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= 0001.1175.p (594 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... 924 0.0 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 646 0.0 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 211 1e-55 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 210 3e-55 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 209 5e-55 >gi|300310696|ref|YP_003774788.1| hypothetical protein Hsero_1364 [Herbaspirillum seropedicae SmR1] Length = 606 Score = 924 bits (2388), Expect = 0.0, Method: Compositional matrix adjust. Identities = 455/585 (77%), Positives = 506/585 (86%), Gaps = 5/585 (0%) Query: 13 EQHRLAMLETYCVLDTQPDVLCDMVTELAATLFKTEIALVSLVAEHRQWFKSRRGLEAEG 72 EQ RLA+L+ YC+LDTQPD LCDM+TELA LF EIALVSLVAEHRQWFKSRRGL+A G Sbjct: 22 EQQRLAVLDAYCLLDTQPDPLCDMITELATRLFDVEIALVSLVAEHRQWFKSRRGLDAPG 81 Query: 73 TPRSQSFCSHAIEQEQVMVVLDATQDARFADNPLVTGAPGIRFYAGAPLLASDGLRLGTL 132 TPRSQSFC+HAI Q Q MV+ DA QD RFA NPLV G PGIRFYAGA L +DG+ LGTL Sbjct: 82 TPRSQSFCAHAIVQAQTMVIPDARQDERFAGNPLVLGEPGIRFYAGAALRTADGVALGTL 141 Query: 133 CLIGKSPRAQFSAAEAHTLAQLAAIVMARLDSLRVSSYVDSLTSLPNRSRLLVDLQSLQA 192 CLIGKSPR+QFS + L +LAAIVMARLD LR+ SYVDSLTSLPNRSRL+ D+Q +QA Sbjct: 142 CLIGKSPRSQFSEVDQDRLERLAAIVMARLDMLRMGSYVDSLTSLPNRSRLVADVQLMQA 201 Query: 193 ----LAGSSEVFSDKLTAVAVDICDQVYLGDMIKALGWDYVEGFLVQATERLRQALGEVA 248 LAG E+ +L AVAVD+CD YL DM+KALGWDYVEGFL+QA ERL QALGE+A Sbjct: 202 HATGLAGLDEL-PRRLAAVAVDVCDHTYLTDMVKALGWDYVEGFLIQAKERLCQALGEMA 260 Query: 249 LYRIGTTSFAYLERNERWQEQARQVEGAFARTVEHQGIPHHLEVSVGIVPLSQCTDADEL 308 LYRIG TSFAYL+R +RWQ+QA ++ AFA TVEHQGIPHHLEVSVGIVPLSQC DA EL Sbjct: 261 LYRIGATSFAYLDRCDRWQDQADRIRQAFAATVEHQGIPHHLEVSVGIVPLSQCPDAAEL 320 Query: 309 VPSLLTATDVARECGSRRCHYEQPLGQMQKHSFELLSAIPAALFSSDQLWLEFQPKVGLL 368 VPSLLTA DVAR G +C YEQPLGQMQKHSFELLS+IPAAL S+DQLWLEFQPKV L Sbjct: 321 VPSLLTAADVARADGHLQCQYEQPLGQMQKHSFELLSSIPAALLSTDQLWLEFQPKVSLS 380 Query: 369 SGQCAGVEALLRWRHPVHGVVSPGLFIPLAEKSALIRQVTLWVLQHGIEQAAAWARQGRA 428 +G+CAGVEALLRWRHP+HGV+SP LFIPLAEK+ALIRQVTLWVLQ GIEQA AWAR+G A Sbjct: 381 TGRCAGVEALLRWRHPIHGVISPALFIPLAEKTALIRQVTLWVLQRGIEQATAWARRGVA 440 Query: 429 IPVAINVSARDFDNDDLVQTLAAQLHRHRLPAGLIEIEFTESAMSKHPEKLYSKIQEIKR 488 IPVAINVSARDFDNDDL+Q L L +HR+PAGLIEIEFTESAMS++PEKLY +IQEIKR Sbjct: 441 IPVAINVSARDFDNDDLLQLLGRLLEQHRIPAGLIEIEFTESAMSRNPEKLYGRIQEIKR 500 Query: 489 LGVKVAIDDFGAGFSNLSYLKNIPADYLKIDQSFIRNMESNYSDQQIVPSMIHLGQKLGF 548 LGVKVAIDDFGAGFSNLSYLK+IPADYLK+DQSFI MES+YSDQQIVPSMIHLGQ+LGF Sbjct: 501 LGVKVAIDDFGAGFSNLSYLKHIPADYLKLDQSFILRMESDYSDQQIVPSMIHLGQRLGF 560 Query: 549 AVVAEGVETERCRRILQHLGCEYGQGYGIARPMSAADTWDWIAAR 593 AVVAEGVE E+ RRILQHLGC++GQG+GIARPM+AAD WDWI AR Sbjct: 561 AVVAEGVENEKTRRILQHLGCDFGQGFGIARPMNAADCWDWIGAR 605 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 646 bits (1667), Expect = 0.0, Method: Compositional matrix adjust. Identities = 319/584 (54%), Positives = 411/584 (70%), Gaps = 5/584 (0%) Query: 12 QEQHRLAMLETYCVLDTQPDVLCDMVTELAATLFKTEIALVSLVAEHRQWFKSRRGLEAE 71 QE RLA L YC LDT PD LCD VT+LA ++F EIALV+LV EHRQWFKSR GLE Sbjct: 17 QESQRLAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVDEHRQWFKSRVGLEVS 76 Query: 72 GTPRSQSFCSHAIEQEQVMVVLDATQDARFADNPLVTGAPGIRFYAGAPLLASDGLRLGT 131 TPR+ SFC+HAI+ MVV DA QDARF+ + LVTGAP IRFYAGAPL+ GL LGT Sbjct: 77 ETPRADSFCNHAIQTRHGMVVTDALQDARFSRHALVTGAPFIRFYAGAPLVTPQGLSLGT 136 Query: 132 LCLIGKSPRAQFSAAEAHTLAQLAAIVMARLDSLRVSSYVDSLTSLPNRSRLLVDLQSLQ 191 LC+I PR F A++ L QLAAIVM RL+ LR Y+D +T+LPNR+RL+ + L+ Sbjct: 137 LCIIDSRPRPDFGASQFAQLNQLAAIVMERLEQLRNRGYIDHVTALPNRARLM---EVLR 193 Query: 192 ALAGSSEVFSDKLTAVAVDICDQVYLGDMIKALGWDYVEGFLVQATERLRQALGEVALYR 251 + S AVAVDIC + YL DM+KALGWDY EGFL++ + LR+ LG + LYR Sbjct: 194 VRGHARPGASGADAAVAVDICPREYLFDMVKALGWDYAEGFLMEVSRTLRRVLGTLPLYR 253 Query: 252 IGTTSFAYLERNERWQEQAR--QVEGAFARTVEHQGIPHHLEVSVGIVPLSQCTDADELV 309 + TT+F YL+ Q + R +E F +E QGIPH L++++G++P+ + ++V Sbjct: 254 VTTTTFVYLDETAPAQRRRRIADIEQRFTPALEFQGIPHLLDIAIGVLPMEEDVSGGDVV 313 Query: 310 PSLLTATDVARECGSRRCHYEQPLGQMQKHSFELLSAIPAALFSSDQLWLEFQPKVGLLS 369 SLLT DV+RE G +E + Q+++F LL+A+P AL + D+L L FQPKV L Sbjct: 314 RSLLTVIDVSREEGVSPRLFESVHAEKQRYAFWLLAALPMALTTPDELVLHFQPKVRLRD 373 Query: 370 GQCAGVEALLRWRHPVHGVVSPGLFIPLAEKSALIRQVTLWVLQHGIEQAAAWARQGRAI 429 G C GVEAL+RW HP+HG + P +FIPLAEK+ IRQVT WVL+ + Q A W + GRA+ Sbjct: 374 GACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVAQVARWLKSGRAL 433 Query: 430 PVAINVSARDFDNDDLVQTLAAQLHRHRLPAGLIEIEFTESAMSKHPEKLYSKIQEIKRL 489 PVA N SARDFD+D+L + LA QL H++P LIEIEFTE AM+ HP+++ ++Q ++ L Sbjct: 434 PVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQVRQRVQALREL 493 Query: 490 GVKVAIDDFGAGFSNLSYLKNIPADYLKIDQSFIRNMESNYSDQQIVPSMIHLGQKLGFA 549 GVKVAIDDFGAGFSNLSYLKNIPAD +KID+SFI + + +DQ IVPS++HL LGF+ Sbjct: 494 GVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSILHLAHNLGFS 553 Query: 550 VVAEGVETERCRRILQHLGCEYGQGYGIARPMSAADTWDWIAAR 593 VVAEG+E+ER +L+HLGC+YGQGY IARPM A+ W+ R Sbjct: 554 VVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWLERR 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 = 177/595 (29%), Positives = 273/595 (45%), Gaps = 50/595 (8%) Query: 26 LDTQPDVLCDMVTELAATLFKTEIALVSLVAEHRQWFKSRRGLEAEGTPRSQS------- 78 L Q ++LC+ V +A + IA V V EH R L A P + S Sbjct: 405 LSEQMNLLCEEVERVAPEV----IASVLRVDEH----GCLRTLAAPSLPEAYSKAIDGLH 456 Query: 79 ------FCSHAIEQEQVMVVLDATQDARFADNPLVTGAPGIRFYAGAPLLASDGLRLGTL 132 C A Q ++ D D + D + G+R P+ ++ G +GT Sbjct: 457 VGPMVGCCGSAAYTGQTVISEDIQTDPHWNDYKHLALPHGLRACWSTPIKSASGQVIGTF 516 Query: 133 CLIGKSPRAQFSAAEAHTLAQ----LAAIVMARLDS---LRVSSYVDSLTSLPNRSRLLV 185 + P Q SA H L + L A+ + R D+ + ++ DSLT LPNRS LLV Sbjct: 517 GFYYRHP-GQPSAFH-HLLVEAGLHLCALAIEREDARARIHQLAFYDSLTGLPNRSLLLV 574 Query: 186 DLQSLQALAGSSEVFSDKLTAVAVDICDQVYLGDMIKALGWDYVEGFLVQATERLR-QAL 244 Q+ QA+A + + VAV D + +LG + L RL+ QA Sbjct: 575 --QAGQAIAAAER----NCSTVAVMFIDLDRFKQVNDSLGHQAGDELLRTVATRLQSQAR 628 Query: 245 GEVALYRIGTTSFAYL---ERNERWQEQARQVEGAFARTVEHQGIPHHLEVSVGIVPLSQ 301 + R+ F + + E ++++ A G P + S+G+ Sbjct: 629 RSDIVGRLSGDEFVVVLTQYDTQHLTEVVKRIQERLAMPCHINGTPLNPSASIGVAIFP- 687 Query: 302 CTDADELVPSLLTATDVARECGS-----RRCHYEQPLGQMQKHSFELLSAIPAALFSSDQ 356 D + +LL D+A R + + + M + L SA+ AL D Sbjct: 688 --DNGNDIETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESALRDALRGGD- 744 Query: 357 LWLEFQPKVGLLSGQCAGVEALLRWRHPVHGVVSPGLFIPLAEKSALIRQVTLWVLQHGI 416 L L FQP++ L GVEAL RW HP G +SPG FIP+AE+ LI ++ W L+ Sbjct: 745 LELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELGKWALEEAC 804 Query: 417 EQAAAWARQGRAIP-VAINVSARDFDNDDLVQTLAAQLHRHRLPAGLIEIEFTESAMSKH 475 Q + W R+G +P +++N+SA +F + DL Q + L R+ L + +E TE+ + Sbjct: 805 FQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEITETVLMDT 864 Query: 476 PEKLYSKIQEIKRLGVKVAIDDFGAGFSNLSYLKNIPADYLKIDQSFIRNMESNYSDQQI 535 I + LG+ +A+DDFG G+S+L YL+ +P LK+DQSF+R+M + + + Sbjct: 865 NPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMAKDPAVSAL 924 Query: 536 VPSMIHLGQKLGFAVVAEGVETERCRRILQHLGCEYGQGYGIARPMSAADTWDWI 590 ++I +G+ L VVAEGVE +L GC+ QGY +RPMSA +W+ Sbjct: 925 TNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALENWV 979 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 210 bits (534), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 148/433 (34%), Positives = 218/433 (50%), Gaps = 14/433 (3%) Query: 165 LRVS--SYVDSLTSLPNRSRLLVDLQSLQALAGSSEVFSDKLTAVAVDICDQVYLGDMIK 222 L++S +Y D LT LPNR + L+ A A + + + + +D QV Sbjct: 353 LKISRLAYQDQLTGLPNRVQFADLLRDAIAEAARTPGAACYILMMDLDRFQQVN-----D 407 Query: 223 ALGWDYVEGFLVQATERLRQALGE--VALYRIGTTSFAYL---ERNERWQEQARQVEGAF 277 LG + + L Q RL L L R+G FA L E EQA Q+ A Sbjct: 408 VLGHSFGDDLLRQVALRLSAQLLHPGAKLSRLGGDEFAILLPGVDQEGAVEQALQILRAL 467 Query: 278 ARTVEHQGIPHHLEVSVGIVPL-SQCTDADELVPSLLTATDVARECGSRRCHYEQPLGQM 336 + + L +GI + +D L+ A +A+ GS Y+ + Q Sbjct: 468 EQPLSLHQQTVDLGAGIGISGYPAHGQSSDVLLSHAEVAMYIAKRKGSGLVIYDPAIDQS 527 Query: 337 QKHSFELLSAIPAALFSSDQLWLEFQPKVGLLSGQCAGVEALLRWRHPVHGVVSPGLFIP 396 + S LLS + AL D+ L QPK+ L SGQ G EAL+RW HP G + P FIP Sbjct: 528 SQESLSLLSELRRAL-ERDEFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIP 586 Query: 397 LAEKSALIRQVTLWVLQHGIEQAAAWARQGRAIPVAINVSARDFDNDDLVQTLAAQLHRH 456 AE + IR +TLW+++ + +QG + ++N+S RD + +L AA L RH Sbjct: 587 FAETTGFIRMLTLWMMEQVARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRH 646 Query: 457 RLPAGLIEIEFTESAMSKHPEKLYSKIQEIKRLGVKVAIDDFGAGFSNLSYLKNIPADYL 516 RL + +E TESA+ P + + ++ + +G ++IDDFG G+S+L+YLK +P D L Sbjct: 647 RLQPAALCLEITESAIMDDPARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDEL 706 Query: 517 KIDQSFIRNMESNYSDQQIVPSMIHLGQKLGFAVVAEGVETERCRRILQHLGCEYGQGYG 576 KID+SF+ M + D +IV S + LG LG VVAEGVE+E +L+ +GC+ GQGY Sbjct: 707 KIDKSFVMKMAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYF 766 Query: 577 IARPMSAADTWDW 589 + +PM W Sbjct: 767 MGKPMPVQHFLAW 779 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 209 bits (532), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 143/433 (33%), Positives = 218/433 (50%), Gaps = 20/433 (4%) Query: 163 DSLRVSSYVDSLTSLPNRSRLLVDLQSLQALAGSSEVFSDKLTAVAVDICDQVYLGDMIK 222 + +R ++ D+LT LPNR+ LL L+ AL+ ++ T A+ D + + Sbjct: 593 ERIRELAFFDALTRLPNRTLLLDRLKQAIALSLRTK------TCAALLFIDLDHFKTLND 646 Query: 223 ALGWDYVEGFLVQATERLRQALGEV-ALYRIGTTSFAYLER--NERWQEQARQVEG---- 275 +G + + L Q +RL + E + R+G F + NE QE A Q Sbjct: 647 TIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLNELQQEAATQTRAIGEK 706 Query: 276 ---AFARTVEHQGIPHHLEVSVG-IVPLSQCTDADELVPSLLTATDVARECGSRRCHYEQ 331 A T + + + S+G V L + DEL+ A A+E G + Sbjct: 707 ILTALGSTYQLDDVEYRTTASIGATVFLGRAASVDELMKQADLAMYKAKETGRNALRFFD 766 Query: 332 PLGQMQKHSFELLSAIPAALFSSDQLWLEFQPKVGLLSGQCAGVEALLRWRHPVHGVVSP 391 P Q L A +QL L +QP+V + G+ G E L+RW+HP G+V P Sbjct: 767 PAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQV-VEGGRVTGAEVLVRWQHPQRGMVPP 825 Query: 392 GLFIPLAEKSALIRQVTLWVLQHGIEQAAAWARQGRA--IPVAINVSARDFDNDDLVQTL 449 G FIPLAE++ LI + WVL+ Q A WA Q + + +A+NVSA D VQT+ Sbjct: 826 GDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMADLSIAVNVSAPQLREPDFVQTV 885 Query: 450 AAQLHRHRLPAGLIEIEFTESAMSKHPEKLYSKIQEIKRLGVKVAIDDFGAGFSNLSYLK 509 + R +++E TES + + E + K+ +K GV+ ++DDFG G+S+LSYLK Sbjct: 886 LDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKAYGVEFSLDDFGTGYSSLSYLK 945 Query: 510 NIPADYLKIDQSFIRNMESNYSDQQIVPSMIHLGQKLGFAVVAEGVETERCRRILQHLGC 569 +P + LKIDQSF+R++ + +D I ++++L Q LG V+AEGVET+ R L GC Sbjct: 946 RLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGLGVIAEGVETDAQRSFLADAGC 1005 Query: 570 EYGQGYGIARPMS 582 QGY RP++ Sbjct: 1006 HAYQGYFFCRPVT 1018 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 0.134 0.399 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: 1,799,568 Number of extensions: 73480 Number of successful extensions: 275 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 244 Number of HSP's successfully gapped: 23 Length of query: 594 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 503 Effective length of database: 1,188,985 Effective search space: 598059455 Effective search space used: 598059455 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)