SUPERFAMILY 1.75 HMM library and genome assignments server

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Periplasmic binding protein-like I superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Periplasmic binding protein-like I [ 53821]
Superfamily:   Periplasmic binding protein-like I [ 53822]
Families:   L-arabinose binding protein-like [ 53823] (16)


Superfamily statistics
Genomes (2,635) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 45,984 348,398 47
Proteins 45,374 346,251 47


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Guanylate cyclase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.00002637Least InformativeDirect
Disease Ontology (DO)disease of mental health0.0000000000986Moderately InformativeDirect
Disease Ontology (DO)brain disease0.01861Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease0.6529Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.00000000002395InformativeDirect
Disease Ontology (DO)motor neuron disease0.0002801InformativeDirect
Disease Ontology (DO)focal epilepsy0.009725InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.3543InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy0.0000000007755Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis0.0000001908Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.00004969Highly InformativeDirect
Disease Ontology (DO)autistic disorder0.0001624Highly 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 nervous system physiology0.2207Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.03792Moderately InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.09498Moderately InformativeInherited
Phenotypic Abnormality (PA)Epileptic encephalopathy0.000263InformativeDirect
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0.02661InformativeInherited
Phenotypic Abnormality (PA)Delayed speech and language development0.01579Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.00000002854Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.003734Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.0369Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0000002293InformativeDirect
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.0000464InformativeDirect
Mammalian Phenotype (MP)abnormal touch/ nociception0.0001573InformativeDirect
Mammalian Phenotype (MP)abnormal physiological response to xenobiotic0.0005483InformativeDirect
Mammalian Phenotype (MP)seizures0.0007685InformativeDirect
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.002028InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.1458InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.1735InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.1828InformativeInherited
Mammalian Phenotype (MP)decreased alcohol consumption0.0000455Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents0.0000615Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0001058Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.0006772Highly InformativeDirect
Mammalian Phenotype (MP)abnormal synaptic plasticity0.000989Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.009196Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic depression0.1121Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.00000002519Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0000003938Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.000018Moderately InformativeDirect
Worm Phenotype (WP)feeding behavior variant0.09071Moderately InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.1653Moderately InformativeInherited
Worm Phenotype (WP)electrophysiology variant0.00001794InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.00005528InformativeDirect
Worm Phenotype (WP)positive chemotaxis variant0.002361InformativeInherited
Worm Phenotype (WP)second messenger mediated signaling variant0.000000003051Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant0.000004166Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.00001064Highly InformativeDirect
Worm Phenotype (WP)alkaline pH chemotaxis variant0.00001456Highly InformativeDirect
Worm Phenotype (WP)social behavior variant0.0003127Highly InformativeDirect
Worm Phenotype (WP)response to food variant0.0008043Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.05065Highly InformativeInherited
Worm Phenotype (WP)pharyngeal pumping rate variant0.2526Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant1Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)neurophysiology defective0.0003738InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)nervous system0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)peripheral nervous system0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.034Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)tailbud stage0.3585InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0001281Highly 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)Lyases0Least InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · 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 120 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 Periplasmic binding protein-like I 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 120 hidden Markov models representing the Periplasmic binding protein-like I 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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]