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= 0075.0025.p (463 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... 709 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... 66 5e-12 gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspiri... 60 5e-10 >gi|300313619|ref|YP_003777711.1| tRNA modification (thiophene/furan oxidation) GTPase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 709 bits (1830), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/400 (86%), Positives = 376/400 (94%), Gaps = 2/400 (0%) Query: 4 MTLDTSPIAAIATAPGRGGIGVVRLSGKNLWPVVQAVCGKDEGTLAPRHACYLPFRRADG 63 MT D+SPIAAIATAPGRGGIGVVRLSGKNL PV+QAVCG+ +LAPRHA YLPF DG Sbjct: 14 MTFDSSPIAAIATAPGRGGIGVVRLSGKNLAPVIQAVCGR--ASLAPRHATYLPFLNEDG 71 Query: 64 SLIDQGLAIYFKAPHSYTGEDVLELQGHGGPVVMQMLLARCLEAGADIGLRLAEPGEFTQ 123 S IDQGLAI+F APHSYTGEDVLELQGHGGPVVMQMLLARC++AG++IGLRLAEPGEFTQ Sbjct: 72 SAIDQGLAIHFPAPHSYTGEDVLELQGHGGPVVMQMLLARCVQAGSEIGLRLAEPGEFTQ 131 Query: 124 RAFLNDKLDLAQAEAVADLIEASTEAAAKSASESLSGAFSKVIHDLVNKVTNLRMLVEAT 183 RAFLNDK+DLAQAEAVADLIEA+TEAAAKSASESLSGAFSKVIH+LV++VT LRMLVEAT Sbjct: 132 RAFLNDKIDLAQAEAVADLIEATTEAAAKSASESLSGAFSKVIHELVDQVTRLRMLVEAT 191 Query: 184 LDFPEEEIDFLEQSDARGQLAAIRATLDDVFMHASQGALLRDGLNVVLAGKPNVGKSSLL 243 LDFPEEEIDFL+QSDARGQLA IR+TL++VF HA+QGALLRDGLN VLAGKPNVGKSSLL Sbjct: 192 LDFPEEEIDFLKQSDARGQLATIRSTLEEVFKHAAQGALLRDGLNAVLAGKPNVGKSSLL 251 Query: 244 NILAGSDVAIVTPIAGTTRDKVTETIQIEGMPLNIIDTAGIREADEDGSGPDEVERIGIE 303 N+LAGSDVAIVTPIAGTTRDKVT+TIQIEGMPLNIIDTAGIREA +DGSGPDEVERIGIE Sbjct: 252 NVLAGSDVAIVTPIAGTTRDKVTQTIQIEGMPLNIIDTAGIREAGDDGSGPDEVERIGIE 311 Query: 304 RTWGEVARADVILHMLDADRGPTVEDEKITERFPDGVPVIRIWNKIDRSGHKPAVDKMTD 363 RTW EVA+ADVILHMLDADRGPT+EDEKIT RFPDGVP+IRIWNKIDRSGHK AVDKM D Sbjct: 312 RTWAEVAKADVILHMLDADRGPTLEDEKITSRFPDGVPIIRIWNKIDRSGHKAAVDKMPD 371 Query: 364 ATHIYLSATDQVGIDLLRGELLRIAGWQQTVESRYLARAR 403 ATH+YLSA++ G+DLLR ELLRIAGWQQTVESRYLAR R Sbjct: 372 ATHVYLSASEGQGVDLLRAELLRIAGWQQTVESRYLARER 411 >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: 226 GLNVVLAGKPNVGKSSLLNILAGSDVAIVTPIAGTTRDKVTETIQIEGMPLNIIDTAGIR 285 G + + G+PNVGKS+L+N L G + I + GTTRD + + EG +IDTAGIR Sbjct: 180 GTKIAIVGRPNVGKSTLVNTLLGEERVIAFDMPGTTRDSIEIPFEREGRHYTLIDTAGIR 239 Query: 286 EADEDGSGPDEVERIGIERTWGEVARADVILHMLDADRGPTVEDEKI 332 G + +E+ + +T ++ A+V+L +LDA + + +D I Sbjct: 240 RR---GKVFEAIEKFSVVKTLKSISDANVVLLLLDAQQDISEQDAHI 283 Score = 59.3 bits (142), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 63/121 (52%), Gaps = 6/121 (4%) Query: 229 VVLAGKPNVGKSSLLNILAGSDVAIVTPIAGTTRDKVTETIQIEGMPLNIIDTAGIREAD 288 + L G+PNVGKS+L N L S A+V + G TRD+ ++ P +IDT G Sbjct: 5 IALVGRPNVGKSTLFNRLTRSRDALVADLPGLTRDRHYGEGRVGERPFLVIDTGGFEPVA 64 Query: 289 EDGSGPDEVERIGIERTWGEVARADVILHMLDADRGPTVEDEKITERFPD-GVPVIRIWN 347 +DG + ++T V ADV++ ++D +G T D+ IT+ G PV+ + N Sbjct: 65 KDG-----IMYEMAKQTKQAVVEADVVVFIVDGRQGLTPHDKTITDFLRKCGRPVLLVVN 119 Query: 348 K 348 K Sbjct: 120 K 120 >gi|300311261|ref|YP_003775353.1| GTP-binding ERA protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 43/129 (33%), Positives = 68/129 (52%), Gaps = 10/129 (7%) Query: 229 VVLAGKPNVGKSSLLNILAGSDVAIVTPIAGTTRDKVTETIQIEGMPLNIIDTAGIREAD 288 + + G+PNVGKS+L+N+L G+ V+I + A TTR ++T IE +DT G + Sbjct: 24 IAIVGRPNVGKSTLMNVLVGAKVSITSRKAQTTRHRITGIQTIENTQYVYVDTPGFQTRH 83 Query: 289 EDGSGPDEVERIGIERT-WGEVARADVILHMLDA-DRGPTVEDEKITERFPDGVPVIRIW 346 + + RT + ADVIL +++A GP D+++ + P VP I + Sbjct: 84 SNALNK------TLNRTVTNTLTAADVILFVIEAGTFGPA--DKQVLDLLPANVPCILVL 135 Query: 347 NKIDRSGHK 355 NK DR+ K Sbjct: 136 NKADRNKDK 144 >gi|300312251|ref|YP_003776343.1| GTP-binding protein [Herbaspirillum seropedicae SmR1] Length = 374 Score = 59.7 bits (143), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 53/166 (31%), Positives = 80/166 (48%), Gaps = 17/166 (10%) Query: 225 DGLNVVLAGKPNVGKSSLLNILAGSDVAIVTPIAGTTRDKVTETIQI-EGMPLNIIDTAG 283 + +V L G N GKS++ N LA + V + T D + + + E + I DT G Sbjct: 188 ETFSVSLVGYTNAGKSTIFNALAKAGVYAANQLFATL-DTTSRRVYLGEVGHVVISDTVG 246 Query: 284 -IREADEDGSGPDEVERIGIERTWGEVARADVILHMLDAD---RGPTVEDEKIT--ERFP 337 IRE P ++ T E AD++LH++DA R +E+ + E Sbjct: 247 FIREL------PHQLVE-AFRATLEETIHADLLLHVVDAASPVRMEQIEEVNLVLKEIGA 299 Query: 338 DGVPVIRIWNKIDRSGHKPAV--DKMTDATHIYLSATDQVGIDLLR 381 D VP I +WNKID +G +P V D+ +++SA G+DLLR Sbjct: 300 DHVPQILVWNKIDAAGLEPTVEYDEYGKIQRVFVSAKSGAGLDLLR 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 0.320 0.136 0.397 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: 1,302,978 Number of extensions: 56158 Number of successful extensions: 253 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 249 Number of HSP's successfully gapped: 5 Length of query: 463 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 374 Effective length of database: 1,198,455 Effective search space: 448222170 Effective search space used: 448222170 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)