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= 0001.1319.p (520 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310807|ref|YP_003774899.1| NAD-dependent formate dehydroge... 978 0.0 gi|300311100|ref|YP_003775192.1| NADH dehydrogenase I subunit F ... 294 1e-80 >gi|300310807|ref|YP_003774899.1| NAD-dependent formate dehydrogenase beta subunit [Herbaspirillum seropedicae SmR1] Length = 520 Score = 978 bits (2527), Expect = 0.0, Method: Compositional matrix adjust. Identities = 474/520 (91%), Positives = 497/520 (95%) Query: 1 MSTQDIVTIYVPRDSTALALGANQVAEAIRAEADKRGQSIKLVRNGSRGMFWLEPLVEVS 60 MS D VT+YVPRDSTALALGAN+VA AI AEA KRGQSIKLVRNGSRGMFWLEPLVEV+ Sbjct: 1 MSANDTVTVYVPRDSTALALGANEVAAAITAEAHKRGQSIKLVRNGSRGMFWLEPLVEVA 60 Query: 61 TAAGRVAYGPVAADDVGSLFDAGLLAGGQHRLHLGLTEEIPFLKNQERLTFARVGIIDPL 120 TAAGRVAYGPVA +DV LFDAGLL GGQH LHLGLTEEI FLKNQERLTFARVGIIDPL Sbjct: 61 TAAGRVAYGPVAPEDVAGLFDAGLLQGGQHALHLGLTEEIAFLKNQERLTFARVGIIDPL 120 Query: 121 SLEDYLAYDGYVGLKNALAKTPEAIVEEMIASGLRGRGGAAFPTGIKWQTVLRAPATQKY 180 SLEDYLA++GYVGLKNALAKTPEAIV+EMIASGLRGRGGAAFPTGIKWQTVLRA + QKY Sbjct: 121 SLEDYLAHEGYVGLKNALAKTPEAIVQEMIASGLRGRGGAAFPTGIKWQTVLRAQSAQKY 180 Query: 181 VVCNADEGDSGTFSDRMIMEDDPFTLIEGMTIAALAVGATEGYVYVRSEYPHSIATMNEA 240 VVCNADEGDSGTFSDRMIMEDDPFTLIEGMTIA +AVGATEGY+YVRSEYPHSIAT+ +A Sbjct: 181 VVCNADEGDSGTFSDRMIMEDDPFTLIEGMTIAGVAVGATEGYIYVRSEYPHSIATLEQA 240 Query: 241 IAIATARGYLGHDILGSGKSFHLEVRKGAGAYICGEETAMLESLEGKRGVVRAKPPLPAL 300 IAIA A+GYLG DILGSGKSF LEVRKGAGAYICGEETAMLESLEGKRGVVRAKPPLPA+ Sbjct: 241 IAIAHAQGYLGDDILGSGKSFRLEVRKGAGAYICGEETAMLESLEGKRGVVRAKPPLPAI 300 Query: 301 EGLFGKPTVINNLISLASVPVILARGAEFYKNYGVGRSHGTLPFQLAGNIKQGGLVEKAF 360 EGLFGKPTVINNLISLASVPVILARGA+FYKN+GVGRSHGTLPFQLAGNI+QGGLVEKAF Sbjct: 301 EGLFGKPTVINNLISLASVPVILARGADFYKNFGVGRSHGTLPFQLAGNIRQGGLVEKAF 360 Query: 361 GLTLRQLLEDFGGGSASGRPLRAVQMGGPLGAYLPPSQFDTPLDYEAFSAIGAMIGHGGL 420 GLTLRQLLEDFGGGSASGRP+RAVQMGGPLGAYLP SQFDTPLDYEAF+AIGAMIGHGGL Sbjct: 361 GLTLRQLLEDFGGGSASGRPIRAVQMGGPLGAYLPQSQFDTPLDYEAFAAIGAMIGHGGL 420 Query: 421 VAFDDSVDMVKQARYAMQFCAVESCGKCTPCRIGSTRGVEVIDKIIANQDRGQQVHLLKS 480 VAFDDSVDM +QARYAMQFCAVESCGKCTPCRIGSTRGVEVIDKIIAN DR QQ+HLLKS Sbjct: 421 VAFDDSVDMARQARYAMQFCAVESCGKCTPCRIGSTRGVEVIDKIIANDDRAQQIHLLKS 480 Query: 481 LCDTMLNGSLCAMGGMTPFPVLSALNHFPEDFGAPSQQAA 520 LCDTM+NGSLCAMGGMTPFPVLSALNHFPEDFGAPS+QAA Sbjct: 481 LCDTMVNGSLCAMGGMTPFPVLSALNHFPEDFGAPSEQAA 520 >gi|300311100|ref|YP_003775192.1| NADH dehydrogenase I subunit F [Herbaspirillum seropedicae SmR1] Length = 431 Score = 294 bits (753), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 166/394 (42%), Positives = 230/394 (58%), Gaps = 4/394 (1%) Query: 122 LEDYLAYDGYVGLKNALAK--TPEAIVEEMIASGLRGRGGAAFPTGIKWQTVLRAPATQK 179 LEDY+ GY LK L + TPE ++ ++ ASGLRGRGGA FPTG+KW + R QK Sbjct: 24 LEDYVKRGGYESLKRILNEKITPEQVIADLKASGLRGRGGAGFPTGLKWSFMPRQFPGQK 83 Query: 180 YVVCNADEGDSGTFSDRMIMEDDPFTLIEGMTIAALAVGATEGYVYVRSEYPHSIATMNE 239 Y+VCN DEG+ GTF DR I+ +P LIEGM I A+G T GY Y+ E + E Sbjct: 84 YLVCNTDEGEPGTFKDRDIIRYNPHALIEGMIIGGYAMGITVGYNYIHGEIFSAYERFEE 143 Query: 240 AIAIATARGYLGHDILGSGKSFHLEVRKGAGAYICGEETAMLESLEGKRGVVRAKPPLPA 299 A+ A A G+LG +ILG+G SF L G GAYICGEETA+LESLEGK+G R KPP PA Sbjct: 144 ALEEARAAGFLGDNILGTGFSFQLHAHHGYGAYICGEETALLESLEGKKGQPRFKPPFPA 203 Query: 300 LEGLFGKPTVINNLISLASVPVILARGAEFYKNYGVGRSHGTLPFQLAGNIKQGGLVEKA 359 GL+GKPT INN + A+VP I G + Y G + GT F ++G++++ G E Sbjct: 204 SFGLYGKPTTINNTETFAAVPFIFKVGPQAYAEMGKPNNGGTKIFSISGDVERPGNYEIP 263 Query: 360 FGLTLRQLLEDFGGGSASGRPLRAVQMGGPLGAYLPPS-QFDTPLDYEAFSAIGAMIGHG 418 G LLE GG G+ ++AV GG + DT +DY+A + G+M+G G Sbjct: 264 LGTPFSTLLE-LAGGMRGGKKIKAVIPGGSSAPVIRGDVMMDTTMDYDAIAKAGSMLGSG 322 Query: 419 GLVAFDDSVDMVKQARYAMQFCAVESCGKCTPCRIGSTRGVEVIDKIIANQDRGQQVHLL 478 ++ D++ MVK F ESCG+CTPCR G+ ++++I + + + +L Sbjct: 323 AVIVMDETRCMVKSLLRLSYFYYEESCGQCTPCREGTGWMYRMVERIENGHGKMEDLDVL 382 Query: 479 KSLCDTMLNGSLCAMGGMTPFPVLSALNHFPEDF 512 S+ D + ++CA+G PV + + +F E+F Sbjct: 383 NSVADNIQGRTICALGDAAAMPVRAFVKNFREEF 416 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 0.137 0.403 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: 1,758,928 Number of extensions: 81313 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 235 Number of HSP's successfully gapped: 2 Length of query: 520 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 431 Effective length of database: 1,198,455 Effective search space: 516534105 Effective search space used: 516534105 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 (21.7 bits) S2: 133 (55.8 bits)