SUPERFAMILY 1.75 HMM library and genome assignments server


SAM/Pointed domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   SAM domain-like [ 47768] (16)
Superfamily:   SAM/Pointed domain [ 47769] (3)
Families:   Pointed domain [ 47770] (6)
  SAM (sterile alpha motif) domain [ 47773] (15)
  Variant SAM domain [ 158526] (2)


Superfamily statistics
Genomes (513) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 17,412 18,588 33
Proteins 15,117 16,171 33


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)multicellular organismal process0.00075920Least InformativeDirect
Biological Process (BP)developmental process0.0031730Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0044640Least 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) multicellular organismal process 0 Least Informative Direct
Biological Process (BP) developmental process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 4.74e-12 Least Informative Direct
Biological Process (BP) response to stimulus 7.729e-06 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0005532 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.3513 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) localization 0.3679 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) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.007603 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 2.975e-07 Moderately Informative Direct
Biological Process (BP) nervous system development 2.593e-09 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 4.335e-11 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 3.172e-10 Moderately Informative Direct
Biological Process (BP) reproduction 1.475e-08 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 6.998e-08 Moderately Informative Direct
Biological Process (BP) signal transduction 0.000352 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0004272 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.2127 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.2439 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.06484 Moderately Informative Inherited
Biological Process (BP) system process 0.07015 Moderately Informative Inherited
Biological Process (BP) organ development 0.9208 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.2975 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.7952 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.9409 Moderately Informative Inherited
Biological Process (BP) immune system process 0.2378 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.1136 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.3605 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.6469 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.08772 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.0304 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.01181 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9785 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 1.938e-15 Informative Direct
Biological Process (BP) phosphorylation 3.755e-15 Informative Direct
Biological Process (BP) cell projection organization 1.086e-14 Informative Direct
Biological Process (BP) locomotion 1.114e-13 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 1.252e-11 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 1.34e-11 Informative Direct
Biological Process (BP) cellular component morphogenesis 3.033e-10 Informative Direct
Biological Process (BP) cellular process involved in reproduction 9.572e-10 Informative Direct
Biological Process (BP) ncRNA metabolic process 3.657e-09 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 1.597e-07 Informative Direct
Biological Process (BP) single organism reproductive process 2.396e-07 Informative Direct
Biological Process (BP) localization of cell 2.843e-07 Informative Direct
Biological Process (BP) single-organism behavior 4.607e-07 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 1.702e-06 Informative Direct
Biological Process (BP) cellular component movement 2.635e-06 Informative Direct
Biological Process (BP) generation of neurons 5.137e-06 Informative Direct
Biological Process (BP) regulation of organelle organization 6.353e-06 Informative Direct
Biological Process (BP) regulation of ion transport 1.343e-05 Informative Direct
Biological Process (BP) biological adhesion 1.948e-05 Informative Direct
Biological Process (BP) sexual reproduction 5.739e-05 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0001535 Informative Direct
Biological Process (BP) amide biosynthetic process 0.0002282 Informative Direct
Biological Process (BP) cell cycle process 0.0002813 Informative Direct
Biological Process (BP) central nervous system development 0.0003555 Informative Direct
Biological Process (BP) apoptotic process 0.0003964 Informative Direct
Biological Process (BP) cytoskeleton organization 0.0008239 Informative Direct
Biological Process (BP) regulation of peptidase activity 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.8954 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.8362 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.001739 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.02431 Informative Inherited
Biological Process (BP) growth 0.2725 Informative Inherited
Biological Process (BP) muscle tissue development 0.5346 Informative Inherited
Biological Process (BP) synaptic transmission 0.002859 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.2625 Informative Inherited
Biological Process (BP) muscle structure development 1 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.04966 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 1 Informative Inherited
Biological Process (BP) regulation of system process 1 Informative Inherited
Biological Process (BP) membrane lipid metabolic process 0.002849 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.0168 Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 1 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 1 Informative Inherited
Biological Process (BP) DNA metabolic process 0.0245 Informative Inherited
Biological Process (BP) organ morphogenesis 0.0082 Informative Inherited
Biological Process (BP) defense response 0.2126 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.2121 Informative Inherited
Biological Process (BP) secondary metabolic process 0.6665 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.01468 Informative Inherited
Biological Process (BP) response to lipid 0.5038 Informative Inherited
Biological Process (BP) positive regulation of transport 0.6785 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1301 Informative Inherited
Biological Process (BP) regulation of locomotion 0.2719 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.00924 Informative Inherited
Biological Process (BP) regulation of cell development 0.003915 Informative Inherited
Biological Process (BP) organophosphate catabolic process 1 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 1 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 1 Informative Inherited
Biological Process (BP) response to oxidative stress 0.7197 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.0163 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.9153 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.002516 Informative Inherited
Biological Process (BP) cellular biogenic amine metabolic process 0.006421 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.1591 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.3985 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.06823 Informative Inherited
Biological Process (BP) pigment metabolic process 0.1377 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.2341 Informative Inherited
Biological Process (BP) epithelium development 0.004441 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.2348 Informative Inherited
Biological Process (BP) tube development 0.1334 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.4795 Informative Inherited
Biological Process (BP) sensory organ development 0.6762 Informative Inherited
Biological Process (BP) cardiovascular system development 0.1905 Informative Inherited
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) protein phosphorylation 0 Highly Informative Direct
Biological Process (BP) DNA modification 0 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 0 Highly Informative Direct
Biological Process (BP) chemotaxis 9.263e-14 Highly Informative Direct
Biological Process (BP) meiosis 3.147e-11 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 8.617e-09 Highly Informative Direct
Biological Process (BP) multi-organism behavior 9.429e-09 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 2.718e-08 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 6.346e-08 Highly Informative Direct
Biological Process (BP) regulation of transporter activity 2.023e-07 Highly Informative Direct
Biological Process (BP) sphingolipid biosynthetic process 2.138e-07 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 3.139e-07 Highly Informative Direct
Biological Process (BP) regulation of Rho protein signal transduction 2.548e-06 Highly Informative Direct
Biological Process (BP) deoxyribonucleoside triphosphate metabolic process 2.917e-06 Highly Informative Direct
Biological Process (BP) ethanolamine-containing compound metabolic process 3.412e-06 Highly Informative Direct
Biological Process (BP) regulation of transmembrane transport 4.914e-06 Highly Informative Direct
Biological Process (BP) cell part morphogenesis 7.313e-06 Highly Informative Direct
Biological Process (BP) regulation of Ras GTPase activity 9.29e-06 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 9.643e-06 Highly Informative Direct
Biological Process (BP) neuron projection development 2.554e-05 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.0001535 Highly Informative Direct
Biological Process (BP) deoxyribonucleotide metabolic process 0.0001871 Highly Informative Direct
Biological Process (BP) muscle fiber development 0.0002337 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 0.0002396 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 0.0002893 Highly Informative Direct
Biological Process (BP) angiogenesis 0.000324 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.0004827 Highly Informative Direct
Biological Process (BP) deoxyribose phosphate metabolic process 0.000676 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0007516 Highly Informative Direct
Biological Process (BP) regulation of calcium ion transport 0.2304 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.6351 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.7711 Highly Informative Inherited
Biological Process (BP) developmental growth 1 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.2944 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.5233 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.09696 Highly Informative Inherited
Biological Process (BP) positive regulation of neurogenesis 0.4439 Highly Informative Inherited
Biological Process (BP) cell junction organization 0.03559 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.1164 Highly Informative Inherited
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.9038 Highly Informative Inherited
Biological Process (BP) innate immune response 0.7825 Highly Informative Inherited
Biological Process (BP) cell adhesion 0.002969 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.015 Highly Informative Inherited
Biological Process (BP) learning or memory 0.1132 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 1 Highly Informative Inherited
Biological Process (BP) phenol-containing compound metabolic process 0.01836 Highly Informative Inherited
Biological Process (BP) protein glycosylation 0.6269 Highly Informative Inherited
Biological Process (BP) response to calcium ion 0.001949 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.009108 Highly Informative Inherited
Biological Process (BP) neural tube development 0.01653 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.01964 Highly Informative Inherited
Molecular Function (MF) transferase activity 0 Least Informative Direct
Molecular Function (MF) binding 2.118e-14 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 9.983e-06 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.1285 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.6872 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.2117 Moderately Informative Inherited
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) receptor activity 1.834e-14 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 5.415e-08 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 2.059e-07 Informative Direct
Molecular Function (MF) DNA binding 5.541e-06 Informative Direct
Molecular Function (MF) kinase activity 0.000389 Informative Direct
Molecular Function (MF) chromatin binding 0.0005119 Informative Direct
Molecular Function (MF) enzyme activator activity 0.0006353 Informative Direct
Molecular Function (MF) receptor binding 0.2488 Informative Inherited
Molecular Function (MF) nucleotide binding 0.5696 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.8627 Informative Inherited
Molecular Function (MF) GTPase regulator activity 0.01351 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 1 Informative Inherited
Molecular Function (MF) protein domain specific binding 2.363e-13 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 1.538e-08 Highly Informative Direct
Molecular Function (MF) protein kinase activity 7.726e-08 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 1.134e-05 Highly Informative Direct
Molecular Function (MF) GTPase activator activity 2.397e-05 Highly Informative Direct
Molecular Function (MF) small GTPase regulator activity 0.0006174 Highly Informative Direct
Molecular Function (MF) channel regulator activity 0.004927 Highly Informative Inherited
Molecular Function (MF) transferase activity, transferring pentosyl groups 0.00164 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0005703 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.6099 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) membrane 0.01278 Least Informative Inherited
Cellular Component (CC) intrinsic to membrane 3.663e-09 Moderately Informative Direct
Cellular Component (CC) cell projection 3.85e-06 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.0003347 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.6591 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.01488 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 0.01211 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1 Moderately Informative Inherited
Cellular Component (CC) integral to membrane 2.799e-13 Informative Direct
Cellular Component (CC) synapse part 7.051e-12 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 1.373e-09 Informative Direct
Cellular Component (CC) endosome 5.864e-09 Informative Direct
Cellular Component (CC) neuron projection 0.007412 Informative Inherited
Cellular Component (CC) cell junction 0.03315 Informative Inherited
Cellular Component (CC) chromosome 0.7355 Informative Inherited
Cellular Component (CC) postsynaptic membrane 4.496e-07 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 1.931e-06 Highly Informative Direct
Cellular Component (CC) endosomal part 1.167e-05 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 0.00012 Highly Informative Direct
Cellular Component (CC) dendrite 0.0001445 Highly Informative Direct
Cellular Component (CC) cilium part 0.01567 Highly Informative Inherited
Cellular Component (CC) cell projection membrane 0.2583 Highly Informative Inherited
Cellular Component (CC) adherens junction 0.7482 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.2098 Highly Informative Inherited
Cellular Component (CC) chromatin 0.08845 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)Acting on ester bonds0.558Least InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.007561Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.00471Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep1Moderately InformativeInherited
Enzyme Commission (EC)Receptor protein-tyrosine kinase1.004e-11InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-3,4,5-trisphosphate 5-phospha0Highly InformativeDirect
Enzyme Commission (EC)Diacylglycerol kinase0Highly InformativeDirect
Enzyme Commission (EC)Mitogen-activated protein kinase kinase kinase9.763e-13Highly InformativeDirect
Enzyme Commission (EC)Transferases for other substituted phosphate group0.01424Highly InformativeInherited

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.3131Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.5795Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.301Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.3244Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell differentiation0.1609InformativeInherited

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 variant0.09433Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.04444Moderately InformativeInherited
Worm Phenotype (WP)drug resistant0.000253InformativeDirect
Worm Phenotype (WP)aldicarb resistant0.0002089Highly 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 Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.004286Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.007925Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor1Moderately InformativeInherited
Enzyme Commission (EC)Protein-tyrosine kinases0InformativeDirect
Enzyme Commission (EC)Pentosyltransferases0.02022InformativeInherited
Enzyme Commission (EC)Diacylglycerol kinase (ATP)0Highly InformativeDirect
Enzyme Commission (EC)NAD(+) ADP-ribosyltransferase1.337e-12Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase7.567e-12Highly InformativeDirect
Enzyme Commission (EC)Transferases for other substituted phosphate groups0.009692Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processApoptosis0Moderately InformativeDirect
Biological processDifferentiation0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processProtein transport2.978e-05Moderately InformativeDirect
Biological processLipid metabolism0.4695Moderately InformativeInherited
Biological processIon transport0.8193Moderately InformativeInherited
Biological processCell adhesion0InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processAngiogenesis2.223e-10InformativeDirect
Biological processTranslation regulation1.431e-06InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSphingolipid metabolism1.226e-14Highly InformativeDirect
Biological processSpermatogenesis1.686e-12Highly InformativeDirect
Biological processCalcium transport4.214e-10Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMembrane4.333e-05Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome2.114e-09Moderately InformativeDirect
Cellular componentCytoskeleton5.161e-09Moderately InformativeDirect
Cellular componentGolgi apparatus0.0006372Moderately InformativeDirect
Coding sequence diversityAlternative splicing2.019e-08Least InformativeDirect
Coding sequence diversityAlternative promoter usage7.556e-07Moderately InformativeDirect
DiseaseProto-oncogene9.155e-05Moderately InformativeDirect
DiseaseTumor suppressor0.0001404Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil5.463e-10Moderately InformativeDirect
DomainANK repeat0InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding2.693e-10InformativeDirect
DomainSH2 domain3.351e-05InformativeDirect
Molecular functionDNA-binding5.461e-15Least InformativeDirect
Molecular functionZinc0.0005202Least InformativeDirect
Molecular functionActin-binding4.29e-07InformativeDirect
Post-translational modificationTransferase0.1461Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator2.085e-06Moderately InformativeDirect
Post-translational modificationGTPase activation2.304e-13InformativeDirect
Post-translational modificationChromatin regulator5.274e-09InformativeDirect
Post-translational modificationTyrosine-protein kinase0Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation2.202e-05Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR010993 SSF47769 Protein matches
Abstract

Sterile alpha motif (SAM) domains are known to be involved in diverse protein-protein interactions, associating with both SAM-containing and non-SAM-containing proteins pathway [PubMed14659692]. SAM domains exhibit a conserved structure, consisting of a 4-5-helical bundle of two orthogonally packed alpha-hairpins. However SAM domains display a diversity of function, being involved in interactions with proteins, DNA and RNA [PubMed12858164]. The name sterile alpha motif arose from its presence in proteins that are essential for yeast sexual differentiation. The SAM domain has had various names, including SPM, PTN (pointed), SEP (yeast sterility, Ets-related, PcG proteins), NCR (N-terminal conserved region) and HLH (helix-loop-helix) domain, all of which are related and can be classified as SAM domains.

SAM domains occur in eukaryotic and in some bacterial proteins. Structures have been determined for several proteins that contain SAM domains, including Ets-1 transcription factor, which plays a role in the development and invasion of tumour cells by regulating the expression of matrix-degrading proteases [PubMed14704859]; Etv6 transcription factor, gene rearrangements of which have been demonstrated in several malignancies [PubMed9031109]; EphA4 receptor tyrosine kinase, which is believed to be important for the correct localization of a motoneuron pool to a specific position in the spinal cord [PubMed12577325]; EphB2 receptor, which is involved in spine morphogenesis via intersectin, Cdc42 and N-Wasp [PubMed12389031]; p73, a p53 homologue involved in neuronal development [PubMed14659698]; and polyhomeotic, which is a member of the Polycomb group of genes (Pc-G) required for the maintenance of the spatial expression pattern of homeotic genes [PubMed14499651].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

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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 24 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 SAM/Pointed domain 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 24 hidden Markov models representing the SAM/Pointed domain 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]