SUPERFAMILY 1.75 HMM library and genome assignments server


Periplasmic binding protein-like I superfamily

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


Superfamily statistics
Genomes (2,626) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 45,741 226,237 47
Proteins 45,138 225,457 47


Functional annotation
General category Regulation
Detailed category DNA-binding

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)localization0.00010150.0001295Least InformativeDirect
Biological Process (BP)multicellular organismal process0.2160Least InformativeInherited
Biological Process (BP)regulation of cellular process0.1722.815e-06Least InformativeInherited
Biological Process (BP)single-organism cellular process0.072533.755e-15Least InformativeInherited
Biological Process (BP)response to stimulus0.8740Least InformativeInherited
Biological Process (BP)system process0.00086020Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.07741Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process0.0070860.00164Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.23146.75e-07Moderately InformativeInherited
Biological Process (BP)ion transport0.031410Moderately InformativeInherited
Biological Process (BP)organic substance transport5.508e-051Moderately InformativeInherited
Biological Process (BP)negative regulation of signaling7.225e-050.0002619InformativeDirect
Biological Process (BP)negative regulation of cell communication0.00015340.0003409InformativeDirect
Biological Process (BP)regulation of system process0.0028220InformativeInherited
Biological Process (BP)anion transport4.498e-071InformativeInherited
Biological Process (BP)organic acid transport2.58e-050.001503InformativeInherited
Biological Process (BP)nitrogen compound transport0.0018180.5081InformativeInherited
Biological Process (BP)defense response0.088870.3258InformativeInherited
Biological Process (BP)single-organism behavior0.0026581.975e-06InformativeInherited
Biological Process (BP)amino acid transport8.408e-112.35e-09Highly InformativeDirect
Biological Process (BP)regulation of synaptic transmission9.31e-080Highly InformativeDirect
Biological Process (BP)behavioral fear response2.4e-072.795e-06Highly InformativeDirect
Biological Process (BP)negative regulation of multicellular organismal process3.535e-062.026e-12Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.058331Least InformativeInherited
Molecular Function (MF)transporter activity3.167e-070Moderately InformativeDirect
Molecular Function (MF)receptor activity2.234e-050InformativeDirect
Molecular Function (MF)molecular transducer activity4.31e-050InformativeDirect
Molecular Function (MF)nucleoside-triphosphatase activity2.815e-060.6734InformativeInherited
Molecular Function (MF)active transmembrane transporter activity0.028831InformativeInherited
Molecular Function (MF)hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances3.953e-061InformativeInherited
Molecular Function (MF)anion transmembrane transporter activity0.010081InformativeInherited
Molecular Function (MF)amino acid transmembrane transporter activity3.152e-119.774e-09Highly InformativeDirect
Cellular Component (CC)protein complex0.018110Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)membrane0.011080Least InformativeInherited
Cellular Component (CC)cell projection0.0023110Moderately InformativeInherited
Cellular Component (CC)vesicle0.1693.509e-06Moderately InformativeInherited
Cellular Component (CC)plasma membrane0.028010Moderately InformativeInherited
Cellular Component (CC)intrinsic to membrane0.0047030Moderately InformativeInherited
Cellular Component (CC)synapse part1.062e-110InformativeDirect
Cellular Component (CC)intrinsic to plasma membrane7.327e-060InformativeDirect
Cellular Component (CC)coated vesicle0.00021073.139e-11InformativeDirect
Cellular Component (CC)integral to membrane0.00029060InformativeDirect
Cellular Component (CC)cell surface0.00087540.0002959InformativeDirect
Cellular Component (CC)neuron projection0.079222.728e-09InformativeInherited
Cellular Component (CC)receptor complex3.173e-140Highly InformativeDirect
Cellular Component (CC)ion channel complex2.871e-130Highly InformativeDirect
Cellular Component (CC)postsynaptic membrane1.974e-120.0001979Highly InformativeDirect
Cellular Component (CC)integral to plasma membrane4.593e-060Highly InformativeDirect
Cellular Component (CC)clathrin-coated vesicle0.00010390Highly InformativeDirect
Cellular Component (CC)dendrite0.029181.614e-12Highly InformativeInherited

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 0.0001295 Least Informative Direct
Biological Process (BP) single-organism cellular process 3.755e-15 Least Informative Direct
Biological Process (BP) regulation of cellular process 2.815e-06 Least Informative Direct
Biological Process (BP) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) developmental 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) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) system process 0 Moderately Informative Direct
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 6.75e-07 Moderately Informative Direct
Biological Process (BP) signal transduction 0 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 0.0006886 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.06216 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.3207 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.4582 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.06424 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.004996 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.00164 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.3791 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.2664 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.4407 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.491 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.412 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3945 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.00559 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.005804 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.005835 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.03992 Moderately Informative Inherited
Biological Process (BP) negative regulation of signaling 0.0002619 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.0003409 Informative Direct
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) single-organism behavior 1.975e-06 Informative Direct
Biological Process (BP) regulation of system process 0 Informative Direct
Biological Process (BP) synaptic transmission 0 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0 Informative Direct
Biological Process (BP) cation homeostasis 0 Informative Direct
Biological Process (BP) response to organonitrogen compound 3.755e-15 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 5.747e-14 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 9.66e-09 Informative Direct
Biological Process (BP) regulation of ion transport 1.862e-08 Informative Direct
Biological Process (BP) positive regulation of transport 6.554e-05 Informative Direct
Biological Process (BP) regulation of secretion 7.717e-05 Informative Direct
Biological Process (BP) response to light stimulus 9.012e-05 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0.0001068 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.0001292 Informative Direct
Biological Process (BP) regulation of response to external stimulus 0.0001377 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.0005356 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 0.7205 Informative Inherited
Biological Process (BP) metal ion transport 0.1088 Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.17 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.1694 Informative Inherited
Biological Process (BP) regulation of cell development 0.05466 Informative Inherited
Biological Process (BP) generation of neurons 0.2009 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.8112 Informative Inherited
Biological Process (BP) organic acid transport 0.001503 Informative Inherited
Biological Process (BP) anion transport 1 Informative Inherited
Biological Process (BP) purine ribonucleotide metabolic process 0.1102 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.3956 Informative Inherited
Biological Process (BP) regulation of body fluid levels 0.9621 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.7178 Informative Inherited
Biological Process (BP) regulation of vesicle-mediated transport 0.965 Informative Inherited
Biological Process (BP) regulation of organelle organization 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.00395 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.1346 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.2017 Informative Inherited
Biological Process (BP) central nervous system development 0.1678 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.1809 Informative Inherited
Biological Process (BP) single organism reproductive process 0.9674 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 1 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.5081 Informative Inherited
Biological Process (BP) defense response 0.3258 Informative Inherited
Biological Process (BP) amino acid transport 2.35e-09 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 0 Highly Informative Direct
Biological Process (BP) behavioral fear response 2.795e-06 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 2.026e-12 Highly Informative Direct
Biological Process (BP) calcium ion transport 0 Highly Informative Direct
Biological Process (BP) adult behavior 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 2.884e-13 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 3.241e-13 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 1.09e-09 Highly Informative Direct
Biological Process (BP) positive regulation of ion transport 6.03e-09 Highly Informative Direct
Biological Process (BP) regulation of cyclic nucleotide metabolic process 1.06e-08 Highly Informative Direct
Biological Process (BP) regulation of calcium ion transport 2.08e-05 Highly Informative Direct
Biological Process (BP) learning or memory 3.07e-05 Highly Informative Direct
Biological Process (BP) response to toxic substance 4.09e-05 Highly Informative Direct
Biological Process (BP) telencephalon development 6.799e-05 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 0.0001156 Highly Informative Direct
Biological Process (BP) detection of light stimulus 0.008892 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.001626 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.01204 Highly Informative Inherited
Biological Process (BP) response to alcohol 0.004795 Highly Informative Inherited
Biological Process (BP) negative regulation of apoptotic process 0.09814 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane transport 0.008184 Highly Informative Inherited
Biological Process (BP) regulation of exocytosis 0.08777 Highly Informative Inherited
Biological Process (BP) response to alkaloid 0.001488 Highly Informative Inherited
Biological Process (BP) sensory perception 0.889 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 0.002052 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.009711 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.1922 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0452 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.5969 Moderately Informative Inherited
Molecular Function (MF) receptor activity 0 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 0 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0.0007618 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0.6213 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 0.6734 Informative Inherited
Molecular Function (MF) active transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 1 Informative Inherited
Molecular Function (MF) anion transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 9.774e-09 Highly Informative Direct
Molecular Function (MF) calcium ion transmembrane transporter activity 0 Highly Informative Direct
Molecular Function (MF) ion gated channel activity 0 Highly Informative Direct
Molecular Function (MF) amino acid binding 0 Highly Informative Direct
Molecular Function (MF) channel regulator activity 3.055e-08 Highly Informative Direct
Molecular Function (MF) hormone binding 0.0002773 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.0006011 Highly Informative Direct
Molecular Function (MF) calcium ion binding 0.0009579 Highly Informative Direct
Molecular Function (MF) cation channel activity 1 Highly Informative Inherited
Molecular Function (MF) G-protein coupled receptor 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 0.4017 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) cell projection 0 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) endoplasmic reticulum 2.972e-07 Moderately Informative Direct
Cellular Component (CC) vesicle 3.509e-06 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 2.102e-09 Moderately Informative Direct
Cellular Component (CC) synapse part 0 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 0 Informative Direct
Cellular Component (CC) coated vesicle 3.139e-11 Informative Direct
Cellular Component (CC) integral to membrane 0 Informative Direct
Cellular Component (CC) cell surface 0.0002959 Informative Direct
Cellular Component (CC) neuron projection 2.728e-09 Informative Direct
Cellular Component (CC) external encapsulating structure 0.5057 Informative Inherited
Cellular Component (CC) receptor complex 0 Highly Informative Direct
Cellular Component (CC) ion channel complex 0 Highly Informative Direct
Cellular Component (CC) postsynaptic membrane 0.0001979 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 0 Highly Informative Direct
Cellular Component (CC) clathrin-coated vesicle 0 Highly Informative Direct
Cellular Component (CC) dendrite 1.614e-12 Highly Informative Direct
Cellular Component (CC) cell body 0 Highly Informative Direct
Cellular Component (CC) cell envelope 5.604e-05 Highly Informative Direct
Cellular Component (CC) external encapsulating structure part 0.0002302 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)Lyases0Least InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Guanylate cyclase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease7.704e-05Least InformativeDirect
Disease Ontology (DO)disease of mental health8.031e-09Moderately InformativeDirect
Disease Ontology (DO)neurodegenerative disease0.6968Moderately InformativeInherited
Disease Ontology (DO)schizophrenia1.783e-10InformativeDirect
Disease Ontology (DO)motor neuron disease9.409e-05InformativeDirect
Disease Ontology (DO)developmental disorder of mental health0.2851InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy5.767e-10Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis1.524e-07Highly InformativeDirect
Disease Ontology (DO)autistic disorder0.0001123Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.0003648Highly 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 phenotype3.244e-06Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.007901Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.06584Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.0003266InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0006072InformativeDirect
Mammalian Phenotype (MP)abnormal touch/ nociception0.0008859InformativeDirect
Mammalian Phenotype (MP)seizures0.001809InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.3719InformativeInherited
Mammalian Phenotype (MP)decreased alcohol consumption3.612e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents9.993e-05Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.0009104Highly InformativeDirect
Mammalian Phenotype (MP)taste/olfaction phenotype0.007137Highly InformativeInherited
Mammalian Phenotype (MP)abnormal synaptic depression0.2405Highly InformativeInherited
Mammalian Phenotype (MP)abnormal avoidance learning behavior0.58Highly 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 variant2.67e-08Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.6948Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.0004527Moderately InformativeDirect
Worm Phenotype (WP)chemotaxis variant0InformativeDirect
Worm Phenotype (WP)electrophysiology variant1.192e-05InformativeDirect
Worm Phenotype (WP)lipid metabolism variant0.001162InformativeInherited
Worm Phenotype (WP)metabolic pathway variant1.82e-06Highly InformativeDirect
Worm Phenotype (WP)carbon dioxide avoidance variant6.777e-06Highly InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant8.007e-06Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant2.023e-05Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.009618Highly InformativeInherited
Worm Phenotype (WP)odorant positive chemotaxis variant0.9973Highly InformativeInherited
Worm Phenotype (WP)negative chemotaxis variant1Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

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

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

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

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processCarbohydrate metabolism1Moderately InformativeInherited
Biological processPurine biosynthesis0InformativeDirect
Biological processSensory transduction0InformativeDirect
Biological processCell shape1.949e-10InformativeDirect
Biological processChemotaxis6.844e-08InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processPeptidoglycan synthesis7.772e-11Highly InformativeDirect
Biological processOsteogenesis7.769e-08Highly InformativeDirect
Biological processSugar transport0.0007678Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection2.835e-11Moderately InformativeDirect
Cellular componentCell membrane2.519e-09Moderately InformativeDirect
Cellular componentEndoplasmic reticulum9.498e-05Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane7e-14InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
Coding sequence diversityRNA editing5.139e-07Moderately InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding1Least InformativeInherited
Molecular functionCalcium5.01e-15Moderately InformativeDirect
Molecular functionGTP-binding0.0004662InformativeDirect
Molecular functionChloride2.802e-05Highly InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationTransducer0InformativeDirect
Post-translational modificationG-protein coupled receptor0Highly InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0.000372Least InformativeDirect
Post-translational modificationPalmitate9.055e-16Moderately InformativeDirect

Document: KW 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) ]

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 18 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Periplasmic binding protein-like I domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 18 hidden Markov models representing the Periplasmic binding protein-like I superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


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