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= 0028.0324.p (507 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... 798 0.0 gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Her... 429 e-121 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 363 e-101 gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Her... 61 2e-10 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 798 bits (2061), Expect = 0.0, Method: Compositional matrix adjust. Identities = 409/413 (99%), Positives = 411/413 (99%) Query: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL Sbjct: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 Query: 61 QRLSAMPRQKINGHLPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQI 120 QRLSAMPRQKINGH+PIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQI Sbjct: 61 QRLSAMPRQKINGHVPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGINPQI 120 Query: 121 TLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPP 180 TLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPP Sbjct: 121 TLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLAALPP 180 Query: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL Sbjct: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 Query: 241 IKTHQWKQVLVFTRTKHGANKLVEQLARDGITAMAIHGNKSQSARTKALAEFKDGKLTAL 300 IKTHQWKQVLVFTRTKHGANKLVEQL RDGITAMAIHGNKSQSARTKALAEFKDGKLTAL Sbjct: 241 IKTHQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTAL 300 Query: 301 IATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCVDERDLLHD 360 IATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVC+DERDLLHD Sbjct: 301 IATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCIDERDLLHD 360 Query: 361 IERFIKREIPVEVIAGFEPDPTAKPQPIQLRSGQGRHQNGGGRGGQRSVPRKP 413 IERFIKREIPVEVIAGFEPDPTAKPQPIQLRSGQGRHQNGGGRGGQRS PRKP Sbjct: 361 IERFIKREIPVEVIAGFEPDPTAKPQPIQLRSGQGRHQNGGGRGGQRSAPRKP 413 >gi|300312872|ref|YP_003776964.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 487 Score = 429 bits (1102), Expect = e-121, Method: Compositional matrix adjust. Identities = 234/488 (47%), Positives = 318/488 (65%), Gaps = 39/488 (7%) Query: 3 FSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR 62 F GLS +I++A++EQGY PTPIQAQA+P VL G D++ AQTGTGKTAGF+LP++QR Sbjct: 18 FEDFGLSPDILKALAEQGYVHPTPIQAQAIPVVLQGRDVMGAAQTGTGKTAGFSLPIIQR 77 Query: 63 L------SAMPRQKINGHLPIRALILAPTRELAAQVEESVRQYGKYLPLTSACIFGGVGI 116 L SA P P+RALIL PTRELA QV ++V Y ++ PL S +FGGV + Sbjct: 78 LLQHASHSASP-----ARHPVRALILTPTRELADQVADNVAAYCRFTPLRSTVVFGGVDM 132 Query: 117 NPQITLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIRKVLA 176 PQ +L+ GV+I++ATPGRLLDH+QQ TVNL QILV+DEADRMLDMGF+ D+++++ Sbjct: 133 APQTAILRAGVEIVIATPGRLLDHVQQKTVNLSQTQILVMDEADRMLDMGFLPDLQRIIN 192 Query: 177 ALPPKRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPM 236 LP +RQNLLFSATF+ EIKKLA S NNP IEVAR N+T E + Q I+ V+ K Sbjct: 193 LLPKQRQNLLFSATFSPEIKKLAASFQNNPVTIEVARSNATAENVTQTIYKVEEAAKADA 252 Query: 237 LAHLIKTHQWKQVLVFTRTKHGANKLVEQLARDGITAMAIHGNKSQSARTKALAEFKDGK 296 ++ +I+ + KQV+VF+ TK GA++L L +G+ A AIHG+K+QS R AL FK G+ Sbjct: 253 VSFIIRQRELKQVIVFSNTKIGASRLARTLVAEGVKASAIHGDKTQSERMAALEAFKQGQ 312 Query: 297 LTALIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEAVSLVCVDERD 356 + L+ATD+AARG+DI +LP V+NYDLP EDYVHRIGRTGRAGA+G+A+SL C + Sbjct: 313 IEVLVATDVAARGLDIAELPCVINYDLPYNAEDYVHRIGRTGRAGASGDAISLFCDKDDR 372 Query: 357 LLHDIERFIKREIPVEVIAGFEPDPTAKPQPIQLRSGQGRHQNGG-GRGGQRSVPRKPAG 415 LL DIE+ IK++ + GF P + RH+ G+RS + + Sbjct: 373 LLTDIEKLIKKKFERAELTGFAP--------------RARHERSDRAERGERSERGERSD 418 Query: 416 NGNAAAPKPAGGNAGHGQAAKPLXRAR---------QPMAMATVTAMPPVARVD--VAMV 464 G+ + ++ G AA P+ R + +P A+ TV+ P +A+ + A V Sbjct: 419 RGDRSDRGERSRSSREGGAA-PMRREKVDPWFLKPYEPSAVETVSTKPELAKNNRPKAKV 477 Query: 465 AAMV-AMP 471 AA++ MP Sbjct: 478 AALLGGMP 485 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 363 bits (931), Expect = e-101, Method: Compositional matrix adjust. Identities = 202/442 (45%), Positives = 271/442 (61%), Gaps = 35/442 (7%) Query: 1 MSFSALGLSDEIVRAVSEQGYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLL 60 M+F ALGL+ I++A++E GYTSPTP+Q +A+PA +SG DLL +QTG+GKTA F LP L Sbjct: 1 MTFEALGLNPSIIKALTEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL 60 Query: 61 QRLSAMP------------RQ--KINGHLPI------RALILAPTRELAAQVEESVRQYG 100 +L+ +P RQ + G P + L+L PTRELA QV + +YG Sbjct: 61 HQLADLPPAPQAARTPNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYG 120 Query: 101 KYLP-LTSACIFGGVGINPQITLLKRGVDILVATPGRLLDHMQQGTVNLQHIQILVLDEA 159 Y+ + I GG+ Q+ LL R +ILVATPGRL+DHM+ G ++ +QILVLDEA Sbjct: 121 AYMRRVRVVSILGGMPYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEA 180 Query: 160 DRMLDMGFIRDIRKVLAALPPKRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVE 219 DRMLDMGFI DI K++AA P RQ +LFSAT + +A + NNP I++A ++ E Sbjct: 181 DRMLDMGFIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIASSSTRHE 240 Query: 220 VIAQKIHPVDR-DKKHPMLAHLIKTHQWKQVLVFTRTKHGANKLVEQLARDGITAMAIHG 278 I Q++H VD K+ +L HL++ Q ++FT TK A+ + ++L G A A+HG Sbjct: 241 NIMQRVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHG 300 Query: 279 NKSQSARTKALAEFKDGKLTALIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTG 338 + Q AR + L + G++ L+ATD+AARGID+ + HV NYDLP EDYVHRIGRTG Sbjct: 301 DMHQGARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTG 360 Query: 339 RAGATGEAVSLVCVDERDLLHDIERFIKREIPVEVIAGFEPDPTAKP----QPIQLRSGQ 394 RAG G A+SLV E + IERF K+ IPV+V+ GFEP +A P +P R G Sbjct: 361 RAGRNGVAISLVNHAEGMQVKRIERFTKQTIPVDVVEGFEPKKSAAPRSPRKPGGWRPGD 420 Query: 395 GRHQNGGGRGGQRSVPRKPAGN 416 GR NG PR AGN Sbjct: 421 GRSNNG---------PRYGAGN 433 >gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 618 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 82/347 (23%), Positives = 135/347 (38%), Gaps = 51/347 (14%) Query: 20 GYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR---------LSAMPRQK 70 GY+S Q + V V GGD L TG GK+ + +P L R L A+ + + Sbjct: 26 GYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLCYQVPALLRQGTGVVISPLIALMQDQ 85 Query: 71 ING--HLPIRALILAPTREL--AAQVEESVRQYGKYLPLTSACIFGGVGINPQITLLKRG 126 ++ + +RA L T+ A Q+E +RQ Sbjct: 86 VDALDEVGVRAAFLNSTQSFDEAMQIERRLRQ--------------------------GD 119 Query: 127 VDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIR------KVLAALPP 180 +D+L P RL+ + I + +DEA + G D R VL P Sbjct: 120 LDLLYVAPERLMTPRCLDLLESARISLFAIDEAHCVSQWG--HDFRPEYIKLSVLHERFP 177 Query: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 + + +AT AD+ + + +++ L + + S+ + + V++ L Sbjct: 178 QVPRIALTAT-ADQQTR--EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDF 234 Query: 241 IKT-HQWKQVLVFTRTKHGANKLVEQLARDGITAMAIHGNKSQSARTKALAEFKDGKLTA 299 IK+ H +V+ ++ + + L +GI A+A H + RT A F Sbjct: 235 IKSEHPEDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIV 294 Query: 300 LIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEA 346 ++AT GID + V + DLP E Y GR GR G +A Sbjct: 295 MVATIAFGMGIDKPDVRFVCHLDLPKSVEGYYQETGRAGRDGLPADA 341 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 0.319 0.134 0.385 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: 1,207,219 Number of extensions: 43581 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 4 Length of query: 507 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 418 Effective length of database: 1,198,455 Effective search space: 500954190 Effective search space used: 500954190 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 (21.8 bits) S2: 133 (55.8 bits)