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PYP-like sensor domain (PAS domain) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Profilin-like [ 55769] (10)
Superfamily:   PYP-like sensor domain (PAS domain) [ 55785] (7)
Families:   PYP-like [ 55786] (2)
  Heme-binding PAS domain [ 55789] (2)
  Flavin-binding PAS domain [ 88853] (3)
  N-terminal PAS domain of Pas kinase [ 82764]
  Hypoxia-inducible factor Hif2a, C-terminal domain [ 103184]
  PAS domain of steroid receptor coactivator 1A, NCo-A1 [ 103187]
  BphP N-terminal domain-like [ 160669] (3)


Superfamily statistics
Genomes (2,789) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 71,199 577,810 30
Proteins 45,948 381,012 30


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0.4681Least InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0.0000000376Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.000007319Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.7839Moderately InformativeInherited
Enzyme Commission (EC)Protein-histidine kinases0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)3',5'-cyclic-nucleotide phosphodiesterase0.0001609Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cardiovascular system phenotype0.1236Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.1886Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.6411Least InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.00001901Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal blood vessel morphology0.06148Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.1204Moderately InformativeInherited
Mammalian Phenotype (MP)reproductive system phenotype0.1921Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.2001Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.5062Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0007155InformativeDirect
Mammalian Phenotype (MP)abnormal female reproductive system physiology0.000824InformativeDirect
Mammalian Phenotype (MP)abnormal heartbeat0.009138InformativeInherited
Mammalian Phenotype (MP)abnormal angiogenesis0.04538InformativeInherited
Mammalian Phenotype (MP)abnormal circulating leptin level0.1031InformativeInherited
Mammalian Phenotype (MP)decreased heart rate0.0002508Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circadian rhythm0.000349Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating estradiol level0.0005878Highly InformativeDirect
Mammalian Phenotype (MP)abnormal catecholamine level0.00171Highly InformativeInherited
Mammalian Phenotype (MP)abnormal osteoblast cell number0.002862Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organ system morphology variant0.000005254Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0003291Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.001397Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.008597Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.03973Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.0009695Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.01739Moderately InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.2374Moderately InformativeInherited
Worm Phenotype (WP)egg laying variant0.00001729InformativeDirect
Worm Phenotype (WP)oxygen response variant0.0001384InformativeDirect
Worm Phenotype (WP)transgene expression reduced0.0003175InformativeDirect
Worm Phenotype (WP)body length variant0.003865InformativeInherited
Worm Phenotype (WP)body width variant0.005071InformativeInherited
Worm Phenotype (WP)epithelial system development variant0.1979InformativeInherited
Worm Phenotype (WP)carbon dioxide avoidance variant0.000001232Highly InformativeDirect
Worm Phenotype (WP)neuronal cell fate specification variant0.00000361Highly InformativeDirect
Worm Phenotype (WP)gene expression level reduced0.00001445Highly InformativeDirect
Worm Phenotype (WP)dumpy0.0002125Highly InformativeDirect
Worm Phenotype (WP)exploded through vulva0.0004628Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)behavior defective0.03101Moderately InformativeInherited
Fly Phenotype (FP)circadian rhythm defective0.001505InformativeInherited
Fly Phenotype (FP)sleep defective0.000024Highly InformativeDirect
Fly Phenotype (FP)circadian behavior defective0.004755Highly InformativeInherited

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)trunk0.06586Least InformativeInherited
Xenopus ANatomical entity (XAN)nervous system0.1283Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.1488Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.406Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.4363Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.9589Least InformativeInherited
Xenopus ANatomical entity (XAN)sensory system0.00059Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.4366Moderately InformativeInherited
Xenopus ANatomical entity (XAN)spinal cord0.00001921InformativeDirect
Xenopus ANatomical entity (XAN)eye0.00009259InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.0009507InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.1751InformativeInherited
Xenopus ANatomical entity (XAN)skeletal muscle0.9033InformativeInherited
Xenopus ANatomical entity (XAN)tail0.9588InformativeInherited
Xenopus ANatomical entity (XAN)trunk musculature0.000006412Highly InformativeDirect
Xenopus ANatomical entity (XAN)otic vesicle0.0006866Highly 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 groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases0.8354Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.9753Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0.0000000002235InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0000013InformativeDirect
Enzyme Commission (EC)Protein-histidine kinases0Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · 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 16 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 PYP-like sensor domain (PAS domain) 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 16 hidden Markov models representing the PYP-like sensor domain (PAS domain) 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 · Functional annotation · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]