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= 0011.0013.p (618 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... 1268 0.0 gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Her... 64 3e-11 gi|300311049|ref|YP_003775141.1| ATP-dependent RNA helicase [Her... 62 1e-10 >gi|300309830|ref|YP_003773922.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 618 Score = 1268 bits (3280), Expect = 0.0, Method: Compositional matrix adjust. Identities = 616/618 (99%), Positives = 617/618 (99%) Query: 1 MVDFDSLPAGAPPQERALYVLETVFGYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLC 60 MVDFDSLPA APPQERAL+VLETVFGYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLC Sbjct: 1 MVDFDSLPADAPPQERALHVLETVFGYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLC 60 Query: 61 YQVPALLRQGTGVVISPLIALMQDQVDALDEVGVRAAFLNSTQSFDEAMQIERRLRQGDL 120 YQVPALLRQGTGVVISPLIALMQDQVDALDEVGVRAAFLNSTQSFDEAMQIERRLRQGDL Sbjct: 61 YQVPALLRQGTGVVISPLIALMQDQVDALDEVGVRAAFLNSTQSFDEAMQIERRLRQGDL 120 Query: 121 DLLYVAPERLMTPRCLDLLESARISLFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPQVP 180 DLLYVAPERLMTPRCLDLLESARISLFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPQVP Sbjct: 121 DLLYVAPERLMTPRCLDLLESARISLFAIDEAHCVSQWGHDFRPEYIKLSVLHERFPQVP 180 Query: 181 RIALTATADQQTREEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFIKSEHP 240 RIALTATADQQTREEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFIKSEHP Sbjct: 181 RIALTATADQQTREEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDFIKSEHP 240 Query: 241 EDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIVMVATIA 300 EDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIVMVATIA Sbjct: 241 EDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIVMVATIA 300 Query: 301 FGMGIDKPDVRFVCHLDLPKSVEGYYQETGRAGRDGLPADAWMAYGLQDVVQQRRMIDES 360 FGMGIDKPDVRFVCHLDLPKSVEGYYQETGRAGRDGLPADAWMAYGLQDVVQQRRMIDES Sbjct: 301 FGMGIDKPDVRFVCHLDLPKSVEGYYQETGRAGRDGLPADAWMAYGLQDVVQQRRMIDES 360 Query: 361 DADETFKRVLGTKLNAMLALCETLHCRRVHLLDYFGEKSAPCGNCDTCLTPPVSFDATVE 420 DADETFKRVLGTKLNAMLALCETLHCRRVHLLDYFGEKSAPCGNCDTCLTPPVSFDATVE Sbjct: 361 DADETFKRVLGTKLNAMLALCETLHCRRVHLLDYFGEKSAPCGNCDTCLTPPVSFDATVE 420 Query: 421 VQKLLSTVYRVEQRFAPGHVIEVLRGIDGERVKQWRHDQLSVFGVGSDRGEAEWRAILRQ 480 VQKLLSTVYRVEQRFAPGHVIEVLRGIDGERVKQWRHDQLSVFGVGSDRGEAEWRAILRQ Sbjct: 421 VQKLLSTVYRVEQRFAPGHVIEVLRGIDGERVKQWRHDQLSVFGVGSDRGEAEWRAILRQ 480 Query: 481 VIALGLLTVDADNYSALKLTEAARPVLRGEQAVQLRRYQKPEKAKRSSQRSSFVETDLST 540 VIALGLLTVDADNYSALKLTEAARPVLRGEQAVQLRRYQKPEKAKRSSQRSSFVETDLST Sbjct: 481 VIALGLLTVDADNYSALKLTEAARPVLRGEQAVQLRRYQKPEKAKRSSQRSSFVETDLST 540 Query: 541 EEQALFEKLRWWRVETARAHNVPAYVIFHDATMREIAKARPQSLDDLRHVTGVGEKKLET 600 EEQALFEKLRWWRVETARAHNVPAYVIFHDATMREIAKARPQSLDDLRHVTGVGEKKLET Sbjct: 541 EEQALFEKLRWWRVETARAHNVPAYVIFHDATMREIAKARPQSLDDLRHVTGVGEKKLET 600 Query: 601 YGAQIIALIAEMQAAQSS 618 YGAQIIALIAEMQAAQSS Sbjct: 601 YGAQIIALIAEMQAAQSS 618 >gi|300312721|ref|YP_003776813.1| ATP-dependent RNA helicase [Herbaspirillum seropedicae SmR1] Length = 510 Score = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 86/363 (23%), Positives = 136/363 (37%), Gaps = 60/363 (16%) Query: 23 TVFGYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLCYQVPALLR-------------- 68 T GY+S Q + + G D LV TG GK+ + +P+L + Sbjct: 17 TEAGYTSPTPVQEKAIPAAISGQDLLVSSQTGSGKTAAFMLPSLHQLADLPPAPQAARTP 76 Query: 69 -------------------QGTGVVISPLIALMQDQVDALDEVG-----VRAAFLNSTQS 104 Q +V++P L A D+ G VR + Sbjct: 77 NQERQASRARGERPRYQPAQPKMLVLTPTRELALQVTTATDKYGAYMRRVRVVSILGGMP 136 Query: 105 FDEAMQIERRLRQGDLDLLYVAPERLMTPRCLDLLESARIS-----LFAIDEAHCVSQWG 159 + + MQ+ R + ++L P RL +D +ES +I + +DEA + G Sbjct: 137 YPKQMQLLSR----NPEILVATPGRL-----IDHMESGKIDFSQLQILVLDEADRMLDMG 187 Query: 160 HDFRPEYIKLSVLHERFPQVPRIALTATADQQTREEIIHRLQLEDARQFVSSFDRPNI-- 217 E I + R + L + + L ++ A SS NI Sbjct: 188 FIDDIEKIVAATPATRQTMLFSATLDGVVGNMAKRITNNPLTIQIAS---SSTRHENIMQ 244 Query: 218 RYQIVEKANGRKQLLDFIKSEHPEDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDY 277 R V+ + + +LLD + + D +++ +++ + AD L G A A H M Sbjct: 245 RVHFVDDLSHKNRLLDHLLRDTSIDQAVIFTATKRDADTIADRLNIAGFAAAALHGDMHQ 304 Query: 278 AQRTANQARFLREDKIVMVATIAFGMGIDKPDVRFVCHLDLPKSVEGYYQ---ETGRAGR 334 R R ++VAT GID P + V + DLPK E Y TGRAGR Sbjct: 305 GARNRTLNSLRRGQVRMLVATDVAARGIDVPGITHVFNYDLPKFAEDYVHRIGRTGRAGR 364 Query: 335 DGL 337 +G+ Sbjct: 365 NGV 367 >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 = 83/347 (23%), Positives = 135/347 (38%), Gaps = 51/347 (14%) Query: 26 GYSSFRGHQGEIVQHVAGGGDALVLMPTGGGKSLCYQVPALLRQGTGVVISPLIALMQDQ 85 GY+S Q + V V GGD L TG GK+ + +P L R L A+ + + Sbjct: 20 GYTSPTPIQAQAVPAVLSGGDLLAGAQTGTGKTAGFTLPLLQR---------LSAMPRQK 70 Query: 86 VDALDEVGVRAAFLNSTQSFDEAMQIERRLRQ--------------------------GD 119 ++ V +RA L T+ A Q+E +RQ Sbjct: 71 ING--HVPIRALILAPTREL--AAQVEESVRQYGKYLPLTSACIFGGVGINPQITLLKRG 126 Query: 120 LDLLYVAPERLMTPRCLDLLESARISLFAIDEAHCVSQWG--HDFRPEYIKLSVLHERFP 177 +D+L P RL+ + I + +DEA + G D R VL P Sbjct: 127 VDILVATPGRLLDHMQQGTVNLQHIQILVLDEADRMLDMGFIRDIR------KVLAALPP 180 Query: 178 QVPRIALTAT-ADQQTR--EEIIHRLQLEDARQFVSSFDRPNIRYQIVEKANGRKQLLDF 234 + + +AT AD+ + + +++ L + + S+ + + V++ L Sbjct: 181 KRQNLLFSATFADEIKKLADSLLNNPALIEVARRNSTVEVIAQKIHPVDRDKKHPMLAHL 240 Query: 235 IKSEHPEDAGIVYCLSRKKVEETADFLRSEGINALAYHAGMDYAQRTANQARFLREDKIV 294 IK+ H +V+ ++ + + L +GI A+A H + RT A F Sbjct: 241 IKT-HQWKQVLVFTRTKHGANKLVEQLGRDGITAMAIHGNKSQSARTKALAEFKDGKLTA 299 Query: 295 MVATIAFGMGIDKPDVRFVCHLDLPKSVEGYYQETGRAGRDGLPADA 341 ++AT GID + V + DLP E Y GR GR G +A Sbjct: 300 LIATDIAARGIDIDQLPHVVNYDLPNVPEDYVHRIGRTGRAGATGEA 346 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 0.321 0.136 0.399 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: 1,957,631 Number of extensions: 85361 Number of successful extensions: 262 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 260 Number of HSP's successfully gapped: 4 Length of query: 618 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 527 Effective length of database: 1,188,985 Effective search space: 626595095 Effective search space used: 626595095 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: 133 (55.8 bits)