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= 0049.0002.p (318 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_348878.1| HD-hydrolase domain containing protein, YHAM B.... 227 2e-58 ref|NP_388874.1| similar to CMP-binding factor [Bacillus subtili... 226 8e-58 ref|NP_692067.1| CMP-binding protein [Oceanobacillus iheyensis H... 223 4e-57 ref|NP_242041.1| CMP-binding protein [Bacillus halodurans] >gi|2... 217 3e-55 ref|NP_765078.1| cmp-binding-factor 1 [Staphylococcus epidermidi... 213 4e-54 >ref|NP_348878.1| HD-hydrolase domain containing protein, YHAM B.subtilis ortholog [Clostridium acetobutylicum] pir||G97178 HD-hydrolase domain containing protein, YHAM B. subtilis ortholog [imported] - Clostridium acetobutylicum gb|AAK80218.1| HD-hydrolase domain containing protein, YHAM B.subtilis ortholog [Clostridium acetobutylicum] Length = 322 Score = 227 bits (579), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 123/315 (39%), Positives = 190/315 (60%), Gaps = 6/315 (1%) Query: 4 IKQLSPQDEFVGFYLLRELAIKQTNGTPPKDYFDIVLGDSSGQISAKYWDASTTDKETFF 63 I +L + GF++++ + ++ + K Y D GD +G I+ K WDAS D++ F Sbjct: 6 ISELEAGNRIDGFFIIK--SAEKRISSNNKKYLDFTFGDKTGDINGKLWDASDEDEDAFV 63 Query: 64 PMALVKIRGIAHTYREKLQVKITKIRLANDGDNVSLTDFIRSAPIRPVDLIHTIKGVMAS 123 LVK+RG ++ LQ+KI KIR D DNV + DF+ SAP P D+ TI + Sbjct: 64 DNMLVKVRGTVIEWQNNLQLKIDKIRKTVDSDNVKVADFVPSAPYLPDDMYSTILEYVEK 123 Query: 124 ITDPEIATIVSFCVGKVEKKLMHYPAAKTHHHAYFAGLAYHMVRMLEIGEFLCKQRPFLN 183 I + +I I+ + +++M++PAAK +HH+ +GL YH ML++GE + + FLN Sbjct: 124 IKNADIKNILYDVLESAGEEIMYWPAAKKNHHSVRSGLLYHTFTMLKVGEKISEIYTFLN 183 Query: 184 PDLMKAGIILHDIAKPEEMI-SQFGIVSDYSVQGKLIGHISMASNWITEAAIRSGIDLES 242 DL+ AG+ILHD+AK EEM+ S+ GIV+DYSV+G+L+GHI + + +A + G D Sbjct: 184 TDLIYAGVILHDMAKLEEMVSSELGIVTDYSVEGQLLGHIILGVEKVRNSAKKVGAD--K 241 Query: 243 EKVLGLQHLVLSHHNLGEWGSPVQPQTAEAVALHHIDALDAKLQMVEDALDTTPETEEWT 302 E + L+H+VLSHH E+GSP +P EA LHH+D +DA + ++ AL+TT E + Sbjct: 242 EISMMLEHMVLSHHYEAEYGSPKKPMFPEAEVLHHLDDMDAAMFDMKKALETTAPG-EMS 300 Query: 303 PFIRGLENKAVYRMK 317 I L+ + +Y+ K Sbjct: 301 DAIWSLDRRRIYKSK 315 >ref|NP_388874.1| similar to CMP-binding factor [Bacillus subtilis] pir||G69818 CMP-binding factor homolog yhaM - Bacillus subtilis emb|CAA74420.1| Hypothetical protein [Bacillus subtilis] emb|CAB12833.1| yhaM [Bacillus subtilis subsp. subtilis str. 168] Length = 314 Score = 226 bits (575), Expect = 8e-58, Method: Compositional matrix adjust. Identities = 124/306 (40%), Positives = 187/306 (61%), Gaps = 10/306 (3%) Query: 12 EFVGFYLLRELAIK--QTNGTPPKDYFDIVLGDSSGQISAKYWDASTTDKETFFPMALVK 69 E V YLL + + K +NG P + ++L D SG I AK WDA +D+ T+ P +VK Sbjct: 12 EQVDQYLLIKSSTKGIASNGKP---FLTLMLQDQSGDIEAKLWDAKQSDEVTYAPQTIVK 68 Query: 70 IRGIAHTYREKLQVKITKIRLANDGDNVSLTDFIRSAPIRPVDLIHTIKGVMASITDPEI 129 + G H YR + Q+K+ IR ++ +NV++ DF+ +API +++ TI + + +P I Sbjct: 69 VVGDVHHYRGRTQLKLRNIRPVSEQENVNIDDFLETAPIPKNEMMDTITQYIFEMKNPNI 128 Query: 130 ATIVSFCVGKVEKKLMHYPAAKTHHHAYFAGLAYHMVRMLEIGEFLCKQRPFLNPDLMKA 189 I F V K E + M YPAA +HH + +GLAYH+V ML + + + P L+ DL+ A Sbjct: 129 QRITRFLVKKHEAEFMDYPAATKNHHEFVSGLAYHVVSMLNLAKAIADLYPSLDRDLLYA 188 Query: 190 GIILHDIAKPEEMISQFGIVSDYSVQGKLIGHISMASNWITEAAIRSGIDLESEKVLGLQ 249 G+ILHD+ K +E+ + + Y+V+G L+GHIS+ +++AA ID SE+VL LQ Sbjct: 189 GVILHDLGKVKELSGP--VSTSYTVEGNLLGHISIMVTELSKAAEELQID--SEEVLILQ 244 Query: 250 HLVLSHHNLGEWGSPVQPQTAEAVALHHIDALDAKLQMVEDALDTTPETEEWTPFIRGLE 309 HL+LSHH EWGSP P EA LH+ID LDAK+ M++ AL+ + E+T + LE Sbjct: 245 HLILSHHGKAEWGSPKPPMVKEAEILHYIDNLDAKMNMMDRALERV-KPGEYTERVFALE 303 Query: 310 NKAVYR 315 N++ Y+ Sbjct: 304 NRSFYK 309 >ref|NP_692067.1| CMP-binding protein [Oceanobacillus iheyensis HTE831] dbj|BAC13102.1| CMP-binding protein [Oceanobacillus iheyensis HTE831] Length = 317 Score = 223 bits (568), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 125/307 (40%), Positives = 190/307 (61%), Gaps = 11/307 (3%) Query: 11 DEFVGFYLLRELAIKQT-NGTPPKDYFDIVLGDSSGQISAKYWDASTTDKETFFPMALVK 69 +EF GF L++E T NG P + ++L D+SG+I AK WDA+ D+ET P +++ Sbjct: 12 EEFDGFLLIKESTRGTTSNGKP---FLTLILRDASGEIEAKLWDATKDDEETLIPEQIIQ 68 Query: 70 IRGIAHTYREKLQVKITKIRLANDGDNVSLTDFIRSAPIRPVDLIHTIKGVMASITDPEI 129 + G + +R K Q+KI IRL+ DNV +TDF+ AP+ +L + + + +P+I Sbjct: 69 VTGEINQFRGKHQLKILSIRLSQPMDNVQVTDFLGKAPMEKEELAEKLTEAIFEMENPKI 128 Query: 130 ATIVSFCVGKVEKKLMHYPAAKTHHHAYFAGLAYHMVRMLEIGEFLCKQRPFLNPDLMKA 189 +V + K +++L+ YPAA +HH + +GLAYH+V ML IG+ L K P +N DL+ A Sbjct: 129 QRLVRAFIKKYQEELLTYPAATKNHHEFASGLAYHVVSMLAIGKELHKLYPEINRDLLYA 188 Query: 190 GIILHDIAKPEEMISQFGIVS-DYSVQGKLIGHISMASNWITEAAIRSGIDLESEKVLGL 248 GIILHDI K +E+ G+VS Y+++GK++GHI M I + + + +E E+VL L Sbjct: 189 GIILHDIGKIKEL---SGVVSTTYTLEGKMLGHIPMMVEEI--GLMANELQIEGEEVLIL 243 Query: 249 QHLVLSHHNLGEWGSPVQPQTAEAVALHHIDALDAKLQMVEDALDTTPETEEWTPFIRGL 308 +HLVLSHH EWGSP P EA LH ID +DAK+ M+ AL+ + E+T + + Sbjct: 244 KHLVLSHHGKAEWGSPTPPLVREAELLHLIDLIDAKMNMLGRALEKI-QPGEFTERLFAM 302 Query: 309 ENKAVYR 315 +N+A Y+ Sbjct: 303 DNRAFYK 309 >ref|NP_242041.1| CMP-binding protein [Bacillus halodurans] pir||G83796 CMP-binding protein BH1175 [imported] - Bacillus halodurans (strain C-125) dbj|BAB04894.1| CMP-binding protein [Bacillus halodurans] Length = 320 Score = 217 bits (553), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 121/301 (40%), Positives = 181/301 (60%), Gaps = 10/301 (3%) Query: 17 YLLRELAIKQ--TNGTPPKDYFDIVLGDSSGQISAKYWDASTTDKETFFPMALVKIRGIA 74 Y L + A K +NG P + ++L D +G+I AK W S D+ TF A+V I G Sbjct: 17 YFLIKSATKAVASNGKP---FLTLILSDHTGEIEAKLWGCSPEDEATFVSGAIVHISGQL 73 Query: 75 HTYREKLQVKITKIRLANDGDNVSLTDFIRSAPIRPVDLIHTIKGVMASITDPEIATIVS 134 YR + Q+KI IR D V ++DF+RSAP+ P D++ I + + +P+I + Sbjct: 74 SEYRGRQQLKIGSIRPTTAMDQVKVSDFVRSAPLSPDDMLEQITQYIFEMKNPKIQRMTR 133 Query: 135 FCVGKVEKKLMHYPAAKTHHHAYFAGLAYHMVRMLEIGEFLCKQRPFLNPDLMKAGIILH 194 + K + + YPAA T+HH + +GLAYH+V ML + + L P L+ DL+ AGIILH Sbjct: 134 HLLKKHQTAFLEYPAATTNHHEFVSGLAYHVVCMLNVAKSLAALYPTLDTDLLYAGIILH 193 Query: 195 DIAKPEEMISQFGIVSDYSVQGKLIGHISMASNWITEAAIRSGIDLESEKVLGLQHLVLS 254 D+ K +E+ I + Y+++GKL+GHIS+ N I E A GI E E+V+ LQHLVL+ Sbjct: 194 DLGKVKELSGP--IDTTYTIEGKLLGHISILVNEIGETANELGI--EGEEVIILQHLVLA 249 Query: 255 HHNLGEWGSPVQPQTAEAVALHHIDALDAKLQMVEDALDTTPETEEWTPFIRGLENKAVY 314 HH+ GEWGSP P EA LH ID +DAK+ M++ AL+ + E++ I+ ++N++ Y Sbjct: 250 HHSKGEWGSPKPPLIREAEILHMIDNIDAKMNMMDRALERV-QPGEFSERIKAMDNRSFY 308 Query: 315 R 315 + Sbjct: 309 K 309 >ref|NP_765078.1| cmp-binding-factor 1 [Staphylococcus epidermidis ATCC 12228] gb|AAO05122.1| cmp-binding-factor 1 [Staphylococcus epidermidis ATCC 12228] Length = 313 Score = 213 bits (542), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 118/316 (37%), Positives = 178/316 (56%), Gaps = 11/316 (3%) Query: 1 MTLIKQLSPQDEFVGFYLLRELAIKQTNGTPP--KDYFDIVLGDSSGQISAKYWDASTTD 58 M +++L+P D F+L+ + T G KDY + L D SG I AK W A+ D Sbjct: 1 MRNVEKLNPGDSVDHFFLIH----RATQGVTAQGKDYMTLFLQDKSGDIEAKLWTATKDD 56 Query: 59 KETFFPMALVKIRGIAHTYREKLQVKITKIRLANDGDNVSLTDFIRSAPIRPVDLIHTIK 118 +T P +V ++G YR + Q+KI +IRLA D VS DF+ AP+ P ++ + Sbjct: 57 MQTLKPETIVHVKGDIINYRGRKQMKIHQIRLAQAEDKVSTKDFVDGAPMSPTEIQEELS 116 Query: 119 GVMASITDPEIATIVSFCVGKVEKKLMHYPAAKTHHHAYFAGLAYHMVRMLEIGEFLCKQ 178 M I + + I + K + + YPAA +HHH + +GL+YH++ ML I + +C Sbjct: 117 HFMLDIENANLQRITRHLIKKYQDRFFTYPAASSHHHNFASGLSYHVLTMLRIAKSVCDI 176 Query: 179 RPFLNPDLMKAGIILHDIAKPEEMISQFGIVSDYSVQGKLIGHISMASNWITEAAIRSGI 238 P LN L+ + IILHD+ K E+ + + Y+V+G L+GHIS+AS+ + E A GI Sbjct: 177 YPLLNRSLLYSAIILHDLGKVRELSGP--VATTYTVEGNLLGHISIASDEVAETAKELGI 234 Query: 239 DLESEKVLGLQHLVLSHHNLGEWGSPVQPQTAEAVALHHIDALDAKLQMVEDALDTTPET 298 D E+V+ L+H++L+HH E+GSP P EA L+ ID +DAK+ M + A T E Sbjct: 235 D--GEEVMLLRHMILAHHGKMEFGSPKLPHLKEAEILYFIDNIDAKMNMFDKAFKKT-EK 291 Query: 299 EEWTPFIRGLENKAVY 314 ++T I GLEN+ Y Sbjct: 292 GQFTERIFGLENRQFY 307 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 0.320 0.136 0.402 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: 465,089,232 Number of extensions: 18333005 Number of successful extensions: 39743 Number of sequences better than 1.0e-05: 60 Number of HSP's gapped: 39639 Number of HSP's successfully gapped: 60 Length of query: 318 Length of database: 757,237,578 Length adjustment: 125 Effective length of query: 193 Effective length of database: 417,850,203 Effective search space: 80645089179 Effective search space used: 80645089179 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 (21.8 bits) S2: 126 (53.1 bits)