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= 0280.0009.p (347 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value YPO3307 [L] COG0468 RecA/RadA recombinase 401 e-112 MT2806_1 [L] COG0468 RecA/RadA recombinase 342 7e-94 Rv2737c_1 [L] COG0468 RecA/RadA recombinase 342 7e-94 ML0987_1 [L] COG0468 RecA/RadA recombinase 265 6e-71 ML0987_3 [L] COG0468 RecA/RadA recombinase 183 3e-46 >YPO3307 [L] COG0468 RecA/RadA recombinase Length = 356 Score = 401 bits (1031), Expect = e-112, Method: Compositional matrix adjust. Identities = 192/315 (60%), Positives = 242/315 (76%), Gaps = 2/315 (0%) Query: 2 ALRQIEKQFGKGSVMKLGESNHMKVEVVPSXXXXXXXXXXXXXXPKGRIIEVYGPESSGK 61 AL QIEKQFGKGS+M+LGE M VE + + P GRI+E+YGPESSGK Sbjct: 14 ALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGK 73 Query: 62 TTVALHAIAEVQKVGGQAAFIDAEHALDPKYANALGVNIDELLLSQPDTGEQALEIAEAL 121 TT+ L IA Q+ G AFIDAEHALDP YA LGV+ID LL SQPDTGEQALEI +AL Sbjct: 74 TTLTLQVIAAAQREGKTCAFIDAEHALDPIYAKKLGVDIDNLLCSQPDTGEQALEICDAL 133 Query: 122 VRSGAVDIIVVDSXXXAALVPKAEIEGDMGDSHVGLQARLMSQALRKLSGAINKSNTIAI 181 RSGAVD+I+VDS AAL PKAEIEG++GDSH+GL AR+MSQA+RKL+G + +NT+ I Sbjct: 134 TRSGAVDVIIVDSV--AALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKNANTLLI 191 Query: 182 FINQLREKIGVMFGNPETTPGGRALKFYSSVRLDVRRVESIKMGNDVVGNRTKIKVVKNK 241 FINQ+R KIGVMFGNPETT GG ALKFY+SVRLD+RR+ ++K G+ VVG+ T++KVVKNK Sbjct: 192 FINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAVKDGDVVVGSETRVKVVKNK 251 Query: 242 VAPPFKQADVDIMYGEGISKEGSLVDIGTEMDIVNKSGAWYSYEGERLGQGRENSKQFLK 301 +A PFKQA+ I+YGEGI+ G LVD+G + ++ K+GAWYSY G+++GQG+ N+ +LK Sbjct: 252 IAAPFKQAEFQILYGEGININGELVDLGVKHKLIEKAGAWYSYNGDKIGQGKANASNYLK 311 Query: 302 EHQDIALLIENKIRE 316 E+ IA ++ K+RE Sbjct: 312 ENPAIAAELDKKLRE 326 >MT2806_1 [L] COG0468 RecA/RadA recombinase Length = 260 Score = 342 bits (876), Expect = 7e-94, Method: Compositional matrix adjust. Identities = 163/242 (67%), Positives = 198/242 (81%), Gaps = 2/242 (0%) Query: 1 MALRQIEKQFGKGSVMKLGESNHMKVEVVPSXXXXXXXXXXXXXXPKGRIIEVYGPESSG 60 +A+ QIEK +GKGSVM+LG+ + V+P+ P+GR+IE+YGPESSG Sbjct: 13 LAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSG 72 Query: 61 KTTVALHAIAEVQKVGGQAAFIDAEHALDPKYANALGVNIDELLLSQPDTGEQALEIAEA 120 KTTVALHA+A Q GG AAFIDAEHALDP YA LGV+ D LL+SQPDTGEQALEIA+ Sbjct: 73 KTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADM 132 Query: 121 LVRSGAVDIIVVDSXXXAALVPKAEIEGDMGDSHVGLQARLMSQALRKLSGAINKSNTIA 180 L+RSGA+DI+V+DS AALVP+AE+EG+MGDSHVGLQARLMSQALRK++GA+N S T A Sbjct: 133 LIRSGALDIVVIDS--VAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTA 190 Query: 181 IFINQLREKIGVMFGNPETTPGGRALKFYSSVRLDVRRVESIKMGNDVVGNRTKIKVVKN 240 IFINQLR+KIGVMFG+PETT GG+ALKFY+SVR+DVRRVE++K G + VGNRT++KVVKN Sbjct: 191 IFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRVKVVKN 250 Query: 241 KV 242 K Sbjct: 251 KC 252 >Rv2737c_1 [L] COG0468 RecA/RadA recombinase Length = 252 Score = 342 bits (876), Expect = 7e-94, Method: Compositional matrix adjust. Identities = 163/242 (67%), Positives = 198/242 (81%), Gaps = 2/242 (0%) Query: 1 MALRQIEKQFGKGSVMKLGESNHMKVEVVPSXXXXXXXXXXXXXXPKGRIIEVYGPESSG 60 +A+ QIEK +GKGSVM+LG+ + V+P+ P+GR+IE+YGPESSG Sbjct: 13 LAVAQIEKSYGKGSVMRLGDEARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSG 72 Query: 61 KTTVALHAIAEVQKVGGQAAFIDAEHALDPKYANALGVNIDELLLSQPDTGEQALEIAEA 120 KTTVALHA+A Q GG AAFIDAEHALDP YA LGV+ D LL+SQPDTGEQALEIA+ Sbjct: 73 KTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADM 132 Query: 121 LVRSGAVDIIVVDSXXXAALVPKAEIEGDMGDSHVGLQARLMSQALRKLSGAINKSNTIA 180 L+RSGA+DI+V+DS AALVP+AE+EG+MGDSHVGLQARLMSQALRK++GA+N S T A Sbjct: 133 LIRSGALDIVVIDS--VAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTA 190 Query: 181 IFINQLREKIGVMFGNPETTPGGRALKFYSSVRLDVRRVESIKMGNDVVGNRTKIKVVKN 240 IFINQLR+KIGVMFG+PETT GG+ALKFY+SVR+DVRRVE++K G + VGNRT++KVVKN Sbjct: 191 IFINQLRDKIGVMFGSPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGNRTRVKVVKN 250 Query: 241 KV 242 K Sbjct: 251 KC 252 >ML0987_1 [L] COG0468 RecA/RadA recombinase Length = 205 Score = 265 bits (678), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 129/195 (66%), Positives = 158/195 (81%), Gaps = 2/195 (1%) Query: 1 MALRQIEKQFGKGSVMKLGESNHMKVEVVPSXXXXXXXXXXXXXXPKGRIIEVYGPESSG 60 +A+ QIEK +GKGSVM+LG+ + V+P+ P+GRI+E+YGPESSG Sbjct: 13 LAMAQIEKNYGKGSVMRLGDEMCQPISVIPTGSIALDVALGIGGLPRGRIVEIYGPESSG 72 Query: 61 KTTVALHAIAEVQKVGGQAAFIDAEHALDPKYANALGVNIDELLLSQPDTGEQALEIAEA 120 KTTVALHA+A Q VGG AAFIDAEHAL+P+YA LGV+ D LL+SQPDTGEQALEIA+ Sbjct: 73 KTTVALHAVANAQAVGGVAAFIDAEHALEPEYAKKLGVDTDSLLVSQPDTGEQALEIADM 132 Query: 121 LVRSGAVDIIVVDSXXXAALVPKAEIEGDMGDSHVGLQARLMSQALRKLSGAINKSNTIA 180 L+RSGA+DI+V+DS AALVP+AE+EG+MGDS+VGLQARLMSQALRK++GA++ S T A Sbjct: 133 LIRSGALDIVVIDS--VAALVPRAELEGEMGDSYVGLQARLMSQALRKMTGALSNSGTTA 190 Query: 181 IFINQLREKIGVMFG 195 IFINQLREKIGVMFG Sbjct: 191 IFINQLREKIGVMFG 205 >ML0987_3 [L] COG0468 RecA/RadA recombinase Length = 234 Score = 183 bits (465), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 92/175 (52%), Positives = 126/175 (72%), Gaps = 13/175 (7%) Query: 152 DSHVGLQARLMSQALRKLSGAINKSNTIAIFINQLREKIGVMFGN-PETTPGGRALKFYS 210 D HV L R M++ ++ G N F++ GVM N PETT GG+ALKFY+ Sbjct: 61 DVHVKLSTRSMNRFDIEVEGNHN------YFVD------GVMVHNSPETTTGGKALKFYA 108 Query: 211 SVRLDVRRVESIKMGNDVVGNRTKIKVVKNKVAPPFKQADVDIMYGEGISKEGSLVDIGT 270 SVR+DVRR+E++K G D VGNRT++K+VKNKV+PPFKQA+ DI+YG+GIS+EGSL+D+G Sbjct: 109 SVRMDVRRIETLKDGVDAVGNRTRVKIVKNKVSPPFKQAEFDILYGKGISREGSLIDMGV 168 Query: 271 EMDIVNKSGAWYSYEGERLGQGRENSKQFLKEHQDIALLIENKIREASNLSTIVA 325 E V KSG+W++YEGE+LGQG+EN++ FL E+ D+A IE KI+E + +V Sbjct: 169 EQGFVRKSGSWFTYEGEQLGQGKENARNFLLENADVANEIEKKIKEKLGIGAVVT 223 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.314 0.132 0.360 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 22,524,197 Number of extensions: 982378 Number of successful extensions: 2601 Number of sequences better than 1.0e-05: 8 Number of HSP's gapped: 2596 Number of HSP's successfully gapped: 8 Length of query: 347 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 240 Effective length of database: 26,037,693 Effective search space: 6249046320 Effective search space used: 6249046320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 116 (49.3 bits)