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= 0001.0417.p (759 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Her... 1553 0.0 gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep ... 317 3e-87 gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Her... 183 5e-47 gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Her... 67 5e-12 >gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 759 Score = 1553 bits (4021), Expect = 0.0, Method: Compositional matrix adjust. Identities = 749/759 (98%), Positives = 752/759 (99%) Query: 1 MQNLLHNLNEEQLAAVTLPAQSALILAGAGSGKTRVLTTRIAWLIQTGQVSPSGILAVTF 60 MQNLL NLNEEQLAAVTLPAQSALILAGAGSGKTRVLTTRIAWLIQTGQVSPSGILAVTF Sbjct: 1 MQNLLLNLNEEQLAAVTLPAQSALILAGAGSGKTRVLTTRIAWLIQTGQVSPSGILAVTF 60 Query: 61 TNKAAKEMTARLSAMLPINTRGMWIGTFHGLCNRLLRAHHKDAGLPQTFQILDTQDQLSA 120 TNKAAKEMTARLS MLPINTRGMWIGTFHGLCNRLLRAHHKDAGLPQTFQILDTQDQLSA Sbjct: 61 TNKAAKEMTARLSGMLPINTRGMWIGTFHGLCNRLLRAHHKDAGLPQTFQILDTQDQLSA 120 Query: 121 IKRLLKQMNVDDEKYPPRNLMYFINSAKDQGLRAKDVDAYDDYNRKFVELYELYDQQCQR 180 IKRLLKQMNVDDEKYPPRNLMYFINSAKDQGLRAKDVDAYDDYNRKFVELYELYDQQCQR Sbjct: 121 IKRLLKQMNVDDEKYPPRNLMYFINSAKDQGLRAKDVDAYDDYNRKFVELYELYDQQCQR 180 Query: 181 EGVVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDTNDLQYKWLKLMAGQHGAV 240 EGVVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDTNDLQYKWLKLMAGQH AV Sbjct: 181 EGVVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDTNDLQYKWLKLMAGQHNAV 240 Query: 241 FAVGDDDQSIYAFRGANVGNMQAFEQEFHVQNLIKLEQNYRSHGHILDTANELIANNSKR 300 FAVGDDDQSIYAFRGANVGNMQAFEQEFHVQNLIKLEQNYRSHGHILDTANELIANNSKR Sbjct: 241 FAVGDDDQSIYAFRGANVGNMQAFEQEFHVQNLIKLEQNYRSHGHILDTANELIANNSKR 300 Query: 301 LGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEGWARSEIAILYRSNAQSRVL 360 LGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEGWARSEIAILYRSNAQSRVL Sbjct: 301 LGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEGWARSEIAILYRSNAQSRVL 360 Query: 361 EHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKAM 420 EHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKAM Sbjct: 361 EHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKAM 420 Query: 421 ESLQDAARQYGCSLYAAVPYVAGKAGSSLNAFIKLIEGARFETQHLPLPETVKVVLDLSG 480 ESLQDAARQYGCSLYAAVPYVAGKAGSSLNAF+KLIEGARFETQHLPLPE VKVVLDLSG Sbjct: 421 ESLQDAARQYGCSLYAAVPYVAGKAGSSLNAFVKLIEGARFETQHLPLPEMVKVVLDLSG 480 Query: 481 LITHYRNEKEGADRIENLEQLVSAATLFVSEEGYGLDAPAFLGPQAQAAAGTAITTADGV 540 L+THYRNEKEGADRIENLEQLVSAATLFVSEEGYGLDAPAFLGPQAQA AG AITTADGV Sbjct: 481 LMTHYRNEKEGADRIENLEQLVSAATLFVSEEGYGLDAPAFLGPQAQATAGAAITTADGV 540 Query: 541 EVLDADAPLVTIMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGM 600 EVLDADAPLVTIMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGM Sbjct: 541 EVLDADAPLVTIMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGM 600 Query: 601 EEGLFPHENSAKEEGGVEEERRLMYVAITRARKRLFMTFSQTRMLHGQTRYNMRSRFFDE 660 EEGLFPHENSAKEEGGVEEERRLMYVAITRARKRLFMTFSQTRMLHGQTRYNMRSRFFDE Sbjct: 601 EEGLFPHENSAKEEGGVEEERRLMYVAITRARKRLFMTFSQTRMLHGQTRYNMRSRFFDE 660 Query: 661 LPEQSIKWLSPKIAQHHWFANPKPAWDEVPEAGNNKIAQSFSRQTDSGWRIGQNVSHAKF 720 +PEQSIKWLSPKIAQHHWFANPK AWDEVPEAGNNKIAQSFSRQTDSGWRIGQNVSHAKF Sbjct: 661 MPEQSIKWLSPKIAQHHWFANPKSAWDEVPEAGNNKIAQSFSRQTDSGWRIGQNVSHAKF 720 Query: 721 GEGVIVNIEGGGGAARAQINFGKFGMKLLDLSVAKLEKI 759 GEGVIVNIEGGGGAARAQINFGKFGMKLLDLSVAKLEKI Sbjct: 721 GEGVIVNIEGGGGAARAQINFGKFGMKLLDLSVAKLEKI 759 >gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep [Herbaspirillum seropedicae SmR1] Length = 690 Score = 317 bits (812), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 244/701 (34%), Positives = 362/701 (51%), Gaps = 56/701 (7%) Query: 8 LNEEQLAAVTLPAQSALILAGAGSGKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKE 67 LN+ Q AV A L+LAGAGSGKTRV+T +IA LI+ I A+TFTNKAA E Sbjct: 8 LNKPQSEAVHYMAGPCLVLAGAGSGKTRVITQKIAHLIENCGYESRNIAALTFTNKAALE 67 Query: 68 MTARLSAML--PINTRGMWIGTFHGLCNRLLRAHHKDAGLPQTFQILDTQDQLSAIKRLL 125 M R++ +L P + + + TFH L ++LR + GL F I+D+ D S L+ Sbjct: 68 MQERIAKLLKDPKQAKHLTVSTFHSLGVKILRQESQHLGLKDRFSIMDSDDCFS----LV 123 Query: 126 KQMNVDDEKYPPRNLMYFI----NSAKDQGLRAKDVDAYDDYNRKFVELYELYDQQCQRE 181 +++ V +K R + I N D L K+ D+ + +Y Y + Sbjct: 124 QELAVTTDKAIIRGVQNSISLWKNGLVDPDLAEKNARTEDEA--QAARIYRSYVATLKAY 181 Query: 182 GVVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDTNDLQYKWLKLMA---GQHG 238 VDF +L+ EL N+ +R+ +Q + R++L+DE+QDTN QY+ +KL+ G+ Sbjct: 182 QAVDFDDLIRLPVELFRSNEEVRDRWQRKLRYLLIDEYQDTNTCQYELVKLLVTGIGKKP 241 Query: 239 AVFAVGDDDQSIYAFRGANVGNMQAFEQEFHVQNLIKLEQNYRSHGHILDTANELIANNS 298 AVGDDDQ+IYA+RGA + N++ +F +LIKLEQNYRS IL AN +I+NN Sbjct: 242 MFTAVGDDDQAIYAWRGATIENLKLLGVDFPNLHLIKLEQNYRSSTRILQAANAVISNNP 301 Query: 299 KRLGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEGWAR-SEIAILYRSNAQS 357 K K L ++ G G+ + V + EA I + E A+ ++ AILYR N Q+ Sbjct: 302 KLFDKTLWSEHGLGDPITVMAMDDEEAEADQIAITLSAHRFERRAKFADYAILYRGNHQA 361 Query: 358 RVLEHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGA 417 R+LE +L IPY + GGQ +F+RAEIK IAYL+L+ N +D AF+R V P RG+G Sbjct: 362 RILEKSLRRERIPYVMSGGQSYFDRAEIKDIIAYLRLIANQDDDPAFIRAVTTPRRGVGQ 421 Query: 418 KAMESLQDAARQYGCSLYAAVPYVAGKAGSSLNAFIKLIEGARFETQHLPLPETVKVVLD 477 +E L A Q+ CSL+ AV Y G +E + Q LPL + + Sbjct: 422 ATLEVLGTLAGQWQCSLFEAV-YKGG------------LEDKLTDRQLLPLRKFCDFINA 468 Query: 478 LSGLITHYRNEKEGADRIENLEQLVSAATLFVSEEGYGLDAPAFLGPQAQAAAGTAIT-- 535 L T G + + L+ ++ A ++ E Y D +F AQA + Sbjct: 469 LESRATRPGPSGSGENAGKVLDDMMEA----INYEFYLYD--SFEERAAQARWQNVVDFI 522 Query: 536 -----TADGVEVLDADAPLVTIMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGL 590 A G + + + ++ + A +S LE D + QDA+++ T+H++KGL Sbjct: 523 NWLKERACGGRDGEGEEKNLLEITQMVALMSM--LEGRDEE----QDAVRMSTLHASKGL 576 Query: 591 EFDAVFITGMEEGLFPHENSA-----KEEGGVEEERRLMYVAITRARKRLFMTFSQTRML 645 EF VF+ G+EEG+ PH+ + VEEERRLMYV ITRA++ L +++ + R Sbjct: 577 EFPHVFLVGVEEGILPHKGDPDTPPEEAAARVEEERRLMYVGITRAQRSLHLSWCKRRKR 636 Query: 646 HGQTRYNMRSRFFDEL---PEQSIKWLSPKIAQHHWFANPK 683 + SRF E+ +++ S KI AN K Sbjct: 637 AKEVIECQISRFVKEMRLDEGEAVPQESEKITPQARLANLK 677 >gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 707 Score = 183 bits (464), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 142/435 (32%), Positives = 217/435 (49%), Gaps = 30/435 (6%) Query: 8 LNEEQLAAVT-----LPAQSA--LILAGAGSGKTRVLTTRIAWLIQTGQVSPSGILAVTF 60 LN +Q AV P+Q LI+AGAGSGKT L R+A L+ G P IL ++F Sbjct: 26 LNAQQREAVEHGGKLPPSQQPPLLIVAGAGSGKTNTLAHRVARLVLEG-ADPQRILLLSF 84 Query: 61 TNKAAKEMTARLSAMLPINTRGM----------WIGTFHGLCNRLLRAHHKDAGLPQTFQ 110 + +AA +M R+ ++ G+ W GTFH + RLLR + K GL + F Sbjct: 85 SRRAAADMGRRVGQVI-AQVLGLAASDTPPQLHWSGTFHAIGARLLREYAKVIGLEEDFT 143 Query: 111 ILDTQDQLSAIKRLLKQMNVD--DEKYPPRNLMYFI-----NSAKDQG-LRAKDVDAYDD 162 I D D + L M + ++++P + I N+ +D G + + + Sbjct: 144 IQDRGDSEDLMGLLRHDMGLSATEKRFPLKATCLAIYSRAVNTRQDLGEVLQQHFPWCCE 203 Query: 163 YNRKFVELYELYDQQCQREGVVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDT 222 + R EL+ Y + + V+D+ +LLL ++L Q + + RF H+LVDE+QDT Sbjct: 204 WERPLGELFGRYVDAKEEQHVLDYDDLLLFWADMLGDAQ-IAQSVGQRFDHVLVDEYQDT 262 Query: 223 NDLQYKWLKLMAGQHGAVFAVGDDDQSIYAFRGANVGNMQAFEQEF-HVQNLIKLEQNYR 281 N LQ + L+ M V AVGDD Q+IY+FRGA V N+ F F L+ LEQNYR Sbjct: 263 NRLQAEILQRMKPDGAGVTAVGDDAQAIYSFRGATVRNILDFPGLFTQPVRLLTLEQNYR 322 Query: 282 SHGHILDTANELIANNSKRLGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEG 341 S IL +N +IA+ +R K+L +D ++ ++ + ++A+W+ ++ EG Sbjct: 323 STQPILHASNAVIADAPERHVKHLWSDKPSSQKPQLVVIPDEAEQARWVANRILAHREEG 382 Query: 342 WARSEIAILYRSNAQSRVLEHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHND 401 A+L+R+ S LE L IP+ +GG +F E IK +A L+L N Sbjct: 383 LTLKSQAVLFRTATHSAALELELARRNIPFVKFGGLKFLESGHIKDLLALLRLAHNPSGR 442 Query: 402 SAFLRVVNFPTRGIG 416 A LR + G+G Sbjct: 443 MAGLRALQL-IPGVG 456 Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 39/115 (33%), Positives = 59/115 (51%), Gaps = 21/115 (18%) Query: 576 QDALQLMTVHSAKGLEFDAVFITGMEEGLFPHENSAKEEGGVEEERRLMYVAITRARKRL 635 +D L L T+HSAKG E+ +V I + +G P + + E + EERRL+YVA+TRAR+ L Sbjct: 575 EDYLTLSTIHSAKGQEWRSVHILNVVDGCIPSDLATGSEAEIAEERRLLYVAMTRARQYL 634 Query: 636 FMTFSQTRMLHGQTRY------NMRSRFFDELPEQSIKWLSPKIAQHH----WFA 680 + Q + QT +RSRF ++P++ H WF+ Sbjct: 635 HLVVPQRFYITQQTPQGDRHVNGIRSRF-----------ITPRMLPHFEDSLWFS 678 >gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 1158 Score = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 46/130 (35%), Positives = 66/130 (50%), Gaps = 13/130 (10%) Query: 174 YDQQCQREGVVDFAELLLRTYELLSRNQP----LREHYQSRFRHILVDEFQDTNDLQY-- 227 Y + + V+DFA+L + Y LL RN+ L+ +R++HIL+DEFQDTN LQ+ Sbjct: 387 YQEVKAEQRVLDFADLEWQAYRLL-RNEASAAYLQTRLDARYKHILLDEFQDTNPLQWCI 445 Query: 228 --KWLKLMAGQ--HGAVFAVGDDDQSIYAFRGANVGNMQAFEQEFHVQN--LIKLEQNYR 281 WL G +VF VGD QSIY FR A A + Q +++ Q R Sbjct: 446 VRCWLDAYGGDAAQPSVFVVGDPKQSIYRFRRAEPRVFVAAREMLRAQGAAILRANQTRR 505 Query: 282 SHGHILDTAN 291 + ++D N Sbjct: 506 NATAVVDVLN 515 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 0.387 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: 2,126,565 Number of extensions: 84777 Number of successful extensions: 283 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 275 Number of HSP's successfully gapped: 6 Length of query: 759 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 666 Effective length of database: 1,179,515 Effective search space: 785556990 Effective search space used: 785556990 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: 134 (56.2 bits)