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= 0034.0396.p (382 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein... 462 e-131 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 97 3e-21 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 94 2e-20 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 92 1e-19 gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein... 90 3e-19 >gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 384 Score = 462 bits (1190), Expect = e-131, Method: Compositional matrix adjust. Identities = 262/376 (69%), Positives = 300/376 (79%) Query: 1 MALDPSSILILTTALSAAAALYLAVEWDSVRERSLLFWSAGFAVITVGSVLALLRSSGFL 60 MALDPS++LILT AL+AAA+LYL VEW VRERSLL WS+GFA+ITVGS LALLRS G+L Sbjct: 1 MALDPSTLLILTIALAAAASLYLTVEWSVVRERSLLLWSSGFAIITVGSFLALLRSRGYL 60 Query: 61 LIGIWFANGLLIVAHWLFLAGVSRFTSTRLSRGWWLVGAAWLAMLLVPAEPWWSRVMLCI 120 L+GIWFANGLLI AH FLAGV+ F TR+SR WWL+ WL MLL+P WWSRVML + Sbjct: 61 LVGIWFANGLLIAAHACFLAGVAGFMRTRISRAWWLIALLWLLMLLLPTHAWWSRVMLGL 120 Query: 121 QSLLIAGLTLRASLLLRPHGVSLSVGAVQLRYVLLAHGLFYVAKAGSTVALDAFVDLAAF 180 QSL+IA LTLRAS LLRPHG SLSVGAVQLRYVLL HGLFY+AKA S +AL A VDLAAF Sbjct: 121 QSLMIAVLTLRASSLLRPHGASLSVGAVQLRYVLLIHGLFYLAKAVSALALGAVVDLAAF 180 Query: 181 RGGVIQISLVEGAMAIMLIALSMTGTERHRREERIEQLAARDPLTALYNRRALDMRAPAL 240 G +IQISLVEG+MA+MLIALSMTGTERHRREERI QLAARDPLT L NRRAL RAPAL Sbjct: 181 GGTLIQISLVEGSMAVMLIALSMTGTERHRREERIGQLAARDPLTGLLNRRALQARAPAL 240 Query: 241 LEQATPASPGALLLIDIDNFKQVNDLHGHSAGDRLLVALSEMIRDALPQGSLAARLGGDE 300 + QA+ A PGALLLIDIDNFKQVNDLHGH+AGD+LL ALS ++R+ LP +LAARLGGDE Sbjct: 241 IAQASQAHPGALLLIDIDNFKQVNDLHGHAAGDKLLEALSTLLREVLPDDALAARLGGDE 300 Query: 301 FVILLREASGDSVVALGNGLREVFGRMARETFATPSAVTLSVGGTLFDKPPTGLAALLER 360 F ILL + V +G LR+ F + + ATP AV+LSVG +LF LA L+ R Sbjct: 301 FAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVATPEAVSLSVGVSLFSTAALDLAGLMAR 360 Query: 361 GDAALYESKRGGRDTV 376 DAALYE+KR GR+ + Sbjct: 361 ADAALYEAKRAGRNQI 376 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 64/176 (36%), Positives = 98/176 (55%), Gaps = 11/176 (6%) Query: 212 EERIEQLAARDPLTALYNRRALDMRAPALL-----EQATPASPGALLLIDIDNFKQVNDL 266 E+++E LA D LT L NRR+LD ALL Q +P + + L ID+D FK+ ND Sbjct: 320 EKQLEDLARTDGLTGLLNRRSLD---EALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDT 376 Query: 267 HGHSAGDRLLVALSEMIRDALP-QGSLAARLGGDEFVILLREASGDSVVALGNGLRE-VF 324 +GH GD +L A++ ++R+ L Q LA R GG+EFV+LL + + + L E ++ Sbjct: 377 YGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIY 436 Query: 325 GRMARETFATPSAVTLSVG-GTLFDKPPTGLAALLERGDAALYESKRGGRDTVRVA 379 R + + +++S+G T+ P + +L D ALY +KR GR+ V VA Sbjct: 437 NRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCVA 492 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 94.0 bits (232), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 63/172 (36%), Positives = 91/172 (52%), Gaps = 7/172 (4%) Query: 210 RREERIEQLAARDPLTALYNRRALDMRAPALLEQAT-PASPGALLLIDIDNFKQVNDLHG 268 R +++ A D LT L NR L R +E A A+L +D+D FK +ND G Sbjct: 253 RTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLG 312 Query: 269 HSAGDRLLVALSEMIRDALPQGSLAARLGGDEFVILLREASGDSVVALGNGLREVFGRMA 328 H+ GD LLVA+++ IR L + AR+GGDEFV+++ S VV L E Sbjct: 313 HAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVV---EQLSENILAAL 369 Query: 329 RETFATPSA---VTLSVGGTLFDKPPTGLAALLERGDAALYESKRGGRDTVR 377 R+ F A VT S+G ++ + AL++ DAA+YE+K+ GR+T R Sbjct: 370 RQDFQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYR 421 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 93/320 (29%), Positives = 145/320 (45%), Gaps = 74/320 (23%) Query: 112 WWSRVMLCIQSLLIAGLTLRASLLLRPHGVSLSVGAVQLRYVLLAHGLFYVAKAGSTVAL 171 W S + +QSL+ L+ SL+ L+ V+ GL + V + Sbjct: 221 WLSSQIETVQSLIAGPLST----------TSLADATKNLKEVIYKQGLLKNTLSEEKVVV 270 Query: 172 D----AFVD-LAAF-----------RGGVIQISLVEGAMAIMLIALS--MTGTER----- 208 FVD L+A RG QIS G +A + LS MT T++ Sbjct: 271 KNMMLTFVDRLSAMVSTTDNYQRTIRGFSQQISQA-GNIADLNSVLSEIMTETQKAQEEA 329 Query: 209 --------------HRREERIE----------QLAARDPLTALYNRRALDMRAPALLEQA 244 + EERI+ +L D LT NRR +D +L + Sbjct: 330 TRSRDAMEDARQEVEKAEERIQTLEQQLLQMGELVREDQLTGSLNRRGMD---ESLDREI 386 Query: 245 TPA----SPGALLLIDIDNFKQVNDLHGHSAGDRLLVALSEMIRDALPQGSLAARLGGDE 300 T A +P + L+D+D+FK++ND HGH+ GD +LV + ++IR+ L + + AR GG+E Sbjct: 387 TNALRRDTPLCVALLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGEE 446 Query: 301 FVILLRE-ASGDSVVALGNGLREVFGRMARETFATPSA---VTLSVGGTLFDKPPTGLAA 356 F++L+ E A D+V + RE+ R+ F S +T S G ++ P A Sbjct: 447 FLVLMPETAPQDAVQIITRVQRELTKRI----FMHESQRLLITFSAGVAVY-HPGESQAD 501 Query: 357 LLERGDAALYESKRGGRDTV 376 LL+R D ALY++K G++ + Sbjct: 502 LLKRADVALYKAKNAGKNRI 521 >gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 89.7 bits (221), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 61/177 (34%), Positives = 97/177 (54%), Gaps = 13/177 (7%) Query: 207 ERHRREERIEQLAARDPLTALYNRRALDMRAPALLEQATPASPGALLLIDIDNFKQVNDL 266 E R + +E +A +DPLT + NRR + P +L+ P S L+IDIDNFK++ND Sbjct: 180 ESLRLRKELEFIAFKDPLTGIDNRRRFMQQLPIILQAGQP-SDACFLMIDIDNFKKINDD 238 Query: 267 HGHSAGDRLLVALSEMIRDALPQGSLAARLGGDEFVILLRE---ASGDSVVALGNGLREV 323 GH++GD L+ + ++ AL +G+L R+GG+EF I L A + V A L+EV Sbjct: 239 FGHASGDEALILTARAMQSALSEGAL-GRMGGEEFGIALSGGGLAHAEQVAA--KLLQEV 295 Query: 324 FGRMARETFATPSAVTLSVGGTLFDKPPTGLAALLERGDAALYESKRGGRDTVRVAS 380 R+ +T+S+ G + ++ +L D ALY++KR G+D V++ Sbjct: 296 -----RQIHIHARPLTVSI-GIARATDHSSVSKVLSAADQALYQAKRAGKDRYVVSA 346 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 0.324 0.137 0.403 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: 1,197,390 Number of extensions: 52825 Number of successful extensions: 358 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 303 Number of HSP's successfully gapped: 39 Length of query: 382 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 295 Effective length of database: 1,207,925 Effective search space: 356337875 Effective search space used: 356337875 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)