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= 0001.0537.p (597 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 855 0.0 gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364... 615 e-177 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 223 5e-59 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 212 7e-56 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 209 5e-55 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 855 bits (2210), Expect = 0.0, Method: Compositional matrix adjust. Identities = 421/593 (70%), Positives = 475/593 (80%) Query: 1 LVQSLQTAEYPLTVPCEDARLAELQSYCVLDTLPDMLCDQVTQLARSMFGVEIALVSLID 60 L++ E V E RLA+L YC LDT PD LCDQVTQLA SMF VEIALV+L+D Sbjct: 2 LLEKEDNTEVEAAVRQESQRLAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVD 61 Query: 61 EHRQWFKSRIGLEVREMPRADSFCAHAIYSSGSMVVLDARQDERFADNVLVTGAPFIRFY 120 EHRQWFKSR+GLEV E PRADSFC HAI + MVV DA QD RF+ + LVTGAPFIRFY Sbjct: 62 EHRQWFKSRVGLEVSETPRADSFCNHAIQTRHGMVVTDALQDARFSRHALVTGAPFIRFY 121 Query: 121 AGVPLVTPQGQPLGTLCIIDSQARSHFSQAEQAQLEQLAAIVMERLEQLRNSGYTDHVTG 180 AG PLVTPQG LGTLCIIDS+ R F ++ AQL QLAAIVMERLEQLRN GY DHVT Sbjct: 122 AGAPLVTPQGLSLGTLCIIDSRPRPDFGASQFAQLNQLAAIVMERLEQLRNRGYIDHVTA 181 Query: 181 LPNRARLMEVLRSRAQESGPVSRSCAALAVDICPREYLFDMVKALGWDYAEAFLVEVCRT 240 LPNRARLMEVLR R S + AA+AVDICPREYLFDMVKALGWDYAE FL+EV RT Sbjct: 182 LPNRARLMEVLRVRGHARPGASGADAAVAVDICPREYLFDMVKALGWDYAEGFLMEVSRT 241 Query: 241 LQRALGTTQVYRVATTTFVYLDDGDAQQRQQRQASLQRHFAHALEIHGIPHQLDIAVGVL 300 L+R LGT +YRV TTTFVYLD+ QR++R A +++ F ALE GIPH LDIA+GVL Sbjct: 242 LRRVLGTLPLYRVTTTTFVYLDETAPAQRRRRIADIEQRFTPALEFQGIPHLLDIAIGVL 301 Query: 301 PQVNELDGGDVVRALLTVIDVSREEGVSPRIFEPAHAENQRYAFWVLSALPVAFNTPGEL 360 P ++ GGDVVR+LLTVIDVSREEGVSPR+FE HAE QRYAFW+L+ALP+A TP EL Sbjct: 302 PMEEDVSGGDVVRSLLTVIDVSREEGVSPRLFESVHAEKQRYAFWLLAALPMALTTPDEL 361 Query: 361 SLYYQPKVRLQDGACIGVEALIRWQHPILGNISPEVFISLAEKTAQIRQITTWVVRQAVA 420 L++QPKVRL+DGAC+GVEALIRW HPI GNI P+VFI LAEKT QIRQ+T WV+RQ VA Sbjct: 362 VLHFQPKVRLRDGACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVA 421 Query: 421 QAAHWAQRGRATPVAINTSARDFEADDLQCLLAQLLMQHMVPPGLIEIEFTESAMASNPE 480 Q A W + GRA PVA N SARDF++D+L+ LLAQ L H VPP LIEIEFTE AMA++P+ Sbjct: 422 QVARWLKSGRALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQ 481 Query: 481 VVRQRVQAIRELGVKVAIDDFGAGFSNLSYLKSIPADVMKIDRSFIRGLVDDEADQVIVP 540 VRQRVQA+RELGVKVAIDDFGAGFSNLSYLK+IPAD MKIDRSFI L+DDEADQ+IVP Sbjct: 482 QVRQRVQALRELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVP 541 Query: 541 SIIHLAHQLGFGVVAEGVECERTVRLLQHLGCDYAQGYAIARPMPAEELEEWM 593 SI+HLAH LGF VVAEG+E ERT LL+HLGCDY QGYAIARPMP ELE W+ Sbjct: 542 SILHLAHNLGFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWL 594 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 615 bits (1586), Expect = e-177, Method: Compositional matrix adjust. Identities = 324/585 (55%), Positives = 411/585 (70%), Gaps = 10/585 (1%) Query: 17 EDARLAELQSYCVLDTLPDMLCDQVTQLARSMFGVEIALVSLIDEHRQWFKSRIGLEVRE 76 E RLA L +YC+LDT PD LCD +T+LA +F VEIALVSL+ EHRQWFKSR GL+ Sbjct: 22 EQQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRRGLDAPG 81 Query: 77 MPRADSFCAHAIYSSGSMVVLDARQDERFADNVLVTGAPFIRFYAGVPLVTPQGQPLGTL 136 PR+ SFCAHAI + +MV+ DARQDERFA N LV G P IRFYAG L T G LGTL Sbjct: 82 TPRSQSFCAHAIVQAQTMVIPDARQDERFAGNPLVLGEPGIRFYAGAALRTADGVALGTL 141 Query: 137 CIIDSQARSHFSQAEQAQLEQLAAIVMERLEQLRNSGYTDHVTGLPNRARLM-EVLRSRA 195 C+I RS FS+ +Q +LE+LAAIVM RL+ LR Y D +T LPNR+RL+ +V +A Sbjct: 142 CLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRSRLVADVQLMQA 201 Query: 196 QESG-----PVSRSCAALAVDICPREYLFDMVKALGWDYAEAFLVEVCRTLQRALGTTQV 250 +G + R AA+AVD+C YL DMVKALGWDY E FL++ L +ALG + Sbjct: 202 HATGLAGLDELPRRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERLCQALGEMAL 261 Query: 251 YRVATTTFVYLDDGDAQQRQQRQAS-LQRHFAHALEIHGIPHQLDIAVGVLPQVNELDGG 309 YR+ T+F YLD D R Q QA +++ FA +E GIPH L+++VG++P D Sbjct: 262 YRIGATSFAYLDRCD---RWQDQADRIRQAFAATVEHQGIPHHLEVSVGIVPLSQCPDAA 318 Query: 310 DVVRALLTVIDVSREEGVSPRIFEPAHAENQRYAFWVLSALPVAFNTPGELSLYYQPKVR 369 ++V +LLT DV+R +G +E + Q+++F +LS++P A + +L L +QPKV Sbjct: 319 ELVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLWLEFQPKVS 378 Query: 370 LQDGACIGVEALIRWQHPILGNISPEVFISLAEKTAQIRQITTWVVRQAVAQAAHWAQRG 429 L G C GVEAL+RW+HPI G ISP +FI LAEKTA IRQ+T WV+++ + QA WA+RG Sbjct: 379 LSTGRCAGVEALLRWRHPIHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRG 438 Query: 430 RATPVAINTSARDFEADDLQCLLAQLLMQHMVPPGLIEIEFTESAMASNPEVVRQRVQAI 489 A PVAIN SARDF+ DDL LL +LL QH +P GLIEIEFTESAM+ NPE + R+Q I Sbjct: 439 VAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYGRIQEI 498 Query: 490 RELGVKVAIDDFGAGFSNLSYLKSIPADVMKIDRSFIRGLVDDEADQVIVPSIIHLAHQL 549 + LGVKVAIDDFGAGFSNLSYLK IPAD +K+D+SFI + D +DQ IVPS+IHL +L Sbjct: 499 KRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRL 558 Query: 550 GFGVVAEGVECERTVRLLQHLGCDYAQGYAIARPMPAEELEEWMG 594 GF VVAEGVE E+T R+LQHLGCD+ QG+ IARPM A + +W+G Sbjct: 559 GFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIG 603 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 223 bits (567), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 177/621 (28%), Positives = 287/621 (46%), Gaps = 70/621 (11%) Query: 18 DARLAELQSYCVLDTLP---------DMLCDQVTQLARSMFGVEIALVSLIDEH------ 62 + ++ E+ Y VL+ + ++LC++V ++A + IA V +DEH Sbjct: 384 NTKVHEVLQYRVLNAMARDSSLSEQMNLLCEEVERVAPEV----IASVLRVDEHGCLRTL 439 Query: 63 ------RQWFKSRIGLEVREMPRADSFCAHAIYSSGSMVVLDARQDERFADNVLVTGAPF 116 + K+ GL V M C A Y+ +++ D + D + D + Sbjct: 440 AAPSLPEAYSKAIDGLHVGPMV---GCCGSAAYTGQTVISEDIQTDPHWNDYKHLALPHG 496 Query: 117 IRFYAGVPLVTPQGQPLGTLCII---DSQARSHFSQAEQAQLEQLAAIVMERLE---QLR 170 +R P+ + GQ +GT Q + +A L L A+ +ER + ++ Sbjct: 497 LRACWSTPIKSASGQVIGTFGFYYRHPGQPSAFHHLLVEAGL-HLCALAIEREDARARIH 555 Query: 171 NSGYTDHVTGLPNRARLMEVLRSRAQESGPVSRSCAALAVDICPREYLFDMVKALGWDYA 230 + D +TGLPNR+ L L Q R+C+ +AV + + +LG Sbjct: 556 QLAFYDSLTGLPNRSLL---LVQAGQAIAAAERNCSTVAVMFIDLDRFKQVNDSLGHQAG 612 Query: 231 EAFLVEVCRTLQ-RALGTTQVYRVATTTFVY-LDDGDAQQRQQRQASLQRHFAHALEIHG 288 + L V LQ +A + V R++ FV L D Q + +Q A I+G Sbjct: 613 DELLRTVATRLQSQARRSDIVGRLSGDEFVVVLTQYDTQHLTEVVKRIQERLAMPCHING 672 Query: 289 IPHQ--LDIAVGVLPQVNELDGGDVVRALLTVIDVSREEGVSPRIFEPAHAENQRYAFW- 345 P I V + P D G+ + LL D++ +++ R++F+ Sbjct: 673 TPLNPSASIGVAIFP-----DNGNDIETLLHRADIA--------MYQAKAVNRGRFSFFS 719 Query: 346 ------------VLSALPVAFNTPGELSLYYQPKVRLQDGACIGVEALIRWQHPILGNIS 393 + SAL A G+L L +QP+++L D + GVEAL RW HP LG IS Sbjct: 720 EEMNSMAQERLALESALRDALRG-GDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQIS 778 Query: 394 PEVFISLAEKTAQIRQITTWVVRQAVAQAAHWAQRGRATP-VAINTSARDFEADDLQCLL 452 P FI +AE+ I ++ W + +A Q + W +RG P +++N SA +F DL + Sbjct: 779 PGRFIPIAEECGLIGELGKWALEEACFQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFV 838 Query: 453 AQLLMQHMVPPGLIEIEFTESAMASNPEVVRQRVQAIRELGVKVAIDDFGAGFSNLSYLK 512 LL ++ + P + +E TE+ + Q + A+ LG+ +A+DDFG G+S+L YL+ Sbjct: 839 TGLLRRYALEPSDLTLEITETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLR 898 Query: 513 SIPADVMKIDRSFIRGLVDDEADQVIVPSIIHLAHQLGFGVVAEGVECERTVRLLQHLGC 572 +P +K+D+SF+R + D A + ++I + L VVAEGVE LL GC Sbjct: 899 KLPVSELKLDQSFVRDMAKDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGC 958 Query: 573 DYAQGYAIARPMPAEELEEWM 593 D AQGY +RPM A+ LE W+ Sbjct: 959 DVAQGYLFSRPMSADALENWV 979 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 212 bits (539), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 138/424 (32%), Positives = 215/424 (50%), Gaps = 9/424 (2%) Query: 174 YTDHVTGLPNRARLMEVLRSRAQESGPV-SRSCAALAVDICPREYLFDMVKALGWDYAEA 232 Y D +TGLPNR + ++LR E+ +C L +D+ + + D+ LG + + Sbjct: 360 YQDQLTGLPNRVQFADLLRDAIAEAARTPGAACYILMMDLDRFQQVNDV---LGHSFGDD 416 Query: 233 FLVEVCRTLQRAL--GTTQVYRVATTTFVYLDDGDAQQRQQRQA-SLQRHFAHALEIHGI 289 L +V L L ++ R+ F L G Q+ QA + R L +H Sbjct: 417 LLRQVALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRALEQPLSLHQQ 476 Query: 290 PHQLDIAVGVLPQVNELDGGDVVRALLTV-IDVSREEGVSPRIFEPAHAENQRYAFWVLS 348 L +G+ DV+ + V + +++ +G I++PA ++ + + +LS Sbjct: 477 TVDLGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSGLVIYDPAIDQSSQESLSLLS 536 Query: 349 ALPVAFNTPGELSLYYQPKVRLQDGACIGVEALIRWQHPILGNISPEVFISLAEKTAQIR 408 L A E LY QPK+ L G +G EAL+RW HP G I P+ FI AE T IR Sbjct: 537 ELRRALERD-EFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFAETTGFIR 595 Query: 409 QITTWVVRQAVAQAAHWAQRGRATPVAINTSARDFEADDLQCLLAQLLMQHMVPPGLIEI 468 +T W++ Q + Q+G ++N S RD +L A +L +H + P + + Sbjct: 596 MLTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRLQPAALCL 655 Query: 469 EFTESAMASNPEVVRQRVQAIRELGVKVAIDDFGAGFSNLSYLKSIPADVMKIDRSFIRG 528 E TESA+ +P + ++ + +G ++IDDFG G+S+L+YLK +P D +KID+SF+ Sbjct: 656 EITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKIDKSFVMK 715 Query: 529 LVDDEADQVIVPSIIHLAHQLGFGVVAEGVECERTVRLLQHLGCDYAQGYAIARPMPAEE 588 + D+ D IV S + L H LG VVAEGVE E LL+ +GCD QGY + +PMP + Sbjct: 716 MAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVQH 775 Query: 589 LEEW 592 W Sbjct: 776 FLAW 779 >gi|300314042|ref|YP_003778134.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 948 Score = 209 bits (532), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 158/444 (35%), Positives = 221/444 (49%), Gaps = 15/444 (3%) Query: 163 MERLE-QLRNSGYTDHVTGLPNRARLMEVLRSRAQESGPVSRSCAALAVDICPREYLFDM 221 M+R E +L D +TGL NR L L Q G R AL V + + Sbjct: 508 MKRYEAELEFQASRDTLTGLINRHMLRHHLE---QAIGVAERQKQALWVVFVDLDRFKFV 564 Query: 222 VKALGWDYAEAFLVEVCRTLQRALGTTQ-VYRVATTTFVY-LDDGDAQQRQQRQASLQR- 278 LG + L V L+ A+ V R+ F+ L + D R SLQR Sbjct: 565 NDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTR--SLQRI 622 Query: 279 --HFAHALEIHGIPHQLDIAVGVLPQVNE-LDGGDVVRALLTVIDVSREEGVSP-RIFEP 334 A + + G + +VGV N+ DG +++ + ++ G + + + P Sbjct: 623 MDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTP 682 Query: 335 AHAENQRYAFWVLSALPVAFNTPGELSLYYQPKVRLQDGACIGVEALIRWQHPILGNISP 394 A E + L A + GE L+YQPKV L G IG EALIRWQHP LG +SP Sbjct: 683 AMNEQALERLRIEGDLRNALDH-GEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSP 741 Query: 395 EVFISLAEKTAQIRQITTWVVRQAVAQAAHWAQRGRA-TPVAINTSARDFEADDLQCLLA 453 FI LAE+T I I WV+R A Q W G A V++N S F DL +A Sbjct: 742 ARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIA 801 Query: 454 QLLMQHMVPPGLIEIEFTESAMASNPEVVRQRVQAIRELGVKVAIDDFGAGFSNLSYLKS 513 +L +PP +E+E TES M ++ E + +++LGV+++IDDFG G+S+L+YLK Sbjct: 802 DVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKR 861 Query: 514 IPADVMKIDRSFIRGLVDDEADQVIVPSIIHLAHQLGFGVVAEGVECERTVRLLQHLGCD 573 P DV+KIDRSF+R + D D I SII LA L V+AEGVE + + L+H GCD Sbjct: 862 FPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCD 921 Query: 574 YAQGYAIARPMPAEELEEWMGMSR 597 QGY + P+PA++ E+ + R Sbjct: 922 EIQGYLFSPPVPADKFEQILRQDR 945 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 0.323 0.136 0.402 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: 1,770,752 Number of extensions: 70665 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 23 Length of query: 597 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 506 Effective length of database: 1,188,985 Effective search space: 601626410 Effective search space used: 601626410 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 (22.0 bits) S2: 133 (55.8 bits)