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= 0001.0109.p (362 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310427|ref|YP_003774519.1| L-idonate 5-dehydrogenase [Herb... 128 7e-31 gi|300312693|ref|YP_003776785.1| D-xylulose reductase [Herbaspir... 103 2e-23 gi|300310297|ref|YP_003774389.1| alcohol dehydrogenase [Herbaspi... 93 3e-20 gi|300312106|ref|YP_003776198.1| zinc-type alcohol dehydrogenase... 81 2e-16 gi|300309893|ref|YP_003773985.1| glutathione-dependent formaldeh... 75 8e-15 >gi|300310427|ref|YP_003774519.1| L-idonate 5-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 345 Score = 128 bits (322), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 96/346 (27%), Positives = 163/346 (47%), Gaps = 25/346 (7%) Query: 11 VVCHAPRDYRLQRVKRPAAGPNEVIIKIASCGICAGDCKCF----AGAARFWGDEVKNKP 66 +V HAP D R+Q + A P ++ +K+ + GIC D + G R Sbjct: 5 LVIHAPHDLRIQALDTGALQPQQLKVKVKAGGICGSDLHYYHHGGFGVVR---------- 54 Query: 67 SYVKPPVIPGHEFWGHVVEMGPGAAEHHGVAMGDRVIAEQIVPCGKCRYCKTGYRWMCEV 126 +K P++ GHE G + E+G + +A G R+ PCG C+YC+ G + C Sbjct: 55 --IKEPMVLGHEVSGQIAEVGTAVTD---IAPGTRIAISPSRPCGACKYCQEGKQNHCLD 109 Query: 127 HDVYGFQRQV--AEGGMADYMRLSARAVIHKIPEHISFEDAAVTEPLSCAIHAVNRGDIQ 184 YG + +G + + R+ H + +H+S +AA+ EPLS A+HAV R Sbjct: 110 MRFYGSAMRTPHVQGAFRQEIIIE-RSQAHVVADHVSDGEAAMAEPLSVALHAVRRAGPL 168 Query: 185 LDDVVVIAGAGTLGLLMVQVAHLKTPKKLIVIDLSDQRLQLAREYGADIVINPGREDAQK 244 + V++ G G +G L+V A +++V D++ LQ A + GAD IN E Sbjct: 169 VGKRVLVTGCGPIGALVVVAARRAGALEVVVTDVASMPLQAALQVGADSAINMA-ETPAA 227 Query: 245 IVREATGQYGCDVYIETTGAPAGVTQGLDMIRKLGRFVEFSVFGRDTTVDWSIIGEEKEL 304 + A + DV E +G + L+ +R V+ + G ++G KEL Sbjct: 228 LKAYAADKGTFDVLFEASGNERALVGALEALRPQAIIVQVGLGGDIQFPANLLVG--KEL 285 Query: 305 DLRGAHLSGDCYPIAIDLLARGLVTSRGIVTHNYALSEWEAAIKMA 350 + RGA + + +A++L+ R LV + ++T Y +++ A ++A Sbjct: 286 EWRGAFRFHEEFAMAVELMNRKLVDVKPLITATYPIAQAVEAFEIA 331 >gi|300312693|ref|YP_003776785.1| D-xylulose reductase [Herbaspirillum seropedicae SmR1] Length = 345 Score = 103 bits (257), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 92/347 (26%), Positives = 161/347 (46%), Gaps = 18/347 (5%) Query: 8 MLAVVCHAPRDYRLQRVKRPAA-GPNEVIIKIASCGICAGDCKCFAGAARFWGDEVKNKP 66 M A+V A R+ +L+ + P G +V I+I + GIC D + + P Sbjct: 1 MQALVLEATRELKLREIDLPQQMGAQDVRIRIHTVGICGSDLHYYTHGS--------IGP 52 Query: 67 SYVKPPVIPGHEFWGHVVEMGPGAAEHHGVAMGDRVIAEQIVPCGKCRYCKTGYRWMCEV 126 V+ P++ GHE G V+E+G A H + +GDRV E +P + T R M + Sbjct: 53 FKVEAPMVLGHEASGTVIEVG-SAVSH--LKVGDRVCMEPGIP--RLDSPAT-LRGMYNL 106 Query: 127 HDVYGFQRQVAEGGMADYMRLSARAVIHKIPEHISFEDAAVTEPLSCAIHAVNRGDIQLD 186 F G + A +++P+++SF + A+ EPLS + A + ++ Sbjct: 107 DPAVRFWATPPIHGCLTGSVVHPAAFTYRLPDNVSFAEGAIVEPLSIGLQAATKARMKPG 166 Query: 187 DVVVIAGAGTLGLLMVQVAHLKTPKKLIVIDLSDQRLQLAREYGADIVINPGREDAQKIV 246 D V+ GAGT+G + A ++I+ D+ ++L + A I ++ RE +V Sbjct: 167 DTAVVIGAGTIGAMTALAALAGGAARVILADVVAEKLAHFADNPAVITVDVTRETLTDVV 226 Query: 247 REATGQYGCDVYIETTGAPAGVTQG-LDMIRKLGRFVEFSVFGRDTTVDWSIIGEEKELD 305 R+AT +G DV E +G AGV Q LD++ G V + +D + + KE+ Sbjct: 227 RQATDGWGADVVFEASGH-AGVYQTLLDLVCPGGCAVLVGMPPAPVALD-VVAMQTKEVR 284 Query: 306 LRGAHLSGDCYPIAIDLLARGLVTSRGIVTHNYALSEWEAAIKMADS 352 L + +P A+ L++ G++ + ++ + S+ A + A S Sbjct: 285 LESVFRYANIFPRALALISSGMIDVKPFISRKFPFSQSIRAFEEAAS 331 >gi|300310297|ref|YP_003774389.1| alcohol dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 341 Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 84/313 (26%), Positives = 138/313 (44%), Gaps = 40/313 (12%) Query: 10 AVVCHAPRDYRLQRVKRPAAGPNEVIIKIASCGICAGDCKCFAGAARFWGDEVKNKPSYV 69 AVV + +++V P P ++++K + G+C D G + P Sbjct: 8 AVVREFGKPLSIEQVPVPTPAPGQILVKFEASGVCHTDLHAAHG----------DWPVKP 57 Query: 70 KPPVIPGHEFWGHVVEMGPGAAEHHGVAMGDRVIAEQI-VPCGKCRYCKTGYRWMCEVHD 128 PP IPGHE G+V +G G V GDRV + CG C C+TG+ +C Sbjct: 58 TPPFIPGHEGTGYVAAVGAGVKH---VKEGDRVGVPWLHTACGCCSPCRTGWETLCAEQQ 114 Query: 129 VYGFQRQVAEGGMADYMRLSARAVIHKIPEHISFEDAAVTEPLSCAIHAVNRG----DIQ 184 G+ G A+Y + V H +P+++ F AA P+ CA V +G +++ Sbjct: 115 NTGYS---VNGSFAEYGLADPKFVGH-LPDNLDFGPAA---PVLCAGVTVYKGLKETEVR 167 Query: 185 LDDVVVIAGAGTLGLLMVQVAHLKTPKKLIVIDLSDQRLQLAREYGADIVINPGREDAQK 244 + VVI+G G LG + VQ A ++ D+ + +L LA++ GAD+ ++ +A Sbjct: 168 PGEWVVISGIGGLGHMAVQYAKAMG-MHVVAADIHEDKLALAKKLGADLTVDGRNHNAVA 226 Query: 245 IVREATGQYGCDVYIETTGAPAGVTQGLDMIRKLGRF---------VEFSVFG---RDTT 292 V+ G G + T +P + Q +R G + VF + T Sbjct: 227 EVQRIIG--GAHGALVTAVSPKAMEQAFGFLRARGTMALVGLPPGDISLPVFNTVLKRIT 284 Query: 293 VDWSIIGEEKELD 305 V SI+G ++L+ Sbjct: 285 VRGSIVGTRQDLE 297 >gi|300312106|ref|YP_003776198.1| zinc-type alcohol dehydrogenase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 374 Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 83/315 (26%), Positives = 137/315 (43%), Gaps = 49/315 (15%) Query: 30 GPNEVIIKIASCGICAGDCKCFAGAARFWGDEVKNKPSYVKPPVIPGHEFWGHVVEMGPG 89 GP EV++++ + G+C D G V+ +P P+ GHE VVE+G G Sbjct: 34 GPGEVLVRMKAAGLCHSDLSVITG--------VRPRPV----PMALGHEASAEVVEVGSG 81 Query: 90 AAEHHGVAMGDRVIAEQIVPCGKCRYCKTGYRWMCE-------VHDVYGFQRQVAE---- 138 + + GD V+ + CG C C G +CE V ++ QR++ + Sbjct: 82 VND---LRAGDLVVLVFVPSCGHCLPCMEGRPALCEPGAATNTVGELLSGQRRLRDKTQP 138 Query: 139 -------GGMADYMRLSARAVIHKIPEHISFEDAAVTEPLSCAI-----HAVNRGDIQLD 186 AD+ +S R+ + KI I AA+ CA+ AVN +++ Sbjct: 139 VHHHLGVSAFADHAVVSRRSCV-KIEADIDPVQAAL---FGCAVLTGVGAAVNTAEVKAG 194 Query: 187 DVVVIAGAGTLGLLMVQVAHLKTPKKLIVIDLSDQRLQLAREYGADIVINPGREDAQKIV 246 + G G +GL + A +++I +DL D +L LAR GA +N DA + V Sbjct: 195 TTAAVLGLGGVGLCAMLGALASGAREVIAVDLHDSKLALARSLGATATVNARDPDAVEKV 254 Query: 247 REATGQYGCDVYIETTGAPAGVTQGLDMIRKLGRFVE--FSVFGRDTTVDW-SIIGEEKE 303 R T + G D E G+ + M R+ G V G+ + S++ EE+ Sbjct: 255 RALT-RGGVDYAFEMAGSVQAMEAAYRMTRRGGMTVTAGLPAPGQHWALQQVSLVAEERT 313 Query: 304 LDLRGAHLSGDCYPI 318 ++G+++ G C P+ Sbjct: 314 --VKGSYI-GSCVPV 325 >gi|300309893|ref|YP_003773985.1| glutathione-dependent formaldehyde dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 386 Score = 75.1 bits (183), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/282 (25%), Positives = 117/282 (41%), Gaps = 38/282 (13%) Query: 8 MLAVVCHAPRDYRLQRVKRPA-AGPNEVIIKIASCGICAGDCKCFAGAARFWGDEVKNKP 66 M A++ H+ D R++ V P ++VI+K+ + IC D + G K Sbjct: 1 MRALLYHSAHDVRVETVPDPIIQEADDVILKVTATAICGSDLHLYRG-----------KI 49 Query: 67 SYVKPPVIPGHEFWGHVVEMGPGAAEHHGVAMGDRVIAEQIVPCGKCRYCKTGYRWMCEV 126 K I GHEF G VVE GP + GDRV+ ++ CG+C +C CE Sbjct: 50 PATKAGDILGHEFMGVVVEAGPAIKR---LKKGDRVVVPFVIACGQCFFCDQHLYAACET 106 Query: 127 HD-----------------VYGFQRQVA--EGGMADYMRLSARAVIHKIPEHISFEDAAV 167 + ++G+ GG A+Y+R+ +A + I + D V Sbjct: 107 TNPDRGALMNAKGIRSGAAMFGYSHLYGGMPGGQAEYVRVP-KADVGPIRIDSALADEQV 165 Query: 168 ---TEPLSCAIHAVNRGDIQLDDVVVIAGAGTLGLLMVQVAHLKTPKKLIVIDLSDQRLQ 224 ++ L AV ++ V I GAG +G + A + +++ ++D RL+ Sbjct: 166 LFLSDILPTGYQAVKNAGVREGSSVAIYGAGPVGQMAAASARMLGAERIFMVDHHAYRLR 225 Query: 225 LAREYGADIVINPGREDAQKIVREATGQYGCDVYIETTGAPA 266 A+E I +N + D + + T G D I+ G A Sbjct: 226 FAQEQYDVIPVNFDQVDPAEYIIANTAGRGVDGVIDAVGFEA 267 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 0.323 0.139 0.436 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: 1,204,336 Number of extensions: 52141 Number of successful extensions: 179 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 168 Number of HSP's successfully gapped: 5 Length of query: 362 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 276 Effective length of database: 1,212,660 Effective search space: 334694160 Effective search space used: 334694160 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 131 (55.1 bits)