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= 0001.2788.p (554 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 834 0.0 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 142 9e-35 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 139 8e-34 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 139 8e-34 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 138 1e-33 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 834 bits (2155), Expect = 0.0, Method: Compositional matrix adjust. Identities = 434/545 (79%), Positives = 475/545 (87%), Gaps = 3/545 (0%) Query: 1 MNIKRIHCSLATRLVLFGILLIVGSAVMRYYILIGFLEKEQAQVAADQQSTIASYLADDI 60 M IKR CSL TRLVLFG++LI SAV+RY+ILIGFLEKEQAQVAADQQS IASYLA DI Sbjct: 41 MKIKRFDCSLVTRLVLFGLMLIGISAVLRYHILIGFLEKEQAQVAADQQSIIASYLAQDI 100 Query: 61 GYRVQERVRYLEGLARHITPAVLADHAQLQHWLQDHQLLQPLFGQGLFVADGNGVIVVDY 120 GYRVQERVRYLE LA H+ L D +Q WL++HQ LQPLF QG+FVA NG I+VDY Sbjct: 101 GYRVQERVRYLERLALHLPADRLEDGHAMQAWLREHQELQPLFAQGMFVAAANGQILVDY 160 Query: 121 PALNGRRTLSLTRYGDYERVLQGATVICPPLTSPASGKPIIAMLTPLRDANGKVVGVLGG 180 P LNGRR LSL Y D++RVLQGATVICPPL SPA+G+PI+A+LTP+RDA+G+VVG+LGG Sbjct: 161 PTLNGRRALSLADYPDFKRVLQGATVICPPLLSPATGRPIMAVLTPVRDAHGRVVGILGG 220 Query: 181 STELNAPGFLDHLQRARLGPSGSSGSFLLISPSQRTIIAASDAALLYTQLPPTGQDPLMD 240 STEL A GFLDHLQRA+LGP+GS FLLISP QR I+A+SD AL+YT+LP TGQD LMD Sbjct: 221 STELTAAGFLDHLQRAQLGPTGS---FLLISPEQRMIVASSDEALVYTRLPATGQDLLMD 277 Query: 241 QALQGFRGNGVGLAANGINEIQAFASVPGTDWLVAVTLPLAAALPTVEHTRALIGRGGII 300 QALQGFRGNGVGLAANG+NEI+AFA VPGT WLVA TLPLAAALPTVE TRALI RGG+I Sbjct: 278 QALQGFRGNGVGLAANGVNEIKAFAPVPGTSWLVAATLPLAAALPTVERTRALIARGGLI 337 Query: 301 QGVAVVLFLWLAYVWFFRPLRRAAALADRMTRGELPLSPLPVVRRDEVGHLTLAFNGLLS 360 Q VVL + LAY+WFFRPLRRAAALADRMTRGELPLSPLPV RRDEVG LT+AFNGLL+ Sbjct: 338 QAAMVVLLVVLAYLWFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLA 397 Query: 361 RLKLHQAELQHQAHHDVLTGLPNRMMLAERMEAALTHACRARTGVALLFLDLDGFKPIND 420 RLKLHQAELQHQAHHDVLTGLPNRMMLAERM+AALTHACR R GV LLFLDLDGFKPIND Sbjct: 398 RLKLHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPIND 457 Query: 421 TLGHKAGDLVLQEVTRRLRQVARHGDTLARVGGDEFVLLITDLGQPYEHGAQVLAEKCIK 480 TLGHKAGD VLQE+TRRLRQVARHGDTLARVGGDEFVLL+TDL P+E GAQ LAEKCIK Sbjct: 458 TLGHKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIK 517 Query: 481 VVSEPLHLAQGEYQLGVSVGIAVCDGSCDADSLLQAADQAMYAAKGNGRGGYVIAPARPT 540 VSEP+ L Q +Y+LGVSVGIAVCDGSCDADSLLQAADQAMYAAK NGRG YVIAPARP Sbjct: 518 TVSEPICLDQRQYRLGVSVGIAVCDGSCDADSLLQAADQAMYAAKANGRGCYVIAPARPA 577 Query: 541 SSANA 545 + A Sbjct: 578 CANTA 582 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 142 bits (357), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 83/180 (46%), Positives = 113/180 (62%), Gaps = 8/180 (4%) Query: 368 ELQHQAHHDVLTGLPNRMMLAERMEAALTHACRARTGVALLFLDLDGFKPINDTLGHKAG 427 EL HD LT LPNR +L +R+ A+ A R + AL+F+DLDGFK IND+LGH G Sbjct: 261 ELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVG 320 Query: 428 DLVLQEVTRRLRQVARHGDTLARVGGDEFVLLITDLGQPYEHGAQVLAEKCIKVVSEPLH 487 D +L EV +RL +R DT+AR+GGDEFV+L+ DL P + A +AEK ++ V++P Sbjct: 321 DRLLVEVAQRLTSSSRANDTVARLGGDEFVILV-DLNTPED--AMGVAEKLVEAVNQPFK 377 Query: 488 LAQGEYQLGVSVGIAVC--DGSCDADSLLQAADQAMYAAKGNGRGGYVIAPARPTSSANA 545 + Q E ++ SVGIA+ DG+ D L+ AD AMY K +GR GY P+ +ANA Sbjct: 378 VDQHELRVSASVGIAIYPEDGATRHD-LVINADAAMYHTKRSGRNGYHF--FEPSMNANA 434 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 139 bits (349), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 81/189 (42%), Positives = 115/189 (60%), Gaps = 4/189 (2%) Query: 368 ELQHQAHHDVLTGLPNRMMLAERMEAALTHACRARTGVALLFLDLDGFKPINDTLGHKAG 427 +L H A HDVLTGLPNR +LA+R++ A+ A R A+LF+DLDGFK IND+LGH G Sbjct: 257 KLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVG 316 Query: 428 DLVLQEVTRRLRQVARHGDTLARVGGDEFVLLITDLGQPYEHGAQVLAEKCIKVVSEPLH 487 D +L V +R+RQ R D +AR+GGDEFV+++ +L P + L+E + + + Sbjct: 317 DGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSP--DVVEQLSENILAALRQDFQ 374 Query: 488 LAQGEYQLGVSVGIAVCDGSCDA-DSLLQAADQAMYAAKGNGRGGY-VIAPARPTSSANA 545 + ++ S+GIAV S D+ D+L++ AD AMY AK +GR Y PA S+ Sbjct: 375 IDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAMRH 434 Query: 546 SAHRQELQE 554 RQ LQ+ Sbjct: 435 LQVRQALQQ 443 >gi|300312026|ref|YP_003776118.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1106 Score = 139 bits (349), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 73/165 (44%), Positives = 102/165 (61%), Gaps = 3/165 (1%) Query: 369 LQHQAHHDVLTGLPNRMMLAERMEAALTHACRARTGVALLFLDLDGFKPINDTLGHKAGD 428 ++H AH+D LTGLPNR + + + A+THA VA++ +DLD FK INDT GH+ G+ Sbjct: 666 IRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGHETGE 725 Query: 429 LVLQEVTRRLRQVARHGDTLARVGGDEFVLLITDLGQPYEHGAQVLAEKCIKVVSEPLHL 488 VLQE+ +R R R D LARVGGDEF++L+ D P + G +A+K + +P + Sbjct: 726 AVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLGE--IAQKLLTEARKPFII 783 Query: 489 AQGEYQLGVSVGIAVCDGSCD-ADSLLQAADQAMYAAKGNGRGGY 532 E L VS+GIA G D A +L++ AD AMY AK +G+ Y Sbjct: 784 DGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDY 828 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 138 bits (347), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 83/205 (40%), Positives = 121/205 (59%), Gaps = 9/205 (4%) Query: 346 DEVGHLTLAFNGL---LSRLKLHQAELQHQAHHDVLTGLPNRMMLAERMEAALTHACRAR 402 DE G L+ + G ++ K H+AE++HQA HD LTGLPNR ML E ++ AL A + Sbjct: 237 DEAGKLS-CYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKG 295 Query: 403 TGVALLFLDLDGFKPINDTLGHKAGDLVLQEVTRRLRQVARHGDTLARVGGDEFVLLITD 462 A+ F+DLD FK IND+LGH+ GD +L+ V +RL+ R D +AR GGDEFVL++ + Sbjct: 296 ALTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQN 355 Query: 463 LGQPYEHGAQVLAEKCIKVVSEPLHLAQGEYQLGVSVGIAV--CDGSCDADSLLQAADQA 520 + E G + ++ + V+ P E+Q+ S+G++ DG D +SLL+ AD A Sbjct: 356 QTEG-EAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGK-DVESLLKHADSA 413 Query: 521 MYAAKGNGRGGY-VIAPARPTSSAN 544 MY AK GR + AP + +N Sbjct: 414 MYRAKEQGRNNFQFFAPWMDSQVSN 438 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 0.322 0.138 0.408 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: 1,559,939 Number of extensions: 59883 Number of successful extensions: 337 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 295 Number of HSP's successfully gapped: 38 Length of query: 554 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 464 Effective length of database: 1,193,720 Effective search space: 553886080 Effective search space used: 553886080 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 (21.9 bits) S2: 133 (55.8 bits)