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= 0290.0043.p (339 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KFZ8.1 B3KFZ8_9BACI DNA polymerase III, delta subunit 435 e-120 B1DFE7.1 B1DFE7_9BACL DNA polymerase III, delta subunit 297 1e-78 C3IXG8.1 C3IXG8_9BACI DNA polymerase III, delta subunit 265 7e-69 B7Y5S2.1 B7Y5S2_9BACI DNA polymerase III, delta subunit 265 7e-69 A4IR40.1 A4IR40_GEOTN Putative uncharacterized protein 261 5e-68 >B3KFZ8.1 B3KFZ8_9BACI DNA polymerase III, delta subunit Length = 339 Score = 435 bits (1119), Expect = e-120, Method: Compositional matrix adjust. Identities = 223/339 (65%), Positives = 265/339 (78%) Query: 1 MDAKAAAKDIRQGKISPLYVLYGSEKFRMNEFAAFLEEHLIAKEDRDFAVIPFDLSETPV 60 MDAKAAAK ++QG +S +Y+LYGSEKF+M EFA FLE LI KEDRDFA++ DL E P+ Sbjct: 1 MDAKAAAKAVKQGDVSSVYLLYGSEKFQMKEFAEFLEAQLIPKEDRDFALVHMDLGEVPI 60 Query: 61 QAVVEEAETVPFMVERKLLLVRDASLFTAGKDNAKIEHRVEVLSDYMQHPAEFSVIVFMV 120 Q VVEEAETVPFMV++KL+ VRD + FTA KDN K++HR E L DY+ PA++SVIVFMV Sbjct: 61 QTVVEEAETVPFMVQKKLIFVRDTAFFTAAKDNGKVDHRPEALLDYLTDPADYSVIVFMV 120 Query: 121 NSDKLDERKKIVKTVKAAGTVLAFNPLGAEELLRWVEKGVRDRGCEPXXXXXXXXXXXXX 180 +KLDERKK+VK VK +G L+F PLG +ELLRWV+K V+ GC Sbjct: 121 GQEKLDERKKVVKAVKKSGVALSFMPLGGDELLRWVDKQVKKGGCTLRAGAAEALVRNAG 180 Query: 181 XXXQGLSAEMDKLCLFAGKGGIVDAAAIESLVHRGTEQNVFTLVEDIANLRLDKALNTLY 240 Q LS E++KLCL+AG G +D A ++ LV R TEQNVF LVEDIANLRLDKAL Y Sbjct: 181 TSLQALSGEIEKLCLYAGADGAIDVATVDMLVARSTEQNVFALVEDIANLRLDKALGIYY 240 Query: 241 ELLKQREEPIKIAALIARQFRIILQVKDLSAQSYSQGQIASQLGLHPYAVKLAGEQARKF 300 ELLKQREEPIKIAALI RQFRIILQVK LS QSYSQ QIASQ+G+HPYAVK+AGEQARKF Sbjct: 241 ELLKQREEPIKIAALITRQFRIILQVKTLSTQSYSQQQIASQIGVHPYAVKIAGEQARKF 300 Query: 301 ESQRLRQILSFLADLDYQMKTGAIDKVLGLEMFMLRLGA 339 ++ RL IL+ LA+LDYQMKTGA+DKVLG+E+F+LRLGA Sbjct: 301 QTARLEGILNHLANLDYQMKTGAVDKVLGIELFLLRLGA 339 >B1DFE7.1 B1DFE7_9BACL DNA polymerase III, delta subunit Length = 349 Score = 297 bits (760), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 151/328 (46%), Positives = 220/328 (67%), Gaps = 1/328 (0%) Query: 1 MDAKAAAKDIRQGKISPLYVLYGSEKFRMNEFAAFLEEHLIAKEDRDFAVIPFDLSETPV 60 M+AK A K+I+ GK P YV+YG +++R+ +F L E + + ++R+ V+ FD SET + Sbjct: 1 MEAKEALKEIKAGKFRPAYVIYGKDRYRIGQFTETLTEAMFSPDERELGVVKFDTSETLI 60 Query: 61 QAVVEEAETVPFMVERKLLLVRDASLFTAG-KDNAKIEHRVEVLSDYMQHPAEFSVIVFM 119 + EAET+PF VERKL++VRD+ +F AG K+ K++H+ + L Y+ P+E +V++F+ Sbjct: 61 EEAALEAETLPFFVERKLVIVRDSVVFAAGGKEGGKLDHKTDRLQHYLDIPSETTVMLFI 120 Query: 120 VNSDKLDERKKIVKTVKAAGTVLAFNPLGAEELLRWVEKGVRDRGCEPXXXXXXXXXXXX 179 +N++KLDER+K+VK +K ++AF L A EL RWV K ++ Sbjct: 121 INAEKLDERRKLVKILKDRDALIAFQELDAAELRRWVVKRAEEQKRTMTAEAADLLLVRT 180 Query: 180 XXXXQGLSAEMDKLCLFAGKGGIVDAAAIESLVHRGTEQNVFTLVEDIANLRLDKALNTL 239 Q L+ E+DKLCL AG+GG++ E L E++VF LV+ IA+L++D++L Sbjct: 181 GANMQQLAIEVDKLCLHAGEGGVIGVKETELLTASTVEEDVFALVDAIASLQVDRSLKLY 240 Query: 240 YELLKQREEPIKIAALIARQFRIILQVKDLSAQSYSQGQIASQLGLHPYAVKLAGEQARK 299 LL +REEPIKIAALIARQ RI+LQ+K+L YS Q+A Q+GLHPYAVKLA E+++K Sbjct: 241 RALLVRREEPIKIAALIARQLRIMLQIKELEQNRYSPQQMAGQIGLHPYAVKLAAEKSQK 300 Query: 300 FESQRLRQILSFLADLDYQMKTGAIDKV 327 F+ RL +LS +ADLDY+MKTGAIDK Sbjct: 301 FKVARLGALLSDIADLDYKMKTGAIDKT 328 >C3IXG8.1 C3IXG8_9BACI DNA polymerase III, delta subunit Length = 348 Score = 265 bits (676), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 138/331 (41%), Positives = 204/331 (61%), Gaps = 1/331 (0%) Query: 9 DIRQGKISPLYVLYGSEKFRMNEFAAFLEEHLIAKEDRDFAVIPFDLSETPVQAVVEEAE 68 +I + + SPLY+LYG+E F + E L + E+R++ + +D ETP++A +EEAE Sbjct: 8 NIEKRRFSPLYLLYGNEPFLLTETYERLVNAALGPEEREWNLAVYDCEETPIEAALEEAE 67 Query: 69 TVPFMVERKLLLVRDASLFTAGKDNAKIEHRVEVLSDYMQHPAEFSVIVFMVNSDKLDER 128 TVPF ER+++L++ FT+ K+ +IEH + L Y++ P+ FS++VF +KLDER Sbjct: 68 TVPFFGERRVILIKHPYFFTSEKEK-EIEHDLAKLEAYLKAPSPFSIVVFFAPYEKLDER 126 Query: 129 KKIVKTVKAAGTVLAFNPLGAEELLRWVEKGVRDRGCEPXXXXXXXXXXXXXXXXQGLSA 188 KKI K K V+ PL EL WV + + +G + L+ Sbjct: 127 KKITKLAKEQSEVVIAAPLAEAELRAWVRRRIESQGAQASDEAIDVLLRRAGTQLSALAN 186 Query: 189 EMDKLCLFAGKGGIVDAAAIESLVHRGTEQNVFTLVEDIANLRLDKALNTLYELLKQREE 248 E+DKL LFAG GG ++AAA+E LV R E+NVF LVE +A + AL T Y+LL+ EE Sbjct: 187 EIDKLALFAGSGGTIEAAAVERLVARTPEENVFVLVEQVAKRDIPAALQTFYDLLENNEE 246 Query: 249 PIKIAALIARQFRIILQVKDLSAQSYSQGQIASQLGLHPYAVKLAGEQARKFESQRLRQI 308 PIKI AL+A FR++ QVK L++ Y Q QIA+ L +HP+ VKLA QA +F L + Sbjct: 247 PIKILALLAAHFRLLSQVKWLASLGYGQAQIAAALKVHPFRVKLALAQAARFADGELAEA 306 Query: 309 LSFLADLDYQMKTGAIDKVLGLEMFMLRLGA 339 ++ LAD DY++K+GA+D+ L +E+ ++R GA Sbjct: 307 INELADADYEVKSGAVDRRLAVELLLMRWGA 337 >B7Y5S2.1 B7Y5S2_9BACI DNA polymerase III, delta subunit Length = 348 Score = 265 bits (676), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 138/331 (41%), Positives = 204/331 (61%), Gaps = 1/331 (0%) Query: 9 DIRQGKISPLYVLYGSEKFRMNEFAAFLEEHLIAKEDRDFAVIPFDLSETPVQAVVEEAE 68 +I + + SPLY+LYG+E F + E L + E+R++ + +D ETP++A +EEAE Sbjct: 8 NIEKRRFSPLYLLYGNEPFLLTETYERLVNAALGPEEREWNLAVYDCEETPIEAALEEAE 67 Query: 69 TVPFMVERKLLLVRDASLFTAGKDNAKIEHRVEVLSDYMQHPAEFSVIVFMVNSDKLDER 128 TVPF ER+++L++ FT+ K+ +IEH + L Y++ P+ FS++VF +KLDER Sbjct: 68 TVPFFGERRVILIKHPYFFTSEKEK-EIEHDLAKLEAYLKAPSPFSIVVFFAPYEKLDER 126 Query: 129 KKIVKTVKAAGTVLAFNPLGAEELLRWVEKGVRDRGCEPXXXXXXXXXXXXXXXXQGLSA 188 KKI K K V+ PL EL WV + + +G + L+ Sbjct: 127 KKITKLAKEQSEVVIAAPLAEAELRAWVRRRIESQGAQASDEAIDVLLRRAGTQLSALAN 186 Query: 189 EMDKLCLFAGKGGIVDAAAIESLVHRGTEQNVFTLVEDIANLRLDKALNTLYELLKQREE 248 E+DKL LFAG GG ++AAA+E LV R E+NVF LVE +A + AL T Y+LL+ EE Sbjct: 187 EIDKLALFAGSGGTIEAAAVERLVARTPEENVFVLVEQVAKRDIPAALQTFYDLLENNEE 246 Query: 249 PIKIAALIARQFRIILQVKDLSAQSYSQGQIASQLGLHPYAVKLAGEQARKFESQRLRQI 308 PIKI AL+A FR++ QVK L++ Y Q QIA+ L +HP+ VKLA QA +F L + Sbjct: 247 PIKILALLAAHFRLLSQVKWLASLGYGQAQIAAALKVHPFRVKLALAQAARFADGELAEA 306 Query: 309 LSFLADLDYQMKTGAIDKVLGLEMFMLRLGA 339 ++ LAD DY++K+GA+D+ L +E+ ++R GA Sbjct: 307 INELADADYEVKSGAVDRRLAVELLLMRWGA 337 >A4IR40.1 A4IR40_GEOTN Putative uncharacterized protein Length = 339 Score = 261 bits (668), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 142/330 (43%), Positives = 199/330 (60%), Gaps = 1/330 (0%) Query: 9 DIRQGKISPLYVLYGSEKFRMNEFAAFLEEHLIAKEDRDFAVIPFDLSETPVQAVVEEAE 68 +I + + SPLY+LYGSE F + E L + + +E+ ++ + +D ETPVQA +EEAE Sbjct: 8 NIEKQRFSPLYLLYGSESFLLQETYERLVKAALGEEEHEWNLAVYDCEETPVQAALEEAE 67 Query: 69 TVPFMVERKLLLVRDASLFTAGKDNAKIEHRVEVLSDYMQHPAEFSVIVFMVNSDKLDER 128 TVPF ER+++L++ FTA KD +IEH + L Y + PA FS++VF DKLDER Sbjct: 68 TVPFFGERRVILIKHPYFFTAEKDK-EIEHDLAKLEAYFKAPAPFSIVVFFAPYDKLDER 126 Query: 129 KKIVKTVKAAGTVLAFNPLGAEELLRWVEKGVRDRGCEPXXXXXXXXXXXXXXXXQGLSA 188 KKI K K V+ L EL WV + + +G + L+ Sbjct: 127 KKITKLAKEHSEVVVAASLAEGELRAWVRRRIESQGAQISDEAIDALLRRAGTQLAALAN 186 Query: 189 EMDKLCLFAGKGGIVDAAAIESLVHRGTEQNVFTLVEDIANLRLDKALNTLYELLKQREE 248 E++KL LFAG GG V+A A+E LV R E+NVF LVE +A + AL T Y+LL+ EE Sbjct: 187 EINKLALFAGPGGTVEAEAVEQLVARTPEENVFALVEQVAKRNIPAALQTFYDLLENNEE 246 Query: 249 PIKIAALIARQFRIILQVKDLSAQSYSQGQIASQLGLHPYAVKLAGEQARKFESQRLRQI 308 PIKI AL+A FR++ QVK L+ Y Q QIAS L +HP+ VKLA QA +F Q L + Sbjct: 247 PIKILALLAGHFRLLAQVKWLAQAGYGQTQIASALKVHPFRVKLALGQAARFSEQELAKA 306 Query: 309 LSFLADLDYQMKTGAIDKVLGLEMFMLRLG 338 + LA DY++K+GA+D+ L +E+ ++R G Sbjct: 307 IDELAAADYEVKSGAMDRRLAVELLLMRWG 336 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 0.136 0.374 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: 1,645,458,486 Number of extensions: 59522305 Number of successful extensions: 162993 Number of sequences better than 1.0e-05: 529 Number of HSP's gapped: 162281 Number of HSP's successfully gapped: 536 Length of query: 339 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 203 Effective length of database: 1,779,438,163 Effective search space: 361225947089 Effective search space used: 361225947089 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)