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= 0007.0087.p (271 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310865|ref|YP_003774957.1| response regulator containing a... 182 3e-47 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 174 1e-44 gi|300312843|ref|YP_003776935.1| response regulator containing a... 171 6e-44 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 166 2e-42 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 163 1e-41 >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 = 182 bits (462), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 103/249 (41%), Positives = 144/249 (57%), Gaps = 2/249 (0%) Query: 1 VLRLNYFTRVPDYPLFVTAALAHDEMLADWREAQRAQLLVIVSAALLVGLLTAYLLRVVR 60 V R++ F + YP+F ALA D++L DW + + +V ++ L+ +V Sbjct: 267 VERISCFQQGEAYPIFTVVALAKDDILEDWSRHVWVRGIGVVLLLAVICFGGKRLVVLVA 326 Query: 61 MRDRAEEEIEKKNLSLKLLTENLRAQAMLDGMTGIPNRRYLDEQLQLAMRNASRSKSALS 120 R+RAE + L+ L L AQ+ DG+T + NRRY D L + +R+ +LS Sbjct: 327 GRERAEAQAIAARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLS 386 Query: 121 LVMFDVDFFKKYNDLYGHIQGDYCLQDVARTLRGMQRRHGDLAARYGGEEFALLLPDTDL 180 L+M DVD FK++ND YGH GD CL+ VA + + RR GD+ ARYGGEEFA++LP+ Sbjct: 387 LMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHP 446 Query: 181 DNAHRIAQKVLDGVRTLAIPHQGNAGGVVTISAGVMSCVPRPEMRIE--DLFAGADRALY 238 +A +A +V+ VR L I H+ + GVVTIS GV S + IE +L AD ALY Sbjct: 447 GSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIEPRELIDSADGALY 506 Query: 239 RAKERGRDR 247 RAKE GRDR Sbjct: 507 RAKEEGRDR 515 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 174 bits (440), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 110/250 (44%), Positives = 136/250 (54%), Gaps = 15/250 (6%) Query: 1 VLRLNYFTRVPDYPLFVTAALAHDEMLADWREAQRAQLLVIVSAALLVGLLTAYLLRVVR 60 V RL F R+P PL V A + + WR+ A V+VS A+ GLLTA+LL VR Sbjct: 275 VRRLYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFYA---VLVSLAIF-GLLTAWLLLHVR 330 Query: 61 MRDRAEEEIEKKNLSLKLLTENLRAQAMLDGMTGIPNRRYLDEQLQLAMRNASRSKSA-L 119 R E++ L A A DG+T + NRR LDE LQ R+ A Sbjct: 331 QELRRRVTAERQ----------LEALARTDGLTDLLNRRALDEALQATWERCQRNLGASF 380 Query: 120 SLVMFDVDFFKKYNDLYGHIQGDYCLQDVARTLRGMQRRHGDLAARYGGEEFALLLPDTD 179 S++ DVD+FK YND YGH GD L++VA TL RH D A RYGGEEF +LL TD Sbjct: 381 SVLFIDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTD 440 Query: 180 LDNAHRIAQKVLDGVRTLAIPHQGNAGGVVTISAGVMSCVPRPEMRIEDLFAGADRALYR 239 L A +AQ++ D VR I H + VVTIS GV + R+ED+ AD ALYR Sbjct: 441 LQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYR 500 Query: 240 AKERGRDRVE 249 AK+ GRDRV Sbjct: 501 AKQAGRDRVH 510 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 171 bits (433), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 113/264 (42%), Positives = 155/264 (58%), Gaps = 11/264 (4%) Query: 3 RLNYFTRVPDYPLFVTAALAHDEMLADWREAQRAQLLVIVSAALL----VGLLTAYLLRV 58 R + V YPL + LA +E LADW++ Q V +A LL +G+ L+ Sbjct: 263 RFLSYQAVDKYPLVLVVTLAREEALADWKQ----QTFVYGAAVLLLLAIIGVFGWRLVGQ 318 Query: 59 VRMRDRAEEEIEKKNLSLKLLTENLRAQAMLDGMTGIPNRRYLDEQLQLAMRNASRSKSA 118 + +R RAE+ + L++ L A DG+TG+ NRR+LD L+ + A RS +A Sbjct: 319 IELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDTMLETEFKRAERSGAA 378 Query: 119 LSLVMFDVDFFKKYNDLYGHIQGDYCLQDVARTLRGMQRRHGDLAARYGGEEFALLLPDT 178 L+L+M DVDFFK+YNDLYGH GD CL+ VA L+ QRR GDLAARYGGEE A+LLP T Sbjct: 379 LALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGT 438 Query: 179 DLDNAHRIAQKVLDGVRTLAIPHQGNAGGVVTISAG--VMSCVPRPEMRIEDLFAGADRA 236 D + A +A+K+ G++ L +PH+GN GVVT+S G + +P ++ L AD A Sbjct: 439 DAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPSAARSVQALLGAADAA 498 Query: 237 LYRAKERGRDRVEDCQLPRPVTPS 260 LY AK GR++V P PS Sbjct: 499 LYEAKHEGRNQVR-LAAPMKTAPS 521 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 166 bits (420), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 99/249 (39%), Positives = 136/249 (54%), Gaps = 15/249 (6%) Query: 1 VLRLNYFTRVPDYPLFVTAALAHDEMLADWREAQRAQLLVIVSAALLVGLLTAYLLRVVR 60 V RL F R+PD PL V + + W + + LL+++ L G+L + R + Sbjct: 255 VERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLYSVLLLLIIFTALAGVLLMLVRRELL 314 Query: 61 MRDRAEEEIEKKNLSLKLLTENLRAQAMLDGMTGIPNRRYLDEQLQLAMRNASRSKSA-L 119 R AE+++E A DG+TG+ NRR LDE L + + RS +A Sbjct: 315 KRVAAEKQLED--------------LARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGF 360 Query: 120 SLVMFDVDFFKKYNDLYGHIQGDYCLQDVARTLRGMQRRHGDLAARYGGEEFALLLPDTD 179 S + DVD+FK+YND YGH GD LQ VA LR +R DLA RYGGEEF +LL TD Sbjct: 361 STLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTD 420 Query: 180 LDNAHRIAQKVLDGVRTLAIPHQGNAGGVVTISAGVMSCVPRPEMRIEDLFAGADRALYR 239 A R+AQ++ + + IPH G+ GV+++S GV + P R+ED+ AD ALY Sbjct: 421 EHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYI 480 Query: 240 AKERGRDRV 248 AK GR+RV Sbjct: 481 AKREGRNRV 489 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 163 bits (413), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 84/185 (45%), Positives = 118/185 (63%), Gaps = 8/185 (4%) Query: 65 AEEEIEKKNLSLKLLTENLRAQAMLDGMTGIPNRRYLDEQLQLAMRNASRSKSALSLVMF 124 ++++++K N L+ LT DG+TGI NRRY D+ L R A R L+L++ Sbjct: 159 SQQQLQKSNFELQRLTNT-------DGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLI 211 Query: 125 DVDFFKKYNDLYGHIQGDYCLQDVARTLRGMQRRHGDLAARYGGEEFALLLPDTDLDNAH 184 DVDFFK YND YGH+ GD L+ VA L +R DL+AR+GGEEFA++LP T LD AH Sbjct: 212 DVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAH 271 Query: 185 RIAQKVLDGVRTLAIPHQGNA-GGVVTISAGVMSCVPRPEMRIEDLFAGADRALYRAKER 243 IAQKV V +L +PH+G++ +T+S G + VP+ + + +L ADR LY AK++ Sbjct: 272 AIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQ 331 Query: 244 GRDRV 248 GR+RV Sbjct: 332 GRNRV 336 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 0.396 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: 781,278 Number of extensions: 30164 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 125 Number of HSP's successfully gapped: 39 Length of query: 271 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 187 Effective length of database: 1,222,130 Effective search space: 228538310 Effective search space used: 228538310 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: 130 (54.7 bits)