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CCCH zinc finger superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   CCCH zinc finger [ 90228]
Superfamily:   CCCH zinc finger [ 90229]
Families:   CCCH zinc finger [ 90230] (4)


Superfamily statistics
Genomes (506) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 17,985 46,149 7
Proteins 11,363 30,350 4


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the head0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the integument0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormal skull morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Growth abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal muscle tone0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Neurodevelopmental delay0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal ocular adnexa morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal eyelid morphology0InformativeDirect
Phenotypic Abnormality (PA)Seizures0InformativeDirect
Phenotypic Abnormality (PA)Global developmental delay0InformativeDirect
Phenotypic Abnormality (PA)Abnormal hair morphology0InformativeDirect
Phenotypic Abnormality (PA)Generalized hypotonia0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)hematopoietic system phenotype0.229Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.2406Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.783Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.1051Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.1088Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal protein level0.1482Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.16Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.2533Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lymph node morphology0.000197InformativeDirect
Mammalian Phenotype (MP)increased gland tumor incidence0.005626InformativeInherited
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.006014InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.008616InformativeInherited
Mammalian Phenotype (MP)abnormal lymph organ size0.009779InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.009807InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.01478InformativeInherited
Mammalian Phenotype (MP)enlarged lymph nodes0.000008259Highly InformativeDirect
Mammalian Phenotype (MP)increased T cell derived lymphoma incidence0.0002291Highly InformativeDirect
Mammalian Phenotype (MP)abnormal thymus development0.0002772Highly InformativeDirect
Mammalian Phenotype (MP)enlarged spleen0.0005947Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.001281Least InformativeInherited
Worm Phenotype (WP)cell development variant0.004564Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.007306Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant0.2001Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.2005Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations0.9253Least InformativeInherited
Worm Phenotype (WP)cell division variant0.002584Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.01537Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.0179Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.03505Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.06357Moderately InformativeInherited
Worm Phenotype (WP)germ cell differentiation variant0.2171Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant1Moderately InformativeInherited
Worm Phenotype (WP)cell number increased0.00000001324InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.0004175InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.01065InformativeInherited
Worm Phenotype (WP)RNA expression variant0.01726InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.02377InformativeInherited
Worm Phenotype (WP)P granule defective0.000000002251Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.0000000202Highly InformativeDirect
Worm Phenotype (WP)division axis defective0.00001301Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0001586Highly InformativeDirect
Worm Phenotype (WP)lineage variant0.01042Highly InformativeInherited
Worm Phenotype (WP)pharyngeal development variant0.01238Highly InformativeInherited
Worm Phenotype (WP)epithelial development variant0.02124Highly InformativeInherited
Worm Phenotype (WP)cell number decreased0.3247Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)head0Moderately InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.009634Least InformativeInherited
Xenopus ANatomical entity (XAN)animal hemisphere0.001781InformativeInherited
Xenopus ANatomical entity (XAN)animal pole0.00003489Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.06446Moderately InformativeInherited
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0InformativeDirect
Enzyme Commission (EC)RNA helicase0.0004016InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 CCCH zinc finger 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 CCCH zinc finger 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 · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]