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= 0543.0028.p (217 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00057026.1| COG2344: AT-rich DNA-binding protein [Thermob... 181 7e-45 gb|EAK67512.1| unknown [environmental sequence] 177 1e-43 ref|ZP_00046073.1| COG2344: AT-rich DNA-binding protein [Lactoba... 176 3e-43 ref|NP_627530.1| conserved hypothetical protein [Streptomyces co... 175 6e-43 ref|NP_563218.1| conserved hypothetical protein [Clostridium per... 174 2e-42 >ref|ZP_00057026.1| COG2344: AT-rich DNA-binding protein [Thermobifida fusca] Length = 230 Score = 181 bits (460), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 91/210 (43%), Positives = 130/210 (61%), Gaps = 2/210 (0%) Query: 6 ISEAVVRRLPVYLRFLNDLQKREISTVSSQELGQKLDLNPAQIRKDLAYFGDFGRKGIGY 65 I EA V RLP+YLR L L +R I TVSS EL +N A++RKDL++ G +G +G+GY Sbjct: 13 IPEATVARLPLYLRALQALSERGIPTVSSGELAAAAGVNSAKLRKDLSHLGSYGTRGVGY 72 Query: 66 DVSYLIEKIRHILKLDQQINVALVGAGNLGHALSNYNAYLKDTMKITAVFDSYPPKIGQK 125 DV YLI +I L L Q VA++G GNLG AL+NY + +I A+ D P +G + Sbjct: 73 DVEYLIYQISRELGLTQDWAVAIIGVGNLGRALANYGGFGNRGFRIAALLDEAPDVVGSE 132 Query: 126 INSLTVQPMEELGSTIREQGIRIGIITVPDSEAQNVADILVDSGIEAILNFAPVILKTPA 185 + LTV+ ++ L S +R + I IG+I P S AQ V D V +G+ +ILNFAPV+L P Sbjct: 133 VAGLTVRHIDHLESVVRSEKIAIGVIATPASAAQRVCDRFVAAGVTSILNFAPVVLNVPE 192 Query: 186 NIRIHAADFTTDLQSLAYYLHDGKDEAEDE 215 ++ + D + +LQ LA+ H+ + A D+ Sbjct: 193 HVDVRKVDLSIELQILAF--HEQRKSARDQ 220 >gb|EAK67512.1| unknown [environmental sequence] Length = 207 Score = 177 bits (450), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 86/205 (41%), Positives = 131/205 (63%) Query: 1 MKSDKISEAVVRRLPVYLRFLNDLQKREISTVSSQELGQKLDLNPAQIRKDLAYFGDFGR 60 +K + E V+ RLP+Y+R L + + + +SS+ LG +L + PAQIRKDL+YFG FG+ Sbjct: 2 VKDSSVPEVVILRLPLYIRALTQMSEEGQAVISSKSLGDRLQITPAQIRKDLSYFGRFGK 61 Query: 61 KGIGYDVSYLIEKIRHILKLDQQINVALVGAGNLGHALSNYNAYLKDTMKITAVFDSYPP 120 +G GY ++ LI ++ IL L++Q N +VG G LG A+ NY ++ + KI A FD+ Sbjct: 62 QGRGYKIASLIAELTTILGLNRQWNSCIVGVGRLGKAIINYPGFVPEGFKIVAAFDNDES 121 Query: 121 KIGQKINSLTVQPMEELGSTIREQGIRIGIITVPDSEAQNVADILVDSGIEAILNFAPVI 180 KIGQ +N + + PM ++ S ++E I+I I+ VP + AQ+V LVD+ I+AILN+AP+ Sbjct: 122 KIGQTVNEIQILPMNKIRSIVKEHDIKIAILAVPATIAQSVISDLVDTNIKAILNYAPIA 181 Query: 181 LKTPANIRIHAADFTTDLQSLAYYL 205 K P + + D LQS+ YYL Sbjct: 182 PKVPKTLILRNIDPVLSLQSMTYYL 206 >ref|ZP_00046073.1| COG2344: AT-rich DNA-binding protein [Lactobacillus gasseri] ref|NP_964480.1| hypothetical protein LJ0455 [Lactobacillus johnsonii NCC 533] gb|AAS08446.1| hypothetical protein LJ0455 [Lactobacillus johnsonii NCC 533] Length = 214 Score = 176 bits (446), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 88/211 (41%), Positives = 127/211 (60%) Query: 1 MKSDKISEAVVRRLPVYLRFLNDLQKREISTVSSQELGQKLDLNPAQIRKDLAYFGDFGR 60 M KI +A RRLP+Y R+L L VSS EL + + ++ A IR+D +YFG G+ Sbjct: 1 MDEIKIPKATARRLPLYYRYLIFLNDEGKEKVSSTELAEAVQVDSASIRRDFSYFGALGK 60 Query: 61 KGIGYDVSYLIEKIRHILKLDQQINVALVGAGNLGHALSNYNAYLKDTMKITAVFDSYPP 120 +G GYDV L+ + IL D NVALVG GN+GHAL NYN + ++I+A FD P Sbjct: 61 RGYGYDVKNLLNFFKKILNQDTLTNVALVGVGNMGHALLNYNFKRTNNIRISAAFDINPE 120 Query: 121 KIGQKINSLTVQPMEELGSTIREQGIRIGIITVPDSEAQNVADILVDSGIEAILNFAPVI 180 G ++ + V M E+ +REQ I I I+ VP + AQ A+ + D+GI+ I+NF P+ Sbjct: 121 ITGTIMSGVPVYDMSEMKKQLREQQITIAILCVPQTAAQKTANEMFDAGIKGIMNFTPLR 180 Query: 181 LKTPANIRIHAADFTTDLQSLAYYLHDGKDE 211 L P+++R+ D T+LQ+L Y+L KD+ Sbjct: 181 LSAPSSVRVQNVDLATELQTLIYFLDSDKDK 211 >ref|NP_627530.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)] sp|Q9WX14|REX_STRCO Redox-sensing transcriptional repressor rex pir||T36268 probable DNA-binding protein - Streptomyces coelicolor emb|CAB45354.1| conserved hypothetical protein [Streptomyces coelicolor A3(2)] Length = 258 Score = 175 bits (444), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 84/203 (41%), Positives = 123/203 (60%) Query: 2 KSDKISEAVVRRLPVYLRFLNDLQKREISTVSSQELGQKLDLNPAQIRKDLAYFGDFGRK 61 +S I EA V RLP+YLR L L +R + TVSS+EL +N A++RKD +Y G +G + Sbjct: 12 RSRGIPEATVARLPLYLRALTALSERSVPTVSSEELAAAAGVNSAKLRKDFSYLGSYGTR 71 Query: 62 GIGYDVSYLIEKIRHILKLDQQINVALVGAGNLGHALSNYNAYLKDTMKITAVFDSYPPK 121 G+GYDV YL+ +I L L Q V +VG GNLG AL+NY + ++ A+ D+ P Sbjct: 72 GVGYDVEYLVYQISRELGLTQDWPVVIVGIGNLGAALANYGGFASRGFRVAALIDADPGM 131 Query: 122 IGQKINSLTVQPMEELGSTIREQGIRIGIITVPDSEAQNVADILVDSGIEAILNFAPVIL 181 G+ + + VQ +EL I++ G+ IG+I P AQ V D LV +G+ +ILNFAP +L Sbjct: 132 AGKPVAGIPVQHTDELEKIIQDDGVSIGVIATPAGAAQQVCDRLVAAGVTSILNFAPTVL 191 Query: 182 KTPANIRIHAADFTTDLQSLAYY 204 P + + D + +LQ LA++ Sbjct: 192 NVPEGVDVRKVDLSIELQILAFH 214 >ref|NP_563218.1| conserved hypothetical protein [Clostridium perfringens] sp|Q8XI22|REX_CLOPE Redox-sensing transcriptional repressor rex dbj|BAB82008.1| conserved hypothetical protein [Clostridium perfringens str. 13] Length = 212 Score = 174 bits (440), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 83/205 (40%), Positives = 129/205 (62%) Query: 2 KSDKISEAVVRRLPVYLRFLNDLQKREISTVSSQELGQKLDLNPAQIRKDLAYFGDFGRK 61 K IS AV++RLP Y R+L +L + ++ +SS+EL +K+ +QIR+DL FGDFG++ Sbjct: 3 KKKGISMAVIKRLPKYHRYLQELMENDVDRISSKELSEKIGFTASQIRQDLNCFGDFGQQ 62 Query: 62 GIGYDVSYLIEKIRHILKLDQQINVALVGAGNLGHALSNYNAYLKDTMKITAVFDSYPPK 121 G GY+V L I IL L + N ++GAGN+G A++NYN++ + K+ +FD+ P Sbjct: 63 GYGYNVKELYNNIGSILGLTRDYNTVIIGAGNIGQAIANYNSFNRLGFKLKGIFDANPRM 122 Query: 122 IGQKINSLTVQPMEELGSTIREQGIRIGIITVPDSEAQNVADILVDSGIEAILNFAPVIL 181 G KI + +Q +E+L ++E I IGII VP + AQ V + LV+ GI+ I NFAP+ L Sbjct: 123 FGIKIRDVEIQDVEKLKDFVKENDIEIGIICVPRTNAQKVCNDLVEGGIKGIWNFAPIDL 182 Query: 182 KTPANIRIHAADFTTDLQSLAYYLH 206 + P +IR+ + + +L Y L+ Sbjct: 183 EVPKDIRVENVHLSESMMTLVYLLN 207 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.317 0.137 0.376 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 309,260,770 Number of extensions: 12680142 Number of successful extensions: 37790 Number of sequences better than 1.0e-05: 72 Number of HSP's gapped: 37763 Number of HSP's successfully gapped: 72 Length of query: 217 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 96 Effective length of database: 428,710,599 Effective search space: 41156217504 Effective search space used: 41156217504 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: 123 (52.0 bits)