RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254781037|ref|YP_003065450.1| porphobilinogen deaminase [Candidatus Liberibacter asiaticus str. psy62] (307 letters) >d1pdaa1 c.94.1.1 (A:3-219) Porphobilinogen deaminase (hydroxymethylbilane synthase), N-terminal domain {Escherichia coli [TaxId: 562]} Length = 217 Score = 167 bits (425), Expect = 8e-43 Identities = 90/218 (41%), Positives = 129/218 (59%), Gaps = 2/218 (0%) Query: 4 KPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGGKGL 63 RI TR SPLAL A + LM H P + ++P+ T+GD I + L ++GGKGL Sbjct: 2 NVLRIATRQSPLALWQAHYVKDKLMASH--PGLVVELVPMVTRGDVILDTPLAKVGGKGL 59 Query: 64 FTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISHTAQSLKDLAL 123 F +E+E L+ D AVHS KD+P + +GL + RED RD F+S+ SL L Sbjct: 60 FVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPA 119 Query: 124 HSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLKKEK 183 S++GTSSLRR+ L R D+ + RG + TRL+KL+N + AI+LA AG+KRL E Sbjct: 120 GSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLES 179 Query: 184 VIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVI 221 I+ L E P+ GQGA+ IE +++ + +EL+ + Sbjct: 180 RIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAAL 217 >d1pdaa2 d.50.2.1 (A:220-307) Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain {Escherichia coli [TaxId: 562]} Length = 88 Score = 76.0 bits (187), Expect = 4e-15 Identities = 23/76 (30%), Positives = 34/76 (44%) Query: 222 NHEDTWDSVNCERAFLAELDGSCKSAIAGFAYCKGSTLYFYGIVLASDGKIFHEVSRNGN 281 NH +T V ERA L+G+C+ I +A ++ G+V A DG R G Sbjct: 1 NHHETALRVTAERAMNTRLEGACQVPIGSYAELIDGEIWLRGLVGAPDGSQIIRGERRGA 60 Query: 282 RCDAINIGRDAAQYIR 297 DA +G A+ + Sbjct: 61 PQDAEQMGISLAEELL 76 >d1qwja_ c.68.1.13 (A:) CMP acylneuraminate synthetase {Mouse (Mus musculus) [TaxId: 10090]} Length = 228 Score = 28.5 bits (62), Expect = 0.82 Identities = 8/48 (16%), Positives = 15/48 (31%) Query: 34 PPHNIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAV 81 PPH ++ I + + + G L + L +G Sbjct: 1 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVW 48 >d1wpxb1 b.17.1.1 (B:501-719) Carboxypeptidase Y inhibitor {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 219 Score = 27.8 bits (61), Expect = 1.3 Identities = 10/31 (32%), Positives = 17/31 (54%) Query: 167 HAILLAYAGIKRLKKEKVIKEILNIEDFPPS 197 AI A A I KK +++++++ F PS Sbjct: 3 QAIDFAQASIDSYKKHGILEDVIHDTSFQPS 33 >d1zcha1 d.90.1.1 (A:1-249) Hypothetical oxidoreductase YcnD {Bacillus subtilis [TaxId: 1423]} Length = 249 Score = 27.1 bits (59), Expect = 2.1 Identities = 8/60 (13%), Positives = 24/60 (40%) Query: 182 EKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHEDTWDSVNCERAFLAELD 241 + + E+L + + I + K + + +NH++T+ + + + + D Sbjct: 142 PQELIELLELPKYVFPLSGLVIGHPADRSAKKPRLPQEAVNHQETYLNQDELTSHIQAYD 201 >d2gnoa1 a.80.1.1 (A:209-306) gamma subunit {Thermotoga maritima [TaxId: 2336]} Length = 98 Score = 26.5 bits (58), Expect = 2.6 Identities = 9/20 (45%), Positives = 15/20 (75%) Query: 215 QELVKVINHEDTWDSVNCER 234 Q L ++I HE+TW+SV ++ Sbjct: 45 QRLTRIILHENTWESVEDQK 64 >d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation specificity factor subunit 3 {Human (Homo sapiens) [TaxId: 9606]} Length = 451 Score = 26.7 bits (57), Expect = 2.8 Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 16/76 (21%) Query: 38 IVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQI 97 ++I PL E+G + E +K++ +DC +H + + L Sbjct: 4 LLIRPLGAGQ---------EVGRSCIILEFKGRKIM---LDCGIHPGLEG----MDALPY 47 Query: 98 SAYLPREDIRDVFISH 113 + +I + ISH Sbjct: 48 IDLIDPAEIDLLLISH 63 >d1eyra_ c.68.1.13 (A:) CMP acylneuraminate synthetase {Neisseria meningitidis [TaxId: 487]} Length = 225 Score = 26.3 bits (56), Expect = 3.5 Identities = 9/42 (21%), Positives = 15/42 (35%) Query: 37 NIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEID 78 NI +I + + L ++ G L I + S D Sbjct: 5 NIAVILARQNSKGLPLKNLRKMNGISLLGHTINAAISSKCFD 46 >d1wtea_ c.52.1.29 (A:) Restriction endonuclease EcoO109IR {Escherichia coli [TaxId: 562]} Length = 272 Score = 25.8 bits (56), Expect = 4.5 Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 5/47 (10%) Query: 146 SVIDFRGKIETRLNK-----LNNNKAHAILLAYAGIKRLKKEKVIKE 187 +VID R K+ K LNN +A GI+R KE IKE Sbjct: 187 NVIDIRDKVHVYAGKEFWSWLNNGEAETQHWVLEGIERAVKEADIKE 233 >d1re5a_ a.127.1.1 (A:) 3-carboxy-cis,cis-muconate cycloisomerase (CMLE) {Pseudomonas putida, strain KT2440 [TaxId: 303]} Length = 448 Score = 25.8 bits (55), Expect = 4.9 Identities = 12/68 (17%), Positives = 17/68 (25%), Gaps = 9/68 (13%) Query: 143 SDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLKKEKVIKEILNIEDFPPSPGQGA 202 SD + E A A A AG+ I+ E + A Sbjct: 18 SDRGRLQGMLDFE---------AALARAEASAGLVPHSAVAAIEAACQAERYDTGALANA 68 Query: 203 ICIETHVN 210 I + Sbjct: 69 IATAGNSA 76 >d2dkfa1 d.157.1.10 (A:1-431) Putative RNA-degradation protein TTHA0252 {Thermus thermophilus [TaxId: 274]} Length = 431 Score = 25.3 bits (54), Expect = 6.4 Identities = 7/57 (12%), Positives = 20/57 (35%), Gaps = 8/57 (14%) Query: 57 EIGGKGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISH 113 E+ G ++++ +DC + K+ +++ V ++H Sbjct: 11 EVTGSAHLLLAGGRRVL---LDCGMFQGKEEARNHAP-----FGFDPKEVDAVLLTH 59 >d1xs5a_ c.94.1.1 (A:) Putative lipoprotein (NlpA family) {Treponema pallidum [TaxId: 160]} Length = 240 Score = 24.7 bits (53), Expect = 9.4 Identities = 17/183 (9%), Positives = 45/183 (24%), Gaps = 29/183 (15%) Query: 72 LISGEIDCAVHSAKDMPTKLLK--GLQISAYLPREDIRDVFISHTAQSLKDLALHSVIGT 129 ++ G+I + + + + S T + + D +VI Sbjct: 47 VMRGDILMNFFQHVPHMQQFNQEHNGDLVSVGNVHVEPLALYSRTYRHVSDFPAGAVIAI 106 Query: 130 S-------------------SLRRKALLLRWRSDISVIDFRGKI-----ETRLNKLNNNK 165 +R + L D+ + + Sbjct: 107 PNDSSNEARALRLLEAAGFIRMRAGSGLFATVEDVQQNVRNVVLQEVESALLPRVFDQVD 166 Query: 166 AHAILLAYAGIKRLKKEKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHED 225 I YA + L + + L +E + + + + + Q +++ + Sbjct: 167 GAVINGNYAIMAGLSARR---DGLAVEPDASAYANVLVVKRGNEADARVQAVLRALCGGR 223 Query: 226 TWD 228 Sbjct: 224 VRT 226 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 0.321 0.137 0.401 Gapped Lambda K H 0.267 0.0628 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 1,162,788 Number of extensions: 55112 Number of successful extensions: 164 Number of sequences better than 10.0: 1 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 19 Length of query: 307 Length of database: 2,407,596 Length adjustment: 85 Effective length of query: 222 Effective length of database: 1,240,546 Effective search space: 275401212 Effective search space used: 275401212 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 (21.8 bits) S2: 53 (24.4 bits)