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= 0002.0441.p (612 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Her... 1082 0.0 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 62 1e-10 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 57 3e-09 >gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 618 Score = 1082 bits (2797), Expect = 0.0, Method: Compositional matrix adjust. Identities = 516/602 (85%), Positives = 558/602 (92%), Gaps = 3/602 (0%) Query: 9 QGKALHILETVFGYSSFRGQQADIVQHVVQGGDALVLMPTGGGKSLCYQVPALVRDGVGV 68 Q +ALH+LETVFGYSSFRG Q +IVQHV GGDALVLMPTGGGKSLCYQVPAL+R G GV Sbjct: 14 QERALHVLETVFGYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLCYQVPALLRQGTGV 73 Query: 69 VVSPLIALMQDQVDALAEVGVRAAFLNSTQTFDEAMQIERRVRSGDIDLLYVAPERLMTP 128 V+SPLIALMQDQVDAL EVGVRAAFLNSTQ+FDEAMQIERR+R GD+DLLYVAPERLMTP Sbjct: 74 VISPLIALMQDQVDALDEVGVRAAFLNSTQSFDEAMQIERRLRQGDLDLLYVAPERLMTP 133 Query: 129 RCLELLEAAHIALFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPNVPRIALTATADQQTR 188 RCL+LLE+A I+LFAIDEAHCVSQWGHDFRPEYIKLSVLHERFP VPRIALTATADQQTR Sbjct: 134 RCLDLLESARISLFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPQVPRIALTATADQQTR 193 Query: 189 EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFIESEHADDAGVVYCLSRKK 248 EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFI+SEH +DAG+VYCLSRKK Sbjct: 194 EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFIKSEHPEDAGIVYCLSRKK 253 Query: 249 VEETAEFLKQSGINALPYHAGMDYAKRTANQARFLREDKIVMVATIAFGMGIDKPDVRFV 308 VEETA+FL+ GINAL YHAGMDYA+RTANQARFLREDKIVMVATIAFGMGIDKPDVRFV Sbjct: 254 VEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIVMVATIAFGMGIDKPDVRFV 313 Query: 309 AHLDLPKSIEGYYQETGRAGRDGLPANAWMAYGLQDVVQQRRMISESEADETFKRVLGVK 368 HLDLPKS+EGYYQETGRAGRDGLPA+AWMAYGLQDVVQQRRMI ES+ADETFKRVLG K Sbjct: 314 CHLDLPKSVEGYYQETGRAGRDGLPADAWMAYGLQDVVQQRRMIDESDADETFKRVLGTK 373 Query: 369 LDAMLGLCETLHCRRVRLLDYFGQHGQQACGNCDICLTPPVSFDGTLMAQKLLSTVYRVE 428 L+AML LCETLHCRRV LLDYFG+ CGNCD CLTPPVSFD T+ QKLLSTVYRVE Sbjct: 374 LNAMLALCETLHCRRVHLLDYFGEKS-APCGNCDTCLTPPVSFDATVEVQKLLSTVYRVE 432 Query: 429 QRFAAGHVLDVLRGIDGERVKQWRHDQLSVFGIGSEYGEAEWRAVLRQVIALGLLTVDHE 488 QRFA GHV++VLRGIDGERVKQWRHDQLSVFG+GS+ GEAEWRA+LRQVIALGLLTVD + Sbjct: 433 QRFAPGHVIEVLRGIDGERVKQWRHDQLSVFGVGSDRGEAEWRAILRQVIALGLLTVDAD 492 Query: 489 NYSSLKLTEEAKPVLRGEQKIQLRQYQKPVKPKRSSSSSKSNYVETDLSTEEQTIFDKLR 548 NYS+LKLTE A+PVLRGEQ +QLR+YQKP K KR SS +S++VETDLSTEEQ +F+KLR Sbjct: 493 NYSALKLTEAARPVLRGEQAVQLRRYQKPEKAKR--SSQRSSFVETDLSTEEQALFEKLR 550 Query: 549 WWRVETARKHNVPAYVIFHDATMREIAKAKPSSLDDLRGVTGVGEKKLETYGAEIISLIR 608 WWRVETAR HNVPAYVIFHDATMREIAKA+P SLDDLR VTGVGEKKLETYGA+II+LI Sbjct: 551 WWRVETARAHNVPAYVIFHDATMREIAKARPQSLDDLRHVTGVGEKKLETYGAQIIALIA 610 Query: 609 EI 610 E+ Sbjct: 611 EM 612 >gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 520 Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 83/342 (24%), Positives = 132/342 (38%), Gaps = 51/342 (14%) Query: 21 GYSSFRGQQADIVQHVVQGGDALVLMPTGGGKSLCYQVPALVRDGVGVVVSPLIALMQDQ 80 GY+S QA V V+ GGD L TG GK+ + +P L R L A+ + + Sbjct: 20 GYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR---------LSAMPRQK 70 Query: 81 VDALAEVGVRAAFLNSTQTFDEAMQIERRVR--------------------------SGD 114 ++ V +RA L T+ A Q+E VR Sbjct: 71 ING--HVPIRALILAPTREL--AAQVEESVRQYGKYLPLTSACIFGGVGINPQITLLKRG 126 Query: 115 IDLLYVAPERLMTPRCLELLEAAHIALFAIDEAHCVSQWG--HDFRPEYIKLSVLHERFP 172 +D+L P RL+ + HI + +DEA + G D R VL P Sbjct: 127 VDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIR------KVLAALPP 180 Query: 173 NVPRIALTAT-ADQQTR--EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDF 229 + +AT AD+ + + +++ L + + S+ + + V++ L Sbjct: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 Query: 230 IESEHADDAGVVYCLSRKKVEETAEFLKQSGINALPYHAGMDYAKRTANQARFLREDKIV 289 I++ H +V+ ++ + E L + GI A+ H + RT A F Sbjct: 241 IKT-HQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTA 299 Query: 290 MVATIAFGMGIDKPDVRFVAHLDLPKSIEGYYQETGRAGRDG 331 ++AT GID + V + DLP E Y GR GR G Sbjct: 300 LIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAG 341 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 87/355 (24%), Positives = 134/355 (37%), Gaps = 44/355 (12%) Query: 18 TVFGYSSFRGQQADIVQHVVQGGDALVLMPTGGGKSLCYQVPALVRDGVGVVVSPLIALM 77 T GY+S Q + + G D LV TG GK+ + +P+L + +P A Sbjct: 17 TEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSL-HQLADLPPAPQAART 75 Query: 78 QDQ------------------VDALAEVGVRAAFLNSTQTFDEAMQIERRVR-------- 111 +Q L R L T D+ RRVR Sbjct: 76 PNQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAYMRRVRVVSILGGM 135 Query: 112 --SGDIDLLYVAPERLM-TP-RCLELLEAAHI-----ALFAIDEAHCVSQWGHDFRPEYI 162 + LL PE L+ TP R ++ +E+ I + +DEA + G E I Sbjct: 136 PYPKQMQLLSRNPEILVATPGRLIDHMESGKIDFSQLQILVLDEADRMLDMGFIDDIEKI 195 Query: 163 KLSVLHERFPNVPRIALTATADQQTREEIIHRLQLEDARQFVSSFDRPNI--RYQIVEKA 220 + R + L + + L ++ A SS NI R V+ Sbjct: 196 VAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIAS---SSTRHENIMQRVHFVDDL 252 Query: 221 NGRKQLLDFIESEHADDAGVVYCLSRKKVEETAEFLKQSGINALPYHAGMDYAKRTANQA 280 + + +LLD + + + D V++ +++ + A+ L +G A H M R Sbjct: 253 SHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHGDMHQGARNRTLN 312 Query: 281 RFLREDKIVMVATIAFGMGIDKPDVRFVAHLDLPKSIEGYYQ---ETGRAGRDGL 332 R ++VAT GID P + V + DLPK E Y TGRAGR+G+ Sbjct: 313 SLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTGRAGRNGV 367 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 0.136 0.396 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: 1,867,261 Number of extensions: 79154 Number of successful extensions: 254 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 4 Length of query: 612 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 521 Effective length of database: 1,188,985 Effective search space: 619461185 Effective search space used: 619461185 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)