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= 0019.0193.p (240 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313032|ref|YP_003777124.1| GGDEF domain-containing protein... 394 e-111 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 112 3e-26 gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein... 103 1e-23 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 99 3e-22 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 98 6e-22 >gi|300313032|ref|YP_003777124.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 394 bits (1011), Expect = e-111, Method: Compositional matrix adjust. Identities = 206/240 (85%), Positives = 219/240 (91%) Query: 1 MDGGDLFAAEAEALHRANAVLADPASDPASHRAALEELVQHYGQLMRQSRRLISRSDRTE 60 M DLF EA AL RAN VLA A DP+++R AL+ELVQHYGQLMRQSRRLISRSDRTE Sbjct: 1 MSKVDLFEQEALALQRANDVLAMAAPDPSAYRTALQELVQHYGQLMRQSRRLISRSDRTE 60 Query: 61 RELNLLNARLQQLSDELDYKARHDNLTGALNRGAVFEQAHQILQQSPMSLVVLDIDFFKR 120 RELN LNARLQQLSDELDYKARHDNLTGALNRGAVFE+AHQ+LQ+SPMSLVVLDIDFFKR Sbjct: 61 RELNQLNARLQQLSDELDYKARHDNLTGALNRGAVFERAHQVLQKSPMSLVVLDIDFFKR 120 Query: 121 INDEFGHPAGDAVIRELVARLRTTLAGNGVIGRVGGEEFTILLSGVALEQAVILAGRIRQ 180 INDEFGHP GDAVIRELVARLRTT+ G GVIGRVGGEEFTILL G+ALE AV+LAGRIRQ Sbjct: 121 INDEFGHPTGDAVIRELVARLRTTVDGVGVIGRVGGEEFTILLPGMALEPAVVLAGRIRQ 180 Query: 181 AIAGDRFQCLPARPVTSSFGVAWAAAGSDFEEAYARADQALYQAKRGGRNRVESEESVTG 240 AIAG+RF CLPARPVTSSFGVAWA AGSDFE+AYARADQALYQAKR GRNRVESEE+VTG Sbjct: 181 AIAGERFGCLPARPVTSSFGVAWATAGSDFEQAYARADQALYQAKRSGRNRVESEETVTG 240 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 112 bits (280), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 73/180 (40%), Positives = 99/180 (55%), Gaps = 7/180 (3%) Query: 61 RELNLLNARLQQLSDELDYKARHDNLTGALNRGAVFEQAHQILQQSP-----MSLVVLDI 115 RE N L + L +L + D LTG LNR A F Q + + +++V+ DI Sbjct: 393 RERNSLAREREALITQLQTSSNTDFLTGVLNRRAFFTHGQQQMTVAKRYGRELAVVLFDI 452 Query: 116 DFFKRINDEFGHPAGDAVIRELVARLRTTLAGNGVIGRVGGEEFTILLSGVALEQAVILA 175 D FK+IND +GH AGDA++R + + L V+ R GGEEF ILL +L QA + Sbjct: 453 DHFKQINDSYGHQAGDAILRGVAQSVSQLLRKVDVLARYGGEEFIILLPESSLLQAAAAS 512 Query: 176 GRIRQAIAGDRFQCLPAR--PVTSSFGVAWAAAGSDFEEAYARADQALYQAKRGGRNRVE 233 ++R A+A F+ R VT+SFGVA G E +AD ALY+AK+ GRNRVE Sbjct: 513 EKLRAALAAGEFEIDGGRRIRVTASFGVAAENGGPGLEHLIKQADIALYRAKKLGRNRVE 572 >gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 103 bits (257), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 69/163 (42%), Positives = 94/163 (57%), Gaps = 7/163 (4%) Query: 72 QLSDELDYKARHDNLTGALNRGAVFEQAHQILQ---QSPMSLVVLDIDFFKRINDEFGHP 128 +L EL++ A D LTG NR +Q ILQ S +++DID FK+IND+FGH Sbjct: 183 RLRKELEFIAFKDPLTGIDNRRRFMQQLPIILQAGQPSDACFLMIDIDNFKKINDDFGHA 242 Query: 129 AGDAVIRELVARLRTTLAGNGVIGRVGGEEFTILLSGVALEQAVILAGRIRQAIAGDRFQ 188 +GD + L AR + G +GR+GGEEF I LSG L A +A ++ Q + R Sbjct: 243 SGDEAL-ILTARAMQSALSEGALGRMGGEEFGIALSGGGLAHAEQVAAKLLQEV---RQI 298 Query: 189 CLPARPVTSSFGVAWAAAGSDFEEAYARADQALYQAKRGGRNR 231 + ARP+T S G+A A S + + ADQALYQAKR G++R Sbjct: 299 HIHARPLTVSIGIARATDHSSVSKVLSAADQALYQAKRAGKDR 341 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 99.0 bits (245), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 64/182 (35%), Positives = 97/182 (53%), Gaps = 10/182 (5%) Query: 57 DRTERELNLLNARLQQLSDELDYKARHDNLTGALNRGAVFEQ-----AHQILQQSPMSLV 111 ++ E + L +L Q+ + + R D LTG+LNR + E + + + +P+ + Sbjct: 344 EKAEERIQTLEQQLLQMGELV----REDQLTGSLNRRGMDESLDREITNALRRDTPLCVA 399 Query: 112 VLDIDFFKRINDEFGHPAGDAVIRELVARLRTTLAGNGVIGRVGGEEFTILLSGVALEQA 171 +LD+D FKRIND GH GD V+ +V +R TL VI R GGEEF +L+ A + A Sbjct: 400 LLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDA 459 Query: 172 VILAGRIRQAIAGDRFQCLPAR-PVTSSFGVAWAAAGSDFEEAYARADQALYQAKRGGRN 230 V + R+++ + F R +T S GVA G + RAD ALY+AK G+N Sbjct: 460 VQIITRVQRELTKRIFMHESQRLLITFSAGVAVYHPGESQADLLKRADVALYKAKNAGKN 519 Query: 231 RV 232 R+ Sbjct: 520 RI 521 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 97.8 bits (242), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 67/174 (38%), Positives = 96/174 (55%), Gaps = 7/174 (4%) Query: 65 LLNARLQQLSDELDYKARHDNLTGALNRGAVFEQAHQILQQSP-----MSLVVLDIDFFK 119 L R+++L+++L A D LTG NR + E + ++ +SL++LDID FK Sbjct: 147 LAEQRVERLNEKLALLAVTDKLTGLANRMKLDEVLDNEINRADRYGKNLSLILLDIDHFK 206 Query: 120 RINDEFGHPAGDAVIRELVARLRTTLAGNGVIGRVGGEEFTILLSGVALEQAVILAGRIR 179 +ND FGH GDAV+ + LR + + + GR GGEEF ++L +E A +A ++R Sbjct: 207 EVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGGEEFLLILPECDMEDAARMAEKLR 266 Query: 180 QAIAGDRFQCLPARPVTSSFGVAWAAAGSDFEEAYARADQALYQAKRGGRNRVE 233 I + + +P T SFGVA AG D AD ALY+AK GRNRVE Sbjct: 267 LLI--ENYNFVPVGRRTCSFGVAAYQAGHDRTTLLTLADLALYRAKNTGRNRVE 318 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 0.319 0.134 0.374 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: 761,691 Number of extensions: 32171 Number of successful extensions: 242 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 39 Length of query: 240 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 157 Effective length of database: 1,226,865 Effective search space: 192617805 Effective search space used: 192617805 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: 129 (54.3 bits)