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= 0059.0003.p (663 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310169|ref|YP_003774261.1| methyl-accepting chemotaxis tra... 459 e-130 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 427 e-120 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 238 1e-63 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 223 3e-59 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 216 3e-57 >gi|300310169|ref|YP_003774261.1| methyl-accepting chemotaxis transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 657 Score = 459 bits (1180), Expect = e-130, Method: Compositional matrix adjust. Identities = 222/370 (60%), Positives = 288/370 (77%), Gaps = 17/370 (4%) Query: 264 MQNSAFHYRSWA-----VGTKLTSLTLALVGALFVAAILLIDYSTSAMLEQRSMNQISGE 318 M NS RS + VG KLT++T+ALVG +FV A+LLI YS S M+EQRS+ Q+ + Sbjct: 1 MANSTSAARSASLFHRSVGAKLTAMTVALVGIVFVIALLLITYSASRMIEQRSVEQMRND 60 Query: 319 TRGVVNMVEMFDRSVNSQVERFSNMFTNSFPGKFTLDTSRTVQIGDKATPVLRNGDTDLN 378 TRG+ NMV +FDRSVNSQV+RFS MF + F GK +LD +RTVQIG++ATPVL+N +LN Sbjct: 61 TRGIANMVGLFDRSVNSQVDRFSTMFDSEF-GKLSLDETRTVQIGERATPVLQNDGHELN 119 Query: 379 LDFAIPDRFTAQTGVTATIFAKTGDDFVRVSTSVKKEDGERAVGTLLDRAHPGYAALKAD 438 LDF+IPDRFTA+TGVTATIFAKTG+DFVR+STSVKKE+GERA+GTLLDR+HPGYAALK+D Sbjct: 120 LDFSIPDRFTAKTGVTATIFAKTGEDFVRISTSVKKENGERAIGTLLDRSHPGYAALKSD 179 Query: 439 KSYSGIATLFGKQYITKYVPIKDAAGQLIGVLYVGVDISGDIKALKDKIKALKIGETGFF 498 K+YSG+ATLFGKQYITKYVP+K+ AGQ+I LYVG+DIS DIKALKD+IKALKIG+TG F Sbjct: 180 KAYSGLATLFGKQYITKYVPVKNNAGQIIAALYVGIDISSDIKALKDQIKALKIGDTGNF 239 Query: 499 YVLNAKEGKDYGTLLAGP----KDEGKNLLGLKDTDGKEFIKDMLAKKQGVMRYMWDNPD 554 + LNA+EGKD G ++AG K+EG +LL LKD G +IK ML +K G + Y Sbjct: 240 FALNAREGKDLGVMIAGAAREGKEEGSSLLELKDAAGDTYIKTMLQQKDGSLPY------ 293 Query: 555 TTGHSGEEKIVAFSQFPAWNWVIVGETYAEEVTKEIAAMRNRFMLFGAAFLLLVGVVLAV 614 T G +KI+AF+ +P W+WVI GE +E+T+E+++MRN ++ G FL ++ +L V Sbjct: 294 -TAADGRKKILAFTYYPGWHWVIAGEAAVDEITREVSSMRNLYIGLGLLFLAVLAAILTV 352 Query: 615 VIKQVVTRPL 624 ++ ++V+RPL Sbjct: 353 MVNRMVSRPL 362 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 427 bits (1097), Expect = e-120, Method: Compositional matrix adjust. Identities = 204/262 (77%), Positives = 221/262 (84%) Query: 1 MNSQAQERLALEGALRDALRGGDFELHYQPQVNFHTGLLHGVEALARWHHDQLGQVSPAR 60 MNS AQERLALE ALRDALRGGD EL++QPQ+ H LHGVEALARWHH QLGQ+SP R Sbjct: 722 MNSMAQERLALESALRDALRGGDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGR 781 Query: 61 FIPIAEECGLIGELGKWALEEACFQLHDWRRRGIDVPSVSVNLSSTNFHDLELPQFIAGL 120 FIPIAEECGLIGELGKWALEEACFQL DWRRRGI VPS+SVNLS+TNFHDL+LPQF+ GL Sbjct: 782 FIPIAEECGLIGELGKWALEEACFQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFVTGL 841 Query: 121 LQRFDLAPGDLTLEITETVMMDTNPSTTRTIREVHAQGVKLAMDDFGTGYSSLGYLRNLP 180 L+R+ L P DLTLEITETV+MDTNPST++TI VHA G+ LAMDDFGTGYSSLGYLR LP Sbjct: 842 LRRYALEPSDLTLEITETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLP 901 Query: 181 VCELKLDQSFVRDMDRDQTVLALTNAVIRIGESLDLIVVAEGVEDKRQYDLLKQQGCDVA 240 V ELKLDQSFVRDM +D V ALTNAVIRIGESL L VVAEGVED QY LL QGCDVA Sbjct: 902 VSELKLDQSFVRDMAKDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVA 961 Query: 241 QGYLFSRPMLAGIFEQGXKENH 262 QGYLFSRPM A E ++ H Sbjct: 962 QGYLFSRPMSADALENWVRDLH 983 >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 = 238 bits (606), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 128/264 (48%), Positives = 164/264 (62%) Query: 1 MNSQAQERLALEGALRDALRGGDFELHYQPQVNFHTGLLHGVEALARWHHDQLGQVSPAR 60 MN QA ERL +EG LR+AL G+F LHYQP+V+ +G + G EAL RW H QLG VSPAR Sbjct: 684 MNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPAR 743 Query: 61 FIPIAEECGLIGELGKWALEEACFQLHDWRRRGIDVPSVSVNLSSTNFHDLELPQFIAGL 120 FI +AEE GLI +G W L AC Q W+ G SVSVNLS F +L IA + Sbjct: 744 FIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADV 803 Query: 121 LQRFDLAPGDLTLEITETVMMDTNPSTTRTIREVHAQGVKLAMDDFGTGYSSLGYLRNLP 180 L+ L P L LE+TE++MM + + GV+L++DDFGTGYSSL YL+ P Sbjct: 804 LEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFP 863 Query: 181 VCELKLDQSFVRDMDRDQTVLALTNAVIRIGESLDLIVVAEGVEDKRQYDLLKQQGCDVA 240 + LK+D+SFVRD+ D A+T ++I + L L V+AEGVE Q D L+ GCD Sbjct: 864 IDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEI 923 Query: 241 QGYLFSRPMLAGIFEQGXKENHTM 264 QGYLFS P+ A FEQ +++ M Sbjct: 924 QGYLFSPPVPADKFEQILRQDRVM 947 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 223 bits (569), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 116/254 (45%), Positives = 156/254 (61%), Gaps = 1/254 (0%) Query: 1 MNSQAQERLALEGALRDALRGGDFELHYQPQVNFHTGLLHGVEALARWHHDQLGQVSPAR 60 M+SQ RL + LR AL +F+L+YQP+++ G L G EAL RW Q G V P R Sbjct: 432 MDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDR 491 Query: 61 FIPIAEECGLIGELGKWALEEACFQLHDWRRRGIDVPSVSVNLSSTNFHDLELPQFIAGL 120 FIP AEE GLI +G+W L AC Q W++ G+ V+VNLS + LP F+AG+ Sbjct: 492 FIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQ-SLPDFVAGV 550 Query: 121 LQRFDLAPGDLTLEITETVMMDTNPSTTRTIREVHAQGVKLAMDDFGTGYSSLGYLRNLP 180 L + LA L LEITE V+M + T+ + G+++++DDFGTGYSSL YLR P Sbjct: 551 LAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFP 610 Query: 181 VCELKLDQSFVRDMDRDQTVLALTNAVIRIGESLDLIVVAEGVEDKRQYDLLKQQGCDVA 240 V LK+D+SFVRD+ RD A+ A+I + L+L V+AEGVED+ Q+ LK+ CD Sbjct: 611 VDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEV 670 Query: 241 QGYLFSRPMLAGIF 254 QGY F +PM +F Sbjct: 671 QGYYFGKPMEVAVF 684 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 216 bits (551), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 115/262 (43%), Positives = 162/262 (61%) Query: 1 MNSQAQERLALEGALRDALRGGDFELHYQPQVNFHTGLLHGVEALARWHHDQLGQVSPAR 60 MN+ AQ++L LR AL G F L YQP+ + G + G EAL RW H G V+P + Sbjct: 430 MNANAQQQLQWLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQ 489 Query: 61 FIPIAEECGLIGELGKWALEEACFQLHDWRRRGIDVPSVSVNLSSTNFHDLELPQFIAGL 120 FI +AE GLI +G W L+EAC Q+ +W G ++SVNLS+ F D L + + Sbjct: 490 FIGLAERSGLILPIGAWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTT 549 Query: 121 LQRFDLAPGDLTLEITETVMMDTNPSTTRTIREVHAQGVKLAMDDFGTGYSSLGYLRNLP 180 L+R L P LTLE+TE+ M ++ +T+R++ GV++++DDFGTGYSSL YL+ LP Sbjct: 550 LERHQLPPPCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLP 609 Query: 181 VCELKLDQSFVRDMDRDQTVLALTNAVIRIGESLDLIVVAEGVEDKRQYDLLKQQGCDVA 240 ELK+D+ FVR++ +D A+ +A++ +G +L+L +VAEGVE Q D L GCD Sbjct: 610 ANELKIDRGFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDAL 669 Query: 241 QGYLFSRPMLAGIFEQGXKENH 262 QGYL RPM +F Q +E H Sbjct: 670 QGYLMGRPMTPELFLQTMRERH 691 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 0.136 0.397 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: 1,964,451 Number of extensions: 81208 Number of successful extensions: 293 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 277 Number of HSP's successfully gapped: 19 Length of query: 663 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 572 Effective length of database: 1,188,985 Effective search space: 680099420 Effective search space used: 680099420 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: 134 (56.2 bits)