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= 0001.4192.p (466 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... 868 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... 65 1e-11 gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspiri... 60 4e-10 >gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/furan oxidation) GTPase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 868 bits (2243), Expect = 0.0, Method: Compositional matrix adjust. Identities = 446/466 (95%), Positives = 457/466 (98%) Query: 1 MTLDSSPIAAIATAPGRGGIGVVRISGRNLTPVMRAVCGRESLAPRHATYLPFQNEDGSV 60 MT DSSPIAAIATAPGRGGIGVVR+SG+NL PV++AVCGR SLAPRHATYLPF NEDGS Sbjct: 14 MTFDSSPIAAIATAPGRGGIGVVRLSGKNLAPVIQAVCGRASLAPRHATYLPFLNEDGSA 73 Query: 61 IDQGLAIYFPGPHSYTGEDVLELQGHGGPVVMQMLLARCVQAGSEIGLRLAEPGEFTQRA 120 IDQGLAI+FP PHSYTGEDVLELQGHGGPVVMQMLLARCVQAGSEIGLRLAEPGEFTQRA Sbjct: 74 IDQGLAIHFPAPHSYTGEDVLELQGHGGPVVMQMLLARCVQAGSEIGLRLAEPGEFTQRA 133 Query: 121 FLNDKIDLAQAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD 180 FLNDKIDLAQAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD Sbjct: 134 FLNDKIDLAQAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEATLD 193 Query: 181 FPEEEIDFLQQSDARGQLATIRSTLEDVFKHAAQGALLRDGLNAVLAGKPNVGKSSLLNV 240 FPEEEIDFL+QSDARGQLATIRSTLE+VFKHAAQGALLRDGLNAVLAGKPNVGKSSLLNV Sbjct: 194 FPEEEIDFLKQSDARGQLATIRSTLEEVFKHAAQGALLRDGLNAVLAGKPNVGKSSLLNV 253 Query: 241 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGEDGSGPDEVERIGIERT 300 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAG+DGSGPDEVERIGIERT Sbjct: 254 LAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGDDGSGPDEVERIGIERT 313 Query: 301 WAEVAKADVILHMLDADRGPTLEDEKITARFPDGVPIIRIWNKIDRSGHKPAVDKMSDAT 360 WAEVAKADVILHMLDADRGPTLEDEKIT+RFPDGVPIIRIWNKIDRSGHK AVDKM DAT Sbjct: 314 WAEVAKADVILHMLDADRGPTLEDEKITSRFPDGVPIIRIWNKIDRSGHKAAVDKMPDAT 373 Query: 361 HVYLSAAEGQGVDLLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD 420 HVYLSA+EGQGVDLLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD Sbjct: 374 HVYLSASEGQGVDLLRAELLRIAGWQQTVESRYLARERHLLALKAADEHLAHAAAHAALD 433 Query: 421 NEAGDHALDLFAEELRLAQERLSSITGKFTSDDLLGVIFSRFCIGK 466 NEAG+HALDLFAEELRLAQERLSSITGKFT DDLLGVIFSRFCIGK Sbjct: 434 NEAGEHALDLFAEELRLAQERLSSITGKFTPDDLLGVIFSRFCIGK 479 >gi|300312253|ref|YP_003776345.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 38/107 (35%), Positives = 61/107 (57%), Gaps = 3/107 (2%) Query: 221 GLNAVLAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIR 280 G + G+PNVGKS+L+N L G + I + GTTRD + + EG +IDTAGIR Sbjct: 180 GTKIAIVGRPNVGKSTLVNTLLGEERVIAFDMPGTTRDSIEIPFEREGRHYTLIDTAGIR 239 Query: 281 EAGEDGSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLEDEKI 327 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 = 81/169 (47%), Gaps = 9/169 (5%) Query: 226 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGED 285 L G+PNVGKS+L N L S A+V + G TRD+ ++ P +IDT G +D Sbjct: 7 LVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVAKD 66 Query: 286 GSGPDEVERIGIERTWAEVAKADVILHMLDADRGPTLEDEKITARFPD-GVPIIRIWNKI 344 G + ++T V +ADV++ ++D +G T D+ IT G P++ + NK Sbjct: 67 G-----IMYEMAKQTKQAVVEADVVVFIVDGRQGLTPHDKTITDFLRKCGRPVLLVVNKS 121 Query: 345 DRSGHKPAVDKMSD---ATHVYLSAAEGQGVDLLRAELLRIAGWQQTVE 390 + + + +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 = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 44/127 (34%), Positives = 66/127 (51%), Gaps = 10/127 (7%) Query: 226 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGED 285 + G+PNVGKS+L+NVL G+ V+I + A TTR ++T IE +DT G + + Sbjct: 26 IVGRPNVGKSTLMNVLVGAKVSITSRKAQTTRHRITGIQTIENTQYVYVDTPGFQTRHSN 85 Query: 286 GSGPDEVERIGIERTWAE-VAKADVILHMLDADR-GPTLEDEKITARFPDGVPIIRIWNK 343 + RT + ADVIL +++A GP D+++ P VP I + NK Sbjct: 86 ALNK------TLNRTVTNTLTAADVILFVIEAGTFGPA--DKQVLDLLPANVPCILVLNK 137 Query: 344 IDRSGHK 350 DR+ K Sbjct: 138 ADRNKDK 144 >gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 374 Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 53/160 (33%), Positives = 79/160 (49%), Gaps = 17/160 (10%) Query: 226 LAGKPNVGKSSLLNVLAGSDVAIVTPIAGTTRDKVTQTIQI-EGMPLNIIDTAG-IREAG 283 L G N GKS++ N LA + V + T D ++ + + E + I DT G IRE Sbjct: 194 LVGYTNAGKSTIFNALAKAGVYAANQLFATL-DTTSRRVYLGEVGHVVISDTVGFIREL- 251 Query: 284 EDGSGPDEVERIGIERTWAEVAKADVILHMLDAD---RGPTLEDEKITARF--PDGVPII 338 P ++ T E AD++LH++DA R +E+ + + D VP I Sbjct: 252 -----PHQLVE-AFRATLEETIHADLLLHVVDAASPVRMEQIEEVNLVLKEIGADHVPQI 305 Query: 339 RIWNKIDRSGHKPAV--DKMSDATHVYLSAAEGQGVDLLR 376 +WNKID +G +P V D+ V++SA G G+DLLR 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 0.317 0.134 0.380 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: 1,332,894 Number of extensions: 55854 Number of successful extensions: 258 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 254 Number of HSP's successfully gapped: 5 Length of query: 466 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 377 Effective length of database: 1,198,455 Effective search space: 451817535 Effective search space used: 451817535 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)