SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


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 (3,233) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 155,580 947,354 216
Proteins 153,445 934,715 192


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 process0.015030.06615Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)single-organism metabolic 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 transport0.0000000081090Moderately InformativeDirect
Biological Process (BP)organic substance transport0.13740.7663Moderately InformativeInherited
Biological Process (BP)single-organism biosynthetic process0.72950.01415Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.49450.0000547Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.58810.1443Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.6090.002539Moderately InformativeInherited
Biological Process (BP)organonitrogen compound biosynthetic process0.75660.00007099Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.7640.0004001Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.00085470.02331Moderately InformativeInherited
Biological Process (BP)transmembrane transport00InformativeDirect
Biological Process (BP)nitrogen compound transport0.00036350.000002422InformativeDirect
Biological Process (BP)pyrimidine-containing compound metabolic process0.00087840.01404InformativeInherited
Biological Process (BP)vitamin metabolic process0.0017170.02152InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0052460.01447InformativeInherited
Biological Process (BP)metal ion transport0.77440.5015InformativeInherited
Biological Process (BP)anion transport0.2891InformativeInherited
Biological Process (BP)thiamine-containing compound metabolic process0.0000002660.000000807Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process0.000014320.004762Highly InformativeInherited
Biological Process (BP)transition metal ion transport0.000000011480.1478Highly InformativeInherited
Biological Process (BP)inorganic anion transport0.41420.6569Highly InformativeInherited
Molecular Function (MF)hydrolase activity0.00000000029090.0001604Least InformativeDirect
Molecular Function (MF)transporter activity00Moderately InformativeDirect
Molecular Function (MF)nucleoside-triphosphatase activity00InformativeDirect
Molecular Function (MF)hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances00.000000000001197InformativeDirect
Molecular Function (MF)active transmembrane transporter activity01InformativeInherited
Molecular Function (MF)anion transmembrane transporter activity0.00032611InformativeInherited
Molecular Function (MF)amino acid transmembrane transporter activity0.000000094760.00000005447Highly InformativeDirect
Molecular Function (MF)ATPase activity, coupled to transmembrane movement of ions0.0022691Highly 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 system0.32081Moderately InformativeInherited
Cellular Component (CC)external encapsulating structure0.0000000000000095510.0000000004772InformativeDirect
Cellular Component (CC)endosome0.079580.4007InformativeInherited
Cellular Component (CC)cell envelope00Highly InformativeDirect
Cellular Component (CC)external encapsulating structure part00Highly InformativeDirect
Cellular Component (CC)ATP-binding cassette (ABC) transporter complex0.0000018250.00000002441Highly 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 0.0000000002453 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.06615 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.1459 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.001982 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 0.0000547 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.00007099 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0004001 Moderately Informative Direct
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) signal transduction 0.00000000000001778 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.7663 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) regulation of biological quality 0.006977 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) multi-organism process 0.08574 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.0958 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) 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 0.7044 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.02331 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.1443 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.4003 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.04056 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.002186 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.008075 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.02576 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.01202 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.01415 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.002539 Moderately Informative Inherited
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) nitrogen compound transport 0.000002422 Informative Direct
Biological Process (BP) regulation of system process 0 Informative Direct
Biological Process (BP) cation homeostasis 0 Informative Direct
Biological Process (BP) synaptic transmission 0 Informative Direct
Biological Process (BP) response to organonitrogen compound 0.00000000102 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.000000001501 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 0.0000000329 Informative Direct
Biological Process (BP) negative regulation of signaling 0.0000004339 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0000005077 Informative Direct
Biological Process (BP) regulation of ion transport 0.00000561 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.00003493 Informative Direct
Biological Process (BP) regulation of secretion 0.000522 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.0007527 Informative Direct
Biological Process (BP) regulation of cell development 0.02409 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.8484 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.1619 Informative Inherited
Biological Process (BP) metal ion transport 0.5015 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.07632 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.01263 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.9504 Informative Inherited
Biological Process (BP) positive regulation of transport 0.03032 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.4976 Informative Inherited
Biological Process (BP) generation of neurons 0.9771 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) reproductive system development 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.9629 Informative Inherited
Biological Process (BP) pigment metabolic process 0.01035 Informative Inherited
Biological Process (BP) single-organism behavior 0.004463 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.844 Informative Inherited
Biological Process (BP) central nervous system development 0.291 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) defense response 0.3642 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) response to bacterium 0.1478 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.3608 Informative Inherited
Biological Process (BP) vitamin metabolic process 0.02152 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.01447 Informative Inherited
Biological Process (BP) pyrimidine-containing compound metabolic process 0.01404 Informative Inherited
Biological Process (BP) response to light stimulus 0.001851 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) anion transport 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.05256 Informative Inherited
Biological Process (BP) thiamine-containing compound metabolic process 0.000000807 Highly Informative Direct
Biological Process (BP) calcium ion transport 0 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0 Highly Informative Direct
Biological Process (BP) response to amino acid stimulus 0 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0 Highly Informative Direct
Biological Process (BP) regulation of amine transport 0.000000000005497 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 0.0000000003563 Highly Informative Direct
Biological Process (BP) amide transport 0.000000002203 Highly Informative Direct
Biological Process (BP) adult behavior 0.00000000321 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 0.00000001027 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.00000007912 Highly Informative Direct
Biological Process (BP) positive regulation of ion transport 0.0000003605 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 0.000001664 Highly Informative Direct
Biological Process (BP) learning or memory 0.00002039 Highly Informative Direct
Biological Process (BP) heme metabolic process 0.00004474 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.0001829 Highly Informative Direct
Biological Process (BP) telencephalon development 0.000287 Highly Informative Direct
Biological Process (BP) regulation of myeloid cell differentiation 0.0007015 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.4353 Highly Informative Inherited
Biological Process (BP) response to toxic substance 0.0732 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.2117 Highly Informative Inherited
Biological Process (BP) sensory perception 0.2946 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.01558 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.07013 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.5067 Highly Informative Inherited
Biological Process (BP) response to alcohol 0.006246 Highly Informative Inherited
Biological Process (BP) response to UV 0.5095 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 0.001043 Highly Informative Inherited
Biological Process (BP) regulation of multi-organism process 0.09013 Highly Informative Inherited
Biological Process (BP) response to fungus 0.003146 Highly Informative Inherited
Biological Process (BP) humoral immune response 0.001885 Highly Informative Inherited
Biological Process (BP) defense response to bacterium 0.00943 Highly Informative Inherited
Biological Process (BP) response to alkaloid 0.01033 Highly Informative Inherited
Biological Process (BP) response to cold 0.001322 Highly Informative Inherited
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.004762 Highly Informative Inherited
Biological Process (BP) transition metal ion transport 0.1478 Highly Informative Inherited
Biological Process (BP) inorganic anion transport 0.6569 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.001503 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.003845 Highly Informative Inherited
Biological Process (BP) innate immune response 0.1514 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.002662 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.02221 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.0001604 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) cation binding 0.00002891 Moderately Informative Direct
Molecular Function (MF) lyase activity 0.01491 Moderately Informative Inherited
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0.000000000001197 Informative Direct
Molecular Function (MF) carboxylic acid binding 0.000000000008918 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 0.00000003062 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0.0000004371 Informative Direct
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.00033 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0.0006906 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0.7275 Informative Inherited
Molecular Function (MF) active transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) anion transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.02434 Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 0.00000005447 Highly Informative Direct
Molecular Function (MF) amino acid binding 0.00005452 Highly Informative Direct
Molecular Function (MF) iron ion binding 0.00001697 Highly Informative Direct
Molecular Function (MF) ion gated channel activity 0 Highly Informative Direct
Molecular Function (MF) calcium ion transmembrane transporter activity 0.0000000001802 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 0.00000009266 Highly Informative Direct
Molecular Function (MF) ATPase activity, coupled to transmembrane movement of ions 1 Highly Informative Inherited
Molecular Function (MF) protein domain specific binding 0.01117 Highly Informative Inherited
Molecular Function (MF) cation channel activity 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 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) vesicle 0.00000002879 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 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.0001007 Moderately Informative Direct
Cellular Component (CC) endomembrane system 1 Moderately Informative Inherited
Cellular Component (CC) external encapsulating structure 0.0000000004772 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 0.00000006491 Informative Direct
Cellular Component (CC) integral to membrane 0.0001703 Informative Direct
Cellular Component (CC) coated vesicle 0.0002865 Informative Direct
Cellular Component (CC) endosome 0.4007 Informative Inherited
Cellular Component (CC) secretory granule 0.9973 Informative Inherited
Cellular Component (CC) cell envelope 0 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 0 Highly Informative Direct
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 0.00000002441 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) dendrite 0 Highly Informative Direct
Cellular Component (CC) cell body 0.000000001224 Highly Informative Direct
Cellular Component (CC) postsynaptic membrane 0.0001579 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 0.0003658 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.00008606Least 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 disease0.0002858Least InformativeDirect
Disease Ontology (DO)disease of mental health0.00000000006428Moderately InformativeDirect
Disease Ontology (DO)neurodegenerative disease0.1167Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.00000000003927InformativeDirect
Disease Ontology (DO)motor neuron disease0.0314InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy0.000003077Highly InformativeDirect
Disease Ontology (DO)lateral sclerosis0.000003935Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis0.00002663Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.0004002Highly 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 phenotype0.0001743Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.05854Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.09697Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.000248InformativeDirect
Mammalian Phenotype (MP)seizures0.0004942InformativeDirect
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.0005838InformativeDirect
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.003924InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.009123InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.249InformativeInherited
Mammalian Phenotype (MP)abnormal fear/anxiety-related behavior0.0000007777Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents0.0000009134Highly InformativeDirect
Mammalian Phenotype (MP)abnormal exploration in a new environment0.0002271Highly InformativeDirect
Mammalian Phenotype (MP)abnormal aggression-related behavior0.1339Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic depression0.1426Highly 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 variant0.00007082Moderately InformativeDirect
Worm Phenotype (WP)chemotaxis variant0.00000009732InformativeDirect
Worm Phenotype (WP)lipid metabolism variant0.0000333InformativeDirect
Worm Phenotype (WP)organism stress response variant0.02137InformativeInherited
Worm Phenotype (WP)organism starvation response variant0.00000001071Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.00000002733Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.00000008806Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.00006058Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)neurophysiology defective0.0001876InformativeDirect

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 stage0.06086Least InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage0.07125Least InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.1403InformativeInherited

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)Lyases0.0001215Least 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 transport0.0000000682Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processCell wall biogenesis/degradation0.0000000000001794InformativeDirect
Biological processAromatic hydrocarbons catabolism0.0008371InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processOsteogenesis0.0000004583Highly InformativeDirect
Biological processHeme biosynthesis0.0004145Highly InformativeDirect
Biological processSugar transport0.000907Highly InformativeDirect
Biological processAromatic amino acid biosynthesis1Highly InformativeInherited
Cellular componentMembrane0.00004705Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0.00001477Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane0InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
Coding sequence diversityRNA editing0.00002103Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding0.008962Least InformativeInherited
Molecular functionMagnesium0.00000000006245Moderately InformativeDirect
Molecular functionATP-binding0.0000000002511Moderately InformativeDirect
Molecular functionIron1Moderately InformativeInherited
Molecular functionMolybdenum0.00001716InformativeDirect
Molecular functionIron transport0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationLyase0.000001831Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0.0007993Least 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 metabolism0Least InformativeDirect
UniPathway (UP)aromatic compound metabolism1Least InformativeInherited
UniPathway (UP)proteinogenic amino-acid biosynthesis0Moderately InformativeDirect
UniPathway (UP)porphyrin-containing compound metabolism0Moderately InformativeDirect
UniPathway (UP)macrocycle metabolism0Moderately InformativeDirect
UniPathway (UP)aromatic compound biosynthesis0.1681Moderately InformativeInherited
UniPathway (UP)metabolic intermediate biosynthesis1Moderately InformativeInherited
UniPathway (UP)L-histidine biosynthesis0InformativeDirect
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)pigment biosynthesis8.993e-16InformativeDirect
UniPathway (UP)heterocycle biosynthesis0.000001384InformativeDirect
UniPathway (UP)antibiotic biosynthesis0.4332InformativeInherited
UniPathway (UP)aromatic amino-acid biosynthesis1InformativeInherited
UniPathway (UP)L-phenylalanine biosynthesis0Highly InformativeDirect
UniPathway (UP)prephenate biosynthesis0.00000000000004967Highly InformativeDirect
UniPathway (UP)bacilysin biosynthesis0.00001348Highly InformativeDirect

Document: UP annotation of SCOP domains

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

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 ]