BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0317.p (888 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093636|ref|YP_001098711.1| NAD dependent formate dehydroge... 117 2e-27 gi|134096579|ref|YP_001101654.1| NAD dependent formate dehydroge... 94 3e-20 gi|134093705|ref|YP_001098780.1| putative periplasmic assimilato... 62 1e-10 >gi|134093636|ref|YP_001098711.1| NAD dependent formate dehydrogenase subunit alpha Fdh1A [Herminiimonas arsenicoxydans] Length = 946 Score = 117 bits (294), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 123/525 (23%), Positives = 224/525 (42%), Gaps = 52/525 (9%) Query: 86 RVAAPMVRKSWLARRGADAATRHLRGHEPFVQVSWDEALALVAEAILSTAEQHGNQAL-- 143 R+ P++R++ +RG D R E F + +W+EAL + + HG ++L Sbjct: 282 RLTKPLIRRADAPKRG-DFVMDPDRVMEVFREATWEEALEVAGGNFAKIRDTHGKKSLAG 340 Query: 144 FSSSYGGWSHAGLMRPQVLQGRLFGLIGGHSTTTGDYSGGASQISLPYVIGDMEVYSPQT 203 F S+ G A L + V G FG T +S ++L IG V +P Sbjct: 341 FGSAKGSNEEAYLFQKLVRTG--FGSNNVDHCTR--LCHASSVVALLEGIGSGAVSNPVM 396 Query: 204 SWEVVAAHTDIMVWVGADPIKNNRIEYTVADHQMTENW-KKIRARGVKFISINPQYTATD 262 ++++ +GA+P N H + W K + G K I +P+ T Sbjct: 397 D----VTKAEVVIIIGANPTVN---------HPVAATWIKNAVSNGTKLIVCDPRRTDMA 443 Query: 263 ELLQAEWIKIVPNTDTALFLAMAFHVLSTGRQDQAYLAKYTVGFERFRDYLLGRDADGSP 322 + +++ +TD A+ AM +++ G D+ ++ T+G+E R + G Sbjct: 444 RIAH-RFMQFKADTDVAMLNAMMNVIVTEGLVDKEFIESRTIGYEELRKNVEG------- 495 Query: 323 PKTPEWAAAITGVPAAQIRTLAELFSGPQRVQFAGAWSLQRAHHGEMTHWAIINFAAMVG 382 TPE A I G+ A +R +A L++ + + + HG +I + M G Sbjct: 496 -YTPELMAPICGIDAETLRYVARLYATSKASMILWGMGVSQHIHGTDNARCLIALSLMTG 554 Query: 383 KIGKPGQGVGFSWHYGGGGMVQSNAIMPVGLSQGRNPVTTRCPAS-----RISEMLLNPG 437 +IG+PG G+ ++P+ ++ + A+ +S LL+P Sbjct: 555 QIGRPGTGLHPLRGQNNVQGASDAGLIPMVYPDYQSVSDPKIRANFAKAWNMSVDLLDPE 614 Query: 438 GKYTRDGATHSYPD--VRLIYNAGNNFLSHQQNTNELIRALNRQVPTIICQDPWWCASAR 495 T H+ D +R +Y G N + N AL + ++ QD + +A Sbjct: 615 PGLTVVEIMHAITDGKIRGLYVQGENPAMSDPDANHAREAL-AALDHLVVQDIFLTETAY 673 Query: 496 FADIVLPATSELERNDISSGGTYSN-DKIYAM-RQVIQPYGQSLDDLEIFSRLAGLMGVG 553 AD++LPA++ E+ GT++N D+ M RQ + P G++ DL I ++A +G Sbjct: 674 LADVILPASAFPEKT-----GTFTNTDRTVQMGRQALNPPGEAKQDLWIIQQMANRLGCN 728 Query: 554 YQFTEGKSIMQILTESFQAAQPT---LSFQRFWREGVARLPVPQE 595 + + K + ++ E + P+ ++++R RE P +E Sbjct: 729 WNY---KHVSEVFDE-MRHTMPSIAGITWERLEREDSVTYPCEKE 769 >gi|134096579|ref|YP_001101654.1| NAD dependent formate dehydrogenase subunit alpha fdsA [Herminiimonas arsenicoxydans] Length = 956 Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 129/577 (22%), Positives = 236/577 (40%), Gaps = 112/577 (19%) Query: 47 FKAVVKKGVLVGIQPLPELDATPTTMLTKGVLSRVYS--KTRVAAPMVRKSWLARRGADA 104 FKA +K +V + P P+ A KG + Y+ K R+ PM+R Sbjct: 253 FKAEMKGNEVVRMVPNPDGKANQGHACVKGRFAWGYATHKDRMLKPMIRS---------- 302 Query: 105 ATRHLRGHEPFVQVSWDEALALVAEAILSTAEQHGNQALFSSSYGGWSHAGLMRPQ--VL 162 + +P+ +VSW+EA+ A ++G ++ GG + + ++ Sbjct: 303 -----KISDPWREVSWEEAINYTASEFKRIQAKYGKDSI-----GGLVSSRCTNEEGYLV 352 Query: 163 QGRLFGLIGGHST-TTGDYSGGASQISLPYVIGDMEVYSPQTSWEVVAAHTDIMVWVGAD 221 Q + G ++ T + L +G E QT V+ +D++V +GA+ Sbjct: 353 QKLVRAAFGNNNVDTCARVCHSPTGYGLKVTLG--ESAGTQTFESVM--KSDVIVVIGAN 408 Query: 222 PIKNNRIEYTVADHQMTENWKKIRARGVKFISINPQYT--ATDELLQAEW-IKIVPNTDT 278 P+ + V QM ++IR +G K I ++P+ T +QA++ +K++P T+ Sbjct: 409 PVN----AHPVFASQMK---RRIR-QGAKLIVVDPRTTEMVKSPHVQADYHLKLMPGTNV 460 Query: 279 ALFLAMAFHVLSTGRQDQAYLAKYTVG--FERFRDYLLGRDADGSPPKTPEWAAAITGVP 336 A+ A+A+ +LS ++A+ F+ + ++L + +PE I+GVP Sbjct: 461 AIVNALAYVILSEKLHKPEFIAERCEADSFKEWEHFILQEE------NSPEAVEKISGVP 514 Query: 337 AAQIRTLAELFSGPQRVQFAGAWSLQRAHHGEMTHWAIINFAAMVGKIGKPGQGVGFSWH 396 A IR A +++ + + G T I N A G +G+ G GV Sbjct: 515 AEDIRAAARMYANAKNGSIYYGLGVTEHAQGSTTVIGIANLAMATGNVGREGVGVN---- 570 Query: 397 YGGGGMVQSNAIMPVGLSQGRNPVTTRCPASRISEMLLNPGGKYTRDGATHSY------- 449 P+ +G+N V C L PG ++ D T + Sbjct: 571 -------------PL---RGQNNVQGSCDMGSFPHEL--PGYRHVSDSTTRAEFEAAWNC 612 Query: 450 -----PDVRL--------------IYNAGNNFLSHQQNTNELIRALNRQVPTIICQDPWW 490 P +R+ +Y G + + +T + AL+ + I+ QD + Sbjct: 613 VLDPEPGLRIPNMFDAAMDGTFMGLYCQGEDIVQSDPDTQHVTAALS-AMECIVVQDIFL 671 Query: 491 CASARFADIVLPATSELERNDISSGGTYSN--DKIYAMRQVIQPYGQSLDDLEIFSRLAG 548 +A++A + LP +S LE++ GT++N +I +R+V+ P D E+ L+ Sbjct: 672 NETAKYAHVFLPGSSFLEKD-----GTFTNAERRISRVRKVMPPKAGK-GDWEVTCMLSN 725 Query: 549 LMGVGYQFTEGKSIMQ---ILTESFQAAQPTLSFQRF 582 +G + + IM LT +F +SF+R Sbjct: 726 ALGYPMSYKHPREIMDEIASLTPTFTG----VSFKRI 758 >gi|134093705|ref|YP_001098780.1| putative periplasmic assimilatory nitrate reductase, large subunit [Herminiimonas arsenicoxydans] Length = 944 Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 89/367 (24%), Positives = 150/367 (40%), Gaps = 39/367 (10%) Query: 249 VKFISINPQYTATDELLQAE-WIKIVPNTDTALFLAMAFHVLSTGRQDQAYLAKYTVGFE 307 +K I +P+ T D +A+ ++ I+P TD ALF M L D Y+A +T F Sbjct: 223 LKIIVADPRRT--DTAREADLFLPILPGTDVALFNGMLHICLWEDLVDLDYIAAHTEDFA 280 Query: 308 RFRDYLLGRDADGSPPKTPEWAAAITGVPAAQIRTLAELFSGPQRVQFAGAWSLQRAHHG 367 + + TP++ A I G+ + A +F L ++ G Sbjct: 281 ELKQTVR--------EYTPKFVADICGIKEEDLMQAARMFGKSTATLSMYCQGLNQSSSG 332 Query: 368 EMTHWAIINFAAMVGKIGKPGQGVGFSW----HYGGGGMVQSNAIMPVGLSQGRNPVTTR 423 + A+IN +IGKPG G FS + GG V A M NP R Sbjct: 333 TAKNAALINLHLATHQIGKPGAG-PFSLTGQPNAMGGREVGGLATMLSAHRDLANP-QHR 390 Query: 424 CPASR---ISEMLLNPGGKYTRDGATHSYPDVRLIYNAGNNFLSHQQNTNELIRALNRQV 480 ++ ++++ PG ++++I+ N + +IR R Sbjct: 391 AEIAKLWGVADVPATPGKSAVEMFEAVRTGEIKIIWIVCTN-PAQSMPEQAMIREALRNA 449 Query: 481 PTIICQDPW-WCASARFADIVLPATSELERNDISSGGTYSND--KIYAMRQVIQPYGQSL 537 +I Q+ + AS +AD++LPA++ E+ GT +N +I + V+ G+S Sbjct: 450 ELVIVQEAYKTTASCDYADVLLPASTWSEKE-----GTVTNSERRITRFKSVLPKLGESR 504 Query: 538 DDLEI---FS-RLAGLMGVGYQFTEGKSIMQILTESFQAAQ------PTLSFQRFWREGV 587 D EI F+ RL G +G +S +I E ++ + LSF+ +G Sbjct: 505 HDWEIAVDFARRLEGALGKQSSIFPFESTEEIWNEHRESTRGRDLDITGLSFKLLEEQGP 564 Query: 588 ARLPVPQ 594 + P P+ Sbjct: 565 QQWPFPE 571 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.319 0.133 0.409 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 1,765,056 Number of extensions: 75164 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 236 Number of HSP's successfully gapped: 3 Length of query: 888 Length of database: 1,000,347 Length adjustment: 90 Effective length of query: 798 Effective length of database: 703,797 Effective search space: 561630006 Effective search space used: 561630006 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 133 (55.8 bits)