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= 0036.0176.p (393 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspi... 512 e-146 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 114 1e-26 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 107 1e-24 gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein... 103 2e-23 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 101 1e-22 >gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 512 bits (1318), Expect = e-146, Method: Compositional matrix adjust. Identities = 259/392 (66%), Positives = 300/392 (76%) Query: 1 MNPFTASIALAIVQFCSGVIMTGLFISTPSERFTRLWALSGVFSALGICTTVAVYGGLAG 60 MN TASIALA+VQFC G+IM GLF++ P E TRLWALSG+ A GIC + Y + Sbjct: 1 MNAATASIALALVQFCGGLIMAGLFMNMPKEHCTRLWALSGLCGAAGICLMLVGYNHMGD 60 Query: 61 NLRPLGLLLGNTLVFSSGIVAWCGLRSFYQRQSGDWPWMLVIAYAVCFTALLIGSADFTH 120 PL LL GNT +FS ++AW GLRSFYQR++G WPW+LV YA F+ LL+ FT Sbjct: 61 VWNPLALLAGNTGLFSCCLLAWAGLRSFYQRRTGWWPWLLVGFYAFLFSLLLLYQVSFTQ 120 Query: 121 RAYLAVGGLQVVFCLVLREFFKGMSGPLAARYPRWTFGRWIGIVALLILSATHVSRLLLS 180 R+YLA+ LQ+ F L L EF +GMSGP A RY RW+FGR IGIV+LLI +THV+R +LS Sbjct: 121 RSYLALVALQLTFWLALGEFARGMSGPHAQRYARWSFGRCIGIVSLLIFISTHVARFVLS 180 Query: 181 LSHPELFMPPEMSSLGVGLIYLIPISGTLLLSVSLMMIYFERLLADKQRLATEDELTGTL 240 SHPELF+PP MS++GV LIYLIP+SG+LL SVSLMMIYFERLLAD+QRLATED+LTG L Sbjct: 181 FSHPELFIPPAMSNIGVALIYLIPLSGSLLFSVSLMMIYFERLLADRQRLATEDQLTGAL 240 Query: 241 NRRELVRCGEEALARAVQGRRVLTLAFIDVDHFKDINDTHGHLVGDRVLADIGALLREHC 300 NRRELVRCGE LARAV+ + VL LAFIDVDHFK IND HGHL GDRVLA IGA L + C Sbjct: 241 NRRELVRCGELLLARAVERKSVLALAFIDVDHFKQINDRHGHLAGDRVLAGIGATLAQSC 300 Query: 301 CQGGMVGRYGGEEFCAVFPDWSEAQARQIAQHLLETVRNHDFGHGQTVTISVGLAVLSPG 360 G ++GRYGGEEFCAVFP QA QI Q LLE+VR F HG VTISVGLAVL PG Sbjct: 301 RPGDVLGRYGGEEFCAVFPGVDHDQACQIGQRLLESVRTQRFEHGHPVTISVGLAVLQPG 360 Query: 361 QSSSWDALVHEADLALYRAKSEGRNAFRMALA 392 SWD LVHEADLALYRAK+EGRNA+RMA++ Sbjct: 361 NQRSWDELVHEADLALYRAKNEGRNAYRMAMS 392 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 78/198 (39%), Positives = 110/198 (55%), Gaps = 16/198 (8%) Query: 199 LIYLIPISGTLLLSVSLMMIYFERLLADKQ--RLATEDELTGTLNRRELVRCGEEALARA 256 LI ++G LL+ V ++ +R+ A+KQ LA D LTG LNRR L E LA Sbjct: 295 LIIFTALAGVLLMLVRRELL--KRVAAEKQLEDLARTDGLTGLLNRRSL---DEALLAVW 349 Query: 257 VQGRRVLTLAF----IDVDHFKDINDTHGHLVGDRVLADIGALLREHCC-QGGMVGRYGG 311 + +R T F IDVD+FK NDT+GH +GD VL + A+LREH Q + GRYGG Sbjct: 350 QRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGG 409 Query: 312 EEFCAVFPDWSEAQARQIAQHLLETVRNHDFGHGQT----VTISVGLAVLSPGQSSSWDA 367 EEF + E A ++AQ L E + N H + +++S+G+A ++ + Sbjct: 410 EEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMED 469 Query: 368 LVHEADLALYRAKSEGRN 385 +++ AD ALY AK EGRN Sbjct: 470 VLNAADHALYIAKREGRN 487 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 60/159 (37%), Positives = 91/159 (57%), Gaps = 5/159 (3%) Query: 230 LATEDELTGTLNRRELVRCGEEALARAVQGRRVLTLAFIDVDHFKDINDTHGHLVGDRVL 289 L ED+LTG+LNRR + + + A++ L +A +D+D FK INDTHGH GD VL Sbjct: 363 LVREDQLTGSLNRRGMDESLDREITNALRRDTPLCVALLDLDDFKRINDTHGHATGDEVL 422 Query: 290 ADIGALLREHCCQGGMVGRYGGEEFCAVFPDWSEAQARQIAQHLLETVRNHDFGHGQT-- 347 + ++RE + ++ R+GGEEF + P+ + A QI + + F H Sbjct: 423 VHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDAVQIITRVQRELTKRIFMHESQRL 482 Query: 348 -VTISVGLAVLSPGQSSSWDALVHEADLALYRAKSEGRN 385 +T S G+AV PG+S + L+ AD+ALY+AK+ G+N Sbjct: 483 LITFSAGVAVYHPGESQA--DLLKRADVALYKAKNAGKN 519 >gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 384 Score = 103 bits (257), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 72/222 (32%), Positives = 106/222 (47%), Gaps = 19/222 (8%) Query: 181 LSHPELFMPPEMSSLGVGLIYLIPISGTLLLSVSL-------MMIYFERLLADKQR---- 229 L H ++ +S+L +G + + G L+ +SL M+I ++ R Sbjct: 155 LIHGLFYLAKAVSALALGAVVDLAAFGGTLIQISLVEGSMAVMLIALSMTGTERHRREER 214 Query: 230 ---LATEDELTGTLNRRELVRCGEEALARAVQGRRVLTLAFIDVDHFKDINDTHGHLVGD 286 LA D LTG LNRR L +A+A Q L ID+D+FK +ND HGH GD Sbjct: 215 IGQLAARDPLTGLLNRRALQARAPALIAQASQAHPG-ALLLIDIDNFKQVNDLHGHAAGD 273 Query: 287 RVLADIGALLREHCCQGGMVGRYGGEEFCAVFPDWSEAQARQIAQHLLET---VRNHDFG 343 ++L + LLRE + R GG+EF + PD +AQ I + L + V Sbjct: 274 KLLEALSTLLREVLPDDALAARLGGDEFAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVA 333 Query: 344 HGQTVTISVGLAVLSPGQSSSWDALVHEADLALYRAKSEGRN 385 + V++SVG+++ S + L+ AD ALY AK GRN Sbjct: 334 TPEAVSLSVGVSLFSTA-ALDLAGLMARADAALYEAKRAGRN 374 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 101 bits (252), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 65/162 (40%), Positives = 85/162 (52%), Gaps = 6/162 (3%) Query: 230 LATEDELTGTLNRRELVRCGEEALARAVQGRRVLTLAFIDVDHFKDINDTHGHLVGDRVL 289 L+ D LTG NRR E+ R+++ L LAFIDVD FK ND +GHL GD VL Sbjct: 196 LSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVL 255 Query: 290 ADIGALLREHCCQ-GGMVGRYGGEEFCAVFPDWSEAQARQIAQHLLETVRNHDFGHGQT- 347 + LR+ + G V RYGGEEF + D + + + + V H + Sbjct: 256 RQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRMCDAVHALAIAHAGSA 315 Query: 348 ---VTISVGLAVLSPGQS-SSWDALVHEADLALYRAKSEGRN 385 +TIS G+A +PGQ + D L+ AD ALYRAK EGRN Sbjct: 316 MGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRN 357 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 0.327 0.140 0.436 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: 1,196,889 Number of extensions: 49127 Number of successful extensions: 278 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 39 Length of query: 393 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 306 Effective length of database: 1,207,925 Effective search space: 369625050 Effective search space used: 369625050 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 131 (55.1 bits)