P37908 (YFJD_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
UPF0053 inner membrane protein YfjD

Gene names

Name:	yfjD
Synonyms:	ypjE
Ordered Locus Names:	b4461, JW5415
ORF Names:	b2612/b2613

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia › Escherichia coli

Protein attributes

Sequence length	428 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Subcellular location	Cell inner membrane; Multi-pass membrane protein.
Sequence similarities	Belongs to the UPF0053 family. Contains 2 CBS domains. Contains 1 DUF21 domain.
Sequence caution	The sequence BAA16497.2 differs from that shown. Reason: Erroneous initiation. The sequence X07863 differs from that shown. Reason: Frameshift at positions 326, 331 and 348.

Ontologies

Keywords
Cellular component	Cell inner membrane Cell membrane Membrane
Domain	CBS domain Repeat Transmembrane Transmembrane helix
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	flavin adenine dinucleotide binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 428	428	UPF0053 inner membrane protein YfjD		PRO_0000088357
Regions
	Topological domain	1 – 3	3	Cytoplasmic Potential
	Transmembrane	4 – 24	21	Helical; Potential
	Topological domain	25 – 64	40	Periplasmic Potential
	Transmembrane	65 – 85	21	Helical; Potential
	Topological domain	86 – 91	6	Cytoplasmic Potential
	Transmembrane	92 – 112	21	Helical; Potential
	Topological domain	113 – 129	17	Periplasmic Potential
	Transmembrane	130 – 150	21	Helical; Potential
	Topological domain	151 – 428	278	Cytoplasmic Potential
	Domain	9 – 183	175	DUF21
	Domain	208 – 270	63	CBS 1
	Domain	272 – 332	61	CBS 2

Sequences

	Sequence		Length	Mass (Da)
	P37908 [UniParc]. Last modified July 10, 2007. Version 5. Checksum: 38456865EDBCB151	FASTA	428	48,044
	10 20 30 40 50 60 MEHISTTTLI IILIIMVVIS AYFSGSETGM MTLNRYRLRH MAKQGNRSAK RVEKLLRKPD 70 80 90 100 110 120 RLISLVLIGN NLVNILASAL GTIVGMRLYG DAGVAIATGV LTFVVLVFAE VLPKTIAALY 130 140 150 160 170 180 PEKVAYPSSF LLAPLQILMM PLVWLLNAIT RMLMRMMGIK TDIVVSGSLS KEELRTIVHE 190 200 210 220 230 240 SRSQISRRNQ DMLLSVLDLE KMTVDDIMVP RSEIIGIDIN DDWKSILRQL SHSPHGRIVL 250 260 270 280 290 300 YRDSLDDAIS MLRVREAWRL MSEKKEFTKE TMLRAADEIY FVPEGTPLST QLVKFQRNKK 310 320 330 340 350 360 KVGLVVNEYG DIQGLVTVED ILEEIVGDFT TSMSPTLAEE VTPQNDGSVI IDGTANVREI 370 380 390 400 410 420 NKAFNWHLPE DDARTVNGVI LEALEEIPVA GTRVRIGEYD IDILDVQDNM IKQVKVFPVK PLRESVAE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"Escherichia coli K-12: a cooperatively developed annotation snapshot -- 2005." Riley M., Abe T., Arnaud M.B., Berlyn M.K.B., Blattner F.R., Chaudhuri R.R., Glasner J.D., Horiuchi T., Keseler I.M., Kosuge T., Mori H., Perna N.T., Plunkett G. III, Rudd K.E., Serres M.H., Thomas G.H., Thomson N.R., Wishart D., Wanner B.L. Nucleic Acids Res. 34:1-9(2006) [PubMed] [Europe PMC] [Abstract] 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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U00096 Genomic DNA. Translation: AAT48144.3. AP009048 Genomic DNA. Translation: BAA16497.2. Different initiation. X07863 Genomic DNA. No translation available.
RefSeq	YP_026171.3. NC_000913.2. YP_490835.1. NC_007779.1.
3D structure databases
ProteinModelPortal	P37908.
SMR	P37908. Positions 201-327, 344-416.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-12070N.
IntAct	P37908. 1 interaction.
MINT	MINT-1274766.
STRING	511145.b4461.
Proteomic databases
PRIDE	P37908.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAT48144; AAT48144; b4461. BAA16497; BAA16497; BAA16497.
GeneID	12931626. 2847739.
KEGG	ecj:Y75_p2560. eco:b4461.
PATRIC	32120623. VBIEscCol129921_2710.
Organism-specific databases
EchoBASE	EB2336.
EcoGene	EG12442. yfjD.
Phylogenomic databases
eggNOG	COG4536.
HOGENOM	HOG000062298.
OMA	VENTESW.
ProtClustDB	PRK11573.
Enzyme and pathway databases
BioCyc	EcoCyc:G7356-MONOMER. ECOL316407:JW5415-MONOMER.
Gene expression databases
Genevestigator	P37908.
Family and domain databases
Gene3D	3.30.465.10. 1 hit.
InterPro	IPR016169. CO_DH_flavot_FAD-bd_sub2. IPR000644. Cysta_beta_synth_core. IPR002550. DUF21. IPR005170. Transptr-assoc_dom. [Graphical view]
Pfam	PF00571. CBS. 1 hit. PF03471. CorC_HlyC. 1 hit. PF01595. DUF21. 1 hit. [Graphical view]
SMART	SM00116. CBS. 1 hit. SM01091. CorC_HlyC. 1 hit. [Graphical view]
PROSITE	PS51371. CBS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

YFJD_ECOLI

Accession

Primary (citable) accession number: P37908
Secondary accession number(s): P76600 , P76601, P77009, Q6BF70

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1994
Last sequence update:	July 10, 2007
Last modified:	May 1, 2013
This is version 109 of the entry and version 5 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program