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= 0027.0001.p (459 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/fu... 848 0.0 gi|300312253|ref|YP_003776345.1| GTP-binding protein [Herbaspiri... 69 7e-13 gi|300311261|ref|YP_003775353.1| GTP-binding ERA protein [Herbas... 67 3e-12 gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspiri... 57 4e-09 >gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/furan oxidation) GTPase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 848 bits (2192), Expect = 0.0, Method: Compositional matrix adjust. Identities = 443/466 (95%), Positives = 451/466 (96%), Gaps = 7/466 (1%) Query: 1 MTFDSSPIAAIATAPGRGGIGVVRLSGKNLAPVIRAVCGRDSLAPRHATYLPFLNEDGSA 60 MTFDSSPIAAIATAPGRGGIGVVRLSGKNLAPVI+AVCGR SLAPRHATYLPFLNEDGSA Sbjct: 14 MTFDSSPIAAIATAPGRGGIGVVRLSGKNLAPVIQAVCGRASLAPRHATYLPFLNEDGSA 73 Query: 61 IDQGLAIHFPAPHSYTGEDVLELQGHGGPVVMQMLLARCVQAGNEIGLRLAEPGEFTCTR 120 IDQGLAIHFPAPHSYTGEDVLELQGHGGPVVMQMLLARCVQAG+EIGLRLAEPGEFT Sbjct: 74 IDQGLAIHFPAPHSYTGEDVLELQGHGGPVVMQMLLARCVQAGSEIGLRLAEPGEFTQRA 133 Query: 121 GL-------XAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD 173 L AEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD Sbjct: 134 FLNDKIDLAQAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD 193 Query: 174 FPEEEIDFLKQSDARGQLATIRSTLEEVFRHAAQGALLRDGLNAVLAGKPNVGKSSLLNV 233 FPEEEIDFLKQSDARGQLATIRSTLEEVF+HAAQGALLRDGLNAVLAGKPNVGKSSLLNV Sbjct: 194 FPEEEIDFLKQSDARGQLATIRSTLEEVFKHAAQGALLRDGLNAVLAGKPNVGKSSLLNV 253 Query: 234 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGEDGSGPDEVERIGIERT 293 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAG+DGSGPDEVERIGIERT Sbjct: 254 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGDDGSGPDEVERIGIERT 313 Query: 294 WAEVAKADVILHMLDADRGPTLEDEKITARFPEGVPIIRIWNKIDRSGHKPAVDPMPDAT 353 WAEVAKADVILHMLDADRGPTLEDEKIT+RFP+GVPIIRIWNKIDRSGHK AVD MPDAT Sbjct: 314 WAEVAKADVILHMLDADRGPTLEDEKITSRFPDGVPIIRIWNKIDRSGHKAAVDKMPDAT 373 Query: 354 HVYLSAAEGQGVELLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD 413 HVYLSA+EGQGV+LLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD Sbjct: 374 HVYLSASEGQGVDLLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD 433 Query: 414 NEAGEHALDLFAEELRLAQERLSSITGKFTPDDLLGVIFSRFCIGK 459 NEAGEHALDLFAEELRLAQERLSSITGKFTPDDLLGVIFSRFCIGK Sbjct: 434 NEAGEHALDLFAEELRLAQERLSSITGKFTPDDLLGVIFSRFCIGK 479 >gi|300312253|ref|YP_003776345.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 38/107 (35%), Positives = 61/107 (57%), Gaps = 3/107 (2%) Query: 214 GLNAVLAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIR 273 G + G+PNVGKS+L+N L G + I + GTTRD + + EG +IDTAGIR Sbjct: 180 GTKIAIVGRPNVGKSTLVNTLLGEERVIAFDMPGTTRDSIEIPFEREGRHYTLIDTAGIR 239 Query: 274 EAGEDGSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLEDEKI 320 G+ + +E+ + +T ++ A+V+L +LDA + + +D I Sbjct: 240 RRGKVF---EAIEKFSVVKTLKSISDANVVLLLLDAQQDISEQDAHI 283 Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 53/169 (31%), Positives = 82/169 (48%), Gaps = 9/169 (5%) Query: 219 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGED 278 L G+PNVGKS+L N L S A+V + G TRD+ ++ P +IDT G +D Sbjct: 7 LVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVAKD 66 Query: 279 GSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLEDEKITARFPE-GVPIIRIWNKI 337 G + ++T V +ADV++ ++D +G T D+ IT + G P++ + NK Sbjct: 67 G-----IMYEMAKQTKQAVVEADVVVFIVDGRQGLTPHDKTITDFLRKCGRPVLLVVNKS 121 Query: 338 DRSGHKPAVDPMPD---ATHVYLSAAEGQGVELLRAELLRIAGWQQTVE 383 + + + +SAA G GV L E L +A Q+T E Sbjct: 122 EGMKYTSVTADFYELGMGDPYVISAAHGDGVADLVTEALDVAEAQRTPE 170 >gi|300311261|ref|YP_003775353.1| GTP-binding ERA protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 67.0 bits (162), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 45/133 (33%), Positives = 68/133 (51%), Gaps = 10/133 (7%) Query: 219 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGED 278 + G+PNVGKS+L+NVL G+ V+I + A TTR ++T IE +DT G + + Sbjct: 26 IVGRPNVGKSTLMNVLVGAKVSITSRKAQTTRHRITGIQTIENTQYVYVDTPGFQTRHSN 85 Query: 279 GSGPDEVERIGIERTWAE-VAKADVILHMLDADR-GPTLEDEKITARFPEGVPIIRIWNK 336 + RT + ADVIL +++A GP D+++ P VP I + NK Sbjct: 86 ALNK------TLNRTVTNTLTAADVILFVIEAGTFGPA--DKQVLDLLPANVPCILVLNK 137 Query: 337 IDRSGHKPAVDPM 349 DR+ K + P Sbjct: 138 ADRNKDKTTLMPF 150 >gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 374 Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 52/160 (32%), Positives = 77/160 (48%), Gaps = 17/160 (10%) Query: 219 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQI-EGMPLNIIDTAG-IREAG 276 L G N GKS++ N LA + V + T D ++ + + E + I DT G IRE Sbjct: 194 LVGYTNAGKSTIFNALAKAGVYAANQLFATL-DTTSRRVYLGEVGHVVISDTVGFIREL- 251 Query: 277 EDGSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLED-EKITARFPE----GVPII 331 P ++ T E AD++LH++DA +E E++ E VP I Sbjct: 252 -----PHQLVE-AFRATLEETIHADLLLHVVDAASPVRMEQIEEVNLVLKEIGADHVPQI 305 Query: 332 RIWNKIDRSGHKPAV--DPMPDATHVYLSAAEGQGVELLR 369 +WNKID +G +P V D V++SA G G++LLR Sbjct: 306 LVWNKIDAAGLEPTVEYDEYGKIQRVFVSAKSGAGLDLLR 345 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 0.318 0.135 0.385 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: 1,405,970 Number of extensions: 60191 Number of successful extensions: 282 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 277 Number of HSP's successfully gapped: 5 Length of query: 459 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 371 Effective length of database: 1,203,190 Effective search space: 446383490 Effective search space used: 446383490 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 (21.7 bits) S2: 132 (55.5 bits)