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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 (3,240) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 155,782 1,035,571 216
Proteins 153,624 1,024,016 192


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)response to stimulus10.1033Least InformativeInherited
Biological Process (BP)biosynthetic process10.07047Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)macromolecule metabolic process11Least InformativeInherited
Biological Process (BP)single-organism metabolic process11Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)ion transport0.0000000000000031190Moderately InformativeDirect
Biological Process (BP)nitrogen compound transport0.091880.04495Moderately InformativeInherited
Biological Process (BP)organic substance transport0.2260.3212Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.67871Moderately InformativeInherited
Biological Process (BP)sulfur compound metabolic process0.019510.3863Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.7410.1142Moderately InformativeInherited
Biological Process (BP)single-organism transport11Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.70760.000000008373Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process0.84680.01225Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.86930.00000264Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.95670.0000004396Moderately InformativeInherited
Biological Process (BP)organic acid transport0.000000017230.0000000521InformativeDirect
Biological Process (BP)cellular response to inorganic substance0.00022670.00002501InformativeDirect
Biological Process (BP)sulfur compound biosynthetic process0.018530.2854InformativeInherited
Biological Process (BP)response to metal ion0.016510.04971InformativeInherited
Biological Process (BP)pyrimidine-containing compound biosynthetic process0.00040330.01811InformativeInherited
Biological Process (BP)water-soluble vitamin biosynthetic process0.0024690.006243InformativeInherited
Biological Process (BP)anion transport0.028410.9429InformativeInherited
Biological Process (BP)metal ion transport0.7970.382InformativeInherited
Biological Process (BP)transition metal ion transport0.00000000029330.0004099Highly InformativeDirect
Biological Process (BP)organic cation transport0.000000051510.000005619Highly InformativeDirect
Biological Process (BP)amino acid transport0.000000061220.00000003858Highly InformativeDirect
Biological Process (BP)thiamine biosynthetic process0.00000019860.000001032Highly InformativeDirect
Biological Process (BP)modified amino acid transport0.00005050.00003835Highly InformativeDirect
Biological Process (BP)sulfur compound transport0.00014230.0000221Highly InformativeDirect
Biological Process (BP)response to iron ion0.00017530.0004999Highly InformativeDirect
Biological Process (BP)ammonium transport0.00095750.005393Highly InformativeInherited
Molecular Function (MF)hydrolase activity0.00000000000020.00002254Least InformativeDirect
Molecular Function (MF)binding11Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides00Moderately InformativeDirect
Molecular Function (MF)transporter activity00Moderately InformativeDirect
Molecular Function (MF)small molecule binding0.0027070.01469Moderately InformativeInherited
Molecular Function (MF)anion binding0.0033250.2642Moderately InformativeInherited
Molecular Function (MF)ATPase activity00InformativeDirect
Molecular Function (MF)carboxylic acid binding0.0000031220InformativeDirect
Molecular Function (MF)anion transmembrane transporter activity0.000027631InformativeInherited
Molecular Function (MF)active transmembrane transporter activity00.03473InformativeInherited
Molecular Function (MF)amino acid binding00.0000000000003549Highly InformativeDirect
Molecular Function (MF)ammonium ion binding0.0000000063150.0003555Highly InformativeDirect
Molecular Function (MF)amine transmembrane transporter activity0.000000089930.00006364Highly InformativeDirect
Molecular Function (MF)ATPase coupled ion transmembrane transporter activity0.34461Highly InformativeInherited
Cellular Component (CC)macromolecular complex10.0004545Least InformativeInherited
Cellular Component (CC)membrane10.00008419Least InformativeInherited
Cellular Component (CC)intrinsic component of membrane0.21150Moderately InformativeInherited
Cellular Component (CC)membrane protein complex0.052771Moderately InformativeInherited
Cellular Component (CC)plasma membrane10Moderately InformativeInherited
Cellular Component (CC)transporter complex0.00000070230InformativeDirect
Cellular Component (CC)plasma membrane protein complex0.0000014840.7615InformativeInherited
Cellular Component (CC)ATP-binding cassette (ABC) transporter complex0.0000000013770.000000008739Highly InformativeDirect
Cellular Component (CC)outer membrane-bounded periplasmic space0.000000028720.00000000000214Highly 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) biological regulation 0.8271 Least Informative Inherited
Biological Process (BP) single-organism cellular 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) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.07047 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1033 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.000000008373 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.00000264 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0000004396 Moderately Informative Direct
Biological Process (BP) single organism signaling 0.00000005963 Moderately Informative Direct
Biological Process (BP) cell communication 0.0000001501 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0000003074 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.0000003181 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.000004181 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.00002853 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.08162 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.04495 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.3212 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.8146 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.9084 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.3863 Moderately Informative Inherited
Biological Process (BP) cofactor metabolic process 0.9636 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.569 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.3431 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.7712 Moderately Informative Inherited
Biological Process (BP) response to biotic stimulus 0.08811 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.01225 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.1142 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) organic acid transport 0.0000000521 Informative Direct
Biological Process (BP) cellular response to inorganic substance 0.00002501 Informative Direct
Biological Process (BP) cell-cell signaling 0 Informative Direct
Biological Process (BP) system process 0.00000000000004133 Informative Direct
Biological Process (BP) behavior 0.0000000000004582 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.00000000007393 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.0000004499 Informative Direct
Biological Process (BP) cell surface receptor signaling pathway 0.00002709 Informative Direct
Biological Process (BP) tetrapyrrole metabolic process 0.00004624 Informative Direct
Biological Process (BP) transcription, DNA-templated 0.0000487 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.0003102 Informative Direct
Biological Process (BP) response to acid chemical 0.0003566 Informative Direct
Biological Process (BP) ion homeostasis 0.0003764 Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.6946 Informative Inherited
Biological Process (BP) defense response to other organism 1 Informative Inherited
Biological Process (BP) tissue development 1 Informative Inherited
Biological Process (BP) animal organ morphogenesis 1 Informative Inherited
Biological Process (BP) embryo development 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) regulation of cell differentiation 1 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.1162 Informative Inherited
Biological Process (BP) sulfur compound biosynthetic process 0.2854 Informative Inherited
Biological Process (BP) regulation of cell proliferation 1 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.5064 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.6934 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.2875 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.3968 Informative Inherited
Biological Process (BP) response to bacterium 0.02764 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) response to metal ion 0.04971 Informative Inherited
Biological Process (BP) response to radiation 0.2558 Informative Inherited
Biological Process (BP) pyrimidine-containing compound biosynthetic process 0.01811 Informative Inherited
Biological Process (BP) water-soluble vitamin biosynthetic process 0.006243 Informative Inherited
Biological Process (BP) anion transport 0.9429 Informative Inherited
Biological Process (BP) metal ion transport 0.382 Informative Inherited
Biological Process (BP) pigment metabolic process 0.007669 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) transition metal ion transport 0.0004099 Highly Informative Direct
Biological Process (BP) organic cation transport 0.000005619 Highly Informative Direct
Biological Process (BP) amino acid transport 0.00000003858 Highly Informative Direct
Biological Process (BP) thiamine biosynthetic process 0.000001032 Highly Informative Direct
Biological Process (BP) modified amino acid transport 0.00003835 Highly Informative Direct
Biological Process (BP) sulfur compound transport 0.0000221 Highly Informative Direct
Biological Process (BP) response to iron ion 0.0004999 Highly Informative Direct
Biological Process (BP) response to amino acid 0 Highly Informative Direct
Biological Process (BP) single-organism behavior 0 Highly Informative Direct
Biological Process (BP) neurological system process 0 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0 Highly Informative Direct
Biological Process (BP) calcium-mediated signaling 0 Highly Informative Direct
Biological Process (BP) trans-synaptic signaling 0 Highly Informative Direct
Biological Process (BP) cellular response to acid chemical 0.000000000000028 Highly Informative Direct
Biological Process (BP) cellular response to organonitrogen compound 0.000000005687 Highly Informative Direct
Biological Process (BP) imidazole-containing compound metabolic process 0.00000001907 Highly Informative Direct
Biological Process (BP) heme biosynthetic process 0.000003778 Highly Informative Direct
Biological Process (BP) negative regulation of response to external stimulus 0.00001577 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 0.0001941 Highly Informative Direct
Biological Process (BP) antimicrobial humoral response 0.000203 Highly Informative Direct
Biological Process (BP) negative regulation of cell development 0.02348 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.1965 Highly Informative Inherited
Biological Process (BP) negative regulation of multi-organism process 0.001238 Highly Informative Inherited
Biological Process (BP) response to fungus 0.00652 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.1298 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.8675 Highly Informative Inherited
Biological Process (BP) response to alcohol 0.02623 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.01726 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.1152 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Highly Informative Inherited
Biological Process (BP) ammonium transport 0.005393 Highly Informative Inherited
Biological Process (BP) divalent metal ion transport 0.06656 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.004336 Highly Informative Inherited
Biological Process (BP) innate immune response 0.09746 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.00002254 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) lyase activity 0.06312 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.2642 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.01469 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 1 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.973 Moderately Informative Inherited
Molecular Function (MF) ATPase activity 0 Informative Direct
Molecular Function (MF) carboxylic acid binding 0 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) signal transducer activity 0 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0 Informative Direct
Molecular Function (MF) passive transmembrane transporter activity 0.000000000007063 Informative Direct
Molecular Function (MF) hydro-lyase activity 0.00002353 Informative Direct
Molecular Function (MF) anion transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) amide binding 0.00314 Informative Inherited
Molecular Function (MF) active transmembrane transporter activity 0.03473 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 0.1351 Informative Inherited
Molecular Function (MF) monovalent inorganic cation transmembrane transporter activity 1 Informative Inherited
Molecular Function (MF) metal ion transmembrane transporter activity 0.7831 Informative Inherited
Molecular Function (MF) transferase activity, transferring alkyl or aryl (other than methyl) groups 0.002818 Informative Inherited
Molecular Function (MF) DNA binding 0.02574 Informative Inherited
Molecular Function (MF) amino acid binding 0.0000000000003549 Highly Informative Direct
Molecular Function (MF) ammonium ion binding 0.0003555 Highly Informative Direct
Molecular Function (MF) amine transmembrane transporter activity 0.00006364 Highly Informative Direct
Molecular Function (MF) iron ion binding 0.000223 Highly Informative Direct
Molecular Function (MF) ion channel activity 0 Highly Informative Direct
Molecular Function (MF) sodium ion transmembrane transporter activity 0.0000000000001594 Highly Informative Direct
Molecular Function (MF) transmembrane signaling receptor activity 0.0000001479 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.000005981 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 0.00001054 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0001179 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.0004596 Highly Informative Direct
Molecular Function (MF) gated channel activity 0.0008628 Highly Informative Direct
Molecular Function (MF) peptide binding 0.0009788 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.08171 Highly Informative Inherited
Molecular Function (MF) ATPase coupled ion transmembrane transporter activity 1 Highly Informative Inherited
Molecular Function (MF) amino acid transmembrane transporter activity 0.01041 Highly Informative Inherited
Molecular Function (MF) inorganic anion transmembrane transporter activity 0.3331 Highly Informative Inherited
Cellular Component (CC) membrane 0.00008419 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.0004545 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intrinsic component of membrane 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.0002508 Moderately Informative Direct
Cellular Component (CC) vesicle 0.9795 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 1 Moderately Informative Inherited
Cellular Component (CC) transporter complex 0 Informative Direct
Cellular Component (CC) synapse 0 Informative Direct
Cellular Component (CC) protein-DNA complex 0.000000000005873 Informative Direct
Cellular Component (CC) plasma membrane region 0.00000000002503 Informative Direct
Cellular Component (CC) neuron projection 0.000001714 Informative Direct
Cellular Component (CC) plasma membrane bounded cell projection part 0.1372 Informative Inherited
Cellular Component (CC) plasma membrane protein complex 0.7615 Informative Inherited
Cellular Component (CC) secretory granule 0.04752 Informative Inherited
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 0.000000008739 Highly Informative Direct
Cellular Component (CC) outer membrane-bounded periplasmic space 0.00000000000214 Highly Informative Direct
Cellular Component (CC) receptor complex 0 Highly Informative Direct
Cellular Component (CC) intrinsic component of plasma membrane 0 Highly Informative Direct
Cellular Component (CC) dendrite 0.0000000724 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.00008606Least InformativeDirect
Enzyme Commission (EC)Isomerases1Least InformativeInherited
Enzyme Commission (EC)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Hydro-lyases1Moderately InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)Acting on polysaccharides0InformativeDirect
Enzyme Commission (EC)Transferring other groups0.258InformativeInherited
Enzyme Commission (EC)Chorismate mutase0Highly InformativeDirect
Enzyme Commission (EC)Prephenate dehydratase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.0001174Least InformativeDirect
Disease Ontology (DO)disease of mental health0.000000002792Moderately InformativeDirect
Disease Ontology (DO)brain disease0.09052Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease0.09609Moderately InformativeInherited
Disease Ontology (DO)schizophrenia0.000000000003816InformativeDirect
Disease Ontology (DO)focal epilepsy0.04146InformativeInherited
Disease Ontology (DO)motor neuron disease0.04544InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.5154InformativeInherited
Disease Ontology (DO)temporal lobe epilepsy0.000003998Highly InformativeDirect
Disease Ontology (DO)lateral sclerosis0.000005347Highly InformativeDirect
Disease Ontology (DO)amyotrophic lateral sclerosis0.00003437Highly InformativeDirect
Disease Ontology (DO)bipolar disorder0.00003968Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.1147Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.4063Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.5386Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.6081Least InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.01658Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of central motor function0.04784Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the orbital region0.2208Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.2732Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the nose0.421Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the periorbital region0.01604InformativeInherited
Phenotypic Abnormality (PA)Seizures0.02905InformativeInherited
Phenotypic Abnormality (PA)Abnormal emotion/affect behavior0.05599InformativeInherited
Phenotypic Abnormality (PA)Abnormal nasal morphology0.1424InformativeInherited
Phenotypic Abnormality (PA)Upper motor neuron dysfunction0.3145InformativeInherited
Phenotypic Abnormality (PA)Short chin0.0001612Highly InformativeDirect
Phenotypic Abnormality (PA)Prominent nose0.0003112Highly InformativeDirect
Phenotypic Abnormality (PA)Aggressive behavior0.0003743Highly InformativeDirect
Phenotypic Abnormality (PA)Babinski sign0.0007982Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of mouth shape0.00881Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of globe location0.05066Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.000126Least InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system physiology0.01601Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.1459Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.000000000001152InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.00003997InformativeDirect
Mammalian Phenotype (MP)abnormal touch/ nociception0.0006353InformativeDirect
Mammalian Phenotype (MP)seizures0.0008062InformativeDirect
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.003244InformativeInherited
Mammalian Phenotype (MP)abnormal voluntary movement0.1638InformativeInherited
Mammalian Phenotype (MP)abnormal glutamate-mediated receptor currents0.0000002089Highly InformativeDirect
Mammalian Phenotype (MP)abnormal exploration in a new environment0.000006814Highly InformativeDirect
Mammalian Phenotype (MP)abnormal locomotor activation0.000008131Highly InformativeDirect
Mammalian Phenotype (MP)tonic-clonic seizures0.0007284Highly InformativeDirect
Mammalian Phenotype (MP)abnormal synaptic depression0.08342Highly InformativeInherited
Mammalian Phenotype (MP)abnormal aggression-related behavior0.1451Highly 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 variant0.01357Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.09015Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.6945Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.00008874Moderately InformativeDirect
Worm Phenotype (WP)feeding behavior variant0.06103Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.1052Moderately InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.0000009416InformativeDirect
Worm Phenotype (WP)lipid metabolism variant0.0004104InformativeDirect
Worm Phenotype (WP)pharyngeal pumping variant0.0005556InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.00000006733Highly InformativeDirect
Worm Phenotype (WP)aqueous positive chemotaxis defective0.0000002068Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.00002204Highly InformativeDirect
Worm Phenotype (WP)pharyngeal pumping rate variant0.0001736Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)behavior defective0.001736Moderately InformativeInherited
Fly Phenotype (FP)neurophysiology defective0.00001593InformativeDirect
Fly Phenotype (FP)sensory perception defective0.0003757InformativeDirect
Fly Phenotype (FP)feeding behavior defective0.000004998Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)anatomical group0.3086Least InformativeInherited
Fly Anatomy (FA)chemosensory system0.0001424InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) 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)Lyases0.0001191Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases1Moderately InformativeInherited
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 transferases1InformativeInherited
Enzyme Commission (EC)Acting on polysaccharides0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processIon transport0.00000006422Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processCell wall biogenesis/degradation0.0000000000003525InformativeDirect
Biological processAromatic hydrocarbons catabolism0.0009171InformativeDirect
Biological processAmino-acid transport0Highly InformativeDirect
Biological processChlorophyll biosynthesis0Highly InformativeDirect
Biological processHistidine biosynthesis0Highly InformativeDirect
Biological processNodulation0Highly InformativeDirect
Biological processPorphyrin biosynthesis0Highly InformativeDirect
Biological processOsteogenesis0.0000008336Highly InformativeDirect
Biological processSugar transport0.0001559Highly InformativeDirect
Biological processHeme biosynthesis0.0003857Highly InformativeDirect
Biological processAromatic amino acid biosynthesis1Highly InformativeInherited
Cellular componentMembrane0.00006117Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell membrane0.000008577Moderately InformativeDirect
Cellular componentPeriplasm0InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentCell outer membrane0InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
Coding sequence diversityRNA editing0.00002095Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionMagnesium0.000002864Least InformativeDirect
Molecular functionNucleotide-binding0.0261Least InformativeInherited
Molecular functionIron1Moderately InformativeInherited
Molecular functionMolybdenum0.00001838InformativeDirect
Molecular functionIron transport0Highly InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationLyase0.00000357Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0.0006751Least 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 biosynthesis0.1566Moderately InformativeInherited
UniPathway (UP)antibiotic biosynthesis0.4727Moderately InformativeInherited
UniPathway (UP)metabolic intermediate biosynthesis1Moderately InformativeInherited
UniPathway (UP)L-histidine biosynthesis0InformativeDirect
UniPathway (UP)protoporphyrin-IX biosynthesis0InformativeDirect
UniPathway (UP)pigment biosynthesis0.000000000000001596InformativeDirect
UniPathway (UP)heterocycle biosynthesis0.000001184InformativeDirect
UniPathway (UP)aromatic amino-acid biosynthesis1InformativeInherited
UniPathway (UP)L-phenylalanine biosynthesis0Highly InformativeDirect
UniPathway (UP)prephenate biosynthesis0.00000000000005157Highly InformativeDirect
UniPathway (UP)bacilysin biosynthesis0.00001821Highly 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]