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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/aging0.00004183Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.03738Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.2352Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.2386Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4881Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.8602Least InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.002617Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.002705Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.03469Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.04733Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.08505Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.1283Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.1365Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.1858Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.1981Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2398Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.2636Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.2938Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.4997Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.5756Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.7618Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7938Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cerebellum morphology0.003443InformativeInherited
Mammalian Phenotype (MP)increased carcinoma incidence0.003534InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.01251InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.02InformativeInherited
Mammalian Phenotype (MP)abnormal erythroid lineage cell morphology0.03054InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.04768InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.1301InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.289InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.4633InformativeInherited
Mammalian Phenotype (MP)abnormal neuron number0.5647InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic stem cell morphology0.0003404Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone marrow cell morphology/development0.0006137Highly InformativeDirect
Mammalian Phenotype (MP)increased urinary system tumor incidence0.0008001Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myeloid cell number0.007735Highly InformativeInherited
Mammalian Phenotype (MP)abnormal embryo size0.009499Highly InformativeInherited
Mammalian Phenotype (MP)abnormal retinal ganglion cell morphology0.01284Highly InformativeInherited
Mammalian Phenotype (MP)decreased sensory neuron number0.0176Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.07768Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)blast cell physiology variant0.0002769Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0002784Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0.04526Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.124Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.1453Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0002015Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.0005539Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0005539Moderately InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.0005577Moderately InformativeDirect
Worm Phenotype (WP)adult body morphology variant0.0005614Moderately InformativeDirect
Worm Phenotype (WP)body morphology variant0.0006599Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.01212Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.02247Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.09525Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.1145Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.1819Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.2535Moderately InformativeInherited
Worm Phenotype (WP)pigmentation variant0.0001015InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0006673InformativeDirect
Worm Phenotype (WP)somatic gonad development variant0.000677InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.001802InformativeInherited
Worm Phenotype (WP)chromosome segregation variant0.005159InformativeInherited
Worm Phenotype (WP)protein modification variant0.09583InformativeInherited
Worm Phenotype (WP)cell number increased0.731InformativeInherited
Worm Phenotype (WP)protein metabolism variant0.8772InformativeInherited
Worm Phenotype (WP)nuclear number variant0.0000000535Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic appearance variant0.0002788Highly InformativeDirect
Worm Phenotype (WP)division axis defective0.0003598Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0003678Highly InformativeDirect
Worm Phenotype (WP)general pace of development defective early emb0.0006759Highly InformativeDirect
Worm Phenotype (WP)slow development0.0007455Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance number defective early emb0.00478Highly InformativeInherited
Worm Phenotype (WP)nucleus defective early emb0.00478Highly InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.00478Highly InformativeInherited
Worm Phenotype (WP)pronuclear morphology defective early emb0.00478Highly InformativeInherited
Worm Phenotype (WP)pronuclear nuclear appearance defective early emb0.005388Highly InformativeInherited
Worm Phenotype (WP)nuclear morphology variation early emb0.006246Highly 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 defective0.0009555InformativeDirect
Fly Phenotype (FP)mitotic cell cycle defective0.00005947Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)germline cell0.08523InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.334Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.3696Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.4122Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.01884Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.5752Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.136InformativeInherited
Zebrafish Anatomy (ZA)cranial nerve II0.0004282Highly 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)embryo0.009968Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.02617Least InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0.0005559Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.369Moderately InformativeInherited
Xenopus ANatomical entity (XAN)animal hemisphere0.002906InformativeInherited
Xenopus ANatomical entity (XAN)animal pole0.0003033Highly 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 groups0.6023Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.000000002275Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000234Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.0000001347InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0000066InformativeDirect

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 ]