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= 0098.0024.p (223 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312253|ref|YP_003776345.1| GTP-binding protein [Herbaspiri... 332 1e-92 gi|300311261|ref|YP_003775353.1| GTP-binding ERA protein [Herbas... 62 4e-11 gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/fu... 55 3e-09 >gi|300312253|ref|YP_003776345.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 332 bits (852), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 165/187 (88%), Positives = 174/187 (93%), Gaps = 1/187 (0%) Query: 1 MKPVIALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGF 60 MKPVIALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGF Sbjct: 1 MKPVIALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGF 60 Query: 61 EPVAKEGIMFEMAKQTKQAVVEADIVIFIVDGRQGLTPHDKTITDFLRKSGRSVMLVVNK 120 EPVAK+GIM+EMAKQTKQAVVEAD+V+FIVDGRQGLTPHDKTITDFLRK GR V+LVVNK Sbjct: 61 EPVAKDGIMYEMAKQTKQAVVEADVVVFIVDGRQGLTPHDKTITDFLRKCGRPVLLVVNK 120 Query: 121 AEGMKYTSVTADFYELGLGDPYVISAAHGDGVADLVDEALDIALAQR-PDLGEEVDVARG 179 +EGMKYTSVTADFYELG+GDPYVISAAHGDGVADLV EALD+A AQR P+ E RG Sbjct: 121 SEGMKYTSVTADFYELGMGDPYVISAAHGDGVADLVTEALDVAEAQRTPEPEPEETAVRG 180 Query: 180 IKIAIVG 186 KIAIVG Sbjct: 181 TKIAIVG 187 Score = 78.2 bits (191), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 56/177 (31%), Positives = 92/177 (51%), Gaps = 18/177 (10%) Query: 5 IALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVA 64 IA+VGRPNVGKSTL N L + D+PG TRD R + +IDT G + Sbjct: 183 IAIVGRPNVGKSTLVNTLLGEERVIAFDMPGTTRDSIEIPFEREGRHYTLIDTAG---IR 239 Query: 65 KEGIMFEMAK-----QTKQAVVEADIVIFIVDGRQGLTPHDKTITDFLRKSGRSVMLVVN 119 + G +FE + +T +++ +A++V+ ++D +Q ++ D I F+ +SGR++++ VN Sbjct: 240 RRGKVFEAIEKFSVVKTLKSISDANVVLLLLDAQQDISEQDAHIAGFVLESGRALVVGVN 299 Query: 120 KAEGMKY---TSVTADFYE----LGLGDPYVISAAHGDGVADL---VDEALDIALAQ 166 K +GM+ + D L + ISA G+ L +D A A+A+ Sbjct: 300 KWDGMESDQRNQIKMDLERKLNFLSFAKFHFISALKSTGIGPLMKSIDSAYAAAMAK 356 >gi|300311261|ref|YP_003775353.1| GTP-binding ERA protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 62.0 bits (149), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 37/121 (30%), Positives = 63/121 (52%), Gaps = 2/121 (1%) Query: 5 IALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVA 64 IA+VGRPNVGKSTL N L ++ ++ + TR R G + ++ +DT GF+ Sbjct: 24 IAIVGRPNVGKSTLMNVLVGAKVSITSRKAQTTRHRITGIQTIENTQYVYVDTPGFQTRH 83 Query: 65 KEGIMFEMAKQTKQAVVEADIVIFIVDGRQGLTPHDKTITDFLRKSGRSVMLVVNKAEGM 124 + + + + AD+++F+++ P DK + D L + +LV+NKA+ Sbjct: 84 SNALNKTLNRTVTNTLTAADVILFVIEA-GTFGPADKQVLDLL-PANVPCILVLNKADRN 141 Query: 125 K 125 K Sbjct: 142 K 142 >gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/furan oxidation) GTPase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 55.5 bits (132), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 48/166 (28%), Positives = 78/166 (46%), Gaps = 9/166 (5%) Query: 7 LVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVAKE 66 L G+PNVGKS+L N L S A+V + G TRD+ ++ P +IDT G + Sbjct: 239 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGDD 298 Query: 67 GIMFEMA-----KQTKQAVVEADIVIFIVDGRQGLTPHDKTITDFLRKSGRSVMLVVNKA 121 G + ++T V +AD+++ ++D +G T D+ IT G ++ + NK Sbjct: 299 GSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLEDEKITSRF-PDGVPIIRIWNKI 357 Query: 122 EGMKYTSVTADFYELGLGDPYVISAAHGDGVADLVDEALDIALAQR 167 + + + + +SA+ G GV L E L IA Q+ Sbjct: 358 DRSGHKAAVDKMPD---ATHVYLSASEGQGVDLLRAELLRIAGWQQ 400 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 0.321 0.139 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: 684,409 Number of extensions: 29399 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 4 Length of query: 223 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 141 Effective length of database: 1,231,600 Effective search space: 173655600 Effective search space used: 173655600 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: 129 (54.3 bits)