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= 0001.3483.p (487 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... 929 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 428 e-121 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 309 4e-85 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 929 bits (2401), Expect = 0.0, Method: Compositional matrix adjust. Identities = 467/487 (95%), Positives = 475/487 (97%) Query: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA Sbjct: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 Query: 61 QTGTGKTAGFSLPIIQRLLAHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP 120 QTGTGKTAGFSLPIIQRLL HASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP Sbjct: 61 QTGTGKTAGFSLPIIQRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP 120 Query: 121 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD Sbjct: 121 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 Query: 181 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT 240 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT Sbjct: 181 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT 240 Query: 241 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLLAEGVKASAIHGDKTQSE 300 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTL+AEGVKASAIHGDKTQSE Sbjct: 241 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSE 300 Query: 301 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 360 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG Sbjct: 301 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 360 Query: 361 DAISLFCDKDERLLVDIEKLIKKKFERAELSGFAPRARHERSERSERSERGERSERGERG 420 DAISLFCDKD+RLL DIEKLIKKKFERAEL+GFAPRARHERS+R+ER ER ER ER +RG Sbjct: 361 DAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRARHERSDRAERGERSERGERSDRG 420 Query: 421 ERSDRGERSRSSREGGAPAARREKIDPWFLKPYEPSTTETVSTKPELAKNNRPKPKVAAL 480 +RSDRGERSRSSREGGA RREK+DPWFLKPYEPS ETVSTKPELAKNNRPK KVAAL Sbjct: 421 DRSDRGERSRSSREGGAAPMRREKVDPWFLKPYEPSAVETVSTKPELAKNNRPKAKVAAL 480 Query: 481 LGGMPKR 487 LGGMPKR Sbjct: 481 LGGMPKR 487 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 428 bits (1101), Expect = e-121, Method: Compositional matrix adjust. Identities = 209/378 (55%), Positives = 276/378 (73%), Gaps = 1/378 (0%) Query: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 F GLS +I++A++EQGY PTPIQAQA+P VL G D++ AQTGTGKTAGF+LP++QR Sbjct: 3 FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62 Query: 78 LLAHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTPLRSTVVFGGVDMAPQTA 137 L A + P+RALIL PTRELA QV ++V Y ++ PL S +FGGV + PQ Sbjct: 63 LSAMPRQKIN-GHVPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQIT 121 Query: 138 ILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLPKQ 197 +L+ GV+I++ATPGRLLDH+QQ TVNL QILV+DEADRMLDMGF+ D+++++ LP + Sbjct: 122 LLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPPK 181 Query: 198 RQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADAVSFII 257 RQNLLFSATF+ EIKKLA S NNP IEVAR N+T E + Q I+ V+ K ++ +I Sbjct: 182 RQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHLI 241 Query: 258 RQRELKQVIVFSNTKIGASRLARTLLAEGVKASAIHGDKTQSERMAALEAFKQGQIEVLV 317 + + KQV+VF+ TK GA++L L +G+ A AIHG+K+QS R AL FK G++ L+ Sbjct: 242 KTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTALI 301 Query: 318 ATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASGDAISLFCDKDERLLVDI 377 ATD+AARG+DI +LP V+NYDLP EDYVHRIGRTGRAGA+G+A+SL C + LL DI Sbjct: 302 ATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCIDERDLLHDI 361 Query: 378 EKLIKKKFERAELSGFAP 395 E+ IK++ ++GF P Sbjct: 362 ERFIKREIPVEVIAGFEP 379 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 309 bits (791), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 178/434 (41%), Positives = 252/434 (58%), Gaps = 31/434 (7%) Query: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 FE GL+P I+KAL E GY PTP+Q +AIP + G+D++ ++QTG+GKTA F LP + + Sbjct: 3 FEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 Query: 78 LL-----AHASHSASPARHPVRA--------------LILTPTRELADQVA---DNVAAY 115 L A+ + + R RA L+LTPTRELA QV D AY Sbjct: 63 LADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAY 122 Query: 116 CRFTPLRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEA 175 R +R + GG+ Q +L EI++ATPGRL+DH++ ++ SQ QILV+DEA Sbjct: 123 MRR--VRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Query: 176 DRMLDMGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAE 235 DRMLDMGF+ D+++I+ P RQ +LFSAT + +A NNP+TI++A S+ E Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 236 NVTQTIYKVEE-AAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLLAEGVKASAIHG 294 N+ Q ++ V++ + K + ++R + Q ++F+ TK A +A L G A+A+HG Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 Query: 295 DKTQSERMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTG 354 D Q R L + ++GQ+ +LVATDVAARG+D+ + V NYDLP AEDYVHRIGRTG Sbjct: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 Query: 355 RAGASGDAISLFCDKDERLLVDIEKLIKKKFERAELSGFAPRARHERSERSERSERGERS 414 RAG +G AISL + + IE+ K+ + GF P + + RS R G R Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEP--KKSAAPRSPRKPGGWRP 418 Query: 415 ERGERGERSDRGER 428 G RS+ G R Sbjct: 419 GDG----RSNNGPR 428 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 0.131 0.365 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: 1,142,676 Number of extensions: 40652 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 4 Length of query: 487 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 398 Effective length of database: 1,198,455 Effective search space: 476985090 Effective search space used: 476985090 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)