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= 0034.0005.p (661 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 300 3e-82 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 217 2e-57 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 214 2e-56 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 198 1e-51 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 193 3e-50 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 300 bits (767), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 181/469 (38%), Positives = 263/469 (56%), Gaps = 29/469 (6%) Query: 198 VSGKQEDPKVLAAIDRALSQWQADPDSMYFQILRKWGRGNTSLPPHVWWLLCGALALLLC 257 ++ +++P++ A + R + + + + + +RK G V+WL L C Sbjct: 401 IAHPEDEPRIRAELARCMDGQKRE--DVELRCVRKDG--------SVFWLA------LSC 444 Query: 258 ALLIAAYLR----REVARRTARLQQSETSLRIAAAAFHSSEAIWVLDAGRNVLDANAAFI 313 A + A R R +R +Q E LRI+A AF S E + + DA +L N AF Sbjct: 445 APIHDAQGRFTGFRTSSRDITDRKQIEAELRISAVAFDSREGMLITDANSKILRVNKAFT 504 Query: 314 ALTGYQLHELPAEGMPPCQREQDQEDFRARLWTLVQRNGKWQGEVRVWRKNGETFCAMLT 373 +TGY E+ + + ++ F + ++R GKWQGE+ RKNGE + LT Sbjct: 505 EITGYSAEEIVGKHPNLLRSDRHGPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLT 564 Query: 374 LTAVADPAGHITHYVGTQIDISDQKRLQDETRQLAFYDPLTGLPNRRLLLDQIAAASYLG 433 ++AV + +THYV T DISD+K ++ R+LAF+D LT LPNR LLLD++ A L Sbjct: 565 ISAVKNKDQQVTHYVSTHHDISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIALS 624 Query: 434 ----QPSALFFIDIDNFKDLNDALGHSIGDRLLCRIATRL-QELAGGALVARLGGDEFVI 488 +AL FID+D+FK LND +GH GD LL ++A RL + VAR+GGDEFV+ Sbjct: 625 LRTKTCAALLFIDLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVV 684 Query: 489 LQQ--QPLASPALIEESACGFAQRIVAAMEQRFDLDGLSHFATCSVGIALMHGQGASVED 546 + + L A + A G ++I+ A+ + LD + + T S+G + G+ ASV++ Sbjct: 685 VLEGLNELQQEAATQTRAIG--EKILTALGSTYQLDDVEYRTTASIGATVFLGRAASVDE 742 Query: 547 LLRQGDLAMYAAKQKGRNTSCLFDQEMEHALHFRIGLESDLRRAIGSSEFLLHYQPQRDQ 606 L++Q DLAMY AK+ GRN FD M+ A+ R LE+ LR+AI ++ LLHYQPQ + Sbjct: 743 LMKQADLAMYKAKETGRNALRFFDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQVVE 802 Query: 607 AGNLIGVEALARWNSPFRGSVSPAIFIPVAEASGLILPLGLWVFQQACR 655 G + G E L RW P RG V P FIP+AE +GLIL LG WV + ACR Sbjct: 803 GGRVTGAEVLVRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACR 851 >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 = 217 bits (553), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 161/439 (36%), Positives = 219/439 (49%), Gaps = 37/439 (8%) Query: 247 LLCGALALLLCALLIAAYLRRE------VARRTARLQQS--------------ETSLRIA 286 LL G +A LL A + A R V RTA L+ + E +LR+ Sbjct: 334 LLVGVIASLLGAAYMRALSMRSHRIQQLVEERTAELRTTNALLSDDIKARRLAERALRLR 393 Query: 287 AAAFHSS-EAIWVLDAGR---NVLDANAAFIALTGYQLHELPAEGMPPCQ-REQDQEDFR 341 A +S AI +L A + N AF +TGY E + + + R+ D E F Sbjct: 394 HQAIEASANAILILSAQEPDYTIEYVNPAFARITGYSSTEAVGKSIRFLEGRDSDPEGFE 453 Query: 342 ARLWTLVQRNGKWQGEVRVWRKNGETFCAMLTLTAVADPAGHITHYVGTQIDISDQKRLQ 401 +W ++ + +R + K+G + V D +G +TH+V DI+ KR + Sbjct: 454 T-VWIAMREQREHNVVLRNYHKDGSELWNDFYIAPVRDESGEVTHFVAALYDITSMKRYE 512 Query: 402 DETRQLAFYDPLTGLPNRRLL---LDQ-IAAASYLGQPSALFFIDIDNFKDLNDALGHSI 457 E A D LTGL NR +L L+Q I A Q + F+D+D FK +ND LGH Sbjct: 513 AELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKA 572 Query: 458 GDRLLCRIATRLQELAGGA-LVARLGGDEFVILQQQPLASPALIEESACGFAQRIVAAME 516 GD LL +A RL+ A VARLGGDEF+++ P ++ + QRI+ A+ Sbjct: 573 GDTLLRTVAGRLRAAVREADTVARLGGDEFIMIL--PEQDELTLDTRSL---QRIMDAVA 627 Query: 517 QRFDLDGLSHFATCSVGIALMHGQGASVEDLLRQGDLAMYAAKQKGRNTSCLFDQEMEHA 576 L G + F TCSVG+A G E L++ D+AMY KQ GRN + M Sbjct: 628 APVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQ 687 Query: 577 LHFRIGLESDLRRAIGSSEFLLHYQPQRDQA-GNLIGVEALARWNSPFRGSVSPAIFIPV 635 R+ +E DLR A+ EFLLHYQP+ D A G +IG EAL RW P G VSPA FI + Sbjct: 688 ALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGL 747 Query: 636 AEASGLILPLGLWVFQQAC 654 AE +GLILP+G WV + AC Sbjct: 748 AEETGLILPIGAWVLRAAC 766 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 214 bits (545), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 145/403 (35%), Positives = 207/403 (51%), Gaps = 12/403 (2%) Query: 261 IAAYLRREVARRTARLQQSETSLRIAAAAFHSSEAIWVLDAGRNVLDANAAFIALTGYQL 320 I +L+ R+ A E R + ++ E ++ + N A + GY Sbjct: 117 IEGFLQDVTERKEAAQALQEAERRYRSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHS 176 Query: 321 HELPAEGMPPCQREQDQE-DFRARLWTLVQRNGKWQG-EVRVWRKNGETFCAMLTLTAVA 378 E G+ + E + R L++ G E RV+R++GE AV Sbjct: 177 PEDLIVGLRDISHQLYVEPERRQEFMRLMEEQGSVSNFESRVYRRDGEIIWISENARAVY 236 Query: 379 DPAGHITHYVGTQIDISDQKRLQDETRQLAFYDPLTGLPNRRLLLDQIA----AASYLGQ 434 D AG ++ Y GT I+++K + E R A +D LTGLPNR +L + + A G Sbjct: 237 DEAGKLSCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGA 296 Query: 435 PSALFFIDIDNFKDLNDALGHSIGDRLLCRIATRLQE-LAGGALVARLGGDEFVILQQQP 493 +A+ F+D+D FK +ND+LGH +GD LL +A RLQ L +VAR GGDEFV++ Q Sbjct: 297 LTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQ 356 Query: 494 LASPALIEESACGFAQRIVAAMEQRFDLDGLSHFATCSVGIALMHGQGASVEDLLRQGDL 553 A I E QRI+AA+ + + T S+G++ G VE LL+ D Sbjct: 357 TEGEAGIAE----VMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADS 412 Query: 554 AMYAAKQKGRNTSCLFDQEMEHALHFRIGLESDLRRAIGSSEFLLHYQPQRD-QAGNLIG 612 AMY AK++GRN F M+ + R+ + +LRRA+ EF L+YQP+ Q G LIG Sbjct: 413 AMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIG 472 Query: 613 VEALARWNSPFRGSVSPAIFIPVAEASGLILPLGLWVFQQACR 655 EAL RW SP +G V P FIP AE +GLI+P+G WV + ACR Sbjct: 473 AEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACR 515 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 198 bits (504), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 142/412 (34%), Positives = 204/412 (49%), Gaps = 25/412 (6%) Query: 260 LIAAYL------RREVARRTARLQQSETSLRIAAAAFHS-SEAIWVLDAGRNVLDANAAF 312 ++AA+L R + +R L Q E L A + E++ +D + N Sbjct: 92 MLAAFLGRLMQGRADTEQRVRALDQIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGA 151 Query: 313 IALTGYQLHELPAEGMPPCQREQDQEDFRARLWTLVQRNGKWQGEVRVWRKNGETFCAML 372 L GY E + +D+ED L L +G + EVR +K+GE F A L Sbjct: 152 EQLFGYSAMEAIGRNVLFLYENEDEED---SLHDLFLEHGGREMEVRRRKKSGEVFWASL 208 Query: 373 TLTAVADPAGHITHYVGTQIDISDQKRLQDETRQLAFYDPLTGLPNRRLL---LDQ-IAA 428 +L+ + D GH +G DI+++K + LA+YD LTGLPNR LL +DQ + Sbjct: 209 SLSVMRDQNGHPIGLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEE 268 Query: 429 ASYLGQPSALFFIDIDNFKDLNDALGHSIGDRLLCRIATRLQE-LAGGALVARLGGDEFV 487 A + + FID++ FK +ND LGH GD LL +A RL+ L +VARLG DEF Sbjct: 269 ARHENLHGCVMFIDLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFA 328 Query: 488 ILQQQPLASPALIEESACGFAQRIVAAMEQRFDLDGLSHFATCSVGIALMHGQGASVEDL 547 + A + ++S AQ+++A + F +DG S+G++L E L Sbjct: 329 V------ALFGIDKDSPAYVAQKLLALFDDPFFIDGHELRVGASIGVSLYPENATDTETL 382 Query: 548 LRQGDLAMYAAKQKGRNTS---CLFDQEMEHALHFRIGLESDLRRAIGSSEFLLHYQPQR 604 LR D+AMY AKQ G N + +EM + +E+ L A +E LL+YQP+ Sbjct: 383 LRLADIAMYRAKQGGENNEGGYACYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKV 442 Query: 605 D-QAGNLIGVEALARWNSPFRGSVSPAIFIPVAEASGLILPLGLWVFQQACR 655 D Q + G EAL RW P RG + P FIP+AE +GLI+ L WV CR Sbjct: 443 DMQTLAITGAEALVRWQHPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCR 494 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 193 bits (491), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 110/262 (41%), Positives = 160/262 (61%), Gaps = 11/262 (4%) Query: 399 RLQDETRQLAFYDPLTGLPNRRLLLDQIAAASYL----GQPSALFFIDIDNFKDLNDALG 454 R D+ A +D LTGLPNR LL D+I A + G+ A+ F+D+D FK +ND+LG Sbjct: 253 RTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLG 312 Query: 455 HSIGDRLLCRIATRLQE-LAGGALVARLGGDEFVILQQQPLASPALIEESACGFAQRIVA 513 H++GD LL +A R+++ L G +VAR+GGDEFV++ L+SP ++E+ ++ I+A Sbjct: 313 HAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGN-LSSPDVVEQ----LSENILA 367 Query: 514 AMEQRFDLDGLSHFATCSVGIALMHGQGASVEDLLRQGDLAMYAAKQKGRNTSCLFDQEM 573 A+ Q F +D + T S+GIA+ G SV+ L++ D AMY AKQ GRNT F+ M Sbjct: 368 ALRQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAM 427 Query: 574 EHALHFRIGLESDLRRAIGSSEFLLHYQPQ-RDQAGNLIGVEALARWNSPFRGSVSPAIF 632 + + + L++AI +F LH+QP+ R + L G+EAL RW P G ++P F Sbjct: 428 HASAMRHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPTEF 487 Query: 633 IPVAEASGLILPLGLWVFQQAC 654 IP+AE SG IL +G WV Q C Sbjct: 488 IPIAERSGQILCIGDWVLQAVC 509 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 0.418 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: 2,100,752 Number of extensions: 88848 Number of successful extensions: 379 Number of sequences better than 1.0e-08: 42 Number of HSP's gapped: 306 Number of HSP's successfully gapped: 42 Length of query: 661 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 570 Effective length of database: 1,188,985 Effective search space: 677721450 Effective search space used: 677721450 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: 134 (56.2 bits)