SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Ran binding protein zinc finger-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Rubredoxin-like [ 57769] (17)
Superfamily:   Ran binding protein zinc finger-like [ 90209]
Families:   Ran binding protein zinc finger-like [ 90210] (6)


Superfamily statistics
Genomes (512) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 9,011 18,575 7
Proteins 5,790 12,362 7


Functional annotation
General category Regulation
Detailed category Other regulatory function

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) macromolecule metabolic process 0.00000000000009521 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000002165 Least Informative Direct
Biological Process (BP) biological regulation 0.0000005349 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.01965 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.00895 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1249 Least Informative Inherited
Biological Process (BP) response to stimulus 0.3576 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.0004806 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.0007526 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.9395 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.04146 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.7471 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.005436 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.648 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.8609 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.02868 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.001273 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.5332 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.002476 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.3291 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.6232 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.3204 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.04323 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.09795 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.1933 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.009532 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.2149 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.07999 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.3435 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1457 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) single organism signaling 0.1595 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.3774 Moderately Informative Inherited
Biological Process (BP) immune system process 0.9991 Moderately Informative Inherited
Biological Process (BP) cell communication 0.2639 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2564 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.01617 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.5295 Moderately Informative Inherited
Biological Process (BP) central nervous system development 0.00002618 Informative Direct
Biological Process (BP) regulation of cellular localization 0.00009749 Informative Direct
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.0001279 Informative Direct
Biological Process (BP) proteolysis 0.0006169 Informative Direct
Biological Process (BP) positive regulation of signal transduction 0.0007969 Informative Direct
Biological Process (BP) intracellular transport 0.003296 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.02084 Informative Inherited
Biological Process (BP) positive regulation of transport 0.3573 Informative Inherited
Biological Process (BP) regulation of protein localization 0.003915 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.06454 Informative Inherited
Biological Process (BP) regulation of defense response 0.007618 Informative Inherited
Biological Process (BP) cell development 0.4343 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.09137 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.009657 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.004591 Informative Inherited
Biological Process (BP) regulation of peptide transport 0.005809 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.7445 Informative Inherited
Biological Process (BP) ribonucleoprotein complex subunit organization 0.001507 Informative Inherited
Biological Process (BP) generation of neurons 0.001708 Informative Inherited
Biological Process (BP) protein transport 0.1978 Informative Inherited
Biological Process (BP) response to radiation 0.08094 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.1236 Informative Inherited
Biological Process (BP) protein localization to organelle 0.08321 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.01845 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.18 Informative Inherited
Biological Process (BP) regulation of immune response 0.01283 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 0.008972 Informative Inherited
Biological Process (BP) cell cycle process 0.01746 Informative Inherited
Biological Process (BP) chromosome organization 0.2293 Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0.002405 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.5074 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.5529 Informative Inherited
Biological Process (BP) RNA splicing 0.00000003546 Highly Informative Direct
Biological Process (BP) positive regulation of protein transport 0.00001367 Highly Informative Direct
Biological Process (BP) positive regulation of intracellular transport 0.00001848 Highly Informative Direct
Biological Process (BP) neuron development 0.00009376 Highly Informative Direct
Biological Process (BP) response to UV 0.0001332 Highly Informative Direct
Biological Process (BP) negative regulation of catabolic process 0.0001376 Highly Informative Direct
Biological Process (BP) negative regulation of defense response 0.0002062 Highly Informative Direct
Biological Process (BP) protein import 0.0002093 Highly Informative Direct
Biological Process (BP) positive regulation of cellular protein localization 0.0003416 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 0.0003887 Highly Informative Direct
Biological Process (BP) mRNA processing 0.0004133 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0.00043 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0004316 Highly Informative Direct
Biological Process (BP) regulation of intracellular protein transport 0.0004948 Highly Informative Direct
Biological Process (BP) single-organism nuclear import 0.0007218 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0.8125 Highly Informative Inherited
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.01757 Highly Informative Inherited
Biological Process (BP) cellular protein catabolic process 0.007376 Highly Informative Inherited
Biological Process (BP) response to endoplasmic reticulum stress 0.02073 Highly Informative Inherited
Biological Process (BP) protein localization to nucleus 0.008238 Highly Informative Inherited
Biological Process (BP) modification-dependent macromolecule catabolic process 0.04164 Highly Informative Inherited
Biological Process (BP) nuclear chromosome segregation 0.01924 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 0.04118 Highly Informative Inherited
Molecular Function (MF) binding 0.00000002579 Least Informative Direct
Molecular Function (MF) transferase activity 0.6866 Least Informative Inherited
Molecular Function (MF) hydrolase activity 0.3859 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.000000000003933 Moderately Informative Direct
Molecular Function (MF) RNA binding 0.00001698 Informative Direct
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.0001752 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.0004329 Informative Direct
Molecular Function (MF) ubiquitin-like protein transferase activity 0.000000001308 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.006629 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00004926 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00219 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.8456 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.8343 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00000004637 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.000001028 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.00002913 Moderately Informative Direct
Cellular Component (CC) endomembrane system 0.4009 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 0.01821 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0.0000007811 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.01208 Informative Inherited
Cellular Component (CC) nuclear envelope 0.003881 Informative Inherited
Cellular Component (CC) nuclear pore 0.00000008541 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.00000000009655Least InformativeDirect
Enzyme Commission (EC)Omega peptidases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.6556Least InformativeInherited
Biological processUbl conjugation pathway0Moderately InformativeDirect
Biological processApoptosis0.00000001179Moderately InformativeDirect
Biological processProtein transport0.000004766Moderately InformativeDirect
Biological processmRNA processing0.000000000000008935InformativeDirect
Biological processWnt signaling pathway0.0000000000002559InformativeDirect
Biological processmRNA transport0.00000000001168Highly InformativeDirect
Biological processTranslocation0.000651Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentSpliceosome0.00000000002817InformativeDirect
Coding sequence diversityAlternative splicing0.0004864Least InformativeDirect
DiseaseProto-oncogene0.000003583Moderately InformativeDirect
DomainRepeat0.000001607Least InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainANK repeat0.00005562InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase0.1902Least InformativeInherited
Post-translational modificationRNA-binding0.000000007551Moderately InformativeDirect
Post-translational modificationProtease0.000001944Moderately InformativeDirect
Post-translational modificationThiol protease0.000000001118InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0002727Least InformativeDirect
Post-translational modificationUbl conjugation0.000000000000001916Moderately InformativeDirect
Post-translational modificationMethylation0.0001119Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 6 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 Ran binding protein zinc finger-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 6 hidden Markov models representing the Ran binding protein zinc finger-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-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]