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= 0476.0063.p (263 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC3567 [L] COG0550 Topoisomerase IA 213 3e-55 BS_topB_1 [L] COG0550 Topoisomerase IA 201 9e-52 CAC2947_1 [L] COG0550 Topoisomerase IA 200 2e-51 SA2051_1 [L] COG0550 Topoisomerase IA 189 4e-48 BH3387 [L] COG0550 Topoisomerase IA 180 2e-45 >CAC3567 [L] COG0550 Topoisomerase IA Length = 709 Score = 213 bits (542), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 114/263 (43%), Positives = 161/263 (61%), Gaps = 14/263 (5%) Query: 2 KTLIIAEKPDMGRNIAAAIEPKAKNYRSYLEGEQYIITWAIGHLIGLAEPEAYDSKYKKW 61 K L+I+EKP +GR+IA + K + L G +YI+TWA+GHL+ L EPE Y++ YKKW Sbjct: 3 KILVISEKPSVGRDIANVLGCKTRG-EGCLIGAKYIVTWAVGHLVTLWEPEEYNAIYKKW 61 Query: 62 NINDLPIIXXXXEFKLVPNARTLDQLKVIGELAKRSDL--LVNSCDAGREGQHIFSLIQR 119 + LPII K+ P T Q +I +L + + L+ + DAGREG+ IF Sbjct: 62 RFDTLPIIPEV--MKIKPIDGTKKQFNIIKKLMNDNSVESLICATDAGREGELIFRYTYE 119 Query: 120 HLKLSQPVKRLWISDLTPETIRKGFQELKDGSEYENLTKAAKARSEADWLIGMNGSRAFT 179 + +P RLWIS +T E I++GF +K G+EY+NL +AK RSEADWL+GMN SRA+T Sbjct: 120 AAECKKPFSRLWISSMTDEAIKEGFSTIKPGTEYDNLYHSAKCRSEADWLVGMNASRAYT 179 Query: 180 TKHNVLLSVGRVQTPVLALIYDRQKTIEAFSSLKFFEVEGHFTQNEVVYKGMW-----QG 234 K+NVLLSVGRVQTP LA+I RQK I+ F ++EV + + G W + Sbjct: 180 LKYNVLLSVGRVQTPTLAIIVKRQKEIDNFEPKDYWEVVSKYEG----FNGTWFDKETKE 235 Query: 235 ERMTDGAKAEALAAKVKGKPARI 257 ++ D KA+ L AK+ G+ ++ Sbjct: 236 SKIMDKKKADDLGAKILGQTGKV 258 >BS_topB_1 [L] COG0550 Topoisomerase IA Length = 653 Score = 201 bits (511), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 35/218 (16%), Positives = 62/218 (28%), Gaps = 5/218 (2%) Query: 2 KTLIIAEKPDMGRNIAAAIEPKAKNYRSYLEGEQYIITWAIGHLIGLAEPEAYDSKYKKW 61 + + + G ++TW IGHL+ A+P+AYDS+Y +W Sbjct: 3 LFIAEKPSLARAIADVLPKPHRKGD-GFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARW 61 Query: 62 NINDLPIIXXXXEFKLVPNARTLDQLKVIGELAKRSDL--LVNSCDAGREGQHIFSLIQR 119 N+ DLPI+ +++L P QL VI + D + L Sbjct: 62 NLADLPIVPE--KWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYL 119 Query: 120 HLKLSQPVKRLWISDLTPETIRKGFQELKDGSEYENLTKAAKARSEADWLIGMNGSRAFT 179 L + + + S E + A + A + Sbjct: 120 QLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLYGINMTRA 179 Query: 180 TKHNVLLSVGRVQTPVLALIYDRQKTIEAFSSLKFFEV 217 + + V + + V Sbjct: 180 YTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFV 217 >CAC2947_1 [L] COG0550 Topoisomerase IA Length = 618 Score = 200 bits (508), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 102/259 (39%), Positives = 157/259 (60%), Gaps = 5/259 (1%) Query: 2 KTLIIAEKPDMGRNIAAAIEPKAKNYRSYLEGEQYIITWAIGHLIGLAEPEAYDSKYKKW 61 K L++AEKP + R++A ++ N +++LEG +Y++ WA+GHL+ LA+PE+Y KYKKW Sbjct: 3 KILVLAEKPSVARDLAKVLKANI-NKKTHLEGNKYVVIWALGHLVSLADPESYGEKYKKW 61 Query: 62 NINDLPIIXXXXEFKLVPNARTLDQLKVIGELAKRSDL--LVNSCDAGREGQHIFSLIQR 119 +++ LP++ + ++ N T I ++ +R DL LV + DAGREG+ + I Sbjct: 62 SMDTLPMLPKNMKLSVLKN--TSKHFYDIKKVMERKDLDELVIATDAGREGELVARWIIE 119 Query: 120 HLKLSQPVKRLWISDLTPETIRKGFQELKDGSEYENLTKAAKARSEADWLIGMNGSRAFT 179 K +P+KRLWIS T +R GF L+DG +YENL K+AK RSEADW +G+N +RA T Sbjct: 120 MAKWKKPIKRLWISSQTDRAVRDGFAHLRDGRDYENLYKSAKCRSEADWFVGLNVTRALT 179 Query: 180 TKHNVLLSVGRVQTPVLALIYDRQKTIEAFSSLKFFEVEGHFTQNEVVYKGMWQGERMTD 239 K+N LS GRVQTP L +I R++ I F ++ +EG + + ++ + Sbjct: 180 CKYNAQLSAGRVQTPTLYMIVSREEEIRKFKPKDYYTIEGKVKSFSMNWHDKSGDFKIFN 239 Query: 240 GAKAEALAAKVKGKPARIA 258 +AE + A VKG +I Sbjct: 240 KERAEKIEALVKGSKGKIV 258 >SA2051_1 [L] COG0550 Topoisomerase IA Length = 596 Score = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 97/218 (44%), Positives = 140/218 (64%), Gaps = 7/218 (3%) Query: 1 LKTLIIAEKPDMGRNIAAAIEPKAKNYRSYLEGEQYIITWAIGHLIGLAEPEAYDSKYKK 60 +K+LI+AEKP + R+IA A++ K Y E QYI+TWA+GHL+ A PE YD K+ Sbjct: 1 MKSLILAEKPSVARDIADALQINQKR-NGYFENNQYIVTWALGHLVTNATPEQYDKNLKE 59 Query: 61 WNINDLPIIXXXXEFKLVPNARTLDQLKVIGELA---KRSDLLVNSCDAGREGQHIFSLI 117 W + DLPII K V +T Q K + L K D+++ + DAGREG+ + LI Sbjct: 60 WRLEDLPIIPKY--MKTVVIGKTSKQFKTVKALILDNKVKDIII-ATDAGREGELVARLI 116 Query: 118 QRHLKLSQPVKRLWISDLTPETIRKGFQELKDGSEYENLTKAAKARSEADWLIGMNGSRA 177 + +P++RLWIS +T + I++GF+ LKDG +Y +L AA ARSEADW++G+N +RA Sbjct: 117 LDKVGNKKPIRRLWISSVTKKAIQQGFKNLKDGRQYNDLYYAALARSEADWIVGINATRA 176 Query: 178 FTTKHNVLLSVGRVQTPVLALIYDRQKTIEAFSSLKFF 215 TTK++ LS+GRVQTP + L+ RQ+ I F ++F Sbjct: 177 LTTKYDAQLSLGRVQTPTIQLVNTRQQEINQFKPQQYF 214 >BH3387 [L] COG0550 Topoisomerase IA Length = 721 Score = 180 bits (457), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 111/267 (41%), Positives = 150/267 (56%), Gaps = 21/267 (7%) Query: 4 LIIAEKPDMGRNIAAAIEPKAKNYRSYLE---GEQY----IITWAIGHLIGLAEPEAYDS 56 ++IAEKPD G +AA +N R Y+E +Q+ TWA+GHL L PE YD Sbjct: 5 VVIAEKPDQGMKLAAPF--PHRNKRGYVEVAPCDQFPAGAFFTWAVGHLCELCPPEQYDP 62 Query: 57 KYKKWNINDLPIIXXXXEFKLVPNARTLDQLKVIGELAKRSDL--LVNSCDAGREGQHIF 114 +KKW + LP+I ++ + DQ +VI L R ++ +V + DAGREG+ I Sbjct: 63 SWKKWTLEALPLIPQSFVHRVSRGKK--DQFQVIRSLVHRKEVTEIVMAGDAGREGELIV 120 Query: 115 SLIQRHLKLSQPVKRLWISDLTPETIRKGFQELKDGSEYENLTKAAKARSEADWLIGMNG 174 LI + ++ + RLW+S LT + + GF +LK E L A +RS ADWLIGMN Sbjct: 121 RLILKQCRVKKKTSRLWLSSLTKQAVVSGFHQLKSAESTEPLYHEALSRSCADWLIGMNV 180 Query: 175 SRAFT---TKHNV--LLSVGRVQTPVLALIYDRQKTIEAFSSLKFFEVEGHFTQNEVVYK 229 +RA+T K V L S GRVQTP LALI R+K IEAF S F+EV+ F Y+ Sbjct: 181 TRAYTLLLKKKGVDSLFSTGRVQTPTLALIVKREKEIEAFESKPFWEVKATFRVQGHEYE 240 Query: 230 GMWQGERMT---DGAKAEALAAKVKGK 253 G+W +R T D AEA+AA +GK Sbjct: 241 GIWHKDRETRLFDQPMAEAIAAFCRGK 267 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 0.317 0.134 0.389 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: 19,007,784 Number of extensions: 799945 Number of successful extensions: 1657 Number of sequences better than 1.0e-05: 40 Number of HSP's gapped: 1608 Number of HSP's successfully gapped: 40 Length of query: 263 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 159 Effective length of database: 26,383,695 Effective search space: 4195007505 Effective search space used: 4195007505 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: 115 (48.9 bits)