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= 0003.0066.p (314 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her... 479 e-136 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 291 5e-80 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 195 3e-51 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 479 bits (1233), Expect = e-136, Method: Compositional matrix adjust. Identities = 237/262 (90%), Positives = 245/262 (93%) Query: 16 VRFEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPII 75 VRFEDFGLSPDILKAL QGY+HPTPIQ QAIP+VLQGRDVMGAAQTGTGKTAGFSLPII Sbjct: 16 VRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPII 75 Query: 76 QLLLAHASTSMSPARHPVRALILTPTRELADQVADNVKAYSRFTPLRSTVVFGGVDMAPQ 135 Q LL HAS S SPARHPVRALILTPTRELADQVADNV AY RFTPLRSTVVFGGVDMAPQ Sbjct: 76 QRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTPLRSTVVFGGVDMAPQ 135 Query: 136 TATLRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLP 195 TA LRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLP Sbjct: 136 TAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLP 195 Query: 196 KQRQNLMFSATFSPEIKKLAASFQNNPVTIEVARSNATADRVTQIIYKVNEDAKGDAVAH 255 KQRQNL+FSATFSPEIKKLAASFQNNPVTIEVARSNATA+ VTQ IYKV E AK DAV+ Sbjct: 196 KQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADAVSF 255 Query: 256 IIRERQLKQVIVFSNTKIGAXK 277 IIR+R+LKQVIVFSNTKIGA + Sbjct: 256 IIRQRELKQVIVFSNTKIGASR 277 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 291 bits (744), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 145/262 (55%), Positives = 191/262 (72%), Gaps = 1/262 (0%) Query: 18 FEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPIIQL 77 F GLS +I++A++ QGY PTPIQ QA+P VL G D++ AQTGTGKTAGF+LP++Q Sbjct: 3 FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62 Query: 78 LLAHASTSMSPARHPVRALILTPTRELADQVADNVKAYSRFTPLRSTVVFGGVDMAPQTA 137 L A ++ P+RALIL PTRELA QV ++V+ Y ++ PL S +FGGV + PQ Sbjct: 63 LSAMPRQKIN-GHVPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQIT 121 Query: 138 TLRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLPKQ 197 L+ GV+I++ATPGRLLDH+QQ TVNL QILV+DEADRMLDMGF+ D+++++ LP + Sbjct: 122 LLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPPK 181 Query: 198 RQNLMFSATFSPEIKKLAASFQNNPVTIEVARSNATADRVTQIIYKVNEDAKGDAVAHII 257 RQNL+FSATF+ EIKKLA S NNP IEVAR N+T + + Q I+ V+ D K +AH+I Sbjct: 182 RQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHLI 241 Query: 258 RERQLKQVIVFSNTKIGAXKQV 279 + Q KQV+VF+ TK GA K V Sbjct: 242 KTHQWKQVLVFTRTKHGANKLV 263 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 195 bits (496), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 110/278 (39%), Positives = 164/278 (58%), Gaps = 25/278 (8%) Query: 18 FEDFGLSPDILKALTAQGYIHPTPIQEQAIPIVLQGRDVMGAAQTGTGKTAGFSLPIIQL 77 FE GL+P I+KALT GY PTP+QE+AIP + G+D++ ++QTG+GKTA F LP + Sbjct: 3 FEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 Query: 78 LLA-----HASTSMSPARHPVRA--------------LILTPTRELADQVA---DNVKAY 115 L A+ + + R RA L+LTPTRELA QV D AY Sbjct: 63 LADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAY 122 Query: 116 SRFTPLRSTVVFGGVDMAPQTATLRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEA 175 R +R + GG+ Q L EI++ATPGRL+DH++ ++ SQ QILV+DEA Sbjct: 123 MRR--VRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Query: 176 DRMLDMGFLPDLQRIINLLPKQRQNLMFSATFSPEIKKLAASFQNNPVTIEVARSNATAD 235 DRMLDMGF+ D+++I+ P RQ ++FSAT + +A NNP+TI++A S+ + Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 236 RVTQIIYKVNE-DAKGDAVAHIIRERQLKQVIVFSNTK 272 + Q ++ V++ K + H++R+ + Q ++F+ TK Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATK 278 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 0.135 0.388 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: 924,775 Number of extensions: 34915 Number of successful extensions: 137 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 3 Length of query: 314 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 229 Effective length of database: 1,217,395 Effective search space: 278783455 Effective search space used: 278783455 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 (21.9 bits) S2: 130 (54.7 bits)