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= 0009.0237.p (472 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 709 0.0 gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her... 419 e-118 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 350 1e-97 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 709 bits (1829), Expect = 0.0, Method: Compositional matrix adjust. Identities = 343/392 (87%), Positives = 370/392 (94%) Query: 1 MSFSSLGLSEEIVRAVTEQGYTTPTPIQMQAVPAVLGGGDLLAGAQTGTGKTAGFTLPLL 60 MSFS+LGLS+EIVRAV+EQGYT+PTPIQ QAVPAVL GGDLLAGAQTGTGKTAGFTLPLL Sbjct: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 Query: 61 QRLSSVERVKVNGHVPIRALILTPTRELAAQVEESVRVYGKYLPLTSACIFGGVGINPQI 120 QRLS++ R K+NGHVPIRALIL PTRELAAQVEESVR YGKYLPLTSACIFGGVGINPQI Sbjct: 61 QRLSAMPRQKINGHVPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQI 120 Query: 121 RLLKQGVDILVATPGRLLDHMQQNTVDLKSVQVLILDEADRMLDMGFIRDIKKILAVLPK 180 LLK+GVDILVATPGRLLDHMQQ TV+L+ +Q+L+LDEADRMLDMGFIRDI+K+LA LP Sbjct: 121 TLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPP 180 Query: 181 KRQNLLFSATFSDEIKALADGLLNSPAMIEVARRNSTVEVIGQKIHPVDRDKKHPLLAHL 240 KRQNLLFSATF+DEIK LAD LLN+PA+IEVARRNSTVEVI QKIHPVDRDKKHP+LAHL Sbjct: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 Query: 241 IKTNQWNQVLVFTRTKHGANKLVEQLARDEITAMAIHGNKSQAARTRALADFKDGKLQAL 300 IKT+QW QVLVFTRTKHGANKLVEQL RD ITAMAIHGNKSQ+ART+ALA+FKDGKL AL Sbjct: 241 IKTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTAL 300 Query: 301 IATDIAARGIDIDQLPHVVNYDLPNVSEDYVHRIGRTGRAGATGSAVSLVCVDERDLLND 360 IATDIAARGIDIDQLPHVVNYDLPNV EDYVHRIGRTGRAGATG AVSLVC+DERDLL+D Sbjct: 301 IATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCIDERDLLHD 360 Query: 361 IERFIKREIPVEIVPGFEPDPKAKPQPIQLRS 392 IERFIKREIPVE++ GFEPDP AKPQPIQLRS Sbjct: 361 IERFIKREIPVEVIAGFEPDPTAKPQPIQLRS 392 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 419 bits (1078), Expect = e-118, Method: Compositional matrix adjust. Identities = 213/428 (49%), Positives = 286/428 (66%), Gaps = 10/428 (2%) Query: 3 FSSLGLSEEIVRAVTEQGYTTPTPIQMQAVPAVLGGGDLLAGAQTGTGKTAGFTLPLLQR 62 F GLS +I++A+ EQGY PTPIQ QA+P VL G D++ AQTGTGKTAGF+LP++QR Sbjct: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 Query: 63 L-SSVERVKVNGHVPIRALILTPTRELAAQVEESVRVYGKYLPLTSACIFGGVGINPQIR 121 L P+RALILTPTRELA QV ++V Y ++ PL S +FGGV + PQ Sbjct: 78 LLQHASHSASPARHPVRALILTPTRELADQVADNVAAYCRFTPLRSTVVFGGVDMAPQTA 137 Query: 122 LLKQGVDILVATPGRLLDHMQQNTVDLKSVQVLILDEADRMLDMGFIRDIKKILAVLPKK 181 +L+ GV+I++ATPGRLLDH+QQ TV+L Q+L++DEADRMLDMGF+ D+++I+ +LPK+ Sbjct: 138 ILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIINLLPKQ 197 Query: 182 RQNLLFSATFSDEIKALADGLLNSPAMIEVARRNSTVEVIGQKIHPVDRDKKHPLLAHLI 241 RQNLLFSATFS EIK LA N+P IEVAR N+T E + Q I+ V+ K ++ +I Sbjct: 198 RQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADAVSFII 257 Query: 242 KTNQWNQVLVFTRTKHGANKLVEQLARDEITAMAIHGNKSQAARTRALADFKDGKLQALI 301 + + QV+VF+ TK GA++L L + + A AIHG+K+Q+ R AL FK G+++ L+ Sbjct: 258 RQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSERMAALEAFKQGQIEVLV 317 Query: 302 ATDIAARGIDIDQLPHVVNYDLPNVSEDYVHRIGRTGRAGATGSAVSLVCVDERDLLNDI 361 ATD+AARG+DI +LP V+NYDLP +EDYVHRIGRTGRAGA+G A+SL C + LL DI Sbjct: 318 ATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASGDAISLFCDKDDRLLTDI 377 Query: 362 ERFIKREIPVEIVPGFEPDPKAKPQPIQLRSEGHRGGGGGGRRPQGGGGGRSANGGGGNR 421 E+ IK++ + GF P + R E G R +G R G R Sbjct: 378 EKLIKKKFERAELTGFAP---------RARHERSDRAERGERSERGERSDRGDRSDRGER 428 Query: 422 SQQPKTGG 429 S+ + GG Sbjct: 429 SRSSREGG 436 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 350 bits (898), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 197/446 (44%), Positives = 271/446 (60%), Gaps = 39/446 (8%) Query: 1 MSFSSLGLSEEIVRAVTEQGYTTPTPIQMQAVPAVLGGGDLLAGAQTGTGKTAGFTLPLL 60 M+F +LGL+ I++A+TE GYT+PTP+Q +A+PA + G DLL +QTG+GKTA F LP L Sbjct: 1 MTFEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 Query: 61 QRLSSV---------------------ERVKVNGHVPIRALILTPTRELAAQVEESVRVY 99 +L+ + ER + P + L+LTPTRELA QV + Y Sbjct: 61 HQLADLPPAPQAARTPNQERQASRARGERPRYQPAQP-KMLVLTPTRELALQVTTATDKY 119 Query: 100 GKYLP-LTSACIFGGVGINPQIRLLKQGVDILVATPGRLLDHMQQNTVDLKSVQVLILDE 158 G Y+ + I GG+ Q++LL + +ILVATPGRL+DHM+ +D +Q+L+LDE Sbjct: 120 GAYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDE 179 Query: 159 ADRMLDMGFIRDIKKILAVLPKKRQNLLFSATFSDEIKALADGLLNSPAMIEVARRNSTV 218 ADRMLDMGFI DI+KI+A P RQ +LFSAT + +A + N+P I++A ++ Sbjct: 180 ADRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRH 239 Query: 219 EVIGQKIHPVDR-DKKHPLLAHLIKTNQWNQVLVFTRTKHGANKLVEQLARDEITAMAIH 277 E I Q++H VD K+ LL HL++ +Q ++FT TK A+ + ++L A A+H Sbjct: 240 ENIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALH 299 Query: 278 GNKSQAARTRALADFKDGKLQALIATDIAARGIDIDQLPHVVNYDLPNVSEDYVHRIGRT 337 G+ Q AR R L + G+++ L+ATD+AARGID+ + HV NYDLP +EDYVHRIGRT Sbjct: 300 GDMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRT 359 Query: 338 GRAGATGSAVSLVCVDERDLLNDIERFIKREIPVEIVPGFEPDPKAKPQPIQLRSEGHRG 397 GRAG G A+SLV E + IERF K+ IPV++V GFEP A P+ + Sbjct: 360 GRAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKSAAPRSPR-------- 411 Query: 398 GGGGGRRPQGGGGGRSANG---GGGN 420 GG RP G GRS NG G GN Sbjct: 412 -KPGGWRP---GDGRSNNGPRYGAGN 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 0.136 0.390 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: 1,235,581 Number of extensions: 42808 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 219 Number of HSP's successfully gapped: 4 Length of query: 472 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 383 Effective length of database: 1,198,455 Effective search space: 459008265 Effective search space used: 459008265 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 (21.6 bits) S2: 132 (55.5 bits)