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= 0035.0048.p (561 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... 1116 0.0 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 146 4e-36 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 142 6e-35 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 142 1e-34 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 135 6e-33 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 1116 bits (2887), Expect = 0.0, Method: Compositional matrix adjust. Identities = 554/561 (98%), Positives = 556/561 (99%) Query: 1 MKIKRFDCSLVTRLVLFGLMLIGISAVLRYHILIGFLEKEQAQVAADQQSIIASYLAQDI 60 MKIKRFDCSLVTRLVLFGLMLIGISAVLRYHILIGFLEKEQAQVAADQQSIIASYLAQDI Sbjct: 41 MKIKRFDCSLVTRLVLFGLMLIGISAVLRYHILIGFLEKEQAQVAADQQSIIASYLAQDI 100 Query: 61 GYRVQERVRYLERLALHLPADRLEDGHAMQAWQREHQELQPLFAQGMFVAAANGRILVDY 120 GYRVQERVRYLERLALHLPADRLEDGHAMQAW REHQELQPLFAQGMFVAAANG+ILVDY Sbjct: 101 GYRVQERVRYLERLALHLPADRLEDGHAMQAWLREHQELQPLFAQGMFVAAANGQILVDY 160 Query: 121 PTLNGRRALSLADYPDFKRVLQGATVICPPLLSPATGRPIMAVLTPVRDADGRVVGILGG 180 PTLNGRRALSLADYPDFKRVLQGATVICPPLLSPATGRPIMAVLTPVRDA GRVVGILGG Sbjct: 161 PTLNGRRALSLADYPDFKRVLQGATVICPPLLSPATGRPIMAVLTPVRDAHGRVVGILGG 220 Query: 181 STELTAAGFLDHLQRAQLGPTGSFLLISPEQRMIVASSDEALVYTRLPTAGQDLLMDRAL 240 STELTAAGFLDHLQRAQLGPTGSFLLISPEQRMIVASSDEALVYTRLP GQDLLMD+AL Sbjct: 221 STELTAAGFLDHLQRAQLGPTGSFLLISPEQRMIVASSDEALVYTRLPATGQDLLMDQAL 280 Query: 241 QGFRGNGVGLAANGVNEIKAFASVPGTSWLVAATLPLAAALPTVERTRALIARGGLIQAA 300 QGFRGNGVGLAANGVNEIKAFA VPGTSWLVAATLPLAAALPTVERTRALIARGGLIQAA Sbjct: 281 QGFRGNGVGLAANGVNEIKAFAPVPGTSWLVAATLPLAAALPTVERTRALIARGGLIQAA 340 Query: 301 MVVLLVVLAYLWFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLK 360 MVVLLVVLAYLWFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLK Sbjct: 341 MVVLLVVLAYLWFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLK 400 Query: 361 LHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPINDTLG 420 LHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPINDTLG Sbjct: 401 LHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPINDTLG 460 Query: 421 HKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVS 480 HKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVS Sbjct: 461 HKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVS 520 Query: 481 EPICLDQRQYRLGVSVGIAVCDGSCDADSLLQAADQAMYAAKANGRGCYVIAPARPACAN 540 EPICLDQRQYRLGVSVGIAVCDGSCDADSLLQAADQAMYAAKANGRGCYVIAPARPACAN Sbjct: 521 EPICLDQRQYRLGVSVGIAVCDGSCDADSLLQAADQAMYAAKANGRGCYVIAPARPACAN 580 Query: 541 TALSAPAETAGTTRPADSAHS 561 TALSAPAETAGTTRPADSAHS Sbjct: 581 TALSAPAETAGTTRPADSAHS 601 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 146 bits (369), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 79/167 (47%), Positives = 108/167 (64%), Gaps = 6/167 (3%) Query: 365 ELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPINDTLGHKAG 424 EL HD LT LPNR +L +R+ A+ A RE+ L+F+DLDGFK IND+LGH G Sbjct: 261 ELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVG 320 Query: 425 DQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVSEPIC 484 D++L E+ +RL +R DT+AR+GGDEFV+LV DL P + A +AEK ++ V++P Sbjct: 321 DRLLVEVAQRLTSSSRANDTVARLGGDEFVILV-DLNTP--EDAMGVAEKLVEAVNQPFK 377 Query: 485 LDQRQYRLGVSVGIAVC--DGSCDADSLLQAADQAMYAAKANGRGCY 529 +DQ + R+ SVGIA+ DG+ D L+ AD AMY K +GR Y Sbjct: 378 VDQHELRVSASVGIAIYPEDGATRHD-LVINADAAMYHTKRSGRNGY 423 >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 = 142 bits (359), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 77/166 (46%), Positives = 106/166 (63%), Gaps = 5/166 (3%) Query: 366 LQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNG-VGLLFLDLDGFKPINDTLGHKAG 424 ++H AH+D LTGLPNR + + + A+THA RNG V ++ +DLD FK INDT GH+ G Sbjct: 666 IRHLAHYDELTGLPNRFLCTQHVSNAITHA-EHRNGMVAVILMDLDRFKNINDTFGHETG 724 Query: 425 DQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVSEPIC 484 + VLQEI +R R R D LARVGGDEF++LV D P + G +A+K + +P Sbjct: 725 EAVLQEIAQRFRNSLRELDILARVGGDEFIVLVDDFDDPVQLG--EIAQKLLTEARKPFI 782 Query: 485 LDQRQYRLGVSVGIAVCDGSCD-ADSLLQAADQAMYAAKANGRGCY 529 +D ++ L VS+GIA G D A +L++ AD AMY AK +G+ Y Sbjct: 783 IDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDY 828 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 142 bits (357), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 80/177 (45%), Positives = 110/177 (62%), Gaps = 4/177 (2%) Query: 365 ELQHQAHHDVLTGLPNRMMLAERMQAALTHACRERNGVGLLFLDLDGFKPINDTLGHKAG 424 +L H A HDVLTGLPNR +LA+R+Q A+ A R +LF+DLDGFK IND+LGH G Sbjct: 257 KLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLGHAVG 316 Query: 425 DQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTDLRLPFEQGAQALAEKCIKTVSEPIC 484 D +L + +R+RQ R D +AR+GGDEFV++V +L P + L+E + + + Sbjct: 317 DGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSP--DVVEQLSENILAALRQDFQ 374 Query: 485 LDQRQYRLGVSVGIAVCDGSCDA-DSLLQAADQAMYAAKANGRGCY-VIAPARPACA 539 +D R+ S+GIAV S D+ D+L++ AD AMY AK +GR Y PA A A Sbjct: 375 IDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASA 431 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 135 bits (341), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 78/192 (40%), Positives = 119/192 (61%), Gaps = 8/192 (4%) Query: 343 DEVGQLTMAFNGLLARL---KLHQAELQHQAHHDVLTGLPNRMMLAERMQAALTHACRER 399 DE G+L+ + G + + K H+AE++HQA HD LTGLPNR ML E +Q AL A ++ Sbjct: 237 DEAGKLS-CYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKG 295 Query: 400 NGVGLLFLDLDGFKPINDTLGHKAGDQVLQEITRRLRQVARHGDTLARVGGDEFVLLVTD 459 + F+DLD FK IND+LGH+ GD++L+ + +RL+ R D +AR GGDEFVL++ + Sbjct: 296 ALTAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQN 355 Query: 460 LRLPFEQGAQALAEKCIKTVSEPICLDQRQYRLGVSVGIAV--CDGSCDADSLLQAADQA 517 + E G + ++ + V+ P R++++ S+G++ DG D +SLL+ AD A Sbjct: 356 -QTEGEAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGK-DVESLLKHADSA 413 Query: 518 MYAAKANGRGCY 529 MY AK GR + Sbjct: 414 MYRAKEQGRNNF 425 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: 1,509,308 Number of extensions: 58815 Number of successful extensions: 334 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 297 Number of HSP's successfully gapped: 40 Length of query: 561 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 471 Effective length of database: 1,193,720 Effective search space: 562242120 Effective search space used: 562242120 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: 41 (22.0 bits) S2: 133 (55.8 bits)