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= 0012.0014.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... 992 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 426 e-120 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 310 1e-85 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 992 bits (2564), Expect = 0.0, Method: Compositional matrix adjust. Identities = 487/487 (100%), Positives = 487/487 (100%) Query: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA Sbjct: 1 MSDTTSASAAPAAPAVRFEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAA 60 Query: 61 QTGTGKTAGFSLPIIQRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP 120 QTGTGKTAGFSLPIIQRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP Sbjct: 61 QTGTGKTAGFSLPIIQRLLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTP 120 Query: 121 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD Sbjct: 121 LRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLD 180 Query: 181 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT 240 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT Sbjct: 181 MGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQT 240 Query: 241 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSE 300 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSE Sbjct: 241 IYKVEEAAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSE 300 Query: 301 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 360 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG Sbjct: 301 RMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASG 360 Query: 361 DAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRARHERSDRAERGERSERGERSDRG 420 DAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRARHERSDRAERGERSERGERSDRG Sbjct: 361 DAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRARHERSDRAERGERSERGERSDRG 420 Query: 421 DRSDRGERSRSSREGGAAPMRREKVDPWFLKPYEPSAVETVSTKPELAKNNRPKAKVAAL 480 DRSDRGERSRSSREGGAAPMRREKVDPWFLKPYEPSAVETVSTKPELAKNNRPKAKVAAL 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 = 426 bits (1096), Expect = e-120, Method: Compositional matrix adjust. Identities = 211/383 (55%), Positives = 277/383 (72%), Gaps = 11/383 (2%) Query: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 F GLS +I++A++EQGY PTPIQAQA+P VL G D++ AQTGTGKTAGF+LP++QR Sbjct: 3 FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62 Query: 78 LLQHASHSASPARH-----PVRALILTPTRELADQVADNVAAYCRFTPLRSTVVFGGVDM 132 L SA P + P+RALIL PTRELA QV ++V Y ++ PL S +FGGV + Sbjct: 63 L------SAMPRQKINGHVPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGI 116 Query: 133 APQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIIN 192 PQ +L+ GV+I++ATPGRLLDH+QQ TVNL QILV+DEADRMLDMGF+ D+++++ Sbjct: 117 NPQITLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLA 176 Query: 193 LLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADA 252 LP +RQNLLFSATF+ EIKKLA S NNP IEVAR N+T E + Q I+ V+ K Sbjct: 177 ALPPKRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPM 236 Query: 253 VSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSERMAALEAFKQGQ 312 ++ +I+ + KQV+VF+ TK GA++L L +G+ A AIHG+K+QS R AL FK G+ Sbjct: 237 LAHLIKTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGK 296 Query: 313 IEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASGDAISLFCDKDDR 372 + L+ATD+AARG+DI +LP V+NYDLP EDYVHRIGRTGRAGA+G+A+SL C + Sbjct: 297 LTALIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCIDERD 356 Query: 373 LLTDIEKLIKKKFERAELTGFAP 395 LL DIE+ IK++ + GF P Sbjct: 357 LLHDIERFIKREIPVEVIAGFEP 379 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 310 bits (794), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 179/434 (41%), Positives = 253/434 (58%), Gaps = 27/434 (6%) 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 LLQ-----HASHSASPARHPVRA--------------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-AAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHG 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 RAGASGDAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAP-RARHERSDRAERGERSER 413 RAG +G AISL + + IE+ K+ + GF P ++ RS R G R Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKSAAPRSPRKPGGWRPGD 420 Query: 414 GERSDRGDRSDRGE 427 G RS+ G R G Sbjct: 421 G-RSNNGPRYGAGN 433 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 0.132 0.367 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: 1,242,118 Number of extensions: 46432 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 192 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)