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= 0005.0134.p (425 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 ... 549 e-157 gi|300313617|ref|YP_003777709.1| translation elongation factor [... 131 1e-31 gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspir... 116 4e-27 gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor p... 100 4e-22 gi|300312895|ref|YP_003776987.1| GTP-binding elongation factor p... 81 2e-16 >gi|300312224|ref|YP_003776316.1| peptide chain release factor 3 [Herbaspirillum seropedicae SmR1] Length = 530 Score = 549 bits (1414), Expect = e-157, Method: Compositional matrix adjust. Identities = 263/272 (96%), Positives = 269/272 (98%) Query: 23 LIAREVARRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK 82 +IAREV RRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK Sbjct: 1 MIAREVKRRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEK 60 Query: 83 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI 142 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI Sbjct: 61 QRGISVASSVMQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTI 120 Query: 143 KLLNVCRMRNTPIITFMNKMDRETRDPLELLDELESVLKIQCAPVTWPIGMGKNFRGVYH 202 KLLNVCRMRNTPIITFMNK+DRETRD LELLDELESVLKIQCAPVTWPIGMGKNFRGVYH Sbjct: 121 KLLNVCRMRNTPIITFMNKLDRETRDSLELLDELESVLKIQCAPVTWPIGMGKNFRGVYH 180 Query: 203 LLRDEIMLFKAGEERADGNVEIIKGIDNPKLVEMFPLEIEQLKMEVELVHGASHPFNLDE 262 LLRDEIMLFKAGEERA+GNVEIIKGIDNPKL EMFPLEIEQLKMEVELVHGASHPFNLD+ Sbjct: 181 LLRDEIMLFKAGEERANGNVEIIKGIDNPKLAEMFPLEIEQLKMEVELVHGASHPFNLDD 240 Query: 263 FLAGIQTPVFFGSAINNFGVREILNALLDWAP 294 FLAG+QTPVFFGSAINNFGVREIL+ALLDWAP Sbjct: 241 FLAGVQTPVFFGSAINNFGVREILDALLDWAP 272 >gi|300313617|ref|YP_003777709.1| translation elongation factor [Herbaspirillum seropedicae SmR1] Length = 701 Score = 131 bits (329), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 91/290 (31%), Positives = 149/290 (51%), Gaps = 32/290 (11%) Query: 28 VARRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 87 + R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 7 IENYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVH----NGAATMDWMEQEQERGIT 62 Query: 88 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 140 + S+ M Y +H +N++DTPGH DF+ + R + +D A+MV D+ GV+ Q Sbjct: 63 ITSAATTAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYDSVGGVQPQ 122 Query: 141 TIKLLNVCRMRNTPIITFMNKMDRETRDPLELLDELESVLKIQCAPVTWPIGMGKNFRGV 200 + + P I F+NKMDR D + ++E LK + P+ P+G +F GV Sbjct: 123 SETVWRQANKYKVPRIAFVNKMDRIGADFFRVQKQIEERLKGKAVPIQIPVGAEDHFSGV 182 Query: 201 YHLLRDEIMLFKAGEERADGNVEIIKGIDNPKLVEMFP-----LEIEQ-LKMEVELV--H 252 L++ + +++ +E + G + K D P +E L +EQ + EL+ + Sbjct: 183 IDLVKMKAIIW---DEASQGV--LFKYEDIPLELEDTARHWRDLMVEQAAEANEELLEKY 237 Query: 253 GASHPFNLDEFLAGIQ--------TPVFFGSAINNFGVREILNALLDWAP 294 + +P D+ G++ P+ GSA N GV+ +L+A++D+ P Sbjct: 238 LSGNPLTEDDIKRGLRLRTVANEIVPMLAGSAFKNKGVQAMLDAVIDYLP 287 >gi|300309453|ref|YP_003773545.1| elongation factor G1 [Herbaspirillum seropedicae SmR1] Length = 701 Score = 116 bits (290), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 65/185 (35%), Positives = 100/185 (54%), Gaps = 11/185 (5%) Query: 28 VARRRTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGIS 87 + R R GI +H DAGKTT TE++L ++G G V AT DWME E++RGI+ Sbjct: 7 IERYRNIGISAHIDAGKTTTTERVLFYTGVNHKIGEVH----DGAATMDWMEQEQERGIT 62 Query: 88 VASSV-------MQFEYRDHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQ 140 + S+ M + H +N++DTPGH DF+ + R + +D A MV A GV+ Q Sbjct: 63 ITSAATTCYWKGMANNFPAHHINIIDTPGHVDFTIEVERSMRVLDGACMVYCAVGGVQPQ 122 Query: 141 TIKLLNVCRMRNTPIITFMNKMDRETRDPLELLDELESVLKIQCAPVTWPIGMGKNFRGV 200 + + P + F+NKMDR + ++ +++ + LK P+ PIG +NF GV Sbjct: 123 SETVWRQANKYKVPRLAFVNKMDRTGANFFKVYEQMRARLKANPIPMQVPIGAEENFEGV 182 Query: 201 YHLLR 205 L++ Sbjct: 183 IDLVK 187 >gi|300311258|ref|YP_003775350.1| GTP-binding elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 597 Score = 99.8 bits (247), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 58/171 (33%), Positives = 93/171 (54%), Gaps = 15/171 (8%) Query: 32 RTFGIISHPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGISVASS 91 R F II+H D GK+TL +++ IQL G + R+ D M+IE++RGI++ + Sbjct: 5 RNFSIIAHIDHGKSTLADRI------IQLCGGLSNREMEAQVL-DSMDIERERGITIKAQ 57 Query: 92 VMQFEYRD-----HVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTIKLLN 146 Y+ + +NL+DTPGH DFS + R L+A + AL+V+DA++GVE QT+ Sbjct: 58 TAALSYKAKDGQIYNLNLIDTPGHVDFSYEVSRSLSACEGALLVVDASQGVEAQTVANCY 117 Query: 147 VCRMRNTPIITFMNKMDRETRDPLELLDELESVLKIQCA---PVTWPIGMG 194 ++ +NK+D + DP 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 = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 53/162 (32%), Positives = 82/162 (50%), Gaps = 13/162 (8%) Query: 39 HPDAGKTTLTEKLLLFSGAIQLAGTVKARKSGRHATSDWMEIEKQRGISVASSVMQFEYR 98 H D GKTTL ++LL + +GT + + + D +IEK+RGI++ S EY+ Sbjct: 30 HVDHGKTTLVDQLL------RQSGTFRDNQQVDNRVMDSNDIEKERGITILSKNCAVEYK 83 Query: 99 DHVVNLLDTPGHQDFSEDTYRVLTAVDSALMVIDAAKGVEEQTIKLLNVCRMRNTPIITF 158 +N++DTPGH DF + RVL+ VDS L+++DA +G QT + I Sbjct: 84 GTHINIVDTPGHADFGGEVERVLSMVDSVLLLVDAQEGPMPQTRFVTRKALALGLKPIVV 143 Query: 159 MNKMDR-------ETRDPLELLDELESVLKIQCAPVTWPIGM 193 +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 0.320 0.136 0.401 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: 1,246,462 Number of extensions: 51746 Number of successful extensions: 178 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 168 Number of HSP's successfully gapped: 7 Length of query: 425 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 337 Effective length of database: 1,203,190 Effective search space: 405475030 Effective search space used: 405475030 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 (21.8 bits) S2: 132 (55.5 bits)