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 (3,227) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 155,613 0 216
Proteins 153,502 0 192


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 process0.010250.0168Least InformativeInherited
Biological Process (BP)response to stimulus11.288e-11Least InformativeInherited
Biological Process (BP)regulation of cellular process10.07178Least 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 transport3.977e-080Moderately InformativeDirect
Biological Process (BP)organic substance transport0.10650.8587Moderately InformativeInherited
Biological Process (BP)signal transduction13.75e-14Moderately InformativeInherited
Biological Process (BP)single-organism biosynthetic process0.65590.02135Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.41870.0001029Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.49910.1098Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.52960.002566Moderately InformativeInherited
Biological Process (BP)organonitrogen compound biosynthetic process0.68310.0001067Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.68950.0006439Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.00048970.01458Moderately InformativeInherited
Biological Process (BP)transmembrane transport00InformativeDirect
Biological Process (BP)nitrogen compound transport0.0002694.352e-06InformativeDirect
Biological Process (BP)enzyme linked receptor protein signaling pathway0.008041InformativeInherited
Biological Process (BP)pyrimidine-containing compound metabolic process0.00065560.01066InformativeInherited
Biological Process (BP)vitamin metabolic process0.001210.01593InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.0036140.009818InformativeInherited
Biological Process (BP)metal ion transport0.77530.6694InformativeInherited
Biological Process (BP)anion transport0.3621InformativeInherited
Biological Process (BP)thiamine-containing compound metabolic process2.231e-076.553e-07Highly InformativeDirect
Biological Process (BP)pyrimidine-containing compound biosynthetic process1.036e-050.003412Highly InformativeInherited
Biological Process (BP)transition metal ion transport8.35e-090.1287Highly InformativeInherited
Biological Process (BP)inorganic anion transport0.62480.8601Highly InformativeInherited
Molecular Function (MF)hydrolase activity6.19e-114.227e-05Least 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 substances03.224e-12InformativeDirect
Molecular Function (MF)active transmembrane transporter activity01InformativeInherited
Molecular Function (MF)anion transmembrane transporter activity0.00033611InformativeInherited
Molecular Function (MF)amino acid transmembrane transporter activity8.055e-083.968e-08Highly InformativeDirect
Molecular Function (MF)ATPase activity, coupled to transmembrane movement of ions0.0023231Highly 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 system0.25691Moderately InformativeInherited
Cellular Component (CC)external encapsulating structure1.486e-151.223e-11InformativeDirect
Cellular Component (CC)endosome0.065910.339InformativeInherited
Cellular Component (CC)cell envelope00Highly InformativeDirect
Cellular Component (CC)periplasmic space00Highly InformativeDirect
Cellular Component (CC)external encapsulating structure part00Highly InformativeDirect
Cellular Component (CC)coated pit1.284e-072.5e-07Highly InformativeDirect
Cellular Component (CC)ATP-binding cassette (ABC) transporter complex1.597e-062.412e-08Highly InformativeDirect
Cellular Component (CC)recycling endosome0.0002012.263e-06Highly InformativeDirect
Cellular Component (CC)early endosome0.00086970.0007096Highly 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 1.288e-11 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.0168 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.0681 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.07178 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 0.0001029 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0001067 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0006439 Moderately Informative Direct
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) signal transduction 3.75e-14 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.8587 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 0.0238 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 0.09901 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3352 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 0.597 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.01458 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.1098 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.3232 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.07333 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.002027 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.01376 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.005306 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 0.02135 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.002566 Moderately Informative Inherited
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) nitrogen compound transport 4.352e-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) transmission of nerve impulse 0 Informative Direct
Biological Process (BP) response to organonitrogen compound 2.667e-10 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 4.233e-10 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 1.115e-08 Informative Direct
Biological Process (BP) regulation of ion transport 5.185e-06 Informative Direct
Biological Process (BP) negative regulation of signaling 8.603e-05 Informative Direct
Biological Process (BP) negative regulation of cell communication 9.694e-05 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0001115 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.0003226 Informative Direct
Biological Process (BP) regulation of secretion 0.0004118 Informative Direct
Biological Process (BP) regulation of cell development 0.01338 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.7675 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.1913 Informative Inherited
Biological Process (BP) metal ion transport 0.6694 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 0.007276 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.9058 Informative Inherited
Biological Process (BP) positive regulation of transport 0.02038 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.4192 Informative Inherited
Biological Process (BP) generation of neurons 0.9133 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 0.917 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.123 Informative Inherited
Biological Process (BP) pigment metabolic process 0.008532 Informative Inherited
Biological Process (BP) single-organism behavior 0.00404 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.7024 Informative Inherited
Biological Process (BP) central nervous system development 0.2214 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) response to other organism 0.9768 Informative Inherited
Biological Process (BP) defense response 0.273 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.379 Informative Inherited
Biological Process (BP) vitamin metabolic process 0.01593 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.009818 Informative Inherited
Biological Process (BP) pyrimidine-containing compound metabolic process 0.01066 Informative Inherited
Biological Process (BP) response to light stimulus 0.001113 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 0.04559 Informative Inherited
Biological Process (BP) thiamine-containing compound metabolic process 6.553e-07 Highly Informative Direct
Biological Process (BP) ion transmembrane transport 3.711e-06 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) regulation of amine transport 7.765e-12 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 1.197e-11 Highly Informative Direct
Biological Process (BP) adult behavior 3.613e-09 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 4.522e-09 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 5.37e-09 Highly Informative Direct
Biological Process (BP) amide transport 6.995e-09 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 7.666e-08 Highly Informative Direct
Biological Process (BP) positive regulation of ion transport 3.226e-07 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 7.725e-06 Highly Informative Direct
Biological Process (BP) learning or memory 1.811e-05 Highly Informative Direct
Biological Process (BP) heme metabolic process 4.853e-05 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0001776 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.0002592 Highly Informative Direct
Biological Process (BP) response to ethanol 0.0002809 Highly Informative Direct
Biological Process (BP) regulation of myeloid cell differentiation 0.0005369 Highly Informative Direct
Biological Process (BP) response to cold 0.0009987 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.3626 Highly Informative Inherited
Biological Process (BP) response to toxic substance 0.06396 Highly Informative Inherited
Biological Process (BP) skeletal system development 0.178 Highly Informative Inherited
Biological Process (BP) sensory perception 0.3253 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.01085 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.07335 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.4605 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.3453 Highly Informative Inherited
Biological Process (BP) response to UV 0.5188 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 0.002776 Highly Informative Inherited
Biological Process (BP) regulation of multi-organism process 0.0806 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.03994 Highly Informative Inherited
Biological Process (BP) response to fungus 0.009205 Highly Informative Inherited
Biological Process (BP) humoral immune response 0.001503 Highly Informative Inherited
Biological Process (BP) defense response to bacterium 0.005812 Highly Informative Inherited
Biological Process (BP) response to alkaloid 0.00905 Highly Informative Inherited
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.003412 Highly Informative Inherited
Biological Process (BP) transition metal ion transport 0.1287 Highly Informative Inherited
Biological Process (BP) inorganic anion transport 0.8601 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.00124 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.003091 Highly Informative Inherited
Biological Process (BP) innate immune response 0.1201 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.001233 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.01926 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 4.227e-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 1.761e-06 Moderately Informative Direct
Molecular Function (MF) lyase activity 0.02068 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 3.224e-12 Informative Direct
Molecular Function (MF) carboxylic acid binding 1.926e-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 9.475e-08 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 7.252e-07 Informative Direct
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.0001852 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0.0006656 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0.7235 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) transition metal ion binding 0.1903 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.03819 Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 3.968e-08 Highly Informative Direct
Molecular Function (MF) iron ion binding 1.227e-05 Highly Informative Direct
Molecular Function (MF) amino acid binding 0.000169 Highly Informative Direct
Molecular Function (MF) ion gated channel activity 0 Highly Informative Direct
Molecular Function (MF) calcium ion transmembrane transporter activity 1.952e-10 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 4.866e-07 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 0.00819 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 2.006e-09 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 3.927e-05 Moderately Informative Direct
Cellular Component (CC) endomembrane system 1 Moderately Informative Inherited
Cellular Component (CC) external encapsulating structure 1.223e-11 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 4.601e-08 Informative Direct
Cellular Component (CC) integral to membrane 0.0001728 Informative Direct
Cellular Component (CC) coated vesicle 0.0002168 Informative Direct
Cellular Component (CC) endosome 0.339 Informative Inherited
Cellular Component (CC) secretory granule 0.9953 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 2.5e-07 Highly Informative Direct
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 2.412e-08 Highly Informative Direct
Cellular Component (CC) recycling endosome 2.263e-06 Highly Informative Direct
Cellular Component (CC) early endosome 0.0007096 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) neuron spine 0 Highly Informative Direct
Cellular Component (CC) dendrite 0 Highly Informative Direct
Cellular Component (CC) cell body 5.001e-10 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 0.0003222 Highly Informative Direct
Cellular Component (CC) postsynaptic membrane 0.000524 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)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 disease0.0004808Least InformativeDirect
Disease Ontology (DO)disease of mental health5.269e-11Moderately InformativeDirect
Disease Ontology (DO)neurodegenerative disease0.1078Moderately InformativeInherited
Disease Ontology (DO)brain disease0.1635Moderately InformativeInherited
Disease Ontology (DO)schizophrenia3.53e-11InformativeDirect
Disease Ontology (DO)focal epilepsy0.01537InformativeInherited
Disease Ontology (DO)motor neuron disease0.0327InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy2.955e-06Highly InformativeDirect
Disease Ontology (DO)lateral sclerosis4.018e-06Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis2.708e-05Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.0003973Highly 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 phenotype0.0001664Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.05904Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.09637Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.0002683InformativeDirect
Mammalian Phenotype (MP)seizures0.0004521InformativeDirect
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.0005854InformativeDirect
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.003588InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.008791InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.2465InformativeInherited
Mammalian Phenotype (MP)abnormal fear/anxiety-related behavior6.775e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents9.998e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal exploration in a new environment0.0002316Highly InformativeDirect
Mammalian Phenotype (MP)abnormal aggression-related behavior0.1315Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic depression0.1497Highly 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 defective0.0005778InformativeDirect

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 stage0.06062Least InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage0.07103Least InformativeInherited
Xenopus DEvelopment stage (XDE)late tailbud stage0.1401InformativeInherited

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)Lyases0.0001093Least 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 transport3.232e-08Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processCell wall biogenesis/degradation1.348e-13InformativeDirect
Biological processAromatic hydrocarbons catabolism0.0007752InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processOsteogenesis4.485e-07Highly InformativeDirect
Biological processHeme biosynthesis0.0003976Highly InformativeDirect
Biological processAromatic amino acid biosynthesis1Highly InformativeInherited
Cellular componentMembrane7.849e-05Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane2.443e-05Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane0InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
Coding sequence diversityRNA editing2.133e-05Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionNucleotide-binding0.006804Least InformativeInherited
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionMagnesium4.212e-12Moderately InformativeDirect
Molecular functionATP-binding1.357e-10Moderately InformativeDirect
Molecular functionIron1Moderately InformativeInherited
Molecular functionMolybdenum1.654e-05InformativeDirect
Molecular functionIron transport0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationLyase1.231e-06Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0.0006344Least 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 biosynthesis0.1655Moderately InformativeInherited
UniPathway (UP)metabolic intermediate biosynthesis1Moderately InformativeInherited
UniPathway (UP)L-histidine biosynthesis0InformativeDirect
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)pigment biosynthesis8.98e-16InformativeDirect
UniPathway (UP)heterocycle biosynthesis1.451e-06InformativeDirect
UniPathway (UP)antibiotic biosynthesis0.408InformativeInherited
UniPathway (UP)aromatic amino-acid biosynthesis1InformativeInherited
UniPathway (UP)L-phenylalanine biosynthesis0Highly InformativeDirect
UniPathway (UP)prephenate biosynthesis2.462e-14Highly InformativeDirect
UniPathway (UP)bacilysin biosynthesis1.351e-05Highly 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 ]