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= 0017.0020.p (434 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... 709 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 327 8e-91 gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her... 295 6e-81 gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Her... 68 2e-12 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 709 bits (1830), Expect = 0.0, Method: Compositional matrix adjust. Identities = 341/392 (86%), Positives = 373/392 (95%) Query: 1 MTFESLGLHPSIIKALTDSGYTAPTPVQEQAIPAAIAGKDLLVSSQTGSGKTAAFMLPSL 60 MTFE+LGL+PSIIKALT++GYT+PTPVQE+AIPAAI+G+DLLVSSQTGSGKTAAFMLPSL Sbjct: 1 MTFEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 Query: 61 HKFASMPPAAPGAKTPNQEAQAAKARGDRPRFRPAQPKMLVLTPTRELALQVTTATDKYC 120 H+ A +PPA A+TPNQE QA++ARG+RPR++PAQPKMLVLTPTRELALQVTTATDKY Sbjct: 61 HQLADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 Query: 121 AHMRRLKAVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMDSGKIDFSELEILVLDEA 180 A+MRR++ VSILGGMPYPKQMQLLSRNPEILVATPGRLIDHM+SGKIDFS+L+ILVLDEA Sbjct: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Query: 181 DRMLDMGFIEDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNAPQIIQIAGSATKHE 240 DRMLDMGFI+DIEKIVAATPATRQTMLFSATLDGVVGNMAKRITN P IQIA S+T+HE Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 241 NIAQRVHFVDDLSHKNRLLDFLLRDVTMDQAVVFTATKRDADTIADRLNIAGFAAAALHG 300 NI QRVHFVDDLSHKNRLLD LLRD ++DQAV+FTATKRDADTIADRLNIAGFAAAALHG Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 Query: 301 DMHQGARNRTLDGMRRGQVRVLVATDVAARGIDVPGITHVFNYDLPKFPEDYVHRIGRTG 360 DMHQGARNRTL+ +RRGQVR+LVATDVAARGIDVPGITHVFNYDLPKF EDYVHRIGRTG Sbjct: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 Query: 361 RAGRNGVAVSLVNHAEGMHVKRIERFTKQPIP 392 RAGRNGVA+SLVNHAEGM VKRIERFTKQ IP Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIP 392 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 327 bits (839), Expect = 8e-91, Method: Compositional matrix adjust. Identities = 178/392 (45%), Positives = 243/392 (61%), Gaps = 22/392 (5%) Query: 1 MTFESLGLHPSIIKALTDSGYTAPTPVQEQAIPAAIAGKDLLVSSQTGSGKTAAFMLPSL 60 M+F +LGL I++A+++ GYT+PTP+Q QA+PA ++G DLL +QTG+GKTA F LP L Sbjct: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 Query: 61 HKFASMPPAAPGAKTPNQEAQAAKARGDRPRFRPAQPKMLVLTPTRELALQVTTATDKYC 120 + ++MP K G P + L+L PTRELA QV + +Y Sbjct: 61 QRLSAMP--------------RQKINGHVPI------RALILAPTRELAAQVEESVRQYG 100 Query: 121 AHMRRLKAVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMDSGKIDFSELEILVLDEA 180 ++ L + I GG+ Q+ LL R +ILVATPGRL+DHM G ++ ++ILVLDEA Sbjct: 101 KYLP-LTSACIFGGVGINPQITLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEA 159 Query: 181 DRMLDMGFIEDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNAPQIIQIAGSATKHE 240 DRMLDMGFI DI K++AA P RQ +LFSAT + +A + N P +I++A + E Sbjct: 160 DRMLDMGFIRDIRKVLAALPPKRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVE 219 Query: 241 NIAQRVHFVDDLSHKNRLLDFLLRDVTMDQAVVFTATKRDADTIADRLNIAGFAAAALHG 300 IAQ++H VD K+ +L L++ Q +VFT TK A+ + ++L G A A+HG Sbjct: 220 VIAQKIHPVDR-DKKHPMLAHLIKTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHG 278 Query: 301 DMHQGARNRTLDGMRRGQVRVLVATDVAARGIDVPGITHVFNYDLPKFPEDYVHRIGRTG 360 + Q AR + L + G++ L+ATD+AARGID+ + HV NYDLP PEDYVHRIGRTG Sbjct: 279 NKSQSARTKALAEFKDGKLTALIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTG 338 Query: 361 RAGRNGVAVSLVNHAEGMHVKRIERFTKQPIP 392 RAG G AVSLV E + IERF K+ IP Sbjct: 339 RAGATGEAVSLVCIDERDLLHDIERFIKREIP 370 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 295 bits (754), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 163/402 (40%), Positives = 232/402 (57%), Gaps = 21/402 (5%) Query: 3 FESLGLHPSIIKALTDSGYTAPTPVQEQAIPAAIAGKDLLVSSQTGSGKTAAFMLPSLHK 62 FE GL P I+KAL + GY PTP+Q QAIP + G+D++ ++QTG+GKTA F LP + + Sbjct: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 Query: 63 FASMPPAAPGAKTPNQEAQAAKARGDRPRFRPAQPKMLVLTPTRELALQVTTATDKYCAH 122 Q A + + P + L+LTPTRELA QV YC Sbjct: 78 LL-------------QHASHSASPARHP------VRALILTPTRELADQVADNVAAYC-R 117 Query: 123 MRRLKAVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMDSGKIDFSELEILVLDEADR 182 L++ + GG+ Q +L EI++ATPGRL+DH+ ++ S+ +ILV+DEADR Sbjct: 118 FTPLRSTVVFGGVDMAPQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADR 177 Query: 183 MLDMGFIEDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNAPQIIQIAGSATKHENI 242 MLDMGF+ D+++I+ P RQ +LFSAT + +A N P I++A S EN+ Sbjct: 178 MLDMGFLPDLQRIINLLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENV 237 Query: 243 AQRVHFVDDLSHKNRLLDFLLRDVTMDQAVVFTATKRDADTIADRLNIAGFAAAALHGDM 302 Q ++ V++ + K + F++R + Q +VF+ TK A +A L G A+A+HGD Sbjct: 238 TQTIYKVEE-AAKADAVSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDK 296 Query: 303 HQGARNRTLDGMRRGQVRVLVATDVAARGIDVPGITHVFNYDLPKFPEDYVHRIGRTGRA 362 Q R L+ ++GQ+ VLVATDVAARG+D+ + V NYDLP EDYVHRIGRTGRA Sbjct: 297 TQSERMAALEAFKQGQIEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRA 356 Query: 363 GRNGVAVSLVNHAEGMHVKRIERFTKQPIPXASLPAAAVRAK 404 G +G A+SL + + IE+ K+ A L A RA+ Sbjct: 357 GASGDAISLFCDKDDRLLTDIEKLIKKKFERAELTGFAPRAR 398 >gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 618 Score = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 88/355 (24%), Positives = 137/355 (38%), Gaps = 50/355 (14%) Query: 20 GYTAPTPVQEQAIPAAIAGKDLLVSSQTGSGKTAAFMLPSLHKFASMPPAAPGAKTPNQE 79 GY++ Q + + G D LV TG GK+ + +P+L + + +P + Sbjct: 26 GYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLCYQVPALLRQGTGVVISPLIALMQDQ 85 Query: 80 AQAAKARGDRPRFRPAQPKMLVLTPTRELALQVTTATDKYCAHMRRLKAVSILGGMPYPK 139 A G R F L T + D+ RRL+ Sbjct: 86 VDALDEVGVRAAF-----------------LNSTQSFDEAMQIERRLRQ----------G 118 Query: 140 QMQLLSRNPEILVATPGRLIDHMDSGKIDFSELEILVLDEADRMLDMGFIEDIEKIVAAT 199 + LL PE L+ TP R +D ++S +I + +DEA + G E I + Sbjct: 119 DLDLLYVAPERLM-TP-RCLDLLESARIS-----LFAIDEAHCVSQWGHDFRPEYIKLSV 171 Query: 200 PATRQTMLFSATLDGVVGNMAK-------RITNAPQIIQIAGSATKHENIAQRVHFVDDL 252 R + L + ++ +A Q + S+ NI R V+ Sbjct: 172 LHERFPQVPRIALTATADQQTREEIIHRLQLEDARQFV----SSFDRPNI--RYQIVEKA 225 Query: 253 SHKNRLLDFLLRDVTMDQAVVFTATKRDADTIADRLNIAGFAAAALHGDMHQGARNRTLD 312 + + +LLDF+ + D +V+ +++ + AD L G A A H M R Sbjct: 226 NGRKQLLDFIKSEHPEDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQA 285 Query: 313 GMRRGQVRVLVATDVAARGIDVPGITHVFNYDLPKFPEDYVHRIGRTGRAGRNGV 367 R V+VAT GID P + V + DLPK E Y TGRAGR+G+ Sbjct: 286 RFLREDKIVMVATIAFGMGIDKPDVRFVCHLDLPKSVEGYYQ---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 0.320 0.133 0.380 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: 1,279,015 Number of extensions: 53906 Number of successful extensions: 224 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 218 Number of HSP's successfully gapped: 4 Length of query: 434 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 346 Effective length of database: 1,203,190 Effective search space: 416303740 Effective search space used: 416303740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 132 (55.5 bits)