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= 0047.0001.p (368 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC3468 [L] COG0322 Nuclease subunit of the excinuclease complex 291 2e-78 CAC0508 [L] COG0322 Nuclease subunit of the excinuclease complex 171 2e-42 lin1197 [L] COG0322 Nuclease subunit of the excinuclease complex 135 1e-31 BS_uvrC [L] COG0322 Nuclease subunit of the excinuclease complex 128 1e-29 ML0258 [FP] COG0248 Exopolyphosphatase 125 1e-28 >CAC3468 [L] COG0322 Nuclease subunit of the excinuclease complex Length = 373 Score = 291 bits (744), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 142/342 (41%), Positives = 218/342 (63%), Gaps = 3/342 (0%) Query: 1 MNLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNI 60 M + EK+ LP +PGVYLMKDSL IIYVGK+K L+ RVQSYF N+K HS KV +LV+N+ Sbjct: 1 MEIKEKIRKLPSAPGVYLMKDSLNTIIYVGKSKNLRSRVQSYFVNSKSHSSKVLKLVKNL 60 Query: 61 RDFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPA 120 +DFDY +TDTEFEA +LEC+LIK IKP+YN++MK+P Y YI I+ D Y + + + Sbjct: 61 KDFDYIVTDTEFEALLLECKLIKRIKPIYNRQMKSPKGYCYIKIKLDEKYPSVEIKSNDE 120 Query: 121 EYGDSLYFGPYTSRSTVERAVQGIKESQRILCSTPHARNALCLNHSXXXXXXXXXXXEAL 180 G+SLYFGPYTS+STVE+A+ GIKE +ILC+ + + CL +S + Sbjct: 121 RVGESLYFGPYTSKSTVEKALYGIKEHMKILCTNSSKKASGCLKYSTGLCLGMCTANPSF 180 Query: 181 ERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEKV 240 E Y +I+ + LL+G D I+ E++++M++A+ NF+FE AAKYRD+ ++ L K+ Sbjct: 181 EYYSSLIEKIIELLSGKDITIVGEMEKKMNIASNNFDFENAAKYRDFIKSINYLTSTAKI 240 Query: 241 IGFTEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFS 300 I F E+NKNIV++E + + +K L+R +++L + + +++ I+ + Sbjct: 241 INFIEENKNIVLVELLNNEEIKCFLLRYNKLLFCEKYKLSDFSVKEIKHKIKLKIMLHLC 300 Query: 301 KPPHGEPGEISRHKLDEAQIIYSYLTG--SSGSYAVIPQEWL 340 + + ++++DE IIY+YL S+ Y I ++W+ Sbjct: 301 GDLNNIVN-VGKNEIDEVHIIYNYLKSKESTCRYIAIKEQWI 341 >CAC0508 [L] COG0322 Nuclease subunit of the excinuclease complex Length = 623 Score = 171 bits (432), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 114/337 (33%), Positives = 176/337 (52%), Gaps = 10/337 (2%) Query: 10 LPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNIRDFDYKLTD 69 LP PGVY+MK+SLG +IYVGKAK LK RV+ YF N+K HS KVK +V+NI +F+Y +TD Sbjct: 11 LPDKPGVYIMKNSLGEVIYVGKAKILKNRVRQYFRNSKNHSEKVKAMVKNISEFEYIVTD 70 Query: 70 TEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPAEYGDSLYFG 129 +E EA +LEC LIK+ KP YN +K+ Y +I + + + ++ VT + + G S YFG Sbjct: 71 SEIEALILECNLIKKYKPRYNILLKDDKHYPFIKVTMNEDFPRIIVTRNMVKDG-SKYFG 129 Query: 130 PYTSRSTVERAVQGIKESQRI-LCSTPHARNAL----CLNHSXXXXXXXXXXXEALERYE 184 PY S V V ++ I C N CLN+ + E Y Sbjct: 130 PYPDVSAVHETVDLMRRIFPIRTCKKYIKENGENIRPCLNYHIKRCNAPCAGLISKEEYG 189 Query: 185 GIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSLLQKEK-VIGF 243 II GL++G + I+ EL++ M+ A+ N +FE AA RD A + + +K+K +IG Sbjct: 190 EIIKKAVGLISGKNNDIIRELKEEMEKASMNLDFEKAADLRDKMLAAQKVTEKQKIIIGN 249 Query: 244 TEQNKNIVVLEPMQEQVLKLILIRGSEILDRARLDAGQMNAEQLCGIIQAAVQDSFSKPP 303 E I + ++ +++ +R +I+ R E II +++ +S Sbjct: 250 FENEDYISLYSDEKDSCVQVFFLREGKIVGREHFIVENTAGENEGDIIGEFIKEFYSGTA 309 Query: 304 HGEPGEISRHKLDEAQIIYSYLTGSSGSYA--VIPQE 338 + P I ++ ++ ++LT GS IPQ+ Sbjct: 310 YV-PKSIYASAGEDLNLLENWLTMKRGSKVEIKIPQK 345 >lin1197 [L] COG0322 Nuclease subunit of the excinuclease complex Length = 603 Score = 135 bits (340), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 88/247 (35%), Positives = 131/247 (53%), Gaps = 21/247 (8%) Query: 2 NLAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNIR 61 ++ K+A LP PG YLMKD G IIYVGKAK LK RV+SYF + H K ++LV+ I Sbjct: 5 HIQNKLALLPDQPGCYLMKDRQGTIIYVGKAKVLKNRVRSYF--SGTHDSKTQRLVQEIV 62 Query: 62 DFDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPAE 121 DF+Y +T + EA +LE LIK+ P +N ++K+ Y +I I T+ + +L +T + Sbjct: 63 DFEYIVTSSNVEALLLEINLIKKHDPRFNIRLKDDKTYPFIKI-TNERHPRLIITRQ-VK 120 Query: 122 YGDSLYFGPYTSRSTVERAVQGIKESQRIL--------CSTPHARNALCLNHSXXXXXXX 173 YFGPY + V E +RIL CST N +CL + Sbjct: 121 KDKGKYFGPYPN-------VYAANEVKRILDRLYPLRKCST--LPNKVCLYYHLGQCLAP 171 Query: 174 XXXXEALERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRS 233 +Y+ + D + LNG + +L ++M AAEN EFE A ++RD A+ + Sbjct: 172 CVFDVEASKYKEMQDEIVAFLNGGYKTVKNDLMKKMQEAAENMEFEKAGEFRDQINAIET 231 Query: 234 LLQKEKV 240 ++K+K+ Sbjct: 232 TMEKQKM 238 >BS_uvrC [L] COG0322 Nuclease subunit of the excinuclease complex Length = 588 Score = 128 bits (321), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 12/246 (4%), Positives = 34/246 (13%), Gaps = 21/246 (8%) Query: 3 LAEKVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNIRD 62 + + + K + L ++Q + + L+ Sbjct: 5 GGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVAQIQQIDVTV--THTETEALLLEHNY 62 Query: 63 FDYKLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPAEY 122 + + + ++ + Sbjct: 63 IKLYQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKG-EYFGPFPNGYAVR-ETL 120 Query: 123 GDSLYFGPYTSRSTVERAVQGIKESQRIL--------CSTPHARNALCLNHSXXXXXXXX 174 P + R L Sbjct: 121 ALLQKIFPIRQ-------CENSVYRNRSRPCLQYQIGRCLGPCV--EGLVSEEEYAQQVE 171 Query: 175 XXXEALERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVRSL 234 L + + + + LE + K T Sbjct: 172 YVRLFLSGKDDQVLTQLISRMETASQNLEFEEAARIRDQIQAVRRVTEKQFVSNTGDDLD 231 Query: 235 LQKEKV 240 + Sbjct: 232 VIGVAF 237 >ML0258 [FP] COG0248 Exopolyphosphatase Length = 346 Score = 125 bits (314), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 21/258 (8%), Positives = 44/258 (17%), Gaps = 31/258 (12%) Query: 6 KVAALPLSPGVYLMKDSLGHIIYVGKAKQLKKRVQSYFYNAKGHSPKVKQLVRNIRDFDY 65 + + G+ M + A+ Q + R Sbjct: 8 HSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLID--VAEMYPVPPRPETQGLT 65 Query: 66 KLTDTEFEAFMLECQLIKEIKPMYNKKMKNPLAYSYIVIRTDTAYRQLAVTYDPAEYGDS 125 + + A + + + N D + A+ + Sbjct: 66 ETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQA-LDRKNIREALHDSLKRLQ-T 123 Query: 126 LYFGPY---TSRSTVERAVQ--------GIKESQRILCSTPHARNALC--LNHSXXXXXX 172 Y Y + + S L + Sbjct: 124 DYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSL--LDTLDALAEYQRAGKIRYIG---- 177 Query: 173 XXXXXEALERYEGIIDSVAGLLNGNDPRILEELQQRMDLAAENFEFETAAKYRDYCTAVR 232 E + L + + + + + N FE V Sbjct: 178 --------VSNETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVE 229 Query: 233 SLLQKEKVIGFTEQNKNI 250 L G Sbjct: 230 LLAYSCLGFGTLTGKYLN 247 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 0.135 0.385 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: 24,485,926 Number of extensions: 919623 Number of successful extensions: 1553 Number of sequences better than 1.0e-05: 21 Number of HSP's gapped: 1533 Number of HSP's successfully gapped: 21 Length of query: 368 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 260 Effective length of database: 25,922,359 Effective search space: 6739813340 Effective search space used: 6739813340 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: 116 (49.3 bits)