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= 0370.0042.p (320 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KE63.1 B3KE63_9BACI DNA polymerase LigD, polymerase domain pro... 459 e-127 B1D5P8.1 B1D5P8_9BACL DNA polymerase LigD, polymerase domain pro... 355 3e-96 C0ZFS7.1 C0ZFS7_BREBN Putative uncharacterized protein 275 3e-72 Q2B9L6.1 Q2B9L6_9BACI Putative uncharacterized protein 235 5e-60 A3IA08.1 A3IA08_9BACI ATP-dependent DNA ligase EC=6.5.1.1 234 5e-60 >B3KE63.1 B3KE63_9BACI DNA polymerase LigD, polymerase domain protein Length = 305 Score = 459 bits (1182), Expect = e-127, Method: Compositional matrix adjust. Identities = 221/293 (75%), Positives = 249/293 (84%) Query: 27 MPAAVKGSITVDGQEIIITNPDKPLWPEVGITKRIYLQKLAALSPYLLRYSRDRLLTVIR 86 M VKG++T++GQEI ITNPDKPLWPEVGITK +YLQKLAA+SP+LLRY R RLLT IR Sbjct: 1 MARTVKGTLTIEGQEIQITNPDKPLWPEVGITKAMYLQKLAAISPFLLRYCRGRLLTTIR 60 Query: 87 YPHGVPGMSFYQKNAPEPLPDFVRTATHDNITYIVLQGLPELLWLGNLAALEFHPSLHYV 146 YPHG G SFYQKNAPEPLP FV+T H+NI Y++L GLPELLWLGNLAALEFHPSLH Sbjct: 61 YPHGAQGESFYQKNAPEPLPPFVQTYVHENINYVLLNGLPELLWLGNLAALEFHPSLHLA 120 Query: 147 GSTLPCEWMIDLDPSLEVEPRIMEAAAVVGEVLQSLGIASVPKTSGATGVQIIVPIRPGV 206 GS LPCEWMIDLDP+L EPRIMEA A+VG+VL SLG++SVPKTSGATGVQIIVPI GV Sbjct: 121 GSHLPCEWMIDLDPTLPEEPRIMEATAIVGDVLSSLGLSSVPKTSGATGVQIIVPIPEGV 180 Query: 207 TFDGLRRIGHFVGRYVTEKRPDLFTLERLKKNRGDKIYFDYLQHYGGKTLAAPYTPRARP 266 TFD LR +G FVG+YVTEK P LFT+ERLKKNRGDKIYFDYLQHY G+TLAAPYTPRAR Sbjct: 181 TFDELRTVGQFVGQYVTEKFPKLFTIERLKKNRGDKIYFDYLQHYSGRTLAAPYTPRARR 240 Query: 267 LATVSTPLLWEEVQHNVSPADFHLLNIEERLSIMGDLIAKVPPQPVEALIPKL 319 L TVSTPL W+EV+ +VSP +FHLLNIEERL GDL+ +PPQP+E +I L Sbjct: 241 LGTVSTPLTWDEVRQDVSPTEFHLLNIEERLREKGDLLQTLPPQPIENVIRHL 293 >B1D5P8.1 B1D5P8_9BACL DNA polymerase LigD, polymerase domain protein Length = 304 Score = 355 bits (912), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 177/278 (63%), Positives = 210/278 (75%), Gaps = 2/278 (0%) Query: 35 ITVDGQEIIITNPDKPLWPEVGITKRIYLQKLAALSPYLLRYSRDRLLTVIRYPHGVPGM 94 + V+GQEI +TNP+KPLWPE GITK +YL+KLA LSP+LL++ +DR LT IRYPHG G Sbjct: 14 VMVEGQEITVTNPEKPLWPEHGITKLMYLEKLAMLSPFLLKHCKDRYLTTIRYPHGYAGK 73 Query: 95 SFYQKNAPEPLPDFVRTATHDNITYIVLQGLPELLWLGNLAALEFHPSLHYVGS-TLPCE 153 SFYQKN PEP P+FV + + I+YI L LP LLWLGNLA LEFH S + + P E Sbjct: 74 SFYQKNCPEPKPEFVHISESEGISYIQLDNLPTLLWLGNLACLEFHASFDRISNPDRPTE 133 Query: 154 WMIDLDPSLEVEPRIMEAAAVVGEVLQSLGIASVPKTSGATGVQIIVPIRPGVTFDGLRR 213 W++DLDPS E EPRI+EAAA+VG++L+SL I SVPKTSGATGVQI+VP++ TFD LR Sbjct: 134 WILDLDPSREEEPRIIEAAALVGKLLESLKIKSVPKTSGATGVQIVVPLQQKYTFDELRG 193 Query: 214 IGHFVGRYVTEKRPDLFTLERLKKNRGDKIYFDYLQHYGGKTLAAPYTPRARPLATVSTP 273 +G FVG Y++ P LFT+ERL KNRGD IY DYLQHY GKT++APYTPRAR A VSTP Sbjct: 194 LGQFVGDYLSSAYPQLFTVERLTKNRGDLIYVDYLQHYRGKTISAPYTPRARYGAPVSTP 253 Query: 274 LLWEEV-QHNVSPADFHLLNIEERLSIMGDLIAKVPPQ 310 L WEEV + PADFHLLNI ERL GDLI PQ Sbjct: 254 LKWEEVYAGGIKPADFHLLNIGERLQRFGDLIDLEKPQ 291 >C0ZFS7.1 C0ZFS7_BREBN Putative uncharacterized protein Length = 300 Score = 275 bits (704), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 137/282 (48%), Positives = 188/282 (66%), Gaps = 1/282 (0%) Query: 26 LMPAAVKGSITVDGQEIIITNPDKPLWPEVGITKRIYLQKLAALSPYLLRYSRDRLLTVI 85 + PA + +T+D + ITNPDKPLWPE +TK YL+ L ++ LLRYS+DRLLTVI Sbjct: 1 MCPATKEYELTIDNHTLSITNPDKPLWPEAEVTKLDYLRYLLIVAAPLLRYSKDRLLTVI 60 Query: 86 RYPHGVPGMSFYQKNAPEPLPDFVRTATHDNITYIVLQGLPELLWLGNLAALEFHPSLHY 145 RYPHG+ FYQKNAP+ PD+++T +N+ Y++ L+W+ N AALE+H S H Sbjct: 61 RYPHGIGDKHFYQKNAPDYAPDWIQTHMWENVRYVLCNDRATLVWMANQAALEWHVSFHL 120 Query: 146 VGSTLPCEWMIDLDPSLEVEPRIMEAAAVVGEVLQSLGIASVPKTSGATGVQIIVPIRPG 205 P E + DLDPS + ++E+A ++ ++L L + S KTSG++G+QI VPI Sbjct: 121 AKDETPTELVFDLDPSTDDFAVVIESALLLKQLLNELQLPSWVKTSGSSGLQIYVPIELR 180 Query: 206 VTFDGLRRIGHFVGRYVTEKRPDLFTLERLKKNRGDKIYFDYLQHYGGKTLAAPYTPRAR 265 TF+ R++GHF+ Y+ K P L T+ERL KNRGDK+Y DYLQH+ GKTL APY+ RA+ Sbjct: 181 YTFEQTRQVGHFIASYLVSKHPSLLTIERLVKNRGDKLYIDYLQHWRGKTLPAPYSTRAK 240 Query: 266 PLATVSTPLLWEEVQHNVSPADFHLLNIEERLSIMGDLIAKV 307 ATVSTPLLWEEV H+ P DF + + +RL GDL + + Sbjct: 241 EQATVSTPLLWEEVPHS-HPTDFTVYTVPKRLETFGDLFSSI 281 >Q2B9L6.1 Q2B9L6_9BACI Putative uncharacterized protein Length = 612 Score = 235 bits (599), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 120/282 (42%), Positives = 168/282 (59%), Gaps = 3/282 (1%) Query: 41 EIIITNPDKPLWPEVGITKRIYLQKLAALSPYLLRYSRDRLLTVIRYPHGVPGMSFYQKN 100 ++ IT+PDKP+W + K ++ L +SPY+L + +DRLLTVIRYPHG+ G FYQKN Sbjct: 322 DVDITHPDKPIWETPALKKIDFIHYLREISPYMLPFLKDRLLTVIRYPHGIFGEPFYQKN 381 Query: 101 APEPLPDFVRTATHDNITYIVLQGLPELLWLGNLAALEFHPSLHYVGSTLPCEWMIDLD- 159 AP+ P+FV T D I YIV L LWLGN A EFH + S P E + DLD Sbjct: 382 APDYTPEFVETKMSDGINYIVCNNLKTFLWLGNQLAFEFHIPFQTIKSKGPSEIVFDLDP 441 Query: 160 PSLEVEPRIMEAAAVVGEVLQSLGIASVPKTSGATGVQIIVPI-RPGVTFDGLRRIGHFV 218 PS + ++AA ++ EVL L + S KTSG G+Q+ +P+ T+D R F+ Sbjct: 442 PSRDAFTLAIKAAIMIKEVLDHLNLTSFVKTSGNKGIQVYIPLPDNAYTYDDTRLFTSFI 501 Query: 219 GRYVTEKRPDLFTLERLKKNRGDKIYFDYLQHYGGKTLAAPYTPRARPLATVSTPLLWEE 278 Y+ K PDLFT ER+KKNRG ++Y DY+QH GKT+ APY+ R A ++ PL WEE Sbjct: 502 ADYLISKEPDLFTTERMKKNRGGRLYVDYIQHAEGKTIVAPYSARGNQYAGIAAPLFWEE 561 Query: 279 VQHNVSPADFHLLNIEERLSIMGD-LIAKVPPQPVEALIPKL 319 V + +F + N+ +R++ +GD L + ++A P L Sbjct: 562 VNDRLRMEEFRVDNVVKRVNKLGDPLQGYFAAKDLQAFSPVL 603 >A3IA08.1 A3IA08_9BACI ATP-dependent DNA ligase EC=6.5.1.1 Length = 625 Score = 234 bits (598), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 120/261 (45%), Positives = 166/261 (63%), Gaps = 2/261 (0%) Query: 44 ITNPDKPLWPEVGITKRIYLQKLAALSPYLLRYSRDRLLTVIRYPHGVPGMSFYQKNAPE 103 IT+PDKP+WPE+G+TK YL L ++SPYLL + +DR LTVIRYPHGVPG SFYQK+ P+ Sbjct: 342 ITHPDKPVWPEIGLTKDHYLSYLQSVSPYLLPFLQDRPLTVIRYPHGVPGESFYQKSRPD 401 Query: 104 PLPDFVRTATHDNITYIVLQGLPELLWLGNLAALEFHPSLHYVGSTLPCEWMIDLD-PSL 162 LP+FV TA D I YIV L LLWLGN ALE H + P E + DLD PS Sbjct: 402 KLPNFVATAMMDEIDYIVCNNLETLLWLGNQLALELHIPFQTRQTMYPTEIVFDLDPPST 461 Query: 163 EVEPRIMEAAAVVGEVLQSLGIASVPKTSGATGVQIIVPI-RPGVTFDGLRRIGHFVGRY 221 + + A + E++ + S KTSG G+Q+ +P+ T++ +R FV R+ Sbjct: 462 DHFSLAIAGALDLKEIIDYFQLQSFVKTSGGKGLQLYIPLPANKFTYEEVRVFTEFVCRF 521 Query: 222 VTEKRPDLFTLERLKKNRGDKIYFDYLQHYGGKTLAAPYTPRARPLATVSTPLLWEEVQH 281 + +++P L+T+ERLKKNR +K+Y DY+QH GKT+ APY+ R L V+TPL WEEV Sbjct: 522 LCQQKPHLYTIERLKKNRHNKLYLDYVQHAEGKTIIAPYSTRGNELGLVATPLHWEEVND 581 Query: 282 NVSPADFHLLNIEERLSIMGD 302 ++ P F + + ER+ + + Sbjct: 582 DLKPYYFSIPAVMERMKQISN 602 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 0.321 0.140 0.426 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: 2,063,113,384 Number of extensions: 91652044 Number of successful extensions: 199615 Number of sequences better than 1.0e-05: 423 Number of HSP's gapped: 198812 Number of HSP's successfully gapped: 423 Length of query: 320 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 185 Effective length of database: 1,788,859,178 Effective search space: 330938947930 Effective search space used: 330938947930 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: 131 (55.1 bits)