosomal protein S5 domain 2-like 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]