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= 0056.0008.p (454 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314042|ref|YP_003778134.1| signal transduction protein con... 173 3e-44 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 166 4e-42 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 147 2e-36 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 135 6e-33 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 129 5e-31 >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 = 173 bits (438), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 95/233 (40%), Positives = 127/233 (54%), Gaps = 41/233 (17%) Query: 256 VHRLSNYDVLTGLPNRSLLXLRWQHPEKGMISPMEFIPLAEETGLIVPIGEWVLRTACEQ 315 +H D+ +G S +RWQHP+ GM+SP FI LAEETGLI+PIG WVLR AC Q Sbjct: 709 LHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQ 768 Query: 316 AQRWHDLGVHGLTMAVNLSAKQFAQKNLAAMVRQALDDSGFSSHCLELELTESASME--- 372 ++W G ++++VNLS QF QK+L + + L+D+G LELELTES M Sbjct: 769 CRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELELTESLMMTDVE 828 Query: 373 --------------------------------------XKIDRSFVRDVGTDADDLAIAR 394 KIDRSFVRD+ DADD AI Sbjct: 829 HAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITA 888 Query: 395 AVIALARSLHLEVLAEGVEDLVQYEIMKENGCDKVQGYYFSTPLAVDECTRLL 447 ++I+LAR L L V+AEGVE Q + ++ GCD++QGY FS P+ D+ ++L Sbjct: 889 SIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFEQIL 941 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 166 bits (420), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 90/206 (43%), Positives = 116/206 (56%), Gaps = 42/206 (20%) Query: 276 LRWQHPEKGMISPMEFIPLAEETGLIVPIGEWVLRTACEQAQRWHDLGVHGLTMAVNLSA 335 +RW+ P++GM+ P FIP AEE GLIVPIGEWVLRTAC Q Q W G+ + +AVNLS Sbjct: 477 IRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSP 536 Query: 336 KQFAQKNLAAMVRQALDDSGFSSHCLELELTESASME----------------------- 372 +Q Q +L V L SG ++ LELE+TE+ M+ Sbjct: 537 RQLNQ-SLPDFVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDD 595 Query: 373 ------------------XKIDRSFVRDVGTDADDLAIARAVIALARSLHLEVLAEGVED 414 KID+SFVRD+ DAD AI +A+I+LA L+L V+AEGVED Sbjct: 596 FGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVED 655 Query: 415 LVQYEIMKENGCDKVQGYYFSTPLAV 440 Q+ +KEN CD+VQGYYF P+ V Sbjct: 656 EEQHAFLKENACDEVQGYYFGKPMEV 681 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 80/204 (39%), Positives = 108/204 (52%), Gaps = 41/204 (20%) Query: 276 LRWQHPEKGMISPMEFIPLAEETGLIVPIGEWVLRTACEQAQRWHDLGVHGLTMAVNLSA 335 LRW+HP G+++P +FI LAE +GLI+PIG WVL AC Q + W LG TM+VNLSA Sbjct: 475 LRWEHPVHGLVAPDQFIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSA 534 Query: 336 KQFAQKNLAAMVRQALDDSGFSSHCLELELTESASM------------------------ 371 QFA +L +VR L+ CL LE+TES +M Sbjct: 535 LQFADPHLLEVVRTTLERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDD 594 Query: 372 -----------------EXKIDRSFVRDVGTDADDLAIARAVIALARSLHLEVLAEGVED 414 E KIDR FVR++ D +D AI A++AL R+L+L ++AEGVE Sbjct: 595 FGTGYSSLLYLKRLPANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVET 654 Query: 415 LVQYEIMKENGCDKVQGYYFSTPL 438 + Q + + GCD +QGY P+ Sbjct: 655 VEQQDFLTAAGCDALQGYLMGRPM 678 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 135 bits (341), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 77/208 (37%), Positives = 110/208 (52%), Gaps = 42/208 (20%) Query: 276 LRWQHPEKGMISPMEFIPLAEETGLIVPIGEWVLRTACEQAQRW-HDLGVHGLTMAVNLS 334 +RWQHP++GM+ P +FIPLAEETGLI+ +G WVL TAC Q W + L++AVN+S Sbjct: 813 VRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMADLSIAVNVS 872 Query: 335 AKQFAQKNLAAMVRQALDDSGFSSHCLELELTESASMEX--------------------- 373 A Q + + V ++ +G + L+LELTES ++ Sbjct: 873 APQLREPDFVQTVLDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKAYGVEFSLD 932 Query: 374 --------------------KIDRSFVRDVGTDADDLAIARAVIALARSLHLEVLAEGVE 413 KID+SFVRDV D +D +IA+ ++ LA+SL L V+AEGVE Sbjct: 933 DFGTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGLGVIAEGVE 992 Query: 414 DLVQYEIMKENGCDKVQGYYFSTPLAVD 441 Q + + GC QGY+F P+ V+ Sbjct: 993 TDAQRSFLADAGCHAYQGYFFCRPVTVE 1020 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 129 bits (324), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 80/214 (37%), Positives = 116/214 (54%), Gaps = 42/214 (19%) Query: 276 LRWQHPEKGMISPMEFIPLAEETGLIVPIGEWVLRTACEQAQRWHDLGVHGLTMAVNLSA 335 +RWQHPE+G++ P EFIP+AEETGLIV + +WVL C QA+ W D G+ + +A+N++A Sbjct: 456 VRWQHPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTA 515 Query: 336 KQFAQKNLAAMVRQALDDSGFSSHCLELELTESASMEX---------------------- 373 ++F ++L V AL+ S LELE+TES M Sbjct: 516 REFT-RSLPDRVGAALERHMLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDD 574 Query: 374 -------------------KIDRSFVRDVGTDADDLAIARAVIALARSLHLEVLAEGVED 414 KIDRSF + D +D AIA A+I +A+ L +V+AEGVED Sbjct: 575 FGTGYSSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVED 634 Query: 415 LVQYEIMKENGCDKVQGYYFSTPLAVDECTRLLL 448 Q+ ++E GC+++QGY FS P+ + +LL Sbjct: 635 EKQFNFLREAGCNELQGYIFSRPVPAPDFHAMLL 668 Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 41/160 (25%), Positives = 80/160 (50%), Gaps = 22/160 (13%) Query: 120 QIRNKMEQALQAERNLLSAIFDTTGALGLVLDKEGRIVRFNQAAERTTGYTLSQVQGKYF 179 QI K+EQ Q +L+ + ++ + +D G I +N+ AE+ GY+ + G+ Sbjct: 116 QIEAKLEQQAQ----ILNQMHESV----ITMDPAGFITSWNRGAEQLFGYSAMEAIGRNV 167 Query: 180 WDVFFPAEEREPVRNQFINWHVQTQPLQYQSRWLTAGGERR--EILWLT---TFLQEDHG 234 ++ +E + + + F L++ R + ++ E+ W + + +++ +G Sbjct: 168 LFLYENEDEEDSLHDLF---------LEHGGREMEVRRRKKSGEVFWASLSLSVMRDQNG 218 Query: 235 SALNYVCSGIDITQWRQAEDRVHRLSNYDVLTGLPNRSLL 274 + + DIT+ + AE +H L+ YD LTGLPNR+LL Sbjct: 219 HPIGLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLL 258 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 0.320 0.134 0.398 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: 1,341,663 Number of extensions: 53103 Number of successful extensions: 303 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 310 Number of HSP's successfully gapped: 30 Length of query: 454 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 366 Effective length of database: 1,203,190 Effective search space: 440367540 Effective search space used: 440367540 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 (21.8 bits) S2: 132 (55.5 bits)