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= 0002.0248.p (386 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309893|ref|YP_003773985.1| glutathione-dependent formaldeh... 728 0.0 gi|300312106|ref|YP_003776198.1| zinc-type alcohol dehydrogenase... 83 3e-17 gi|300312025|ref|YP_003776117.1| bifunctional glutathione-depend... 80 4e-16 gi|300310427|ref|YP_003774519.1| L-idonate 5-dehydrogenase [Herb... 73 4e-14 gi|300310297|ref|YP_003774389.1| alcohol dehydrogenase [Herbaspi... 69 8e-13 >gi|300309893|ref|YP_003773985.1| glutathione-dependent formaldehyde dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 386 Score = 728 bits (1880), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/386 (90%), Positives = 367/386 (95%) Query: 1 MRALLYHSAHDVRVESVPDPIIQEADDIILKVTATAICGSDLHLYRGKIPATKAGDILGH 60 MRALLYHSAHDVRVE+VPDPIIQEADD+ILKVTATAICGSDLHLYRGKIPATKAGDILGH Sbjct: 1 MRALLYHSAHDVRVETVPDPIIQEADDVILKVTATAICGSDLHLYRGKIPATKAGDILGH 60 Query: 61 EFMGVVVETGPGVKRLKKGDRVVVPFVIACGQCFFCDQHLYAACETTNPDRGAIMNGKGI 120 EFMGVVVE GP +KRLKKGDRVVVPFVIACGQCFFCDQHLYAACETTNPDRGA+MN KGI Sbjct: 61 EFMGVVVEAGPAIKRLKKGDRVVVPFVIACGQCFFCDQHLYAACETTNPDRGALMNAKGI 120 Query: 121 RSGAAMFGYSHLYGGMPGGQAEYVRVPKADVGPIRIDSPLADEQVLFLSDILPTGYQAVK 180 RSGAAMFGYSHLYGGMPGGQAEYVRVPKADVGPIRIDS LADEQVLFLSDILPTGYQAVK Sbjct: 121 RSGAAMFGYSHLYGGMPGGQAEYVRVPKADVGPIRIDSALADEQVLFLSDILPTGYQAVK 180 Query: 181 NAGVREGSSVAIYGAGPVGQMAAACARMLGAEKIFIVDHHDYRLRFAAEQYKAIPINFDH 240 NAGVREGSSVAIYGAGPVGQMAAA ARMLGAE+IF+VDHH YRLRFA EQY IP+NFD Sbjct: 181 NAGVREGSSVAIYGAGPVGQMAAASARMLGAERIFMVDHHAYRLRFAQEQYDVIPVNFDQ 240 Query: 241 TDPGETIIANTAGRGVDAVIDAVGFEAKGSVLETAMTNLKLEGSSGQALRHCIASVRRGG 300 DP E IIANTAGRGVD VIDAVGFEAKGSVLETAMT LKLEGSSGQALRHCIASVRRGG Sbjct: 241 VDPAEYIIANTAGRGVDGVIDAVGFEAKGSVLETAMTTLKLEGSSGQALRHCIASVRRGG 300 Query: 301 TVSVPGVYAGFIHGFLFGDIFEKGLTIKTGQTHVQHYMPELLASIEDGWLRPEAIITHRL 360 +SVPGVYAGFIHGFLFGDIFEKG+T+KTGQTHVQHYMPELLASIE+G LRP+AIITHRL Sbjct: 301 VISVPGVYAGFIHGFLFGDIFEKGVTVKTGQTHVQHYMPELLASIEEGRLRPDAIITHRL 360 Query: 361 PLEEAAEGYRIFNEKREECRKVVLTA 386 PLE+AA GY+IFN+K E+CRKVVLTA Sbjct: 361 PLEDAARGYQIFNDKLEDCRKVVLTA 386 >gi|300312106|ref|YP_003776198.1| zinc-type alcohol dehydrogenase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 374 Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 106/388 (27%), Positives = 156/388 (40%), Gaps = 50/388 (12%) Query: 1 MRALLYHSAHDVRVESVPDPI-IQEAD-------DIILKVTATAICGSDLHLYRGKIPAT 52 ++A + D +V P+ I+E D ++++++ A +C SDL + G P Sbjct: 3 IQAAVLREMSDAHPFAVSQPLKIEELDLDPPGPGEVLVRMKAAGLCHSDLSVITGVRP-R 61 Query: 53 KAGDILGHEFMGVVVETGPGVKRLKKGDRVVVPFVIACGQCFFCDQHLYAACE---TTNP 109 LGHE VVE G GV L+ GD VV+ FV +CG C C + A CE TN Sbjct: 62 PVPMALGHEASAEVVEVGSGVNDLRAGDLVVLVFVPSCGHCLPCMEGRPALCEPGAATN- 120 Query: 110 DRGAIMNGKGIRSGAAMFGYSHLYGGMPGGQAEYVRVP----KADVGPIRIDSPLADEQV 165 G +++G+ + HL A R +AD+ P+ + Sbjct: 121 TVGELLSGQRRLRDKTQPVHHHLGVSAFADHAVVSRRSCVKIEADIDPV--------QAA 172 Query: 166 LFLSDILPTGYQAVKNAGVREGSSVAIYGAGPVGQMAAACARMLGAEKIFIVDHHDYRLR 225 LF +L AV A V+ G++ A+ G G VG A A GA ++ VD HD +L Sbjct: 173 LFGCAVLTGVGAAVNTAEVKAGTTAAVLGLGGVGLCAMLGALASGAREVIAVDLHDSKLA 232 Query: 226 FAAEQYKAIPINFDHTDPGETIIANTAGRGVDAVIDAVGFEAKGSVLETAMTNLKLEGSS 285 A +N D E + A T G GVD FE GSV Sbjct: 233 LARSLGATATVNARDPDAVEKVRALTRG-GVD-----YAFEMAGSV-------------- 272 Query: 286 GQALRHCIASVRRGGTVSVPGVYAGFIHGFLFG-DIFEKGLTIK---TGQTHVQHYMPEL 341 QA+ RRGG G+ A H L + + T+K G +P Sbjct: 273 -QAMEAAYRMTRRGGMTVTAGLPAPGQHWALQQVSLVAEERTVKGSYIGSCVPVRDIPRY 331 Query: 342 LASIEDGWLRPEAIITHRLPLEEAAEGY 369 + + G L + ++ RL L + G+ Sbjct: 332 IGLFQAGKLPVDRLMGERLALADINRGF 359 >gi|300312025|ref|YP_003776117.1| bifunctional glutathione-dependent formaldehyde dehydrogenase/alcohol dehydrogenase class III oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 368 Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 106/367 (28%), Positives = 162/367 (44%), Gaps = 33/367 (8%) Query: 24 EADDIILKVTATAICGSDLHLYRGKIPATKAGDILGHEFMGVVVETGPGVKRLKKGDRVV 83 +A ++++++ AT IC +D + G P ILGHE GVVV+ GPGVK LKK D V+ Sbjct: 26 KAGEVLVEIKATGICHTDYYTLSGADPEGIFPAILGHEGAGVVVDVGPGVKSLKKDDHVI 85 Query: 84 VPFVIACGQCFFCDQHLYAACETTNPDRG-AIMNGKGIR---SGAAMFGYSHLYGGMPGG 139 + C +C FC C+ +G +M R G +F Y Sbjct: 86 PLYTPECRECKFCLSQKTNLCQAIRATQGRGLMPDATSRFSLDGKPLFHYMGT-----ST 140 Query: 140 QAEYVRVPKADVGPIRIDSPLADEQVLFLSDILPTGYQAVK-NAGVREGSSVAIYGAGPV 198 + Y+ VP+ + IR D+P ++V ++ + TG AV A V G++V ++G G + Sbjct: 141 FSNYIVVPEIALAKIRSDAPF--DKVCYIGCGVTTGVGAVLFTAKVEAGANVVVFGLGGI 198 Query: 199 GQMAAACARMLGAEKIFIVDHHDYRLRFAAEQYKAIPIN-FDHTDPGETIIANTAGRGVD 257 G A+M+GA KI VD + R A + IN D + + II T G G D Sbjct: 199 GLNVIQAAKMVGANKIIGVDLNPAREAMARKFGMTDFINPKDVPNVVDAIIGMTDG-GAD 257 Query: 258 AVIDAVGFEAKGSVLETAMTNLKLEGSSGQALRHCIASV-RRGGTVSVPGVYAGFIHGFL 316 FE G+ + GQ++ +A+ + T V G Sbjct: 258 -----YSFECIGNTTTMRQSLECCHKGWGQSIIIGVAAAGQEISTRPFQLVTGRVWKGSA 312 Query: 317 FGDIFEKGLTIKTGQTHVQHYMPELLASIEDGWLRPEAIITHRLPLEEAAEGYRIFNEKR 376 FG G+T V P+++ +G L + +ITH+LPLE EG+ + + Sbjct: 313 FGG--------ARGRTDV----PKIVDWYMEGKLNIDDLITHKLPLERINEGFDLM-KSG 359 Query: 377 EECRKVV 383 E R VV Sbjct: 360 ESIRSVV 366 >gi|300310427|ref|YP_003774519.1| L-idonate 5-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 345 Score = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 94/386 (24%), Positives = 146/386 (37%), Gaps = 66/386 (17%) Query: 2 RALLYHSAHDVRVESVPDPIIQEADDIILKVTATAICGSDLHLYRGK---IPATKAGDIL 58 + L+ H+ HD+R++++ +Q + +KV A ICGSDLH Y + K +L Sbjct: 3 QGLVIHAPHDLRIQALDTGALQP-QQLKVKVKAGGICGSDLHYYHHGGFGVVRIKEPMVL 61 Query: 59 GHEFMGVVVETGPGVKRLKKGDRVVVPFVIACGQCFFC---------DQHLYAACETTNP 109 GHE G + E G V + G R+ + CG C +C D Y + T Sbjct: 62 GHEVSGQIAEVGTAVTDIAPGTRIAISPSRPCGACKYCQEGKQNHCLDMRFYGSAMRTPH 121 Query: 110 DRGAIMNGKGIRSGAAMFGYSHLYGGMPGGQAEYVRVPKADVGPIRIDSPLADEQVLFLS 169 +GA I A H+ G ++ Sbjct: 122 VQGAFRQEIIIERSQAHVVADHVSDGEAA-----------------------------MA 152 Query: 170 DILPTGYQAVKNAGVREGSSVAIYGAGPVGQMAAACARMLGAEKIFIVDHHDYRLRFAAE 229 + L AV+ AG G V + G GP+G + AR GA ++ + D L+ A + Sbjct: 153 EPLSVALHAVRRAGPLVGKRVLVTGCGPIGALVVVAARRAGALEVVVTDVASMPLQAALQ 212 Query: 230 QYKAIPINFDHTDPGETIIANTAGRGVDAVIDAVGFEAKGSVLETAMTNLKLEGSSGQAL 289 IN T + A A +G V+ FEA G+ E A+ LE QA+ Sbjct: 213 VGADSAINMAETP--AALKAYAADKGTFDVL----FEASGN--ERALVG-ALEALRPQAI 263 Query: 290 RHCIASVRRGGTVSVPGVYAGFIHGFLFGDIFEKGLTIKTGQTHVQHYMPELLASIEDGW 349 I V GG + P L G E + H + M L + + Sbjct: 264 ---IVQVGLGGDIQFPA-------NLLVGKELEWRGAFR---FHEEFAMAVELMNRKLVD 310 Query: 350 LRPEAIITHRLPLEEAAEGYRIFNEK 375 ++P +IT P+ +A E + I ++ Sbjct: 311 VKP--LITATYPIAQAVEAFEIAGDR 334 >gi|300310297|ref|YP_003774389.1| alcohol dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 341 Score = 68.6 bits (166), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 92/220 (41%), Gaps = 28/220 (12%) Query: 12 VRVESVPDPIIQEADDIILKVTATAICGSDLHLYRGKIPATKAGDIL-GHEFMGVVVETG 70 + +E VP P I++K A+ +C +DLH G P + GHE G V G Sbjct: 17 LSIEQVPVPT-PAPGQILVKFEASGVCHTDLHAAHGDWPVKPTPPFIPGHEGTGYVAAVG 75 Query: 71 PGVKRLKKGDRVVVPFV-IACGQCFFCDQHLYAACETTNPDRGAIMNGKGIRSGAAMFGY 129 GVK +K+GDRV VP++ ACG C C C + G +NG G A Sbjct: 76 AGVKHVKEGDRVGVPWLHTACGCCSPCRTGWETLCAEQQ-NTGYSVNGSFAEYGLA---D 131 Query: 130 SHLYGGMPGGQAEYVRVPKADVGPIRIDSPLADEQVLFLSDILPTGYQAVKNAGVREGSS 189 G +P D GP +P+ V T Y+ +K VR G Sbjct: 132 PKFVGHLPD---------NLDFGPA---APVLCAGV--------TVYKGLKETEVRPGEW 171 Query: 190 VAIYGAGPVGQMAAACARMLGAEKIFIVDHHDYRLRFAAE 229 V I G G +G MA A+ +G + D H+ +L A + Sbjct: 172 VVISGIGGLGHMAVQYAKAMGMH-VVAADIHEDKLALAKK 210 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 0.322 0.139 0.419 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: 1,310,843 Number of extensions: 59552 Number of successful extensions: 223 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 7 Length of query: 386 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 299 Effective length of database: 1,207,925 Effective search space: 361169575 Effective search space used: 361169575 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 (21.9 bits) S2: 131 (55.1 bits)