SUPERFAMILY 1.75 HMM library and genome assignments server


Smc hinge domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Smc hinge domain [ 75552]
Superfamily:   Smc hinge domain [ 75553]
Families:   Smc hinge domain [ 75554]


Superfamily statistics
Genomes (2,050) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 3,845 5,829 2
Proteins 3,830 5,822 2


Functional annotation
General category Information
Detailed category Chromatin structure

Document:
Function annotation of SCOP domain superfamilies

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) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 1.931e-15 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 1.24e-09 Least Informative Direct
Biological Process (BP) developmental process 0.003834 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2772 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.05063 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.4205 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) reproduction 3.232e-13 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0004336 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.3968 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.003166 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.6584 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.172 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.4767 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.2103 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.01958 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.01652 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.915 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2385 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.5918 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.9906 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.08692 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.06492 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.8666 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.0188 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) cellular process involved in reproduction 3.773e-14 Informative Direct
Biological Process (BP) regulation of cell cycle 5.023e-05 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0.0002291 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.0004055 Informative Direct
Biological Process (BP) microtubule-based process 0.0006781 Informative Direct
Biological Process (BP) organ morphogenesis 0.3006 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.0313 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.0239 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.006564 Informative Inherited
Biological Process (BP) purine ribonucleoside metabolic process 0.002483 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.003415 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.001484 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.002075 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 1 Informative Inherited
Biological Process (BP) glycosyl compound catabolic process 0.00132 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.003394 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) chromosome segregation 0 Highly Informative Direct
Biological Process (BP) mitosis 5.572e-12 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 2.291e-09 Highly Informative Direct
Biological Process (BP) microtubule cytoskeleton organization 2.755e-09 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 1.046e-07 Highly Informative Direct
Biological Process (BP) meiosis 6.571e-07 Highly Informative Direct
Biological Process (BP) stem cell development 5.318e-06 Highly Informative Direct
Biological Process (BP) cell cycle checkpoint 1.246e-05 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 0.0001498 Highly Informative Direct
Biological Process (BP) ATP metabolic process 0.0001891 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.0006228 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0.0008019 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.09115 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.003612 Highly Informative Inherited
Biological Process (BP) gene silencing 0.005285 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.05375 Highly Informative Inherited
Biological Process (BP) purine ribonucleoside catabolic process 0.001014 Highly Informative Inherited
Biological Process (BP) purine ribonucleotide catabolic process 0.001094 Highly Informative Inherited
Molecular Function (MF) binding 5.692e-10 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.3588 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.2136 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 3.029e-11 Informative Direct
Molecular Function (MF) protein dimerization activity 9.05e-05 Informative Direct
Molecular Function (MF) DNA binding 0.000344 Informative Direct
Molecular Function (MF) nucleotide binding 0.0006408 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.0008136 Informative Direct
Molecular Function (MF) protein heterodimerization activity 7.691e-14 Highly Informative Direct
Molecular Function (MF) protein complex binding 3.816e-05 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) protein complex 0.003597 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 7.942e-06 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.01142 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 7.367e-06 Informative Direct
Cellular Component (CC) condensed chromosome 0 Highly Informative Direct
Cellular Component (CC) kinetochore 1.631e-06 Highly Informative Direct
Cellular Component (CC) nuclear periphery 0.0007931 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.00309 Highly Informative Inherited

Document: GO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of head and neck0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the skeletal system0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of cardiac morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of muscle physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the globe0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eyelid0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the ear0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vertebral column0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the hair0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the eyelashes0Highly InformativeDirect
Phenotypic Abnormality (PA)Edema0Highly InformativeDirect
Phenotypic Abnormality (PA)Functional abnormality of the inner ear0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0Least InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0002382Least InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant5.725e-07Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.0001374Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.000713Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0009456Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.3032Moderately InformativeInherited
Worm Phenotype (WP)chromosome segregation variant1.668e-09InformativeDirect
Worm Phenotype (WP)sick0.0004025InformativeDirect
Worm Phenotype (WP)protruding vulva0.0006985InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0.01826Moderately InformativeInherited
Yeast Phenotype (YP)colony sectoring5.86e-05InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0006508InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)lethal - all die before end of P-stage0Moderately InformativeDirect
Fly Phenotype (FP)some die during larval stage0InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited

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)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0Moderately InformativeDirect
Biological processDNA damage8.14e-09Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processMitosis0InformativeDirect
Biological processDNA condensation0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome0InformativeDirect
Cellular componentCentromere0Highly InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionDNA-binding4.609e-14Least InformativeDirect
Post-translational modificationAcetylation9.085e-16Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR010935 SSF75553 Protein matches
Abstract

This entry represents the hinge region of the SMC (Structural Maintenance of Chromosomes) family of proteins. The hinge region is responsible for formation of the DNA interacting dimer. It is also possible that the precise structure of it is an essential determinant of the specificity of the DNA-protein interaction [PubMed12411491].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) ]

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 1 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 Smc hinge domain 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 1 hidden Markov models representing the Smc hinge domain 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]