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= 0001.0725.p (1157 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Her... 1909 0.0 gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Her... 64 5e-11 >gi|300310196|ref|YP_003774288.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 1158 Score = 1909 bits (4945), Expect = 0.0, Method: Compositional matrix adjust. Identities = 998/1165 (85%), Positives = 1067/1165 (91%), Gaps = 15/1165 (1%) Query: 1 VSAAEQQPAAYEVNGKPVAAEVFTREACDPRHSVVVEACAGSGKTWLLVARMLRLLLSGA 60 +SAAE+ PAAYEVNG+ V A VFTR ACDPRHSVVVEACAGSGKTWLLVARMLRLLL+GA Sbjct: 1 MSAAERAPAAYEVNGEAVDAAVFTRAACDPRHSVVVEACAGSGKTWLLVARMLRLLLAGA 60 Query: 61 QAPELLAITFTRKAAQEMRERLLELLHELALADEHHAASLLRERGVAEADLPRLLPLARG 120 QAPELLAITFTRKAAQEMRERLLELLHELALADE AA+LLRERGVAE DLPRLLPLARG Sbjct: 61 QAPELLAITFTRKAAQEMRERLLELLHELALADEAGAAALLRERGVAEPDLPRLLPLARG 120 Query: 121 LYERILSSEQSLSIDTFHSWFARLLQIALLASGVPHGYTLTEKNGELLEEAYRRFMQTLR 180 LYERILSSEQSLSIDTFHSWFARLLQIA LASGVP+GYTLTEKNGELL+EAYRRFMQTLR Sbjct: 121 LYERILSSEQSLSIDTFHSWFARLLQIAPLASGVPYGYTLTEKNGELLDEAYRRFMQTLR 180 Query: 181 EPEGAIVKAALLELYELVGDFNTRQLLDAFIDKRAEWWAATQDDGEEAEPS--------P 232 EPEGA +KAALLELYEL GDFN RQLLDAFIDKRAEWWAATQDD +E E P Sbjct: 181 EPEGAHIKAALLELYELAGDFNARQLLDAFIDKRAEWWAATQDDEQEGEEGAEEHAAPAP 240 Query: 233 LRWLEALCGDDARRDARLALWDDAPLVARASQVAVLLGQGGSLNKNRAVAIESALTAGPA 292 LRWL+ALCG DA+RDARL+LW++ LVARASQ+A+LLGQGGS N+ RAVAIESAL+AGPA Sbjct: 241 LRWLQALCGADAQRDARLSLWEEHALVARASQLAILLGQGGSANQARAVAIESALSAGPA 300 Query: 293 LEHFDALYSQFFDDKDKPRKNGKVKSLLAALTQHFAASDEAALAAFEDEFNAIGEALRKL 352 LEHFDALYSQFFDDKDKPRKNGKVKSLLAAL QHF AS++AAL AFE EFNA+GEALRKL Sbjct: 301 LEHFDALYSQFFDDKDKPRKNGKVKSLLAALVQHFEASEDAALVAFEMEFNAVGEALRKL 360 Query: 353 QGRSKEKLVLQLNRALFAAGRAYLDCYQEVKSEQRVLDFADLEWQAYRLLKDDASAAYLQ 412 QGRSKEK VLQLN ALF AGRAYL CYQEVK+EQRVLDFADLEWQAYRLL+++ASAAYLQ Sbjct: 361 QGRSKEKDVLQLNAALFTAGRAYLACYQEVKAEQRVLDFADLEWQAYRLLRNEASAAYLQ 420 Query: 413 TRLDARYKHILLDEFQDTNPLQWCIVRCWLDAYGGDAAQPSVFVVGDPKQSIYRFRRAEP 472 TRLDARYKHILLDEFQDTNPLQWCIVRCWLDAYGGDAAQPSVFVVGDPKQSIYRFRRAEP Sbjct: 421 TRLDARYKHILLDEFQDTNPLQWCIVRCWLDAYGGDAAQPSVFVVGDPKQSIYRFRRAEP 480 Query: 473 RVFVAARELLRSQGAAILRANQTRRNASAVVNVLNRSFIRGGNPLFAQQTTLGLAGGEVW 532 RVFVAARE+LR+QGAAILRANQTRRNA+AVV+VLNRSF+ GGNPLFAQQTTLGLAGGEVW Sbjct: 481 RVFVAAREMLRAQGAAILRANQTRRNATAVVDVLNRSFVMGGNPLFAQQTTLGLAGGEVW 540 Query: 533 RLPLVRQEEGEENVTRPETDAESASAAASSAASEGEQDIIAWRNPLTTPRGEEEDARRLL 592 RLPL R ++G ENV+ SA A+SAA EGE ++I WRNPLTTPRGEE+DARRLL Sbjct: 541 RLPLARPDDGAENVS-------SADTDAASAAPEGEPEVIPWRNPLTTPRGEEDDARRLL 593 Query: 593 EGQALAQALLKAYREVPVITGKSERAMRWGDIMLLVRKRTHLAAYESALRAAGIPFISDK 652 EG ALAQALLKAYREVPV+ GK R+MRWGDIMLLVRKRTHLAAYESALRAAGIPFISDK Sbjct: 594 EGLALAQALLKAYREVPVVEGKGARSMRWGDIMLLVRKRTHLAAYESALRAAGIPFISDK 653 Query: 653 RGGLLESLEIADLIALLTFLITPNDTRALAHVLKSPIIGAADDDLVQIARRAAHAEGGHW 712 RGGLLESLEIADLIALLTFLITPNDTRALAHVLKSPII A DDDLVQIARRAA AEGGHW Sbjct: 654 RGGLLESLEIADLIALLTFLITPNDTRALAHVLKSPIISATDDDLVQIARRAAQAEGGHW 713 Query: 713 WQHLQAMQQEGAASAALVRAVTLLQRWLQAAPHLPVHDLLDRILHQGELVARYAQNASPL 772 W+ LQAMQQEGAASAALVRAVTLLQRWL AAPHLPVHDLLD ILHQGELVARYAQ+ASPL Sbjct: 714 WRQLQAMQQEGAASAALVRAVTLLQRWLLAAPHLPVHDLLDMILHQGELVARYAQHASPL 773 Query: 773 TRSQTLGNIAAFVELSLNMDAGRYPSLPKFIDALRVLQRTSGGDAPDEASVDASADAVRI 832 TRSQTLGNIAAFVELSLNMDAGRYPSLPKFIDALRVLQR++GGDAPDEASVDAS DAVRI Sbjct: 774 TRSQTLGNIAAFVELSLNMDAGRYPSLPKFIDALRVLQRSAGGDAPDEASVDASGDAVRI 833 Query: 833 LTVHSAKGLEAPVVAILDANHSDSVEDNLGILCAWPQDQDAPTHFSAFGRRSERGSAREE 892 LTVHSAKGLEAPVVAILDANHSDSVEDNLGILCAWPQD+DAPTHFSAFGRRSERGSAR+ Sbjct: 834 LTVHSAKGLEAPVVAILDANHSDSVEDNLGILCAWPQDEDAPTHFSAFGRRSERGSARDP 893 Query: 893 LFEQEDQLRTQEDWNLLYVAVTRAKQLLLVSGVAGKRGTGEGGVVEGSWYQRLFASDAPV 952 LFE+E+ LRTQEDWNLLYVAVTRAKQLLLVSGVAG RG GGVV+GSWYQRLFASDAPV Sbjct: 894 LFEEEETLRTQEDWNLLYVAVTRAKQLLLVSGVAGTRGADAGGVVQGSWYQRLFASDAPV 953 Query: 953 REIGEEAVQGADVAAVEEVFSLSLFDPRPQPMLLFGAADGEQEQTPPAIADDGTLVSNEA 1012 REI EEAV GA+ AA+EE FSL+LFDPRP PM LFGA + + PA+ DG LVS +A Sbjct: 954 REISEEAVHGAEAAAIEERFSLALFDPRPLPMSLFGAPADDPQDAVPALTADGALVSTDA 1013 Query: 1013 IDEGVALHALLERLTHANAWPLTLPAPPTLVRWLGVSAEMAQVVHAQARVVLAQPQLERF 1072 IDEGVALHALLERLTH +AWPL +P+ LVRWLG+SAEMAQVVHAQAR VLAQPQLERF Sbjct: 1014 IDEGVALHALLERLTHGHAWPLHVPSASVLVRWLGISAEMAQVVHAQAREVLAQPQLERF 1073 Query: 1073 FNPALHRWARNEMEIVTPAGVLRLDRVVMFEEEVWVLDYKRRLLDSERAEYAAQLARYRS 1132 FNPALHRWARNEMEIVTP G++RLDRVVMF++E+WV+DYKRRLLDSERA+YAAQL RYRS Sbjct: 1074 FNPALHRWARNEMEIVTPNGLMRLDRVVMFDDELWVIDYKRRLLDSERADYAAQLGRYRS 1133 Query: 1133 ALVSVFSDKRIRSALITADGVLSEH 1157 AL+SVFSDK+IRSALITA+G L EH Sbjct: 1134 ALMSVFSDKQIRSALITAEGALIEH 1158 >gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 759 Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 43/131 (32%), Positives = 65/131 (49%), Gaps = 11/131 (8%) Query: 377 DCYQEVKSEQRVLDFADLEWQAYRLLKDDASAAYLQTRLDARYKHILLDEFQDTNPLQWC 436 + Y + + V+DFA+L + Y LL + L+ +R++HIL+DEFQDTN LQ+ Sbjct: 172 ELYDQQCQREGVVDFAELLLRTYELLSRNQP---LREHYQSRFRHILVDEFQDTNDLQY- 227 Query: 437 IVRCWLDAYGGDAAQPSVFVVGDPKQSIYRFRRAEPRVFVAARELLRSQGAAILRANQTR 496 WL G +VF VGD QSIY FR A A + Q +++ Q Sbjct: 228 ---KWLKLMAGQ--HNAVFAVGDDDQSIYAFRGANVGNMQAFEQEFHVQN--LIKLEQNY 280 Query: 497 RNASAVVNVLN 507 R+ +++ N Sbjct: 281 RSHGHILDTAN 291 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 0.133 0.386 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: 3,371,081 Number of extensions: 138562 Number of successful extensions: 515 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 518 Number of HSP's successfully gapped: 2 Length of query: 1157 Length of database: 1,619,870 Length adjustment: 96 Effective length of query: 1061 Effective length of database: 1,165,310 Effective search space: 1236393910 Effective search space used: 1236393910 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: 136 (57.0 bits)