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Cyclin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Cyclin-like [ 47953]
Superfamily:   Cyclin-like [ 47954] (3)
Families:   Cyclin [ 47955] (8)
  Transcription factor IIB (TFIIB), core domain [ 47965]
  Retinoblastoma tumor suppressor domains [ 47969]


Superfamily statistics
Genomes (726) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 26,119 74,787 69
Proteins 16,157 45,966 37


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.03966Least InformativeInherited
Disease Ontology (DO)nervous system cancer0.007359Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.007272InformativeInherited
Disease Ontology (DO)retinal cell cancer0.000000004342Highly InformativeDirect
Disease Ontology (DO)laryngeal carcinoma0.000008179Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the head0Least InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.00004163Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.03735Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.2351Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.239Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4879Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.8603Least InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.002616Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.002703Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.03468Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.04732Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.085Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.1282Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.137Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.1862Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.1985Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2399Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.2632Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.2938Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.5002Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.5757Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.762Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7943Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cerebellum morphology0.003444InformativeInherited
Mammalian Phenotype (MP)increased carcinoma incidence0.003535InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.01252InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.02InformativeInherited
Mammalian Phenotype (MP)abnormal erythroid lineage cell morphology0.03053InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.04767InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.1301InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.289InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.4644InformativeInherited
Mammalian Phenotype (MP)abnormal neuron number0.5639InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic stem cell morphology0.0003407Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone marrow cell morphology/development0.0006132Highly InformativeDirect
Mammalian Phenotype (MP)increased urinary system tumor incidence0.0007983Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myeloid cell number0.007732Highly InformativeInherited
Mammalian Phenotype (MP)abnormal embryo size0.009499Highly InformativeInherited
Mammalian Phenotype (MP)abnormal retinal ganglion cell morphology0.01274Highly InformativeInherited
Mammalian Phenotype (MP)decreased sensory neuron number0.01759Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.07772Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0009252Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.05837Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.06389Least InformativeInherited
Worm Phenotype (WP)general pace of development variant0.9514Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations1Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.00003604Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.01683Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.01689Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.09097Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.1318Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.2547Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.2988Moderately InformativeInherited
Worm Phenotype (WP)cell cycle variant0.3023Moderately InformativeInherited
Worm Phenotype (WP)pigmentation variant0.00001259InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0005337InformativeDirect
Worm Phenotype (WP)somatic gonad development variant0.0006953InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.02121InformativeInherited
Worm Phenotype (WP)protein modification variant0.05293InformativeInherited
Worm Phenotype (WP)cell number increased0.7242InformativeInherited
Worm Phenotype (WP)nuclear number variant0.000000057Highly InformativeDirect
Worm Phenotype (WP)embryonic cell morphology variant0.000008432Highly InformativeDirect
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00005001Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0001821Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0003861Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.001229Highly InformativeInherited
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.01897Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0.09924Moderately InformativeInherited
Yeast Phenotype (YP)subcellular morphology0.000461InformativeDirect
Yeast Phenotype (YP)budding0.02309Highly InformativeInherited

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)cell cycle defective0.0009522InformativeDirect
Fly Phenotype (FP)mitotic cell cycle defective0.00006199Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0.6986Least InformativeInherited
Fly Anatomy (FA)germline cell0.07933InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.3347Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.3709Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.6509Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.01875Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.5757Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.1388InformativeInherited
Zebrafish Anatomy (ZA)cranial nerve II0.0004155Highly InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)urogenital system0.009452Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.009607Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.02537Least InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0.0005022Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.3664Moderately InformativeInherited
Xenopus ANatomical entity (XAN)animal hemisphere0.002806InformativeInherited
Xenopus ANatomical entity (XAN)neural crest0.04484InformativeInherited
Xenopus ANatomical entity (XAN)animal pole0.0002899Highly 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)Transferring phosphorus-containing groups0.6034Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.000000002722Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.00002377Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.00000007176InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.000006743InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR011028 SSF47954 Protein matches
Abstract

This domain is also found as the core domain in transcription factor IIB (TFIIB) and in the retinoblastoma tumour suppressor.


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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · 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 29 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 Cyclin-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 29 hidden Markov models representing the Cyclin-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 · InterPro annotation · PDBeMotif links · Functional annotation · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]