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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 abnormality0Moderately 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)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 morphology0.1054Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.1088Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal protein level0.1485Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.1601Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.2533Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lymph node morphology0.0001969InformativeDirect
Mammalian Phenotype (MP)increased gland tumor incidence0.005623InformativeInherited
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.006011InformativeInherited
Mammalian Phenotype (MP)abnormal circulating cytokine level0.008611InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.009811InformativeInherited
Mammalian Phenotype (MP)abnormal lymph organ size0.009815InformativeInherited
Mammalian Phenotype (MP)abnormal spleen morphology0.01486InformativeInherited
Mammalian Phenotype (MP)enlarged lymph nodes0.000008255Highly InformativeDirect
Mammalian Phenotype (MP)increased T cell derived lymphoma incidence0.0002291Highly InformativeDirect
Mammalian Phenotype (MP)abnormal thymus development0.0002773Highly InformativeDirect
Mammalian Phenotype (MP)enlarged spleen0.0005992Highly 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 variant0.002641Least InformativeInherited
Worm Phenotype (WP)cell development variant0.004675Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.02396Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.2023Least InformativeInherited
Worm Phenotype (WP)general pace of development variant0.8868Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations0.9021Least InformativeInherited
Worm Phenotype (WP)cell division variant0.001817Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.01342Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.06581Moderately InformativeInherited
Worm Phenotype (WP)germ cell differentiation variant0.2823Moderately InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.9262Moderately InformativeInherited
Worm Phenotype (WP)cell number increased0.00000002495InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.0001559InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.01156InformativeInherited
Worm Phenotype (WP)RNA expression variant0.01508InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.02295InformativeInherited
Worm Phenotype (WP)P granule abnormal0.000000002435Highly InformativeDirect
Worm Phenotype (WP)ectopic expression transgene0.00000008372Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0001685Highly InformativeDirect
Worm Phenotype (WP)pharyngeal development variant0.01287Highly InformativeInherited
Worm Phenotype (WP)epithelial development variant0.02265Highly InformativeInherited
Worm Phenotype (WP)cell number decreased0.3293Highly 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)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)organism subdivision0Least 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)embryo0.00968Least InformativeInherited
Xenopus ANatomical entity (XAN)animal hemisphere0.001728InformativeInherited
Xenopus ANatomical entity (XAN)animal pole0.00003331Highly 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 anhydrides0.06486Moderately InformativeInherited
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0InformativeDirect
Enzyme Commission (EC)RNA helicase0.000405InformativeDirect

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 ]