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= 0533.0010.p (343 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|NP_845685.1| ROK family protein [Bacillus anthracis str. Ame... 149 1e-34 ref|NP_657259.1| ROK, ROK family [Bacillus anthracis A2012] 148 2e-34 ref|NP_979673.1| ROK family protein [Bacillus cereus ATCC 10987]... 147 3e-34 ref|ZP_00184393.1| hypothetical protein Exigu008901 [Exiguobacte... 135 2e-30 ref|NP_464048.1| similar to transcription regulator [Listeria mo... 119 9e-26 >ref|NP_845685.1| ROK family protein [Bacillus anthracis str. Ames] gb|AAP27171.1| ROK family protein [Bacillus anthracis str. Ames] Length = 350 Score = 149 bits (376), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 95/322 (29%), Positives = 172/322 (53%), Gaps = 18/322 (5%) Query: 19 VRQALKTMKQGTKSMLAQATGLSVATCGNILNELIDTGELLELDMEESSGGRPARLYRYN 78 +R+ L TK L+ +S T + ++ GE+ +++SSGGR A+ Y YN Sbjct: 27 IRKVLLERGSATKVELSNTLEISFPTISKFIEKMKQDGEVALAGLDDSSGGRRAKRYEYN 86 Query: 79 VNFSYIACIIIRAGVKTHSLTYTVANLAGEAIKEGYQETDRMEP--DMIEKLVDQLIGEF 136 + I + + + YT+ N GE ++G + ++ +++ K ++ LI F Sbjct: 87 PEYMLGLAIFL----EKNETNYTIFNCLGEVKEQGSTSSMLIDTGVNVLSKHIEGLIATF 142 Query: 137 PQIRAVGIGVPGAVNQG-IINVSDIKELINVPLEASIRDKHGVEVIMDNDMNLTVYGFYQ 195 P+I ++ IGVPG+V+ G I + ++ N L++ + ++ + V+++NDMN V G+Y+ Sbjct: 143 PKISSISIGVPGSVDNGRIFYIPGYEKFQNFNLKSHLEEQFSIPVVIENDMNAAVLGYYK 202 Query: 196 KQG-YDEEKSVAVVTFIEGCFPGAGMMVDGHILRGSTRFAGEIAFLPFGMSHEEQFRQLH 254 G YD V + + G PGAG+MV+G ++RGST F+GEI+F+P ++ + L Sbjct: 203 NTGNYDNSSLVYLYSGQNG--PGAGIMVNGDVVRGSTFFSGEISFVP-QYDNKNFLQALR 259 Query: 255 ERTTF----YSLAG--RAVSSLIAIMNPETIALTGSLVEPADVELIRQECLKYIPEMHMP 308 + Y++ R +++ IAI+NP V +E I + C +YIP H+P Sbjct: 260 NEDSNNPEEYNIDAITRLIATCIAIINPHAFIFCDDEVNQFVIEQIVKTCPQYIPAEHIP 319 Query: 309 QLMLLENPHENYMYGLITMTLE 330 ++ + N E+Y+YGL ++ L+ Sbjct: 320 KIT-VSNWKEDYLYGLKSLGLD 340 >ref|NP_657259.1| ROK, ROK family [Bacillus anthracis A2012] Length = 342 Score = 148 bits (373), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 96/323 (29%), Positives = 168/323 (52%), Gaps = 20/323 (6%) Query: 19 VRQALKTMKQGTKSMLAQATGLSVATCGNILNELIDTGELLELDMEESSGGRPARLYRYN 78 +R+ L TK L+ +S T + ++ GE+ +++SSGGR A+ Y YN Sbjct: 19 IRKVLLERGSATKVELSNTLEISFPTISKFIEKMKQDGEVALAGLDDSSGGRRAKRYEYN 78 Query: 79 VNFSYIACIIIRAGVKTHSLTYTVANLAGEAIKEGYQETDRMEP--DMIEKLVDQLIGEF 136 + I + + + YT+ N GE ++G + ++ +++ K ++ LI F Sbjct: 79 PEYMLGLAIFL----EKNETNYTIFNCLGEVKEQGSTSSMLIDTGVNVLSKHIEGLIATF 134 Query: 137 PQIRAVGIGVPGAVNQG-IINVSDIKELINVPLEASIRDKHGVEVIMDNDMNLTVYGFYQ 195 P+I ++ IGVPG+V+ G I + ++ N L++ ++ + V+ +NDMN V G+Y+ Sbjct: 135 PKISSISIGVPGSVDNGRIFYIPGYEKFQNFNLKSHXEEQFSIPVVFENDMNAAVLGYYK 194 Query: 196 KQG-YDEEKSVAVVTFIEGCFPGAGMMVDGHILRGSTRFAGEIAFLPFGMSHEEQFRQL- 253 G YD V + + G PGAG+MV+G ++RGST F+GEI+F+P + F Q Sbjct: 195 NTGNYDNSSLVYLYSGQNG--PGAGIMVNGDVVRGSTFFSGEISFVP--QYDNKNFLQAL 250 Query: 254 ----HERTTFYSLAG--RAVSSLIAIMNPETIALTGSLVEPADVELIRQECLKYIPEMHM 307 Y++ R +++ IAI+NP V +E I + C +YIP H+ Sbjct: 251 RNEDSNNPEEYNIDAITRLIATCIAIINPHAFIFCDDEVNQFVIEQIVKTCPQYIPAEHI 310 Query: 308 PQLMLLENPHENYMYGLITMTLE 330 P++ + N E+Y+YGL ++ L+ Sbjct: 311 PKIT-VSNWKEDYLYGLKSLGLD 332 >ref|NP_979673.1| ROK family protein [Bacillus cereus ATCC 10987] gb|AAS42281.1| ROK family protein [Bacillus cereus ATCC 10987] Length = 350 Score = 147 bits (371), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 93/321 (28%), Positives = 171/321 (53%), Gaps = 16/321 (4%) Query: 19 VRQALKTMKQGTKSMLAQATGLSVATCGNILNELIDTGELLELDMEESSGGRPARLYRYN 78 +R AL TK L+ +S T + ++ GE+ + +++SSGGR A+ Y YN Sbjct: 27 IRTALLERGSATKVELSNTLEISFPTISKFIEKMKQDGEVTLVGLDDSSGGRRAKRYEYN 86 Query: 79 VNFSYIACIIIRAGVKTHSLTYTVANLAGEAIKEGYQETDRMEP--DMIEKLVDQLIGEF 136 + I + + + YT+ N GE ++G + ++ +++ K ++ LI F Sbjct: 87 PEYMLGLAIFL----EKNETNYTIFNCLGEVKEQGSTSSMLIDTGVNVLSKHIEGLIATF 142 Query: 137 PQIRAVGIGVPGAVNQG-IINVSDIKELINVPLEASIRDKHGVEVIMDNDMNLTVYGFYQ 195 P+I ++ IGVPG+V+ G I + ++ N L++ + ++ + V+++NDMN V G+++ Sbjct: 143 PKISSISIGVPGSVDDGRIFYIPGYEKFQNFNLKSHLEEQFSIPVVIENDMNAAVLGYHK 202 Query: 196 KQGYDEEKSVAVVTFIEGCFPGAGMMVDGHILRGSTRFAGEIAFLP------FGMSHEEQ 249 G +E S+ V + PGAG+MV+G ++RGST F+GEI+F+P F + + Sbjct: 203 NTGNNENSSL-VYLYSGQNGPGAGIMVNGDVVRGSTFFSGEISFVPQYDNKNFLQALRSE 261 Query: 250 FRQLHERTTFYSLAGRAVSSLIAIMNPETIALTGSLVEPADVELIRQECLKYIPEMHMPQ 309 E ++ R +++ IAI+NP V ++ I + C +YIP H+P+ Sbjct: 262 DSNNPEEYNIDAIT-RLIATCIAIINPHAFIFCDDEVNQFVIDQIVKTCPQYIPAEHIPK 320 Query: 310 LMLLENPHENYMYGLITMTLE 330 + + N E+Y+YGL ++ L+ Sbjct: 321 IT-VSNWKEDYLYGLKSLGLD 340 >ref|ZP_00184393.1| hypothetical protein Exigu008901 [Exiguobacterium sp. 255-15] Length = 335 Score = 135 bits (339), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 92/329 (27%), Positives = 168/329 (51%), Gaps = 21/329 (6%) Query: 14 MNKELV---RQALKTMKQGTKSMLAQATGLSVATCGNILNELIDTGELLELDMEESSGGR 70 MN +L+ RQAL + T L++ S T L+ LI+ GE+ E D + SSGGR Sbjct: 4 MNTDLLIQLRQALLFDRLQTIPELSRTLSTSFPTIKKHLDILIEHGEVDEEDSDVSSGGR 63 Query: 71 PARLYRYNVNFSYIACIIIRAGVKTHSLTYTVANLAGEAIKEGYQETDRMEPDM--IEKL 128 PA+ YR + ++ + + + ++ Y + + G + G + R +P + + L Sbjct: 64 PAKRYRSRADHTHGLALYL----ELDAIGYRIFDAVGTLLTNGTESVPRQQPHVPALVCL 119 Query: 129 VDQLIGEFPQIRAVGIGVPGAVNQG-IINVSDIKELINVPLEASIRDKHGVEVIMDNDMN 187 + +L+ + P+I + +GV +V G + D L V L+ ++ + + V+++NDMN Sbjct: 120 IHRLLAQDPRITFLSVGVAASVENGQVFFAPDYPSLQQVDLKQTLESEFHLPVVVENDMN 179 Query: 188 LTVYGFYQKQGYDEEKSVAVVTFIEGCFPGAGMMVDGHILRGSTRFAGEIAFLP------ 241 V GF++ Y + + + ++ PG+G++++G ++RGS+ FAGEI+ +P Sbjct: 180 AAVIGFHE--AYQQRQQSLIYLYLGKNGPGSGILINGQLVRGSSHFAGEISLVPQYDKAT 237 Query: 242 FGMSHEEQFRQLHERTTFYSLAGRAVSSLIAIMNPETIALTGSLVEPADVELIRQECLKY 301 FG E+ L+ T R ++ A +NP + + V +D+E IR +Y Sbjct: 238 FGQRIAERSDVLNADTI--DAISRLTTTFAATLNPHLLIFNSAEVTASDLEQIRTTTARY 295 Query: 302 IPEMHMPQLMLLENPHENYMYGLITMTLE 330 IPE H+P+L+ N +Y+ GL + L+ Sbjct: 296 IPETHIPRLV-RSNWETDYLNGLTRLGLQ 323 >ref|NP_464048.1| similar to transcription regulator [Listeria monocytogenes EGD-e] pir||AI1139 transcription regulator homolog lmo0520 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98599.1| lmo0520 [Listeria monocytogenes] Length = 334 Score = 119 bits (299), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 88/325 (27%), Positives = 164/325 (50%), Gaps = 9/325 (2%) Query: 11 VKKMNKELVRQALKTMKQGTKSMLAQATGLSVATCGNILNELIDTGELLELDMEESSGGR 70 +K++NK+ ++ L+ TK+ +A+ TGLSV T ++ +L++ E+LE D ++GGR Sbjct: 7 LKELNKKNIKSILRQQGAMTKAEIAEVTGLSVVTVNKLIRDLVENEEILEQDNSVATGGR 66 Query: 71 PARLYRYNVNFSYIACIIIRAGVKTHSLTYTVANLAGEAIKEGYQETDRMEPDMIEKLVD 130 A Y N NF + I ++ K + +++V NL GE + ++ +++ Sbjct: 67 RAVSYEINPNFQQVLVISLQEKWKKITYSFSVYNLLGEPEFVEDMSGEDLDITALKRNTK 126 Query: 131 QLIGEFPQIRAVGIGVPGAVNQGIINVSDIKELINVPLEASIRDKHGVEVIMDNDMNLTV 190 +I FP+I V IGVPG G + D L+NV L ++ + + V+++ D N + Sbjct: 127 DIICAFPKISCVVIGVPGIEIGGKLRAMDFPLLLNVQLRETLEAEVNLPVLVETDTNAAI 186 Query: 191 YGFYQKQGYDEEKSVAVVTFIEGCFPGAGMMVDGHILRGSTRFAGEIAFLPFGMSHEEQF 250 G Y+ + EE V + + E PGAG++++G IL+G AGEI +P + + Sbjct: 187 LG-YKNRPMKEENIVGLY-YPERFPPGAGLLMNGEILKGQNGLAGEIKHMPLQVDWDNFD 244 Query: 251 RQLHERTTFYSLAGRAVSSL-IAIMNPETIALTGSLV--EPADVELIRQECLKYIPEMHM 307 + E R ++ L ++ +PETI L + + +E +++E + P + Sbjct: 245 FSVDEIKAHI----RKMALLTMSFYDPETIVLYTNFYFGQKDFMEELKEELKQVYPYAVL 300 Query: 308 PQLMLLENPHENYMYGLITMTLESL 332 P+++L +Y GL+ ++ L Sbjct: 301 PEIVLSRKFTTDYRIGLLAFGIDYL 325 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 0.319 0.136 0.382 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: 483,577,034 Number of extensions: 19577084 Number of successful extensions: 49442 Number of sequences better than 1.0e-05: 68 Number of HSP's gapped: 49470 Number of HSP's successfully gapped: 68 Length of query: 343 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 217 Effective length of database: 415,135,104 Effective search space: 90084317568 Effective search space used: 90084317568 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 (21.7 bits) S2: 126 (53.1 bits)