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= 0038.0002.p (553 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C1PDZ2.1 C1PDZ2_BACCO Signal transduction histidine kinase, LytS... 742 0.0 A1JLE4.1 A1JLE4_YERE8 Two-component system histidine kinase 711 0.0 C4TZE3.1 C4TZE3_YERKR Inner membrane protein ypdA 710 0.0 C4UX26.1 C4UX26_YERRO Inner membrane protein ypdA 710 0.0 C4STA6.1 C4STA6_YERFR Inner membrane protein ypdA 709 0.0 >C1PDZ2.1 C1PDZ2_BACCO Signal transduction histidine kinase, LytS EC=2.7.13.3 Length = 566 Score = 742 bits (1916), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/530 (68%), Positives = 435/530 (82%) Query: 21 CLFVLTRVPRFKEIFVQGAYAPQELAMVTVIFSLFAIFGTYTGINVEGSLVNVRIIAIVA 80 CLF +TR+PRFKEIF Q + EL+ +T +F FAIF TY+GI V+GSLVNVRIIAIV+ Sbjct: 21 CLFFITRIPRFKEIFQQEQPSVFELSFITAVFCSFAIFATYSGIKVDGSLVNVRIIAIVS 80 Query: 81 GGILFGPWVGLITGVISGVHRFLIDIGGITSVPCLITSIAAGMVSGVIYRRTSAEHRWIA 140 GGILFGPWVG+ITG++SG+HR+LIDIGG+TS+PCLITSI AG++SG+I R+ RW Sbjct: 81 GGILFGPWVGIITGIVSGLHRYLIDIGGVTSIPCLITSITAGVISGLISRKVKNSWRWFV 140 Query: 141 GILAGMACEALTMVLILVMANPASLGVDIVSKIAFPMIAGQISVGLIVLLVQSVEGEKER 200 GI AGM CE LTM+LILV A+P S GVDIVSKIAFPMIAG +++GLIVLL++SVEGEKE Sbjct: 141 GIAAGMFCEILTMLLILVFAHPFSTGVDIVSKIAFPMIAGDVNIGLIVLLIKSVEGEKEF 200 Query: 201 IAAKQSKLALDIANKTLPYFRSITPQSLRIICGIIKEDIGADAVAITDTRYIRAYVGVGE 260 +AAKQ+KLALDIANKT+PYFR+I +SL IC IIK +I ADAVAITDT+ I AYVG G+ Sbjct: 201 VAAKQAKLALDIANKTMPYFRAINAESLEKICAIIKNEIRADAVAITDTKKILAYVGFGQ 260 Query: 261 EYYAETNEIISEETKMTLRSGEITIRDDDTEYMNRAIRSLIIIPLKEKGEVTGALKIYYT 320 E Y +EIIS+ TK ++SGEITIR+ + I+ L+IIPLKE+ EVTG LKIYY Sbjct: 261 ERYQIGHEIISDLTKTAIKSGEITIRNHIQDQQTPQIQCLLIIPLKERDEVTGTLKIYYK 320 Query: 321 KAHKITYSLQAMAVGLSQIISTLMEVSRVEDIKEMANKAELKALQTSINPHFLFNALNAI 380 KA+KITYSLQ MA+GL+Q+ISTLME+SR+E+IKE ANKAE KALQT INPHFLFNALNAI Sbjct: 321 KANKITYSLQTMAIGLAQMISTLMEISRIEEIKEEANKAEWKALQTKINPHFLFNALNAI 380 Query: 381 ISSIRIDPDKARELIVNLSGYMRYNLELTDEFIDIRRELQQVQQYVEIEKARFGSRLAVE 440 S+ R +PDKAR+LI+NLSG+MRYNLELTD+FIDI +ELQQV+ Y+EIEKARFGSRL VE Sbjct: 381 ASTTRRNPDKARKLIMNLSGFMRYNLELTDDFIDINKELQQVRDYIEIEKARFGSRLQVE 440 Query: 441 YEIDELEVRIPSLIIQPLVENAIVHGILKVRGQGTVTISVKDLGSAVRIGITDTGIGISE 500 YEID + + IPSLIIQPLVENAI HGILKV+ G V ISVK+ G VRI +TDTG GI + Sbjct: 441 YEIDVVSMLIPSLIIQPLVENAINHGILKVKEPGVVKISVKEAGDKVRISVTDTGAGIPK 500 Query: 501 ETIGKVYSGNMPDHKIGLYNVHQRVKLIYGKGLTIHRLDQGTEIYFDVTK 550 E I VY NMP +IGLYNVH+RVKLIYG GL I RL+ GTE+YF+V K Sbjct: 501 EVIEHVYQDNMPVTQIGLYNVHRRVKLIYGNGLVIRRLNPGTEVYFEVPK 550 >A1JLE4.1 A1JLE4_YERE8 Two-component system histidine kinase Length = 566 Score = 711 bits (1836), Expect = 0.0, Method: Compositional matrix adjust. Identities = 349/533 (65%), Positives = 434/533 (81%), Gaps = 1/533 (0%) Query: 20 MCLFVLTRVPRFKEIFVQGAYAPQELAMVTVIFSLFAIFGTYTGINVEGSLVNVRIIAIV 79 +CLF LTR F+++ + + P ELA VT IFSLFAIFGTY+GINVEGSLVNVR+IA++ Sbjct: 20 ICLFFLTRTHLFRQLLQKEKHTPLELAAVTAIFSLFAIFGTYSGINVEGSLVNVRVIAVM 79 Query: 80 AGGILFGPWVGLITGVISGVHRFLIDIGGITSVPCLITSIAAGMVSGVIYRRTSAEHRWI 139 +GGILFGPWVG+ITG+I+G HR+LIDI GITSVPCLITSI AG++SG I + E +W Sbjct: 80 SGGILFGPWVGIITGLIAGSHRYLIDIDGITSVPCLITSIIAGLMSGYINLKVKKERQWS 139 Query: 140 AGILAGMACEALTMVLILVMANPASLGVDIVSKIAFPMIAGQISVGLIVLLVQSVEGEKE 199 GILAGM CE+LTM+L+++ A P +LG+DIVSKIA PMI G + +GLIVLLVQSVE EKE Sbjct: 140 IGILAGMICESLTMLLVVIWAKPTALGIDIVSKIAIPMILGAVCIGLIVLLVQSVEDEKE 199 Query: 200 RIAAKQSKLALDIANKTLPYFRSITPQSLRIICGIIKEDIGADAVAITDTRYIRAYVGVG 259 IAA+Q+KLALDIANKTLPYFR+I +SLR +C II+ DI ADAVAITDT++I AYVGVG Sbjct: 200 VIAARQAKLALDIANKTLPYFRNINGESLRSVCEIIRHDIKADAVAITDTQHILAYVGVG 259 Query: 260 EEYYAETNEIISEETKMTLRSGEITIRDDDTEYMNRAIRSLIIIPLKEKGEVTGALKIYY 319 E Y +EIIS+ TK +++ G+ITIR++D + I SLIIIPL EKGEVTG+LKIYY Sbjct: 260 VETYNIGHEIISDITKESIQRGKITIRNNDEVHRTPQIHSLIIIPLWEKGEVTGSLKIYY 319 Query: 320 TKAHKITYSLQAMAVGLSQIISTLMEVSRVEDIKEMANKAELKALQTSINPHFLFNALNA 379 AHKITYSL+ MAVGLSQIIST +EVSR+E ++EMANKAE++ALQ+ INPHFLFNALNA Sbjct: 320 CHAHKITYSLKVMAVGLSQIISTQIEVSRIEQLREMANKAEMRALQSKINPHFLFNALNA 379 Query: 380 IISSIRIDPDKARELIVNLSGYMRYNLELTDEFIDIRRELQQVQQYVEIEKARFGSRLAV 439 I SSIRI+PD AR+LI+NLS Y+RYNLEL DE IDIR+EL Q+Q Y+ IE+ARFGS+L V Sbjct: 380 ISSSIRINPDTARQLIINLSRYLRYNLELNDEQIDIRKELHQIQDYIAIEQARFGSKLTV 439 Query: 440 EYEI-DELEVRIPSLIIQPLVENAIVHGILKVRGQGTVTISVKDLGSAVRIGITDTGIGI 498 Y+I D++ ++IPSL+IQPLVENAIVHGI RG+G V I+VKD G ++I + DTG GI Sbjct: 440 IYDIDDDIALKIPSLLIQPLVENAIVHGIQPFRGKGVVVIAVKDCGDQIKISVKDTGNGI 499 Query: 499 SEETIGKVYSGNMPDHKIGLYNVHQRVKLIYGKGLTIHRLDQGTEIYFDVTKE 551 ++ETI +V + MP +KIGL NVH RVKL+YG+GL I R++ GTEI F ++K Sbjct: 500 NQETIERVANNEMPGNKIGLLNVHHRVKLLYGEGLQIRRMEPGTEISFYISKN 552 >C4TZE3.1 C4TZE3_YERKR Inner membrane protein ypdA Length = 573 Score = 710 bits (1833), Expect = 0.0, Method: Compositional matrix adjust. Identities = 348/533 (65%), Positives = 433/533 (81%), Gaps = 1/533 (0%) Query: 20 MCLFVLTRVPRFKEIFVQGAYAPQELAMVTVIFSLFAIFGTYTGINVEGSLVNVRIIAIV 79 +CLF LTR F+++ + + P ELA VT IFSLFAIFGTY+GINVEGSLVNVR+IA++ Sbjct: 27 ICLFFLTRTRLFRQLLQKEKHTPLELAAVTAIFSLFAIFGTYSGINVEGSLVNVRVIAVM 86 Query: 80 AGGILFGPWVGLITGVISGVHRFLIDIGGITSVPCLITSIAAGMVSGVIYRRTSAEHRWI 139 +GGILFGPWVG+ITG+I+G HR+LIDI GITSVPCLITSI AG++SG I + E +W Sbjct: 87 SGGILFGPWVGIITGLIAGSHRYLIDIDGITSVPCLITSIIAGLMSGYINLKVKKERQWS 146 Query: 140 AGILAGMACEALTMVLILVMANPASLGVDIVSKIAFPMIAGQISVGLIVLLVQSVEGEKE 199 GILAGM CE+LTM+L+++ A P +LG+DIVSKIA PMI G + +GLIVLLVQSVE EKE Sbjct: 147 IGILAGMICESLTMLLVVIWAKPTTLGIDIVSKIAIPMILGAVCIGLIVLLVQSVEDEKE 206 Query: 200 RIAAKQSKLALDIANKTLPYFRSITPQSLRIICGIIKEDIGADAVAITDTRYIRAYVGVG 259 IAA+Q+KLALDIANKTLPYFR+I +SLR +C II+ DI ADAVAITDT++I AYVGVG Sbjct: 207 VIAARQAKLALDIANKTLPYFRNINGESLRSVCEIIRNDIKADAVAITDTQHILAYVGVG 266 Query: 260 EEYYAETNEIISEETKMTLRSGEITIRDDDTEYMNRAIRSLIIIPLKEKGEVTGALKIYY 319 E Y +E IS+ TK +++ G+ITIR++D + I SLIIIPL EKGEVTG+LKIYY Sbjct: 267 VETYNIGHETISDITKESIQRGKITIRNNDEAHRTPQIHSLIIIPLWEKGEVTGSLKIYY 326 Query: 320 TKAHKITYSLQAMAVGLSQIISTLMEVSRVEDIKEMANKAELKALQTSINPHFLFNALNA 379 AHKITYSL+ MAVGLSQIIST +EVSR+E ++EMANKAE++ALQ+ INPHFLFNALNA Sbjct: 327 CHAHKITYSLKVMAVGLSQIISTQIEVSRIEHLREMANKAEMRALQSKINPHFLFNALNA 386 Query: 380 IISSIRIDPDKARELIVNLSGYMRYNLELTDEFIDIRRELQQVQQYVEIEKARFGSRLAV 439 I SSIRI+PD AR+LI+NLS Y+RYNLEL DE IDIR+EL Q+Q Y+ IE+ARFGS+L V Sbjct: 387 ISSSIRINPDTARQLIINLSRYLRYNLELNDEQIDIRKELHQIQDYIAIEQARFGSKLTV 446 Query: 440 EYEI-DELEVRIPSLIIQPLVENAIVHGILKVRGQGTVTISVKDLGSAVRIGITDTGIGI 498 Y+I D++ ++IPSL+IQPLVENAIVHGI RG+G V I+VKD G ++I + DTG GI Sbjct: 447 IYDIDDDIALKIPSLLIQPLVENAIVHGIQPCRGKGVVVIAVKDSGDQIKISVKDTGNGI 506 Query: 499 SEETIGKVYSGNMPDHKIGLYNVHQRVKLIYGKGLTIHRLDQGTEIYFDVTKE 551 ++ETI +V + MP +KIGL NVH RVKL+YG+GL I R++ GTEI F ++K Sbjct: 507 NQETIARVANNEMPGNKIGLLNVHHRVKLLYGEGLQIRRMEPGTEISFYISKN 559 >C4UX26.1 C4UX26_YERRO Inner membrane protein ypdA Length = 566 Score = 710 bits (1832), Expect = 0.0, Method: Compositional matrix adjust. Identities = 350/533 (65%), Positives = 433/533 (81%), Gaps = 1/533 (0%) Query: 20 MCLFVLTRVPRFKEIFVQGAYAPQELAMVTVIFSLFAIFGTYTGINVEGSLVNVRIIAIV 79 +CLF LTR F+++ + + P ELA VT IFSLFAIFGTY+GINVEGSLVNVR+IA++ Sbjct: 20 ICLFFLTRTYLFRQLLQKEKHTPLELAAVTAIFSLFAIFGTYSGINVEGSLVNVRVIAVM 79 Query: 80 AGGILFGPWVGLITGVISGVHRFLIDIGGITSVPCLITSIAAGMVSGVIYRRTSAEHRWI 139 +GGILFGPWVG+ITG+I+G HR+LIDI GITSVPCLITSI AG++SG I + E +W Sbjct: 80 SGGILFGPWVGIITGLIAGSHRYLIDIDGITSVPCLITSIIAGLMSGYINLKVKKERQWS 139 Query: 140 AGILAGMACEALTMVLILVMANPASLGVDIVSKIAFPMIAGQISVGLIVLLVQSVEGEKE 199 GIL GM CE+LTM+L+++ A P +LG+DIVSKIA PMI G + +GLIVLLVQSVE EKE Sbjct: 140 IGILGGMICESLTMLLVVIWAKPTALGLDIVSKIAIPMILGAVCIGLIVLLVQSVEDEKE 199 Query: 200 RIAAKQSKLALDIANKTLPYFRSITPQSLRIICGIIKEDIGADAVAITDTRYIRAYVGVG 259 IAA+Q+KLALDIANKTLPYFR+I +SLR +C II+ DI ADAVAITDT +I AYVGVG Sbjct: 200 VIAARQAKLALDIANKTLPYFRNINGESLRSVCEIIRNDIKADAVAITDTHHILAYVGVG 259 Query: 260 EEYYAETNEIISEETKMTLRSGEITIRDDDTEYMNRAIRSLIIIPLKEKGEVTGALKIYY 319 E Y +EIIS+ TK +++ G+ITIR++D + I SLIIIPL EKGEVTG+LKIYY Sbjct: 260 VETYNIGHEIISDITKESIQRGKITIRNNDEVHRTPQIHSLIIIPLWEKGEVTGSLKIYY 319 Query: 320 TKAHKITYSLQAMAVGLSQIISTLMEVSRVEDIKEMANKAELKALQTSINPHFLFNALNA 379 AHKITYSL+ MAVGLSQIIST +EVSR+E ++EMANKAE++ALQ+ INPHFLFNALNA Sbjct: 320 CHAHKITYSLKVMAVGLSQIISTQIEVSRIEQLREMANKAEMRALQSKINPHFLFNALNA 379 Query: 380 IISSIRIDPDKARELIVNLSGYMRYNLELTDEFIDIRRELQQVQQYVEIEKARFGSRLAV 439 I SSIRI+PD AR+LI+NLS Y+RYNLEL DE IDIR+EL Q+Q Y+ IE+ARFGS+L V Sbjct: 380 ISSSIRINPDTARQLIINLSRYLRYNLELNDEQIDIRKELHQIQDYIAIEQARFGSKLTV 439 Query: 440 EYEI-DELEVRIPSLIIQPLVENAIVHGILKVRGQGTVTISVKDLGSAVRIGITDTGIGI 498 Y+I D++ ++IPSL+IQPLVENAIVHGI RG+G V I+VKD GS ++I + DTG GI Sbjct: 440 IYDIDDDIALKIPSLLIQPLVENAIVHGIQPCRGKGVVVIAVKDCGSQIKISVKDTGNGI 499 Query: 499 SEETIGKVYSGNMPDHKIGLYNVHQRVKLIYGKGLTIHRLDQGTEIYFDVTKE 551 ++ETI +V + MP +KIGL NVH RVKL+YG+GL I RL+ GTEI F ++K Sbjct: 500 NQETIERVANNEMPGNKIGLLNVHHRVKLLYGEGLQIRRLEPGTEISFYISKN 552 >C4STA6.1 C4STA6_YERFR Inner membrane protein ypdA Length = 566 Score = 709 bits (1831), Expect = 0.0, Method: Compositional matrix adjust. Identities = 349/533 (65%), Positives = 431/533 (80%), Gaps = 1/533 (0%) Query: 20 MCLFVLTRVPRFKEIFVQGAYAPQELAMVTVIFSLFAIFGTYTGINVEGSLVNVRIIAIV 79 +CLF LTR F+++ + + P ELA VT IFSLFAIFGTY+GINVEGSLVNVR+IA++ Sbjct: 20 ICLFFLTRTHLFRQLLQKEKHTPLELAAVTAIFSLFAIFGTYSGINVEGSLVNVRVIAVM 79 Query: 80 AGGILFGPWVGLITGVISGVHRFLIDIGGITSVPCLITSIAAGMVSGVIYRRTSAEHRWI 139 +GGILFGPWVG+ITG+I+G HR+LIDI GITSVPCLITSI AG++SG I + E +W Sbjct: 80 SGGILFGPWVGIITGLIAGSHRYLIDIDGITSVPCLITSIIAGLMSGYINLKVKKERQWS 139 Query: 140 AGILAGMACEALTMVLILVMANPASLGVDIVSKIAFPMIAGQISVGLIVLLVQSVEGEKE 199 GIL+GM CE+LTM+L+++ A P LG+DIVSKIA PMI G + +GLIVLLVQSVE EKE Sbjct: 140 IGILSGMICESLTMLLVVIWAKPTELGIDIVSKIAIPMILGAVCIGLIVLLVQSVEDEKE 199 Query: 200 RIAAKQSKLALDIANKTLPYFRSITPQSLRIICGIIKEDIGADAVAITDTRYIRAYVGVG 259 IAA+Q+KLALDIANKTLPYFR I +SLR +C II+ DI ADAVAITDT+ I AYVGVG Sbjct: 200 VIAARQAKLALDIANKTLPYFRHINGESLRSVCEIIRNDIKADAVAITDTQTILAYVGVG 259 Query: 260 EEYYAETNEIISEETKMTLRSGEITIRDDDTEYMNRAIRSLIIIPLKEKGEVTGALKIYY 319 E Y NEIIS+ TK +++ G+ITIR++D + I SLIIIPL EKGEVTG+LKIYY Sbjct: 260 VETYNIGNEIISDITKESIQRGKITIRNNDEVHRTPQIHSLIIIPLWEKGEVTGSLKIYY 319 Query: 320 TKAHKITYSLQAMAVGLSQIISTLMEVSRVEDIKEMANKAELKALQTSINPHFLFNALNA 379 AHKITYSL+ MAVGLSQIIST +EVSR+E ++EMANKAE++ALQ+ INPHFLFNALNA Sbjct: 320 CHAHKITYSLKVMAVGLSQIISTQIEVSRIEQLREMANKAEMRALQSKINPHFLFNALNA 379 Query: 380 IISSIRIDPDKARELIVNLSGYMRYNLELTDEFIDIRRELQQVQQYVEIEKARFGSRLAV 439 I SSIRI+PD AR+LI+NLS Y+RYNLEL DE IDIR+EL Q+Q Y+ IE+ARFGS+L V Sbjct: 380 ISSSIRINPDTARQLIINLSRYLRYNLELNDEQIDIRKELHQIQDYIAIEQARFGSKLTV 439 Query: 440 EYEI-DELEVRIPSLIIQPLVENAIVHGILKVRGQGTVTISVKDLGSAVRIGITDTGIGI 498 Y+I D++ ++IPSL+IQPLVENAIVHGI RG+G V I+VKD G ++I + DTG GI Sbjct: 440 IYDIDDDISLKIPSLLIQPLVENAIVHGIQPYRGKGVVVIAVKDCGEQIKISVKDTGNGI 499 Query: 499 SEETIGKVYSGNMPDHKIGLYNVHQRVKLIYGKGLTIHRLDQGTEIYFDVTKE 551 ++ETI +V + MP +KIGL NVH RVKL+YG+GL I R++ GTEI F ++K Sbjct: 500 NQETIERVANNEMPGNKIGLLNVHHRVKLLYGEGLQIRRMEPGTEISFYISKN 552 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.322 0.139 0.387 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 2,887,575,490 Number of extensions: 118330878 Number of successful extensions: 403105 Number of sequences better than 1.0e-05: 2114 Number of HSP's gapped: 397253 Number of HSP's successfully gapped: 2119 Length of query: 553 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 412 Effective length of database: 1,732,333,088 Effective search space: 713721232256 Effective search space used: 713721232256 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: 134 (56.2 bits)