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= 0007.0006.p (596 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364... 1192 0.0 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 612 e-176 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 211 1e-55 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 202 7e-53 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 193 3e-50 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 1192 bits (3085), Expect = 0.0, Method: Compositional matrix adjust. Identities = 585/596 (98%), Positives = 589/596 (98%) Query: 1 LLTPPLPLDAAERQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQW 60 LLTPPLPLDAAE+QRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQW Sbjct: 11 LLTPPLPLDAAEQQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQW 70 Query: 61 FKSRQGLDAPGTPRSQSFCAHAIVQAQTMVIPDARQDERFADNPLVLGEPGIRFYAGAVL 120 FKSR+GLDAPGTPRSQSFCAHAIVQAQTMVIPDARQDERFA NPLVLGEPGIRFYAGA L Sbjct: 71 FKSRRGLDAPGTPRSQSFCAHAIVQAQTMVIPDARQDERFAGNPLVLGEPGIRFYAGAAL 130 Query: 121 RTADGVALGTLCLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRS 180 RTADGVALGTLCLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRS Sbjct: 131 RTADGVALGTLCLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRS 190 Query: 181 RLVAGVQLMQAHTAGLAGLDELPQRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKE 240 RLVA VQLMQAH GLAGLDELP+RLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKE Sbjct: 191 RLVADVQLMQAHATGLAGLDELPRRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKE 250 Query: 241 RLCQALGEMALYRIGATSFAYLDRCDRWQAQADRIRQAFAATVEHQGIPHHLEVSVGIVP 300 RLCQALGEMALYRIGATSFAYLDRCDRWQ QADRIRQAFAATVEHQGIPHHLEVSVGIVP Sbjct: 251 RLCQALGEMALYRIGATSFAYLDRCDRWQDQADRIRQAFAATVEHQGIPHHLEVSVGIVP 310 Query: 301 LSQCPDATELVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLW 360 LSQCPDA ELVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLW Sbjct: 311 LSQCPDAAELVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLW 370 Query: 361 LEFQPKVSLSTGRCAGVEALLRWRHPVHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQ 420 LEFQPKVSLSTGRCAGVEALLRWRHP+HGVISPALFIPLAEKTALIRQVTLWVLQRGIEQ Sbjct: 371 LEFQPKVSLSTGRCAGVEALLRWRHPIHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQ 430 Query: 421 ATAWARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEK 480 ATAWARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEK Sbjct: 431 ATAWARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEK 490 Query: 481 LYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPS 540 LYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPS Sbjct: 491 LYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPS 550 Query: 541 MIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGARQ 596 MIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGARQ Sbjct: 551 MIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGARQ 606 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 612 bits (1579), Expect = e-176, Method: Compositional matrix adjust. Identities = 311/587 (52%), Positives = 407/587 (69%), Gaps = 10/587 (1%) Query: 12 ERQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRQGLDAPG 71 E QRLA L YC LDT PD LCD +T+LA +FDVEIALV+LV EHRQWFKSR GL+ Sbjct: 18 ESQRLAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVDEHRQWFKSRVGLEVSE 77 Query: 72 TPRSQSFCAHAIVQAQTMVIPDARQDERFADNPLVLGEPGIRFYAGAVLRTADGVALGTL 131 TPR+ SFC HAI MV+ DA QD RF+ + LV G P IRFYAGA L T G++LGTL Sbjct: 78 TPRADSFCNHAIQTRHGMVVTDALQDARFSRHALVTGAPFIRFYAGAPLVTPQGLSLGTL 137 Query: 132 CLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRSRLVAGVQLMQA 191 C+I PR F +L +LAAIVM RL+ LR Y+D +T+LPNR+RL+ +++ Sbjct: 138 CIIDSRPRPDFGASQFAQLNQLAAIVMERLEQLRNRGYIDHVTALPNRARLMEVLRVRGH 197 Query: 192 HTAGLAGLDELPQRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERLCQALGEMAL 251 G +G D AAVAVD+C YL DMVKALGWDY EGFL++ L + LG + L Sbjct: 198 ARPGASGAD------AAVAVDICPREYLFDMVKALGWDYAEGFLMEVSRTLRRVLGTLPL 251 Query: 252 YRIGATSFAYLDR---CDRWQAQADRIRQAFAATVEHQGIPHHLEVSVGIVPLSQCPDAT 308 YR+ T+F YLD R + AD I Q F +E QGIPH L++++G++P+ + Sbjct: 252 YRVTTTTFVYLDETAPAQRRRRIAD-IEQRFTPALEFQGIPHLLDIAIGVLPMEEDVSGG 310 Query: 309 ELVPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLWLEFQPKVS 368 ++V SLLT DV+R +G +E + Q+++F LL+++P AL + D+L L FQPKV Sbjct: 311 DVVRSLLTVIDVSREEGVSPRLFESVHAEKQRYAFWLLAALPMALTTPDELVLHFQPKVR 370 Query: 369 LSTGRCAGVEALLRWRHPVHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRG 428 L G C GVEAL+RW HP+HG I P +FIPLAEKT IRQVT WVL++ + Q W + G Sbjct: 371 LRDGACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVAQVARWLKSG 430 Query: 429 VAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYGRIQEI 488 A+PVA N SARDFD+D+L +LL + L+ H++P LIEIEFTE AM+ +P+++ R+Q + Sbjct: 431 RALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQVRQRVQAL 490 Query: 489 KRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRL 548 + LGVKVAIDDFGAGFSNLSYLK+IPAD +K+D+SFI R+ D +DQ IVPS++HL L Sbjct: 491 RELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHNL 550 Query: 549 GFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGAR 595 GF+VVAEG+E+E+T +L+HLGCD+GQG+ IARPM A+ W+ R Sbjct: 551 GFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWLERR 597 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 211 bits (537), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 175/598 (29%), Positives = 273/598 (45%), Gaps = 53/598 (8%) Query: 25 LDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRQGLDAPGTPRSQS------- 77 L Q + LC+ + +A + IA V V EH + L AP P + S Sbjct: 405 LSEQMNLLCEEVERVAPEV----IASVLRVDEH----GCLRTLAAPSLPEAYSKAIDGLH 456 Query: 78 ------FCAHAIVQAQTMVIPDARQDERFADNPLVLGEPGIRFYAGAVLRTADGVALGTL 131 C A QT++ D + D + D + G+R +++A G +GT Sbjct: 457 VGPMVGCCGSAAYTGQTVISEDIQTDPHWNDYKHLALPHGLRACWSTPIKSASGQVIGTF 516 Query: 132 CLIGKSPR--SQFSEVDQDRLERLAAIVMARLDM---LRMGSYVDSLTSLPNRSRLVAGV 186 + P S F + + L A+ + R D + ++ DSLT LPNRS L+ V Sbjct: 517 GFYYRHPGQPSAFHHLLVEAGLHLCALAIEREDARARIHQLAFYDSLTGLPNRSLLL--V 574 Query: 187 QLMQAHTAGLAGLDELPQRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERL-CQA 245 Q QA A + + VAV D + +LG + L RL QA Sbjct: 575 QAGQAIAAA-------ERNCSTVAVMFIDLDRFKQVNDSLGHQAGDELLRTVATRLQSQA 627 Query: 246 LGEMALYRIGATSFAYLDRCDRWQAQ-----ADRIRQAFAATVEHQGIPHHLEVSVGIVP 300 + R+ F + ++ Q RI++ A G P + S+G+ Sbjct: 628 RRSDIVGRLSGDEFVVV--LTQYDTQHLTEVVKRIQERLAMPCHINGTPLNPSASIGVAI 685 Query: 301 LSQCPDATELVPSLLTAADVARADGHLQCQ-----YEQPLGQMQKHSFELLSSIPAALLS 355 PD + +LL AD+A + + + + M + L S++ AL Sbjct: 686 F---PDNGNDIETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESALRDALRG 742 Query: 356 TDQLWLEFQPKVSLSTGRCAGVEALLRWRHPVHGVISPALFIPLAEKTALIRQVTLWVLQ 415 D L L FQP++ L GVEAL RW HP G ISP FIP+AE+ LI ++ W L+ Sbjct: 743 GD-LELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELGKWALE 801 Query: 416 RGIEQATAWARRGVAIP-VAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAM 474 Q + W RRG+ +P +++N+SA +F + DL Q + LL ++ + + +E TE+ + Sbjct: 802 EACFQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEITETVL 861 Query: 475 SRNPEKLYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSD 534 I + LG+ +A+DDFG G+S+L YL+ +P LKLDQSF+ M D + Sbjct: 862 MDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMAKDPAV 921 Query: 535 QQIVPSMIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWI 592 + ++I +G+ L VVAEGVE+ + +L GCD QG+ +RPM+A +W+ Sbjct: 922 SALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALENWV 979 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 202 bits (513), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 141/431 (32%), Positives = 219/431 (50%), Gaps = 17/431 (3%) Query: 168 SYVDSLTSLPNRSRLVAGVQLMQAHTAGLAGLDELPQRLAAVAVDVCDHTYLTDMVKALG 227 +Y D LT LPNR + ++ A A G AA + + D + LG Sbjct: 359 AYQDQLTGLPNRVQFADLLRDAIAEAARTPG--------AACYILMMDLDRFQQVNDVLG 410 Query: 228 WDYVEGFLIQAKERLCQALGE--MALYRIGATSFAYLDRCDRWQAQADRIRQAFAATVEH 285 + + L Q RL L L R+G FA L + ++ Q A +E Sbjct: 411 HSFGDDLLRQVALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRA-LEQ 469 Query: 286 QGIPHHLEVSVGI-VPLSQCPDATELVPSLLTAADVA----RADGHLQCQYEQPLGQMQK 340 H V +G + +S P + LL+ A+VA + G Y+ + Q + Sbjct: 470 PLSLHQQTVDLGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSGLVIYDPAIDQSSQ 529 Query: 341 HSFELLSSIPAALLSTDQLWLEFQPKVSLSTGRCAGVEALLRWRHPVHGVISPALFIPLA 400 S LLS + AL D+ L QPK+ L +G+ G EAL+RW HP G I P FIP A Sbjct: 530 ESLSLLSELRRAL-ERDEFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFA 588 Query: 401 EKTALIRQVTLWVLQRGIEQATAWARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRI 460 E T IR +TLW++++ + ++GV + ++N+S RD + +L +L++HR+ Sbjct: 589 ETTGFIRMLTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRL 648 Query: 461 PAGLIEIEFTESAMSRNPEKLYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKL 520 + +E TESA+ +P + ++ + +G ++IDDFG G+S+L+YLK +P D LK+ Sbjct: 649 QPAALCLEITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKI 708 Query: 521 DQSFILRMESDYSDQQIVPSMIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIA 580 D+SF+++M D D +IV S + LG LG VVAEGVE+E+ +L+ +GCD GQG+ + Sbjct: 709 DKSFVMKMAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMG 768 Query: 581 RPMNAADCWDW 591 +PM W Sbjct: 769 KPMPVQHFLAW 779 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 193 bits (491), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 148/442 (33%), Positives = 218/442 (49%), Gaps = 28/442 (6%) Query: 164 LRMGSYVDSLTSLPNRSRLVAGVQ--LMQAHTAGLAGLDELPQRLAAVA-VDVCDHTYLT 220 +R + D+LT LPNR+ L +Q L A G L AVA VD+ ++ Sbjct: 262 MRHQATHDALTGLPNRNMLHEHLQRALRVARQKGA---------LTAVAFVDLDQFKFIN 312 Query: 221 DMVKALGWDYVEGFLIQAKERLCQALGEMALY-RIGATSFA-YLDRCDRWQAQADRIRQA 278 D +LG + L +RL L E + R G F L +A + Q Sbjct: 313 D---SLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQR 369 Query: 279 FAATVEH--QGIPHHLEVSVGIVPLSQCPDATELVPSLLTAADVA----RADGHLQCQYE 332 A V Q +V+ I +S+ P + V SLL AD A + G Q+ Sbjct: 370 ILAAVARPWQAGDREFQVTASI-GVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFF 428 Query: 333 QPLGQMQ-KHSFELLSSIPAALLSTDQLWLEFQPKVSLSTGRCAGVEALLRWRHPVHGVI 391 P Q + E+L ++ AL D+ L +QPK+SL GR G EAL+RW P G++ Sbjct: 429 APWMDSQVSNRLEMLINLRRAL-DQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMV 487 Query: 392 SPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRGVA-IPVAINVSARDFDNDDLLQL 450 P FIP AE+ LI + WVL+ Q AW + G+ IPVA+N+S R N L Sbjct: 488 PPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQL-NQSLPDF 546 Query: 451 LGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYGRIQEIKRLGVKVAIDDFGAGFSNLSYL 510 + +L Q + A +E+E TE+ + ++ EK + +KRLG+++++DDFG G+S+LSYL Sbjct: 547 VAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYL 606 Query: 511 KHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRLGFAVVAEGVENEKTRRILQHLG 570 + P D LK+D+SF+ + D IV ++I L L V+AEGVE+E+ L+ Sbjct: 607 RRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENA 666 Query: 571 CDFGQGFGIARPMNAADCWDWI 592 CD QG+ +PM A W+ Sbjct: 667 CDEVQGYYFGKPMEVAVFTAWM 688 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 0.137 0.414 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: 1,873,416 Number of extensions: 78413 Number of successful extensions: 289 Number of sequences better than 1.0e-08: 22 Number of HSP's gapped: 260 Number of HSP's successfully gapped: 22 Length of query: 596 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 505 Effective length of database: 1,188,985 Effective search space: 600437425 Effective search space used: 600437425 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 133 (55.8 bits)