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 process0.00075140Least InformativeDirect
Biological Process (BP)developmental process0.0031360Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0044370Least 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 3.95e-12 Least Informative Direct
Biological Process (BP) response to stimulus 1.556e-05 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0007188 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.3032 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) localization 0.4244 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 0.006864 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism developmental process 2.081e-07 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.12e-07 Moderately Informative Direct
Biological Process (BP) nervous system development 4.229e-10 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 4.297e-11 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 2.747e-10 Moderately Informative Direct
Biological Process (BP) reproduction 2.385e-08 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 3.693e-08 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0001861 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0002434 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.09195 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.2046 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.07444 Moderately Informative Inherited
Biological Process (BP) system process 0.08451 Moderately Informative Inherited
Biological Process (BP) organ development 0.9542 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3354 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.6884 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) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound 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 0.9083 Moderately Informative Inherited
Biological Process (BP) immune system process 0.2273 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0.1195 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.3377 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 0.6125 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.1972 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.009746 Moderately Informative Inherited
Biological Process (BP) cellular 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 0.008065 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9509 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.4349 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) enzyme linked receptor protein signaling pathway 0 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0 Informative Direct
Biological Process (BP) phosphorylation 3.741e-15 Informative Direct
Biological Process (BP) cell projection organization 7.318e-15 Informative Direct
Biological Process (BP) locomotion 9.235e-14 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 1.228e-11 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 2.483e-11 Informative Direct
Biological Process (BP) cellular component morphogenesis 5.465e-10 Informative Direct
Biological Process (BP) cellular process involved in reproduction 6.321e-10 Informative Direct
Biological Process (BP) ncRNA metabolic process 3.817e-09 Informative Direct
Biological Process (BP) single organism reproductive process 5.43e-08 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 1.221e-07 Informative Direct
Biological Process (BP) localization of cell 1.644e-07 Informative Direct
Biological Process (BP) single-organism behavior 3.856e-07 Informative Direct
Biological Process (BP) cellular component movement 1.677e-06 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 4.257e-06 Informative Direct
Biological Process (BP) generation of neurons 4.672e-06 Informative Direct
Biological Process (BP) regulation of organelle organization 4.864e-06 Informative Direct
Biological Process (BP) regulation of ion transport 1.393e-05 Informative Direct
Biological Process (BP) biological adhesion 1.777e-05 Informative Direct
Biological Process (BP) sexual reproduction 2.796e-05 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0001631 Informative Direct
Biological Process (BP) central nervous system development 0.0002118 Informative Direct
Biological Process (BP) amide biosynthetic process 0.0002244 Informative Direct
Biological Process (BP) cell cycle process 0.0003796 Informative Direct
Biological Process (BP) apoptotic process 0.0003876 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.0006094 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.0007174 Informative Direct
Biological Process (BP) cytoskeleton organization 0.0008606 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.8526 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.8944 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.001703 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.02409 Informative Inherited
Biological Process (BP) growth 0.2599 Informative Inherited
Biological Process (BP) muscle tissue development 0.7929 Informative Inherited
Biological Process (BP) muscle structure development 1 Informative Inherited
Biological Process (BP) synaptic transmission 0.004975 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.2416 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.03981 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 0.00282 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.01478 Informative Inherited
Biological Process (BP) nucleoside triphosphate metabolic process 1 Informative Inherited
Biological Process (BP) DNA metabolic process 0.0224 Informative Inherited
Biological Process (BP) organ morphogenesis 0.005028 Informative Inherited
Biological Process (BP) defense response 0.2089 Informative Inherited
Biological Process (BP) immune response 1 Informative Inherited
Biological Process (BP) immune effector process 0.2119 Informative Inherited
Biological Process (BP) secondary metabolic process 0.6622 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.01576 Informative Inherited
Biological Process (BP) response to lipid 0.4836 Informative Inherited
Biological Process (BP) positive regulation of transport 0.6748 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.1258 Informative Inherited
Biological Process (BP) regulation of locomotion 0.2621 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.009702 Informative Inherited
Biological Process (BP) regulation of cell development 0.003327 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 0.7037 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.01517 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.9234 Informative Inherited
Biological Process (BP) cellular biogenic amine metabolic process 0.006423 Informative Inherited
Biological Process (BP) alcohol metabolic process 0.1571 Informative Inherited
Biological Process (BP) phospholipid metabolic process 0.3968 Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 0.06675 Informative Inherited
Biological Process (BP) pigment metabolic process 0.1359 Informative Inherited
Biological Process (BP) response to inorganic substance 1 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.2008 Informative Inherited
Biological Process (BP) epithelium development 0.001244 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.1843 Informative Inherited
Biological Process (BP) tube development 0.115 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.4865 Informative Inherited
Biological Process (BP) sensory organ development 0.6206 Informative Inherited
Biological Process (BP) cardiovascular system development 0.1649 Informative Inherited
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) protein phosphorylation 0 Highly Informative Direct
Biological Process (BP) peptidyl-tyrosine modification 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 7.655e-14 Highly Informative Direct
Biological Process (BP) meiosis 1.779e-11 Highly Informative Direct
Biological Process (BP) multi-organism behavior 2.088e-09 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 1.004e-08 Highly Informative Direct
Biological Process (BP) cell morphogenesis involved in differentiation 1.581e-08 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 2.862e-08 Highly Informative Direct
Biological Process (BP) regulation of Rho GTPase activity 7.384e-08 Highly Informative Direct
Biological Process (BP) regulation of transporter activity 1.417e-07 Highly Informative Direct
Biological Process (BP) sphingolipid biosynthetic process 2.142e-07 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 4.426e-07 Highly Informative Direct
Biological Process (BP) cell part morphogenesis 2.846e-06 Highly Informative Direct
Biological Process (BP) deoxyribonucleoside triphosphate metabolic process 2.918e-06 Highly Informative Direct
Biological Process (BP) ethanolamine-containing compound metabolic process 3.415e-06 Highly Informative Direct
Biological Process (BP) regulation of transmembrane transport 3.887e-06 Highly Informative Direct
Biological Process (BP) neuron projection development 3.002e-05 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 0.0001177 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.0001612 Highly Informative Direct
Biological Process (BP) deoxyribonucleotide metabolic process 0.0001871 Highly Informative Direct
Biological Process (BP) angiogenesis 0.0002553 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 0.0002676 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 0.0003116 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.0004033 Highly Informative Direct
Biological Process (BP) telencephalon development 0.0005511 Highly Informative Direct
Biological Process (BP) deoxyribose phosphate metabolic process 0.0006778 Highly Informative Direct
Biological Process (BP) regulation of calcium ion transport 0.2363 Highly Informative Inherited
Biological Process (BP) regulation of membrane potential 0.603 Highly Informative Inherited
Biological Process (BP) muscle fiber development 0.003715 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.9723 Highly Informative Inherited
Biological Process (BP) developmental growth 1 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.2641 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.495 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 0.08577 Highly Informative Inherited
Biological Process (BP) positive regulation of neurogenesis 0.4189 Highly Informative Inherited
Biological Process (BP) cell junction organization 0.03565 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.1032 Highly Informative Inherited
Biological Process (BP) innate immune response 0.7863 Highly Informative Inherited
Biological Process (BP) cell adhesion 0.00252 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.2515 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.01574 Highly Informative Inherited
Biological Process (BP) learning or memory 0.1024 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 1 Highly Informative Inherited
Biological Process (BP) alcohol biosynthetic process 0.003691 Highly Informative Inherited
Biological Process (BP) phenol-containing compound metabolic process 0.01747 Highly Informative Inherited
Biological Process (BP) protein glycosylation 0.6292 Highly Informative Inherited
Biological Process (BP) response to calcium ion 0.001949 Highly Informative Inherited
Biological Process (BP) epithelial tube formation 0.009141 Highly Informative Inherited
Biological Process (BP) neural tube development 0.01477 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.01877 Highly Informative Inherited
Molecular Function (MF) transferase activity 0 Least Informative Direct
Molecular Function (MF) binding 1.329e-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 1.053e-05 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.1323 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.6818 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) enzyme regulator activity 0.2153 Moderately Informative Inherited
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) receptor activity 2.325e-14 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 5.704e-08 Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 2.192e-07 Informative Direct
Molecular Function (MF) DNA binding 4.697e-06 Informative Direct
Molecular Function (MF) kinase activity 0.0004101 Informative Direct
Molecular Function (MF) chromatin binding 0.0004301 Informative Direct
Molecular Function (MF) enzyme activator activity 0.0006037 Informative Direct
Molecular Function (MF) receptor binding 0.2571 Informative Inherited
Molecular Function (MF) nucleotide binding 0.5618 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.8702 Informative Inherited
Molecular Function (MF) GTPase regulator activity 0.01337 Informative Inherited
Molecular Function (MF) transferase activity, transferring glycosyl groups 1 Informative Inherited
Molecular Function (MF) protein domain specific binding 2.517e-13 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 1.368e-08 Highly Informative Direct
Molecular Function (MF) protein kinase activity 8.208e-08 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 8.019e-06 Highly Informative Direct
Molecular Function (MF) GTPase activator activity 2.449e-05 Highly Informative Direct
Molecular Function (MF) small GTPase regulator activity 0.0006121 Highly Informative Direct
Molecular Function (MF) channel regulator activity 0.005224 Highly Informative Inherited
Molecular Function (MF) transferase activity, transferring pentosyl groups 0.001643 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0006086 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 0.5901 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) membrane 0.01171 Least Informative Inherited
Cellular Component (CC) intrinsic to membrane 4.054e-09 Moderately Informative Direct
Cellular Component (CC) cell projection 3.261e-06 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.0003515 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.6682 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.01556 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 0.008753 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 1 Moderately Informative Inherited
Cellular Component (CC) integral to membrane 2.71e-13 Informative Direct
Cellular Component (CC) synapse part 4.132e-12 Informative Direct
Cellular Component (CC) intrinsic to plasma membrane 1.441e-09 Informative Direct
Cellular Component (CC) endosome 5.277e-09 Informative Direct
Cellular Component (CC) neuron projection 0.006396 Informative Inherited
Cellular Component (CC) cell junction 0.03646 Informative Inherited
Cellular Component (CC) chromosome 0.7329 Informative Inherited
Cellular Component (CC) postsynaptic membrane 4.501e-07 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 1.904e-06 Highly Informative Direct
Cellular Component (CC) endosomal part 1.159e-05 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 0.0001219 Highly Informative Direct
Cellular Component (CC) dendrite 0.0001586 Highly Informative Direct
Cellular Component (CC) cilium part 0.01477 Highly Informative Inherited
Cellular Component (CC) cell projection membrane 0.2618 Highly Informative Inherited
Cellular Component (CC) adherens junction 0.7481 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.2017 Highly Informative Inherited
Cellular Component (CC) chromatin 0.09349 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 phenotype0.3759Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.5663Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.287Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.3104Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.7953Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal induced cell death0.05512InformativeInherited
Mammalian Phenotype (MP)abnormal cell differentiation0.1326InformativeInherited
Mammalian Phenotype (MP)decreased sensitivity to induced cell death0.000985Highly InformativeDirect

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 kinases0.004267Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.007952Moderately 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)Pentosyltransferases0.02014InformativeInherited
Enzyme Commission (EC)Diacylglycerol kinase (ATP)0Highly InformativeDirect
Enzyme Commission (EC)NAD(+) ADP-ribosyltransferase1.348e-12Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase7.553e-12Highly InformativeDirect
Enzyme Commission (EC)Transferases for other substituted phosphate groups0.009698Highly 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 transport2.977e-05Moderately InformativeDirect
Biological processLipid metabolism0.4707Moderately InformativeInherited
Biological processIon transport0.8187Moderately InformativeInherited
Biological processCell adhesion0InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processNeurogenesis0InformativeDirect
Biological processAngiogenesis2.243e-10InformativeDirect
Biological processTranslation regulation1.42e-06InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSphingolipid metabolism1.092e-14Highly InformativeDirect
Biological processSpermatogenesis1.757e-12Highly InformativeDirect
Biological processCalcium transport4.25e-10Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMembrane4.117e-05Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentEndosome1.903e-09Moderately InformativeDirect
Cellular componentCytoskeleton5.004e-09Moderately InformativeDirect
Cellular componentGolgi apparatus0.0006157Moderately InformativeDirect
Coding sequence diversityAlternative splicing3.676e-05Least InformativeDirect
Coding sequence diversityAlternative promoter usage8.38e-07Moderately InformativeDirect
DiseaseProto-oncogene9.601e-05Moderately InformativeDirect
DiseaseTumor suppressor0.0001475Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil5.154e-10Moderately InformativeDirect
DomainANK repeat0InformativeDirect
DomainSH3 domain0InformativeDirect
DomainSH3-binding2.746e-10InformativeDirect
DomainSH2 domain3.396e-05InformativeDirect
Molecular functionZinc0.000444Least InformativeDirect
Molecular functionDNA-binding5.472e-15Moderately InformativeDirect
Molecular functionActin-binding4.193e-07InformativeDirect
Post-translational modificationTransferase0.1459Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator2.082e-06Moderately InformativeDirect
Post-translational modificationGTPase activation2.727e-13InformativeDirect
Post-translational modificationChromatin regulator4.759e-09InformativeDirect
Post-translational modificationTyrosine-protein kinase0Highly InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation1.975e-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

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

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 ]