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Protein

Uncharacterized HTH-type transcriptional regulator YtcD

Gene

ytcD

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciBSUB:BSU29030-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Uncharacterized HTH-type transcriptional regulator YtcD
Gene namesi
Name:ytcD
Ordered Locus Names:BSU29030
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 126126Uncharacterized HTH-type transcriptional regulator YtcDPRO_0000148888Add
BLAST

Proteomic databases

PaxDbiO34533.

Interactioni

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100015836.

Structurei

Secondary structure

1
126
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi10 – 178Combined sources
Helixi22 – 298Combined sources
Helixi36 – 427Combined sources
Helixi48 – 6013Combined sources
Beta strandi63 – 697Combined sources
Beta strandi71 – 733Combined sources
Beta strandi75 – 806Combined sources
Helixi84 – 874Combined sources
Helixi88 – 10215Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2HZTX-ray2.00A/B/C/D10-105[»]
ProteinModelPortaliO34533.
SMRiO34533. Positions 10-104.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO34533.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini8 – 10699HTH hxlR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 HTH hxlR-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4105KVH. Bacteria.
COG1733. LUCA.
HOGENOMiHOG000293547.
InParanoidiO34533.
OMAiCPARLAV.
OrthoDBiEOG622PS8.
PhylomeDBiO34533.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR002577. HTH_HxlR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01638. HxlR. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS51118. HTH_HXLR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O34533-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEKKKYNISV EATLEVIGGK WKCVILCHLT HGKKRTSELK RLMPNITQKM
60 70 80 90 100
LTQQLRELEA DGVINRIVYN QVPPKVEYEL SEYGRSLEGI LDMLCAWGAN
110 120
HINRVYGDTF SVLEESVLND KLKQES
Length:126
Mass (Da):14,495
Last modified:January 1, 1998 - v1
Checksum:i3DB8CC2168249AD4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF008220 Genomic DNA. Translation: AAC00354.1.
AL009126 Genomic DNA. Translation: CAB14863.1.
PIRiB69989.
RefSeqiNP_390781.1. NC_000964.3.
WP_003229458.1. NZ_JNCM01000036.1.

Genome annotation databases

EnsemblBacteriaiCAB14863; CAB14863; BSU29030.
GeneIDi936607.
KEGGibsu:BSU29030.
PATRICi18977698. VBIBacSub10457_3037.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF008220 Genomic DNA. Translation: AAC00354.1.
AL009126 Genomic DNA. Translation: CAB14863.1.
PIRiB69989.
RefSeqiNP_390781.1. NC_000964.3.
WP_003229458.1. NZ_JNCM01000036.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2HZTX-ray2.00A/B/C/D10-105[»]
ProteinModelPortaliO34533.
SMRiO34533. Positions 10-104.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100015836.

Proteomic databases

PaxDbiO34533.

Protocols and materials databases

DNASUi936607.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB14863; CAB14863; BSU29030.
GeneIDi936607.
KEGGibsu:BSU29030.
PATRICi18977698. VBIBacSub10457_3037.

Phylogenomic databases

eggNOGiENOG4105KVH. Bacteria.
COG1733. LUCA.
HOGENOMiHOG000293547.
InParanoidiO34533.
OMAiCPARLAV.
OrthoDBiEOG622PS8.
PhylomeDBiO34533.

Enzyme and pathway databases

BioCyciBSUB:BSU29030-MONOMER.

Miscellaneous databases

EvolutionaryTraceiO34533.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR002577. HTH_HxlR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01638. HxlR. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS51118. HTH_HXLR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequencing and functional annotation of the Bacillus subtilis genes in the 200 kb rrnB-dnaB region."
    Lapidus A., Galleron N., Sorokin A., Ehrlich S.D.
    Microbiology 143:3431-3441(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  2. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.

Entry informationi

Entry nameiYTCD_BACSU
AccessioniPrimary (citable) accession number: O34533
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: February 17, 2016
This is version 107 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.