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= 0001.1801.p (597 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 1215 0.0 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 172 6e-44 gi|300313617|ref|YP_003777709.1| translation elongation factor [... 97 3e-21 gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 ... 96 8e-21 gi|300312898|ref|YP_003776990.1| translation initiation factor I... 90 4e-19 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 1215 bits (3143), Expect = 0.0, Method: Compositional matrix adjust. Identities = 592/597 (99%), Positives = 595/597 (99%) Query: 1 MNNIRNFSIIAHIDHGKSTLADRIIQLCGGLSNREMEAQVLDSMDIERERGITIKAQTAA 60 MNNIRNFSIIAHIDHGKSTLADRIIQLCGGLSNREMEAQVLDSMDIERERGITIKAQTAA Sbjct: 1 MNNIRNFSIIAHIDHGKSTLADRIIQLCGGLSNREMEAQVLDSMDIERERGITIKAQTAA 60 Query: 61 LAYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTAL 120 L+YKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTAL Sbjct: 61 LSYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTAL 120 Query: 121 DLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLEAIVAKV 180 DLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLEAIVAKV Sbjct: 121 DLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLEAIVAKV 180 Query: 181 PAPKGDPDAPLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKILLMATETQYLTESIGVF 240 PAPKGDP+APLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKILLMATETQYLTESIGVF Sbjct: 181 PAPKGDPEAPLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKILLMATETQYLTESIGVF 240 Query: 241 TPKSQSRESLTAGQVGFVIAGIKELKSARVGDTITLAGKPAAAPLPGFKEVQPQVFAGLF 300 TPKSQSRE+LTAGQVGFVIAGIKELKSARVGDTITLA KPA APLPGFKEVQPQVFAGLF Sbjct: 241 TPKSQSREALTAGQVGFVIAGIKELKSARVGDTITLASKPAPAPLPGFKEVQPQVFAGLF 300 Query: 301 PVEANQYDALRDSLEKLKLNDAALMYEPEVSQALGFGFRCGFLGLLHMEIVQERLEREFD 360 PVEANQYDALRDSLEKLKLNDAALMYEPEVSQALGFGFRCGFLGLLHMEIVQERLEREFD Sbjct: 301 PVEANQYDALRDSLEKLKLNDAALMYEPEVSQALGFGFRCGFLGLLHMEIVQERLEREFD 360 Query: 361 MDLITTAPTVVYEVQQRDGTLLMVDNPSKMPEVSKIEEIREPIVTVNLYMPQEYVGSVIT 420 MDLITTAPTVVYEVQQRDGTLLMVDNPSKMPEVSKIEEIREPIVTVNLYMPQEYVGSVIT Sbjct: 361 MDLITTAPTVVYEVQQRDGTLLMVDNPSKMPEVSKIEEIREPIVTVNLYMPQEYVGSVIT 420 Query: 421 LCTQKRGIQMNMSYHGKQVQLTYEMPMAEIVLDFFDRLKSTSRGYASMDYEFKEYRAADV 480 LCTQKRGIQMNMSYHGKQVQLTYEMPMAEIVLDFFDRLKSTSRGYASMDYEFKEYRAADV Sbjct: 421 LCTQKRGIQMNMSYHGKQVQLTYEMPMAEIVLDFFDRLKSTSRGYASMDYEFKEYRAADV 480 Query: 481 VKVDMLINSEKVDALAIIVHRAAAQIRGRQVAAKMRELIPRQMFDVAIQAAIGATIISRE 540 VKVDMLINSEKVDALAIIVHRAAAQIRGRQVAAKMRELIPRQMFDVAIQAAIGATIISRE Sbjct: 481 VKVDMLINSEKVDALAIIVHRAAAQIRGRQVAAKMRELIPRQMFDVAIQAAIGATIISRE 540 Query: 541 NVKAMRKNVLAKCYGGDISRKRKLLEKQKAGKKRMKQVGSVEIPQEAFLAILQVEDK 597 NVKAMRKNVLAKCYGGDISRKRKLLEKQKAGKKRMKQVGSVEIPQEAFLAILQVEDK Sbjct: 541 NVKAMRKNVLAKCYGGDISRKRKLLEKQKAGKKRMKQVGSVEIPQEAFLAILQVEDK 597 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 172 bits (437), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 161/537 (29%), Positives = 251/537 (46%), Gaps = 75/537 (13%) Query: 12 HIDHGKSTLADRIIQLCGGL-SNREMEAQVLDSMDIERERGITIKAQTAALAYKAKDGQI 70 H+DHGK+TL D++++ G N++++ +V+DS DIE+ERGITI ++ A+ YK Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDNRVMDSNDIEKERGITILSKNCAVEYKGT---- 85 Query: 71 YNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTALDLGVEVVPVL 130 ++N++DTPGH DF EV R LS + LL+VDA +G QT AL LG++ + VL Sbjct: 86 -HINIVDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKPIVVL 144 Query: 131 NKIDLPSADPD---NAKSEIEDVIGIDASDAT-PCSAKTGL-------------GVEDVL 173 NKID P A + NA E+ D +G P +GL +E + Sbjct: 145 NKIDRPGARAEWAINATFELFDKLGATEEQLDFPVIYASGLNGYASLDPEAREGNMEPLF 204 Query: 174 EAIVAKVPAPKGDPDAPLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKILLMATETQYL 233 +AI+ VPA K DPDAPLQ I + +YVG + + RI+ G ++ ++ M Sbjct: 205 DAILKYVPARKDDPDAPLQLQITSLEYSSYVGKIGVGRILAGRVKGGQDVVWMNGPDDKP 264 Query: 234 TESI--GVFTPKSQSR---ESLTAGQVGFVIAGIKELKSARVGDTITLAGKPAAAPLPGF 288 T++ V T K R + AG + +I GI+E+ +G TI P LP Sbjct: 265 TKARINQVLTFKGLERVLVDEALAGDI-VLINGIEEIG---IGSTICSPDAPNG--LPML 318 Query: 289 KEVQPQVFAGLF----PVEANQ-----YDALRDSLEK-LKLNDAALMYEPEVSQALGFGF 338 K +P + P+ + +RD LEK LK N A + + E + + Sbjct: 319 KVDEPTLTMNFMVNTSPLAGREGKFVTTRQIRDRLEKELKSNMALRVVQAENDDST---Y 375 Query: 339 RCGFLGLLHMEIVQERLEREFDMDLITTAPTVVYEVQQRDGTLLMVDNPSKMPEVSKIEE 398 G LH+ I+ E + RE +L + P VV+ + V+ + E Sbjct: 376 EVSGRGELHLTILIENMRRE-GFELAVSRPRVVFRM------------------VNGVRE 416 Query: 399 IREPIVTVNLYMPQEYVGSVITLCTQKRGIQMNMSYHGK-QVQLTYEMPMAEIVLDFFDR 457 EP + + + + + G V+ ++RG NM GK +V+L Y +P A ++ F Sbjct: 417 --EPYENLTVDVEETHQGGVMEELGRRRGDLQNMEPDGKGRVRLEYHIP-ARGLIGFQGE 473 Query: 458 LKSTSRGYASMDYEFKEYRAADVVKVDMLINSEKV-----DALAIIVHRAAAQIRGR 509 + +RG M + F +Y+ D K ++ V D A+ Q RGR Sbjct: 474 FMTLTRGTGLMSHVFDDYKPVDTTKGELAGRRNGVLISQDDGAAVAYALWKLQDRGR 530 >gi|300313617|ref|YP_003777709.1| translation elongation factor [Herbaspirillum seropedicae SmR1] Length = 701 Score = 97.4 bits (241), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 62/183 (33%), Positives = 97/183 (53%), Gaps = 12/183 (6%) Query: 1 MNNIRNFSIIAHIDHGKSTLADRIIQLCGGLSNREME----AQVLDSMDIERERGITIKA 56 + N RN I AHID GK+T +RI+ G++++ E A +D M+ E+ERGITI + Sbjct: 7 IENYRNIGISAHIDAGKTTTTERIL-FYTGVNHKIGEVHNGAATMDWMEQEQERGITITS 65 Query: 57 QTAALAYKAKDGQI--YNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVA 114 +K G + +N+IDTPGHVDF+ EV RS+ +GA++V D+ GV+ Q+ Sbjct: 66 AATTAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYDSVGGVQPQSET 125 Query: 115 NCYTALDLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLE 174 A V + +NK+D AD + +IE+ + A P + +G ED Sbjct: 126 VWRQANKYKVPRIAFVNKMDRIGADFFRVQKQIEERL---KGKAVPI--QIPVGAEDHFS 180 Query: 175 AIV 177 ++ Sbjct: 181 GVI 183 >gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 [Herbaspirillum seropedicae SmR1] Length = 530 Score = 95.9 bits (237), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 57/171 (33%), Positives = 92/171 (53%), Gaps = 15/171 (8%) Query: 5 RNFSIIAHIDHGKSTLADRI------IQLCGGLSNREMEAQVL-DSMDIERERGITIKAQ 57 R F II+H D GK+TL +++ IQL G + R+ D M+IE++RGI++ + Sbjct: 10 RTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGISVASS 69 Query: 58 TAALAYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCY 117 Y+ + +NL+DTPGH DFS + R L+A + AL+V+DA++GVE QT+ Sbjct: 70 VMQFEYRD-----HVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTIKLLN 124 Query: 118 TALDLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLG 168 ++ +NK+D + D E+E V+ I + P + G+G Sbjct: 125 VCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCA---PVTWPIGMG 172 >gi|300312898|ref|YP_003776990.1| translation initiation factor IF-2 [Herbaspirillum seropedicae SmR1] Length = 954 Score = 90.1 bits (222), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/231 (31%), Positives = 113/231 (48%), Gaps = 41/231 (17%) Query: 8 SIIAHIDHGKSTLADRIIQL------CGGLSNREMEAQVLDSMDIERERGITIKAQTAAL 61 +++ H+DHGK++L D I + GG++ Q + + +E RG+ Sbjct: 460 TVMGHVDHGKTSLLDYIRRTKVASGEAGGIT------QHIGAYHVETPRGM--------- 504 Query: 62 AYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTALD 121 + +DTPGH F+ +R A + +LVV A GV QT A Sbjct: 505 -----------ITFLDTPGHEAFTAMRARGAKATDIVILVVAADDGVMPQTKEAIAHAKA 553 Query: 122 LGVEVVPVLNKIDLPSADPDNAKSEI--EDVI----GIDASDATPCSAKTGLGVEDVLEA 175 GV +V +NKID P A+PD K E+ E+V+ G DA P SAKTG G++ +LE Sbjct: 554 GGVPLVVAINKIDKPGANPDRVKQELIAEEVVPEEYGGDAP-FIPVSAKTGEGIDSLLEN 612 Query: 176 IV--AKVPAPKGDPDAPLQALIIDSWFDNYVGVVMLVRIVNGTLRPKDKIL 224 ++ A+V K + P + L+I++ D G V + + +GTL+ D +L Sbjct: 613 VLLQAEVLELKAPVEVPARGLVIEAKLDKGRGPVATILVQSGTLKRGDVVL 663 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 0.318 0.135 0.374 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: 1,595,393 Number of extensions: 61697 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 8 Length of query: 597 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 506 Effective length of database: 1,188,985 Effective search space: 601626410 Effective search space used: 601626410 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: 133 (55.8 bits)