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= 0001.0120.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... 1326 0.0 gi|300313617|ref|YP_003777709.1| translation elongation factor [... 1147 0.0 gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 ... 160 4e-40 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 93 9e-20 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 88 2e-18 >gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1327 bits (3433), Expect = 0.0, Method: Compositional matrix adjust. Identities = 630/701 (89%), Positives = 667/701 (95%) Query: 1 MARKTPIERYRNIGISAHIDAGKTTTTERILYYTGVNHKIGEVHDGAATMDWMEQEQERG 60 MARKTPIERYRNIGISAHIDAGKTTTTER+L+YTGVNHKIGEVHDGAATMDWMEQEQERG Sbjct: 1 MARKTPIERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGAATMDWMEQEQERG 60 Query: 61 ITITSAATTCFWKGMANNFPEHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 ITITSAATTC+WKGMANNFP HHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ Sbjct: 61 ITITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 Query: 121 PQSETVWRQANKYGVPRLAFVNKMDRTGANFFKVYEQMRSRLKANPIPIQVPIGAEDNFE 180 PQSETVWRQANKY VPRLAFVNKMDRTGANFFKVYEQMR+RLKANPIP+QVPIGAE+NFE Sbjct: 121 PQSETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFE 180 Query: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPENLKATAQEWREKMVETAAESSEDLMNKYLEE 240 GVIDLVKMRAIYWDDASQGMKFDYRDIPE+LKA AQ+WRE +VETAAE+SEDLMNKYLEE Sbjct: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPEHLKADAQKWRENLVETAAEASEDLMNKYLEE 240 Query: 241 GDLSEEDVKKALRARTLAGEIVPMMCGTAFKNKGVQAMLDAVIEYLPAPTDIPPVKGIAE 300 GDL+E ++K A+R RT++GEIVPMMCGTAFKNKGVQAMLD V+EYLP+P DIPPV G+ E Sbjct: 241 GDLTEAEIKGAIRQRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPVPGLNE 300 Query: 301 DETETVRKAADDEKFSALAFKIMTDPFVGQLIFFRVYSGVVNSGDTVYNPVKNKKERLGR 360 D+ VR+A DDEKFSALAFKI TDPFVGQL F R YSG +NSGDTV N VK+KKER+GR Sbjct: 301 DDEPVVREAKDDEKFSALAFKIATDPFVGQLCFIRCYSGTLNSGDTVLNSVKSKKERIGR 360 Query: 361 ILQMHANQREEIKEVRAGDIAAAVGLKEATTGDTLCDPSAIVTLERMVFPEPVISQAVEP 420 I+QMHANQREEIKE+ AGDIAA VGLK+ TTGDTLCD A+V LERMVFPEPVISQAVEP Sbjct: 361 IVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPEPVISQAVEP 420 Query: 421 KTKADQEKMGLALNRLAQEDPSFRVKTDEESGQTIISGMGELHLDIIVDRMRREFGVEAT 480 KTKADQEKMGLALNRLA EDPSFRV+TDEESGQTII+GMGELHLDIIVDRM+REF VEAT Sbjct: 421 KTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRMKREFNVEAT 480 Query: 481 VGKPQVAYRETIRKTCDEIEGKFVKQSGGRGQYGHVVLKIEPQEPGAGFEFVDAIKGGVV 540 VGKPQVAYRETIRKTC+E EGKFVKQSGGRGQYGHVVLKIEPQE G GFEFVDAIKGG V Sbjct: 481 VGKPQVAYRETIRKTCEESEGKFVKQSGGRGQYGHVVLKIEPQEAGKGFEFVDAIKGGTV 540 Query: 541 PREFIPAVEKGIRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKDGC 600 PREFIPAVEKG+RETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFK+GC Sbjct: 541 PREFIPAVEKGVRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKEGC 600 Query: 601 RKASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 R+ASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM Sbjct: 601 RRASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 Query: 661 FGYSTSLRSATQGRATYTMEFKHYSEAPKNVIDAIVTSKAK 701 FGYST+LRSATQGRATY+MEFKHYSEAPKNVIDAIVTSKAK Sbjct: 661 FGYSTTLRSATQGRATYSMEFKHYSEAPKNVIDAIVTSKAK 701 >gi|300313617|ref|YP_003777709.1| translation elongation factor [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1147 bits (2966), Expect = 0.0, Method: Compositional matrix adjust. Identities = 540/701 (77%), Positives = 620/701 (88%), Gaps = 1/701 (0%) Query: 1 MARKTPIERYRNIGISAHIDAGKTTTTERILYYTGVNHKIGEVHDGAATMDWMEQEQERG 60 M+RKT IE YRNIGISAHIDAGKTTTTERIL+YTGVNHKIGEVH+GAATMDWMEQEQERG Sbjct: 1 MSRKTRIENYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHNGAATMDWMEQEQERG 60 Query: 61 ITITSAATTCFWKGMANNFPEHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQ 120 ITITSAATT FWKGMA N+PEH INIIDTPGHVDFTIEVERSMRVLDGA MVY +VGGVQ Sbjct: 61 ITITSAATTAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYDSVGGVQ 120 Query: 121 PQSETVWRQANKYGVPRLAFVNKMDRTGANFFKVYEQMRSRLKANPIPIQVPIGAEDNFE 180 PQSETVWRQANKY VPR+AFVNKMDR GA+FF+V +Q+ RLK +PIQ+P+GAED+F Sbjct: 121 PQSETVWRQANKYKVPRIAFVNKMDRIGADFFRVQKQIEERLKGKAVPIQIPVGAEDHFS 180 Query: 181 GVIDLVKMRAIYWDDASQGMKFDYRDIPENLKATAQEWREKMVETAAESSEDLMNKYLEE 240 GVIDLVKM+AI WD+ASQG+ F Y DIP L+ TA+ WR+ MVE AAE++E+L+ KYL Sbjct: 181 GVIDLVKMKAIIWDEASQGVLFKYEDIPLELEDTARHWRDLMVEQAAEANEELLEKYLSG 240 Query: 241 GDLSEEDVKKALRARTLAGEIVPMMCGTAFKNKGVQAMLDAVIEYLPAPTDIPPVKGIAE 300 L+E+D+K+ LR RT+A EIVPM+ G+AFKNKGVQAMLDAVI+YLP+P D+P + G E Sbjct: 241 NPLTEDDIKRGLRLRTVANEIVPMLAGSAFKNKGVQAMLDAVIDYLPSPVDVPAIAGHGE 300 Query: 301 DETETVRKAADDEKFSALAFKIMTDPFVGQLIFFRVYSGVVNSGDTVYNPVKNKKERLGR 360 D++E R +D+E FSALAFKIMTDPFVGQL FFRVYSG+VNSGDTVYNPVK KKERLGR Sbjct: 301 DDSEIERHPSDEEPFSALAFKIMTDPFVGQLTFFRVYSGIVNSGDTVYNPVKGKKERLGR 360 Query: 361 ILQMHANQREEIKEVRAGDIAAAVGLKEATTGDTLCDPSAIVTLERMVFPEPVISQAVEP 420 ILQMHAN+R+EIKEV AGDIAAAVGLK+ TTGDTL DP + LERM+FPEPVISQAVEP Sbjct: 361 ILQMHANERKEIKEVFAGDIAAAVGLKDVTTGDTLSDPEHPIILERMIFPEPVISQAVEP 420 Query: 421 KTKADQEKMGLALNRLAQEDPSFRVKTDEESGQTIISGMGELHLDIIVDRMRREFGVEAT 480 KTKADQEKMG+ALNRLAQEDPSFRV TDEESGQTI+SGMGELHL+I+VDRM+REF VEAT Sbjct: 421 KTKADQEKMGIALNRLAQEDPSFRVHTDEESGQTIMSGMGELHLEILVDRMKREFNVEAT 480 Query: 481 VGKPQVAYRETIRKTCDEIEGKFVKQSGGRGQYGHVVLKIEPQEPGAGFEFVDAIKGGVV 540 VGKPQVAYRE IRK +++EGKFVKQSGGRGQYGHVV+K+EPQ G G+EFVDAIKGGVV Sbjct: 481 VGKPQVAYREAIRKAVEDVEGKFVKQSGGRGQYGHVVIKLEPQPAGKGYEFVDAIKGGVV 540 Query: 541 PREFIPAVEKGIRETLNTGVLAGYPVVDVKVTLFFGSYHDVDSNENAFRMAGSMAFKDGC 600 PREFIPAV+KGI+E+L GVLAGYPVVDVK TL FGSYHDVDSNENAFRMAGSMAFK+ Sbjct: 541 PREFIPAVDKGIQESLKAGVLAGYPVVDVKATLTFGSYHDVDSNENAFRMAGSMAFKEAM 600 Query: 601 RKASPVILEPMMAVEVETPEDYAGTVMGDLSSRRGMVQGMDEIAGGGGKIIKAEVPLSEM 660 ++A P++LEPMM VEVETPE++ G VMGDLSSRRGMVQGM+++ GGGK+++AEVPLSEM Sbjct: 601 KRAGPMLLEPMMQVEVETPEEFMGNVMGDLSSRRGMVQGMEDMV-GGGKLVRAEVPLSEM 659 Query: 661 FGYSTSLRSATQGRATYTMEFKHYSEAPKNVIDAIVTSKAK 701 FGYST+LRS +QGRATY+MEFKHY+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 = 160 bits (404), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 135/514 (26%), Positives = 230/514 (44%), Gaps = 44/514 (8%) Query: 7 IERYRNIGISAHIDAGKTTTTERILYYTGVNHKIGEVH----DGAATMDWMEQEQERGIT 62 ++R R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 6 VKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 65 Query: 63 ITSAATTCFWKGMANNFPEHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQ 122 + S+ M + +H +N++DTPGH DF+ + R + +D A MV A GV+ Q Sbjct: 66 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 118 Query: 123 SETVWRQANKYGVPRLAFVNKMDRTGANFFKVYEQMRSRLKANPIPIQVPIGAEDNFEGV 182 + + P + F+NK+DR + ++ +++ S LK P+ PIG NF GV Sbjct: 119 TIKLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGV 178 Query: 183 IDLVKMRAIYWDDASQGMKFDYRDIPENLKATAQEWREKMVETAAESSEDL-MNKYLEEG 241 L++ + + + N++ K+ E E L M L G Sbjct: 179 YHLLRDEIMLFKAGEERAN-------GNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHG 231 Query: 242 DLSEEDVKKALRARTLAGEIVPMMCGTAFKNKGVQAMLDAVIEYLPAPTDIPPVKGIAED 301 ++ LAG P+ G+A N GV+ +LDA++++ P P Sbjct: 232 ASHPFNLDD-----FLAGVQTPVFFGSAINNFGVREILDALLDWAPGPG----------G 276 Query: 302 ETETVRKAA-DDEKFSALAFKIMT--DP-FVGQLIFFRVYSGVVNSGDTVYNPVKNKKER 357 TVR+ +E FS FKI DP ++ F RV SG G + + N+ + Sbjct: 277 RDATVREVKPTEEPFSGFVFKIQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIK 336 Query: 358 LGRILQMHANQREEIKEVRAGDIAAAVGLKEATTGDTLCDPSAIVTLERMVFPEPVISQA 417 + ++ A+ RE+++E AGDI GD+ + ++ + + P + Sbjct: 337 VSSVVTFMASSREQVEEAYAGDIIGLPNHGNMQIGDSFSE-GEMLQFTGIPYFAPDFFRV 395 Query: 418 VEPKTKADQEKMGLALNRLAQEDPSFRVKTDEESGQTIISGMGELHLDIIVDRMRREFGV 477 + +++ L +L +E + +V I+ +G L +++ R+ E+GV Sbjct: 396 ARIRNPLKIKQLHKGLQQLGEEG-AVQVFKPVTGSDLILGAVGVLQFEVVASRLLNEYGV 454 Query: 478 EATVGKPQVAYRETIRKTCDEIE--GKFVKQSGG 509 +A ++ I +CD+ + F K S G Sbjct: 455 DAVFEGTSISSARWI--SCDDKKKLADFEKSSAG 486 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 92.8 bits (229), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 59/178 (33%), Positives = 90/178 (50%), Gaps = 10/178 (5%) Query: 11 RNIGISAHIDAGKTTTTERILYYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTC 70 RN I AHID GK+T +RI+ G + A +D M+ E+ERGITI + Sbjct: 5 RNFSIIAHIDHGKSTLADRIIQLCG---GLSNREMEAQVLDSMDIERERGITIKAQTAAL 61 Query: 71 FWKGMANNFPEHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQSETVWRQA 130 +K A + +++N+IDTPGHVDF+ EV RS+ +GA +V A GV+ Q+ A Sbjct: 62 SYK--AKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCYTA 119 Query: 131 NKYGVPRLAFVNKMDRTGANFFKVYEQMRSRL-----KANPIPIQVPIGAEDNFEGVI 183 GV + +NK+D A+ ++ + A P + +G ED E ++ Sbjct: 120 LDLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLGVEDVLEAIV 177 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 51/132 (38%), Positives = 73/132 (55%), Gaps = 9/132 (6%) Query: 18 HIDAGKTTTTERILYYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGMAN 77 H+D GKTT +++L +G +V + MD + E+ERGITI S +KG Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDN--RVMDSNDIEKERGITILSKNCAVEYKGT-- 85 Query: 78 NFPEHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQSETVWRQANKYGVPR 137 HINI+DTPGH DF EVER + ++D ++ A G PQ+ V R+A G+ Sbjct: 86 -----HINIVDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKP 140 Query: 138 LAFVNKMDRTGA 149 + +NK+DR GA Sbjct: 141 IVVLNKIDRPGA 152 Score = 71.2 bits (173), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 107/229 (46%), Gaps = 33/229 (14%) Query: 275 VQAMLDAVIEYLPAPTDIPPVKGIAEDETETVRKAADDEKFSALAFKIMTDPFVGQLIFF 334 ++ + DA+++Y+PA D P A + ++L + +VG++ Sbjct: 200 MEPLFDAILKYVPARKDDP--------------DAPLQLQITSLEYS----SYVGKIGVG 241 Query: 335 RVYSGVVNSG-DTVY-NPVKNK--KERLGRILQMHANQREEIKEVRAGDIAAAVGLKEAT 390 R+ +G V G D V+ N +K K R+ ++L +R + E AGDI G++E Sbjct: 242 RILAGRVKGGQDVVWMNGPDDKPTKARINQVLTFKGLERVLVDEALAGDIVLINGIEEIG 301 Query: 391 TGDTLCDPSAIVTLERMVFPEPVISQAVEPKTKADQEKMGLAL------NRLAQE---DP 441 G T+C P A L + EP ++ T + G + +RL +E + Sbjct: 302 IGSTICSPDAPNGLPMLKVDEPTLTMNFMVNTSPLAGREGKFVTTRQIRDRLEKELKSNM 361 Query: 442 SFRVKTDEESGQTI-ISGMGELHLDIIVDRMRREFGVEATVGKPQVAYR 489 + RV E T +SG GELHL I+++ MRRE G E V +P+V +R Sbjct: 362 ALRVVQAENDDSTYEVSGRGELHLTILIENMRRE-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 0.386 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: 2,099,834 Number of extensions: 88288 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 262 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)