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2.A.40.1.1
Uracil permease, UraA. The crystal structure of UraA with bound uracil at 2.8 Å resolution is available (PDB: 3QE7) (Lu et al., 2011). UraA has a novel structural fold, with 14 TMSs divided into two inverted repeats. A pair of antiparallel β-strands is located between TMS3 and TMS10 and has an important role in structural organization and substrate recognition. The structure is spatially arranged into a core domain and a gate domain. Uracil, located at the interface between the two domains, is coordinated mainly by residues from the core domain. Structural analysis suggests that alternating access of the substrate may be achieved through conformational changes of the gate domain.  Multiscale molecular dynamics simulations of the UraA symporter in phospholipid bilayers revealed a closed state with 3 high affinity binding sites for cardolipin (Kalli et al. 2015).The crystal structure of UraA bound to uracil in an occluded state at 2.5 A resolution (Yu et al. 2017). UraA shows substantial motions between the core domain and the gate domain as well as intra-domain rearrangements of the gate domain. The occluded UraA forms a dimer wherein the gate domains are sandwiched by two core domains. Dimer formation is necessary for transport activity (Yu et al. 2017).

Accession Number:P0AGM7
Protein Name:Uracil permease UraA aka B2497
Length:429
Molecular Weight:45060.00
Species:Escherichia coli [83333]
Number of TMSs:13
Location1 / Topology2 / Orientation3: Cell inner membrane1 / Multi-pass membrane protein2
Substrate Uracil

Cross database links:

Genevestigator: P0AGM7
EchoBASE: EB2050
EcoGene: EG12129
eggNOG: COG2233
HEGENOM: HBG470187
RefSeq: AP_003083.1    NP_416992.1   
Entrez Gene ID: 946978   
Pfam: PF00860   
BioCyc: EcoCyc:URAA-MONOMER    ECOL168927:B2497-MONOMER   
KEGG: ecj:JW2482    eco:b2497   

Gene Ontology

GO:0016021 C:integral to membrane
GO:0005886 C:plasma membrane
GO:0005215 F:transporter activity
GO:0055085 P:transmembrane transport

References (5)

[1] “Uracil uptake in Escherichia coli K-12: isolation of uraA mutants and cloning of the gene.”  Andersen P.S.et.al.   7721693
[2] “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.et.al.   9205837
[3] “The complete genome sequence of Escherichia coli K-12.”  Blattner F.R.et.al.   9278503
[4] “Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110.”  Hayashi K.et.al.   16738553
[5] “Global topology analysis of the Escherichia coli inner membrane proteome.”  Daley D.O.et.al.   15919996
Structure:
3QE7     

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Predict TMSs (Predict number of transmembrane segments)
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FASTA formatted sequence
1:	MTRRAIGVSE RPPLLQTIPL SLQHLFAMFG ATVLVPVLFH INPATVLLFN GIGTLLYLFI 
61:	CKGKIPAYLG SSFAFISPVL LLLPLGYEVA LGGFIMCGVL FCLVSFIVKK AGTGWLDVLF 
121:	PPAAMGAIVA VIGLELAGVA AGMAGLLPAE GQTPDSKTII ISITTLAVTV LGSVLFRGFL 
181:	AIIPILIGVL VGYALSFAMG IVDTTPIINA HWFALPTLYT PRFEWFAILT ILPAALVVIA 
241:	EHVGHLVVTA NIVKKDLLRD PGLHRSMFAN GLSTVISGFF GSTPNTTYGE NIGVMAITRV 
301:	YSTWVIGGAA IFAILLSCVG KLAAAIQMIP LPVMGGVSLL LYGVIGASGI RVLIESKVDY 
361:	NKAQNLILTS VILIIGVSGA KVNIGAAELK GMALATIVGI GLSLIFKLIS VLRPEEVVLD 
421:	AEDADITDK