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= 0002.0108.p (743 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... 1336 0.0 gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep ... 303 4e-83 gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Her... 166 5e-42 gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Her... 65 2e-11 >gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 759 Score = 1336 bits (3458), Expect = 0.0, Method: Compositional matrix adjust. Identities = 662/737 (89%), Positives = 701/737 (95%), Gaps = 7/737 (0%) Query: 7 AWXGKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKEMTARLSAMMPINTRGMWIGTF 66 A GKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKEMTARLS M+PINTRGMWIGTF Sbjct: 29 AGSGKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKEMTARLSGMLPINTRGMWIGTF 88 Query: 67 HGLCNRLLRAHHRDAALPQTFQILDSQDQLSAIKRLLKQMNVDDEKYPPRNLMYFINGAK 126 HGLCNRLLRAHH+DA LPQTFQILD+QDQLSAIKRLLKQMNVDDEKYPPRNLMYFIN AK Sbjct: 89 HGLCNRLLRAHHKDAGLPQTFQILDTQDQLSAIKRLLKQMNVDDEKYPPRNLMYFINSAK 148 Query: 127 DQGLRAKDVEAHDDYNRKFVELYDLYDQQCQREGVVDFAELLLRTYELLSRNQPLREHYQ 186 DQGLRAKDV+A+DDYNRKFVELY+LYDQQCQREGVVDFAELLLRTYELLSRNQPLREHYQ Sbjct: 149 DQGLRAKDVDAYDDYNRKFVELYELYDQQCQREGVVDFAELLLRTYELLSRNQPLREHYQ 208 Query: 187 RRFRHVLVDEFQDTNDLQYKWLKIMSGQGQVDASAVFAVGDDDQSIYAFRGANVGNMTSF 246 RFRH+LVDEFQDTNDLQYKWLK+M+GQ +AVFAVGDDDQSIYAFRGANVGNM +F Sbjct: 209 SRFRHILVDEFQDTNDLQYKWLKLMAGQ----HNAVFAVGDDDQSIYAFRGANVGNMQAF 264 Query: 247 EREFRVQNLIKLEQNYRSHGHILDAANILIANNSKRLGKNLRTDAGHGEQVRVFEASSDL 306 E+EF VQNLIKLEQNYRSHGHILD AN LIANNSKRLGKNLRTDAGHGEQVRV+EA+SDL Sbjct: 265 EQEFHVQNLIKLEQNYRSHGHILDTANELIANNSKRLGKNLRTDAGHGEQVRVYEATSDL 324 Query: 307 QEAQWIIEQVKNLIAEGWARSEIALLYRSNAQSRVLEHALFSSAIPYRVYGGQRFFERAE 366 QEAQWIIEQVK+LIAEGWARSEIA+LYRSNAQSRVLEHALFSSAIPYRVYGGQRFFERAE Sbjct: 325 QEAQWIIEQVKDLIAEGWARSEIAILYRSNAQSRVLEHALFSSAIPYRVYGGQRFFERAE 384 Query: 367 VKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKALEQLQDAARQYNCSLYAAVPYVAGK 426 +KHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKA+E LQDAARQY CSLYAAVPYVAGK Sbjct: 385 IKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKAMESLQDAARQYGCSLYAAVPYVAGK 444 Query: 427 AGSTLNGFIKLIEAARFETQNLPLQEMVQVVLDSSGLLTHYRNEKEGADRIENLEQLVSA 486 AGS+LN F+KLIE ARFETQ+LPL EMV+VVLD SGL+THYRNEKEGADRIENLEQLVSA Sbjct: 445 AGSSLNAFVKLIEGARFETQHLPLPEMVKVVLDLSGLMTHYRNEKEGADRIENLEQLVSA 504 Query: 487 ATLFVSEEGYGLDAPAFLGPQAQAVAGTSITTADGIEIIDADAALTTIMSPLSAFLSHAS 546 ATLFVSEEGYGLDAPAFLGPQAQA AG +ITTADG+E++DADA L TIMSPLSAFLSHAS Sbjct: 505 ATLFVSEEGYGLDAPAFLGPQAQATAGAAITTADGVEVLDADAPLVTIMSPLSAFLSHAS 564 Query: 547 LEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGLEEGLFPHENSAKEEGGVEEERRLM 606 LEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITG+EEGLFPHENSAKEEGGVEEERRLM Sbjct: 565 LEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGMEEGLFPHENSAKEEGGVEEERRLM 624 Query: 607 YVAITRARKRLYMSFSQTRMLHGQTRYNMRSRFFDELPDESIKWLSPKIQPQQHSWFAQP 666 YVAITRARKRL+M+FSQTRMLHGQTRYNMRSRFFDE+P++SIKWLSPKI QH WFA P Sbjct: 625 YVAITRARKRLFMTFSQTRMLHGQTRYNMRSRFFDEMPEQSIKWLSPKI--AQHHWFANP 682 Query: 667 KSAWDAAPESGNNKIAQNFSR-PDSGWRIGQNVAHAKFGEGVIVNIEGGGGSTRAHINFG 725 KSAWD PE+GNNKIAQ+FSR DSGWRIGQNV+HAKFGEGVIVNIEGGGG+ RA INFG Sbjct: 683 KSAWDEVPEAGNNKIAQSFSRQTDSGWRIGQNVSHAKFGEGVIVNIEGGGGAARAQINFG 742 Query: 726 KFGMKLLDLSVAKLDKV 742 KFGMKLLDLSVAKL+K+ Sbjct: 743 KFGMKLLDLSVAKLEKI 759 >gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep [Herbaspirillum seropedicae SmR1] Length = 690 Score = 303 bits (775), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 231/673 (34%), Positives = 348/673 (51%), Gaps = 52/673 (7%) Query: 7 AWXGKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKEMTARLSAMM--PINTRGMWIG 64 A GKTRV+T +IA LI+ I A+TFTNKAA EM R++ ++ P + + + Sbjct: 29 AGSGKTRVITQKIAHLIENCGYESRNIAALTFTNKAALEMQERIAKLLKDPKQAKHLTVS 88 Query: 65 TFHGLCNRLLRAHHRDAALPQTFQILDSQDQLSAIKRLLKQMNVDDEKYPPRNLMYFI-- 122 TFH L ++LR + L F I+DS D S L++++ V +K R + I Sbjct: 89 TFHSLGVKILRQESQHLGLKDRFSIMDSDDCFS----LVQELAVTTDKAIIRGVQNSISL 144 Query: 123 --NGAKDQGLRAKDVEAHDDYNRKFVELYDLYDQQCQREGVVDFAELLLRTYELLSRNQP 180 NG D L K+ D+ + +Y Y + VDF +L+ EL N+ Sbjct: 145 WKNGLVDPDLAEKNARTEDEA--QAARIYRSYVATLKAYQAVDFDDLIRLPVELFRSNEE 202 Query: 181 LREHYQRRFRHVLVDEFQDTNDLQYKWLKIM-SGQGQVDASAVFAVGDDDQSIYAFRGAN 239 +R+ +QR+ R++L+DE+QDTN QY+ +K++ +G G+ AVGDDDQ+IYA+RGA Sbjct: 203 VRDRWQRKLRYLLIDEYQDTNTCQYELVKLLVTGIGK--KPMFTAVGDDDQAIYAWRGAT 260 Query: 240 VGNMTSFEREFRVQNLIKLEQNYRSHGHILDAANILIANNSKRLGKNLRTDAGHGEQVRV 299 + N+ +F +LIKLEQNYRS IL AAN +I+NN K K L ++ G G+ + V Sbjct: 261 IENLKLLGVDFPNLHLIKLEQNYRSSTRILQAANAVISNNPKLFDKTLWSEHGLGDPITV 320 Query: 300 FEASSDLQEAQWIIEQVKNLIAEGWAR-SEIALLYRSNAQSRVLEHALFSSAIPYRVYGG 358 + EA I + E A+ ++ A+LYR N Q+R+LE +L IPY + GG Sbjct: 321 MAMDDEEAEADQIAITLSAHRFERRAKFADYAILYRGNHQARILEKSLRRERIPYVMSGG 380 Query: 359 QRFFERAEVKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAKALEQLQDAARQYNCSLYA 418 Q +F+RAE+K IAYL+L+ N +D AF+R V P RG+G LE L A Q+ CSL+ Sbjct: 381 QSYFDRAEIKDIIAYLRLIANQDDDPAFIRAVTTPRRGVGQATLEVLGTLAGQWQCSLFE 440 Query: 419 AVPYVAGKAGSTLNGFIKLIEAARFETQNLPLQEMVQVV--LDSSGLLTHYRNEKEGADR 476 AV Y G +E + Q LPL++ + L+S E A + Sbjct: 441 AV-YKGG------------LEDKLTDRQLLPLRKFCDFINALESRATRPGPSGSGENAGK 487 Query: 477 IENLEQLVSAATLFVSEEGYGLDAPAFLGPQAQ---AVAGTSITTADGIEIIDADAALTT 533 + L+ ++ A ++ E Y D+ QA+ V + D + Sbjct: 488 V--LDDMMEA----INYEFYLYDSFEERAAQARWQNVVDFINWLKERACGGRDGEGEEKN 541 Query: 534 IMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGLEFDAVFITGLEEGLFPHENSA 593 ++ + LE D + QDA+++ T+H++KGLEF VF+ G+EEG+ PH+ Sbjct: 542 LLEITQMVALMSMLEGRDEE----QDAVRMSTLHASKGLEFPHVFLVGVEEGILPHKGDP 597 Query: 594 -----KEEGGVEEERRLMYVAITRARKRLYMSFSQTRMLHGQTRYNMRSRFFDEL---PD 645 + VEEERRLMYV ITRA++ L++S+ + R + SRF E+ Sbjct: 598 DTPPEEAAARVEEERRLMYVGITRAQRSLHLSWCKRRKRAKEVIECQISRFVKEMRLDEG 657 Query: 646 ESIKWLSPKIQPQ 658 E++ S KI PQ Sbjct: 658 EAVPQESEKITPQ 670 >gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 707 Score = 166 bits (421), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 128/408 (31%), Positives = 204/408 (50%), Gaps = 27/408 (6%) Query: 10 GKTRVLTTRIAWLIQTGQVSPSGILAVTFTNKAAKEMTARLSAMMPINTRGM-------- 61 GKT L R+A L+ G P IL ++F+ +AA +M R+ ++ G+ Sbjct: 57 GKTNTLAHRVARLVLEG-ADPQRILLLSFSRRAAADMGRRVGQVI-AQVLGLAASDTPPQ 114 Query: 62 --WIGTFHGLCNRLLRAHHRDAALPQTFQILDSQDQLSAIKRLLKQMNVD--DEKYPPRN 117 W GTFH + RLLR + + L + F I D D + L M + ++++P + Sbjct: 115 LHWSGTFHAIGARLLREYAKVIGLEEDFTIQDRGDSEDLMGLLRHDMGLSATEKRFPLKA 174 Query: 118 LMYFI-----NGAKDQG-LRAKDVEAHDDYNRKFVELYDLYDQQCQREGVVDFAELLLRT 171 I N +D G + + ++ R EL+ Y + + V+D+ +LLL Sbjct: 175 TCLAIYSRAVNTRQDLGEVLQQHFPWCCEWERPLGELFGRYVDAKEEQHVLDYDDLLLFW 234 Query: 172 YELLSRNQPLREHYQRRFRHVLVDEFQDTNDLQYKWLKIMSGQGQVDASAVFAVGDDDQS 231 ++L Q + + +RF HVLVDE+QDTN LQ + L+ M + D + V AVGDD Q+ Sbjct: 235 ADMLGDAQ-IAQSVGQRFDHVLVDEYQDTNRLQAEILQRM----KPDGAGVTAVGDDAQA 289 Query: 232 IYAFRGANVGNMTSFEREF-RVQNLIKLEQNYRSHGHILDAANILIANNSKRLGKNLRTD 290 IY+FRGA V N+ F F + L+ LEQNYRS IL A+N +IA+ +R K+L +D Sbjct: 290 IYSFRGATVRNILDFPGLFTQPVRLLTLEQNYRSTQPILHASNAVIADAPERHVKHLWSD 349 Query: 291 AGHGEQVRVFEASSDLQEAQWIIEQVKNLIAEGWARSEIALLYRSNAQSRVLEHALFSSA 350 ++ ++ + ++A+W+ ++ EG A+L+R+ S LE L Sbjct: 350 KPSSQKPQLVVIPDEAEQARWVANRILAHREEGLTLKSQAVLFRTATHSAALELELARRN 409 Query: 351 IPYRVYGGQRFFERAEVKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIG 398 IP+ +GG +F E +K +A L+L N A LR + G+G Sbjct: 410 IPFVKFGGLKFLESGHIKDLLALLRLAHNPSGRMAGLRALQL-IPGVG 456 Score = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 44/128 (34%), Positives = 66/128 (51%), Gaps = 20/128 (15%) Query: 558 QDALQLMTVHSAKGLEFDAVFITGLEEGLFPHENSAKEEGGVEEERRLMYVAITRARKRL 617 +D L L T+HSAKG E+ +V I + +G P + + E + EERRL+YVA+TRAR+ L Sbjct: 575 EDYLTLSTIHSAKGQEWRSVHILNVVDGCIPSDLATGSEAEIAEERRLLYVAMTRARQYL 634 Query: 618 YMSFSQTRMLHGQTRY------NMRSRFFDELPDESIKWLSPKIQP--QQHSWF-AQPKS 668 ++ Q + QT +RSRF ++P++ P + WF A+ Sbjct: 635 HLVVPQRFYITQQTPQGDRHVNGIRSRF-----------ITPRMLPHFEDSLWFSAETNG 683 Query: 669 AWDAAPES 676 A PES Sbjct: 684 ARTPMPES 691 >gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 1158 Score = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 45/132 (34%), Positives = 65/132 (49%), Gaps = 13/132 (9%) Query: 152 YDQQCQREGVVDFAELLLRTYELLSRNQP----LREHYQRRFRHVLVDEFQDTNDLQY-- 205 Y + + V+DFA+L + Y LL RN+ L+ R++H+L+DEFQDTN LQ+ Sbjct: 387 YQEVKAEQRVLDFADLEWQAYRLL-RNEASAAYLQTRLDARYKHILLDEFQDTNPLQWCI 445 Query: 206 --KWLKIMSGQGQVDASAVFAVGDDDQSIYAFRGANVGNMTSFEREFRVQN--LIKLEQN 261 WL G +VF VGD QSIY FR A + R Q +++ Q Sbjct: 446 VRCWLDAYGGDAA--QPSVFVVGDPKQSIYRFRRAEPRVFVAAREMLRAQGAAILRANQT 503 Query: 262 YRSHGHILDAAN 273 R+ ++D N Sbjct: 504 RRNATAVVDVLN 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 0.388 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: 2,097,128 Number of extensions: 82343 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 6 Length of query: 743 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 651 Effective length of database: 1,184,250 Effective search space: 770946750 Effective search space used: 770946750 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)