HHsearch alignment for GI: 254780810 and conserved domain: TIGR02857
>TIGR02857 CydD ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD; InterPro: IPR014216 The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain and a C-terminal ATP-binding domain. In Escherichia coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in the export of redox-active thiol compounds such as cysteine and glutathione , . The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this entry are all either found in the gammaproteobacterial context, or the CydABCD context. All members of this entry scoring above the trusted cut off at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature, based on this operon in Bacillus subtilis, assigns cydC to the third gene in the operon, where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologues in this family in accordance with the precedence of publication of the E. coli name, CydD..
Probab=95.05 E-value=0.017 Score=35.56 Aligned_cols=129 Identities=17% Similarity=0.254 Sum_probs=70.9
Q ss_pred HHHCCCCHHHCCCCC-CCCC-CCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCE
Q ss_conf 851244300020001-1223-43247786532136888998865510231222048778789999999999861188646
Q gi|254780810|r 129 RVRNKIHFDNLTPLY-PDKR-FNMELNNPENKDISSRVIDLIAPIGKGQRSLIVAPPRTGKTILLQNIAHSIKKNHPECY 206 (423)
Q Consensus 129 ~~~~~~~f~~l~p~~-p~~~-i~le~~~~~p~~~~~~~id~~~pig~gqr~~i~~~~~~gkt~ll~~ia~~~~~~~~~v~ 206 (423)
T Consensus 345 G~~P~l~~~~v~~~y~~G~~~pa~-----~~~s---------f~~~pG~~vAl~G~SGaGKSTLL~lLLGf~~P~-~G-- 407 (570)
T TIGR02857 345 GADPSLEFEGVSVAYAPGRDEPAL-----RPVS---------FTVEPGERVALVGPSGAGKSTLLNLLLGFVEPT-EG-- 407 (570)
T ss_pred CCCCEEEEEEEEEECCCCCHHHCC-----CCCC---------EEECCCCEEEEEECCCCCHHHHHHHHHCCCCCC-CC--
T ss_conf 998407887516862788801037-----8854---------166387048886279997889999997157644-64--
Q ss_pred EEEEEC----CCCHHHHHHHHHH-HC-------------------CEEEECCCCCCHHHHHHHHHHHH-HHHHHHHHCCC
Q ss_conf 999950----8787899999984-03-------------------42782366788889999999999-99999997799
Q gi|254780810|r 207 LIVLLI----DERPEEVTDMQRS-VQ-------------------GEVISSTFDESAARHVQVAEMVI-AKAKCLVEYGL 261 (423)
Q Consensus 207 ~i~~li----gEr~~ev~e~~~~-~~-------------------~~vv~st~d~~~~~~~~~a~~a~-~~a~~~~e~G~ 261 (423)
T Consensus 408 ~--i~v~~~Gg~~G~~L~~~~~~W~W~~~iaWv~Q~P~l~~gtiaeNi~La~~~A~~~~~~~A~~~agl~~~~~~LP~Gl 485 (570)
T TIGR02857 408 A--IVVERDGGINGVPLAEADADWSWRDQIAWVPQHPFLFAGTIAENIRLARPDASDAEIREALERAGLDEFVAALPQGL 485 (570)
T ss_pred E--EEEECCCCCCCCCCCCCCHHHHHHHCEEEECCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 6--88744888539764211310225541343056660136479999973489999899999999972899999711131
Q ss_pred CEEEEEECHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 2899981638987762001366777677752
Q gi|254780810|r 262 DVVILLDSITRLCRAYNVLMPSSGKILTGGV 292 (423)
Q Consensus 262 dVll~~DslTR~ArA~~~~~~~~g~~~~gg~ 292 (423)
T Consensus 486 ~----------------t~~Ge~G~GLSGGq 500 (570)
T TIGR02857 486 D----------------TPIGEGGAGLSGGQ 500 (570)
T ss_pred C----------------CCCCCCCCCCCHHH
T ss_conf 3----------------43588888477999