BLASTP 2.2.21 [Jun-14-2009] 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= 0105.0004.p (228 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value PA3232 [L] COG0847 DNA polymerase III, epsilon subunit and relat... 139 5e-33 VC0299 [L] COG0847 DNA polymerase III, epsilon subunit and relat... 125 5e-29 aq_2108 [L] COG0847 DNA polymerase III, epsilon subunit and rela... 82 7e-16 FN0281 [L] COG2176 DNA polymerase III, alpha subunit (gram-posit... 80 3e-15 aq_932 [L] COG0847 DNA polymerase III, epsilon subunit and relat... 73 4e-13 >PA3232 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Pae Pseudomonas aeruginosa Length = 208 Score = 139 bits (350), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 72/180 (40%), Positives = 113/180 (62%), Gaps = 1/180 (0%) Query: 20 YRFMFRREPADEVVAIDCETTGLNVRTDDIISIGAIKIRGNRILTSERFERMVRPDASIP 79 Y +M A+EV+++D ETT L+ R DI+SIGA+ +R +++ ER E V P S+ Sbjct: 20 YWWMHEAVEAEEVISLDLETTSLDPRRADILSIGAVLVRRGKLVMGERLELYVEPPPSLD 79 Query: 80 ADAIKIHRLRQVDVEHEAPIRKLLPDFLHFVGGRPLVGYYVDFDIAMLDKYILPFIGIEL 139 A++I+IH+LR+ D+E + + + L L F+G RPL+GYY+ FD+A+L++++ + +L Sbjct: 80 AESIRIHKLRRADLEGQLQLEQALRQVLAFIGDRPLLGYYLSFDVAVLNRHLRQLLDRQL 139 Query: 140 PNPRIEISSLYYDRKYGDAPPHTSIDLSFSAILADLEIPSLPQHDAFNDALMTAMMYVVL 199 NP IEISSLY+ RK P IDL F + L++P +H A DA A+M++ L Sbjct: 140 HNPSIEISSLYH-RKVSRHFPDAHIDLRFDTLARALDVPVSGRHTALGDAQAVALMFMRL 198 >VC0299 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Vch Vibrio cholerae Length = 223 Score = 125 bits (315), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 68/194 (35%), Positives = 112/194 (57%), Gaps = 2/194 (1%) Query: 6 IKRLFHQASIGDQSYRFMFRREPADEVVAIDCETTGLNVRTDDIISIGAIKIRGNRILTS 65 ++R +H A + Y+ +F E V++DCETT L+ + ++++I A KI NRI+TS Sbjct: 19 LRRYWH-AKLKGSPYQRLFETARHHEYVSLDCETTSLDPKRAELVTIAATKIVDNRIITS 77 Query: 66 ERFERMVRPDASIPADAIKIHRLRQVDVEHEAPIRKLLPDFLHFVGGRPLVGYYVDFDIA 125 + FE + S+ + +++IHR+R D+ ++ L + F+G RPLVGY++ +D Sbjct: 78 QPFEVRLCAPQSLDSGSVRIHRIRHQDLHDGLSEKEALLQLIEFIGNRPLVGYHIRYDKT 137 Query: 126 MLDKYILPFIGIELPNPRIEISSLYYDRKYGDAPPHTSIDLSFSAILADLEIPSLPQHDA 185 +LD +G LPN IE+S +Y+D K P+ DLS AI L++P +HDA Sbjct: 138 ILDIACRKHLGFPLPNRLIEVSQIYHD-KLEKHLPNAYFDLSLEAICRHLDLPLQDKHDA 196 Query: 186 FNDALMTAMMYVVL 199 DA+ A+++V L Sbjct: 197 LQDAIAAALVFVRL 210 >aq_2108 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Aae Aquifex aeolicus Length = 210 Score = 82.4 bits (202), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 47/166 (28%), Positives = 94/166 (56%), Gaps = 12/166 (7%) Query: 33 VAIDCETTGLNVRTDDIISIGAIKIRGNRILTSERFERMVRPDASIPADAIKIHRLRQVD 92 V DCE T L+V+ ++SIGA++++ I S+ F +++ D A +IH + + D Sbjct: 38 VVFDCEATELDVKKAKLLSIGAVEVKNLEIDLSKSFYEILKSD---EIKAAEIHGITRED 94 Query: 93 VE-HEAPIRKLLPDFLHFVGGRPLVGYYVDFDIAMLDKYILPFIGIELPNPRIEISSLYY 151 VE + ++++ DFL ++ G LVGYYV FD+++++KY + + + N ++++ S + Sbjct: 95 VEKYGKEPKEVIYDFLKYIKGSVLVGYYVKFDVSLVEKYSIKYFQYPIINYKLDLFS-FV 153 Query: 152 DRKYGDAPPHTSIDLSFSAILADLEIPSLPQHDAFNDALMTAMMYV 197 R+Y S ++ +L + +H+A DA +TA++++ Sbjct: 154 KREYQSGR-------SLDDLMKELGVEIRARHNALEDAYITALLFL 192 >FN0281 [L] COG2176 DNA polymerase III, alpha subunit (gram-positive type) Fnu Fusobacterium nucleatum Length = 1454 Score = 80.5 bits (197), Expect = 3e-15, Method: Composition-based stats. Identities = 52/184 (28%), Positives = 93/184 (50%), Gaps = 19/184 (10%) Query: 30 DEVVAIDCETTGLNVRTDDIISIGAIKIRGNRILTSERFERMVRPDASIPADAIKIHRLR 89 +E V D ETTGLN T++II IGA+KI+ RI+ +R+ +++ P IP +I + Sbjct: 425 EEFVVFDIETTGLNSHTNEIIEIGAVKIKAGRIV--DRYSQLINPGRPIPYHITEITSIT 482 Query: 90 QVDVEHEAPIRKLLPDFLHFVGGRPLVGYYVDFDIAMLDKYILPFIGIELPNPRIEISSL 149 V +E I +++ F+ F+G LV + FD+ + + I ++ I+ I+ + Sbjct: 483 DEQVANEPKIDEVIGKFVDFIGDAVLVAHNAPFDMGFIKRDIKKYLNIDYQCSVIDTLQM 542 Query: 150 YYD-----RKYGDAPPHTSIDLSFSAILADLEIPSLPQHDAFNDALMTAMMYVVLRDK-K 203 D +KYG + ++ L+ H A +D+ TA M+++ DK K Sbjct: 543 ARDLFPDLKKYGLGDLNKTLGLALEK-----------HHRAVDDSQATANMFIIFLDKYK 591 Query: 204 KRGM 207 ++G+ Sbjct: 592 EKGL 595 >aq_932 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Aae Aquifex aeolicus Length = 202 Score = 73.2 bits (178), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 47/165 (28%), Positives = 81/165 (49%), Gaps = 8/165 (4%) Query: 33 VAIDCETTGLNVRTDDIISIGAIKIRGNRILTSERFERMVRPDASIPADAIKIHRLRQVD 92 V ID E TG +V ++I + A+++ G I +E+F +V P IP K+ + Sbjct: 20 VVIDLEATGFDVEKSEVIDLAAVRVEGGII--TEKFSTLVYPGYFIPERIKKLTGITNAM 77 Query: 93 VEHEAPIRKLLPDFLHFVGGRPLVGYYVDFDIAMLDKYILPFIGIELPNPRIEISSLYYD 152 + + I ++LP+FL FVG +VG++V+ DI ++KY + G + NP + +L Sbjct: 78 LVGQPTIEEVLPEFLEFVGDNIVVGHFVEQDIKFINKYTKQYRGKKFRNP--SLCTLKLA 135 Query: 153 RKYGDAPPHTSIDLSFSAILADLEIPSLPQHDAFNDALMTAMMYV 197 RK S+ I + + H A DA +TA +++ Sbjct: 136 RKVFPGLKKYSL----KEIAENFGFETNGVHRALKDATLTAEIFI 176