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/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family ... 159 1e-39 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 118 2e-27 >gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 159 bits (402), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 196/749 (26%), Positives = 317/749 (42%), Gaps = 106/749 (14%) Query: 35 TTLIPSAC-HWGP----FKAVVKKGVLVGIQPLPELDATPTTMLTK--GVLSRVYSKTRV 87 TT++ +AC H P VK GV ++ P T + TK R Y R+ Sbjct: 3 TTIVRAACPHDCPDTCALLVTVKDGVATEVRGDPAHPPTAGVLCTKVSRYAERTYHPDRL 62 Query: 88 AAPMVRKSWLARRGADAATRHLRGHEPFVQVSWDEALALVAEAILSTAEQHGNQALFSSS 147 PM R +G F ++SWDEA+A +A+ + A + QA+ S Sbjct: 63 LHPMRRVG-------------KKGEGKFERISWDEAIATIAQRLGQIALRD-PQAILPYS 108 Query: 148 YGGWSHAGLMRPQVLQGRLFGLIGGH--STTTGDYSGGASQISLPYVIGDMEVYSPQTSW 205 Y G G ++ + + GR F +G T +GGA Y IG Sbjct: 109 YAG--TMGQVQGESMAGRFFHRLGASQLERTICASAGGAG---YRYTIG----ARVGADL 159 Query: 206 EVVAAHTDIMVWVGADPIKNNRIEYTVADHQMTENWKKI---RARGVKFISINPQYTATD 262 E V I++W G +PI +N W ++ + G + I+I+P + T Sbjct: 160 EQVDHAKLILIW-GGNPIASN-----------LHFWTRVQTAKRNGARLIAIDPYRSLTA 207 Query: 263 ELLQAEWIKIVPNTDTALFLAMAFHVLSTGRQDQAYLAKYTVGFERFRDYLLGRDADGSP 322 E + I ++P TD AL L M ++S D Y+A++T+GFE+ R+ R A+ +P Sbjct: 208 EKCH-QHIALLPGTDAALALGMMHVLISEDLLDHDYIARHTLGFEQLRE----RVAEWTP 262 Query: 323 PKTPEWAAAITGVPAAQIRTLAELFSGPQRVQFAGA-------WSLQRAHHGEMTHWAII 375 +T E + G+ A ++ LA + RV AG + LQR G M + Sbjct: 263 ARTAE----VCGISAEEVLNLAREYG---RVALAGEGVFIRANYGLQRVRGGGMAARNVA 315 Query: 376 NFAAMVGKIGKPGQGVGFSWHYGGGGMVQSNAIMPVGLSQGRNPVTTRCPASRISEMLLN 435 A+VG P GV S + A+ L+ G S I + LL+ Sbjct: 316 CLPALVGAWRHPAGGVQMS--VSDSFPKDAAALSRPDLAAGHGKPARVINMSTIGDALLH 373 Query: 436 PGGKYTRDGATHSYPDVRLIYNAGNNFLSHQQNTNELIRALNRQVPTIICQDPWWCASAR 495 P + P V + +N ++ + ++ + R+ + + + +A Sbjct: 374 PA-------SADFGPKVEALIVYNSNPVAVAPESAKVAQGFAREDLFTVVLEHFQTDTAD 426 Query: 496 FADIVLPATSELERNDISSGGTYSNDKIYAMRQVIQPYGQSLDDLEIFSRLAGLMGVGYQ 555 +ADI+LPAT++LE D+ + +Y + I A I P G++ + EIF RLA MG Sbjct: 427 YADILLPATTQLEHIDVHA--SYGHVYIMANNAAIAPMGEAKPNTEIFRRLAAAMG---- 480 Query: 556 FTEGKSIMQILTESFQAAQPTLSFQRFWREGVARLPVPQEM---RGWVRHGDFYRDPEQH 612 FTE + FQ + L+ F R+ E +GW R + Sbjct: 481 FTE---------DCFQDSDDQLAAVAFKRDDPRSAGYDWEQLKQKGWQRLAVPVAPFAEG 531 Query: 613 PLHTRSGKIELYCAQIDSFKLPDCPPMPKYLEPAEFLGN----AKPGQVHVVSPHPWNRV 668 T SGK E Y Q+ + L P+P Y+ P E + + A + ++SP N + Sbjct: 532 GFATPSGKCEFYSEQMKAAGLD---PLPAYIPPYESVASNPQLAARYPLAMISPPARNFL 588 Query: 669 HSQMAQADVRFEQNVQGRQHVLINSQDAAALDIRDGDLVELSNARGTLIAGAAITARIMQ 728 +S +V+ ++ +G H+ ++ QDAAA I GD+V + N RG+L A +T + Sbjct: 589 NSSFV--NVQSLRDTEGEPHLDMHPQDAAARGISQGDMVRIFNDRGSLQARVRVTDKARV 646 Query: 729 GVVSLEEGNWIQLDSRGRCNSGSINMITS 757 G+V W + + G+ + N +TS Sbjct: 647 GLVVGLSIWWKKFAADGK----NANEVTS 671 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 118 bits (295), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 172/727 (23%), Positives = 288/727 (39%), Gaps = 139/727 (19%) Query: 47 FKAVVKKGVLVGIQPLPELDATPTTMLTKGVLSRVYS--KTRVAAPMVRKSWLARRGADA 104 FKA +K +V + P + A KG + Y+ K R+ PM+RKS Sbjct: 257 FKAEMKGNEVVRMVPYKDGKANQGHSCVKGRFAWGYATHKDRILNPMIRKSI-------- 308 Query: 105 ATRHLRGHEPFVQVSWDEALALVAEAILSTAEQHGNQALFSSSYGGWSHAGLMRPQVLQG 164 ++P+ +VSW+EAL+ A +HG ++ + ++ Q L Sbjct: 309 -------NDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEETYLVQKLVR 361 Query: 165 RLFGLIGGHSTTTGDYSGGASQISLPYVIGDMEVYSPQTSWEVVAAHTDIMVWVGADPIK 224 FG + T + L +G E QT V+ +D+++ +GA+P Sbjct: 362 AAFG--NNNVDTCARVCHSPTGYGLKQTLG--ESAGTQTFESVM--KSDVILIMGANP-- 413 Query: 225 NNRIEYTVADHQMTENWKKIRAR-GVKFISINPQYT--ATDELLQAEW-IKIVPNTDTAL 280 A H + + K R R G K I I+P+ T +QA++ +K+ P T+TA+ Sbjct: 414 -------AAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLKLRPGTNTAI 466 Query: 281 FLAMAFHVLSTGRQDQAYLAKYT--VGFERFRDYLLGRDADGSPPKTPEWAAAITGVPAA 338 A+A +LS G QD+AY+ + ++ +++++L D +PE AAITGVPA Sbjct: 467 ITALAHVILSEGLQDEAYIQERCDLQSYQDWKEFVLRED------NSPEAMAAITGVPAE 520 Query: 339 QIRTLAELFSGPQRVQFAGAWSLQRAHHGEMTHWAIINFAAMVGKIGKPGQGVGFSWHYG 398 IR A L++ + G T I N A G +G+ G GV Sbjct: 521 IIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVN------ 574 Query: 399 GGGMVQSNAIMPVGLSQGRNPVTTRCPASRISEMLLNPGGKYTRDGATHSY--------- 449 P+ +G+N V C L PG ++ D + Sbjct: 575 -----------PL---RGQNNVQGSCDMGSFPHEL--PGYRHISDSTVRNQFEQAWGVTL 618 Query: 450 ---PDVRL--------------IYNAGNNFLSHQQNTNELIRALNRQVPTIICQDPWWCA 492 P +R+ +Y G + + NT + AL + + I+ QD + Sbjct: 619 NPEPGLRIPNMFDAALDGSFKGLYCEGEDIVQSDPNTQHVAAAL-QAMECIVVQDLFLNE 677 Query: 493 SARFADIVLPATSELERNDISSGGTYSN--DKIYAMRQVIQPY-GQSLDDLEIFSRLAGL 549 +A++A + LP +S LE++ GT++N +I +R+V+ P G+S D E+ LA Sbjct: 678 TAKYAHVFLPGSSFLEKD-----GTFTNAERRISRVRKVMPPKAGKS--DWEVTVALAEA 730 Query: 550 MGVGYQFTEGKSIMQ---ILTESFQAAQPTLSFQRFWREGVARLPVPQEMRGWVRHGDFY 606 +G + IM LT SF +S+ + + G + P + Sbjct: 731 LGYPMPYNHPSEIMDEIAALTPSFHG----VSYDKLEKLGSIQWPCNESA---------- 776 Query: 607 RDPEQHPLHTRSGKIELYCAQIDSFKLPDCPPMPKYLEPAEFLGNAKPGQVHVVSPHPWN 666 PE P+ + SF K++ F + K Q + + Sbjct: 777 --PEGTPI-----------MHVGSFIRGK----GKFINTQYFATDEKVTQRYPLILTTGR 819 Query: 667 RVHSQMAQADVRFEQNVQ--GRQHVLINSQDAAALDIRDGDLVELSNARGTLIAGAAITA 724 + A R +N Q + I+ DA IR+GD V + + G + A +T Sbjct: 820 ILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAEDRGIREGDWVGVESRAGQTVLRATVTE 879 Query: 725 RIMQGVV 731 ++ GVV Sbjct: 880 KVQPGVV 886 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 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: 4735 Number of Hits to DB: 2,946,480 Number of extensions: 129529 Number of successful extensions: 376 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 374 Number of HSP's successfully gapped: 3 Length of query: 888 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 794 Effective length of database: 1,174,780 Effective search space: 932775320 Effective search space used: 932775320 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: 135 (56.6 bits)