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= 0008.0041.p (456 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... 806 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 368 e-103 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 263 3e-71 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 806 bits (2081), Expect = 0.0, Method: Compositional matrix adjust. Identities = 421/493 (85%), Positives = 432/493 (87%), Gaps = 43/493 (8%) Query: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILRALSEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 MSDTTSASAAPAAPAVRFEDFGLSPDIL+AL+EQGYVHPTPIQAQAIPVVLQGRDVMGAA Sbjct: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 Query: 61 QTGTGKTAGFSLPIIQRLLAHASHSASPARHPVRALILTPTRELADQVADNVKAYSRFTP 120 QTGTGKTAGFSLPIIQRLL HASHSASPARHPVRALILTPTRELADQVADNV AY RFTP Sbjct: 61 QTGTGKTAGFSLPIIQRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP 120 Query: 121 LRSTVVFGGVDMAPQTATLRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 LRSTVVFGGVDMAPQTA LRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD Sbjct: 121 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 Query: 181 MGFLPDLQRIINLLPKQRQNLLFSAX---------------------------------- 206 MGFLPDLQRIINLLPKQRQNLLFSA Sbjct: 181 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT 240 Query: 207 ---VEEAAKADAVSFIIRQRALKQVIVFSNTKIGASRLARTLLAEGVKASAIHGDKTQSE 263 VEEAAKADAVSFIIRQR LKQVIVFSNTKIGASRLARTL+AEGVKASAIHGDKTQSE Sbjct: 241 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSE 300 Query: 264 RMAALESFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 323 RMAALE+FKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG Sbjct: 301 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 360 Query: 324 DAISLFCDKDERLLVDIEKLIKKKFERAELTGFAPRMRADRGERGERSERGERGERSDRG 383 DAISLFCDKD+RLL DIEKLIKKKFERAELTGFAPR R ERS+R ERGERS+RG Sbjct: 361 DAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRA------RHERSDRAERGERSERG 414 Query: 384 ERAERGERGDRGERSRSSRDGAAPSGRREKVDPWFLKPYEPSATETVSTKPELPKNNRPK 443 ER++RG+R DRGERSRSSR+G A RREKVDPWFLKPYEPSA ETVSTKPEL KNNRPK Sbjct: 415 ERSDRGDRSDRGERSRSSREGGAAPMRREKVDPWFLKPYEPSAVETVSTKPELAKNNRPK 474 Query: 444 PKVAALLGGMPKR 456 KVAALLGGMPKR Sbjct: 475 AKVAALLGGMPKR 487 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 368 bits (945), Expect = e-103, Method: Compositional matrix adjust. Identities = 189/378 (50%), Positives = 248/378 (65%), Gaps = 38/378 (10%) Query: 18 FEDFGLSPDILRALSEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 F GLS +I+RA+SEQGY PTPIQAQA+P VL G D++ AQTGTGKTAGF+LP++QR Sbjct: 3 FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62 Query: 78 LLAHASHSASPARHPVRALILTPTRELADQVADNVKAYSRFTPLRSTVVFGGVDMAPQTA 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 RQNLLFSAX-------------------------------------VEEAAKADAVSFII 220 RQNLLFSA V+ K ++ +I Sbjct: 182 RQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHLI 241 Query: 221 RQRALKQVIVFSNTKIGASRLARTLLAEGVKASAIHGDKTQSERMAALESFKQGQIEVLV 280 + KQV+VF+ TK GA++L L +G+ A AIHG+K+QS R AL FK G++ L+ Sbjct: 242 KTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTALI 301 Query: 281 ATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASGDAISLFCDKDERLLVDI 340 ATD+AARG+DI +LP V+NYDLP EDYVHRIGRTGRAGA+G+A+SL C + LL DI Sbjct: 302 ATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCIDERDLLHDI 361 Query: 341 EKLIKKKFERAELTGFAP 358 E+ IK++ + GF P Sbjct: 362 ERFIKREIPVEVIAGFEP 379 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 263 bits (671), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 165/434 (38%), Positives = 230/434 (52%), Gaps = 68/434 (15%) Query: 18 FEDFGLSPDILRALSEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 FE GL+P I++AL+E GY PTP+Q +AIP + G+D++ ++QTG+GKTA F LP + + Sbjct: 3 FEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 Query: 78 LL-----AHASHSASPARHPVRA--------------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 DRMLDMGFLPDLQRIINLLPKQRQNLLFSAXVEE-------------------------- 209 DRMLDMGF+ D+++I+ P RQ +LFSA ++ Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 210 ------------AAKADAVSFIIRQRALKQVIVFSNTKIGASRLARTLLAEGVKASAIHG 257 + K + ++R ++ Q ++F+ TK A +A L G A+A+HG Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 Query: 258 DKTQSERMAALESFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTG 317 D Q R L S ++GQ+ +LVATDVAARG+D+ + V NYDLP AEDYVHRIGRTG Sbjct: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 Query: 318 RAGASGDAISLFCDKDERLLVDIEKLIKKKFERAELTGFAPRMRADRGERGERSERGERG 377 RAG +G AISL + + IE+ K+ + GF P+ A RS R G Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKSA-----APRSPRKPGG 415 Query: 378 ERSDRGERAERGER 391 R G R+ G R Sbjct: 416 WRPGDG-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 0.133 0.373 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: 1,066,725 Number of extensions: 37189 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 5 Length of query: 456 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 368 Effective length of database: 1,203,190 Effective search space: 442773920 Effective search space used: 442773920 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)