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= 0002.0251.p (589 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... 825 0.0 gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364... 627 0.0 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 219 5e-58 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 215 7e-57 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 212 6e-56 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 825 bits (2131), Expect = 0.0, Method: Compositional matrix adjust. Identities = 404/577 (70%), Positives = 465/577 (80%) Query: 9 ESTRLAALQGYCVLDTLPDKSCDQITELARTLFGVEIALVSLVDEERQWFKSRAGLPAHE 68 ES RLA L GYC LDT PDK CDQ+T+LA ++F VEIALV+LVDE RQWFKSR GL E Sbjct: 18 ESQRLAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVDEHRQWFKSRVGLEVSE 77 Query: 69 TPRSMSFCAHAILSRTGLVVLDAHRDPRFRDNPLVTGAPHIRFYAGAPLVSPQGHALGTL 128 TPR+ SFC HAI +R G+VV DA +D RF + LVTGAP IRFYAGAPLV+PQG +LGTL Sbjct: 78 TPRADSFCNHAIQTRHGMVVTDALQDARFSRHALVTGAPFIRFYAGAPLVTPQGLSLGTL 137 Query: 129 CLIDHRPRQYFSPSDQGRLEQLAAMVMERLEQLRNRGYTDHVTSLPNRARLMEVLRARAH 188 C+ID RPR F S +L QLAA+VMERLEQLRNRGY DHVT+LPNRARLMEVLR R H Sbjct: 138 CIIDSRPRPDFGASQFAQLNQLAAIVMERLEQLRNRGYIDHVTALPNRARLMEVLRVRGH 197 Query: 189 AQGVGGAPCAALGIDVCSREYLFDMVKALGWDYAESFLVQVSRALCEALDGQPVYRVTTT 248 A+ AA+ +D+C REYLFDMVKALGWDYAE FL++VSR L L P+YRVTTT Sbjct: 198 ARPGASGADAAVAVDICPREYLFDMVKALGWDYAEGFLMEVSRTLRRVLGTLPLYRVTTT 257 Query: 249 TFVFLHDGSAAQRQEHIANVRQQFVQSLEIHGIPHQLDIAIGVLPAVDEIAGSDVVRSLL 308 TFV+L + + AQR+ IA++ Q+F +LE GIPH LDIAIGVLP ++++G DVVRSLL Sbjct: 258 TFVYLDETAPAQRRRRIADIEQRFTPALEFQGIPHLLDIAIGVLPMEEDVSGGDVVRSLL 317 Query: 309 TVIDVSREEGVCPRQFESVHAENQRNAFWLLSALPMAFKAADELSLHYQPKVRLRDGSCV 368 TVIDVSREEGV PR FESVHAE QR AFWLL+ALPMA DEL LH+QPKVRLRDG+CV Sbjct: 318 TVIDVSREEGVSPRLFESVHAEKQRYAFWLLAALPMALTTPDELVLHFQPKVRLRDGACV 377 Query: 369 GVEALIRWQHPVLGHISPAVFIALAEKTAQIRQITAWVVRHAVAQAAQWHARGLVVPIAI 428 GVEALIRW HP+ G+I P VFI LAEKT QIRQ+TAWV+R VAQ A+W G +P+A Sbjct: 378 GVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVAQVARWLKSGRALPVAF 437 Query: 429 NTSARDFESDELLRLLASQLKQHAVPPGLIEIEFTESAMASNPEVVRQRVQAIRELGVQV 488 N SARDF+SDEL LLA QLK H VPP LIEIEFTE AMA++P+ VRQRVQA+RELGV+V Sbjct: 438 NASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQVRQRVQALRELGVKV 497 Query: 489 AIDDFGSGFSNLSYLKSIPADIMKIDRSFIRSLAEDEADQVIVPTIIHLAHQLGFSVVAE 548 AIDDFG+GFSNLSYLK+IPAD MKIDRSFI L +DEADQ+IVP+I+HLAH LGFSVVAE Sbjct: 498 AIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHNLGFSVVAE 557 Query: 549 GVESERTARILHHLGCDFAQGYAIARPMPAEDLEEWL 585 G+ESERTA +L HLGCD+ QGYAIARPMP +LE WL Sbjct: 558 GLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWL 594 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 627 bits (1618), Expect = 0.0, Method: Compositional matrix adjust. Identities = 324/587 (55%), Positives = 410/587 (69%), Gaps = 8/587 (1%) Query: 9 ESTRLAALQGYCVLDTLPDKSCDQITELARTLFGVEIALVSLVDEERQWFKSRAGLPAHE 68 E RLA L YC+LDT PD CD ITELA LF VEIALVSLV E RQWFKSR GL A Sbjct: 22 EQQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRRGLDAPG 81 Query: 69 TPRSMSFCAHAILSRTGLVVLDAHRDPRFRDNPLVTGAPHIRFYAGAPLVSPQGHALGTL 128 TPRS SFCAHAI+ +V+ DA +D RF NPLV G P IRFYAGA L + G ALGTL Sbjct: 82 TPRSQSFCAHAIVQAQTMVIPDARQDERFAGNPLVLGEPGIRFYAGAALRTADGVALGTL 141 Query: 129 CLIDHRPRQYFSPSDQGRLEQLAAMVMERLEQLRNRGYTDHVTSLPNRARLM-EVLRARA 187 CLI PR FS DQ RLE+LAA+VM RL+ LR Y D +TSLPNR+RL+ +V +A Sbjct: 142 CLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRSRLVADVQLMQA 201 Query: 188 HAQGVGGAP-----CAALGIDVCSREYLFDMVKALGWDYAESFLVQVSRALCEALDGQPV 242 HA G+ G AA+ +DVC YL DMVKALGWDY E FL+Q LC+AL + Sbjct: 202 HATGLAGLDELPRRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERLCQALGEMAL 261 Query: 243 YRVTTTTFVFLHDGSAAQRQEHIANVRQQFVQSLEIHGIPHQLDIAIGVLPAVDEIAGSD 302 YR+ T+F +L + Q+ +RQ F ++E GIPH L++++G++P ++ Sbjct: 262 YRIGATSFAYLD--RCDRWQDQADRIRQAFAATVEHQGIPHHLEVSVGIVPLSQCPDAAE 319 Query: 303 VVRSLLTVIDVSREEGVCPRQFESVHAENQRNAFWLLSALPMAFKAADELSLHYQPKVRL 362 +V SLLT DV+R +G Q+E + Q+++F LLS++P A + D+L L +QPKV L Sbjct: 320 LVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLWLEFQPKVSL 379 Query: 363 RDGSCVGVEALIRWQHPVLGHISPAVFIALAEKTAQIRQITAWVVRHAVAQAAQWHARGL 422 G C GVEAL+RW+HP+ G ISPA+FI LAEKTA IRQ+T WV++ + QA W RG+ Sbjct: 380 STGRCAGVEALLRWRHPIHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRGV 439 Query: 423 VVPIAINTSARDFESDELLRLLASQLKQHAVPPGLIEIEFTESAMASNPEVVRQRVQAIR 482 +P+AIN SARDF++D+LL+LL L+QH +P GLIEIEFTESAM+ NPE + R+Q I+ Sbjct: 440 AIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYGRIQEIK 499 Query: 483 ELGVQVAIDDFGSGFSNLSYLKSIPADIMKIDRSFIRSLAEDEADQVIVPTIIHLAHQLG 542 LGV+VAIDDFG+GFSNLSYLK IPAD +K+D+SFI + D +DQ IVP++IHL +LG Sbjct: 500 RLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRLG 559 Query: 543 FSVVAEGVESERTARILHHLGCDFAQGYAIARPMPAEDLEEWLGMVQ 589 F+VVAEGVE+E+T RIL HLGCDF QG+ IARPM A D +W+G Q Sbjct: 560 FAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGARQ 606 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 219 bits (558), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 161/527 (30%), Positives = 253/527 (48%), Gaps = 28/527 (5%) Query: 76 CAHAILSRTGLVVLDAHRDPRFRDNPLVTGAPHIRFYAGAPLVSPQGHALGTLCLIDHRP 135 C A + ++ D DP + D + +R P+ S G +GT P Sbjct: 464 CGSAAYTGQTVISEDIQTDPHWNDYKHLALPHGLRACWSTPIKSASGQVIGTFGFYYRHP 523 Query: 136 RQYFSPSDQGRLE-----QLAAMVMERLEQLRNR----GYTDHVTSLPNRARLMEVLRAR 186 Q PS L L A+ +ER E R R + D +T LPNR+ L L Sbjct: 524 GQ---PSAFHHLLVEAGLHLCALAIER-EDARARIHQLAFYDSLTGLPNRSLL---LVQA 576 Query: 187 AHAQGVGGAPCAALGIDVCSREYLFDMVKALGWDYAESFLVQV-SRALCEALDGQPVYRV 245 A C+ + + + + +LG + L V +R +A V R+ Sbjct: 577 GQAIAAAERNCSTVAVMFIDLDRFKQVNDSLGHQAGDELLRTVATRLQSQARRSDIVGRL 636 Query: 246 TTTTFVFLHDGSAAQR-QEHIANVRQQFVQSLEIHGIPHQLDIAIGVLPAVDEIAGSDVV 304 + FV + Q E + ++++ I+G P +IGV A+ G+D+ Sbjct: 637 SGDEFVVVLTQYDTQHLTEVVKRIQERLAMPCHINGTPLNPSASIGV--AIFPDNGNDI- 693 Query: 305 RSLLTVIDVS--REEGVCPRQFESVHAENQRNA---FWLLSALPMAFKAADELSLHYQPK 359 +LL D++ + + V +F E A L SAL A + D L L++QP+ Sbjct: 694 ETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESALRDALRGGD-LELNFQPQ 752 Query: 360 VRLRDGSCVGVEALIRWQHPVLGHISPAVFIALAEKTAQIRQITAWVVRHAVAQAAQWHA 419 ++L D S GVEAL RW HP LG ISP FI +AE+ I ++ W + A Q + W Sbjct: 753 IKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELGKWALEEACFQLSDWRR 812 Query: 420 RGLVVP-IAINTSARDFESDELLRLLASQLKQHAVPPGLIEIEFTESAMASNPEVVRQRV 478 RG+ VP I++N SA +F +L + + L+++A+ P + +E TE+ + Q + Sbjct: 813 RGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEITETVLMDTNPSTSQTI 872 Query: 479 QAIRELGVQVAIDDFGSGFSNLSYLKSIPADIMKIDRSFIRSLAEDEADQVIVPTIIHLA 538 A+ LG+ +A+DDFG+G+S+L YL+ +P +K+D+SF+R +A+D A + +I + Sbjct: 873 AAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMAKDPAVSALTNAVIRIG 932 Query: 539 HQLGFSVVAEGVESERTARILHHLGCDFAQGYAIARPMPAEDLEEWL 585 L +VVAEGVE +L GCD AQGY +RPM A+ LE W+ Sbjct: 933 ESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALENWV 979 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 215 bits (548), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 143/424 (33%), Positives = 220/424 (51%), Gaps = 9/424 (2%) Query: 166 YTDHVTSLPNRARLMEVLR-ARAHAQGVGGAPCAALGIDVCSREYLFDMVKALGWDYAES 224 Y D +T LPNR + ++LR A A A GA C L +D+ + + D+ LG + + Sbjct: 360 YQDQLTGLPNRVQFADLLRDAIAEAARTPGAACYILMMDLDRFQQVNDV---LGHSFGDD 416 Query: 225 FLVQVSRALCEAL--DGQPVYRVTTTTFVFLHDGSAAQRQ-EHIANVRQQFVQSLEIHGI 281 L QV+ L L G + R+ F L G + E + + Q L +H Sbjct: 417 LLRQVALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRALEQPLSLHQQ 476 Query: 282 PHQLDIAIGVLPAVDEIAGSDVVRSLLTV-IDVSREEGVCPRQFESVHAENQRNAFWLLS 340 L IG+ SDV+ S V + +++ +G ++ ++ + + LLS Sbjct: 477 TVDLGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSGLVIYDPAIDQSSQESLSLLS 536 Query: 341 ALPMAFKAADELSLHYQPKVRLRDGSCVGVEALIRWQHPVLGHISPAVFIALAEKTAQIR 400 L A + DE L+ QPK+ L G VG EAL+RW HP G I P FI AE T IR Sbjct: 537 ELRRALER-DEFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFAETTGFIR 595 Query: 401 QITAWVVRHAVAQAAQWHARGLVVPIAINTSARDFESDELLRLLASQLKQHAVPPGLIEI 460 +T W++ + Q +G+ + ++N S RD EL A+ L++H + P + + Sbjct: 596 MLTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRLQPAALCL 655 Query: 461 EFTESAMASNPEVVRQRVQAIRELGVQVAIDDFGSGFSNLSYLKSIPADIMKIDRSFIRS 520 E TESA+ +P + ++ + +G ++IDDFG+G+S+L+YLK +P D +KID+SF+ Sbjct: 656 EITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKIDKSFVMK 715 Query: 521 LAEDEADQVIVPTIIHLAHQLGFSVVAEGVESERTARILHHLGCDFAQGYAIARPMPAED 580 +A+D+ D IV + + L H LG VVAEGVESE +L +GCD QGY + +PMP + Sbjct: 716 MAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVQH 775 Query: 581 LEEW 584 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 = 212 bits (540), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 107/236 (45%), Positives = 147/236 (62%), Gaps = 1/236 (0%) Query: 351 ELSLHYQPKVRLRDGSCVGVEALIRWQHPVLGHISPAVFIALAEKTAQIRQITAWVVRHA 410 E LHYQPKV L G +G EALIRWQHP LG +SPA FI LAE+T I I AWV+R A Sbjct: 706 EFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIGAWVLRAA 765 Query: 411 VAQAAQWHARGLV-VPIAINTSARDFESDELLRLLASQLKQHAVPPGLIEIEFTESAMAS 469 Q QW G + +++N S F +L+ +A L+ +PP +E+E TES M + Sbjct: 766 CTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELELTESLMMT 825 Query: 470 NPEVVRQRVQAIRELGVQVAIDDFGSGFSNLSYLKSIPADIMKIDRSFIRSLAEDEADQV 529 + E + +++LGV+++IDDFG+G+S+L+YLK P D++KIDRSF+R + D D Sbjct: 826 DVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDITIDADDAA 885 Query: 530 IVPTIIHLAHQLGFSVVAEGVESERTARILHHLGCDFAQGYAIARPMPAEDLEEWL 585 I +II LA L V+AEGVE++ L H GCD QGY + P+PA+ E+ L Sbjct: 886 ITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFEQIL 941 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 0.405 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: 1,896,494 Number of extensions: 81135 Number of successful extensions: 307 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 278 Number of HSP's successfully gapped: 23 Length of query: 589 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 498 Effective length of database: 1,188,985 Effective search space: 592114530 Effective search space used: 592114530 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)