RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|255764498|ref|YP_003065000.2| site-specific tyrosine recombinase XerD [Candidatus Liberibacter asiaticus str. psy62] (300 letters) >d1a0pa2 d.163.1.1 (A:111-292) Recombinase XerD {Escherichia coli [TaxId: 562]} Length = 182 Score = 120 bits (302), Expect = 9e-29 Identities = 77/189 (40%), Positives = 117/189 (61%), Gaps = 7/189 (3%) Query: 98 KTLHKDTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLT 157 K L + + LL+ I+ Q +R ++E+LYATG+RVSELV L+ ++L Sbjct: 1 KDLSEAQVERLLQAPLID-------QPLELRDKAMLEVLYATGLRVSELVGLTMSDISLR 53 Query: 158 ERTMIIQGKGNKERLVILSPSALHALQMYKKTCSSMKMTGNDLWLFPSSTKTGHLSRQVF 217 + + + GKGNKERLV L A++ L+ Y + + G + + S + ++RQ F Sbjct: 54 QGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTF 113 Query: 218 ARDLKALAARAGIQKKNISPHIIRHAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLL 277 +K A AGI + +SPH++RHAFA+HLL GADLR +Q+LLGH+D+STTQIYTH+ Sbjct: 114 WHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 173 Query: 278 PDKLQKLVQ 286 ++L++L Q Sbjct: 174 TERLRQLHQ 182 >d1aiha_ d.163.1.1 (A:) Integrase {Bacteriophage HP1 [TaxId: 10690]} Length = 170 Score = 69.4 bits (168), Expect = 3e-13 Identities = 35/177 (19%), Positives = 63/177 (35%), Gaps = 24/177 (13%) Query: 120 APGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMIIQGKGNKERLVILSPSA 179 + + L++ + ATG R SE T + + + K K R V +S Sbjct: 18 ECDNSRNPDLGLIVRICLATGARWSEAET-LTQSQVMPYKITFTNTKSKKNRTVPISDEL 76 Query: 180 LHALQMYKKTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHI 239 L + + + + K H+ Sbjct: 77 FDMLPKKRGRLFNDAYESFENAVLR----------------------AEIELPKGQLTHV 114 Query: 240 IRHAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKLVQDYHPLAKKEK 296 +RH FASH + G ++ ++ +LGH+ I T Y H P L+ V+ ++PL+ + Sbjct: 115 LRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAPSHLESAVK-FNPLSNPAQ 170 >d1f44a2 d.163.1.1 (A:130-343) Cre recombinase {Bacteriophage P1 [TaxId: 10678]} Length = 214 Score = 69.2 bits (167), Expect = 4e-13 Identities = 25/204 (12%), Positives = 61/204 (29%), Gaps = 29/204 (14%) Query: 103 DTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMI 162 D + +L+E + + + +R + + Y T +R++E+ + ++ T+ + Sbjct: 14 DQVRSLMENSD---------RCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRM 64 Query: 163 IQ-------GKGNKERLVILSPSALHALQMYKK-------------TCSSMKMTGNDLWL 202 + LS ++ + Sbjct: 65 LIHIGRTKTLVSTAGVEKALSLGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAPSAT 124 Query: 203 FPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHIIRHAFASHLLEGGADLRTIQILL 262 ST+ + R + +G + S H R A + G + I Sbjct: 125 SQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVGAARDMARAGVSIPEIMQAG 184 Query: 263 GHTDISTTQIYTHLLPDKLQKLVQ 286 G T+++ + L + +V+ Sbjct: 185 GWTNVNIVMNFIRNLDSETGAMVR 208 >d1a0pa1 a.60.9.1 (A:3-100) Recombinase XerD {Escherichia coli [TaxId: 562]} Length = 98 Score = 65.5 bits (159), Expect = 4e-12 Identities = 26/87 (29%), Positives = 50/87 (57%) Query: 1 MMSSERASSINTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKLVTSSQR 60 + E+ + NTL+AY+RDL M +L+++ ++L+ A ++ L + L + +S Sbjct: 12 ALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSA 71 Query: 61 RKISVIRQFYNFLCYEGLRKDNPSDTL 87 R +S +R+ + +L E R+D+PS L Sbjct: 72 RLLSAVRRLFQYLYREKFREDDPSAHL 98 >d1ae9a_ d.163.1.1 (A:) Integrase (Int) {Bacteriophage lambda [TaxId: 10710]} Length = 179 Score = 64.2 bits (154), Expect = 1e-11 Identities = 26/158 (16%), Positives = 51/158 (32%), Gaps = 1/158 (0%) Query: 128 RIFLLIELLYATGMRVSELVTLSAHTLNLTERTMIIQGKGNKERLVILSPSALHALQMYK 187 + L +EL TG RV +L + + + Q K + + + K Sbjct: 22 WLRLAMELAVVTGQRVGDLCEMKWSDIV-DGYLYVEQSKTGVKIAIPTALHIDALGISMK 80 Query: 188 KTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHIIRHAFASH 247 +T K + S+ + S V ++A A + + + ++ Sbjct: 81 ETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSLSAR 140 Query: 248 LLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKLV 285 L E + Q LLGH + + + K+ Sbjct: 141 LYEKQISDKFAQHLLGHKSDTMASQFRDDRGREWDKIE 178 >d1f44a1 a.60.9.1 (A:20-129) Cre recombinase {Bacteriophage P1 [TaxId: 10678]} Length = 110 Score = 48.3 bits (114), Expect = 7e-07 Identities = 11/83 (13%), Positives = 23/83 (27%) Query: 1 MMSSERASSINTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKLVTSSQR 60 M +A S +T + + A + YL +L R L + + Sbjct: 11 MFRDRQAFSEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQ 70 Query: 61 RKISVIRQFYNFLCYEGLRKDNP 83 + + + + N Sbjct: 71 QHLGQLNMLHRRSGLPRPSDSNA 93 >d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Human (Homo sapiens) [TaxId: 9606]} Length = 230 Score = 29.7 bits (67), Expect = 0.30 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%) Query: 88 ELPKKNHILPKTLHKDTIANLLEQAKIEAENPAPGQWKRVR 128 PK + + + +D I N + AK+ P +WK VR Sbjct: 166 NHPKMGMLKRRIMPEDIIINCSKDAKVP-SPPPGHKWKEVR 205 >d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 223 Score = 28.5 bits (64), Expect = 0.78 Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 1/41 (2%) Query: 88 ELPKKNHILPKTLHKDTIANLLEQAKIEAENPAPGQWKRVR 128 PK + + +D + NL + A + P +W +R Sbjct: 158 AHPKTGKLKRRVNPEDIVLNLSKDAPVP-PAPEGHKWGEIR 197 >d1edya_ b.2.4.1 (A:) alpha-1-macroglobulin {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 134 Score = 27.2 bits (60), Expect = 1.7 Identities = 9/57 (15%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 10 INTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKL-VTSSQRRKISV 65 + +S + ++ + I + +TNH++ Y+ L+ + + + + + I V Sbjct: 46 VKMVSGFIPVKPSVKKLQDQSNIQRTEVNTNHVLIYIEKLTNQTMGFSFAVEQDIPV 102 >d2g39a2 c.124.1.2 (A:224-497) Acetyl-CoA hydrolase (PA5445) {Pseudomonas aeruginosa [TaxId: 287]} Length = 274 Score = 24.8 bits (54), Expect = 9.2 Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 1/32 (3%) Query: 217 FARDLKALAARAGIQKKNISPHIIRHAFASHL 248 + L A + + PH++R A A HL Sbjct: 233 YQAPLLDYFEAACAKGGHT-PHLLREALAWHL 263 Database: scop70_1_75 Posted date: Mar 27, 2010 6:21 PM Number of letters in database: 2,407,596 Number of sequences in database: 13,730 Lambda K H 0.318 0.131 0.369 Gapped Lambda K H 0.267 0.0606 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 1,018,475 Number of extensions: 44594 Number of successful extensions: 129 Number of sequences better than 10.0: 1 Number of HSP's gapped: 126 Number of HSP's successfully gapped: 15 Length of query: 300 Length of database: 2,407,596 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,240,546 Effective search space: 266717390 Effective search space used: 266717390 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 (21.8 bits) S2: 53 (24.5 bits)