SUPERFAMILY 1.75 HMM library and genome assignments server

gamma-Crystallin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   gamma-Crystallin-like [ 49694]
Superfamily:   gamma-Crystallin-like [ 49695] (6)
Families:   Crystallins/Ca-binding development proteins [ 49696] (4)
  Yeast killer toxin [ 49710]
  Streptomyces metalloproteinase inhibitor, SMPI [ 49713]
  Killer toxin-like protein SKLP [ 49716]
  Antifungal protein AFP1 [ 63693]
  Plant antimicrobial protein MIAMP1 [ 49719]


Superfamily statistics
Genomes (257) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,579 3,570 29
Proteins 2,029 2,836 28


Functional annotation
General category General
Detailed category Structural protein

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.001728 Least Informative Inherited
Biological Process (BP) developmental process 0.03483 Least Informative Inherited
Biological Process (BP) organ development 0.0000002842 Moderately Informative Direct
Biological Process (BP) tissue development 0.9505 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) system process 0.2335 Moderately Informative Inherited
Biological Process (BP) sensory organ development 0 Informative Direct
Biological Process (BP) epithelium development 0.02258 Informative Inherited
Biological Process (BP) sensory perception 0.0000001267 Highly Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.00005922Least InformativeDirect
Disease Ontology (DO)sensory system disease0.000000008699Moderately InformativeDirect
Disease Ontology (DO)eye disease0.000000002364InformativeDirect

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 globe0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the lens0InformativeDirect
Phenotypic Abnormality (PA)Cataract0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal eye morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0InformativeDirect
Mammalian Phenotype (MP)abnormal eye development0.3403InformativeInherited
Mammalian Phenotype (MP)abnormal lens morphology0Highly InformativeDirect
Mammalian Phenotype (MP)microphthalmia0.0000008657Highly InformativeDirect

Document: MP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0.8226Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.1582Moderately InformativeInherited
Xenopus ANatomical entity (XAN)visual system0.4153Moderately InformativeInherited
Xenopus ANatomical entity (XAN)lens0.0000001205Highly InformativeDirect
Xenopus DEvelopment stage (XDE)embryonic stage0Least InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage0Least InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 250.0002446Highly InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
DiseaseCataract0Highly InformativeDirect
DomainRepeat0Least InformativeDirect
Post-translational modificationEye lens protein0Highly InformativeDirect
Post-translational modificationAcetylation0.0000000002676Least InformativeDirect
Post-translational modificationMethylation0.0000006529Moderately InformativeDirect
Post-translational modificationOxidation0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011024 SSF49695 Protein matches
Abstract

This family contains proteins which have a Greek key motif [PubMed8506258]. They are all structurally related to the beta/gamma crystallin superfamily. This family of proteins includes:

  • Beta and gamma crystallins
  • Yeast killer toxin
  • Killer toxin-like protein SKLP
  • Antifungal protein, AFP1
  • Plant antimicrobial protein, MIAMP1
  • Streptomyces metalloproteinase inhibitor, SMPI [PubMed9735297].

Note: SMPI belongs to MEROPS inhibitor I36, clan IU. It inhibits members of the thermolysin family, MEROPS peptidase family M4, [PubMed14705960].


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 · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Xenopus Anatomy (XA) · 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 25 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 gamma-Crystallin-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 25 hidden Markov models representing the gamma-Crystallin-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 · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]