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= 0271.0006.p (890 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3153_1 [L] COG0258 5'-3' exonuclease (including N-terminal dom... 324 4e-88 BS_polA_1 [L] COG0258 5'-3' exonuclease (including N-terminal do... 320 5e-87 SA1513_1 [L] COG0258 5'-3' exonuclease (including N-terminal dom... 310 7e-84 lin1600_1 [L] COG0258 5'-3' exonuclease (including N-terminal do... 303 1e-81 MT1665_1 [L] COG0258 5'-3' exonuclease (including N-terminal dom... 216 2e-55 >BH3153_1 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI) Length = 307 Score = 324 bits (831), Expect = 4e-88, Method: Compositional matrix adjust. Identities = 152/282 (53%), Positives = 206/282 (73%), Gaps = 1/282 (0%) Query: 3 KLILIDGNNIIYRAFFAMPPLTNTAGQQTNAVYGFTTMLLRLIEEHKPTHMIVAFDAGKI 62 KL+LIDGN+I YRAFFA+P L N G TNAVYGFT MLL+++E+ KPTHM+VAFDAGK Sbjct: 3 KLVLIDGNSIAYRAFFALPLLNNDKGVYTNAVYGFTMMLLKVLEDEKPTHMVVAFDAGKT 62 Query: 63 TFRHEGYEDYKGGRQKTPPELSEQFPMLKDLLRNLGVPQFEIDGYEADDIIGSISREADE 122 TFRH+ Y+ YK GRQKTPPELSEQFP++++LL + + E++ +EADD+IG+++++A + Sbjct: 63 TFRHDTYDAYKSGRQKTPPELSEQFPLIRELLDAFNIARVEVENFEADDLIGTLAKQASQ 122 Query: 123 AGRQVMIVSGDKDMLQLASEHTTVALVRKGVTEVEMYGPRQIREKYDLTPQQIIDLKGLM 182 +V I +GDKD+LQ+ S+H TVAL RKG+T++++Y + I E+Y +TP+QIID+KGLM Sbjct: 123 ENFEVKIFTGDKDLLQIVSDHVTVALTRKGITQIDVYDEKGIEERYGITPEQIIDMKGLM 182 Query: 183 GDASDNIPGVPGVGEKTALKLLQQFGSVEGVLAGTDXXX-XXXXXXXXXHADSAIMSKKL 241 GD+SDNIPGVPG+GEKTALKLL+++GSVE VL D H D A+MSKKL Sbjct: 183 GDSSDNIPGVPGIGEKTALKLLKEYGSVEKVLESIDEISGKKMKERLEEHRDQALMSKKL 242 Query: 242 ATIYREVPLEHAWEDMVFTGIRSDTAGPALAKLEFKSLLERL 283 ATIY E P+ + F +L+F SLL+++ Sbjct: 243 ATIYLEAPVTLDADSFTFGEYDKKEVVKLFKELDFNSLLDKV 284 >BS_polA_1 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI) Length = 320 Score = 320 bits (821), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 151/282 (53%), Positives = 206/282 (73%), Gaps = 1/282 (0%) Query: 3 KLILIDGNNIIYRAFFAMPPLTNTAGQQTNAVYGFTTMLLRLIEEHKPTHMIVAFDAGKI 62 KL+L+DGN++ YRAFFA+P L+N G TNAVYGF +L++++E+ KPTHM+VAFDAGK Sbjct: 6 KLVLVDGNSLAYRAFFALPLLSNDKGVHTNAVYGFAMILMKMLEDEKPTHMLVAFDAGKT 65 Query: 63 TFRHEGYEDYKGGRQKTPPELSEQFPMLKDLLRNLGVPQFEIDGYEADDIIGSISREADE 122 TFRH +++YKGGRQKTPPELSEQ P +++LL + ++E++ YEADDIIG++++ A++ Sbjct: 66 TFRHGTFKEYKGGRQKTPPELSEQMPFIRELLDAYQISRYELEQYEADDIIGTLAKSAEK 125 Query: 123 AGRQVMIVSGDKDMLQLASEHTTVALVRKGVTEVEMYGPRQIREKYDLTPQQIIDLKGLM 182 G +V + SGDKD+ QLA++ TTVA+ RKG+T+VE Y P ++EKY LTP+QIID+KGLM Sbjct: 126 DGFEVKVFSGDKDLTQLATDKTTVAITRKGITDVEFYTPEHVKEKYGLTPEQIIDMKGLM 185 Query: 183 GDASDNIPGVPGVGEKTALKLLQQFGSVEGVLAGTDXXXXXXXXXXXXH-ADSAIMSKKL 241 GD+SDNIPGVPGVGEKTA+KLL+QF SVE +L D D A+MSK+L Sbjct: 186 GDSSDNIPGVPGVGEKTAIKLLKQFDSVEKLLESIDEVSGKKLKEKLEEFKDQALMSKEL 245 Query: 242 ATIYREVPLEHAWEDMVFTGIRSDTAGPALAKLEFKSLLERL 283 ATI + P+E + + + G + L F +LLERL Sbjct: 246 ATIMTDAPIEVSVSGLEYQGFNREQVIAIFKDLGFNTLLERL 287 >SA1513_1 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI) Length = 324 Score = 310 bits (794), Expect = 7e-84, Method: Compositional matrix adjust. Identities = 156/290 (53%), Positives = 207/290 (71%), Gaps = 3/290 (1%) Query: 1 VDKLILIDGNNIIYRAFFAMPPLTNTAGQQTNAVYGFTTMLLRLIEEHKPTHMIVAFDAG 60 ++KL+LIDGN++ +RAF+A+P L+N AG TNAVYGF +L ++++E KP H +VAFDAG Sbjct: 1 MNKLVLIDGNSLSFRAFYALPLLSNKAGIHTNAVYGFAMLLEKILKEEKPNHFLVAFDAG 60 Query: 61 KITFRHEGYEDYKGGRQKTPPELSEQFPMLKDLLRNLGVPQFEIDGYEADDIIGSISREA 120 K TFRHE Y +YKGGRQKTPPELSEQFP ++ LL + ++E+D YEADDIIG++S+EA Sbjct: 61 KTTFRHEKYSEYKGGRQKTPPELSEQFPYIRQLLDAYHIKRYELDNYEADDIIGTLSKEA 120 Query: 121 DEAGRQVMIVSGDKDMLQLASEHTTVALVRKGVTEVEMYGPRQIREKYD-LTPQQIIDLK 179 D+AG Q +I++GD+D+ QLA+++ T+ +KGVT+V+ Y P I EKY+ LTP QIID+K Sbjct: 121 DKAGFQTIIITGDRDLTQLATDNVTIYYTKKGVTDVDHYTPDFIAEKYNGLTPNQIIDMK 180 Query: 180 GLMGDASDNIPGVPGVGEKTALKLLQQFGSVEGVLAGTDXXXXXXXXXXXXHA-DSAIMS 238 GLMGD SDNIPGV GVGEKTA+KLL QF +VEGV D ++ + A+MS Sbjct: 181 GLMGDTSDNIPGVAGVGEKTAIKLLNQFDTVEGVYEHLDEISGKKLKEKLQNSKEDALMS 240 Query: 239 KKLATIYREVPLEHAWEDMVFTGIRSDTAGPAL-AKLEFKSLLERLSLSA 287 K+LATI + P+E ED + T L KLEFK LL + SA Sbjct: 241 KELATINVDSPIEVKLEDTLMTHQDEQQEKIELFKKLEFKQLLSDIDQSA 290 >lin1600_1 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI) Length = 316 Score = 303 bits (775), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 145/285 (50%), Positives = 205/285 (71%), Gaps = 2/285 (0%) Query: 1 VDKLILIDGNNIIYRAFFAMPPLTNTAGQQTNAVYGFTTMLLRLIEEHKPTHMIVAFDAG 60 ++KL+LIDGN+I RAF+A+P L N G TNAVYGF ML+ ++E+ KP+H++VAFDAG Sbjct: 1 MNKLVLIDGNSIANRAFYALPLLNNDKGVYTNAVYGFAMMLMNVLEKEKPSHVLVAFDAG 60 Query: 61 KITFRHEGYEDYKGGRQKTPPELSEQFPMLKDLLRNLGVPQFEIDGYEADDIIGSISREA 120 K TFRH ++ YKGGRQKTP ELSEQFP +++LL +PQ+E+ YEADDIIG+++++A Sbjct: 61 KTTFRHTTFKGYKGGRQKTPSELSEQFPFIRELLTAYDIPQYELANYEADDIIGTLTKKA 120 Query: 121 DEAGRQVMIVSGDKDMLQLASEHTTVALVRKGVTEVEMYGPRQIREKYDLTPQQIIDLKG 180 + G +V I++GD+D+ QLAS TTV + +KG+ ++E P ++EKYDLTP QIID+KG Sbjct: 121 EADGMEVAIITGDRDLTQLASRKTTVYITKKGIADMETNTPETLKEKYDLTPSQIIDMKG 180 Query: 181 LMGDASDNIPGVPGVGEKTALKLLQQF-GSVEGVLA-GTDXXXXXXXXXXXXHADSAIMS 238 LMGD+SDNIPG+PGVGEKTALKLL +F G+VE VL + + + AI+S Sbjct: 181 LMGDSSDNIPGIPGVGEKTALKLLHEFGGTVESVLEHAEEISGKKLKEKVLENKELAILS 240 Query: 239 KKLATIYREVPLEHAWEDMVFTGIRSDTAGPALAKLEFKSLLERL 283 K+LATI + P+E E + G +++ P L ++ F +LL+ + Sbjct: 241 KELATINVDSPIECTVESTKYDGYQTEKVIPLLKEMNFTTLLKNI 285 >MT1665_1 [L] COG0258 5'-3' exonuclease (including N-terminal domain of PolI) Length = 312 Score = 216 bits (549), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 109/282 (38%), Positives = 165/282 (58%), Gaps = 2/282 (0%) Query: 4 LILIDGNNIIYRAFFAMPP--LTNTAGQQTNAVYGFTTMLLRLIEEHKPTHMIVAFDAGK 61 L+L+DGN++ +RAF+A+P G TNAVYGFT ML+ L+ + PTH+ AFD + Sbjct: 17 LMLLDGNSLAFRAFYALPAENFKTRGGLTTNAVYGFTAMLINLLRDEAPTHIAAAFDVSR 76 Query: 62 ITFRHEGYEDYKGGRQKTPPELSEQFPMLKDLLRNLGVPQFEIDGYEADDIIGSISREAD 121 TFR + Y +YK R TP E + Q + K++L LG+ G+EADD+I +++ +A+ Sbjct: 77 QTFRLQRYPEYKANRSSTPDEFAGQIDITKEVLGALGITVLSEPGFEADDLIATLATQAE 136 Query: 122 EAGRQVMIVSGDKDMLQLASEHTTVALVRKGVTEVEMYGPRQIREKYDLTPQQIIDLKGL 181 G +V++V+GD+D LQL S+ TV RKGV+E+ + P + EKY LTP+Q D L Sbjct: 137 NEGYRVLVVTGDRDALQLVSDDVTVLYPRKGVSELTRFTPEAVVEKYGLTPRQYPDFAAL 196 Query: 182 MGDASDNIPGVPGVGEKTALKLLQQFGSVEGVLAGTDXXXXXXXXXXXXHADSAIMSKKL 241 GD SDN+PG+PGVGEKTA K + ++GS+ ++ D + S + +++L Sbjct: 197 RGDPSDNLPGIPGVGEKTAAKWIAEYGSLRSLVDNVDAVRGKVGDALRANLASVVRNREL 256 Query: 242 ATIYREVPLEHAWEDMVFTGIRSDTAGPALAKLEFKSLLERL 283 + R+VPL + + D LEF+ L +RL Sbjct: 257 TDLVRDVPLAQTPDTLRLQPWDRDHIHRLFDDLEFRVLRDRL 298 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 0.318 0.136 0.383 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: 63,764,378 Number of extensions: 2691684 Number of successful extensions: 10303 Number of sequences better than 1.0e-05: 485 Number of HSP's gapped: 9334 Number of HSP's successfully gapped: 485 Length of query: 890 Length of database: 38,378,431 Length adjustment: 115 Effective length of query: 775 Effective length of database: 25,115,021 Effective search space: 19464141275 Effective search space used: 19464141275 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 120 (50.8 bits)