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= 0008.0077.p (436 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... 856 0.0 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 77 4e-15 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 66 6e-12 gi|300309454|ref|YP_003773546.1| GTPase translation elongation f... 60 4e-10 gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein... 60 4e-10 >gi|300312898|ref|YP_003776990.1| translation initiation factor IF-2 [Herbaspirillum seropedicae SmR1] Length = 954 Score = 856 bits (2212), Expect = 0.0, Method: Compositional matrix adjust. Identities = 426/433 (98%), Positives = 427/433 (98%) Query: 2 EEKKRAAAEEAKKKAEAAAKEAADRAAAADRARKAVEDEVAQIKAMMNAPRRVIKAPEPA 61 EEKKRAAAEEAKKKAEAAAKEAADRAAAADRARKAVEDEVAQIKAMMNAPRRVIKAPEPA Sbjct: 211 EEKKRAAAEEAKKKAEAAAKEAADRAAAADRARKAVEDEVAQIKAMMNAPRRVIKAPEPA 270 Query: 62 PAPAKTSEGTLHKPATAAKPGEKKDDKKPAVAADKKSIKSANVSSTWQDDAKKRGAGGMK 121 PA AKTSEGTLHKPATAAKPGEKKDDKKPAVAADKKSIKSANVSSTWQDDAKKRG GGMK Sbjct: 271 PAAAKTSEGTLHKPATAAKPGEKKDDKKPAVAADKKSIKSANVSSTWQDDAKKRGTGGMK 330 Query: 122 SRGATGSGGRDGWRAGPKGRRHSHGDDQRESNFQVPTEAVVHDVYVPETITVAEVAHKMA 181 SRGATG GGRDGWRAGPKGRRHSHGDDQRESNFQVPTEAVVHDVYVPETITVAEVAHKMA Sbjct: 331 SRGATGGGGRDGWRAGPKGRRHSHGDDQRESNFQVPTEAVVHDVYVPETITVAEVAHKMA 390 Query: 182 VKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEMGHRAHAAKLDDPEALLVEGEEHADA 241 VKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEMGHRAHAAKLDDPEALLVEGEEH DA Sbjct: 391 VKASEVIKHLMKLGQMVTINQVLDQETAMIVVEEMGHRAHAAKLDDPEALLVEGEEHGDA 450 Query: 242 EATPRAPVVTVMGHVDHGKTSLLDYIRRTKVASGEAGGITQHIGAYHVETPRGMITFLDT 301 EA PRAPVVTVMGHVDHGKTSLLDYIRRTKVASGEAGGITQHIGAYHVETPRGMITFLDT Sbjct: 451 EALPRAPVVTVMGHVDHGKTSLLDYIRRTKVASGEAGGITQHIGAYHVETPRGMITFLDT 510 Query: 302 PGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVPLVVAINKIDKPGA 361 PGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVPLVVAINKIDKPGA Sbjct: 511 PGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVPLVVAINKIDKPGA 570 Query: 362 NPDRVKQELIAEEVVPEEYGGDAPFITVSAKTGEGIDSLLENVLLQAEVLELKAPVDVPA 421 NPDRVKQELIAEEVVPEEYGGDAPFI VSAKTGEGIDSLLENVLLQAEVLELKAPV+VPA Sbjct: 571 NPDRVKQELIAEEVVPEEYGGDAPFIPVSAKTGEGIDSLLENVLLQAEVLELKAPVEVPA 630 Query: 422 RGLVIEAKLDKGR 434 RGLVIEAKLDKGR Sbjct: 631 RGLVIEAKLDKGR 643 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/210 (30%), Positives = 101/210 (48%), Gaps = 41/210 (19%) Query: 250 VTVMGHVDHGKTSLLDYIRRTKVASGEAGGIT------QHIGAYHVETPRGM-------- 295 +++ H+DHGK++L D I + GG++ Q + + +E RG+ Sbjct: 7 FSIIAHIDHGKSTLADRIIQL------CGGLSNREMEAQVLDSMDIERERGITIKAQTAA 60 Query: 296 ------------ITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAK 343 + +DTPGH F+ +R A + +LVV A GV QT A Sbjct: 61 LSYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTAL 120 Query: 344 AGGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAPFIT-VSAKTGEGIDSLLE 402 GV +V +NKID P A+PD K E+ E+V+ G DA T SAKTG G++ +LE Sbjct: 121 DLGVEVVPVLNKIDLPSADPDNAKSEI--EDVI----GIDASDATPCSAKTGLGVEDVLE 174 Query: 403 NVLLQAEVLELKAPVDVPARGLVIEAKLDK 432 ++ A+V K + P + L+I++ D Sbjct: 175 AIV--AKVPAPKGDPEAPLQALIIDSWFDN 202 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 16/123 (13%) Query: 255 HVDHGKTSLLDYIRRTKVASGEAGGITQHI-GAYHVETPRGM---------------ITF 298 HVDHGKT+L+D + R + + + + +E RG+ I Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDNRVMDSNDIEKERGITILSKNCAVEYKGTHINI 89 Query: 299 LDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVPLVVAINKIDK 358 +DTPGH F R D V+L+V A +G MPQT+ A A G+ +V +NKID+ Sbjct: 90 VDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKPIVVLNKIDR 149 Query: 359 PGA 361 PGA Sbjct: 150 PGA 152 >gi|300309454|ref|YP_003773546.1| GTPase translation elongation factor TU [Herbaspirillum seropedicae SmR1] Length = 396 Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 58/165 (35%), Positives = 75/165 (45%), Gaps = 25/165 (15%) Query: 250 VTVMGHVDHGKTSLLDYIRR--TKVASGEAG--------------GITQHIGAYHVETPR 293 V +GHVDHGKT+L I +K GEA GIT + ET Sbjct: 15 VGTIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPEEKARGITINTAHVEYETAN 74 Query: 294 GMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVP-LVVA 352 +D PGH + GA D ILV +A DG MPQT+E I ++ GVP ++V Sbjct: 75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLSRQVGVPYIIVF 134 Query: 353 INKIDKPGANPDRVKQELIAEEV--VPEEY---GGDAPFITVSAK 392 +NK D D EL+ EV + +Y G D P + SAK Sbjct: 135 LNKAD---MVDDAELLELVEMEVRELLSKYEFPGDDLPIVKGSAK 176 >gi|300309440|ref|YP_003773532.1| EF-Tu elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 396 Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 58/165 (35%), Positives = 75/165 (45%), Gaps = 25/165 (15%) Query: 250 VTVMGHVDHGKTSLLDYIRR--TKVASGEAG--------------GITQHIGAYHVETPR 293 V +GHVDHGKT+L I +K GEA GIT + ET Sbjct: 15 VGTIGHVDHGKTTLTAAIATVLSKKFGGEAKAYDQIDAAPEEKARGITINTAHVEYETAN 74 Query: 294 GMITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKAGGVP-LVVA 352 +D PGH + GA D ILV +A DG MPQT+E I ++ GVP ++V Sbjct: 75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLSRQVGVPYIIVF 134 Query: 353 INKIDKPGANPDRVKQELIAEEV--VPEEY---GGDAPFITVSAK 392 +NK D D EL+ EV + +Y G D P + SAK Sbjct: 135 LNKAD---MVDDAELLELVEMEVRELLSKYEFPGDDLPIVKGSAK 176 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 0.128 0.356 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: 1,244,061 Number of extensions: 52511 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 5 Length of query: 436 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 348 Effective length of database: 1,203,190 Effective search space: 418710120 Effective search space used: 418710120 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: 132 (55.5 bits)