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= 0021.0068.p (540 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 975 0.0 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 125 1e-29 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 120 3e-28 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 120 3e-28 gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspi... 118 1e-27 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 975 bits (2521), Expect = 0.0, Method: Compositional matrix adjust. Identities = 490/531 (92%), Positives = 509/531 (95%), Gaps = 3/531 (0%) Query: 1 MSKKPTTLTPVEIAREAFQRLGARRISPTPDAYRIAYEEIQGGMPGVTAESVLSTFATKL 60 MSKKP+TLTPVEIAREAFQRLGARRI+PTPDAYRIAYEEIQG PG +AESVL+ FATKL Sbjct: 1 MSKKPSTLTPVEIAREAFQRLGARRIAPTPDAYRIAYEEIQGDGPGASAESVLAAFATKL 60 Query: 61 SRQPGENGLLGTRLVRARENGDWTEFERQLIEFADANWQSRPIVPAKPAVPHGELVPIDL 120 SRQPGENGLLGTRLVRAREN DW EFERQLIEFA+ NWQ+RP+ P V HGELVPIDL Sbjct: 61 SRQPGENGLLGTRLVRARENNDWAEFERQLIEFAEENWQNRPL---GPQVQHGELVPIDL 117 Query: 121 ERQFIRDSIKEKMLREMLARILVFNLPSLLSTAPELANESRNSGQDLKMAFSEQAMNEII 180 ER+FIRDS KEKMLREMLAR+LVFNLPSLLSTAPELANESRNSGQ+LK AFSEQAMNEII Sbjct: 118 EREFIRDSKKEKMLREMLARVLVFNLPSLLSTAPELANESRNSGQELKTAFSEQAMNEII 177 Query: 181 TRVKQLSFQIELKTDDMAQQQELLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL 240 R+KQLSFQIELKTDDMAQQQ+LLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL Sbjct: 178 ARLKQLSFQIELKTDDMAQQQDLLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL 237 Query: 241 SNTSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG 300 S TSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG Sbjct: 238 STTSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG 297 Query: 301 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAMVDARQEVEKAEERIQALEQQL 360 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAM DARQEVEKAEERIQ LEQQL Sbjct: 298 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAMEDARQEVEKAEERIQTLEQQL 357 Query: 361 QQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFKRINDTHGHAT 420 QMGELVREDQLTGSLNRRGMDESLDREI NALRR+TPLCVALLDLDDFKRINDTHGHAT Sbjct: 358 LQMGELVREDQLTGSLNRRGMDESLDREITNALRRDTPLCVALLDLDDFKRINDTHGHAT 417 Query: 421 GDEVLVHLVQVIRETLRKLDVIARFGGEEFVILMPETSPQDAVQIITRVQRELTKRIFMH 480 GDEVLVH+VQVIRETLRKLDVIARFGGEEF++LMPET+PQDAVQIITRVQRELTKRIFMH Sbjct: 418 GDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDAVQIITRVQRELTKRIFMH 477 Query: 481 ESQRLLITFSAGVSVYHPGESQAELLKRTDVALYKAKNAGKNRIVFADPPA 531 ESQRLLITFSAGV+VYHPGESQA+LLKR DVALYKAKNAGKNRIVFADPPA Sbjct: 478 ESQRLLITFSAGVAVYHPGESQADLLKRADVALYKAKNAGKNRIVFADPPA 528 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 125 bits (313), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 71/182 (39%), Positives = 106/182 (58%), Gaps = 5/182 (2%) Query: 351 ERIQALEQQLQQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFK 410 ER + L Q +Q+ L D LTG NRR DE+L++E ++R TPL +A +D+D FK Sbjct: 181 ERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFK 240 Query: 411 RINDTHGHATGDEVLVHLVQVIRETLRKL-DVIARFGGEEFVILMPETSPQDAVQIITRV 469 ND +GH GD VL + Q +R+++ ++ D +AR+GGEEF I+ +T Q ++ R+ Sbjct: 241 PYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRM 300 Query: 470 QRELTKRIFMHESQRL-LITFSAGVSVYHPGESQA---ELLKRTDVALYKAKNAGKNRIV 525 + H + IT SAGV+ +PG+ A LL+ D ALY+AK G+NR+V Sbjct: 301 CDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRVV 360 Query: 526 FA 527 A Sbjct: 361 LA 362 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 120 bits (301), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 69/195 (35%), Positives = 108/195 (55%), Gaps = 15/195 (7%) Query: 345 EVEKAEERIQALEQQLQQMGELVRE--------------DQLTGSLNRRGMDESLDREIA 390 E+ ++ L Q++++ L RE D LTG LNRR +++ Sbjct: 377 EISAMMRALKVLRQRMRERNSLAREREALITQLQTSSNTDFLTGVLNRRAFFTHGQQQMT 436 Query: 391 NALRRETPLCVALLDLDDFKRINDTHGHATGDEVLVHLVQVIRETLRKLDVIARFGGEEF 450 A R L V L D+D FK+IND++GH GD +L + Q + + LRK+DV+AR+GGEEF Sbjct: 437 VAKRYGRELAVVLFDIDHFKQINDSYGHQAGDAILRGVAQSVSQLLRKVDVLARYGGEEF 496 Query: 451 VILMPETSPQDAVQIITRVQRELTKRIF-MHESQRLLITFSAGVSVYHPGESQAELLKRT 509 +IL+PE+S A +++ L F + +R+ +T S GV+ + G L+K+ Sbjct: 497 IILLPESSLLQAAAASEKLRAALAAGEFEIDGGRRIRVTASFGVAAENGGPGLEHLIKQA 556 Query: 510 DVALYKAKNAGKNRI 524 D+ALY+AK G+NR+ Sbjct: 557 DIALYRAKKLGRNRV 571 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 120 bits (301), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 71/179 (39%), Positives = 108/179 (60%), Gaps = 6/179 (3%) Query: 349 AEERIQALEQQLQQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDD 408 AE+R++ L ++L L D+LTG NR +DE LD EI A R L + LLD+D Sbjct: 148 AEQRVERLNEKLAL---LAVTDKLTGLANRMKLDEVLDNEINRADRYGKNLSLILLDIDH 204 Query: 409 FKRINDTHGHATGDEVLVHLVQVIRETLRKLDVIARFGGEEFVILMPETSPQDAVQIITR 468 FK +ND GH+TGD VLV + +++R +R D+ R+GGEEF++++PE +DA ++ + Sbjct: 205 FKEVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGGEEFLLILPECDMEDAARMAEK 264 Query: 469 VQRELTKRIFMHESQRLLITFSAGVSVYHPGESQAELLKRTDVALYKAKNAGKNRIVFA 527 ++ + F+ +R T S GV+ Y G + LL D+ALY+AKN G+NR+ A Sbjct: 265 LRLLIENYNFVPVGRR---TCSFGVAAYQAGHDRTTLLTLADLALYRAKNTGRNRVEIA 320 >gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 118 bits (295), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 92/159 (57%), Gaps = 5/159 (3%) Query: 366 LVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFKRINDTHGHATGDEVL 425 L EDQLTG+LNRR + + +A A+ R++ L +A +D+D FK+IND HGH GD VL Sbjct: 230 LATEDQLTGALNRRELVRCGELLLARAVERKSVLALAFIDVDHFKQINDRHGHLAGDRVL 289 Query: 426 VHLVQVIRETLRKLDVIARFGGEEFVILMPETSPQDAVQIITRVQRELTKRIFMHESQRL 485 + + ++ R DV+ R+GGEEF + P A QI R+ + + F H Sbjct: 290 AGIGATLAQSCRPGDVLGRYGGEEFCAVFPGVDHDQACQIGQRLLESVRTQRFEHGHP-- 347 Query: 486 LITFSAGVSVYHPGE--SQAELLKRTDVALYKAKNAGKN 522 +T S G++V PG S EL+ D+ALY+AKN G+N Sbjct: 348 -VTISVGLAVLQPGNQRSWDELVHEADLALYRAKNEGRN 385 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 0.316 0.131 0.357 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: 1,430,152 Number of extensions: 55955 Number of successful extensions: 313 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 260 Number of HSP's successfully gapped: 39 Length of query: 540 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 450 Effective length of database: 1,193,720 Effective search space: 537174000 Effective search space used: 537174000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 133 (55.8 bits)