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= 0053.0002.p (229 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AGc3764 [L] COG0847 DNA polymerase III, epsilon subunit and rela... 123 3e-28 CC1523 [L] COG0847 DNA polymerase III, epsilon subunit and relat... 118 6e-27 SA1710 [L] COG0847 DNA polymerase III, epsilon subunit and relat... 107 2e-23 Cgl2064 [L] COG0847 DNA polymerase III, epsilon subunit and rela... 105 5e-23 Rv2191_1 [L] COG0847 DNA polymerase III, epsilon subunit and rel... 76 4e-14 >AGc3764 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Length = 301 Score = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 5/144 (3%), Positives = 18/144 (12%), Gaps = 1/144 (0%) Query: 1 MNFTAIDFETANSSRSSACALGLVQVREGVVSAEHVWLIDPQQ-RFDGMNIAIHGITPSM 59 M+ + + Sbjct: 1 MSIDKSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIY 60 Query: 60 VEGKPTFDELWPTLEPLLQGEVVIAHNAAFDMSVLRYCLDRTAYSYPEFQYMCTYLLGKK 119 V+ E + L+ + + + T + Sbjct: 61 VDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVI 120 Query: 120 MLQELPSHKLNVVSQHFGISLKHH 143 + + + Sbjct: 121 LAVNKVDNVQEKADLLPHLQFLAS 144 >CC1523 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Length = 202 Score = 118 bits (296), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 57/141 (40%), Positives = 82/141 (58%), Gaps = 1/141 (0%) Query: 1 MNFTAIDFETANSSRSSACALGLVQVREG-VVSAEHVWLIDPQQRFDGMNIAIHGITPSM 59 M AIDFETA+ R+S C++GL + +G V EH ++ P RF N+A HGI P Sbjct: 1 MKVIAIDFETASEQRASPCSIGLAWIEDGEVARVEHHYIRPPGNRFAAFNMAFHGIRPEH 60 Query: 60 VEGKPTFDELWPTLEPLLQGEVVIAHNAAFDMSVLRYCLDRTAYSYPEFQYMCTYLLGKK 119 V + ++ + P L+G +V+AHNA+FD+SV+R + P F Y+CT + + Sbjct: 61 VADADEWPDVLERIRPELEGALVLAHNASFDISVIRRTCEHYDVPAPGFDYLCTVQVARS 120 Query: 120 MLQELPSHKLNVVSQHFGISL 140 + ELPSHKLNVV H G+ Sbjct: 121 VWPELPSHKLNVVCGHLGVDF 141 >SA1710 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Length = 184 Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 48/119 (40%), Positives = 70/119 (58%) Query: 3 FTAIDFETANSSRSSACALGLVQVREGVVSAEHVWLIDPQQRFDGMNIAIHGITPSMVEG 62 F A+DFETAN R+S C++G+V+V + ++ L++PQ F NI +HGI P VE Sbjct: 6 FVALDFETANGKRTSICSVGMVKVIDSQITETFHTLVNPQDYFSQQNIKVHGIQPEDVEN 65 Query: 63 KPTFDELWPTLEPLLQGEVVIAHNAAFDMSVLRYCLDRTAYSYPEFQYMCTYLLGKKML 121 PTFD ++P + + V+AHNAAFDM+VL + P Y C+Y L K+ + Sbjct: 66 APTFDYVFPYMMQFIADLPVVAHNAAFDMNVLHQSIQNIGLPTPNLTYFCSYQLAKRTV 124 >Cgl2064 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Length = 467 Score = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 53/146 (36%), Positives = 76/146 (52%), Gaps = 3/146 (2%) Query: 1 MNFTAIDFETANSSRSSACALGLVQVREGVVSAEHVWLIDPQQR---FDGMNIAIHGITP 57 +NF D ETAN S C +GLV+ +GV + WL P + F+ +NI IHGITP Sbjct: 113 LNFVGFDVETANDDWGSICQIGLVKYVDGVEESSESWLCTPPESLNFFNEINIGIHGITP 172 Query: 58 SMVEGKPTFDELWPTLEPLLQGEVVIAHNAAFDMSVLRYCLDRTAYSYPEFQYMCTYLLG 117 MV +P F +L P + + ++AHNA FD + L + PE Y C+ L Sbjct: 173 EMVADQPRFADLVPKMVEFVGDLPLVAHNAQFDFTALSRACAASGIDVPEMIYGCSLTLA 232 Query: 118 KKMLQELPSHKLNVVSQHFGISLKHH 143 + ++ +HKL V+ H G LK+H Sbjct: 233 RNEKLQVENHKLPTVASHLGFELKNH 258 >Rv2191_1 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases Length = 232 Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 44/148 (29%), Positives = 70/148 (47%), Gaps = 10/148 (6%) Query: 2 NFTAIDFETANSSRSSACA--------LGLVQVREGVVSAEHVWLIDPQQRFDGMNIAIH 53 F +D ET + A +G V+V G V E L++PQ + + Sbjct: 42 TFVVVDLETTGGRTTGNDATPPDAITEIGAVKVCGGAVLGEFATLVNPQHSIPPQIVRLT 101 Query: 54 GITPSMVEGKPTFDELWPTLEPLLQGEVVIAHNAAFDMSVLRYCLDRTAYSYPEFQYMCT 113 GIT +MV PT D + P V++AHNA FD+ LR R ++P+ Q +CT Sbjct: 102 GITTAMVGNAPTIDAVLPMFFEFAGDSVLVAHNAGFDIGFLRAAARRCDITWPQPQVLCT 161 Query: 114 YLLGKKML--QELPSHKLNVVSQHFGIS 139 L +++L E PS +L +++ F ++ Sbjct: 162 MRLARRVLSRDEAPSVRLAALARLFAVA 189 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 0.321 0.135 0.409 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: 13,317,414 Number of extensions: 439090 Number of successful extensions: 726 Number of sequences better than 1.0e-05: 14 Number of HSP's gapped: 731 Number of HSP's successfully gapped: 14 Length of query: 229 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 126 Effective length of database: 26,499,029 Effective search space: 3338877654 Effective search space used: 3338877654 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: 114 (48.5 bits)