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= 0402.0030.p (367 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SPy1196 [L] COG0582 Integrase 137 3e-32 SP1159 [L] COG0582 Integrase 134 2e-31 CAP0080 [L] COG0582 Integrase 79 2e-14 Cgl1981 [L] COG0582 Integrase 65 2e-10 BH1529 [L] COG4974 Site-specific recombinase XerD 61 2e-09 >SPy1196 [L] COG0582 Integrase Length = 356 Score = 137 bits (345), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 118/374 (31%), Positives = 187/374 (50%), Gaps = 46/374 (12%) Query: 13 RKLLDEKV----LLMPWFVQQFIDFKRPDL----SPSTLLEYIRDYESFFGWLRAEGLTQ 64 R+LL EK+ +MPW+V +D+ + L S +TL EY+++Y+ FF WL LTQ Sbjct: 3 RELLLEKIETYKAIMPWYV---LDYYQSKLAVPYSFTTLYEYLKEYKRFFDWLMDADLTQ 59 Query: 65 AASLAEITLLDLETLHMDSIVGYRLHLTTRA--------EGTNTRVTVSRKLSALRSLFH 116 A +A+I L LE L + + L+L R EG ++ T++R LSAL SL+ Sbjct: 60 APKIADIDLSTLEHLTKKDLEAFVLYLRERPSLNTYSTKEGL-SQTTINRTLSALSSLYK 118 Query: 117 YLSQIAEDENFYPLLKRNIMAKVEIKRIXXXXKPKDTAAKLKGKILEDEELLEFVGYIYD 176 YL++ E++ P RN+M KV K+ + A +K K+ +E L F+ Y+ Sbjct: 119 YLTEEVENDQGEPYFYRNVMKKVSTKKKKETLASR--AENIKQKLFLGDETLAFLDYVDK 176 Query: 177 GYGRDVEANKQAYYSFQLNRERDACIASLILNSGLRVSEXXXXXXXXXXXXXXXXYVYRK 236 Y + + + +A SF+ N+ERD I +L+L SG+R+SE V RK Sbjct: 177 EYEQKL--SNRAKSSFRKNKERDLAIIALLLASGVRLSEAVNLDLKDVNLNMMIIEVIRK 234 Query: 237 GNNDETFKTPVYFREQAKDDXXXXXXXXXXXXKTPKKEKALFI----ALPNGSHEGKRMT 292 G ++ + AK K K++ A F+ +PN RM Sbjct: 235 GGKRDSVNVAGF----AKGYLESYLAVRQRRYKAEKQDLAFFLTEYRGVPN------RMD 284 Query: 293 KRAIQEMIIKYAKRFGKPYLTVHKLRHSFATDYYLQNDIYKTK----EQLGHASTETTEV 348 +I++M+ KY++ F K +T HKLRH+ AT Y D K++ QLGH+ST+ T++ Sbjct: 285 ASSIEKMVGKYSEDF-KIRVTPHKLRHTLATRLY---DATKSQVLVSHQLGHSSTQVTDL 340 Query: 349 YAHLTDKTMSEAIE 362 Y H+ + A++ Sbjct: 341 YTHIVNDEQKNALD 354 >SP1159 [L] COG0582 Integrase Length = 356 Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 109/354 (30%), Positives = 177/354 (50%), Gaps = 28/354 (7%) Query: 22 LMPWFVQQFIDFKRP-DLSPSTLLEYIRDYESFFGWLRAEGLTQAASLAEITLLDLETLH 80 LMPW+V ++ K S +TL EY+++Y+ FF W+ G++ A +++I L LE + Sbjct: 16 LMPWYVLEYYQSKLAVPYSFTTLYEYLKEYDRFFSWVLESGISNADKISDIPLSVLENMS 75 Query: 81 ---MDSIVGY-----RLHLTTRAEGTNTRVTVSRKLSALRSLFHYLSQIAEDENFYPLLK 132 M+S + Y L+ T +G ++ T++R LSAL SL+ YL++ E++ P Sbjct: 76 KKDMESFILYLRERPLLNANTTKQGV-SQTTINRTLSALSSLYKYLTEEVENDQGEPYFY 134 Query: 133 RNIMAKVEIKRIXXXXKPKDTAAKLKGKILEDEELLEFVGYIYDGYGRDVEANKQAYYSF 192 RN+M KV K+ + A +K K+ +E F+ YI + + + + +A SF Sbjct: 135 RNVMKKVSTKKKKETLAAR--AENIKQKLFLGDETEGFLTYIDQEHPQQL--SNRALSSF 190 Query: 193 QLNRERDACIASLILNSGLRVSEXXXXXXXXXXXXXXXXYVYRKGNNDETFKTPVYFREQ 252 N+ERD I +L+L SG+R+SE V RKG ++ + Sbjct: 191 NKNKERDLAIIALLLASGVRLSEAVNLDLRDLNLKMMVIDVTRKGCKRDSVNVAAF---- 246 Query: 253 AKDDXXXXXXXXXXXXKTPKKEKALFIALPNGSHEGKRMTKRAIQEMIIKYAKRFGKPYL 312 AK KT K + ALF+ L G R+ ++++M+ KY++ F K + Sbjct: 247 AKPYLENYLAIRNQRYKTEKTDTALFLTLYRGV--PNRIDASSVEKMVAKYSEDF-KVRV 303 Query: 313 TVHKLRHSFATDYYLQNDIYKTK----EQLGHASTETTEVYAHLTDKTMSEAIE 362 T HKLRH+ AT Y D K++ QLGHAST+ T++Y H+ A++ Sbjct: 304 TPHKLRHTLATRLY---DATKSQVLVSHQLGHASTQVTDLYTHIVSDEQKNALD 354 >CAP0080 [L] COG0582 Integrase Length = 323 Score = 78.6 bits (192), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 53/169 (31%), Positives = 79/169 (46%), Gaps = 14/169 (8%) Query: 198 RDACIASLILNSGLRVSEXXXXXXXXXXXXXXXXYVYRKGNNDETFKTPVYFREQAKDDX 257 R+ CI +L LN G+RVSE + KG+ + T VY + D Sbjct: 150 RNTCIVTLFLNCGMRVSELCNININSIKNDMIS--IIGKGDKERT----VYLNDMCIDAI 203 Query: 258 XXXXXXXXXXXKTPKKEKALFIALPNGSHEGKRMTKRAIQEMI--IKYAKRFGKPYLTVH 315 K K ++ALFI S +G R++ R I+ ++ I + LT H Sbjct: 204 NKYIEKERSLQKNIKCQQALFI-----SQKGTRISVRTIENLVKKINEDSKLNINKLTPH 258 Query: 316 KLRHSFATDYY-LQNDIYKTKEQLGHASTETTEVYAHLTDKTMSEAIER 363 KLRH+FAT Y DI ++ LGH++ TT++Y H+TD + EA + Sbjct: 259 KLRHTFATTMYQAGTDIISLQQLLGHSNVSTTQIYTHVTDDRLREATNK 307 >Cgl1981 [L] COG0582 Integrase Length = 315 Score = 65.1 bits (157), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 48/168 (28%), Positives = 80/168 (47%), Gaps = 15/168 (8%) Query: 198 RDACIASLILNSGLRVSEXXXXXXXXXXXXXXXXYVYRKGNNDETFKTPVYFREQAKDDX 257 RD+ I L+ +G+RV+E V KGN + V F E A Sbjct: 156 RDSAILELLYATGMRVAELCGIDLSDIDYDRKMVRVLGKGNKERV----VPFGESAHKAL 211 Query: 258 XXXXXXXXXXXKTPKKEKALFIALPNGSHEGKRMTKRAIQEMIIKYAKRFGKPYLTVHKL 317 + PK ALF+ + G+R+ R ++ ++ + AK G +L+ H L Sbjct: 212 RNWLDVRDEMTEDPK---ALFVGV-----RGQRINARQVRRIVDRAAKVTGVDHLSPHSL 263 Query: 318 RHSFATDYYLQN--DIYKTKEQLGHASTETTEVYAHLTDKTMSEAIER 363 RH+ AT + L D+ + +E LGH+S +TT++Y H+++K + EA + Sbjct: 264 RHTAAT-HLLDGGADLRQVQELLGHSSMQTTQIYTHVSNKRLLEAFNK 310 >BH1529 [L] COG4974 Site-specific recombinase XerD Length = 200 Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 0/341 (0%), Positives = 0/341 (0%), Gaps = 64/341 (18%) Query: 27 VQQFIDFKRPD--LSPSTLLEYIRDYESFFGWL-RAEGLTQAASLAEITLLDLETLHMDS 83 + + D + + + R ++ + + L Sbjct: 8 GRDPYLYPGLDIMRNRLNIRQQQRLEQAAYEMTALRAATIELGPLVR-----------GL 56 Query: 84 IVGYRLHLTTRAEGTNTRVTVSRKLSALRSLFHYLSQIAEDENFYPLLKRNIMAKVEIKR 143 +H + + + + + Sbjct: 57 PHLRTIHR--QLYQ-DIFDWAGQLREVDIYQGDTPFC-------HFAYIEKEGNALMQ-- 104 Query: 144 IXXXXKPKDTAAKLKGKILEDEELLEFVGYIYDGYGRDVEANKQAYYSFQLNRERDACIA 203 + L G + Y + + Sbjct: 105 ------DLEEEGYLVGLEKAKFVER-----LAHYYCEI---------NVLH---PFRVGS 141 Query: 204 SLILNSGLRVSEXXXXXXXXXXXXXXXXYVYRKGNNDETFKTPVYFREQAKDDXXXXXXX 263 L + + Q Sbjct: 142 GLAQRIFFEQLAIHAGYQLSWQGIEKEAWNQANQSGAMGD--LT--ALQMIFSKVVSEAG 197 Query: 264 XXXXXKTPKKEKALFIALPNGSHEGKRMTKRAIQEMIIKYAKRFG--KPYLTVHKLRHSF 321 Sbjct: 198 ------ 251 Query: 322 ATDYYLQN--DIYKTKEQLGHASTETTEVYAHLTDKTMSEA 360 Sbjct: 252 - 291 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 0.379 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: 22,966,522 Number of extensions: 852187 Number of successful extensions: 1480 Number of sequences better than 1.0e-05: 13 Number of HSP's gapped: 1494 Number of HSP's successfully gapped: 13 Length of query: 367 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 259 Effective length of database: 25,922,359 Effective search space: 6713890981 Effective search space used: 6713890981 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 (21.7 bits) S2: 116 (49.3 bits)