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= 0009.0005.p (701 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspir... 1445 0.0 gi|300313617|ref|YP_003777709.1| translation elongation factor [... 1121 0.0 gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 ... 156 6e-39 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 87 4e-18 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 85 2e-17 >gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1445 bits (3740), Expect = 0.0, Method: Compositional matrix adjust. Identities = 698/701 (99%), Positives = 700/701 (99%) Query: 1 MARKTPIERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERG 60 MARKTPIERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERG Sbjct: 1 MARKTPIERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERG 60 Query: 61 ITITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 ITITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ Sbjct: 61 ITITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 Query: 121 PQSETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFE 180 PQSETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFE Sbjct: 121 PQSETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFE 180 Query: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPEGLKAEAQKWRENLVETAAEASEDLMNKYLEE 240 GVIDLVKMRAIYWDDASQGMKFDYRDIPE LKA+AQKWRENLVETAAEASEDLMNKYLEE Sbjct: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPEHLKADAQKWRENLVETAAEASEDLMNKYLEE 240 Query: 241 GDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPVPGLNE 300 GDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPVPGLNE Sbjct: 241 GDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPVPGLNE 300 Query: 301 DDEPVVREAKDDEKFSALAFKIATDPFVGQLCFIRCYSGTLNSGDTVLNSVKSKKERIGR 360 DDEPVVREAKDDEKFSALAFKIATDPFVGQLCFIRCYSGTLNSGDTVLNSVKSKKERIGR Sbjct: 301 DDEPVVREAKDDEKFSALAFKIATDPFVGQLCFIRCYSGTLNSGDTVLNSVKSKKERIGR 360 Query: 361 IVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPEPVISQAVEP 420 IVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPEPVISQAVEP Sbjct: 361 IVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPEPVISQAVEP 420 Query: 421 KTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEAT 480 KTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEAT Sbjct: 421 KTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEAT 480 Query: 481 VGKPQVAYRETIRKTCEESEGKFVKQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTV 540 VGKPQVAYRETIRKTCEESEGKFVKQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTV Sbjct: 481 VGKPQVAYRETIRKTCEESEGKFVKQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTV 540 Query: 541 PREFIPAVEKGVRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKDGC 600 PREFIPAVEKGVRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFK+GC Sbjct: 541 PREFIPAVEKGVRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKEGC 600 Query: 601 RRASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 RRASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM Sbjct: 601 RRASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 Query: 661 FGYSTTLRSATQGRATYSMEFKHYSEAPKNVIDAIVTSKAK 701 FGYSTTLRSATQGRATYSMEFKHYSEAPKNVIDAIVTSKAK Sbjct: 661 FGYSTTLRSATQGRATYSMEFKHYSEAPKNVIDAIVTSKAK 701 >gi|300313617|ref|YP_003777709.1| translation elongation factor [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1121 bits (2899), Expect = 0.0, Method: Compositional matrix adjust. Identities = 529/701 (75%), Positives = 609/701 (86%), Gaps = 1/701 (0%) Query: 1 MARKTPIERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERG 60 M+RKT IE YRNIGISAHIDAGKTTTTER+LFYTGVNHKIGEVH+GAATMDWMEQEQERG Sbjct: 1 MSRKTRIENYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHNGAATMDWMEQEQERG 60 Query: 61 ITITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 ITITSAATT +WKGMA N+P H INIIDTPGHVDFTIEVERSMRVLDGA MVY +VGGVQ Sbjct: 61 ITITSAATTAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYDSVGGVQ 120 Query: 121 PQSETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFE 180 PQSETVWRQANKYKVPR+AFVNKMDR GA+FF+V +Q+ RLK +P+Q+P+GAE++F Sbjct: 121 PQSETVWRQANKYKVPRIAFVNKMDRIGADFFRVQKQIEERLKGKAVPIQIPVGAEDHFS 180 Query: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPEGLKAEAQKWRENLVETAAEASEDLMNKYLEE 240 GVIDLVKM+AI WD+ASQG+ F Y DIP L+ A+ WR+ +VE AAEA+E+L+ KYL Sbjct: 181 GVIDLVKMKAIIWDEASQGVLFKYEDIPLELEDTARHWRDLMVEQAAEANEELLEKYLSG 240 Query: 241 GDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPVPGLNE 300 LTE +IK +R RT++ EIVPM+ G+AFKNKGVQAMLD V++YLPSPVD+P + G E Sbjct: 241 NPLTEDDIKRGLRLRTVANEIVPMLAGSAFKNKGVQAMLDAVIDYLPSPVDVPAIAGHGE 300 Query: 301 DDEPVVREAKDDEKFSALAFKIATDPFVGQLCFIRCYSGTLNSGDTVLNSVKSKKERIGR 360 DD + R D+E FSALAFKI TDPFVGQL F R YSG +NSGDTV N VK KKER+GR Sbjct: 301 DDSEIERHPSDEEPFSALAFKIMTDPFVGQLTFFRVYSGIVNSGDTVYNPVKGKKERLGR 360 Query: 361 IVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPEPVISQAVEP 420 I+QMHAN+R+EIKE+ AGDIAA VGLKD TTGDTL D + ++LERM+FPEPVISQAVEP Sbjct: 361 ILQMHANERKEIKEVFAGDIAAAVGLKDVTTGDTLSDPEHPIILERMIFPEPVISQAVEP 420 Query: 421 KTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEAT 480 KTKADQEKMG+ALNRLA EDPSFRV TDEESGQTI++GMGELHL+I+VDRMKREFNVEAT Sbjct: 421 KTKADQEKMGIALNRLAQEDPSFRVHTDEESGQTIMSGMGELHLEILVDRMKREFNVEAT 480 Query: 481 VGKPQVAYRETIRKTCEESEGKFVKQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTV 540 VGKPQVAYRE IRK E+ EGKFVKQSGGRGQYGHVV+K+EPQ AGKG+EFVDAIKGG V Sbjct: 481 VGKPQVAYREAIRKAVEDVEGKFVKQSGGRGQYGHVVIKLEPQPAGKGYEFVDAIKGGVV 540 Query: 541 PREFIPAVEKGVRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKDGC 600 PREFIPAV+KG++E+L GVLAGYPVVDVK TL FGSYHDVDSNENAFRMAGSMAFK+ Sbjct: 541 PREFIPAVDKGIQESLKAGVLAGYPVVDVKATLTFGSYHDVDSNENAFRMAGSMAFKEAM 600 Query: 601 RRASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 +RA P++LEPMM VEVETPE++ G VMGDLSSRRGMVQGM+++ GGGK+++AEVPLSEM Sbjct: 601 KRAGPMLLEPMMQVEVETPEEFMGNVMGDLSSRRGMVQGMEDMV-GGGKLVRAEVPLSEM 659 Query: 661 FGYSTTLRSATQGRATYSMEFKHYSEAPKNVIDAIVTSKAK 701 FGYSTTLRS +QGRATYSMEFKHY+EAP+ V++ + K K Sbjct: 660 FGYSTTLRSLSQGRATYSMEFKHYAEAPRQVVEQLSGGKGK 700 >gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 [Herbaspirillum seropedicae SmR1] Length = 530 Score = 156 bits (394), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 129/520 (24%), Positives = 230/520 (44%), Gaps = 56/520 (10%) Query: 7 IERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGA----ATMDWMEQEQERGIT 62 ++R R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 6 VKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 65 Query: 63 ITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQ 122 + S+ M + H +N++DTPGH DF+ + R + +D A MV A GV+ Q Sbjct: 66 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 118 Query: 123 SETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFEGV 182 + + P + F+NK+DR + ++ +++ + LK P+ PIG +NF GV Sbjct: 119 TIKLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGV 178 Query: 183 IDLVKMRAIYWDDASQGMK--------FDYRDIPEGLKAEAQKWRENLVETAAEASEDL- 233 L++ + + + D + E E ++ + VE AS Sbjct: 179 YHLLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKME-VELVHGASHPFN 237 Query: 234 MNKYLEEGDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIP 293 ++ +L +G P+ G+A N GV+ +LD ++++ P P Sbjct: 238 LDDFL-------------------AGVQTPVFFGSAINNFGVREILDALLDWAPGP---- 274 Query: 294 PVPGLNEDDEPVVREAK-DDEKFSALAFKIAT--DP-FVGQLCFIRCYSGTLNSGDTVLN 349 + VRE K +E FS FKI DP ++ F+R SG G + + Sbjct: 275 ------GGRDATVREVKPTEEPFSGFVFKIQANMDPAHRDRIAFLRVCSGRFERGMKLKH 328 Query: 350 SVKSKKERIGRIVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVF 409 ++ ++ +V A+ RE+++E AGDI + + GD+ + + M+ + + Sbjct: 329 LRLNRDIKVSSVVTFMASSREQVEEAYAGDIIGLPNHGNMQIGDSFSEGE-MLQFTGIPY 387 Query: 410 PEPVISQAVEPKTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVD 469 P + + +++ L +L E+ + +V I+ +G L +++ Sbjct: 388 FAPDFFRVARIRNPLKIKQLHKGLQQL-GEEGAVQVFKPVTGSDLILGAVGVLQFEVVAS 446 Query: 470 RMKREFNVEATVGKPQVAYRETIRKTCEESEGKFVKQSGG 509 R+ E+ V+A ++ I ++ F K S G Sbjct: 447 RLLNEYGVDAVFEGTSISSARWISCDDKKKLADFEKSSAG 486 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 87.0 bits (214), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 57/179 (31%), Positives = 93/179 (51%), Gaps = 12/179 (6%) Query: 11 RNIGISAHIDAGKTTTTERVL-FYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATT 69 RN I AHID GK+T +R++ G++++ E A +D M+ E+ERGITI + Sbjct: 5 RNFSIIAHIDHGKSTLADRIIQLCGGLSNREME----AQVLDSMDIERERGITIKAQTAA 60 Query: 70 CYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQSETVWRQ 129 +K A + +++N+IDTPGHVDF+ EV RS+ +GA +V A GV+ Q+ Sbjct: 61 LSYK--AKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYT 118 Query: 130 ANKYKVPRLAFVNKMDRTGANFFKVYEQMRARL-----KANPIPMQVPIGAEENFEGVI 183 A V + +NK+D A+ ++ + A P + +G E+ E ++ Sbjct: 119 ALDLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLEAIV 177 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 50/132 (37%), Positives = 72/132 (54%), Gaps = 9/132 (6%) Query: 18 HIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCYWKGMAN 77 H+D GKTT +++L +G +V + MD + E+ERGITI S +KG Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDN--RVMDSNDIEKERGITILSKNCAVEYKGT-- 85 Query: 78 NFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQSETVWRQANKYKVPR 137 HINI+DTPGH DF EVER + ++D ++ A G PQ+ V R+A + Sbjct: 86 -----HINIVDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKP 140 Query: 138 LAFVNKMDRTGA 149 + +NK+DR GA Sbjct: 141 IVVLNKIDRPGA 152 Score = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 57/232 (24%), Positives = 101/232 (43%), Gaps = 39/232 (16%) Query: 275 VQAMLDGVVEYLPSPVDIPPVPGLNEDDEPVVREAKDDEKFSALAFKIAT---DPFVGQL 331 ++ + D +++Y+P+ D P P L +I + +VG++ Sbjct: 200 MEPLFDAILKYVPARKDDPDAP---------------------LQLQITSLEYSSYVGKI 238 Query: 332 CFIRCYSGTLNSGDTV--LNSVKSK--KERIGRIVQMHANQREEIKEMMAGDIAAVVGLK 387 R +G + G V +N K K RI +++ +R + E +AGDI + G++ Sbjct: 239 GVGRILAGRVKGGQDVVWMNGPDDKPTKARINQVLTFKGLERVLVDEALAGDIVLINGIE 298 Query: 388 DTTTGDTLCDDKAMVVLERMVFPEPVISQAVEPKTKADQEKMGLAL------NRLAAE-- 439 + G T+C A L + EP ++ T + G + +RL E Sbjct: 299 EIGIGSTICSPDAPNGLPMLKVDEPTLTMNFMVNTSPLAGREGKFVTTRQIRDRLEKELK 358 Query: 440 -DPSFRVRTDEESGQTI-IAGMGELHLDIIVDRMKREFNVEATVGKPQVAYR 489 + + RV E T ++G GELHL I+++ M+RE E V +P+V +R Sbjct: 359 SNMALRVVQAENDDSTYEVSGRGELHLTILIENMRRE-GFELAVSRPRVVFR 409 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 0.134 0.387 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: 2,098,352 Number of extensions: 88413 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 9 Length of query: 701 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 609 Effective length of database: 1,184,250 Effective search space: 721208250 Effective search space used: 721208250 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 (21.6 bits) S2: 134 (56.2 bits)