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= 0001.3525.p (960 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312898|ref|YP_003776990.1| translation initiation factor I... 1386 0.0 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 88 4e-18 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 66 2e-11 gi|300309454|ref|YP_003773546.1| GTPase translation elongation f... 64 8e-11 gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein... 64 8e-11 >gi|300312898|ref|YP_003776990.1| translation initiation factor IF-2 [Herbaspirillum seropedicae SmR1] Length = 954 Score = 1386 bits (3587), Expect = 0.0, Method: Compositional matrix adjust. Identities = 698/709 (98%), Positives = 699/709 (98%) Query: 252 VEDEVAQIKAMMNAPRRVIKAPEPAAPAAKTSEGTLHKPAAGAKPAEKKDDKKPAVAADK 311 VEDEVAQIKAMMNAPRRVIKAPEPA AAKTSEGTLHKPA AKP EKKDDKKPAVAADK Sbjct: 246 VEDEVAQIKAMMNAPRRVIKAPEPAPAAAKTSEGTLHKPATAAKPGEKKDDKKPAVAADK 305 Query: 312 KSIKSANVSSTWQDDAKKRGAGGMKSRGATGGGGRDGWRAGPKGRRHSHGDDQRESNFQV 371 KSIKSANVSSTWQDDAKKRG GGMKSRGATGGGGRDGWRAGPKGRRHSHGDDQRESNFQV Sbjct: 306 KSIKSANVSSTWQDDAKKRGTGGMKSRGATGGGGRDGWRAGPKGRRHSHGDDQRESNFQV 365 Query: 372 PTEAVVHDVYVPETITVAEVAHKMAVKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEM 431 PTEAVVHDVYVPETITVAEVAHKMAVKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEM Sbjct: 366 PTEAVVHDVYVPETITVAEVAHKMAVKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEM 425 Query: 432 GHRAHAAKLDDPEALLVEGEEHADAEALPRAPVVTVMGHVDHGKTSLLDYIRRTKVASGE 491 GHRAHAAKLDDPEALLVEGEEH DAEALPRAPVVTVMGHVDHGKTSLLDYIRRTKVASGE Sbjct: 426 GHRAHAAKLDDPEALLVEGEEHGDAEALPRAPVVTVMGHVDHGKTSLLDYIRRTKVASGE 485 Query: 492 AGGITQHIGAYHVETPRGMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTK 551 AGGITQHIGAYHVETPRGMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTK Sbjct: 486 AGGITQHIGAYHVETPRGMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTK 545 Query: 552 EAIAHAKAGGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAPFIAVSAKTGEG 611 EAIAHAKAGGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAPFI VSAKTGEG Sbjct: 546 EAIAHAKAGGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAPFIPVSAKTGEG 605 Query: 612 IDSLLENVLLQAEVLELKAPVDVPARGLVIEAKLDKGRGPVATILVQSGTLKRGDVVLAG 671 IDSLLENVLLQAEVLELKAPV+VPARGLVIEAKLDKGRGPVATILVQSGTLKRGDVVLAG Sbjct: 606 IDSLLENVLLQAEVLELKAPVEVPARGLVIEAKLDKGRGPVATILVQSGTLKRGDVVLAG 665 Query: 672 SAYGRVRAMLDENGKNIAEAGPSLPVEIQGLTEVPSAGEEVVVMTDERKAREIGLFRQGK 731 SAYGRVRAMLDENGKNIAEAGPSLPVEIQGLTEVPSAGEEVVVMTDERKAREIGLFRQGK Sbjct: 666 SAYGRVRAMLDENGKNIAEAGPSLPVEIQGLTEVPSAGEEVVVMTDERKAREIGLFRQGK 725 Query: 732 FRDVKLAKQQAAKLENMFDQMTEGEVKTLPMIIKTDVQGSQEALVQSLQKLSTAEVRVQV 791 FRDVKLAKQQAAKLENMFDQMTEGEVK LPMIIKTDVQGSQEALVQSLQKLST EVRVQV Sbjct: 726 FRDVKLAKQQAAKLENMFDQMTEGEVKNLPMIIKTDVQGSQEALVQSLQKLSTNEVRVQV 785 Query: 792 VHAAVGGISENDVNLAVASKAVIIGFNTRADASARKLAEASGVDIRYYNIIYDAVDEVKA 851 VHAAVGGISENDVNLAVASKAVIIGFNTRADASARKLAEASGVDIRYYNIIYDAVDEVKA Sbjct: 786 VHAAVGGISENDVNLAVASKAVIIGFNTRADASARKLAEASGVDIRYYNIIYDAVDEVKA 845 Query: 852 AMSGMLSPEKREQALGLVEIRQVFVVSKVGSIAGCYVLEGLVKRGSQVRLLRNNVVVWTG 911 AMSGMLSPEKREQALGLVEIRQVFVVSKVGSIAGCYVLEGLVKRGSQVRLLRNNVVVWTG Sbjct: 846 AMSGMLSPEKREQALGLVEIRQVFVVSKVGSIAGCYVLEGLVKRGSQVRLLRNNVVVWTG 905 Query: 912 ELDSLKRFKDDVKEVKSGFECGLSLKGYNDIEVGDQLEIFEVQEVARTL 960 ELDSLKRFKDDVKEVKSGFECGLSLKGYNDIEVGDQLEIFEVQEVARTL Sbjct: 906 ELDSLKRFKDDVKEVKSGFECGLSLKGYNDIEVGDQLEIFEVQEVARTL 954 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 87.8 bits (216), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 111/231 (48%), Gaps = 39/231 (16%) Query: 465 VTVMGHVDHGKTSLLDYIRRTKVASGEAGGIT------QHIGAYHVETPRGM-------- 510 +++ H+DHGK++L D I + GG++ Q + + +E RG+ Sbjct: 7 FSIIAHIDHGKSTLADRIIQL------CGGLSNREMEAQVLDSMDIERERGITIKAQTAA 60 Query: 511 ------------ITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAK 558 + +DTPGH F+ +R A + +LVV A GV QT A Sbjct: 61 LSYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTAL 120 Query: 559 AGGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAPFIAVSAKTGEGIDSLLEN 618 GV +V +NKID P A+PD K E+ E+V+ + P SAKTG G++ +LE Sbjct: 121 DLGVEVVPVLNKIDLPSADPDNAKSEI--EDVIGIDASDATP---CSAKTGLGVEDVLEA 175 Query: 619 VLLQAEVLELKAPVDVPARGLVIEAKLDKGRGPVATILVQSGTLKRGDVVL 669 ++ A+V K + P + L+I++ D G V + + +GTL+ D +L Sbjct: 176 IV--AKVPAPKGDPEAPLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKIL 224 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 16/123 (13%) Query: 470 HVDHGKTSLLDYIRRTKVASGEAGGITQHI-GAYHVETPRGM---------------ITF 513 HVDHGKT+L+D + R + + + + +E RG+ I Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDNRVMDSNDIEKERGITILSKNCAVEYKGTHINI 89 Query: 514 LDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVPLVVAINKIDK 573 +DTPGH F R D V+L+V A +G MPQT+ A A G+ +V +NKID+ Sbjct: 90 VDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKPIVVLNKIDR 149 Query: 574 PGA 576 PGA Sbjct: 150 PGA 152 >gi|300309454|ref|YP_003773546.1| GTPase translation elongation factor TU [Herbaspirillum seropedicae SmR1] Length = 396 Score = 63.5 bits (153), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 103/234 (44%), Gaps = 37/234 (15%) Query: 465 VTVMGHVDHGKTSLLDYIRR--TKVASGEAG--------------GITQHIGAYHVETPR 508 V +GHVDHGKT+L I +K GEA GIT + ET Sbjct: 15 VGTIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPEEKARGITINTAHVEYETAN 74 Query: 509 GMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVP-LVVA 567 +D PGH + GA D ILV +A DG MPQT+E I ++ GVP ++V Sbjct: 75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLSRQVGVPYIIVF 134 Query: 568 INKIDKPGANPDRVKQELIAEEV--VPEEY---GGDAPFIAVSAKTG-EGIDSLL--ENV 619 +NK D D EL+ EV + +Y G D P + SAK EG L + + Sbjct: 135 LNKAD---MVDDAELLELVEMEVRELLSKYEFPGDDLPIVKGSAKLALEGDTGPLGEQAI 191 Query: 620 LLQAEVLELKAPVDVPAR---GLVIEAKLD----KGRGPVATILVQSGTLKRGD 666 + AE L+ P P R G + D GRG V T V+ G +K G+ Sbjct: 192 MALAEALDTYIP--TPERAVDGTFLMPVEDVFSISGRGTVVTGRVERGIIKVGE 243 >gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 396 Score = 63.5 bits (153), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 78/234 (33%), Positives = 103/234 (44%), Gaps = 37/234 (15%) Query: 465 VTVMGHVDHGKTSLLDYIRR--TKVASGEAG--------------GITQHIGAYHVETPR 508 V +GHVDHGKT+L I +K GEA GIT + ET Sbjct: 15 VGTIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPEEKARGITINTAHVEYETAN 74 Query: 509 GMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVP-LVVA 567 +D PGH + GA D ILV +A DG MPQT+E I ++ GVP ++V Sbjct: 75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLSRQVGVPYIIVF 134 Query: 568 INKIDKPGANPDRVKQELIAEEV--VPEEY---GGDAPFIAVSAKTG-EGIDSLL--ENV 619 +NK D D EL+ EV + +Y G D P + SAK EG L + + Sbjct: 135 LNKAD---MVDDAELLELVEMEVRELLSKYEFPGDDLPIVKGSAKLALEGDTGPLGEQAI 191 Query: 620 LLQAEVLELKAPVDVPAR---GLVIEAKLD----KGRGPVATILVQSGTLKRGD 666 + AE L+ P P R G + D GRG V T V+ G +K G+ Sbjct: 192 MALAEALDTYIP--TPERAVDGTFLMPVEDVFSISGRGTVVTGRVERGIIKVGE 243 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 0.311 0.127 0.338 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: 2,158,641 Number of extensions: 86772 Number of successful extensions: 300 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 292 Number of HSP's successfully gapped: 5 Length of query: 960 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 866 Effective length of database: 1,174,780 Effective search space: 1017359480 Effective search space used: 1017359480 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 135 (56.6 bits)