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= 0021.0054.p (550 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312026|ref|YP_003776118.1| signal transduction protein con... 967 0.0 gi|300312843|ref|YP_003776935.1| response regulator containing a... 64 2e-11 gi|300310865|ref|YP_003774957.1| response regulator containing a... 57 3e-09 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 57 5e-09 >gi|300312026|ref|YP_003776118.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1106 Score = 967 bits (2499), Expect = 0.0, Method: Compositional matrix adjust. Identities = 460/536 (85%), Positives = 503/536 (93%) Query: 1 MGKQNKSPGRPGYTLKTLLLFVGFVGSFIVVQTWWEIRQDRQLTIDAERASSMAAVRSVQ 60 MGK+NKSPGR GYTLKTLLLFV FVGSFIVVQTWWEIRQDRQLTIDAERASS+ A RS+Q Sbjct: 47 MGKENKSPGRTGYTLKTLLLFVAFVGSFIVVQTWWEIRQDRQLTIDAERASSLTAARSIQ 106 Query: 61 EHAERIFGELDKLLWSAAEQIHVAGPDLLDDDQALYRLLSDTQQRLSTVMVLRYIDRNGN 120 EHA R+F +L++ +WS A Q+H GP+LL++DQ LY +L+ QQRL TVMVLRY+DRNGN Sbjct: 107 EHATRVFNDLEQTMWSTAVQLHAGGPELLENDQGLYNVLASMQQRLPTVMVLRYVDRNGN 166 Query: 121 TRASSLRPFDTTSIPEDHKLTHVDGNPARPNLFVGQLMRSRYNRDLVLPVAMNLYDRSSR 180 TRA+SLR DT+SIPED KLT+VDGNPARPNLFVGQLMRSRYNR+LVLPVAMNLYDRS+R Sbjct: 167 TRATSLRSLDTSSIPEDRKLTYVDGNPARPNLFVGQLMRSRYNRELVLPVAMNLYDRSAR 226 Query: 181 PIGLLVAELKAATFFDFYKRITNFEAIVSLRTDSGSMMLRSPFEERWLSVSLADAKSMAR 240 PIGLLVAEL+AATFFDFYKRITNFEAIVSLRT+SGSMMLRSPFEERWL V+LADAKSM Sbjct: 227 PIGLLVAELRAATFFDFYKRITNFEAIVSLRTESGSMMLRSPFEERWLDVNLADAKSMTY 286 Query: 241 IRAGAEEGSFEEISHLTGEPLLFSYKRLDKWSLVAVYARRMEDVLSPWRSRTENRILLTT 300 IRAG +EGSFEE S+LTGEPLLF+Y+RL+KWSLVAVYARRM DVL+PWRSRTENRILLTT Sbjct: 287 IRAGGDEGSFEENSYLTGEPLLFAYRRLEKWSLVAVYARRMNDVLAPWRSRTENRILLTT 346 Query: 301 GILGFILIALIAFLVYYRYQRRLDHALSSSEYRYRKLYEEGSDPIVLISSELRYLDCNAA 360 GILGFILIALI+FLVYYRYQRRLDHALS+SEYRYRKLYEEG+DPIVLIS+ELRYLDCNAA Sbjct: 347 GILGFILIALISFLVYYRYQRRLDHALSASEYRYRKLYEEGNDPIVLISAELRYLDCNAA 406 Query: 361 ALRFFGVPDKDRIIGRKVGLFSRHKARQPDQPDIDELVGRVLAGQPQQFEWVTVRRNKII 420 ALRFFGVPDK+RIIGRKVGLFSR K+R +QPDIDELV RVL+GQPQQFEWVTVRRNKII Sbjct: 407 ALRFFGVPDKERIIGRKVGLFSRQKSRHMEQPDIDELVARVLSGQPQQFEWVTVRRNKII 466 Query: 421 HTDVTLNRAEFDRGYAIFAILRDISARKRAELLQSEQNRVLHMVMADDDLDGILHEIIGF 480 HTDVTLNRAEF+RGYAIFAILRDISARKRAELLQSEQNRVLHMVMADD+LDG+L+EI+ F Sbjct: 467 HTDVTLNRAEFERGYAIFAILRDISARKRAELLQSEQNRVLHMVMADDELDGVLYEIVNF 526 Query: 481 ADAQIPYGASCVMLVNEQASHFTSVLSKRYPPRLLRALQGMPIRHGCGVGAEAALR 536 ADAQIPYGA VMLVNEQASHFTSVLS RYPPRL+RALQGMPIRHGCGVGAEAALR Sbjct: 527 ADAQIPYGACSVMLVNEQASHFTSVLSHRYPPRLIRALQGMPIRHGCGVGAEAALR 582 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/292 (22%), Positives = 124/292 (42%), Gaps = 11/292 (3%) Query: 20 LFVGFVGSFIVVQTWWEIRQDRQLTIDAERASSMAAVRSVQEHAERIFGELDKLLWSAAE 79 LFV + + I W+ R + ++ R+ S +++ HA + D LL ++ Sbjct: 22 LFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKALARHAYDVLQATDGLLLDMSD 81 Query: 80 QIH---VAGPDLLDDDQALYRLLSDTQQRLSTVMVLRYIDRNGNTRASSLRPFDTTSIPE 136 +I +A L+D L RL S+ Q + + R + A L P + + Sbjct: 82 RIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFDEHGKRLLTSSAPPLAPANNSD--R 139 Query: 137 DHKLTHVDGNPARPNLFVGQLMRSRYNRDLVLPVAMNLYDRSSRPIGLLVAELKAATFFD 196 D+ + H D + P+ VG+ + SR ++P++ L G+L+A L F Sbjct: 140 DYFIWHRDHDDVGPH--VGKALLSRSTGRWIIPMSRRLNHPDGSFAGVLLATLDINHFNQ 197 Query: 197 FYKRI-TNFEAIVSLRTDSGSMMLRSPFEERWLSVSLADAKSMARIRAGAEEGSFEEISH 255 Y+ + ++L G+++ R PF+ +++ + + + G E +S Sbjct: 198 LYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEGLPHSPFGYLEVVSP 257 Query: 256 LTGEPLLFSYKRLDKWSLVAVYARRMEDVLSPWRSRT---ENRILLTTGILG 304 L SY+ +DK+ LV V E+ L+ W+ +T +LL I+G Sbjct: 258 LDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLLLLAIIG 309 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 66/287 (22%), Positives = 119/287 (41%), Gaps = 21/287 (7%) Query: 35 WEIRQDRQLTIDAERASSMAAVRSVQEHAERIFGELDKLLWSAAEQIHVAGPDLLDDDQA 94 W + R++ + + ++ +HAE+ E D +L + E + +D A Sbjct: 43 WTAWRAREVALSESTTDASNVALALIQHAEQSIKEADIVLETVQEHLD------HEDRSA 96 Query: 95 LYRLLSD-----TQQRLSTVMVLRYIDRNGNTRASSLRPFDTTSIP--EDHKLTHVDGNP 147 R+ + + L + L +D G T ASS + T P +D+ H Sbjct: 97 SARIRTHDFMIRSVASLPQLAQLTVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRS 156 Query: 148 ARPNLFVGQLMRSRYNRDLVLPVAMNLYDRSSRPIGLLVAELKAATFFDFYKRIT-NFEA 206 RP F+GQ MRS L V+ + G++VAE+ A F +Y++ Sbjct: 157 DRP--FIGQPMRSHVTGQRTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHG 214 Query: 207 IVSLRTDSGSMMLRSPFEERWLSVSLADAKSMARIRAGAEEGSFEEISHLTGEPLLFSYK 266 ++ GS++LR P S A ++++ + A GSF S G + ++ Sbjct: 215 VILFGLTGGSLILRRPLLADMTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISCFQ 274 Query: 267 RLDKWSLVAVYARRMEDVLSPWRSRTENRILLTTGILGFILIALIAF 313 + + + + V A +D+L W +R + GI +L+A+I F Sbjct: 275 QGEAYPIFTVVALAKDDILEDW-----SRHVWVRGIGVVLLLAVICF 316 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 56.6 bits (135), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 67/302 (22%), Positives = 130/302 (43%), Gaps = 16/302 (5%) Query: 13 YTLKTLLLFVGFVGSFIVVQTWWEIRQDRQLTIDAERASSMAAVRSVQEHAERIFGELDK 72 Y + L + V V + + +Q RQ + ++ + R++ + E + LD Sbjct: 28 YLVVILAIAVLMVMAISASTLYQSYQQTRQSAVSNASNVTLVSQRAISRNLEMLSLSLDT 87 Query: 73 LLWSAAEQIHVAGPDLLDDDQALYRLLSDTQQRLSTVMVLRYIDRNGNTRASSLRPFDTT 132 L + H L+D Q Y L + +S + V+ +D +G + SS R Sbjct: 88 LAYRFQ---HPLSARRLNDAQR-YAYLFGSTTNVSHIAVMAVLDADGRVQVSS-RLGRGN 142 Query: 133 SIPEDHKLTHVDGNPARPN--LFVGQLMRSRYNRDL-VLPVAMNLYDRSSRPIGLLVAEL 189 P + + P L+V + M++ +L V+ ++ L + G++V L Sbjct: 143 GAPHYADRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMAL 202 Query: 190 KAATFFDFYKRIT-NFEAIVSLRTDSGSMMLRSPFEERWLSVSLADAKSMARIRA--GAE 246 A F + ++ + E I+SL +D G +R P+ E + ++ + R+RA E Sbjct: 203 DLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQTGNFQRLRAMLSEE 262 Query: 247 EGSFEEISHLTGEPL--LFSYKRLDKWSLVAVYARRMEDVLSPWRSRTENRILLTTGILG 304 EGSF +H T + + L++++R+ L+ E + WR +T +L++ I G Sbjct: 263 EGSF--FAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTWR-KTFYAVLVSLAIFG 319 Query: 305 FI 306 + Sbjct: 320 LL 321 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 0.405 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: 1,647,056 Number of extensions: 66291 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 181 Number of HSP's successfully gapped: 4 Length of query: 550 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 460 Effective length of database: 1,193,720 Effective search space: 549111200 Effective search space used: 549111200 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: 133 (55.8 bits)