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= 0025.0006.p (554 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... 286 4e-78 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 280 3e-76 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 190 2e-49 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 171 1e-43 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 164 2e-41 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 286 bits (731), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 198/592 (33%), Positives = 304/592 (51%), Gaps = 48/592 (8%) Query: 2 DTRETERILALQQIDALAVLDSKVADGLEHITQLAARHFKVPMAFISLIDGERQWIKRSV 61 D E +R+ L DA +LD++ + IT+LA R F V +A +SL+ RQW K Sbjct: 19 DAAEQQRLAVL---DAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRR 75 Query: 62 GLALRETPRKESFCDYTIRTAEPMVIEDTLLDPRFRDFPLVTGPSAVRFYAGAPLLTADG 121 GL TPR +SFC + I A+ MVI D D RF PLV G +RFYAGA L TADG Sbjct: 76 GLDAPGTPRSQSFCAHAIVQAQTMVIPDARQDERFAGNPLVLGEPGIRFYAGAALRTADG 135 Query: 122 HAIGSFCIADKTPRT-LSEDDRAQLQRMASLVMSHLSLRRAVDRLDPISGMANSHQLADE 180 A+G+ C+ K+PR+ SE D+ +L+R+A++VM+ L + R +D ++ + N +L + Sbjct: 136 VALGTLCLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRSRLVAD 195 Query: 181 LDL-------LVSMGAVEKR-ALVYLDMPDAAAAHDIASALGAAAYDELIRNTGRRLQTL 232 + L L + + +R A V +D+ D D+ ALG + + RL Sbjct: 196 VQLMQAHATGLAGLDELPRRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERLCQA 255 Query: 233 MHEHATVFHIVGTRFALLSHAHDVESFHAVLDGMDEAFDAPLHIQNIPLNLALNAGMVSF 292 + E A ++ I T FA L + + D + +AF A + Q IP +L ++ G+V Sbjct: 256 LGEMA-LYRIGATSFAYLDRC---DRWQDQADRIRQAFAATVEHQGIPHHLEVSVGIVPL 311 Query: 293 NTDRDGVLDAPRKALAAIKQAQSEQRRWSIYNEQEDDTHRRAFRLLNDIP-QVLHADEFR 351 + D P L A A+++ Y + + +F LL+ IP +L D+ Sbjct: 312 SQCPDAAELVP-SLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLW 370 Query: 352 LVFQPKLALAGNTCHSAEALLRW--------TPX---------------------NAFRQ 382 L FQPK++L+ C EALLRW +P Q Sbjct: 371 LEFQPKVSLSTGRCAGVEALLRWRHPIHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQ 430 Query: 383 MRAWAAIGKHPKIALNVSARNLEEPNICARLAGLCNRYDISPSQIEIECTE-GLWMNSEK 441 AWA G +A+NVSAR+ + ++ L L ++ I IEIE TE + N EK Sbjct: 431 ATAWARRGVAIPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEK 490 Query: 442 VLQTLHDIRSLGMSIALDDFGTGYSNFSYLQYVPATTVKLDQSLIRNVHASQRDQRIVRS 501 + + +I+ LG+ +A+DDFG G+SN SYL+++PA +KLDQS I + + DQ+IV S Sbjct: 491 LYGRIQEIKRLGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPS 550 Query: 502 IIALAKDLDYRIVAEGVETEEIMGLVKEWGCNEVQGYFFARPVAADEFLTYL 553 +I L + L + +VAEGVE E+ +++ GC+ QG+ ARP+ A + ++ Sbjct: 551 MIHLGQRLGFAVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWI 602 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 280 bits (715), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 191/584 (32%), Positives = 287/584 (49%), Gaps = 40/584 (6%) Query: 4 RETERILALQQIDALAVLDSKVADGLEHITQLAARHFKVPMAFISLIDGERQWIKRSVGL 63 +E++R L Q+ LD+ + +TQLA F V +A ++L+D RQW K VGL Sbjct: 17 QESQR---LAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVDEHRQWFKSRVGL 73 Query: 64 ALRETPRKESFCDYTIRTAEPMVIEDTLLDPRFRDFPLVTGPSAVRFYAGAPLLTADGHA 123 + ETPR +SFC++ I+T MV+ D L D RF LVTG +RFYAGAPL+T G + Sbjct: 74 EVSETPRADSFCNHAIQTRHGMVVTDALQDARFSRHALVTGAPFIRFYAGAPLVTPQGLS 133 Query: 124 IGSFCIADKTPRT-LSEDDRAQLQRMASLVMSHLSLRRAVDRLDPISGMANSHQLADELD 182 +G+ CI D PR AQL ++A++VM L R +D ++ + N +L + L Sbjct: 134 LGTLCIIDSRPRPDFGASQFAQLNQLAAIVMERLEQLRNRGYIDHVTALPNRARLMEVLR 193 Query: 183 LL--VSMGAVEKRALVYLDMPDAAAAHDIASALGAAAYDELIRNTGRRLQTLMHEHATVF 240 + GA A V +D+ D+ ALG + + R L+ ++ ++ Sbjct: 194 VRGHARPGASGADAAVAVDICPREYLFDMVKALGWDYAEGFLMEVSRTLRRVLGT-LPLY 252 Query: 241 HIVGTRFALLSHAHDVESFHAVLDGMDEAFDAPLHIQNIPLNLALNAGMVSFNTDRDGVL 300 + T F L + + D +++ F L Q IP L + G++ D G Sbjct: 253 RVTTTTFVYLDETAPAQRRRRIAD-IEQRFTPALEFQGIPHLLDIAIGVLPMEEDVSGG- 310 Query: 301 DAPRKALAAIKQAQSEQRRWSIYNEQEDDTHRRAFRLLNDIPQVLHA-DEFRLVFQPKLA 359 D R L I ++ E ++ + R AF LL +P L DE L FQPK+ Sbjct: 311 DVVRSLLTVIDVSREEGVSPRLFESVHAEKQRYAFWLLAALPMALTTPDELVLHFQPKVR 370 Query: 360 LAGNTCHSAEALLRW-------TPXNAF----------RQMRAWA------------AIG 390 L C EAL+RW P + F RQ+ AW G Sbjct: 371 LRDGACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVAQVARWLKSG 430 Query: 391 KHPKIALNVSARNLEEPNICARLAGLCNRYDISPSQIEIECTEGLWMN-SEKVLQTLHDI 449 + +A N SAR+ + + LA + + P+ IEIE TE N ++V Q + + Sbjct: 431 RALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQVRQRVQAL 490 Query: 450 RSLGMSIALDDFGTGYSNFSYLQYVPATTVKLDQSLIRNVHASQRDQRIVRSIIALAKDL 509 R LG+ +A+DDFG G+SN SYL+ +PA T+K+D+S I + + DQ IV SI+ LA +L Sbjct: 491 RELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHNL 550 Query: 510 DYRIVAEGVETEEIMGLVKEWGCNEVQGYFFARPVAADEFLTYL 553 + +VAEG+E+E L++ GC+ QGY ARP+ E +L Sbjct: 551 GFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWL 594 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 190 bits (483), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 146/528 (27%), Positives = 244/528 (46%), Gaps = 61/528 (11%) Query: 75 CDYTIRTAEPMVIEDTLLDPRFRDFPLVTGPSAVRFYAGAPLLTADGHAIGSFCIADKTP 134 C T + ++ ED DP + D+ + P +R P+ +A G IG+F + P Sbjct: 464 CGSAAYTGQTVISEDIQTDPHWNDYKHLALPHGLRACWSTPIKSASGQVIGTFGFYYRHP 523 Query: 135 RTLSEDDRAQLQRMASLVMSHLSLRRAVDRLDPISGMANSHQLA--DELD-------LLV 185 S ++ A L + L++ R R A HQLA D L LLV Sbjct: 524 GQPSAFHHLLVE--AGLHLCALAIEREDAR-------ARIHQLAFYDSLTGLPNRSLLLV 574 Query: 186 SMG----AVEKR----ALVYLDMPDAAAAHDIASALGAAAYDELIRNTGRRLQTLMHEHA 237 G A E+ A++++D+ +D +LG A DEL+R RLQ+ Sbjct: 575 QAGQAIAAAERNCSTVAVMFIDLDRFKQVND---SLGHQAGDELLRTVATRLQSQARRSD 631 Query: 238 TVFHIVGTRFALLSHAHDVESFHAVLDGMDEAFDAPLHIQNIPLNLALNAGMVSFNTDRD 297 V + G F ++ +D + V+ + E P HI PLN + + G+ F + + Sbjct: 632 IVGRLSGDEFVVVLTQYDTQHLTEVVKRIQERLAMPCHINGTPLNPSASIGVAIFPDNGN 691 Query: 298 GVLDAPRKALAAIKQAQSEQR-RWSIYNEQEDDTHRRAFRLLNDIPQVLHADEFRLVFQP 356 + +A A+ QA++ R R+S ++E+ + + L + + L + L FQP Sbjct: 692 DIETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESALRDALRGGDLELNFQP 751 Query: 357 KLALAGNTCHSAEALLRW--------TP---------------------XNAFRQMRAWA 387 ++ L + H EAL RW +P A Q+ W Sbjct: 752 QIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELGKWALEEACFQLSDWR 811 Query: 388 AIG-KHPKIALNVSARNLEEPNICARLAGLCNRYDISPSQIEIECTEGLWMNSE-KVLQT 445 G + P I++N+SA N + ++ + GL RY + PS + +E TE + M++ QT Sbjct: 812 RRGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEITETVLMDTNPSTSQT 871 Query: 446 LHDIRSLGMSIALDDFGTGYSNFSYLQYVPATTVKLDQSLIRNVHASQRDQRIVRSIIAL 505 + + +LG+ +A+DDFGTGYS+ YL+ +P + +KLDQS +R++ + ++I + Sbjct: 872 IAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMAKDPAVSALTNAVIRI 931 Query: 506 AKDLDYRIVAEGVETEEIMGLVKEWGCNEVQGYFFARPVAADEFLTYL 553 + L +VAEGVE E L+ GC+ QGY F+RP++AD ++ Sbjct: 932 GESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALENWV 979 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 171 bits (433), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 123/423 (29%), Positives = 208/423 (49%), Gaps = 36/423 (8%) Query: 166 DPISGMANSHQLADELDLLVSMGAVEKRALVYLDMPDAAAAHDIASALGAAAYDELIRNT 225 D ++G+ N + L + L + + A +K AL + D I +LG DEL++ Sbjct: 269 DALTGLPNRNMLHEHLQRALRV-ARQKGALTAVAFVDLDQFKFINDSLGHQVGDELLKTV 327 Query: 226 GRRLQTLMHEHATVFHIVGTRFALL--SHAHDVESFHAVLDGMDEAFDAPLHIQNIPLNL 283 +RLQ + E V G F L+ + V+ + A P + + Sbjct: 328 AQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQAGDREFQV 387 Query: 284 ALNAGMVSFNTDRDGVLDAPRKALAAIKQAQSEQRR-WSIYNEQEDDTHRRAFRLLNDIP 342 + G+ + D V + A +A+ +A+ + R + + D +L ++ Sbjct: 388 TASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLR 447 Query: 343 QVLHADEFRLVFQPKLALAGNTCHSAEALLRW-------TPXNAF--------------- 380 + L DEF+L +QPKL+L AEAL+RW P + F Sbjct: 448 RALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGE 507 Query: 381 -------RQMRAWAAIGKHP-KIALNVSARNLEEPNICARLAGLCNRYDISPSQIEIECT 432 RQ +AW G P +A+N+S R L + ++ +AG+ + ++ S +E+E T Sbjct: 508 WVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQ-SLPDFVAGVLAQSGLAASWLELEIT 566 Query: 433 EGLWM-NSEKVLQTLHDIRSLGMSIALDDFGTGYSNFSYLQYVPATTVKLDQSLIRNVHA 491 E + M ++EK + TLH ++ LG+ I++DDFGTGYS+ SYL+ P +K+D+S +R++ Sbjct: 567 ENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVR 626 Query: 492 SQRDQRIVRSIIALAKDLDYRIVAEGVETEEIMGLVKEWGCNEVQGYFFARPVAADEFLT 551 IV++II+LA L+ R++AEGVE EE +KE C+EVQGY+F +P+ F Sbjct: 627 DADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVAVFTA 686 Query: 552 YLT 554 +++ Sbjct: 687 WMS 689 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 123/423 (29%), Positives = 201/423 (47%), Gaps = 41/423 (9%) Query: 166 DPISGMANSHQLADELDLLVSMGAVEKRALVYLDMPDAAAAHDIASALGAAAYDELIRNT 225 D ++G+ N Q AD L ++ A A Y+ M D + LG + D+L+R Sbjct: 362 DQLTGLPNRVQFADLLRDAIAEAARTPGAACYILMMDLDRFQQVNDVLGHSFGDDLLRQV 421 Query: 226 GRRLQT-LMHEHATVFHIVGTRFALLSHAHD----VESFHAVLDGMDEAFDAPLHIQNIP 280 RL L+H A + + G FA+L D VE +L +++ LH Q + Sbjct: 422 ALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRALEQPLS--LHQQTVD 479 Query: 281 LNLALN-AGMVSFNTDRDGVLDAPRKALAAIKQAQSEQRRWSIYNEQEDDTHRRAFRLLN 339 L + +G + D +L A+ K+ S IY+ D + + + LL+ Sbjct: 480 LGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSG---LVIYDPAIDQSSQESLSLLS 536 Query: 340 DIPQVLHADEFRLVFQPKLALAGNTCHSAEALLRWT-PXNAF----------------RQ 382 ++ + L DEF L QPKL L AEAL+RW P F R Sbjct: 537 ELRRALERDEFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFAETTGFIRM 596 Query: 383 MRAWAA------------IGKHPKIALNVSARNLEEPNICARLAGLCNRYDISPSQIEIE 430 + W G K ++N+S R+L + + A + R+ + P+ + +E Sbjct: 597 LTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRLQPAALCLE 656 Query: 431 CTEGLWMNSEKVLQ-TLHDIRSLGMSIALDDFGTGYSNFSYLQYVPATTVKLDQSLIRNV 489 TE M+ Q TL + ++G ++++DDFGTGYS+ +YL+ +P +K+D+S + + Sbjct: 657 ITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKIDKSFVMKM 716 Query: 490 HASQRDQRIVRSIIALAKDLDYRIVAEGVETEEIMGLVKEWGCNEVQGYFFARPVAADEF 549 Q D +IVRS + L +L R+VAEGVE+EE+ L+++ GC++ QGYF +P+ F Sbjct: 717 AQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVQHF 776 Query: 550 LTY 552 L + Sbjct: 777 LAW 779 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 0.322 0.135 0.396 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: 1,647,465 Number of extensions: 66833 Number of successful extensions: 246 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 28 Length of query: 554 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 464 Effective length of database: 1,193,720 Effective search space: 553886080 Effective search space used: 553886080 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)