SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 cancer0.03946Least InformativeInherited
Disease Ontology (DO)nervous system cancer0.0073Moderately InformativeInherited
Disease Ontology (DO)respiratory system cancer0.00722InformativeInherited
Disease Ontology (DO)retinal cell cancer0.000000004253Highly InformativeDirect
Disease Ontology (DO)laryngeal carcinoma0.000008047Highly 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 respiratory system0.004562Moderately InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.00004129Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0.03773Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.2351Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.2386Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.4886Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.8611Least InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.00264Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.002723Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.03456Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.04732Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.08489Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.1281Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.1368Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.1875Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.199Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2396Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.2646Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.2934Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.4992Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.5761Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.7626Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.7934Moderately InformativeInherited
Mammalian Phenotype (MP)increased carcinoma incidence0.003551InformativeInherited
Mammalian Phenotype (MP)abnormal metencephalon morphology0.005009InformativeInherited
Mammalian Phenotype (MP)abnormal prenatal growth/weight/body size0.01242InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.02003InformativeInherited
Mammalian Phenotype (MP)abnormal erythroid lineage cell morphology0.03065InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.04775InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.1303InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.2895InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.4641InformativeInherited
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/development0.0006163Highly InformativeDirect
Mammalian Phenotype (MP)increased urinary system tumor incidence0.0008015Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myeloid cell number0.007762Highly InformativeInherited
Mammalian Phenotype (MP)abnormal embryo size0.009377Highly InformativeInherited
Mammalian Phenotype (MP)abnormal retinal ganglion cell morphology0.01273Highly InformativeInherited
Mammalian Phenotype (MP)decreased sensory neuron number0.01762Highly InformativeInherited
Mammalian Phenotype (MP)abnormal fibroblast proliferation0.07763Highly 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 variant0.002092Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.1059Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.1888Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations1Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.00000489Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.0117Moderately InformativeInherited
Worm Phenotype (WP)cell division variant0.09188Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.09578Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.1184Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.1726Moderately InformativeInherited
Worm Phenotype (WP)pigmentation variant0.0001076InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0.0001976InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0005556InformativeDirect
Worm Phenotype (WP)protein modification variant0.09587InformativeInherited
Worm Phenotype (WP)gonad development variant0.1575InformativeInherited
Worm Phenotype (WP)cell number increased0.7288InformativeInherited
Worm Phenotype (WP)cell cycle variant0.0001696Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0001853Highly InformativeDirect
Worm Phenotype (WP)protein phosphorylation variant0.0003736Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.02991Highly InformativeInherited
Worm Phenotype (WP)pronucleus centrosomes defective early emb0.182Highly InformativeInherited
Worm Phenotype (WP)multiple nuclei0.9512Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)morphology0.0989Moderately InformativeInherited
Yeast Phenotype (YP)subcellular morphology0.0004619InformativeDirect
Yeast Phenotype (YP)budding0.02305Highly InformativeInherited

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)cell number defective0.0003557InformativeDirect
Fly Phenotype (FP)cell cycle defective0.0009901InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)germline cell0.08362InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.2461Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.4465Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.4545Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.06171Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.4943Moderately InformativeInherited
Zebrafish Anatomy (ZA)brain0.3173InformativeInherited
Zebrafish Anatomy (ZA)cranial nerve II0.0001952Highly 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

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 groups0.1113Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.00000106Moderately InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0000002922InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationCyclin0InformativeDirect

Document: KW 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) · UniProtKB KeyWords (KW) ]

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 26 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 26 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) · UniProtKB KeyWords (KW) · Internal database links ]