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= 0002.0722.p (625 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep ... 1118 0.0 gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Her... 272 8e-74 gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Her... 180 3e-46 >gi|300313605|ref|YP_003777697.1| ATP-dependent DNA helicase rep [Herbaspirillum seropedicae SmR1] Length = 690 Score = 1118 bits (2891), Expect = 0.0, Method: Compositional matrix adjust. Identities = 534/623 (85%), Positives = 584/623 (93%) Query: 1 MQERIAKLLKEPKQAKHLTVSTFHSLGVKILRQEAKHLGLKDRFSIMDSDDCFSLVQDLA 60 MQERIAKLLK+PKQAKHLTVSTFHSLGVKILRQE++HLGLKDRFSIMDSDDCFSLVQ+LA Sbjct: 68 MQERIAKLLKDPKQAKHLTVSTFHSLGVKILRQESQHLGLKDRFSIMDSDDCFSLVQELA 127 Query: 61 VTTDKQLIRRIQNAMSLWKNGLIDPDLALRNAVDEEEAVAARIYRSYVATLSAYQAVDFD 120 VTTDK +IR +QN++SLWKNGL+DPDLA +NA E+EA AARIYRSYVATL AYQAVDFD Sbjct: 128 VTTDKAIIRGVQNSISLWKNGLVDPDLAEKNARTEDEAQAARIYRSYVATLKAYQAVDFD 187 Query: 121 DLIRLPVELFRGNEEVRDRWQRRLRYLLVDEYQDTNTCQYELVKLMVSGIGKKPMFTAVG 180 DLIRLPVELFR NEEVRDRWQR+LRYLL+DEYQDTNTCQYELVKL+V+GIGKKPMFTAVG Sbjct: 188 DLIRLPVELFRSNEEVRDRWQRKLRYLLIDEYQDTNTCQYELVKLLVTGIGKKPMFTAVG 247 Query: 181 DDDQAIYAWRGATIENLKTLQIDFPNLHLIKLEQNYRSSTRILQAANSVISNNPKLFEKA 240 DDDQAIYAWRGATIENLK L +DFPNLHLIKLEQNYRSSTRILQAAN+VISNNPKLF+K Sbjct: 248 DDDQAIYAWRGATIENLKLLGVDFPNLHLIKLEQNYRSSTRILQAANAVISNNPKLFDKT 307 Query: 241 LWSEHGLGDPVKVMAMDDDEAEADQVAIMLSAHRFERRAKFSDYAILYRGNHQARIFEKA 300 LWSEHGLGDP+ VMAMDD+EAEADQ+AI LSAHRFERRAKF+DYAILYRGNHQARI EK+ Sbjct: 308 LWSEHGLGDPITVMAMDDEEAEADQIAITLSAHRFERRAKFADYAILYRGNHQARILEKS 367 Query: 301 LRRERIPYVMSGGQSYFDRAEIKDIISYLRLIANQDDDPAFIRAVTTPRRGIGQATLEVL 360 LRRERIPYVMSGGQSYFDRAEIKDII+YLRLIANQDDDPAFIRAVTTPRRG+GQATLEVL Sbjct: 368 LRRERIPYVMSGGQSYFDRAEIKDIIAYLRLIANQDDDPAFIRAVTTPRRGVGQATLEVL 427 Query: 361 GTVAGQWQCSLFEAVYKGALEDKLPDKQLLPLRQFCDFINNLESRASRPGPSGSGENAAQ 420 GT+AGQWQCSLFEAVYKG LEDKL D+QLLPLR+FCDFIN LESRA+RPGPSGSGENA + Sbjct: 428 GTLAGQWQCSLFEAVYKGGLEDKLTDRQLLPLRKFCDFINALESRATRPGPSGSGENAGK 487 Query: 421 VLDDMMEAINYEGYCYDAFDERQAQSKWQNVVDFTSWLKERGCGGKDGEGEEKNLLELTQ 480 VLDDMMEAINYE Y YD+F+ER AQ++WQNVVDF +WLKER CGG+DGEGEEKNLLE+TQ Sbjct: 488 VLDDMMEAINYEFYLYDSFEERAAQARWQNVVDFINWLKERACGGRDGEGEEKNLLEITQ 547 Query: 481 MVALMTMLEGKDEEQDAVRMSTLHASKGLEYPHVFLIGVEEGILPHKGDPDAPAETIAAR 540 MVALM+MLEG+DEEQDAVRMSTLHASKGLE+PHVFL+GVEEGILPHKGDPD P E AAR Sbjct: 548 MVALMSMLEGRDEEQDAVRMSTLHASKGLEFPHVFLVGVEEGILPHKGDPDTPPEEAAAR 607 Query: 541 IEEERRLMYVGITRAQRSLQITWCKRRKRAREFTACDPSRFIKEMNLDVGDAVPKEEEKI 600 +EEERRLMYVGITRAQRSL ++WCKRRKRA+E C SRF+KEM LD G+AVP+E EKI Sbjct: 608 VEEERRLMYVGITRAQRSLHLSWCKRRKRAKEVIECQISRFVKEMRLDEGEAVPQESEKI 667 Query: 601 TPQNRLANLKALLQQPRSTPTPS 623 TPQ RLANLKALLQ+PR+TP S Sbjct: 668 TPQARLANLKALLQKPRNTPEQS 690 >gi|300309775|ref|YP_003773867.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 759 Score = 272 bits (695), Expect = 8e-74, Method: Compositional matrix adjust. Identities = 204/611 (33%), Positives = 305/611 (49%), Gaps = 43/611 (7%) Query: 1 MQERIAKLLKEPKQAKHLTVSTFHSLGVKILRQEAKHLGLKDRFSIMDSDDCFS----LV 56 M R++ +L P + + + TFH L ++LR K GL F I+D+ D S L+ Sbjct: 68 MTARLSGML--PINTRGMWIGTFHGLCNRLLRAHHKDAGLPQTFQILDTQDQLSAIKRLL 125 Query: 57 QDLAVTTDKQLIRRIQNAMSLWKN-GLIDPDLALRNAVDEEEAVAARIYRSYVATLSAYQ 115 + + V +K R + ++ K+ GL D+ +A D+ +Y Y Sbjct: 126 KQMNVDDEKYPPRNLMYFINSAKDQGLRAKDV---DAYDDYNRKFVELYELYDQQCQREG 182 Query: 116 AVDFDDLIRLPVELFRGNEEVRDRWQRRLRYLLVDEYQDTNTCQYELVKLMVSGIGKKPM 175 VDF +L+ EL N+ +R+ +Q R R++LVDE+QDTN QY+ +KLM G+ Sbjct: 183 VVDFAELLLRTYELLSRNQPLREHYQSRFRHILVDEFQDTNDLQYKWLKLMA---GQHNA 239 Query: 176 FTAVGDDDQAIYAWRGATIENLKTLQIDFPNLHLIKLEQNYRSSTRILQAANSVISNNPK 235 AVGDDDQ+IYA+RGA + N++ + +F +LIKLEQNYRS IL AN +I+NN K Sbjct: 240 VFAVGDDDQSIYAFRGANVGNMQAFEQEFHVQNLIKLEQNYRSHGHILDTANELIANNSK 299 Query: 236 LFEKALWSEHGLGDPVKVMAMDDDEAEADQVAIMLSAHRFERRAKFSDYAILYRGNHQAR 295 K L ++ G G+ V+V D EA + + E A+ S+ AILYR N Q+R Sbjct: 300 RLGKNLRTDAGHGEQVRVYEATSDLQEAQWIIEQVKDLIAEGWAR-SEIAILYRSNAQSR 358 Query: 296 IFEKALRRERIPYVMSGGQSYFDRAEIKDIISYLRLIANQDDDPAFIRAVTTPRRGIGQA 355 + E AL IPY + GGQ +F+RAEIK I+YL+L+ N +D AF+R V P RGIG Sbjct: 359 VLEHALFSSAIPYRVYGGQRFFERAEIKHAIAYLQLMDNLHNDSAFLRVVNFPTRGIGAK 418 Query: 356 TLEVLGTVAGQWQCSLFEAV-------------YKGALEDKLPDKQLLPLRQFCDFINNL 402 +E L A Q+ CSL+ AV + +E + Q LPL + + +L Sbjct: 419 AMESLQDAARQYGCSLYAAVPYVAGKAGSSLNAFVKLIEGARFETQHLPLPEMVKVVLDL 478 Query: 403 ESRASRPGPSGSGENAAQVLDDMMEA----INYEGYCYDAFDERQAQSKWQNVVDFTSWL 458 + G + + L+ ++ A ++ EGY DA + Sbjct: 479 SGLMTHYRNEKEGADRIENLEQLVSAATLFVSEEGYGLDA---PAFLGPQAQATAGAAIT 535 Query: 459 KERGCGGKDGEGEEKNLLELTQMVALMTMLEGKDEE----QDAVRMSTLHASKGLEYPHV 514 G D + ++ LE D + QDA+++ T+H++KGLE+ V Sbjct: 536 TADGVEVLDADAPLVTIMSPLSAFLSHASLEAGDNQAQAGQDALQLMTVHSAKGLEFDAV 595 Query: 515 FLIGVEEGILPHKGDPDAPAETIAARIEEERRLMYVGITRAQRSLQITWCKRRKRAREFT 574 F+ G+EEG+ PH+ EEERRLMYV ITRA++ L +T+ + R + Sbjct: 596 FITGMEEGLFPHENSAKEEGGV-----EEERRLMYVAITRARKRLFMTFSQTRMLHGQTR 650 Query: 575 ACDPSRFIKEM 585 SRF EM Sbjct: 651 YNMRSRFFDEM 661 >gi|300312090|ref|YP_003776182.1| ATP-dependent DNA helicase [Herbaspirillum seropedicae SmR1] Length = 707 Score = 180 bits (457), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 167/567 (29%), Positives = 274/567 (48%), Gaps = 67/567 (11%) Query: 22 TFHSLGVKILRQEAKHLGLKDRFSIMD---SDDCFSLV-QDLAVTTDKQLIRRIQNAMSL 77 TFH++G ++LR+ AK +GL++ F+I D S+D L+ D+ ++ ++ +++ Sbjct: 120 TFHAIGARLLREYAKVIGLEEDFTIQDRGDSEDLMGLLRHDMGLSATEKRFPLKATCLAI 179 Query: 78 WK---NGLIDPDLALRNAVD---EEEAVAARIYRSYVATLSAYQAVDFDDLIRLPVELFR 131 + N D L+ E E ++ YV +D+DDL+ ++ Sbjct: 180 YSRAVNTRQDLGEVLQQHFPWCCEWERPLGELFGRYVDAKEEQHVLDYDDLLLFWADML- 238 Query: 132 GNEEVRDRWQRRLRYLLVDEYQDTNTCQYELVKLM-VSGIGKKPMFTAVGDDDQAIYAWR 190 G+ ++ +R ++LVDEYQDTN Q E+++ M G G TAVGDD QAIY++R Sbjct: 239 GDAQIAQSVGQRFDHVLVDEYQDTNRLQAEILQRMKPDGAG----VTAVGDDAQAIYSFR 294 Query: 191 GATIENLKTLQIDFPNL-----HLIKLEQNYRSSTRILQAANSVISNNPKLFEKALWSEH 245 GAT+ N+ +DFP L L+ LEQNYRS+ IL A+N+VI++ P+ K LWS+ Sbjct: 295 GATVRNI----LDFPGLFTQPVRLLTLEQNYRSTQPILHASNAVIADAPERHVKHLWSDK 350 Query: 246 GLGDPVKVMAMDDDEAEADQVAIMLSAHRFERRAKFSDYAILYRGNHQARIFEKALRRER 305 +++ + D+ +A VA + AHR E A+L+R + E L R Sbjct: 351 PSSQKPQLVVIPDEAEQARWVANRILAHR-EEGLTLKSQAVLFRTATHSAALELELARRN 409 Query: 306 IPYVMSGGQSYFDRAEIKDIISYLRLIANQDDDPAFIRAVT-TPRRGIGQATLEVLGTVA 364 IP+V GG + + IKD+++ LRL N A +RA+ P G+G AT + + Sbjct: 410 IPFVKFGGLKFLESGHIKDLLALLRLAHNPSGRMAGLRALQLIP--GVGPATARKVLDLM 467 Query: 365 GQWQCSLFEAVYKGALEDKLPDKQLLPLRQFCDFINNLESRASRPGPSGSGENAAQVLDD 424 + GA P L + F D L RAS P+ D Sbjct: 468 AAAADPADALLNFGA-----PANIALQWQAFAD-TYALMRRASASWPT-----------D 510 Query: 425 MMEAIN-YEGYCYDAFDERQAQSKWQNVVDFTSWLKERGCGGKDGEGEEKNLLELT---- 479 ++ A + Y + +D+ QA++ + +++ EK L ELT Sbjct: 511 ILAARDWYLPQLQERYDDAQARA---------ADIEQLAVLANGYASREKFLTELTLDPP 561 Query: 480 QMVALMTMLEGKDEEQDAVRMSTLHASKGLEYPHVFLIGVEEGILPHKGDPDAPAETIAA 539 + + + +DE D + +ST+H++KG E+ V ++ V +G +P + AE Sbjct: 562 EASSDFSGPPLRDE--DYLTLSTIHSAKGQEWRSVHILNVVDGCIPSDLATGSEAE---- 615 Query: 540 RIEEERRLMYVGITRAQRSLQITWCKR 566 I EERRL+YV +TRA++ L + +R Sbjct: 616 -IAEERRLLYVAMTRARQYLHLVVPQR 641 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 0.135 0.392 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: 1,651,293 Number of extensions: 59782 Number of successful extensions: 189 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 3 Length of query: 625 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 534 Effective length of database: 1,188,985 Effective search space: 634917990 Effective search space used: 634917990 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 (21.7 bits) S2: 133 (55.8 bits)