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= 0012.0059.p (761 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide de... 457 e-129 gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 65 1e-11 >gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide dehydrogenase large subunit [Herbaspirillum seropedicae SmR1] Length = 759 Score = 457 bits (1177), Expect = e-129, Method: Compositional matrix adjust. Identities = 279/713 (39%), Positives = 406/713 (56%), Gaps = 31/713 (4%) Query: 67 DGYIAIHQDGTVTLFSGKVDLGQGLRIAIRQMAAEELGIGVDKIDMIEGDTALTPDQGPT 126 D ++AI +G V F+G VDLG G+R ++ Q+ AEEL + ++++ MI G T P+QGPT Sbjct: 54 DVFVAILGEGQVLAFNGHVDLGTGIRTSLAQIVAEELSLSMEQVSMILGHTEEAPNQGPT 113 Query: 127 AGSSGVMRGGVQIRQAAATAREALIAMAAARLQKPASELMVQDGMVRPKAGAAGTGLSFA 186 S+ + + +R+AAA ARE L+AMAAAR P L V+ G + A AG +S+ Sbjct: 114 IASATIQISAMPLRKAAAQAREHLLAMAAARWATPVGRLRVEAGCII-DADVAGRTISYF 172 Query: 187 ELVGGKRFDLKVD-AKAPLNNPQSYRVVGKPLLRPDVPAKVTGTHTYVHDVKLPGMLHGR 245 EL+ G+R L ++ + PL Y +VG+ R D+PAKV YVHDV++PGMLHGR Sbjct: 173 ELLRGQRIVLTLEPGEVPLKPVSQYTLVGRSSQRVDIPAKVRAQPVYVHDVRVPGMLHGR 232 Query: 246 VIRPAAEGAN--------IVSVDQSSVRQFPG-VKVVRLGDFLAVAAPDEWDAIQAAAAL 296 V+RP G + +++VD+ SV PG V VV GDF+ V A E A +A L Sbjct: 233 VVRPPHPGRDGGDFVGRSLLAVDRQSVAHIPGLVAVVVEGDFIGVVAEREEQAQRAMREL 292 Query: 297 KVVWSDSDKLMGHDKVEQWLRNGPFDAEETLVRKGDAVAALQGAGEKISASYYWPIQTHG 356 KV W L D +E LR+ P E LVR+GD AA A I +Y WP Q H Sbjct: 293 KVQWKSIPPLPPMDDLEARLRSLPARRRE-LVRQGDPDAASASAAGHIERTYVWPYQLHA 351 Query: 357 SIGPSCAVADVGAKQATIYTASQGTHRYRPAYAQMLGMPNEAVRLVYVDGAGCYGMNGHD 416 SIGPSCAVAD + T+++ +Q H R +++ + ++ ++ ++ +GCYG N D Sbjct: 352 SIGPSCAVADWRPEGLTVWSGTQNPHVMRIDLSRLCDLDEGSIEVIRLEASGCYGRNCAD 411 Query: 417 DAAADAALMSKALGKPVRVQWSRQDEHGFDPKGPPQALTLEGALNADKSIAAWRTEMWLP 476 D ADAAL+S+A+G+PVRVQ +R+ EH ++PKG Q + + G ++A ++ +R + P Sbjct: 412 DVVADAALLSRAVGRPVRVQLTREQEHAWEPKGAAQLMDVCGGVDAQGRLSHYRFQTRYP 471 Query: 477 RATASLPTVPLLAPQTAGM--PQPKGISTGLISQNGDPPYEVANVAVGVHWHDSAPL-RP 533 A P+LA G P+P+ + G + PPY ++ + D AP+ R Sbjct: 472 SNDA-----PVLALLLTGKIAPEPRVLEMG--DRTAVPPYAYPHMQIDC--DDVAPIVRA 522 Query: 534 ANIRAPGKIANIYAVECFTDELAAQAGMDPLAFRLQSLKDARGAEVLKRTAALFGWQSRA 593 +R + N +A E F DELA AG D LAFRL L D R +E+L+ A GW + A Sbjct: 523 GWLRGVSAMPNSFAHEVFIDELAELAGADRLAFRLAHLPDQRASELLQAVAHKAGWVAHA 582 Query: 594 VSGGLANSSNKTNKRGRGIAYSHYKHNE------TYVAMAMEVEVDRASGEIRVLRVACA 647 G RGRGIAY+ Y H++ + A ++VEVD +G + V + Sbjct: 583 -QGSRGQVQADGKLRGRGIAYARYVHSKFPGFGAAWSAWVIDVEVDPVTGALAVTSLVVG 641 Query: 648 HDCGLIINPDGLRAQIEGSILQTISRSLYEEIRFDTRRVQNVDWASYPILAFPAVPELRI 707 D G+++NP G+R Q+ G+ILQ++SR L E + F +++W +YPIL F VP + I Sbjct: 642 QDTGMMVNPAGVRHQMHGNILQSLSRVLKERVAFGPHGASSLEWGAYPILHFTEVPPIEI 701 Query: 708 ELIDRPTMPPLGGGEAAASPVTAALANAVWDAAGIRLRTVPFTPERVKAALQK 760 L++R PP+G GE+A+ P AAL+NA++DA G RLR PF E + AALQ+ Sbjct: 702 VLMERQDQPPMGAGESASVPSAAALSNALFDATGRRLRQPPFNAECILAALQE 754 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 75/271 (27%), Positives = 115/271 (42%), Gaps = 41/271 (15%) Query: 512 PPYEVANVAVGVHWHDSAPLRPANIRAPGKIANIYAVECFTDELAAQAGMDPLAFRLQSL 571 PPY+ +V V S P+ A +A E F DE+A + G DP+ +RL L Sbjct: 281 PPYDWRSVHVSAALEASVPV----------AATCFAQEVFLDEVAQRLGQDPVQYRLAHL 330 Query: 572 KDARGAEVLKRTAALFGWQ----------SRAVSGGLANSSNKTNKRGRGIAYSHYKHNE 621 D+ G ++++ A W R G A +S G+ + + Sbjct: 331 PDSHGRDLIRSVAHGARWHPARQQGQRQGGRLRGRGFAYASTIEQHAGQPV--------Q 382 Query: 622 TYVAMAMEVEVDRASGEIRVLRVACAHD---CGLIINPDGLRAQIEGSILQ-----TISR 673 ++ A EVE D ASGE+ V +V HD G + AQ L +++ Sbjct: 383 SWSAWVAEVEYDEASGELSVTKVTAGHDVRAAGQAPATSPVLAQANAERLDQQARLALAQ 442 Query: 674 SLYEEIRFDTRRVQNVDWASYP-ILAFPAVPEL-RIELIDRPTM---PPLGGGEAAASPV 728 S++ FD + ++ P L P L +EL+ P L G A P Sbjct: 443 SMHGGQGFDAWSSEAGLPSTLPSSLGLPQRTALPTVELVGTPAALQNIQLNAGAAFTLPA 502 Query: 729 TAALANAVWDAAGIRLRTVPFTPERVKAALQ 759 AA++NAV+ A G+RLR PF+ E+++ AL Sbjct: 503 AAAISNAVYAATGVRLRQAPFSGEQIRLALN 533 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 0.317 0.133 0.392 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: 2,476,148 Number of extensions: 110368 Number of successful extensions: 378 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 370 Number of HSP's successfully gapped: 3 Length of query: 761 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 668 Effective length of database: 1,179,515 Effective search space: 787916020 Effective search space used: 787916020 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 134 (56.2 bits)