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= 0001.1101.p (716 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312702|ref|YP_003776794.1| VGR-related protein [Herbaspiri... 495 e-141 gi|300310274|ref|YP_003774366.1| VGR-related protein [Herbaspiri... 246 3e-66 gi|300313606|ref|YP_003777698.1| VGR-related type VI secretion s... 240 3e-64 gi|300310071|ref|YP_003774163.1| VGR-related protein [Herbaspiri... 199 5e-52 gi|300310083|ref|YP_003774175.1| VGR-related type VI secretion s... 171 2e-43 >gi|300312702|ref|YP_003776794.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 824 Score = 495 bits (1275), Expect = e-141, Method: Compositional matrix adjust. Identities = 240/489 (49%), Positives = 326/489 (66%), Gaps = 6/489 (1%) Query: 15 MNAQRQNNRLLRLSFPRDDAPADALMVANRLSAYEGMSRDFQFTVEVLSDNPDIALKDVM 74 + QRQ+NR+L+L F DDAP DA ++ NRL A E +SRD+ +T+E+LSD+ I L +M Sbjct: 11 LTRQRQHNRILQLFFINDDAP-DAELLINRLEASEALSRDYVYTLELLSDDAHIPLDAMM 69 Query: 75 AKMVTLELLRADGSVRYFNGYVFDFRFVRQDGGFSYYDLVALPWLAFLRYRHDNYLFHGK 134 K++ + L RADG+ R+F GYV F F+R DGG ++Y+ +PWLAFL RH+N +FH Sbjct: 70 GKLLRVALTRADGTQRHFTGYVERFAFLRSDGGIAFYEARLVPWLAFLASRHNNRIFHHL 129 Query: 135 TVQQQTTEIFNDYDMR-DWQCKGLQGDAPMTDACQFDESDYNYLHRRWEALGWHYWYEHR 193 +++ + IF Y M W C+ GD T+ QFDESD N LHRRWE GWHY YEH+ Sbjct: 130 SLEGLSAAIFRAYPMHARWDCQLRHGDPVRTEMFQFDESDSNLLHRRWEDAGWHYHYEHQ 189 Query: 194 KDGHTLMLCGDSTQAEPIDGSGQMLWQGRSG-VKDSGLHSFSSVRTVAATAYAASSFDFK 252 DGH L L DST A+PIDG+GQ+ +Q G +++ G+ +S+VR ++ SS+DFK Sbjct: 190 ADGHQLRLSDDSTYAKPIDGTGQVPFQRHGGAIEEDGMAQWSAVRQFQPSSTRLSSYDFK 249 Query: 253 SPRPIRADAPTINKQGVVPKLEVYEYAGAYGYKNSADGRDFVRMRIEEIEAASKHFKAKG 312 + RP + PT+NKQG V ++E YEYAGAYG+ N DG R+R+EE EAA++ F+ G Sbjct: 250 AARPQEVEVPTLNKQGAVLQVEHYEYAGAYGFANRDDGDRQSRLRMEEFEAAAQVFEGTG 309 Query: 313 DDDHSQCGRSFVLSGHLDARSAGNE---DSQFLILEARHEVSNNYETRQGSTAAYDVELT 369 + Q GR+F L+GH +A ++ D + LI+ H +NNY + Y + Sbjct: 310 NCRFLQPGRTFRLTGHFSGSAASHDHDRDPELLIISVEHSATNNYLQDSETPPFYANRVR 369 Query: 370 CLRKKIPWRPGRGFNSTEPKIYGVQTAIVVGPAGEEIYTDEYGRVKVQFHWDREGEYNEK 429 C+RK+IPWRPGR + S + G+QTA VVGPAGE ++ DEYGRVKVQFHWD+ G +E+ Sbjct: 370 CVRKRIPWRPGRSYYSQPTALLGIQTATVVGPAGENLHVDEYGRVKVQFHWDQIGRNDER 429 Query: 430 SSAWVRVASTWAGSNFGFMAVPRIGQEVIVQWLDGNVDRPLITGRVFNQSNMPPWPLPDN 489 SSAW+RVAS+W+G G ++VPRIGQ VIVQWL G+ DRP+ITG V NQ NMPPW LP Sbjct: 430 SSAWLRVASSWSGGEQGLVSVPRIGQLVIVQWLGGHPDRPIITGSVVNQLNMPPWTLPSQ 489 Query: 490 KTQTGILSR 498 +G+ SR Sbjct: 490 SALSGMRSR 498 >gi|300310274|ref|YP_003774366.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 928 Score = 246 bits (629), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 168/549 (30%), Positives = 278/549 (50%), Gaps = 57/549 (10%) Query: 20 QNNRLLRLSFPRDDAPADALMVANRLSAYEGMSRDFQFTVEVLSDNPDIALKDVMAKMVT 79 Q R+L+L D +++ R+ E + R + +T++++S DI LK ++A+ VT Sbjct: 30 QEKRILKL----DSVLGPDVLLPQRMVGSERLGRGYDYTIDLVSTRDDIELKKLIAQPVT 85 Query: 80 LELLRADGSVRYFNGYVFDFRFVRQDGGFSYYDLVALPWLAFLRYRHDNYLFHGKTVQQQ 139 L L + +GYV R + DG + + + PWL FL+YR D ++ Sbjct: 86 LWLQQDGSDYAPLHGYVHTARRLGSDGQLASFQIGMAPWLHFLKYRKDARIWQDSKADDI 145 Query: 140 TTEIFND--YDMRDWQCKGLQGDAPMTDACQFDESDYNYLHRRWEALGWHYWYEHRKD-- 195 ++F+ Y +++ + + P + Q+ E+D++++ R E GW+ ++E + D Sbjct: 146 LADVFDQHAYARGNYRFEIVTPALPRSYCTQY-ETDWHFVQRLMEEEGWYAYHEQKPDGS 204 Query: 196 GHTLMLCGDSTQAEPIDGSGQMLWQGRSGVKDSG---LHSFSSVRTVAATAYAASSFDFK 252 GH L++ ++ QA+P+ Q+ + G +G +D LH +S+ R +A+T A + D+K Sbjct: 205 GHVLVITDNTDQAKPL-APEQLAFHG-AGTQDEVNRILH-WSASRGLASTRLATRTDDYK 261 Query: 253 SPRPIR-ADAPTINKQGVVP-KLEVYEYAGAYGYKNSADGRDFVRMRIEEIEAASKHFKA 310 SP + + + G +P +LEVYEY+G Y Y DG R+R+E+ E++ K F Sbjct: 262 SPGDQKQTQERVLPEHGALPGELEVYEYSGPYSYAKQDDGDRQARLRVEQWESSMKRFMG 321 Query: 311 KGDDDHSQCGRSFVLSGHLDARSAGNEDSQFLILEARHEVSNNYETRQGSTAAYDVELT- 369 GR F L+ H R +DSQF+++ + NN G+ + L Sbjct: 322 VSGARTLAAGRWFTLTDHPAHRGDSKQDSQFMLIAVEWFIENNLPL-SGTARDFPGSLKP 380 Query: 370 ------------------------CL------RKKIPWRPGRGFNSTEPKIYGVQTAIVV 399 C R+K+P+R F+ T+P ++ QTA+VV Sbjct: 381 QLDAFKASMGRSNDDAGGNARTGHCFNRFEVQRRKLPYR--SPFDHTKPVMH-PQTAVVV 437 Query: 400 GPAGEEIYTDEYGRVKVQFHWDREGEYNEKSSAWVRVASTWAGSNFGFMAVPRIGQEVIV 459 GP GEE++TD+ RVKVQF WDR +EK+S WVRV+ AG N+G + VPR+GQE+I+ Sbjct: 438 GPQGEEVFTDKLNRVKVQFRWDRINPGDEKASCWVRVSYPNAGENWGEVKVPRVGQELII 497 Query: 460 QWLDGNVDRPLITGRVFNQSNMPPWPLPDNKTQTGILSRSSHDGGYDNANALRFEDKKGQ 519 +L+G+ DRP+ TGR+FNQ P W T + S + G + N L +D Q Sbjct: 498 SFLNGDPDRPVATGRLFNQEQPPQW-----HTDGRLSGLKSKEFGGNGFNQLVMDDTTSQ 552 Query: 520 EEVWLHAEK 528 V L++ + Sbjct: 553 NRVHLYSSQ 561 >gi|300313606|ref|YP_003777698.1| VGR-related type VI secretion system protein [Herbaspirillum seropedicae SmR1] Length = 886 Score = 240 bits (612), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 174/549 (31%), Positives = 276/549 (50%), Gaps = 60/549 (10%) Query: 20 QNNRLLRLSFPRDDAPADALMVANRLSAYEGMSRDFQFTVEVLSDNPDIALKDVMAKMVT 79 Q+ RLL+L D + +++ RL A E ++ ++ T+++L+ + IAL+ ++A+ VT Sbjct: 18 QHRRLLQL----DSSLGPDILLPQRLVATERLNDGYEVTIDLLATHTGIALEQLIAQPVT 73 Query: 80 LELLRADGSVRYFNGYVFDFRFVRQDGGFSYYDLVALPWLAFLRYRHDNYLFHGKTVQQQ 139 L + + DG +GYV + + DG + L PWL FLR+R D ++ K + Sbjct: 74 LWIRQHDGDTLPLHGYVHTAKRLGSDGELDFCQLSLSPWLHFLRFRKDARIWQDKRTEDI 133 Query: 140 TTEIFNDYDMRDWQCKG---LQGDAPMTDA--CQFDESDYNYLHRRWEALGWHYWYEHRK 194 ++FN++ Q +G Q + P T C E+D++++ R E GW +E R+ Sbjct: 134 LADVFNNHP----QARGHYRFQLERPYTPRPYCTQYETDWHFVQRLMEEEGWFAHHEQRE 189 Query: 195 D--GHTLMLCGDSTQAEPIDGSGQMLWQGRSGVK--DSGLHSFSSVRTVAATAYAASSFD 250 D GH L++ D+T P + + G + D LH +S+ RT+++ + S D Sbjct: 190 DGSGHVLVIT-DNTWNLPGLPQQGIAFHGAAPRDELDKILH-WSASRTLSSKGWRGRSDD 247 Query: 251 FKSP-RPIRADAPTINKQGVVP-KLEVYEYAGAYGYKNSADGRDFVRMRIEEIEAASKHF 308 +KSP A+ + + G +P +LE+YEY GAY ++ G +++E+ E++ + + Sbjct: 248 YKSPGMKKEAEEQVMPEYGQLPAQLEMYEYTGAYSFRLQEQGNRQADLQVEQWESSMQRY 307 Query: 309 KAKGDDDHSQCGRSFVLSGHLDARSAGNEDSQFLILEARHEVSNNYET------------ 356 A + CGR F L H R+ + + QF+IL V NN Sbjct: 308 SAVSGVRNLACGRWFRLEEHPQHRAEPDRERQFVILAIDWFVENNLPLSHQALDFPGSLK 367 Query: 357 -----------RQGSTAAYDVELT--CL------RKKIPWRPGRGFNSTEPKIYGVQTAI 397 R+ A D E T C R+K+P+RP R + QTAI Sbjct: 368 GALMAFKESIRRERQVAETDNEHTGHCFNRFEVQRRKLPFRPARAHAR---PVMLPQTAI 424 Query: 398 VVGPAGEEIYTDEYGRVKVQFHWDREGEYNEKSSAWVRVASTWAGSNFGFMAVPRIGQEV 457 VVGPA EE+YTD R+KVQF WDR NE +S WVRV+ AG +G + VPRIGQEV Sbjct: 425 VVGPASEEVYTDHLDRIKVQFRWDRINPGNEAASCWVRVSYPNAGQYWGAIQVPRIGQEV 484 Query: 458 IVQWLDGNVDRPLITGRVFNQSNMPPWPLPDNKTQTGILSRSSHDGGYDNANALRFEDKK 517 IV +L+G+ DRP++TGR+FN P W N +G+ S+ G+ N + +D Sbjct: 485 IVSFLNGDPDRPVVTGRLFNAEQRPQW--HTNGRLSGVKSKEFGGTGF---NQMVMDDTP 539 Query: 518 GQEEVWLHA 526 Q + L++ Sbjct: 540 EQNRIHLYS 548 >gi|300310071|ref|YP_003774163.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 954 Score = 199 bits (507), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 143/525 (27%), Positives = 240/525 (45%), Gaps = 64/525 (12%) Query: 20 QNNRLLRLSFPRDDAPADALMVANRLSAYEGMSRDFQFTVEVLSDNPDIALKDVMAKMVT 79 QN RL+ ++ + + L V R E ++ +F+F ++ LS + D+ LK + ++ Sbjct: 23 QNARLITMTTAQSAGLPETLAV-ERFEGEESVNDNFRFDIDALSISTDLDLKQFIGAEIS 81 Query: 80 LELLRADGSVRYFNGYVFDFRFVRQDGGFSYYDLVALPWLAFLRYRHDNYLFHGKTVQQQ 139 L LL+ADG R ++GY ++ DGG + Y L +LAFL RHD++LF TV Sbjct: 82 LRLLQADGGTRAWHGYCTQASWLGADGGLARYRLRLESFLAFLDRRHDSFLFQDMTVTDI 141 Query: 140 TTEIFNDYDMRDWQCKGLQGDAPMTDACQFDESDYNYLHRRWEALGWHYWYEHRKDG--- 196 + +Y ++ + Q A Q+ E+DY +L R + G ++ +EH +D Sbjct: 142 AAAVLKEYPQANFSLEVTQTLAKRDICTQYRETDYAFLRRILASEGLNFRFEHEQDDATQ 201 Query: 197 ----------HTLMLCGDSTQAEPIDGSGQMLWQGRSGVKDS--GLHSFSSVRTVAATAY 244 H L++ + +A + G + + R ++ + F++VR+V Sbjct: 202 QHDQSQPHARHKLVIFDRNAKAPALPGGDEYIRFHRVAAMEASDAITDFAAVRSVRPNGV 261 Query: 245 AASSF-DFKSPRPIRADAPTINKQGVVPKLEVYEYAGAYGYKNSADGRDFVRMRIEEIEA 303 A +S+ K P + T++ G +P L VY+ G + + ++ ++ +E Sbjct: 262 ALASWHPEKLSSPSHEEGSTLDA-GELPSLPVYDGTGQQDFADQDAAAAHAQLMLQALEM 320 Query: 304 ASKHFKAKGDDDHSQCGRSFVLSGHLDARSAGNEDSQFLILEARHEVSNNYE---TR--- 357 +K F+ G G F L H R E++ F ++ RH NN TR Sbjct: 321 QNKRFEGAGAARQLAAGARFTLLQH--ERYPEGENA-FKVVSVRHAARNNVSANITRILA 377 Query: 358 -------QGSTAA----------YDVELTCLRKKIPWRPGRGFNSTEPKIYGVQTAIVVG 400 GS AA Y T +R +P P +P G QTA+V G Sbjct: 378 PAAGALFGGSAAAERDDDLQAGTYRNSFTAIRDSVPMVPAAIAERLKPTARGTQTALVTG 437 Query: 401 PAGEEIYTDEYGRVKVQFHW------------------DREGEY--NEKSSAWVRVASTW 440 A + TD RVKVQFHW D++G N+ S W+RVA Sbjct: 438 AADAAVTTDRNHRVKVQFHWQRGKSPNPGGLRETGNLDDKDGNANGNDSSGTWIRVAEAQ 497 Query: 441 AGSNFGFMAVPRIGQEVIVQWLDGNVDRPLITGRVFNQSNMPPWP 485 +G N+G +PR+G EV+V +++G++DRP++ +++N S+ PP+P Sbjct: 498 SGPNWGSQFIPRVGSEVLVDFIEGDIDRPVVVAQLYNGSDAPPFP 542 >gi|300310083|ref|YP_003774175.1| VGR-related type VI secretion system protein [Herbaspirillum seropedicae SmR1] Length = 944 Score = 171 bits (433), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 167/641 (26%), Positives = 266/641 (41%), Gaps = 136/641 (21%) Query: 11 LRTLMNAQRQNNRLLRLSFPRDDAPADALMVANRLSAYE--GMSRD----------FQFT 58 L L A Q+ R++RL P D ++A RL A E G D ++ Sbjct: 6 LPALFGAWSQSARVMRLHTPLDQDYGPHALMAERLQAVEQVGPGEDSSAIDQAIAGYRLQ 65 Query: 59 VEVLSDNPDIALKDVMAKMVTLELLRADGSVRYFNGYVFDFRFVRQDGGFSYYDLVALPW 118 + LS N DI+L+ ++ + V LEL DG R F+G+V R +GG + Y L PW Sbjct: 66 LSCLSLNADISLRKLLGQPVLLEL-DTDGGARAFHGHVTACRMEGANGGMARYLLTIEPW 124 Query: 119 LAFLRYRHDNYLFHGKTVQQQTTEIFNDY------------DMRDWQCKGLQGDAPMTDA 166 L+FLR+R D+ +F + +F DY D++D A + A Sbjct: 125 LSFLRHRRDSAVFQDMSAPAIIEAVFADYRGQGRLQPAWRLDLQDASAY-----AKRSLA 179 Query: 167 CQFDESDYNYLHRRWEALGWHYWYEHRKD-------GHTLMLCGDSTQAEPIDGSGQMLW 219 Q+ E+D ++ R G Y+ EH+ D HT+++ + +P S Sbjct: 180 TQYQETDLAFVTRLMVEEGLFYYIEHQGDSNSASLGSHTVVIADHNGSFKPNARSTVAFA 239 Query: 220 QGRSGVKDSGLHSFSSVRTVAATAYAASSFDFKSPRPIRADAPTINKQGVVPKLEVY--E 277 Q + + + + SVR A ++D++ +RA + + + KL + + Sbjct: 240 QTNAVMAQDNIDRWRSVRRWQTNAVEILTWDYRQ-TAVRAASTASSGENAHDKLVLTSRD 298 Query: 278 YAGAYGYKNSADGRDFVRMRIEEIEAASKHFKAKGDDDHSQCGRSFVLSGHLDARSAGNE 337 G Y ++ + +++ IE +K F G G +F L+ G + Sbjct: 299 APGQYINESPEQAQRQALNQMQAIEVRNKVFTGAGTVRSFLPGTTFTLT--GHYDHDGGD 356 Query: 338 DSQFLILEARHEVSNNY--ETRQGSTA------------------------------AYD 365 D QF++L H+ NN + + G TA Y Sbjct: 357 DDQFVLLRVVHQAHNNLSADLKAGVTALLGQAQLDDHDHKGSLLDTALRSADTQARPVYR 416 Query: 366 VELTCLRKKIPWRP----GRGFN-STEPKIYGVQTAIVVGPAGEEIYTDEYGRVKVQFHW 420 +R KIP+RP +G +P+ +G Q+A+VVG G+ ++TD R++VQFHW Sbjct: 417 NRFEAIRNKIPYRPLLVDAQGERLYPKPQAHGQQSAVVVGAQGQAVHTDRDNRIRVQFHW 476 Query: 421 DREGE------------------YNEKSSAWVRVASTW---AGSNFGFMAVPRIGQEVIV 459 R GE NE++ WVRV + AG+N+G AVPR+GQEV++ Sbjct: 477 QR-GERSHSGLSSPTPDDHVGAPANEQAGTWVRVLAGLAPTAGANWGGQAVPRVGQEVLI 535 Query: 460 QWLDGNVDRPLITGRVFN-------------------QSNMPPW------------PLPD 488 +++G++DRP++ G ++N N P W L Sbjct: 536 DFIEGDIDRPVVIGTLYNGRGVDNAQGNQAGQGAGSATGNAPAWFPGSSGAHNHAAVLSG 595 Query: 489 NKTQTGILSRSSHDGGYDNANALRFEDKKGQEEVWLHAEKD 529 KTQ + + S GGY N L F+D GQ L D Sbjct: 596 IKTQA-LSASQSGGGGY---NQLVFDDSPGQARAALQQHAD 632 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 0.316 0.133 0.398 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: 2,216,047 Number of extensions: 93902 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 13 Length of query: 716 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 624 Effective length of database: 1,184,250 Effective search space: 738972000 Effective search space used: 738972000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 134 (56.2 bits)