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= 0022.0432.p (573 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 1163 0.0 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 180 3e-46 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 167 3e-42 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 162 7e-41 gi|300313030|ref|YP_003777122.1| two component response regulato... 159 4e-40 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 1163 bits (3009), Expect = 0.0, Method: Compositional matrix adjust. Identities = 573/573 (100%), Positives = 573/573 (100%) Query: 1 MRKRLDFLSRHFLRRIAIGYRLISAFILVSLLPLLISGLLAYGETSRATQDKVRAYSVQV 60 MRKRLDFLSRHFLRRIAIGYRLISAFILVSLLPLLISGLLAYGETSRATQDKVRAYSVQV Sbjct: 1 MRKRLDFLSRHFLRRIAIGYRLISAFILVSLLPLLISGLLAYGETSRATQDKVRAYSVQV 60 Query: 61 VQQISQNLLLRMEKIEDTSEALALSEKMQRLLADYYSGDADASAAARNSAARVLLDTYGA 120 VQQISQNLLLRMEKIEDTSEALALSEKMQRLLADYYSGDADASAAARNSAARVLLDTYGA Sbjct: 61 VQQISQNLLLRMEKIEDTSEALALSEKMQRLLADYYSGDADASAAARNSAARVLLDTYGA 120 Query: 121 LTYVNQKYLLDRDRQVIDPQIFAPLASSIGRVAEEAPELTGRGWWTLYHAGHGQKSLAML 180 LTYVNQKYLLDRDRQVIDPQIFAPLASSIGRVAEEAPELTGRGWWTLYHAGHGQKSLAML Sbjct: 121 LTYVNQKYLLDRDRQVIDPQIFAPLASSIGRVAEEAPELTGRGWWTLYHAGHGQKSLAML 180 Query: 181 REVRFTANNRPAGVLFVGVHPSYFFDIFRGADLGYGASISIVDASDGAVVVQSRESSASQ 240 REVRFTANNRPAGVLFVGVHPSYFFDIFRGADLGYGASISIVDASDGAVVVQSRESSASQ Sbjct: 181 REVRFTANNRPAGVLFVGVHPSYFFDIFRGADLGYGASISIVDASDGAVVVQSRESSASQ 240 Query: 241 ADPALLGGITESLAQGRDSDFIAYVGADKTPYYAAIARLPHTSWWVASITPSDRLNADTR 300 ADPALLGGITESLAQGRDSDFIAYVGADKTPYYAAIARLPHTSWWVASITPSDRLNADTR Sbjct: 241 ADPALLGGITESLAQGRDSDFIAYVGADKTPYYAAIARLPHTSWWVASITPSDRLNADTR 300 Query: 301 SVRDKIIAIGLVCFAVSLLLSALISRSISVPLQRLVAAMKEAGSGDTTVRVEQHGNDEIA 360 SVRDKIIAIGLVCFAVSLLLSALISRSISVPLQRLVAAMKEAGSGDTTVRVEQHGNDEIA Sbjct: 301 SVRDKIIAIGLVCFAVSLLLSALISRSISVPLQRLVAAMKEAGSGDTTVRVEQHGNDEIA 360 Query: 361 VLSRKFNEMAGKLQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEAL 420 VLSRKFNEMAGKLQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEAL Sbjct: 361 VLSRKFNEMAGKLQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEAL 420 Query: 421 ANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVAR 480 ANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVAR Sbjct: 421 ANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVAR 480 Query: 481 YGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTA 540 YGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTA Sbjct: 481 YGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTA 540 Query: 541 PEQMVRIADQALYHAKYQGRNRVVLGSDATQGL 573 PEQMVRIADQALYHAKYQGRNRVVLGSDATQGL Sbjct: 541 PEQMVRIADQALYHAKYQGRNRVVLGSDATQGL 573 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 180 bits (457), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 95/190 (50%), Positives = 124/190 (65%), Gaps = 1/190 (0%) Query: 380 LEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLML 439 LE ++ RTR+L +AN +L +LS TDGLTG+ANRR FDE L E RR++R G L L + Sbjct: 175 LELRIAERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFI 234 Query: 440 DVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQAL 499 DVD+FK YND YGHLAGD LR VA+ L++S R D VARYGGEEF++I A+ D Sbjct: 235 DVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGA 294 Query: 500 QQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAP-EQMVRIADQALYHAKYQ 558 +C A+ L + HA S G I+ S GVA P + A + +++ AD ALY AK + Sbjct: 295 DMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKME 354 Query: 559 GRNRVVLGSD 568 GRNRVVL ++ Sbjct: 355 GRNRVVLATE 364 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 167 bits (422), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 85/182 (46%), Positives = 119/182 (65%), Gaps = 1/182 (0%) Query: 384 VRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDY 443 +R ++L+++N +L+ L+ TDGLTG+ANRR FD+ L E RRA R G LALL++DVD+ Sbjct: 156 LRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDF 215 Query: 444 FKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAE 503 FK YND YGH+AGD LR VA L S +R DL AR+GGEEF++I+ A A+ Sbjct: 216 FKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQ 275 Query: 504 NICQAIFELKLPHADSPF-GYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNR 562 +C + L++PH S +++ S+G A L+P E +++ AD+ LY AK QGRNR Sbjct: 276 KVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNR 335 Query: 563 VV 564 VV Sbjct: 336 VV 337 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 162 bits (410), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 84/173 (48%), Positives = 113/173 (65%), Gaps = 1/173 (0%) Query: 394 ANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQS-LALLMLDVDYFKKYNDRYG 452 A ++LE L+ TDGLTG+ NRR DEAL +R+ RS + + L +DVDYFK+YND YG Sbjct: 319 AEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYG 378 Query: 453 HLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFEL 512 H GD L+ VA VL++ +R DL RYGGEEF V++ + D AL+ A+ +C+AI+ Sbjct: 379 HEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNR 438 Query: 513 KLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRVVL 565 +PH+ SP G IS SIGVA + H E ++ AD ALY AK +GRNRV + Sbjct: 439 GIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCV 491 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 159 bits (403), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 81/185 (43%), Positives = 120/185 (64%), Gaps = 7/185 (3%) Query: 386 LRTRELERANRKLEA-----LSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLD 440 L+ R L KL++ ++ TD LTG+ NRR+FD LA + RSGQ+++LL++D Sbjct: 124 LKARVLTHLTLKLQSDFYLNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLLLID 183 Query: 441 VDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQ 500 +D+FK+YND YGH AGD CL VA ++ + R+ D VARYGGEEF+ I+ QA++ Sbjct: 184 IDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQAIR 243 Query: 501 QAENICQAIFELKLPHADSPF-GYISASIGVAVLL-PDEHTAPEQMVRIADQALYHAKYQ 558 QA+ +C ++ L LPHA S ++S SIGVA ++ PD + +P ++ +AD+ LY AK Sbjct: 244 QAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAAKAN 303 Query: 559 GRNRV 563 GR +V Sbjct: 304 GRAQV 308 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 0.376 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: 1,532,759 Number of extensions: 60761 Number of successful extensions: 399 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 330 Number of HSP's successfully gapped: 41 Length of query: 573 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 483 Effective length of database: 1,193,720 Effective search space: 576566760 Effective search space used: 576566760 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: 133 (55.8 bits)