SUPERFAMILY 1.75 HMM library and genome assignments server


Periplasmic binding protein-like II superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Periplasmic binding protein-like II [ 53849]
Superfamily:   Periplasmic binding protein-like II [ 53850] (3)
Families:   Phosphate binding protein-like [ 53851] (40)
  Transferrin [ 53888] (3)
  PG0945 N-terminal domain-like [ 159818]


Superfamily statistics
Genomes (3,192) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 154,644 416,105 216
Proteins 152,593 410,933 192


Functional annotation
General category Processes_IC
Detailed category Ion metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)localization00Least InformativeDirect
Biological Process (BP)single-organism cellular process0.0089920.004043Least InformativeInherited
Biological Process (BP)response to stimulus14.751e-10Least InformativeInherited
Biological Process (BP)regulation of cellular process10.06747Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)single-organism metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)ion transport2.172e-080Moderately InformativeDirect
Biological Process (BP)organic substance transport0.080020.7781Moderately InformativeInherited
Biological Process (BP)signal transduction12.036e-13Moderately InformativeInherited
Biological Process (BP)single-organism biosynthetic process0.69030.0281Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.4380.0003431Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.51620.1831Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.54890.006496Moderately InformativeInherited
Biological Process (BP)organonitrogen compound biosynthetic process0.70760.0003202Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.71360.001882Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.00065430.01852Moderately InformativeInherited
Biological Process (BP)transmembrane transport00InformativeDirect
Biological Process (BP)nitrogen compound transport0.00014981.898e-06InformativeDirect
Biological Process (BP)enzyme linked receptor protein signaling pathway0.0093421InformativeInherited
Biological Process (BP)pyrimidine-containing compound metabolic process0.00066010.01149InformativeInherited
Biological Process (BP)vitamin metabolic process0.0014110.01858InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0041620.01158InformativeInherited
Biological Process (BP)metal ion transport0.83820.6717InformativeInherited
Biological Process (BP)anion transport0.35681InformativeInherited
Biological Process (BP)thiamine-containing compound metabolic process2.304e-076.915e-07Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process8.983e-060.00261Highly InformativeInherited
Biological Process (BP)transition metal ion transport1.101e-080.1995Highly InformativeInherited
Biological Process (BP)inorganic anion transport0.66150.8882Highly InformativeInherited
Molecular Function (MF)hydrolase activity4.964e-114.242e-05Least InformativeDirect
Molecular Function (MF)transporter activity00Moderately InformativeDirect
Molecular Function (MF)nucleoside-triphosphatase activity00InformativeDirect
Molecular Function (MF)active transmembrane transporter activity00.9673InformativeInherited
Molecular Function (MF)anion transmembrane transporter activity0.00031141InformativeInherited
Molecular Function (MF)amino acid transmembrane transporter activity1.076e-086.175e-09Highly InformativeDirect
Molecular Function (MF)ATPase activity, coupled to transmembrane movement of ions0.0010091Highly InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)protein complex10Least InformativeInherited
Cellular Component (CC)membrane10Least InformativeInherited
Cellular Component (CC)endomembrane system0.24361Moderately InformativeInherited
Cellular Component (CC)external encapsulating structure2.666e-133e-09InformativeDirect
Cellular Component (CC)endosome0.069240.3537InformativeInherited
Cellular Component (CC)cell envelope00Highly InformativeDirect
Cellular Component (CC)periplasmic space00Highly InformativeDirect
Cellular Component (CC)external encapsulating structure part00Highly InformativeDirect
Cellular Component (CC)coated pit1.057e-072.517e-07Highly InformativeDirect
Cellular Component (CC)ATP-binding cassette (ABC) transporter complex8.533e-071.774e-07Highly InformativeDirect
Cellular Component (CC)recycling endosome0.00020242.336e-06Highly InformativeDirect
Cellular Component (CC)early endosome0.00090770.0007474Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) response to stimulus 4.751e-10 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.004043 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1143 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.06747 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0003431 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0003202 Moderately Informative Direct
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) signal transduction 2.036e-13 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.7781 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.02214 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1065 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3221 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.5433 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.01852 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.1831 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.5056 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.08676 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.001272 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.004981 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.01514 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.005675 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.0281 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.006496 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.001882 Moderately Informative Inherited
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) nitrogen compound transport 1.898e-06 Informative Direct
Biological Process (BP) regulation of system process 0 Informative Direct
Biological Process (BP) cell-cell signaling 0 Informative Direct
Biological Process (BP) cation homeostasis 0 Informative Direct
Biological Process (BP) transmission of nerve impulse 0 Informative Direct
Biological Process (BP) response to organonitrogen compound 3.874e-10 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 5.277e-10 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 1.439e-08 Informative Direct
Biological Process (BP) regulation of ion transport 4.433e-06 Informative Direct
Biological Process (BP) negative regulation of signaling 8.601e-05 Informative Direct
Biological Process (BP) negative regulation of cell communication 9.738e-05 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0001115 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.0004312 Informative Direct
Biological Process (BP) regulation of secretion 0.0004466 Informative Direct
Biological Process (BP) regulation of cell development 0.01325 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.7734 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.1827 Informative Inherited
Biological Process (BP) metal ion transport 0.6717 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.008081 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.8827 Informative Inherited
Biological Process (BP) positive regulation of transport 0.01709 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.417 Informative Inherited
Biological Process (BP) generation of neurons 0.9137 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) reproductive structure development 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.919 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) pigment metabolic process 0.02831 Informative Inherited
Biological Process (BP) single-organism behavior 0.004331 Informative Inherited
Biological Process (BP) positive regulation of cell proliferation 0.6899 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.6948 Informative Inherited
Biological Process (BP) central nervous system development 0.2201 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) defense response 0.2852 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) response to bacterium 0.09189 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.3189 Informative Inherited
Biological Process (BP) vitamin metabolic process 0.01858 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.01158 Informative Inherited
Biological Process (BP) pyrimidine-containing compound metabolic process 0.01149 Informative Inherited
Biological Process (BP) response to light stimulus 0.001335 Informative Inherited
Biological Process (BP) anion transport 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.04706 Informative Inherited
Biological Process (BP) thiamine-containing compound metabolic process 6.915e-07 Highly Informative Direct
Biological Process (BP) ion transmembrane transport 6.319e-07 Highly Informative Direct
Biological Process (BP) calcium ion transport 0 Highly Informative Direct
Biological Process (BP) response to acid 0 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 1.663e-11 Highly Informative Direct
Biological Process (BP) amide transport 2.749e-09 Highly Informative Direct
Biological Process (BP) adult behavior 2.966e-09 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 6.426e-09 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 7.273e-09 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 1.053e-07 Highly Informative Direct
Biological Process (BP) positive regulation of ion transport 4.109e-07 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 6.828e-06 Highly Informative Direct
Biological Process (BP) positive regulation of secretion 2.91e-05 Highly Informative Direct
Biological Process (BP) heme metabolic process 0.0001781 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0001827 Highly Informative Direct
Biological Process (BP) response to ethanol 0.0002574 Highly Informative Direct
Biological Process (BP) regulation of myeloid cell differentiation 0.0006848 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.0008173 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.3845 Highly Informative Inherited
Biological Process (BP) response to toxic substance 0.05088 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.1802 Highly Informative Inherited
Biological Process (BP) sensory perception 0.4973 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.01177 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.07348 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.4059 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.3468 Highly Informative Inherited
Biological Process (BP) response to UV 0.5545 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 0.003725 Highly Informative Inherited
Biological Process (BP) regulation of multi-organism process 0.08491 Highly Informative Inherited
Biological Process (BP) regulation of response to biotic stimulus 0.001078 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.04689 Highly Informative Inherited
Biological Process (BP) response to fungus 0.009975 Highly Informative Inherited
Biological Process (BP) humoral immune response 0.001673 Highly Informative Inherited
Biological Process (BP) defense response to bacterium 0.006477 Highly Informative Inherited
Biological Process (BP) response to alkaloid 0.008385 Highly Informative Inherited
Biological Process (BP) response to cold 0.001304 Highly Informative Inherited
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.00261 Highly Informative Inherited
Biological Process (BP) transition metal ion transport 0.1995 Highly Informative Inherited
Biological Process (BP) inorganic anion transport 0.8882 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.005791 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.003458 Highly Informative Inherited
Biological Process (BP) innate immune response 0.1179 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.0012 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.01416 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 4.242e-05 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) cation binding 1.799e-06 Moderately Informative Direct
Molecular Function (MF) lyase activity 0.03784 Moderately Informative Inherited
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 3.006e-10 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) hydro-lyase activity 2.958e-07 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 1.078e-06 Informative Direct
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.0009587 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0.8183 Informative Inherited
Molecular Function (MF) active transmembrane transporter activity 0.9673 Informative Inherited
Molecular Function (MF) anion transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) metal ion transmembrane transporter activity 0.001125 Informative Inherited
Molecular Function (MF) transition metal ion binding 0.2352 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.04287 Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 6.175e-09 Highly Informative Direct
Molecular Function (MF) iron ion binding 1.16e-05 Highly Informative Direct
Molecular Function (MF) amino acid binding 0.0001589 Highly Informative Direct
Molecular Function (MF) ion gated channel activity 0 Highly Informative Direct
Molecular Function (MF) ion channel activity 0 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 6.504e-07 Highly Informative Direct
Molecular Function (MF) ATPase activity, coupled to transmembrane movement of ions 1 Highly Informative Inherited
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) protein complex 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.7938 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) vesicle 1.942e-11 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1.165e-05 Moderately Informative Direct
Cellular Component (CC) endomembrane system 1 Moderately Informative Inherited
Cellular Component (CC) external encapsulating structure 3e-09 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 0 Informative Direct
Cellular Component (CC) synapse part 0 Informative Direct
Cellular Component (CC) neuron projection 3.991e-07 Informative Direct
Cellular Component (CC) integral to membrane 0.0002083 Informative Direct
Cellular Component (CC) coated vesicle 0.0002201 Informative Direct
Cellular Component (CC) endosome 0.3537 Informative Inherited
Cellular Component (CC) secretory granule 1 Informative Inherited
Cellular Component (CC) cell envelope 0 Highly Informative Direct
Cellular Component (CC) periplasmic space 0 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 0 Highly Informative Direct
Cellular Component (CC) coated pit 2.517e-07 Highly Informative Direct
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 1.774e-07 Highly Informative Direct
Cellular Component (CC) recycling endosome 2.336e-06 Highly Informative Direct
Cellular Component (CC) early endosome 0.0007474 Highly Informative Direct
Cellular Component (CC) receptor complex 0 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 0 Highly Informative Direct
Cellular Component (CC) ion channel complex 0 Highly Informative Direct
Cellular Component (CC) synaptic membrane 0 Highly Informative Direct
Cellular Component (CC) neuron spine 0 Highly Informative Direct
Cellular Component (CC) dendrite 0 Highly Informative Direct
Cellular Component (CC) cell body 5.63e-10 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 0.0002752 Highly Informative Direct
Cellular Component (CC) axon part 0.01404 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases8.606e-05Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)Acting on polysaccharides0InformativeDirect
Enzyme Commission (EC)Transferring other groups0.258InformativeInherited
Enzyme Commission (EC)Chorismate mutase0Highly InformativeDirect
Enzyme Commission (EC)Prephenate dehydratase0Highly 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 disease0.000506Least InformativeDirect
Disease Ontology (DO)disease of mental health5.286e-11Moderately InformativeDirect
Disease Ontology (DO)neurodegenerative disease0.0995Moderately InformativeInherited
Disease Ontology (DO)brain disease0.1779Moderately InformativeInherited
Disease Ontology (DO)schizophrenia3.539e-11InformativeDirect
Disease Ontology (DO)focal epilepsy0.01543InformativeInherited
Disease Ontology (DO)motor neuron disease0.03288InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy2.959e-06Highly InformativeDirect
Disease Ontology (DO)lateral sclerosis4.022e-06Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis2.708e-05Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.0003974Highly InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.000154Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.006598Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.09667Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission3.805e-11InformativeDirect
Mammalian Phenotype (MP)abnormal touch/ nociception0.0002732InformativeDirect
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.0005759InformativeDirect
Mammalian Phenotype (MP)seizures0.0007257InformativeDirect
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.003287InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.008789InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.2448InformativeInherited
Mammalian Phenotype (MP)abnormal fear/anxiety-related behavior5.47e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents1.232e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal locomotor activation9.754e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal aggression-related behavior0.1381Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic depression0.1468Highly 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 variant0.007523Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.2766Least InformativeInherited
Worm Phenotype (WP)chemical response variant7.082e-05Moderately InformativeDirect
Worm Phenotype (WP)chemotaxis variant9.732e-08InformativeDirect
Worm Phenotype (WP)lipid metabolism variant3.33e-05InformativeDirect
Worm Phenotype (WP)organism stress response variant0.02137InformativeInherited
Worm Phenotype (WP)organism starvation response variant1.071e-08Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant2.733e-08Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective8.806e-08Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant6.058e-05Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)neurophysiology defective0.0005941InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.06079Least InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage0.07047Least InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.1408InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0006232Highly 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)Lyases0.0003203Least InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Isomerases1Moderately InformativeInherited
Enzyme Commission (EC)Pentosyltransferases0InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)Intramolecular transferases (mutases)1InformativeInherited
Enzyme Commission (EC)Acting on polysaccharides0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processIon transport5.938e-08Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processCell wall biogenesis/degradation1.91e-13InformativeDirect
Biological processAromatic hydrocarbons catabolism0.0008459InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processOsteogenesis4.72e-07Highly InformativeDirect
Biological processHeme biosynthesis2.022e-05Highly InformativeDirect
Biological processSugar transport0.0009132Highly InformativeDirect
Biological processAromatic amino acid biosynthesis1Highly InformativeInherited
Cellular componentMembrane4.866e-05Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane1.121e-05Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane0InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
Coding sequence diversityRNA editing2.224e-05Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding0.0152Least InformativeInherited
Molecular functionMagnesium7.161e-13Moderately InformativeDirect
Molecular functionIron1Moderately InformativeInherited
Molecular functionMolybdenum1.799e-05InformativeDirect
Molecular functionIron transport0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationLyase1.061e-06Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0.0006049Least InformativeDirect
Post-translational modificationPalmitate0Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism0Least InformativeDirect
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)aromatic compound metabolism1Least InformativeInherited
UniPathway (UP)heterocycle metabolism0Moderately InformativeDirect
UniPathway (UP)macrocycle metabolism0Moderately InformativeDirect
UniPathway (UP)antibiotic biosynthesis0.01144Moderately InformativeInherited
UniPathway (UP)aromatic compound biosynthesis0.2588Moderately InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis1Moderately InformativeInherited
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)aromatic amino-acid biosynthesis2.76e-11InformativeDirect
UniPathway (UP)L-phenylalanine biosynthesis9.36e-13Highly InformativeDirect
UniPathway (UP)bacilysin biosynthesis1.132e-06Highly InformativeDirect

Document: UP annotation of SCOP domains

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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 83 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 II 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 83 hidden Markov models representing the Periplasmic binding protein-like II 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]