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= 0001.3377.p (500 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 891 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 355 6e-99 gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her... 312 4e-86 gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Her... 60 3e-10 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 891 bits (2302), Expect = 0.0, Method: Compositional matrix adjust. Identities = 483/511 (94%), Positives = 487/511 (95%), Gaps = 12/511 (2%) Query: 1 MTFEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 MTFEALGLNPSIIKALTEAGYT+PTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL Sbjct: 1 MTFEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 Query: 61 HQLADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 HQLADLP APQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG Sbjct: 61 HQLADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 Query: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA Sbjct: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Query: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 Query: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG Sbjct: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 Query: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTAAPRSPRKPGGWRPGD 420 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKK+AAPRSPRKPGGWRPGD Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKSAAPRSPRKPGGWRPGD 420 Query: 421 GRSNSGPRFGAGNREGGGHREGGFGGNREGGFGG-----------NREGRSFGGAKPGNG 469 GRSN+GPR+GAGNREGGGHREGGFGGNREGG NREGRSFGGAKPGNG Sbjct: 421 GRSNNGPRYGAGNREGGGHREGGFGGNREGGHREGGFGGNREGGYNREGRSFGGAKPGNG 480 Query: 470 PRREGGAGGGYKGNNGGGFRADGPRRSYGDR 500 R G GGG NGGGFRADGPRRSYGDR Sbjct: 481 -PRREGGGGGGYKGNGGGFRADGPRRSYGDR 510 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 355 bits (910), Expect = 6e-99, Method: Compositional matrix adjust. Identities = 188/408 (46%), Positives = 258/408 (63%), Gaps = 22/408 (5%) Query: 1 MTFEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 M+F ALGL+ I++A++E GYT+PTP+Q +A+PA +SG DLL +QTG+GKTA F LP L Sbjct: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 Query: 61 HQLADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 +L+ +P+ + G P + L+L PTRELA QV + +YG Sbjct: 61 QRLSAMPR--------------QKINGHVPI------RALILAPTRELAAQVEESVRQYG 100 Query: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Y+ + I GG+ Q+ LL R +ILVATPGRL+DHM+ G ++ +QILVLDEA Sbjct: 101 KYLP-LTSACIFGGVGINPQITLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEA 159 Query: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 DRMLDMGFI DI K++AA P RQ +LFSAT + +A + NNP I++A ++ E Sbjct: 160 DRMLDMGFIRDIRKVLAALPPKRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVE 219 Query: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 I Q++H VD K+ +L HL++ Q ++FT TK A+ + ++L G A A+HG Sbjct: 220 VIAQKIHPVDR-DKKHPMLAHLIKTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHG 278 Query: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 + Q AR + L + G++ L+ATD+AARGID+ + HV NYDLP EDYVHRIGRTG Sbjct: 279 NKSQSARTKALAEFKDGKLTALIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTG 338 Query: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTAAPR 408 RAG G A+SLV E + IERF K+ IPV+V+ GFEP TA P+ Sbjct: 339 RAGATGEAVSLVCIDERDLLHDIERFIKREIPVEVIAGFEPDPTAKPQ 386 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 312 bits (800), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 184/444 (41%), Positives = 257/444 (57%), Gaps = 28/444 (6%) Query: 3 FEALGLNPSIIKALTEAGYTAPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQ 62 FE GL+P I+KAL E GY PTP+Q +AIP + G+D++ ++QTG+GKTA F LP + + Sbjct: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 Query: 63 LADLPQAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAY 122 L A+ + + R RA L+LTPTRELA QV D AY Sbjct: 78 LLQ-----HASHSASPARHPVRA--------------LILTPTRELADQVA---DNVAAY 115 Query: 123 MRR--VRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 R +R + GG+ Q +L EI++ATPGRL+DH++ ++ SQ QILV+DEA Sbjct: 116 CRFTPLRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEA 175 Query: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 DRMLDMGF+ D+++I+ P RQ +LFSAT + +A NNP+TI++A S+ E Sbjct: 176 DRMLDMGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAE 235 Query: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 N+ Q ++ V++ + K + ++R + Q ++F+ TK A +A L G A+A+HG Sbjct: 236 NVTQTIYKVEE-AAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHG 294 Query: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 D Q R L + ++GQ+ +LVATDVAARG+D+ + V NYDLP AEDYVHRIGRTG Sbjct: 295 DKTQSERMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTG 354 Query: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKTAAPRSPRKPGGWRPGD 420 RAG +G AISL + + IE+ K+ + GF P + RS R G R Sbjct: 355 RAGASGDAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAP-RARHERSDRAERGERSER 413 Query: 421 G-RSNSGPRFGAGNREGGGHREGG 443 G RS+ G R G R REGG Sbjct: 414 GERSDRGDRSDRGERSRSS-REGG 436 >gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 618 Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 70/280 (25%), Positives = 112/280 (40%), Gaps = 27/280 (9%) Query: 100 LVLTPTRELALQVTTATDKYGAYMRRVRVVSILGGMPYPKQMQLLSR----NPEILVATP 155 +V++P L A D+ G VR + + + MQ+ R + ++L P Sbjct: 73 VVISPLIALMQDQVDALDEVG-----VRAAFLNSTQSFDEAMQIERRLRQGDLDLLYVAP 127 Query: 156 GRL-----IDHMESGKIDFSQLQILVLDEADRMLDMGFIDDIEKIVAATPATRQTMLFSA 210 RL +D +ES +I + +DEA + G E I + R + Sbjct: 128 ERLMTPRCLDLLESARIS-----LFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPQVPRI 182 Query: 211 TLDGVVGNMAKRITNNPLTIQIA---SSSTRHENIMQRVHFVDDLSHKNRLLDHLLRDTS 267 L + + L ++ A SS NI R V+ + + +LLD + + Sbjct: 183 ALTATADQQTREEIIHRLQLEDARQFVSSFDRPNI--RYQIVEKANGRKQLLDFIKSEHP 240 Query: 268 IDQAVIFTATKRDADTIADRLNIAGFAAAALHGDMHQGARNRTLNSLRRGQVRMLVATDV 327 D +++ +++ + AD L G A A H M R R ++VAT Sbjct: 241 EDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIVMVATIA 300 Query: 328 AARGIDVPGITHVFNYDLPKFAEDYVHRIGRTGRAGRNGV 367 GID P + V + DLPK E Y TGRAGR+G+ Sbjct: 301 FGMGIDKPDVRFVCHLDLPKSVEGYYQ---ETGRAGRDGL 337 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 0.318 0.136 0.395 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: 1,352,960 Number of extensions: 53027 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 210 Number of HSP's successfully gapped: 4 Length of query: 500 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 411 Effective length of database: 1,198,455 Effective search space: 492565005 Effective search space used: 492565005 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)