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= 0010.0060.p (566 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 ... 1091 0.0 gi|300313617|ref|YP_003777709.1| translation elongation factor [... 173 4e-44 gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspir... 157 2e-39 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 96 9e-21 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 82 1e-16 >gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 [Herbaspirillum seropedicae SmR1] Length = 530 Score = 1091 bits (2821), Expect = 0.0, Method: Compositional matrix adjust. Identities = 527/530 (99%), Positives = 530/530 (100%) Query: 37 LIAREVKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK 96 +IAREVKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK Sbjct: 1 MIAREVKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK 60 Query: 97 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI 156 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI Sbjct: 61 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI 120 Query: 157 KLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGVYH 216 KLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGVYH Sbjct: 121 KLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGVYH 180 Query: 217 LLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHGASHPFNLED 276 LLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHGASHPFNL+D Sbjct: 181 LLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHGASHPFNLDD 240 Query: 277 FLAGVQTPVFFGSAINNFGVREILDALLDWAPGPGGRDATVREVKPTEEPFSGFVFKIQA 336 FLAGVQTPVFFGSAINNFGVREILDALLDWAPGPGGRDATVREVKPTEEPFSGFVFKIQA Sbjct: 241 FLAGVQTPVFFGSAINNFGVREILDALLDWAPGPGGRDATVREVKPTEEPFSGFVFKIQA 300 Query: 337 NMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIKVSSVVTFMASSREQVEEAYAGDII 396 NMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIKVSSVVTFMASSREQVEEAYAGDII Sbjct: 301 NMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIKVSSVVTFMASSREQVEEAYAGDII 360 Query: 397 GLPNHGNMQIGDSFSEGEMLQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEEGAV 456 GLPNHGNMQIGDSFSEGEMLQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEEGAV Sbjct: 361 GLPNHGNMQIGDSFSEGEMLQFTGIPYFAPDFFRVARIRNPLKIKQLHKGLQQLGEEGAV 420 Query: 457 QVFKPVTGSDLILGAVGVLQFEVVASRLLNEYGVDAVFEGTSISSARWISCDDKKKLADF 516 QVFKPVTGSDLILGAVGVLQFEVVASRLLNEYGVDAVFEGTSISSARWISCDDKKKLADF Sbjct: 421 QVFKPVTGSDLILGAVGVLQFEVVASRLLNEYGVDAVFEGTSISSARWISCDDKKKLADF 480 Query: 517 EKSSAGANLAIDAAGNLAYLASSGVNLRLTQERWPEITFHATREHAAKLD 566 EKSSAGANLAIDAAGN+AYLASSGVNLRLTQERWPEITFHATREHAAKLD Sbjct: 481 EKSSAGANLAIDAAGNMAYLASSGVNLRLTQERWPEITFHATREHAAKLD 530 >gi|300313617|ref|YP_003777709.1| translation elongation factor [Herbaspirillum seropedicae SmR1] Length = 701 Score = 173 bits (438), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 137/512 (26%), Positives = 235/512 (45%), Gaps = 40/512 (7%) Query: 42 VKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 101 ++ R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 7 IENYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEV----HNGAATMDWMEQEQERGIT 62 Query: 102 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 154 + S+ M Y +H +N++DTPGH DF+ + R + +D A+MV D+ GV+ Q Sbjct: 63 ITSAATTAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYDSVGGVQPQ 122 Query: 155 TIKLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGV 214 + + P I F+NK+DR D + ++E LK + P+ P+G +F GV Sbjct: 123 SETVWRQANKYKVPRIAFVNKMDRIGADFFRVQKQIEERLKGKAVPIQIPVGAEDHFSGV 182 Query: 215 YHLLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQ-LKMEVELV--HGASHP 271 L++ + +++ + E I L +EQ + EL+ + + +P Sbjct: 183 IDLVKMKAIIWDEASQGVLFKYEDIPLELEDTARHWRDLMVEQAAEANEELLEKYLSGNP 242 Query: 272 FNLEDFLAGVQ--------TPVFFGSAINNFGVREILDALLDWAPGP---------GGRD 314 +D G++ P+ GSA N GV+ +LDA++D+ P P G D Sbjct: 243 LTEDDIKRGLRLRTVANEIVPMLAGSAFKNKGVQAMLDAVIDYLPSPVDVPAIAGHGEDD 302 Query: 315 ATVREVKPTEEPFSGFVFKIQANMDPAHRDRIAFLRVCSGRFERGMKLKHLRLNRDIKVS 374 + + EEPFS FKI DP ++ F RV SG G + + + ++ Sbjct: 303 SEIERHPSDEEPFSALAFKIMT--DP-FVGQLTFFRVYSGIVNSGDTVYNPVKGKKERLG 359 Query: 375 SVVTFMASSREQVEEAYAGDIIGLPNHGNMQIGDSFSEGE---MLQFTGIPYFAPDFFRV 431 ++ A+ R++++E +AGDI ++ GD+ S+ E +L+ P P + Sbjct: 360 RILQMHANERKEIKEVFAGDIAAAVGLKDVTTGDTLSDPEHPIILERMIFP--EPVISQA 417 Query: 432 ARIRNPLKIKQLHKGLQQLGEEG-AVQVFKPVTGSDLILGAVGVLQFEVVASRLLNEYGV 490 + +++ L +L +E + +V I+ +G L E++ R+ E+ V Sbjct: 418 VEPKTKADQEKMGIALNRLAQEDPSFRVHTDEESGQTIMSGMGELHLEILVDRMKREFNV 477 Query: 491 DAVFEGTSISSARWISCDDKKKLADFEKSSAG 522 +A ++ I + F K S G Sbjct: 478 EATVGKPQVAYREAIRKAVEDVEGKFVKQSGG 509 >gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspirillum seropedicae SmR1] Length = 701 Score = 157 bits (397), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 131/518 (25%), Positives = 232/518 (44%), Gaps = 52/518 (10%) Query: 42 VKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 101 ++R R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 7 IERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVHDGA----ATMDWMEQEQERGIT 62 Query: 102 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 154 + S+ M + H +N++DTPGH DF+ + R + +D A MV A GV+ Q Sbjct: 63 ITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQ 122 Query: 155 TIKLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGV 214 + + P + F+NK+DR + ++ +++ + LK P+ PIG +NF GV Sbjct: 123 SETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFEGV 182 Query: 215 YHLL------------------RDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIE 256 L+ RD KA ++ N+ + L + E + Sbjct: 183 IDLVKMRAIYWDDASQGMKFDYRDIPEHLKADAQKWRENLVETAAEASEDLMNKYLEEGD 242 Query: 257 QLKMEVELVHGASHPFNLEDFLAGVQTPVFFGSAINNFGVREILDALLDWAPGP------ 310 + E++ GA + ++G P+ G+A N GV+ +LD ++++ P P Sbjct: 243 LTEAEIK---GAIR----QRTISGEIVPMMCGTAFKNKGVQAMLDGVVEYLPSPVDIPPV 295 Query: 311 ----GGRDATVREVKPTEEPFSGFVFKIQANMDPAHRDRIAFLRVCSGRFERGMKLKHLR 366 + VRE K +E FS FKI DP ++ F+R SG G + + Sbjct: 296 PGLNEDDEPVVREAK-DDEKFSALAFKIAT--DP-FVGQLCFIRCYSGTLNSGDTVLNSV 351 Query: 367 LNRDIKVSSVVTFMASSREQVEEAYAGDIIGLPNHGNMQIGDSFSEGE-MLQFTGIPYFA 425 ++ ++ +V A+ RE+++E AGDI + + GD+ + + M+ + + Sbjct: 352 KSKKERIGRIVQMHANQREEIKEMMAGDIAAVVGLKDTTTGDTLCDDKAMVVLERMVFPE 411 Query: 426 PDFFRVARIRNPLKIKQLHKGLQQL-GEEGAVQVFKPVTGSDLILGAVGVLQFEVVASRL 484 P + + +++ L +L E+ + +V I+ +G L +++ R+ Sbjct: 412 PVISQAVEPKTKADQEKMGLALNRLAAEDPSFRVRTDEESGQTIIAGMGELHLDIIVDRM 471 Query: 485 LNEYGVDAVFEGTSISSARWISCDDKKKLADFEKSSAG 522 E+ V+A ++ I ++ F K S G Sbjct: 472 KREFNVEATVGKPQVAYRETIRKTCEESEGKFVKQSGG 509 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 95.9 bits (237), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 57/171 (33%), Positives = 92/171 (53%), Gaps = 15/171 (8%) Query: 46 RTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGISVASS 105 R F II+H D GK+TL +++ IQL G + R+ D M+IE++RGI++ + Sbjct: 5 RNFSIIAHIDHGKSTLADRI------IQLCGGLSNREMEAQVL-DSMDIERERGITIKAQ 57 Query: 106 VMQFEYRD-----HVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTIKLLN 160 Y+ + +NL+DTPGH DFS + R L+A + AL+V+DA++GVE QT+ Sbjct: 58 TAALSYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCY 117 Query: 161 VCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCA---PVTWPIGMG 208 ++ +NK+D + D E+E V+ I + P + G+G Sbjct: 118 TALDLGVEVVPVLNKIDLPSADPDNAKSEIEDVIGIDASDATPCSAKTGLG 168 >gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 627 Score = 81.6 bits (200), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 55/162 (33%), Positives = 81/162 (50%), Gaps = 13/162 (8%) Query: 53 HPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGISVASSVMQFEYR 112 H D GKTTL ++LL SG + V R D +IEK+RGI++ S EY+ Sbjct: 30 HVDHGKTTLVDQLLRQSGTFRDNQQVDNR------VMDSNDIEKERGITILSKNCAVEYK 83 Query: 113 DHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTIKLLNVCRMRNTPIITF 172 +N++DTPGH DF + RVL+ VDS L+++DA +G QT + I Sbjct: 84 GTHINIVDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKPIVV 143 Query: 173 MNKLDR-------ETRDSLELLDELESVLKIQCAPVTWPIGM 207 +NK+DR + EL D+L + + PV + G+ Sbjct: 144 LNKIDRPGARAEWAINATFELFDKLGATEEQLDFPVIYASGL 185 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 0.319 0.135 0.388 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: 1,607,473 Number of extensions: 64282 Number of successful extensions: 214 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 201 Number of HSP's successfully gapped: 8 Length of query: 566 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 476 Effective length of database: 1,193,720 Effective search space: 568210720 Effective search space used: 568210720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 133 (55.8 bits)