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Protein

UPF0053 inner membrane protein YfjD

Gene

yfjD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  1. adenyl nucleotide binding Source: InterPro
  2. flavin adenine dinucleotide binding Source: InterPro
  3. oxidoreductase activity, acting on CH-OH group of donors Source: InterPro
Complete GO annotation...

Enzyme and pathway databases

BioCyciEcoCyc:G7356-MONOMER.
ECOL316407:JW5415-MONOMER.
RETL1328306-WGS:GSTH-3906-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
UPF0053 inner membrane protein YfjD
Gene namesi
Name:yfjD
Synonyms:ypjE
Ordered Locus Names:b4461, JW5415
ORF Names:b2612/b2613
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG12442. yfjD.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 33CytoplasmicSequence Analysis
Transmembranei4 – 2421HelicalSequence AnalysisAdd
BLAST
Topological domaini25 – 6440PeriplasmicSequence AnalysisAdd
BLAST
Transmembranei65 – 8521HelicalSequence AnalysisAdd
BLAST
Topological domaini86 – 916CytoplasmicSequence Analysis
Transmembranei92 – 11221HelicalSequence AnalysisAdd
BLAST
Topological domaini113 – 12917PeriplasmicSequence AnalysisAdd
BLAST
Transmembranei130 – 15021HelicalSequence AnalysisAdd
BLAST
Topological domaini151 – 428278CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
  2. plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 428428UPF0053 inner membrane protein YfjDPRO_0000088357Add
BLAST

Proteomic databases

PRIDEiP37908.

Expressioni

Gene expression databases

GenevestigatoriP37908.

Interactioni

Protein-protein interaction databases

DIPiDIP-12070N.
IntActiP37908. 2 interactions.
MINTiMINT-1274766.
STRINGi511145.b4461.

Structurei

3D structure databases

ProteinModelPortaliP37908.
SMRiP37908. Positions 190-416.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini9 – 183175DUF21Add
BLAST
Domaini208 – 27063CBS 1PROSITE-ProRule annotationAdd
BLAST
Domaini272 – 33261CBS 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the UPF0053 family.Curated
Contains 2 CBS domains.PROSITE-ProRule annotation
Contains 1 DUF21 domain.Curated

Keywords - Domaini

CBS domain, Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG4536.
HOGENOMiHOG000062298.
InParanoidiP37908.
OMAiMSINRYK.
OrthoDBiEOG60W7V4.
PhylomeDBiP37908.

Family and domain databases

Gene3Di3.30.465.10. 1 hit.
InterProiIPR000644. CBS_dom.
IPR016169. CO_DH_flavot_FAD-bd_sub2.
IPR002550. DUF21.
IPR016166. FAD-bd_2.
IPR005170. Transptr-assoc_dom.
[Graphical view]
PfamiPF00571. CBS. 1 hit.
PF03471. CorC_HlyC. 1 hit.
PF01595. DUF21. 1 hit.
[Graphical view]
SMARTiSM00116. CBS. 1 hit.
SM01091. CorC_HlyC. 1 hit.
[Graphical view]
SUPFAMiSSF56176. SSF56176. 1 hit.
PROSITEiPS51371. CBS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P37908-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MEHISTTTLI IILIIMVVIS AYFSGSETGM MTLNRYRLRH MAKQGNRSAK
60 70 80 90 100
RVEKLLRKPD RLISLVLIGN NLVNILASAL GTIVGMRLYG DAGVAIATGV
110 120 130 140 150
LTFVVLVFAE VLPKTIAALY PEKVAYPSSF LLAPLQILMM PLVWLLNAIT
160 170 180 190 200
RMLMRMMGIK TDIVVSGSLS KEELRTIVHE SRSQISRRNQ DMLLSVLDLE
210 220 230 240 250
KMTVDDIMVP RSEIIGIDIN DDWKSILRQL SHSPHGRIVL YRDSLDDAIS
260 270 280 290 300
MLRVREAWRL MSEKKEFTKE TMLRAADEIY FVPEGTPLST QLVKFQRNKK
310 320 330 340 350
KVGLVVNEYG DIQGLVTVED ILEEIVGDFT TSMSPTLAEE VTPQNDGSVI
360 370 380 390 400
IDGTANVREI NKAFNWHLPE DDARTVNGVI LEALEEIPVA GTRVRIGEYD
410 420
IDILDVQDNM IKQVKVFPVK PLRESVAE
Length:428
Mass (Da):48,044
Last modified:July 10, 2007 - v5
Checksum:i38456865EDBCB151
GO

Sequence cautioni

The sequence BAA16497.2 differs from that shown. Reason: Erroneous initiation. Curated
The sequence X07863 differs from that shown. Reason: Frameshift at positions 326, 331 and 348. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAT48144.3.
AP009048 Genomic DNA. Translation: BAA16497.2. Different initiation.
X07863 Genomic DNA. No translation available.
RefSeqiYP_026171.3. NC_000913.3.
YP_490835.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAT48144; AAT48144; b4461.
BAA16497; BAA16497; BAA16497.
GeneIDi12931626.
2847739.
KEGGiecj:Y75_p2560.
eco:b4461.
PATRICi32120623. VBIEscCol129921_2710.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAT48144.3.
AP009048 Genomic DNA. Translation: BAA16497.2. Different initiation.
X07863 Genomic DNA. No translation available.
RefSeqiYP_026171.3. NC_000913.3.
YP_490835.1. NC_007779.1.

3D structure databases

ProteinModelPortaliP37908.
SMRiP37908. Positions 190-416.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-12070N.
IntActiP37908. 2 interactions.
MINTiMINT-1274766.
STRINGi511145.b4461.

Proteomic databases

PRIDEiP37908.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAT48144; AAT48144; b4461.
BAA16497; BAA16497; BAA16497.
GeneIDi12931626.
2847739.
KEGGiecj:Y75_p2560.
eco:b4461.
PATRICi32120623. VBIEscCol129921_2710.

Organism-specific databases

EchoBASEiEB2336.
EcoGeneiEG12442. yfjD.

Phylogenomic databases

eggNOGiCOG4536.
HOGENOMiHOG000062298.
InParanoidiP37908.
OMAiMSINRYK.
OrthoDBiEOG60W7V4.
PhylomeDBiP37908.

Enzyme and pathway databases

BioCyciEcoCyc:G7356-MONOMER.
ECOL316407:JW5415-MONOMER.
RETL1328306-WGS:GSTH-3906-MONOMER.

Miscellaneous databases

PROiP37908.

Gene expression databases

GenevestigatoriP37908.

Family and domain databases

Gene3Di3.30.465.10. 1 hit.
InterProiIPR000644. CBS_dom.
IPR016169. CO_DH_flavot_FAD-bd_sub2.
IPR002550. DUF21.
IPR016166. FAD-bd_2.
IPR005170. Transptr-assoc_dom.
[Graphical view]
PfamiPF00571. CBS. 1 hit.
PF03471. CorC_HlyC. 1 hit.
PF01595. DUF21. 1 hit.
[Graphical view]
SMARTiSM00116. CBS. 1 hit.
SM01091. CorC_HlyC. 1 hit.
[Graphical view]
SUPFAMiSSF56176. SSF56176. 1 hit.
PROSITEiPS51371. CBS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Construction of a contiguous 874-kb sequence of the Escherichia coli-K12 genome corresponding to 50.0-68.8 min on the linkage map and analysis of its sequence features."
    Yamamoto Y., Aiba H., Baba T., Hayashi K., Inada T., Isono K., Itoh T., Kimura S., Kitagawa M., Makino K., Miki T., Mitsuhashi N., Mizobuchi K., Mori H., Nakade S., Nakamura Y., Nashimoto H., Oshima T.
    , Oyama S., Saito N., Sampei G., Satoh Y., Sivasundaram S., Tagami H., Takahashi H., Takeda J., Takemoto K., Uehara K., Wada C., Yamagata S., Horiuchi T.
    DNA Res. 4:91-113(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. Cited for: SEQUENCE REVISION.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "Sequence analysis and transcriptional regulation of the Escherichia coli grpE gene, encoding a heat shock protein."
    Lipinska B., King J., Ang D., Georgopoulos C.
    Nucleic Acids Res. 16:7545-7562(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 322-428.
    Strain: B178.
  6. Rudd K.E.
    Unpublished observations (AUG-1994)
    Cited for: IDENTIFICATION.
  7. "Global topology analysis of the Escherichia coli inner membrane proteome."
    Daley D.O., Rapp M., Granseth E., Melen K., Drew D., von Heijne G.
    Science 308:1321-1323(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: TOPOLOGY [LARGE SCALE ANALYSIS].
    Strain: K12 / MG1655 / ATCC 47076.

Entry informationi

Entry nameiYFJD_ECOLI
AccessioniPrimary (citable) accession number: P37908
Secondary accession number(s): P76600
, P76601, P77009, Q6BF70
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: July 10, 2007
Last modified: January 7, 2015
This is version 123 of the entry and version 5 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families
  3. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

External Data

Dasty 3

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 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.