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 (2,468) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 117,487 416,105 216
Proteins 115,831 410,933 192


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)response to stimulus17.353e-07Least InformativeInherited
Biological Process (BP)regulation of cellular process10.1714Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process10.908Least 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 transport00Moderately InformativeDirect
Biological Process (BP)signal transduction16.819e-08Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.46024.643e-09Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.60940.001384Moderately InformativeInherited
Biological Process (BP)cellular nitrogen compound biosynthetic process0.65260.22Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.7583.092e-07Moderately InformativeInherited
Biological Process (BP)organonitrogen compound biosynthetic process0.80483.936e-08Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process0.76911.532e-05Moderately InformativeInherited
Biological Process (BP)organic substance transport0.33860.5311Moderately InformativeInherited
Biological Process (BP)enzyme linked receptor protein signaling pathway0.013391InformativeInherited
Biological Process (BP)nitrogen compound transport0.011111.758e-06InformativeInherited
Biological Process (BP)pyrimidine-containing compound metabolic process0.00044560.01206InformativeInherited
Biological Process (BP)vitamin metabolic process0.0016620.01906InformativeInherited
Biological Process (BP)sulfur compound biosynthetic process0.006860.04002InformativeInherited
Biological Process (BP)metal ion transport0.6210.165InformativeInherited
Biological Process (BP)anion transport0.29581InformativeInherited
Biological Process (BP)pyrimidine-containing compound biosynthetic process1.776e-050.01244Highly InformativeInherited
Biological Process (BP)transition metal ion transport2.46e-090.33Highly InformativeInherited
Biological Process (BP)inorganic anion transport0.36720.5501Highly InformativeInherited
Molecular Function (MF)hydrolase activity4.789e-116.785e-05Least InformativeDirect
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)transporter activity00Moderately InformativeDirect
Molecular Function (MF)cation binding0.76640.000898Moderately InformativeInherited
Molecular Function (MF)nucleoside-triphosphatase activity00InformativeDirect
Molecular Function (MF)active transmembrane transporter activity1.24e-141InformativeInherited
Molecular Function (MF)anion transmembrane transporter activity0.0049131InformativeInherited
Molecular Function (MF)transition metal ion binding0.17730.2141InformativeInherited
Molecular Function (MF)amino acid transmembrane transporter activity2.209e-081.646e-08Highly InformativeDirect
Molecular Function (MF)iron ion binding0.00024064.547e-06Highly InformativeDirect
Molecular Function (MF)ATPase activity, coupled to transmembrane movement of ions0.0034351Highly InformativeInherited
Molecular Function (MF)amine transmembrane transporter activity0.00081090.01633Highly InformativeInherited
Molecular Function (MF)macromolecule transmembrane transporter activity0.0017060.2841Highly 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 system0.36770.7366Moderately InformativeInherited
Cellular Component (CC)external encapsulating structure7.876e-124.981e-06InformativeDirect
Cellular Component (CC)endosome0.046810.3373InformativeInherited
Cellular Component (CC)cell envelope00Highly InformativeDirect
Cellular Component (CC)periplasmic space00Highly InformativeDirect
Cellular Component (CC)external encapsulating structure part03.129e-15Highly InformativeDirect
Cellular Component (CC)ATP-binding cassette (ABC) transporter complex3.107e-091.245e-10Highly InformativeDirect
Cellular Component (CC)coated pit1.439e-074.145e-07Highly InformativeDirect
Cellular Component (CC)recycling endosome5.549e-057.047e-07Highly 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 7.353e-07 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 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 0.4892 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1714 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) biosynthetic process 0.908 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) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 4.643e-09 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 3.092e-07 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 1.532e-05 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 3.936e-08 Moderately Informative Direct
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) homeostatic process 1.158e-14 Moderately Informative Direct
Biological Process (BP) signal transduction 6.819e-08 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 0.0002462 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 1 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 localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.04245 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 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 0.7676 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.1109 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.2037 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3543 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 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) organic substance transport 0.5311 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.3348 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.22 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.6253 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.01516 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.03773 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.001384 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 1.758e-06 Informative Direct
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) regulation of system process 0 Informative Direct
Biological Process (BP) synaptic transmission 0 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 3.557e-10 Informative Direct
Biological Process (BP) response to organic nitrogen 5.494e-10 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 9.077e-09 Informative Direct
Biological Process (BP) single-organism behavior 3.396e-06 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 2.057e-05 Informative Direct
Biological Process (BP) regulation of ion transport 6.128e-05 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.000239 Informative Direct
Biological Process (BP) regulation of secretion 0.0003122 Informative Direct
Biological Process (BP) tetrapyrrole metabolic process 0.0004717 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 0.1335 Informative Inherited
Biological Process (BP) metal ion transport 0.165 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) response to external stimulus 0.803 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.00593 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.6835 Informative Inherited
Biological Process (BP) positive regulation of transport 0.03221 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.01243 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.01357 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.3447 Informative Inherited
Biological Process (BP) regulation of cell development 0.9365 Informative Inherited
Biological Process (BP) generation of neurons 1 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) single organism reproductive process 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.3704 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.3981 Informative Inherited
Biological Process (BP) pigment metabolic process 0.03187 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.4463 Informative Inherited
Biological Process (BP) central nervous system development 0.6733 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.3002 Informative Inherited
Biological Process (BP) vitamin metabolic process 0.01906 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.04002 Informative Inherited
Biological Process (BP) pyrimidine-containing compound metabolic process 0.01206 Informative Inherited
Biological Process (BP) response to light stimulus 0.003405 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.0864 Informative Inherited
Biological Process (BP) anion transport 1 Informative Inherited
Biological Process (BP) defense response 1 Informative Inherited
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 neurological system process 0 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 0 Highly Informative Direct
Biological Process (BP) amide transport 3.44e-12 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 2.128e-10 Highly Informative Direct
Biological Process (BP) adult behavior 1.431e-09 Highly Informative Direct
Biological Process (BP) positive regulation of ion transport 5.724e-09 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 9.978e-09 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 2.468e-08 Highly Informative Direct
Biological Process (BP) ion transmembrane transport 3.715e-07 Highly Informative Direct
Biological Process (BP) dicarboxylic acid metabolic process 1.319e-06 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 1.701e-06 Highly Informative Direct
Biological Process (BP) learning or memory 4.999e-06 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 6.898e-06 Highly Informative Direct
Biological Process (BP) positive regulation of secretion 3.609e-05 Highly Informative Direct
Biological Process (BP) heme metabolic process 0.0001192 Highly Informative Direct
Biological Process (BP) telencephalon development 0.000315 Highly Informative Direct
Biological Process (BP) porphyrin-containing compound biosynthetic process 0.000421 Highly Informative Direct
Biological Process (BP) response to ethanol 0.0005138 Highly Informative Direct
Biological Process (BP) response to toxic substance 0.1286 Highly Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.04871 Highly Informative Inherited
Biological Process (BP) sensory perception 0.5755 Highly Informative Inherited
Biological Process (BP) regulation of cell projection organization 0.02501 Highly Informative Inherited
Biological Process (BP) regulation of neuron differentiation 0.08983 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis 0.3694 Highly Informative Inherited
Biological Process (BP) post-embryonic development 1 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.5424 Highly Informative Inherited
Biological Process (BP) negative regulation of apoptotic process 0.2188 Highly Informative Inherited
Biological Process (BP) response to UV 0.5827 Highly Informative Inherited
Biological Process (BP) response to alkaloid 0.007656 Highly Informative Inherited
Biological Process (BP) response to cold 0.002959 Highly Informative Inherited
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.01244 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.004891 Highly Informative Inherited
Biological Process (BP) transition metal ion transport 0.33 Highly Informative Inherited
Biological Process (BP) inorganic anion transport 0.5501 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.00592 Highly Informative Inherited
Biological Process (BP) feeding behavior 0.1329 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.04055 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 6.785e-05 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 0.000898 Moderately Informative Direct
Molecular Function (MF) lyase activity 4.24e-06 Moderately Informative Direct
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 2.557e-11 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) carbon-oxygen lyase activity 8.391e-13 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 1.216e-07 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0.7758 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) metal ion transmembrane transporter activity 0.0341 Informative Inherited
Molecular Function (MF) transition metal ion binding 0.2141 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.001029 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.2056 Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 1.646e-08 Highly Informative Direct
Molecular Function (MF) iron ion binding 4.547e-06 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) sequence-specific DNA binding transcription factor activity 6.318e-11 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 6.541e-05 Highly Informative Direct
Molecular Function (MF) ATPase activity, coupled to transmembrane movement of ions 1 Highly Informative Inherited
Molecular Function (MF) amine transmembrane transporter activity 0.01633 Highly Informative Inherited
Molecular Function (MF) macromolecule transmembrane transporter activity 0.2841 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 2.685e-10 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cell projection 1.066e-11 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.2424 Moderately Informative Inherited
Cellular Component (CC) endomembrane system 0.7366 Moderately Informative Inherited
Cellular Component (CC) external encapsulating structure 4.981e-06 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 0 Informative Direct
Cellular Component (CC) neuron part 0 Informative Direct
Cellular Component (CC) synapse 0 Informative Direct
Cellular Component (CC) cell projection part 1.109e-12 Informative Direct
Cellular Component (CC) coated vesicle 2.671e-06 Informative Direct
Cellular Component (CC) integral to membrane 0.0002973 Informative Direct
Cellular Component (CC) endosome 0.3373 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 3.129e-15 Highly Informative Direct
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 1.245e-10 Highly Informative Direct
Cellular Component (CC) coated pit 4.145e-07 Highly Informative Direct
Cellular Component (CC) recycling endosome 7.047e-07 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) synaptic membrane 0 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 0 Highly Informative Direct
Cellular Component (CC) dendrite 5.418e-14 Highly Informative Direct
Cellular Component (CC) cell body 3.01e-10 Highly Informative Direct
Cellular Component (CC) axon part 0.05621 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 disease0.0005656Least InformativeDirect
Disease Ontology (DO)cognitive disorder0.02248Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease0.03039Moderately InformativeInherited
Disease Ontology (DO)brain disease0.3031Moderately InformativeInherited
Disease Ontology (DO)focal epilepsy0.04915InformativeInherited
Disease Ontology (DO)motor neuron disease0.05063InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.4236InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy3.46e-06Highly InformativeDirect
Disease Ontology (DO)lateral sclerosis4.769e-06Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis2.94e-05Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.0003675Highly 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 phenotype0.004788Least InformativeInherited
Mammalian Phenotype (MP)behavior/neurological phenotype0.0005493Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.01566Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.6208Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.001217InformativeInherited
Mammalian Phenotype (MP)seizures0.00241InformativeInherited
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.005643InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.01382InformativeInherited
Mammalian Phenotype (MP)abnormal motor capabilities/coordination/movement0.04705InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.06681InformativeInherited
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents5.269e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal locomotor activation9.228e-07Highly InformativeDirect
Mammalian Phenotype (MP)abnormal long term depression1.463e-06Highly InformativeDirect
Mammalian Phenotype (MP)hyperalgesia0.0002203Highly InformativeDirect
Mammalian Phenotype (MP)increased susceptibility to pharmacologically induced seizures0.0007218Highly InformativeDirect
Mammalian Phenotype (MP)abnormal fear/anxiety-related behavior0.1064Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aggression-related behavior0.1715Highly 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 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 stage0.06362Least InformativeInherited
Xenopus DEvelopment stage (XDE)tailbud stage0.005372Moderately InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0001186InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.0003456Least 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

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)digestives, incl. enzymes4.718e-08Moderately InformativeDirect
Drugbank ATC_code (DB)nervous system0.3349Moderately InformativeInherited
Drugbank ATC_code (DB)glutamic acid hydrochloride1.151e-05InformativeDirect
Drugbank ATC_code (DB)other anti-dementia drugs1.264e-05InformativeDirect

Document: DB 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 transport4.278e-08Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processCell wall biogenesis/degradation1.812e-13InformativeDirect
Biological processAromatic hydrocarbons catabolism0.0007936InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processLigand-gated ion channel0Highly InformativeDirect
Biological processPhosphate transport1.012e-11Highly InformativeDirect
Biological processHeme biosynthesis1.967e-05Highly InformativeDirect
Biological processSugar transport0.000976Highly InformativeDirect
Biological processAromatic amino acid biosynthesis1Highly InformativeInherited
Cellular componentMembrane2.08e-05Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentPostsynaptic cell membrane0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane0InformativeDirect
Coding sequence diversityRNA editing2.264e-05Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionNucleotide-binding0.009037Least InformativeInherited
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionMagnesium4.616e-16Moderately InformativeDirect
Molecular functionIron1Moderately InformativeInherited
Molecular functionMolybdenum1.446e-05InformativeDirect
Molecular functionIron transport0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationLyase6.716e-06Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationGlycoprotein0.0004279Least 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)aromatic compound biosynthesis0.1292Moderately InformativeInherited
UniPathway (UP)metabolic intermediate biosynthesis1Moderately InformativeInherited
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)histidine metabolism0InformativeDirect
UniPathway (UP)pigment biosynthesis4.474e-16InformativeDirect
UniPathway (UP)heterocycle biosynthesis8.934e-07InformativeDirect
UniPathway (UP)antibiotic biosynthesis0.2761InformativeInherited
UniPathway (UP)aromatic amino-acid biosynthesis1InformativeInherited
UniPathway (UP)L-phenylalanine biosynthesis0Highly InformativeDirect
UniPathway (UP)prephenate biosynthesis3.47e-14Highly InformativeDirect
UniPathway (UP)bacilysin biosynthesis1.338e-05Highly InformativeDirect
UniPathway (UP)chlorophyll biosynthesis0.0006635Highly 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 Anatomy (FA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]