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 (2,099) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,012 13,052 2
Proteins 3,987 13,040 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 component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) organic cyclic 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) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.000000000000007248 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0000000006979 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00002991 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2692 Least Informative Inherited
Biological Process (BP) developmental process 0.004455 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.03804 Least Informative Inherited
Biological Process (BP) response to stimulus 0.3392 Least Informative Inherited
Biological Process (BP) single-organism organelle organization 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0002016 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.05558 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.005616 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.6982 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.5472 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.295 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.2153 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.01762 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.02447 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.6196 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.3019 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.6081 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.0741 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.8782 Moderately Informative Inherited
Biological Process (BP) organelle fission 0 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) cell division 0 Informative Direct
Biological Process (BP) chromosome organization 0.0000000000001347 Informative Direct
Biological Process (BP) microtubule-based process 0.0003037 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.0007664 Informative Direct
Biological Process (BP) organ morphogenesis 0.4396 Informative Inherited
Biological Process (BP) purine ribonucleoside metabolic process 0.004289 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.03895 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.01328 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.01623 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 0.002653 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 1 Informative Inherited
Biological Process (BP) organophosphate catabolic process 0.002348 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.005594 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 0.003835 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.02034 Informative Inherited
Biological Process (BP) DNA repair 0.003576 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.01897 Informative Inherited
Biological Process (BP) chromosome segregation 0 Highly Informative Direct
Biological Process (BP) nuclear division 0.0000000009231 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.000000006552 Highly Informative Direct
Biological Process (BP) meiotic cell cycle 0.0000000911 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.0000001289 Highly Informative Direct
Biological Process (BP) stem cell development 0.000004938 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 0.0001578 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 0.0009022 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.0009494 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.009011 Highly Informative Inherited
Biological Process (BP) gene silencing 0.002829 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.001534 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.116 Highly Informative Inherited
Biological Process (BP) purine ribonucleoside catabolic process 0.001137 Highly Informative Inherited
Biological Process (BP) purine ribonucleotide catabolic process 0.001225 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.9474 Highly Informative Inherited
Molecular Function (MF) binding 0.0000000002132 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.3847 Least Informative Inherited
Molecular Function (MF) small molecule binding 0.05605 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 0.0000000000006861 Informative Direct
Molecular Function (MF) protein dimerization activity 0.00009274 Informative Direct
Molecular Function (MF) nucleotide binding 0.0001404 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.0008915 Informative Direct
Molecular Function (MF) protein complex binding 0.007122 Informative Inherited
Molecular Function (MF) protein heterodimerization activity 0.0000000000001022 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.001158 Least Informative Inherited
Cellular Component (CC) nuclear part 0.0000007193 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.002406 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.00001635 Informative Direct
Cellular Component (CC) chromatin 0.000000001702 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.00009777 Highly Informative Direct
Cellular Component (CC) chromosome, centromeric region 0.004716 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 metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the vertebral column0Moderately 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 hair0InformativeDirect
Phenotypic Abnormality (PA)Hearing impairment0Highly InformativeDirect
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 variant0.0000005725Moderately 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 variant0.000000001668InformativeDirect
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)morphology0.02016Moderately InformativeInherited
Yeast Phenotype (YP)colony sectoring0.0000595InformativeDirect
Yeast Phenotype (YP)cell cycle progression0.0006608InformativeDirect

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)lethal - all die before end of larval stage0InformativeDirect
Fly Phenotype (FP)some die during larval stage0Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

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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
Fly Anatomy (FA)central nervous system0Moderately InformativeDirect

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)

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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 damage0.000000007693Moderately 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-binding0.00000000000006701Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Post-translational modificationAcetylation9.055e-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 ]