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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 cancer0.03959Least InformativeInherited
Disease Ontology (DO)nervous system cancer0.007379Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.007198InformativeInherited
Disease Ontology (DO)retinal cell cancer0.000000004348Highly InformativeDirect
Disease Ontology (DO)laryngeal carcinoma0.000008186Highly InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.00004155Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.03749Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.2352Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.239Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4876Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.8607Least InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.002628Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.002716Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.03456Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.04716Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.08503Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.1283Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.1371Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.1869Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.1985Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2397Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.2639Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.2939Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.5003Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.5762Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.7628Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7944Moderately InformativeInherited
Mammalian Phenotype (MP)increased carcinoma incidence0.003549InformativeInherited
Mammalian Phenotype (MP)abnormal metencephalon morphology0.005002InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.01244InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.02InformativeInherited
Mammalian Phenotype (MP)abnormal erythroid lineage cell morphology0.03066InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.04771InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.1301InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.289InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.4639InformativeInherited
Mammalian Phenotype (MP)abnormal neuron number0.5635InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic stem cell morphology0.0003415Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone marrow cell morphology/development0.000615Highly InformativeDirect
Mammalian Phenotype (MP)increased urinary system tumor incidence0.0008007Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myeloid cell number0.007744Highly InformativeInherited
Mammalian Phenotype (MP)abnormal embryo size0.009449Highly InformativeInherited
Mammalian Phenotype (MP)abnormal retinal ganglion cell morphology0.01275Highly InformativeInherited
Mammalian Phenotype (MP)decreased sensory neuron number0.0176Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.07769Highly 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 variant0.0002186Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0002198Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.1134Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.1466Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations1Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0001721Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.01179Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.02222Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.09675Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.1099Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.1678Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.2538Moderately InformativeInherited
Worm Phenotype (WP)pigmentation variant0.00009403InformativeDirect
Worm Phenotype (WP)somatic gonad development variant0.0006247InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0006278InformativeDirect
Worm Phenotype (WP)nuclear appearance variant0.001593InformativeInherited
Worm Phenotype (WP)chromosome segregation variant0.005605InformativeInherited
Worm Phenotype (WP)protein modification variant0.09457InformativeInherited
Worm Phenotype (WP)cell number increased0.7258InformativeInherited
Worm Phenotype (WP)protein metabolism variant0.8893InformativeInherited
Worm Phenotype (WP)nuclear number variant0.00000005692Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0001826Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic appearance variant0.000299Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0003581Highly InformativeDirect
Worm Phenotype (WP)division axis defective0.0003763Highly InformativeDirect
Worm Phenotype (WP)nuclear appearance number defective early emb0.005232Highly InformativeInherited
Worm Phenotype (WP)nucleus defective early emb0.005232Highly InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.005232Highly InformativeInherited
Worm Phenotype (WP)pronuclear morphology defective early emb0.005232Highly InformativeInherited
Worm Phenotype (WP)pronuclear nuclear appearance defective early emb0.005893Highly InformativeInherited
Worm Phenotype (WP)nuclear morphology variation early emb0.00682Highly 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 defective0.0009423InformativeDirect
Fly Phenotype (FP)mitotic cell cycle defective0.00005842Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)germline cell0.08637InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.3186Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.3512Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.3872Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.01938Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.5468Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.1369InformativeInherited
Zebrafish Anatomy (ZA)cranial nerve II0.0003902Highly 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)embryo0.006307Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.01999Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.002927Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.3344Moderately InformativeInherited
Xenopus ANatomical entity (XAN)animal hemisphere0.003251InformativeInherited
Xenopus ANatomical entity (XAN)animal pole0.0003416Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural tube0.01769Highly InformativeInherited

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 groups0.000000002266Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.00002342Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.0000001354InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.000006606InformativeDirect

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) · 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) · 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 ]