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= 0028.0353.p (1311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum ... 2703 0.0 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 92 2e-19 gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 85 4e-17 gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 76 2e-14 gi|300313119|ref|YP_003777211.1| glycolate oxidase iron-sulfur s... 65 3e-11 >gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 1333 Score = 2703 bits (7007), Expect = 0.0, Method: Compositional matrix adjust. Identities = 1299/1311 (99%), Positives = 1307/1311 (99%) Query: 1 LREIPYNYTSFSDREIVIRLLGEASWSLLDELRGKRQTGRSARMLYEVLGDIWVVRRNPY 60 LREIPYNYTSFSDREIVIRLLGE SWSLLDELRGKRQTGRSARMLYEVLGDIWVVRRNPY Sbjct: 23 LREIPYNYTSFSDREIVIRLLGEESWSLLDELRGKRQTGRSARMLYEVLGDIWVVRRNPY 82 Query: 61 LQDDLLDNPKRRAALIEALNHRLSEVDKRRLATDLAESGDAEAQRRSASVEALLKAARKA 120 LQDDLLDNPKRRAALIEALNHRL EVDKRRLATD AE+GDAEAQRRSASVEALLKAA+KA Sbjct: 83 LQDDLLDNPKRRAALIEALNHRLGEVDKRRLATDQAEAGDAEAQRRSASVEALLKAAKKA 142 Query: 121 IGDFAEEFRQTYDLRKRATKVLGRYTAKDNIKFDGLSRVSHVTDATDWRVEYPFVVLTPD 180 I DFAEEFRQTYDLRKRATKVLGR+TAKDNIKFDGLSRVSHVTDATDWRVEYPFVVLTPD Sbjct: 143 IADFAEEFRQTYDLRKRATKVLGRFTAKDNIKFDGLSRVSHVTDATDWRVEYPFVVLTPD 202 Query: 181 SEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQLGAVEMEILPG 240 +EDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQLGAVEMEILPG Sbjct: 203 TEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQLGAVEMEILPG 262 Query: 241 LDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNAGGKKAVLWGT 300 LDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNAGGKKAVLWGT Sbjct: 263 LDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNAGGKKAVLWGT 322 Query: 301 ALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKLEWSHPGEKGQKTEVFKTEIL 360 ALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKLEWSHPGEKGQKTEVFKTEIL Sbjct: 323 ALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKLEWSHPGEKGQKTEVFKTEIL 382 Query: 361 EISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSARWILHKMPKQTRTVCLEFFGQ 420 EISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSARWILHKMPKQTRTVCLEFFGQ Sbjct: 383 EISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSARWILHKMPKQTRTVCLEFFGQ 442 Query: 421 ARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAVGYATKSKRGVLPKMVLIGDI 480 ARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAVGYATKSKRGVLPKMVLIGDI Sbjct: 443 ARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAVGYATKSKRGVLPKMVLIGDI 502 Query: 481 VGDDENAVAAAASEVIRMANNRVGEGFVAVSPEARKKFWLDRSRTAAIAKHTNAFKINED 540 VGDDENAVAAAASEVIRMANNRVGEGFVAVSPEARKKFWLDRSRTAAIAKHTNAFKINED Sbjct: 503 VGDDENAVAAAASEVIRMANNRVGEGFVAVSPEARKKFWLDRSRTAAIAKHTNAFKINED 562 Query: 541 VVIPLNRMGEYTDGIERINIELSIKNKLQLLAELDSFFVKGNLPLGKSDDAEGDDIPAAE 600 VVIPLNRMGEYTDGIERINIELSIKNKLQLLAELDSFFVKGNLPLGKSDDAEGDDIPAAE Sbjct: 563 VVIPLNRMGEYTDGIERINIELSIKNKLQLLAELDSFFVKGNLPLGKSDDAEGDDIPAAE 622 Query: 601 MLEDRVHQAESLLEQTHARWSYLLANLDKPLGEAKGELAALGLEKMLPVFEQRLIDQPEA 660 MLEDRVHQAESLLEQTHARWSYLLANLDKPLGEAKGELAALGLEKMLPVFEQRL+DQPEA Sbjct: 623 MLEDRVHQAESLLEQTHARWSYLLANLDKPLGEAKGELAALGLEKMLPVFEQRLVDQPEA 682 Query: 661 AVFHVVQDRTVRISWKQEVRAQLRQIFSGAAFKLILEECQAIHKRVLRGRVFVALHMHAG 720 AVFHVVQDRTVRISWKQEVRAQLRQIFSGAAFKLILEECQAIHKRVLRGRVFVALHMHAG Sbjct: 683 AVFHVVQDRTVRISWKQEVRAQLRQIFSGAAFKLILEECQAIHKRVLRGRVFVALHMHAG 742 Query: 721 DGNVHTNLPVNSDHYEMLQDAHVAVARIMKLARSLNGVISGEHGIGITKLEFLTEDEIGE 780 DGNVHTN+PVNSDHYEMLQDAHVAVARIMKLARSLNGVISGEHGIGITKLEFLTEDEIGE Sbjct: 743 DGNVHTNIPVNSDHYEMLQDAHVAVARIMKLARSLNGVISGEHGIGITKLEFLTEDEIGE 802 Query: 781 FREYKKRVDPEGRFNKGKLLNLPGMEADLSNAYTPSFGLMGHESLIMQQSDIGAIASSVK 840 FREYKKRVDPEGRFNKGKLLNLPGMEADLSNAYTPSFGLMGHESLIMQQSDIGAIASSVK Sbjct: 803 FREYKKRVDPEGRFNKGKLLNLPGMEADLSNAYTPSFGLMGHESLIMQQSDIGAIASSVK 862 Query: 841 DCLRCGKCKPVCSTHVPRANLLYSPRNKILATSLLVEAFLYEEQTRRGVSIKHWEEFEDV 900 DCLRCGKCKPVCSTHVPRANLLYSPRNKILATSLLVEAFLYEEQTRRGVSIKHWEEFEDV Sbjct: 863 DCLRCGKCKPVCSTHVPRANLLYSPRNKILATSLLVEAFLYEEQTRRGVSIKHWEEFEDV 922 Query: 901 ADHCTVCHKCVTPCPVDIDFGDVSMNMRNLLRKMGKKSFNAGTNAAMFFLNATDPATINA 960 ADHCTVCHKCVTPCPVDIDFGDVSMNMRNLLRKMGKKSFNAGTNAAMFFLNATDPATINA Sbjct: 923 ADHCTVCHKCVTPCPVDIDFGDVSMNMRNLLRKMGKKSFNAGTNAAMFFLNATDPATINA 982 Query: 961 TRKVMTQWGFKAQRLGNDLMKKFAKKQTQKPPATVGKPPVKEQVIHFINKKMPGNLPKKT 1020 TRKVMTQWGFKAQRLGNDLMKKFAKKQTQKPPATVGKPPVKEQVIHFINKKMPGNLPKKT Sbjct: 983 TRKVMTQWGFKAQRLGNDLMKKFAKKQTQKPPATVGKPPVKEQVIHFINKKMPGNLPKKT 1042 Query: 1021 ARALLDIEDDKIVPIIRNPKTTTADTEAVFYFPGCGSERLFSQVGLATQAMLWNVGVQTV 1080 ARALLDIEDDKIVPIIRNPKTTTADTEAVFYFPGCGSERLFSQVGLATQAMLWNVGVQTV Sbjct: 1043 ARALLDIEDDKIVPIIRNPKTTTADTEAVFYFPGCGSERLFSQVGLATQAMLWNVGVQTV 1102 Query: 1081 LPPGYLCCGYPQRGTGDFEKGEKIITDNRVLFHRMANTLNYLDIKTVVVSCGTCYDQLQG 1140 LPPGYLCCGYPQRGTGDFEKGEKIITDNRVLFHRMANTLNYLDIKTVVVSCGTCYDQLQG Sbjct: 1103 LPPGYLCCGYPQRGTGDFEKGEKIITDNRVLFHRMANTLNYLDIKTVVVSCGTCYDQLQG 1162 Query: 1141 YEFEKIFPGCRIIDIHEYLLEKGVKLEGVTGTRYMYHDPCHSPMKQQDPLKTVNSLITTV 1200 YEFEKIFPGCRIIDIHEYLLEKGVKLEGVTGTRYMYHDPCHSPMKQQDPLKTVNSLITT+ Sbjct: 1163 YEFEKIFPGCRIIDIHEYLLEKGVKLEGVTGTRYMYHDPCHSPMKQQDPLKTVNSLITTI 1222 Query: 1201 DAQKIEKNDRCCGESGTFGVSRPDVSTQVRFRKEEEMKKGSDKVRADGFTGDVKILTSCP 1260 DAQKIEKNDRCCGESGTFGVSRPDVSTQVRFRKEEEM+KGSDKVRADGFTGDVKILTSCP Sbjct: 1223 DAQKIEKNDRCCGESGTFGVSRPDVSTQVRFRKEEEMRKGSDKVRADGFTGDVKILTSCP 1282 Query: 1261 SCFQGLSRYNEDAGTTADYIVVEMARHLLGENWMPEYVERANNGGIERILV 1311 SCFQGLSRYNEDAGTTADYIVVEMARHLLGENWMPEYVERANNGGIERILV Sbjct: 1283 SCFQGLSRYNEDAGTTADYIVVEMARHLLGENWMPEYVERANNGGIERILV 1333 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 97/392 (24%), Positives = 155/392 (39%), Gaps = 76/392 (19%) Query: 171 EYPFVVLTPDSEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQL 230 + P VV+ P++E ++ ++K C L + I+PRG GTG +GGA P+ V++T K Q+ Sbjct: 50 QLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIAD-GVVVSTAKFNQI 108 Query: 231 GAVEMEILPGLDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNA 290 ++M DK T GV +S+AA G +A DP+S A IGGNVA N+ Sbjct: 109 --LQM------DKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENS 160 Query: 291 GGKKAVLWGTALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKLEWSHPGEKGQ 350 GG + +G + N+ RMV +G Sbjct: 161 GGVHCLKYGLTVHNVLRVRMVTIEG----------------------------------- 185 Query: 351 KTEVFKTEILEISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSARWILHKMPKQT 410 E++E+ GL D+ F+ EG G++T L P+ Sbjct: 186 -------EVVELGSGALDAPGL--DLLAVFIG------SEGMLGVVTEVTVKLVPKPQAA 230 Query: 411 RTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAVGYATKSKRGV 470 R + F D + + + + A G I AGLE +D+ R V K+ + Sbjct: 231 RVIMASF----DDVVKGGNAVANVIAA-----GIIPAGLEMMDKTSSRMVEPFVKAGYDI 281 Query: 471 LPKMVLIGDIVGDDENAVAAAASEVIRMANNRVGEGFVAV----SPEARKKFWLDRSRTA 526 + +L+ + + V E+ RM + G A+ S R +FW R Sbjct: 282 DAEAILL----CESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAF 337 Query: 527 AIAKHTNAFKINEDVVIPLNRMGEYTDGIERI 558 A + D IP ++ + GI + Sbjct: 338 PAAGRISPDYYCMDGTIPRKKLAQVLLGIAEM 369 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 104/396 (26%), Positives = 156/396 (39%), Gaps = 75/396 (18%) Query: 158 RVSHVTDATDWRVEYPFVVLTPDSEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTP 217 R H D + + P V+ S +E+A VK C + IIP G GT G + L Sbjct: 37 REHHGRDESSYDPMLPDAVVFAHSTEEVAAFVKLCSQYDTPIIPYGAGTSLEGHVLALQG 96 Query: 218 MSAVINTEKLEQLGAVEMEILPGLDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSA 277 ++ ++ Q+ AV E L T AGV K+++ + G F +DP A Sbjct: 97 -GVTVDLSQMNQVLAVHAEDL--------TATVQAGVTRKQLNQEIKDTGLFFPIDP-GA 146 Query: 278 EASCIGGNVAMNAGGKKAVLWGTALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVAR 337 +AS +GG + A G AV +GT +N + +V QG Sbjct: 147 DAS-LGGMASTRASGTNAVRYGTMKENTLTLTVVTAQG---------------------- 183 Query: 338 FKLEWSHPGEKGQKTEVFKTEILEISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLIT 397 E+ KT G + +K G D+T + V EG G+IT Sbjct: 184 ---------------EIIKT------GTRAKKSSAGYDLTRVY------VGSEGTLGIIT 216 Query: 398 SARWILHKMPKQTRTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYL 457 L+ P+ F A DA+ +++ +T + G LA +E LDE + Sbjct: 217 EVTVRLYPQPEAISAAICSFPTVA-DAVNTVI--------QTIQMGVPLARVELLDENGV 267 Query: 458 RAVGYATKSKRGVLPKMVLIGDIVGDDENAVAAAASEVIRMANNRVGEGFV-AVSPEARK 516 RA+ K V P +L+ + G EN V A V +A GF A PE R Sbjct: 268 RAINAHDKLSLPVNP--LLLFEFHG-SENGVKEQAELVQDIAKEFHALGFEWATRPEDRT 324 Query: 517 KFWLDRSRT--AAIAKHTNAFKINEDVVIPLNRMGE 550 + W R A + A I+ D +P++R+ E Sbjct: 325 RLWTARHNAYFALLQLRPGARAISTDCCVPISRLAE 360 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 94/397 (23%), Positives = 152/397 (38%), Gaps = 78/397 (19%) Query: 166 TDWRVEY---PFVVLTPDSEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVI 222 TD R Y VL P E+A +V+ C + + ++P+GG TG G++P +AV+ Sbjct: 36 TDQRGRYTGRALAVLRPADSAEVAAVVRLCAQFAVPLVPQGGNTGLVLGSVPDQQGNAVV 95 Query: 223 -NTEKLEQLGAVEMEILPGLDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASC 281 + +L ++ AV D TI +G V + + + A AG +F + +AE SC Sbjct: 96 LSLRRLNRIRAV--------DALNNTITVESGCVLQHLQEQAAAAGRLFPLS-LAAEGSC 146 Query: 282 -IGGNVAMNAGGKKAVLWGTALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKL 340 IGGN++ NAGG + +G + +V QG+ + Sbjct: 147 TIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEIMS--------------------- 185 Query: 341 EWSHPGEKGQKTEVFKTEILEISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSAR 400 S K RK+ G D+ D F+ EG G+IT+A Sbjct: 186 ----------------------SLKGLRKDNTGYDLRDLFIGA------EGTLGVITAAV 217 Query: 401 WILHKMPKQTRTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAV 460 L P+ T A A+P + L G L G E + + L+ V Sbjct: 218 MKLFPQPRAQVT--------ALAALPHPAQALQLLQLAQAHCGPALTGFELMSDFCLQLV 269 Query: 461 GYATKSKRGVL----PKMVLIGDIVGDDENAVAAAASEVIRMA--NNRVGEGFVAVSPEA 514 +R P+ VL+ + E A +I A V + +A S Sbjct: 270 RKHFPEQRLPFDRPHPQYVLLELSDSESEEHARALFEGLIGTALEQGLVDDAVIAASLAQ 329 Query: 515 RKKFWLDRSRTAAIAKHTNAFKINEDVVIPLNRMGEY 551 + W R ++ H I D+ +P++R+ E+ Sbjct: 330 SRALWRLRESISSAQAHEGK-NIKHDISVPISRIAEF 365 >gi|300313119|ref|YP_003777211.1| glycolate oxidase iron-sulfur subunit oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 414 Score = 65.1 bits (157), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 90/439 (20%), Positives = 159/439 (36%), Gaps = 82/439 (18%) Query: 837 SSVKDCLRCGKCKPVCSTHVPRANLLYSPRNKILATSLLVEAFLYEEQTRRGVSIKHWEE 896 S ++ C+ CG C C T+ + L PR +I ++E T+ + Sbjct: 20 SILRSCVHCGFCTATCPTYQLLGDELDGPRGRIYLIKQVLEGKPATAATQSHL------- 72 Query: 897 FEDVADHCTVCHKCVTPCPVDIDFGDVSMNMRNLLRKMGKKSFNAGTNAAMFFLNATDPA 956 D C C C + CP + +G + Sbjct: 73 -----DRCLTCRNCESTCPSGVQYGRL--------------------------------- 94 Query: 957 TINATRKVMTQWGFK--AQRLGNDLMKKFAKKQTQKPPATVGKPPVKEQVIHFINKKMPG 1014 ++ RKV+ + + +QR+ +K+ ++ PA ++ + + K+P Sbjct: 95 -VDIGRKVVEEQVPRPLSQRVMRTALKELVPRKWIFRPAMKAGQMLRPLLPKLLQNKVP- 152 Query: 1015 NLPKKTARALLDIEDDKIVPIIRNPKTTTADTEAVFYFPGCGSERLFSQVGLATQAMLWN 1074 LP++ T + Y GC + + AT +L Sbjct: 153 -LPQEAGAW-----------------PTRTHARQMLYLEGCVQPSMSPNINSATARVLDA 194 Query: 1075 VGVQTVLPPGYLCCGYPQRGTGDFEKGEKIITDNRVLFHRMANTLNYLDIKTVVVSCGTC 1134 +GVQ PP CCG + D E G + + N + + + T+V++ C Sbjct: 195 LGVQLFAPPKAGCCGAIRYHMNDQEGGLEDMRRNIDAWWPYIEGRDGIRADTIVMNASGC 254 Query: 1135 YDQLQGY----EFEKIFP-GCRII-----DIHEYL--LEKGVK--LEGVTGTRYMYHDPC 1180 ++ Y + + ++ R I DI E L E+ +K L+ G R YH PC Sbjct: 255 GSTVKEYGHLLQHDPVYAEKARRISHMTRDISEILPEFEEALKHKLKDFNGKRVAYHPPC 314 Query: 1181 HSPMKQQDPLKTVNSL-ITTVDAQKIEKNDRCCGESGTFGVSRPDVSTQVRFRKEEEMKK 1239 Q+ K L VD Q + CCG +GT+ + +P++S ++R K +++ Sbjct: 315 TLQHGQKIRGKVEGILRAAGVDVQLCADSHLCCGSAGTYSILQPELSYRLRDNKISKLQA 374 Query: 1240 GSDKVRADGFTGDVKILTS 1258 + G G V L S Sbjct: 375 TDPDMIVTGNIGCVTHLQS 393 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 0.136 0.402 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: 4,018,348 Number of extensions: 168869 Number of successful extensions: 514 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 509 Number of HSP's successfully gapped: 5 Length of query: 1311 Length of database: 1,619,870 Length adjustment: 97 Effective length of query: 1214 Effective length of database: 1,160,575 Effective search space: 1408938050 Effective search space used: 1408938050 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: 136 (57.0 bits)