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= 0027.0210.p (970 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 1769 0.0 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 255 1e-68 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 250 5e-67 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 243 4e-65 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 235 2e-62 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 1769 bits (4581), Expect = 0.0, Method: Compositional matrix adjust. Identities = 948/969 (97%), Positives = 955/969 (98%) Query: 1 VDLQATATATPASLPSLRHARLALPPVLGWQSQRYTGARLQGVDVDAALGLPGVHRLVQQ 60 VDL+ATATATPASL SLRHARLALPPVLGWQSQRYTGARLQGVDVDAALGLPGVHRLVQQ Sbjct: 5 VDLRATATATPASLASLRHARLALPPVLGWQSQRYTGARLQGVDVDAALGLPGVHRLVQQ 64 Query: 61 RHLLAVIADSDAQARQACALLKPRWSTPADDDRALRPRQAHSLYQRGKEEEGLYDLTLEA 120 RHLLAVIADSDAQARQACALLKPRWSTPADDDRALRPRQAHSLYQRGKEEEGLYDLTLEA Sbjct: 65 RHLLAVIADSDAQARQACALLKPRWSTPADDDRALRPRQAHSLYQRGKEEEGLYDLTLEA 124 Query: 121 DYQWQDGEATLSSPDLVALAAPSGTGMRIDLPFGNPAAIALEVAGLLALPVAQIEVRSHR 180 DYQWQDGEATLSSPD+VALAAPSGTGMRIDLPFGNPAAIALEVAGLLALPVAQIEVRSHR Sbjct: 125 DYQWQDGEATLSSPDVVALAAPSGTGMRIDLPFGNPAAIALEVAGLLALPVAQIEVRSHR 184 Query: 181 APADAREYRAASDVAGVAALLCQQCGEAVSLALTPAEAPALSTSLHLRGEFDEDGALGNT 240 APADAREYRAASDVAGVAALLCQQCGEAVSLALTPAEAPALSTSLHLRGEFDEDGALGNT Sbjct: 185 APADAREYRAASDVAGVAALLCQQCGEAVSLALTPAEAPALSTSLHLRGEFDEDGALGNT 244 Query: 241 TLDITQDSPAPPLAWLLTETAYALQDAAAIDGAALAPPYDWRSVHVSAAQEASVPVAATC 300 TLDITQDSPAPPLAWLLTETAYALQDAAAIDGAALAPPYDWRSVHVSAA EASVPVAATC Sbjct: 245 TLDITQDSPAPPLAWLLTETAYALQDAAAIDGAALAPPYDWRSVHVSAALEASVPVAATC 304 Query: 301 FAQEVFLDEVAQRLGQDPVQYRLAHLPDSHGRDLIRSVAHGARWHPARQQGQRQGGRLRG 360 FAQEVFLDEVAQRLGQDPVQYRLAHLPDSHGRDLIRSVAHGARWHPARQQGQRQGGRLRG Sbjct: 305 FAQEVFLDEVAQRLGQDPVQYRLAHLPDSHGRDLIRSVAHGARWHPARQQGQRQGGRLRG 364 Query: 361 RGFAYASTIEQHAGQPVQSWSAWVAEVEYDEASGELSVTKVTAGHDVRAAGQTPAASPAL 420 RGFAYASTIEQHAGQPVQSWSAWVAEVEYDEASGELSVTKVTAGHDVRAAGQ PA SP L Sbjct: 365 RGFAYASTIEQHAGQPVQSWSAWVAEVEYDEASGELSVTKVTAGHDVRAAGQAPATSPVL 424 Query: 421 AQANADRLGQQARLALAHSMHGGRGFDAWSSEAGLPSTLPSSLGLPQSTALPTVELVGTP 480 AQANA+RL QQARLALA SMHGG+GFDAWSSEAGLPSTLPSSLGLPQ TALPTVELVGTP Sbjct: 425 AQANAERLDQQARLALAQSMHGGQGFDAWSSEAGLPSTLPSSLGLPQRTALPTVELVGTP 484 Query: 481 PALQNIQLNAGAAFTLPAAAAISNAVYAATGVRLRQAPFSGEQIRLALNASAPASGAQRW 540 ALQNIQLNAGAAFTLPAAAAISNAVYAATGVRLRQAPFSGEQIRLALNASAPASGAQRW Sbjct: 485 AALQNIQLNAGAAFTLPAAAAISNAVYAATGVRLRQAPFSGEQIRLALNASAPASGAQRW 544 Query: 541 RKYGWLGAAVAAVGATLTLAMPWRSEIAPIARPDPDLYSAATIERGRRVALAGDCAVCHT 600 RKYGWLGAAVAAVGATLTLAMPWRSEIAPIARPDPDLYSAATIERGRRVALAGDCAVCHT Sbjct: 545 RKYGWLGAAVAAVGATLTLAMPWRSEIAPIARPDPDLYSAATIERGRRVALAGDCAVCHT 604 Query: 601 APGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFERAMREGIHRDGRHLYPAF 660 APGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFERAMREGIHRDGRHLYPAF Sbjct: 605 APGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFERAMREGIHRDGRHLYPAF 664 Query: 661 PYTAFAKISEADMQSLYAYLMAQPAVASTPPANDLRFPFNLRPLLAGWNTLFHDPQVFQP 720 PYTAFAKISEADMQSLYAYLMAQPAVASTPPANDLRFPFNLRPLLAGWNTLFHDPQVFQP Sbjct: 665 PYTAFAKISEADMQSLYAYLMAQPAVASTPPANDLRFPFNLRPLLAGWNTLFHDPQVFQP 724 Query: 721 DPARSDLWNRGAYLVDGAGHCAACHSPRNALGAEKGGRHYLGGGTVDGWEAPALTALSKS 780 DPARSDLWNRGAYLV+GAGHCAACHSPRNALGAEKGGRHYLGGG VDGWEAPALTALSKS Sbjct: 725 DPARSDLWNRGAYLVEGAGHCAACHSPRNALGAEKGGRHYLGGGMVDGWEAPALTALSKS 784 Query: 781 PTPWTEEELFAYLRRGFSARHGIAAGPMAPVVAELAQLPPGDVRAIAHYLASFQSDTTTS 840 PTPWTEEELFAYLR GFSARHGIAAGPMAPVVAELAQLPPGDVRAIAHYLASFQS +S Sbjct: 785 PTPWTEEELFAYLRTGFSARHGIAAGPMAPVVAELAQLPPGDVRAIAHYLASFQSGAASS 844 Query: 841 PAAPVPASAAQAPSPAELRSRANGQRLFAGACAACHQEGTGPTLFGVKPSLRVNTNLHSD 900 PAAPVPASAAQAPSPAELRSRANGQRLFAGACAACHQEGTGPTLFGVKPSLRVNTNLHSD Sbjct: 845 PAAPVPASAAQAPSPAELRSRANGQRLFAGACAACHQEGTGPTLFGVKPSLRVNTNLHSD 904 Query: 901 TPDNLVHVILHGIREPANPALGYMPGFANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEAS 960 TPDNLVHVILHGIREPANPALGYMPGFANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEA+ Sbjct: 905 TPDNLVHVILHGIREPANPALGYMPGFANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEAA 964 Query: 961 IARSRAMPM 969 IARSRAMPM Sbjct: 965 IARSRAMPM 973 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 255 bits (652), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 154/379 (40%), Positives = 212/379 (55%), Gaps = 20/379 (5%) Query: 583 IERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFE 642 I+RG +A+AGDCA CH+ G A +GGH + +P GT+YSTNITP + GIG+++ F Sbjct: 33 IKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSYTRDQFA 92 Query: 643 RAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLM-AQPAVASTPPANDLRFPFNL 701 A+R+G+ DG LYPA PYTA+A++++ D+ +LY Y M AV PA DL FPFN+ Sbjct: 93 AALRQGVRADGSQLYPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQAAPATDLPFPFNI 152 Query: 702 RPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVDGAGHCAACHSPRNALGAEKGGRHYL 761 R + WN LF D + F+PDP++S WNRGAYLV G HC+ CH+PRN L AE+ R L Sbjct: 153 RLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFLMAEQLERR-L 211 Query: 762 GGGTVDGWEAPALT--ALSKSPTPWTEEELFAYLRRGFSARHGIAAGPMAPVV-AELAQL 818 GG++ W AP +T AL P WT E L YL G +A AAGPM + ++L Sbjct: 212 QGGSLGTWYAPDITPAALQAKPA-WTREMLADYLASGHAANGATAAGPMLEAIEMSFSRL 270 Query: 819 PPGDVRAIAHYL-----ASFQSDTTTSPAAPVPASAAQAPSPAELRSRANGQRLFAGACA 873 D+ A+A YL A+ PA P +P L + + G R++ CA Sbjct: 271 RREDLEAMASYLLPPTAATAAPAVNKPPAGLTPVQGDD--TPQALAALSPGARVYMNNCA 328 Query: 874 ACHQEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPANPALGY-MPGFANSFS 932 +CH G L G+ P L+ + L DN+V IL G+ P G M GFA++ + Sbjct: 329 SCHNTA-GQGLNGLPP-LQSHPVLRQPNGDNVVMAILEGVL----PEHGQGMIGFAHTLN 382 Query: 933 DAQMVDLLAYLRSEFAAGK 951 D Q+ + YL + K Sbjct: 383 DEQVAAVTNYLLQDIGGSK 401 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 250 bits (638), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 160/408 (39%), Positives = 223/408 (54%), Gaps = 24/408 (5%) Query: 571 ARPDPDLYSAATIERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEH 630 A P PD + +G+ +A AG+C CHTA GGA AGG A+ +PFGT+Y++NITPD+ Sbjct: 38 ATPAPD--PTRQLAQGQYLARAGNCMACHTARGGAPYAGGRAIASPFGTLYTSNITPDKT 95 Query: 631 TGIGNWSYAAFERAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLMAQPAVASTP 690 TGIG WS F RA+ G ++G+ LYPAFPYT++ ++S AD +L+AYL + P VA Sbjct: 96 TGIGQWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFAYLQSLPPVARAN 155 Query: 691 PANDLRFPFNLRPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVDGAGHCAACHSPRNA 750 A+ LRFP++ R LL W L+ PQ +QPDP + WNRGAYLV GAGHC+ACHS RN Sbjct: 156 QAHTLRFPYDQRMLLGLWRALYFTPQSYQPDPRQDAQWNRGAYLVQGAGHCSACHSARNR 215 Query: 751 LGAEKGGRHYLGGGTVDG--WEAPALTALSKSPTPWTEEELFAYLRRGFSARHGIAAGPM 808 LGA L GG + W AP L + W+ ++ A L+ G S H + GPM Sbjct: 216 LGASIEPLA-LAGGVIPALQWYAPPLHGGADGLQDWSTADIAALLKTGVSP-HAVTLGPM 273 Query: 809 APVVAE-LAQLPPGDVRAIAHYLASFQSDTTTSPAAPVPASAAQAPSPAELRSRANGQRL 867 + +V L L DV A+A YL S + A P A+ P+ AE R G++L Sbjct: 274 SEIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARP----ASVEPAEAE-RIMKQGKQL 328 Query: 868 FAGACAACH---QEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPA---NPAL 921 + C CH +G+ P P L N + P N V +L+G P+ NP Sbjct: 329 YGTLCVDCHGGKGQGSAPDY----PPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPYP 384 Query: 922 GYMPGFANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEASIARSRAMPM 969 MP F SD ++ +++Y+R+ + G A + R R++P+ Sbjct: 385 FGMPPFGPQLSDQEVAAVVSYVRNSW--GNQGGLVSAAEVNRYRSVPL 430 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 243 bits (621), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 146/395 (36%), Positives = 215/395 (54%), Gaps = 20/395 (5%) Query: 583 IERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFE 642 + RG+ +A AGDC CH+A G +GG A+ + G +YSTNITPD+ GIGN+S A F Sbjct: 32 VARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNYSEAQFS 91 Query: 643 RAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLM--AQPAVASTPPANDLRFPFN 700 A+R G+ DG LYPA PY ++AK+S+ D+ +LY Y M QP VASTPPA+ + FPFN Sbjct: 92 AAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQP-VASTPPASSMSFPFN 150 Query: 701 LRPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVDGAGHCAACHSPRNALGAEKGGR-- 758 +R + WN F + + F+ S RGAYLV+G GHC +CH+PR EK Sbjct: 151 IRWGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNEKASDSS 210 Query: 759 --HYLGGGTVDGWEAPALTALSKSPTPWTEEELFAYLRRGFSARHGIAAGPMAPVVAE-L 815 +L GG ++GW P+L + W+ +++ YL+ G + + AG M+ VV Sbjct: 211 QAQFLSGGDLNGWAVPSLRGMPH----WSAQDIVDYLQTGRNKTASV-AGEMSLVVEHST 265 Query: 816 AQLPPGDVRAIAHYLASFQSDTTTSPAAPVPASA-AQAPSPAELRSRANGQRLFAGACAA 874 + L D++A+A YL + ++ +P A + G+RL+ CAA Sbjct: 266 SHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVDATVSKLTAAKDLTLGERLYLDNCAA 325 Query: 875 CHQEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPAN---PALGYMPGFANSF 931 CH TG G+ P L T ++++ P L+HVIL G R P+ P++ MPGFA+ Sbjct: 326 CHFV-TGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSILVMPGFAHRL 384 Query: 932 SDAQMVDLLAYLRSEFAAGKPAWQGVEASIARSRA 966 SD + L ++R + G A + E + + RA Sbjct: 385 SDEEAAALATFVRQGW--GNHAGKVSEREVGKLRA 417 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 235 bits (599), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 153/397 (38%), Positives = 203/397 (51%), Gaps = 34/397 (8%) Query: 583 IERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFE 642 IERG +A+A DC CHTAP G AGG A+ +P G + +TNITP + GIGN++ F Sbjct: 53 IERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQFA 112 Query: 643 RAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLM--AQPAVASTPPANDLRFPFN 700 A+R G+ DG +LYPA PYTA+A +S+AD+Q+LYAY M P +T P DL FP N Sbjct: 113 AALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRP-TDLPFPMN 171 Query: 701 LRPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVDGAGHCAACHSPRNALGAEKGGRHY 760 LR + WN LF Q P P RS W RG YL +G HC+ CH+PR L EK Sbjct: 172 LRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKPDLQ- 230 Query: 761 LGGGTVDGWEAPALTAL-SKSPTPWTEEELFAYLRRGFSARHGIAAGPMAPVVAE-LAQL 818 L G V W AP +T+ S W++++L AYLR G AAG MA + ++L Sbjct: 231 LAGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITHSFSRL 290 Query: 819 PPGDVRAIAHYL---------------ASFQSDTTTSPAAPVPASAAQAPSPAELRSRAN 863 D+RAIA Y+ + F + A A SP E+R Sbjct: 291 TEEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRGRTLSAESPEEIR---- 346 Query: 864 GQRLFAGACAACHQEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGI-REPANPALG 922 G R+F+ +CA+CH + G PSL N+ +NL+ IL+G+ RE Sbjct: 347 GARIFSASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRETEQGGHV 406 Query: 923 YMPGFA------NSFSDAQMVDLLAYLRSEFAAGKPA 953 +MP F N S+A + L YL + GKPA Sbjct: 407 FMPPFGDQPNALNKLSNADVAALSNYLLKYY--GKPA 441 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 0.131 0.400 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: 3,106,627 Number of extensions: 135824 Number of successful extensions: 550 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 503 Number of HSP's successfully gapped: 8 Length of query: 970 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 876 Effective length of database: 1,174,780 Effective search space: 1029107280 Effective search space used: 1029107280 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: 135 (56.6 bits)