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lambda repressor-like DNA-binding domains superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   lambda repressor-like DNA-binding domains [ 47412]
Superfamily:   lambda repressor-like DNA-binding domains [ 47413] (13)
Families:   POU-specific domain [ 47414] (3)
  Phage repressors [ 47419] (7)
  SinR domain-like [ 47432] (8)
  Cyanase N-terminal domain [ 47435]
  GalR/LacI-like bacterial regulator [ 47438] (4)
  YdiL-like [ 109813] (2)
  CUT domain [ 116891] (4)
  Probable transcriptional regulator VC1968, N-terminal domain [ 116898]
  Bacteriophage CII protein [ 140520]
  NE0471 C-terminal domain-like [ 140523]
  PrgX N-terminal domain-like [ 140526]
  EDF1-like [ 140529]
  NE1354 [ 140532] (2)


Superfamily statistics
Genomes (2,957) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 60,388 409,262 80
Proteins 59,479 407,008 80


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)biological regulation0.98320.000000000002427Least InformativeInherited
Biological Process (BP)regulation of gene expression0.000040440Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process0.0000020950Moderately InformativeDirect
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.000096770Moderately InformativeDirect
Biological Process (BP)regulation of cellular biosynthetic process0.00096510Moderately InformativeDirect
Biological Process (BP)regulation of transcription, DNA-templated0.00000014480.000000000006888InformativeDirect
Molecular Function (MF)binding10.00001551Least InformativeInherited
Molecular Function (MF)nucleic acid binding0.0000051180Moderately InformativeDirect
Molecular Function (MF)DNA binding0.0000000025270InformativeDirect
Molecular Function (MF)transcription factor activity, sequence-specific DNA binding0.00000012290InformativeDirect
Molecular Function (MF)transcription regulatory region DNA binding0.0000000004270Highly InformativeDirect
Cellular Component (CC)macromolecular complex10.3639Least InformativeInherited
Cellular Component (CC)protein-DNA complex0.0007850InformativeDirect

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 0.000000000002427 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.00002262 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular developmental process 0.00000007667 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) single organism signaling 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.4938 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) system development 0.006229 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.05134 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.1882 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 0.5297 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.074 Moderately Informative Inherited
Biological Process (BP) gene expression 0.8387 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.5845 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.02744 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-templated 0.00001241 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.000000000006888 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.000002355 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.0007837 Informative Direct
Biological Process (BP) regulation of nervous system development 0.0001346 Informative Direct
Biological Process (BP) positive regulation of signal transduction 0.4331 Informative Inherited
Biological Process (BP) movement of cell or subcellular component 0.1835 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.2483 Informative Inherited
Biological Process (BP) locomotion 0.482 Informative Inherited
Biological Process (BP) cell development 0.3004 Informative Inherited
Biological Process (BP) negative regulation of cell communication 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.4702 Informative Inherited
Biological Process (BP) cell death 0.07754 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.7896 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.9291 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.00871 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.1507 Informative Inherited
Biological Process (BP) regulation of cell differentiation 0.1822 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 1 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) reproductive system development 1 Informative Inherited
Biological Process (BP) generation of neurons 0.8599 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.8586 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.136 Informative Inherited
Biological Process (BP) cellular response to lipid 0.001737 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.1555 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.7344 Informative Inherited
Biological Process (BP) system process 0.02805 Informative Inherited
Biological Process (BP) behavior 0.1238 Informative Inherited
Biological Process (BP) tissue development 0.2681 Informative Inherited
Biological Process (BP) embryo development 0.9616 Informative Inherited
Biological Process (BP) kidney development 0.00008178 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0.0007203 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.00001208 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.0000001629 Highly Informative Direct
Biological Process (BP) regulation of membrane potential 0.00006992 Highly Informative Direct
Biological Process (BP) regulation of binding 0.00002828 Highly Informative Direct
Biological Process (BP) positive regulation of nervous system development 0.0000729 Highly Informative Direct
Biological Process (BP) cellular response to steroid hormone stimulus 0.0004372 Highly Informative Direct
Biological Process (BP) positive regulation of cell development 0.03562 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.02822 Highly Informative Inherited
Biological Process (BP) neuron development 0.01681 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 0.005672 Highly Informative Inherited
Biological Process (BP) apoptotic process 0.1115 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.002415 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular component biogenesis 0.1448 Highly Informative Inherited
Biological Process (BP) sex differentiation 0.04952 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.05289 Highly Informative Inherited
Biological Process (BP) single-organism behavior 0.002442 Highly Informative Inherited
Biological Process (BP) neurological system process 0.004303 Highly Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 1 Highly Informative Inherited
Molecular Function (MF) binding 0.00001551 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) transcription factor activity, sequence-specific DNA binding 0 Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.000000000004353 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.0002296 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000013 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.00000000003777 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.01846 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) macromolecular complex 0.3639 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.000712 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.03108 Moderately Informative Inherited
Cellular Component (CC) protein-DNA complex 0 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Hydro-lyases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.08699Least InformativeInherited
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.04782Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.06599Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.1297Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology0.169Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.2745Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.2972Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.4021Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.01137InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.03024InformativeInherited
Mammalian Phenotype (MP)abnormal liver physiology0.09211InformativeInherited
Mammalian Phenotype (MP)abnormal cerebral hemisphere morphology0.4109InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.002034Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.006293Highly InformativeInherited
Mammalian Phenotype (MP)abnormal neurocranium morphology0.08856Highly InformativeInherited
Mammalian Phenotype (MP)neuron degeneration0.1198Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism segment morphology variant0.01037Moderately InformativeInherited
Worm Phenotype (WP)male morphology variant0.00007126InformativeDirect
Worm Phenotype (WP)tail morphology variant0.001209InformativeInherited
Worm Phenotype (WP)male tail morphology variant0.000004116Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)sensory perception defective0.0007106InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)integumentary system0Least InformativeDirect
Fly Anatomy (FA)nervous system0Least InformativeDirect
Fly Anatomy (FA)multi-tissue structure0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)anatomical group0.0805Least InformativeInherited
Fly Anatomy (FA)larva0.1538Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)adult segment0Moderately InformativeDirect
Fly Anatomy (FA)central nervous system0Moderately InformativeDirect
Fly Anatomy (FA)neuron0Moderately InformativeDirect
Fly Anatomy (FA)ganglion0Moderately InformativeDirect
Fly Anatomy (FA)adult integumentary system0Moderately InformativeDirect
Fly Anatomy (FA)appendage0Moderately InformativeDirect
Fly Anatomy (FA)tagmatic subdivision of integument0Moderately InformativeDirect
Fly Anatomy (FA)multi-cell-component structure0.0003955Moderately InformativeDirect
Fly Anatomy (FA)larval tagma0.006689Moderately InformativeInherited
Fly Anatomy (FA)cell cluster organ0.01577Moderately InformativeInherited
Fly Anatomy (FA)adult nervous system0.01668Moderately InformativeInherited
Fly Anatomy (FA)sense organ0.03091Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.05252Moderately InformativeInherited
Fly Anatomy (FA)adult head0.1138Moderately InformativeInherited
Fly Anatomy (FA)chemosensory system0.000008383InformativeDirect
Fly Anatomy (FA)synaptic neuropil0.00001917InformativeDirect
Fly Anatomy (FA)adult external head0.0002203InformativeDirect
Fly Anatomy (FA)larval abdomen0.0008126InformativeDirect
Fly Anatomy (FA)adult head segment0.002167InformativeInherited
Fly Anatomy (FA)adult central nervous system0.008986InformativeInherited
Fly Anatomy (FA)brain0.009833InformativeInherited
Fly Anatomy (FA)procephalic segment0.01796InformativeInherited
Fly Anatomy (FA)interneuron0.01828InformativeInherited
Fly Anatomy (FA)neuromere0.03822InformativeInherited
Fly Anatomy (FA)antennal lobe glomerulus VA1v0.000000003563Highly InformativeDirect
Fly Anatomy (FA)eo neuron0.000001395Highly InformativeDirect
Fly Anatomy (FA)unilateral ACT relay interneuron0.000003233Highly InformativeDirect
Fly Anatomy (FA)antennal lobe projection neuron iPN0.000003233Highly InformativeDirect
Fly Anatomy (FA)maxillary palpus0.000003271Highly InformativeDirect
Fly Anatomy (FA)sensillum basiconicum0.00007674Highly InformativeDirect
Fly Anatomy (FA)chemosensory neuron0.00109Highly InformativeInherited
Fly Anatomy (FA)olfactory sensory organ0.09783Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.2209Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.326Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.7015Least InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.1915Moderately InformativeInherited
Zebrafish Anatomy (ZA)forebrain0.001031InformativeInherited
Zebrafish Anatomy (ZA)digestive system0.1472InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.1045Least InformativeInherited
Xenopus ANatomical entity (XAN)nervous system0.248Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.4225Least InformativeInherited
Xenopus ANatomical entity (XAN)head1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.009302Moderately InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.3571Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.7237Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.865Moderately InformativeInherited
Xenopus ANatomical entity (XAN)visual system0.9524Moderately InformativeInherited
Xenopus ANatomical entity (XAN)neuroectoderm0.00003471InformativeDirect
Xenopus ANatomical entity (XAN)retina0.02554InformativeInherited
Xenopus ANatomical entity (XAN)anatomical space0.0355InformativeInherited
Xenopus ANatomical entity (XAN)kidney0.9045InformativeInherited
Xenopus ANatomical entity (XAN)presumptive midbrain-hindbrain boundary0.000001068Highly InformativeDirect
Xenopus ANatomical entity (XAN)chordal neural plate0.000003455Highly InformativeDirect
Xenopus ANatomical entity (XAN)pronephric tubule0.00004223Highly InformativeDirect
Xenopus ANatomical entity (XAN)neurogenic placode0.0006506Highly InformativeDirect
Xenopus ANatomical entity (XAN)midbrain-hindbrain boundary0.0007499Highly InformativeDirect
Xenopus ANatomical entity (XAN)retinal neural layer0.001817Highly InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence meristem0Moderately InformativeDirect
Plant ANatomical entity (PAN)cotyledon0Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Carbon-oxygen lyases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.6599Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups1Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases1Moderately InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDifferentiation0.0000006559Moderately InformativeDirect
Biological processCarbohydrate metabolism1Moderately InformativeInherited
Biological processPurine biosynthesis0InformativeDirect
Biological processCell shape0.00000000000019InformativeDirect
Biological processNeurogenesis0.0000001244InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentMembrane1Least InformativeInherited
Cellular componentCell membrane0.9569Moderately InformativeInherited
Cellular componentCell inner membrane0.00003673InformativeDirect
Developmental stageEarly protein0.0000000001575Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainSignal-anchor0InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.0002828Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism0.003138Least InformativeInherited
UniPathway (UP)NAD(+) biosynthesis0.0000002778InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR010982 SSF47413 Protein matches
Abstract

Bacteriophage lambda C1 repressor controls the expression of viral genes as part of the lysogeny/lytic growth switch. C1 is essential for maintaining lysogeny, where the phage replicates non-disruptively along with the host. If the host cell is threatened, then lytic growth is induced. The Lambda C1 repressor consists of two domains connected by a linker: an N-terminal DNA-binding domain that also mediates interactions with RNA polymerase, and a C-terminal dimerisation domain [PubMed10892750]. The DNA-binding domain consists of four helices in a closed folded leaf motif. Several different phage repressors from different helix-turn-helix families contain DNA-binding domains that adopt a similar topology. These include the Lambda Cro repressor, Bacteriophage 434 C1 and Cro repressors, P22 C2 repressor, and Bacteriophage Mu Ner protein.

The DNA-binding domain of Bacillus subtilis spore inhibition repressor SinR is identical to that of phage repressors [PubMed9799632]. SinR represses sporulation, which only occurs in response to adverse conditions. This provides a possible evolutionary link between the two adaptive responses of bacterial sporulation and prophage induction.

Other DNA-binding domains also display similar structural folds to that of Lambda C1. These include bacterial regulators such as the purine repressor (PurR), the lactose repressor (Lacr) and the fructose repressor (FruR), each of which has an N-terminal DNA-binding domain that exhibits a fold similar to that of lambda C1, except that they lack the first helix [PubMed7973627, PubMed10700279, PubMed9237914]. POU-specific domains found in transcription factors such as in Oct-1, Pit-1 and Hepatocyte nuclear factor 1a (LFB1/HNF1) display four-helical fold DNA-binding domains similar to that of Lambda C1 [PubMed11583619, PubMed9009203, PubMed12453420]. The N-terminal domain of cyanase has an alpha-helix bundle motif similar to Lambda C1, but it probably does not bind DNA. Cyanase is an enzyme found in bacteria and plants that catalyses the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide in response to extracellular cyanate [PubMed10801492].


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) · 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

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 43 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 lambda repressor-like DNA-binding domains 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 43 hidden Markov models representing the lambda repressor-like DNA-binding domains superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


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