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= 0003.0024.p (608 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... 493 e-140 gi|300310274|ref|YP_003774366.1| VGR-related protein [Herbaspiri... 224 2e-59 gi|300313606|ref|YP_003777698.1| VGR-related type VI secretion s... 214 1e-56 gi|300310071|ref|YP_003774163.1| VGR-related protein [Herbaspiri... 197 2e-51 gi|300310098|ref|YP_003774190.1| VGR-related protein [Herbaspiri... 187 2e-48 >gi|300312702|ref|YP_003776794.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 824 Score = 493 bits (1269), Expect = e-140, Method: Compositional matrix adjust. Identities = 248/487 (50%), Positives = 320/487 (65%), Gaps = 14/487 (2%) Query: 27 QHRRFMRLRFPHGDGPDAPLLLQRLDAEESLSRDFSFVVELLTDDAHLPLKSMMGKLLVI 86 QH R ++L F + D PDA LL+ RL+A E+LSRD+ + +ELL+DDAH+PL +MMGKLL + Sbjct: 16 QHNRILQLFFINDDAPDAELLINRLEASEALSRDYVYTLELLSDDAHIPLDAMMGKLLRV 75 Query: 87 ELVREDGHLRYFSGYVFAFSRQRADGAVVVYEAQLGPWFRLLSWRRDHHLFHDKTLHQQT 146 L R DG R+F+GYV F+ R+DG + YEA+L PW L+ R ++ +FH +L + Sbjct: 76 ALTRADGTQRHFTGYVERFAFLRSDGGIAFYEARLVPWLAFLASRHNNRIFHHLSLEGLS 135 Query: 147 ADIFADYPLHARWQWQVSSGDATMTDAFQYGESDHNYLSRRWEAAGWHYWYEHDASGHTL 206 A IF YP+HARW Q+ GD T+ FQ+ ESD N L RRWE AGWHY YEH A GH L Sbjct: 136 AAIFRAYPMHARWDCQLRHGDPVRTEMFQFDESDSNLLHRRWEDAGWHYHYEHQADGHQL 195 Query: 207 IVGSDSCQQAAIDGEQSVRFHANGGSAEDDAIDRWSPQREMAASSVVLGSFDFKSPTPRW 266 + DS IDG V F +GG+ E+D + +WS R+ SS L S+DFK+ P+ Sbjct: 196 RLSDDSTYAKPIDGTGQVPFQRHGGAIEEDGMAQWSAVRQFQPSSTRLSSYDFKAARPQE 255 Query: 267 MEVPTLNRQGVAPSIEHYLYTGHHGYRDRDDGDAQSRLRIEEIEARARQVEGQGNCRAMM 326 +EVPTLN+QG +EHY Y G +G+ +RDDGD QSRLR+EE EA A+ EG GNCR + Sbjct: 256 VEVPTLNKQGAVLQVEHYEYAGAYGFANRDDGDRQSRLRMEEFEAAAQVFEGTGNCRFLQ 315 Query: 327 PGRWFRLVGHVECPRFGGPSSQGRD---EFLILSVRHRIHNNYFPLAAQDAEPP--YRNE 381 PGR FRL GH G +S D E LI+SV H NNY QD+E P Y N Sbjct: 316 PGRTFRLTGHFS----GSAASHDHDRDPELLIISVEHSATNNYL----QDSETPPFYANR 367 Query: 382 FRCMRRQIPWRPGPGYNSHVPIARGAQTATVVGVPGQPALWTDEYARVRVQFHWDREGRH 441 RC+R++IPWRPG Y S G QTATVVG P L DEY RV+VQFHWD+ GR+ Sbjct: 368 VRCVRKRIPWRPGRSYYSQPTALLGIQTATVVG-PAGENLHVDEYGRVKVQFHWDQIGRN 426 Query: 442 DIGSSAWIRVASPWAGAQLGALALPRVGAEVLVQWLDGNPDRPVIVGSLYNADHLPPWAL 501 D SSAW+RVAS W+G + G +++PR+G V+VQWL G+PDRP+I GS+ N ++PPW L Sbjct: 427 DERSSAWLRVASSWSGGEQGLVSVPRIGQLVIVQWLGGHPDRPIITGSVVNQLNMPPWTL 486 Query: 502 PAQRALT 508 P+Q AL+ Sbjct: 487 PSQSALS 493 >gi|300310274|ref|YP_003774366.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 928 Score = 224 bits (571), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 158/530 (29%), Positives = 263/530 (49%), Gaps = 49/530 (9%) Query: 4 PPTSIRASIPTTAEAFRQWVAEPQHRRFMRLRFPHGDGPDAPLLLQRLDAEESLSRDFSF 63 PP+S ++ TT A Q +R ++L G PD LL QR+ E L R + + Sbjct: 8 PPSSAMDNVLTTLSALADTFV-GQEKRILKLDSVLG--PDV-LLPQRMVGSERLGRGYDY 63 Query: 64 VVELLTDDAHLPLKSMMGKLLVIELVREDGHLRYFSGYVFAFSRQRADGAVVVYEAQLGP 123 ++L++ + LK ++ + + + L ++ GYV R +DG + ++ + P Sbjct: 64 TIDLVSTRDDIELKKLIAQPVTLWLQQDGSDYAPLHGYVHTARRLGSDGQLASFQIGMAP 123 Query: 124 WFRLLSWRRDHHLFHDKTLHQQTADIFADYPLHAR--WQWQVSSGDATMTDAFQYGESDH 181 W L +R+D ++ D AD+F D +AR +++++ + + QY E+D Sbjct: 124 WLHFLKYRKDARIWQDSKADDILADVF-DQHAYARGNYRFEIVTPALPRSYCTQY-ETDW 181 Query: 182 NYLSRRWEAAGWHYWYEH--DASGHTLIVGSDSCQQAAIDGEQSVRFHANGGSAEDDAID 239 +++ R E GW+ ++E D SGH L++ +D+ QA + + FH G E + I Sbjct: 182 HFVQRLMEEEGWYAYHEQKPDGSGHVLVI-TDNTDQAKPLAPEQLAFHGAGTQDEVNRIL 240 Query: 240 RWSPQREMAASSVVLGSFDFKSP-TPRWMEVPTLNRQGVAP-SIEHYLYTGHHGYRDRDD 297 WS R +A++ + + D+KSP + + L G P +E Y Y+G + Y +DD Sbjct: 241 HWSASRGLASTRLATRTDDYKSPGDQKQTQERVLPEHGALPGELEVYEYSGPYSYAKQDD 300 Query: 298 GDAQSRLRIEEIEARARQVEGQGNCRAMMPGRWFRLVGHVECPRFGGPSSQGRDEFLILS 357 GD Q+RLR+E+ E+ ++ G R + GRWF L H P G S Q +F++++ Sbjct: 301 GDRQARLRVEQWESSMKRFMGVSGARTLAAGRWFTLTDH---PAHRGDSKQ-DSQFMLIA 356 Query: 358 VRHRIHNNY--------FPLAAQDAEPPYR--------------------NEFRCMRRQI 389 V I NN FP + + ++ N F RR++ Sbjct: 357 VEWFIENNLPLSGTARDFPGSLKPQLDAFKASMGRSNDDAGGNARTGHCFNRFEVQRRKL 416 Query: 390 PWRPGPGYNSHVPIARGAQTATVVGVPGQPALWTDEYARVRVQFHWDREGRHDIGSSAWI 449 P+R ++ P+ QTA VVG G+ ++TD+ RV+VQF WDR D +S W+ Sbjct: 417 PYR--SPFDHTKPVMH-PQTAVVVGPQGEE-VFTDKLNRVKVQFRWDRINPGDEKASCWV 472 Query: 450 RVASPWAGAQLGALALPRVGAEVLVQWLDGNPDRPVIVGSLYNADHLPPW 499 RV+ P AG G + +PRVG E+++ +L+G+PDRPV G L+N + P W Sbjct: 473 RVSYPNAGENWGEVKVPRVGQELIISFLNGDPDRPVATGRLFNQEQPPQW 522 >gi|300313606|ref|YP_003777698.1| VGR-related type VI secretion system protein [Herbaspirillum seropedicae SmR1] Length = 886 Score = 214 bits (546), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 154/521 (29%), Positives = 253/521 (48%), Gaps = 47/521 (9%) Query: 13 PTTAEAFRQWVAEPQHRRFMRLRFPHGDGPDAPLLLQRLDAEESLSRDFSFVVELLTDDA 72 P+ ++ R QHRR ++L GPD LL QRL A E L+ + ++LL Sbjct: 4 PSPNDSRRSQARITQHRRLLQL--DSSLGPDI-LLPQRLVATERLNDGYEVTIDLLATHT 60 Query: 73 HLPLKSMMGKLLVIELVREDGHLRYFSGYVFAFSRQRADGAVVVYEAQLGPWFRLLSWRR 132 + L+ ++ + + + + + DG GYV R +DG + + L PW L +R+ Sbjct: 61 GIALEQLIAQPVTLWIRQHDGDTLPLHGYVHTAKRLGSDGELDFCQLSLSPWLHFLRFRK 120 Query: 133 DHHLFHDKTLHQQTADIFADYP-LHARWQWQVSSGDATMTDAFQYGESDHNYLSRRWEAA 191 D ++ DK AD+F ++P +++Q+ QY E+D +++ R E Sbjct: 121 DARIWQDKRTEDILADVFNNHPQARGHYRFQLERPYTPRPYCTQY-ETDWHFVQRLMEEE 179 Query: 192 GW--HYWYEHDASGHTLIVGSDSCQQAAIDGEQSVRFHANGGSAEDDAIDRWSPQREMAA 249 GW H+ D SGH L++ ++ + +Q + FH E D I WS R +++ Sbjct: 180 GWFAHHEQREDGSGHVLVITDNTWNLPGLP-QQGIAFHGAAPRDELDKILHWSASRTLSS 238 Query: 250 SSVVLGSFDFKSP-TPRWMEVPTLNRQGVAPS-IEHYLYTGHHGYRDRDDGDAQSRLRIE 307 S D+KSP + E + G P+ +E Y YTG + +R ++ G+ Q+ L++E Sbjct: 239 KGWRGRSDDYKSPGMKKEAEEQVMPEYGQLPAQLEMYEYTGAYSFRLQEQGNRQADLQVE 298 Query: 308 EIEARARQVEGQGNCRAMMPGRWFRLVGHVECPRFGGPSSQGRDEFLILSVRHRIHNNY- 366 + E+ ++ R + GRWFRL H P+ + R +F+IL++ + NN Sbjct: 299 QWESSMQRYSAVSGVRNLACGRWFRLEEH---PQHRAEPDRER-QFVILAIDWFVENNLP 354 Query: 367 -------FPLAAQDAEPPYR---------------------NEFRCMRRQIPWRPGPGYN 398 FP + + A ++ N F RR++P+RP + Sbjct: 355 LSHQALDFPGSLKGALMAFKESIRRERQVAETDNEHTGHCFNRFEVQRRKLPFRPARAHA 414 Query: 399 SHVPIARGAQTATVVGVPGQPALWTDEYARVRVQFHWDREGRHDIGSSAWIRVASPWAGA 458 V + QTA VVG P ++TD R++VQF WDR + +S W+RV+ P AG Sbjct: 415 RPVML---PQTAIVVG-PASEEVYTDHLDRIKVQFRWDRINPGNEAASCWVRVSYPNAGQ 470 Query: 459 QLGALALPRVGAEVLVQWLDGNPDRPVIVGSLYNADHLPPW 499 GA+ +PR+G EV+V +L+G+PDRPV+ G L+NA+ P W Sbjct: 471 YWGAIQVPRIGQEVIVSFLNGDPDRPVVTGRLFNAEQRPQW 511 >gi|300310071|ref|YP_003774163.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 954 Score = 197 bits (500), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 159/556 (28%), Positives = 251/556 (45%), Gaps = 72/556 (12%) Query: 1 MDAP-PTSIRASIPTTAEAFRQWVAEPQHRRFMRLRFPHGDGPDAPLLLQRLDAEESLSR 59 M+ P P S+ A++ E F ++ Q+ R + + G L ++R + EES++ Sbjct: 1 MNLPLPDSLTAAV---TELFGTGLS--QNARLITMTTAQSAGLPETLAVERFEGEESVND 55 Query: 60 DFSFVVELLTDDAHLPLKSMMGKLLVIELVREDGHLRYFSGYVFAFSRQRADGAVVVYEA 119 +F F ++ L+ L LK +G + + L++ DG R + GY S ADG + Y Sbjct: 56 NFRFDIDALSISTDLDLKQFIGAEISLRLLQADGGTRAWHGYCTQASWLGADGGLARYRL 115 Query: 120 QLGPWFRLLSWRRDHHLFHDKTLHQQTADIFADYPLHARWQWQVSSGDATMTDAFQYGES 179 +L + L R D LF D T+ A + +YP A + +V+ A QY E+ Sbjct: 116 RLESFLAFLDRRHDSFLFQDMTVTDIAAAVLKEYP-QANFSLEVTQTLAKRDICTQYRET 174 Query: 180 DHNYLSRRWEAAGWHYWYEHDASG-------------HTLIVGSDSCQQAAI-DGEQSVR 225 D+ +L R + G ++ +EH+ H L++ + + A+ G++ +R Sbjct: 175 DYAFLRRILASEGLNFRFEHEQDDATQQHDQSQPHARHKLVIFDRNAKAPALPGGDEYIR 234 Query: 226 FHANGGSAEDDAIDRWSPQREMAASSVVLGSFD-FKSPTPRWMEVPTLNRQGVAPSIEHY 284 FH DAI ++ R + + V L S+ K +P E TL+ G PS+ Y Sbjct: 235 FHRVAAMEASDAITDFAAVRSVRPNGVALASWHPEKLSSPSHEEGSTLD-AGELPSLPVY 293 Query: 285 LYTGHHGYRDRDDGDAQSRLRIEEIEARARQVEGQGNCRAMMPGRWFRLVGHVECPRFGG 344 TG + D+D A ++L ++ +E + ++ EG G R + G F L+ H P Sbjct: 294 DGTGQQDFADQDAAAAHAQLMLQALEMQNKRFEGAGAARQLAAGARFTLLQHERYP---- 349 Query: 345 PSSQGRDEFLILSVRHRIHNNYFPLAAQDAEP---------------------PYRNEFR 383 +G + F ++SVRH NN + P YRN F Sbjct: 350 ---EGENAFKVVSVRHAARNNVSANITRILAPAAGALFGGSAAAERDDDLQAGTYRNSFT 406 Query: 384 CMRRQIPWRPGPGYNSHVPIARGAQTATVVGVPGQPALWTDEYARVRVQFHW-------- 435 +R +P P P ARG QTA V G A+ TD RV+VQFHW Sbjct: 407 AIRDSVPMVPAAIAERLKPTARGTQTALVTGA-ADAAVTTDRNHRVKVQFHWQRGKSPNP 465 Query: 436 ----------DREGRHDIGSSA--WIRVASPWAGAQLGALALPRVGAEVLVQWLDGNPDR 483 D++G + S+ WIRVA +G G+ +PRVG+EVLV +++G+ DR Sbjct: 466 GGLRETGNLDDKDGNANGNDSSGTWIRVAEAQSGPNWGSQFIPRVGSEVLVDFIEGDIDR 525 Query: 484 PVIVGSLYNADHLPPW 499 PV+V LYN PP+ Sbjct: 526 PVVVAQLYNGSDAPPF 541 >gi|300310098|ref|YP_003774190.1| VGR-related protein [Herbaspirillum seropedicae SmR1] Length = 982 Score = 187 bits (475), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 161/539 (29%), Positives = 236/539 (43%), Gaps = 99/539 (18%) Query: 42 PDAPLLLQRLDAEESLSRDFSFVVELLTDDAHLPLKSMMGKLLVIELVREDGHLRYFSGY 101 P LL++ A E L V +L+ DA L LKS++G+ + DG FSG Sbjct: 27 PAGELLVEAFAASEGLHAVGLREVIVLSLDAGLRLKSLIGQRATLVTTLSDGSRTQFSGL 86 Query: 102 VFAFSRQRADGAVVVYEAQLGPWFRLLSWRRDHHLFHDKTLHQQTADIFADYPLHARWQW 161 V ++ ++G + Y ++ PW LLS + ++ DKT+ D+FADY HA W W Sbjct: 87 VNEAAKLGSEGGLARYRLRIVPWVWLLSQSHNSRVWQDKTVIDIVEDVFADYAPHAAWTW 146 Query: 162 ---------QVSSGDATMTDAFQYGESDHNYLSRRWEAAGWHYWYEHD---ASGHTLIVG 209 QV T+ QY ES+ ++SR A G + E ASGH L++ Sbjct: 147 TDEVAPFMQQVQPRSYTI----QYRESNLAFVSRLLAAEGLSWRVEESADAASGHRLVLF 202 Query: 210 SDSCQQAAID---------GEQSVRFHANGGSAEDDAIDRWSPQREMAASSVVLGSFDFK 260 +DS A G +RFHA E D+I + +R + +S L S+D+K Sbjct: 203 ADSTSPRAFPEDLTSTSPLGGSGIRFHAGTAREEQDSIQALAARRALQPASFTLLSYDYK 262 Query: 261 SPTPRWMEVPTLNRQGV--APSIEHYLYTGHHGYRDRDDGDAQSRLRIEEIEARARQVEG 318 S +PT + G AP +E Y G + Y D + D +RL +E EAR + + Sbjct: 263 SKQAVATSLPTRHEFGGKDAPRLESYDSPGLYAYTDAAEADHYARLHLEASEARNKLWQA 322 Query: 319 QGNCRAMMPGRWFRLVG---HVECPRFGGPSSQGRDEFLILSVRHRIHNN---------- 365 + R + PG F L + + G P ++ +LSV NN Sbjct: 323 RSTVRTLRPGTRFTLADGPLGLSAAQDGAPR-----QYAVLSVMSVGVNNLPKDAAEGLA 377 Query: 366 --YFPL--------------------------------------AAQDAEPPYRNEFRCM 385 + P+ AQ + Y N F + Sbjct: 378 ELFGPIPPLLEDCVAACEEGQSLLHGQSGPDSLQLLGQTDIAGVIAQARQLGYANAFEAI 437 Query: 386 RRQIPWRP----GPGYNSHV-PIARGAQTATVVGVPGQPA------LWTDEYARVRVQFH 434 R + WRP G G H ARG+Q+A VVG G+ + + D RVR++FH Sbjct: 438 RADVIWRPVLADGTGLRLHARATARGSQSAIVVGPQGETSASSAGEIHCDRLGRVRIRFH 497 Query: 435 WDREGR-HDIGSSAWIRVASPWAGAQLGALALPRVGAEVLVQWLDGNPDRPVIVGSLYN 492 W +GR +D ++ W+RVA A G LPR+G EVLVQ+++ + DRPVIVG+LYN Sbjct: 498 W--QGRNNDAAATCWVRVAQRAASGGAGMQFLPRIGQEVLVQFIEDDIDRPVIVGALYN 554 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 0.321 0.136 0.452 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: 2,099,832 Number of extensions: 90959 Number of successful extensions: 283 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 13 Length of query: 608 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 517 Effective length of database: 1,188,985 Effective search space: 614705245 Effective search space used: 614705245 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 (21.9 bits) S2: 133 (55.8 bits)