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Protein

Uncharacterized HTH-type transcriptional regulator YydK

Gene

yydK

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

Functioni

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi29 – 4820H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciBSUB:BSU40130-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Uncharacterized HTH-type transcriptional regulator YydK
Gene namesi
Name:yydK
Ordered Locus Names:BSU40130
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 236236Uncharacterized HTH-type transcriptional regulator YydKPRO_0000050692Add
BLAST

Proteomic databases

PaxDbiQ45591.

Interactioni

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100021641.

Structurei

Secondary structure

1
236
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi6 – 1712Combined sources
Helixi29 – 357Combined sources
Helixi40 – 5213Combined sources
Beta strandi55 – 595Combined sources
Turni60 – 623Combined sources
Beta strandi63 – 664Combined sources
Beta strandi75 – 784Combined sources
Helixi79 – 813Combined sources
Beta strandi92 – 10211Combined sources
Helixi106 – 1127Combined sources
Beta strandi120 – 12910Combined sources
Beta strandi132 – 14211Combined sources
Turni143 – 1453Combined sources
Helixi151 – 1544Combined sources
Helixi158 – 1647Combined sources
Beta strandi170 – 18112Combined sources
Helixi184 – 1907Combined sources
Beta strandi196 – 20712Combined sources
Beta strandi212 – 2209Combined sources
Turni222 – 2243Combined sources
Beta strandi227 – 2315Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3BWGX-ray2.09A/B/C1-236[»]
ProteinModelPortaliQ45591.
SMRiQ45591. Positions 1-232.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ45591.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 6969HTH gntR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4108S3Y. Bacteria.
COG2188. LUCA.
HOGENOMiHOG000279750.
InParanoidiQ45591.
KOiK03489.
OMAiIFHYIRE.
OrthoDBiEOG6N683W.
PhylomeDBiQ45591.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.40.1410.10. 1 hit.
InterProiIPR028978. Chorismate_lyase_/UTRA_dom.
IPR000524. Tscrpt_reg_HTH_GntR.
IPR011663. UTRA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00392. GntR. 1 hit.
PF07702. UTRA. 1 hit.
[Graphical view]
SMARTiSM00345. HTH_GNTR. 1 hit.
SM00866. UTRA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF64288. SSF64288. 1 hit.
PROSITEiPS50949. HTH_GNTR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q45591-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLKYQQIATE IETYIEEHQL QQGDKLPVLE TLMAQFEVSK STITKSLELL
60 70 80 90 100
EQKGAIFQVR GSGIFVRKHK RKGYISLLSN QGFKKDLEDF NVTSKVIELD
110 120 130 140 150
VRKPTPEAAE NLNIGMDEDI YYVKRVRYIN GQTLCYEESY YTKSIVTYLN
160 170 180 190 200
NEIVSHSIFH YIREGLGLKI GFSDLFLHVG QLNEEEAEYL GLEAGLPKLY
210 220 230
IESIFHLTNG QPFDYSKISY NYEQSQFVVQ ANSFLL
Length:236
Mass (Da):27,279
Last modified:April 3, 2002 - v2
Checksum:iB6877ECA5A3858DA
GO

Sequence cautioni

The sequence BAA11271.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D78193 Genomic DNA. Translation: BAA11271.1. Different initiation.
AL009126 Genomic DNA. Translation: CAB16050.1.
PIRiA70092.
RefSeqiNP_391893.1. NC_000964.3.
WP_003226988.1. NZ_JNCM01000034.1.

Genome annotation databases

EnsemblBacteriaiCAB16050; CAB16050; BSU40130.
GeneIDi937726.
KEGGibsu:BSU40130.
PATRICi18980096. VBIBacSub10457_4210.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D78193 Genomic DNA. Translation: BAA11271.1. Different initiation.
AL009126 Genomic DNA. Translation: CAB16050.1.
PIRiA70092.
RefSeqiNP_391893.1. NC_000964.3.
WP_003226988.1. NZ_JNCM01000034.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3BWGX-ray2.09A/B/C1-236[»]
ProteinModelPortaliQ45591.
SMRiQ45591. Positions 1-232.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100021641.

Proteomic databases

PaxDbiQ45591.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB16050; CAB16050; BSU40130.
GeneIDi937726.
KEGGibsu:BSU40130.
PATRICi18980096. VBIBacSub10457_4210.

Phylogenomic databases

eggNOGiENOG4108S3Y. Bacteria.
COG2188. LUCA.
HOGENOMiHOG000279750.
InParanoidiQ45591.
KOiK03489.
OMAiIFHYIRE.
OrthoDBiEOG6N683W.
PhylomeDBiQ45591.

Enzyme and pathway databases

BioCyciBSUB:BSU40130-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ45591.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.40.1410.10. 1 hit.
InterProiIPR028978. Chorismate_lyase_/UTRA_dom.
IPR000524. Tscrpt_reg_HTH_GntR.
IPR011663. UTRA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00392. GntR. 1 hit.
PF07702. UTRA. 1 hit.
[Graphical view]
SMARTiSM00345. HTH_GNTR. 1 hit.
SM00866. UTRA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF64288. SSF64288. 1 hit.
PROSITEiPS50949. HTH_GNTR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence analysis of the 36-kb region between gntZ and trnY genes of Bacillus subtilis genome."
    Kasahara Y., Nakai S., Ogasawara N.
    DNA Res. 4:155-159(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 nameiYYDK_BACSU
AccessioniPrimary (citable) accession number: Q45591
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 3, 2002
Last sequence update: April 3, 2002
Last modified: February 17, 2016
This is version 108 of the entry and version 2 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.