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= 0386.0020.p (297 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_ripX [L] COG4974 Site-specific recombinase XerD 287 1e-77 BH1529 [L] COG4974 Site-specific recombinase XerD 278 6e-75 lin2069 [L] COG4974 Site-specific recombinase XerD 271 1e-72 SA1328 [L] COG4974 Site-specific recombinase XerD 246 3e-65 RSc2544 [L] COG4974 Site-specific recombinase XerD 216 2e-56 >BS_ripX [L] COG4974 Site-specific recombinase XerD Length = 296 Score = 287 bits (735), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 141/297 (47%), Positives = 202/297 (68%), Gaps = 2/297 (0%) Query: 1 MRSHLQPFMQYLSEDKGLSPSTLESYGRDISQFMDFADER-GLSSPEDIKRSHIMLYLXX 59 M+ ++ F+ Y+ ++GLS +T+ SY RD+ + + E ++ + R HI+ YL Sbjct: 1 MKDQIKDFIHYVMVERGLSQNTIVSYERDLKSYSLYLTETLHVTDWNHVTRIHIIQYLKH 60 Query: 60 XXXXXXXXXTVNRNTVSLRAFFHYLLRERLIGQDPTLDMDKIKPSSKPPMVLSVEEMDRL 119 T R+ S+R+F +LLRE++ +DP++ ++ K P VL++ E++RL Sbjct: 61 LKDSGKSGKTSARHLASIRSFHQFLLREKVTDKDPSVHIETQKTERALPKVLALNEVERL 120 Query: 120 LNAPGDDTPQGKRDKAMLELLYATGIRVSELISLNVEDVHTEMKYVRCTGASGKERIVPI 179 L+ P +P G RDKAMLELLYATGIRVSE+I L DVH M ++RC G KERIVPI Sbjct: 121 LDTPKLTSPFGYRDKAMLELLYATGIRVSEMIELKTADVHLSMGFIRCFGKGRKERIVPI 180 Query: 180 GAMAAESVAQYTTGMRDKLLRGNLNEPALFLNSLGGRLTRQGFWKIIKKYAREAQIEQDI 239 G AA ++ +Y T R KLL+ N+++ ALFLN G +++RQGFWK +KK A EA I++++ Sbjct: 181 GEAAASAIEEYMTKARGKLLKNNVSD-ALFLNHHGKQISRQGFWKNLKKIALEAGIKKEL 239 Query: 240 TPHTLRHSFAAHLLEGGADLRSVQQMLGHSDISTTQIYSGIARKNMKEVYESYHPRA 296 TPHTLRHSFA HLLE GADLR+VQ+MLGH+DISTTQIY+ + + +K+VY+ +HPRA Sbjct: 240 TPHTLRHSFATHLLEDGADLRAVQEMLGHADISTTQIYTHVTKTRLKDVYKQFHPRA 296 >BH1529 [L] COG4974 Site-specific recombinase XerD Length = 200 Score = 278 bits (712), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 0/297 (0%), Positives = 0/297 (0%), Gaps = 2/297 (0%) Query: 1 MRSHLQPFMQYLSEDKGLSPSTLESYGRDISQFMDFADE-RGLSSPEDIKRSHIMLYLXX 59 + Y D + + R + + R L Sbjct: 4 KFGEGRDPYLYPGLDIMRNRLNIRQQQRLEQAAYEMTALRAATIELGPLVRGLPHLRTIH 63 Query: 60 XXXXXXXXXTVNRNTVSLRAFFHYLLRERLIGQDPTLDMDKIKPSSKPPMVLSVEEMDRL 119 + + + + + L + Sbjct: 64 RQLYQDIFDWAGQLREVDIYQGDTPFCHFAYIEKEGNALMQDLEEEGYLVGLEKAKFVER 123 Query: 120 LNAPGDDTPQGKRDKAMLELLYATGIRVSELISLNVEDVHTEMKYVRCTGASGKERIVPI 179 L + + L + + K Sbjct: 124 LAHYYCEINVLHPFRVGSGLAQRIFFEQLAIHAGYQLSWQGIEKEAWNQANQSGAMGDLT 183 Query: 180 GAMAAESVAQYTTGMRDKLLRGNLNEPALFLNSLGGRLTRQGFWKIIKKYAREAQIEQDI 239 Sbjct: 184 - 242 Query: 240 TPHTLRHSFAAHLLEGGADLRSVQQMLGHSDISTTQIYSGIARKNMKEVYESYHPRA 296 Sbjct: 243 299 >lin2069 [L] COG4974 Site-specific recombinase XerD Length = 162 Score = 271 bits (693), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 0/297 (0%), Positives = 0/297 (0%), Gaps = 1/297 (0%) Query: 1 MRSHLQPFMQYLSEDKGLSPSTLESYGRDISQFMDFAD-ERGLSSPEDIKRSHIMLYLXX 59 M++ L + + I+ + + + L + Sbjct: 1 MKTILPAVLFAAFATTSAWAAESVQPLEKIAPYPQAEKGMKRQVIQLTPQEDESTLKVEL 60 Query: 60 XXXXXXXXXTVNRNTVSLRAFFHYLLRERLIGQDPTLDMDKIKPSSKPPMVLSVEEMDRL 119 + + P + + Sbjct: 61 LIGQTLEVDCNLHRLGGKLENKTLEGWGYDYYVFDKVSSPVSTMMACPDGKKEKKFVTAY 120 Query: 120 LNAPGDDTPQGKRDKAMLELLYATGIRVSELISLNVEDVHTEMKYVRCTGASGKERIVPI 179 Sbjct: 121 180 Query: 180 GAMAAESVAQYTTGMRDKLLRGNLNEPALFLNSLGGRLTRQGFWKIIKKYAREAQIEQDI 239 Sbjct: 181 240 Query: 240 TPHTLRHSFAAHLLEGGADLRSVQQMLGHSDISTTQIYSGIARKNMKEVYESYHPRA 296 Sbjct: 241 297 >SA1328 [L] COG4974 Site-specific recombinase XerD Length = 295 Score = 246 bits (628), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 125/296 (42%), Positives = 189/296 (63%), Gaps = 1/296 (0%) Query: 1 MRSHLQPFMQYLSEDKGLSPSTLESYGRDISQFMDFADERGLSSPEDIKRSHIMLYLXXX 60 M + ++ +++++ +KGLS +T+ +Y RD+ ++ D+ E +S + I R I L Sbjct: 1 METIIEEYLRFIQIEKGLSSNTIGAYRRDLKKYQDYMTEHHISHIDFIDRQLIQECLGHL 60 Query: 61 XXXXXXXXTVNRNTVSLRAFFHYLLRERLIGQDPTLDMDKIKPSSKPPMVLSVEEMDRLL 120 ++ R ++R+F + +RE+ +DPT+ +D K K P VL+V+E+ LL Sbjct: 61 IDQGQSAKSIARFISTIRSFHQFAIREKYAAKDPTVLLDSPKYDKKLPDVLNVDEVLALL 120 Query: 121 NAPGDDTPQGKRDKAMLELLYATGIRVSELISLNVEDVHTEMKYVRCTGASGKERIVPIG 180 P + G RD+ MLELLYATG+RVSELI L +E+V+ M +VR G KERIVP+G Sbjct: 121 ETPDLNKINGYRDRTMLELLYATGMRVSELIHLELENVNLIMGFVRVFGKGDKERIVPLG 180 Query: 181 AMAAESVAQYTTGMRDKLLRGNLNEPALFLNSLGGRLTRQGFWKIIKKYAREAQIEQDIT 240 E + Y +R +LL+ + E LFLN G L+RQ WK+IK+ +A I++ +T Sbjct: 181 DAVIEYLTTYIETIRPQLLKKTVTE-VLFLNMHGKPLSRQAIWKMIKQNGVKANIKKTLT 239 Query: 241 PHTLRHSFAAHLLEGGADLRSVQQMLGHSDISTTQIYSGIARKNMKEVYESYHPRA 296 PHTLRHSFA HLLE GADLR+VQ+MLGHSDISTTQ+Y+ +++ ++++Y +HPRA Sbjct: 240 PHTLRHSFATHLLENGADLRAVQEMLGHSDISTTQLYTHVSKSQIRKMYNQFHPRA 295 >RSc2544 [L] COG4974 Site-specific recombinase XerD Length = 308 Score = 216 bits (551), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 118/294 (40%), Positives = 171/294 (58%), Gaps = 8/294 (2%) Query: 5 LQPFMQYLSEDKGLSPSTLESYGRDISQFMDFADERG--LSSPEDIKRSHIMLYLXXXXX 62 +Q F L + GL+ +TL++Y RD++ + + RG L ED+ S Sbjct: 19 IQRFCDALWLEDGLARNTLDAYRRDLTLYAQWLAGRGKALDQTEDVDLSDYF----AARH 74 Query: 63 XXXXXXTVNRNTVSLRAFFHYLLRERLIGQDPTLDMDKIKPSSKPPMVLSVEEMDRLLNA 122 T NR + FF + LRE L+ DPT + K + P LS +++ L+ A Sbjct: 75 EDSLASTANRRRTVFKRFFQWALREHLVSADPTRLLSTAKQPPRVPKTLSEAQVEALIAA 134 Query: 123 PGDDTPQGKRDKAMLELLYATGIRVSELISLNVEDVHTEMKYVRCTGA-SGKERIVPIGA 181 P D P G RD+AM+EL+YA+G+RVSE+++L +V VR G GK+R+VP GA Sbjct: 135 PDVDAPLGLRDRAMIELMYASGLRVSEIVALKTVEVGLNEGVVRVIGGKGGKDRLVPFGA 194 Query: 182 MAAESVAQYTTGMRDKLLRGNLNEPALFLNSLGGRLTRQGFWKIIKKYAREAQIEQDITP 241 A + + +Y R LL G ALF+ + G +TRQ FW +IK+YA+ A I ++P Sbjct: 195 EAGDWLRRYLRDGRTALL-GERTADALFVTARGDGMTRQAFWYLIKRYAQRADIHAPLSP 253 Query: 242 HTLRHSFAAHLLEGGADLRSVQQMLGHSDISTTQIYSGIARKNMKEVYESYHPR 295 HTLRH+FA HLL GADLR VQ +LGH+DISTTQIY+ +AR+ ++ ++ +HPR Sbjct: 254 HTLRHAFATHLLNHGADLRVVQMLLGHADISTTQIYTHVARERLRTLHAQHHPR 307 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 0.134 0.382 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: 20,705,035 Number of extensions: 842188 Number of successful extensions: 1621 Number of sequences better than 1.0e-05: 67 Number of HSP's gapped: 1540 Number of HSP's successfully gapped: 67 Length of query: 297 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 191 Effective length of database: 26,153,027 Effective search space: 4995228157 Effective search space used: 4995228157 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)