RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780834|ref|YP_003065247.1| DNA primase [Candidatus Liberibacter asiaticus str. psy62] (648 letters) >d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]} Length = 314 Score = 194 bits (494), Expect = 1e-50 Identities = 110/316 (34%), Positives = 175/316 (55%), Gaps = 12/316 (3%) Query: 117 LIRLIEVATDFFHHSLKNARDKRLHYYLDERGIDSHAIEMFKLGYAPDSRYSLREHLRQK 176 L +L++ F+ SL+ YL++RG+ I F +G+AP ++ + Sbjct: 2 LYQLMDGLNTFYQQSLQQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGN 61 Query: 177 GFSEEKIIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGESVKYLNS 236 + + +I+AG+L+ D SYDRFR R++FPIR RG+VI FGGR L KYLNS Sbjct: 62 PENRQSLIDAGMLVTNDQG-RSYDRFRERVMFPIRDKRGRVIGFGGRVLGNDT-PKYLNS 119 Query: 237 PETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAGVQNVVS 296 PET +FHKG+ LY + A + +++VEGYMDV++L Q G+ V+ Sbjct: 120 PETDIFHKGRQLYGLYEAQQD----------NAEPNRLLVVEGYMDVVALAQYGINYAVA 169 Query: 297 SLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSRG 356 SLGT+ T ++LL++ + ++ C+DGD G AA++A++ L ++ G ++ F+ L G Sbjct: 170 SLGTSTTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDG 229 Query: 357 EDPDSFIRCYGKTAFEKLIVESLPLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIK 416 EDPD+ +R GK AFE + +++PL L+ +TPD RA L I+ + Sbjct: 230 EDPDTLVRKEGKEAFEARMEQAMPLSAFLFNSLMPQVDLSTPDGRARLSTLALPLISQVP 289 Query: 417 DQKLRYYYSQAIRDRL 432 + LR Y Q + ++L Sbjct: 290 GETLRIYLRQELGNKL 305 >d1t6t1_ c.136.1.1 (1:) Hypothetical protein aq_2086 {Aquifex aeolicus [TaxId: 63363]} Length = 108 Score = 95.8 bits (238), Expect = 1e-20 Identities = 28/129 (21%), Positives = 55/129 (42%), Gaps = 22/129 (17%) Query: 246 KNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAGVQNVVSSLGTALTEY 305 +NL + K++++ S +ILVEG D +L + ++NV+ G Sbjct: 2 RNLSEW-----------IKELKKASREAVILVEGKNDKKALSKFSIKNVIDLSGKRYA-D 49 Query: 306 QLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVLLSRGEDPDSFIRC 365 + +L +++L FD D G R K +L+ G V+ E+ +F++ Sbjct: 50 VVDMLEGKWEKVILLFDLDTHGERINQKMKELLSSQ---GFLVD-------ENFRNFLKK 99 Query: 366 YGKTAFEKL 374 + E++ Sbjct: 100 WNIIHIEEI 108 >d1d0qa_ g.41.3.2 (A:) Zinc-binding domain of DNA primase {Bacillus stearothermophilus [TaxId: 1422]} Length = 102 Score = 94.6 bits (235), Expect = 2e-20 Identities = 39/102 (38%), Positives = 58/102 (56%), Gaps = 5/102 (4%) Query: 3 YPRDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKGFY 62 P + I+ + + I ++IG+YV R+ N Y+ CPFH EKTPSF + K + Sbjct: 4 IPEETIEAIRRGVDIVDVIGEYVQLKRQGRN-----YFGLCPFHGEKTPSFSVSPEKQIF 58 Query: 63 YCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLPVVD 104 +CF C G+ +FL + G F+E+ +RLAA AGV L V + Sbjct: 59 HCFGCGAGGNAFTFLMDIEGIPFVEAAKRLAAKAGVDLSVYE 100 >d1nuia1 e.13.1.2 (A:64-255) Primase fragment of primase-helicase protein {Bacteriophage T7 [TaxId: 10760]} Length = 192 Score = 80.7 bits (198), Expect = 3e-16 Identities = 29/211 (13%), Positives = 61/211 (28%), Gaps = 41/211 (19%) Query: 171 EHLRQKGFSEEKIIEAGLLIDGDNSATSYDRFRNRLIFPIRSSRGQVIAFGGRTLSKGES 230 L +G S+E +AG I + + R G +++ R K Sbjct: 16 SALTARGISKETCQKAGYWI-------AKVDGVMYQVADYRDQNGNIVSQKVRDKDKNFK 68 Query: 231 VKYLNSPETILFHKGKNLYNFFGALNYLQKSIRKDVRRNSSSFIILVEGYMDVLSLCQAG 290 + + + N I++ EG +D+L++ + Sbjct: 69 TTGSHKSDALFGKHLWNGGKK----------------------IVVTEGEIDMLTVMELQ 106 Query: 291 VQNVVSSLGTALTEYQLRLLW------KLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIP 344 + +I+L FD D+ G +A +A ++P Sbjct: 107 DCKYPVVSLGHGASAAKKTCAANYEYFDQFEQIILMFDMDEAGRKAVEEAAQ-----VLP 161 Query: 345 GNRVNFVLLSRGEDPDSFIRCYGKTAFEKLI 375 +V +L +D + + + Sbjct: 162 AGKVRVAVLP-CKDANECHLNGHDREIMEQV 191 >d2fcja1 c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 {Bacillus stearothermophilus [TaxId: 1422]} Length = 114 Score = 67.2 bits (164), Expect = 4e-12 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 3/68 (4%) Query: 274 IILVEGYMDVLSLCQAGVQNVVS-SLGTALTEYQLRLLWKLS--PRIVLCFDGDDPGLRA 330 +I+VEG D + + VV +++ +L L + L D D+ G + Sbjct: 7 VIIVEGRSDKQKVAAVLNEPVVIVCTNGTISDARLEELADELEGYDVYLLADADEAGEKL 66 Query: 331 AYKAIDLV 338 + + Sbjct: 67 RRQFRRMF 74 >d1k9xa_ d.92.1.5 (A:) Thermostable carboxypeptidase 1 {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 497 Score = 29.6 bits (66), Expect = 0.78 Identities = 8/61 (13%), Positives = 19/61 (31%), Gaps = 4/61 (6%) Query: 528 EQKYFLPEEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKR 587 + L H+ L F L+++ + + + + + + A A Sbjct: 46 VAQGELSVLSHELLLHPEFVNLVEKA----KGLENLNEYERGIVRVLDRSIRIARAFPPE 101 Query: 588 F 588 F Sbjct: 102 F 102 >d2enga_ b.52.1.1 (A:) Endoglucanase V (Eng V) {Humicola insolens [TaxId: 34413]} Length = 210 Score = 29.4 bits (66), Expect = 0.89 Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 11/48 (22%) Query: 39 YWACCPFH---DEKTPSFHCNDSKGFYYCFSCHVKGDHLSFLSALLGC 83 YW CC +K P FSC+ ++ A GC Sbjct: 8 YWDCCKPSCGWAKKAPVNQP--------VFSCNANFQRITDFDAKSGC 47 >d2gz4a1 a.211.1.1 (A:6-205) Hypothetical protein Atu1052 {Agrobacterium tumefaciens [TaxId: 358]} Length = 200 Score = 28.7 bits (64), Expect = 1.6 Identities = 15/89 (16%), Positives = 26/89 (29%), Gaps = 13/89 (14%) Query: 530 KYFLPEEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDV--------RQGYQQA 581 + H + E F + L E I D+ GY+ Sbjct: 46 DHAFTVAQHCLIVETIFCRMCPGATPDEMQMALLHDAPEYVIGDMISPFKSVVGGGYKTV 105 Query: 582 -----LALYKRFRLLSRQKEEIEKQIAQV 605 A++ RF L E++ +I + Sbjct: 106 EKRLEAAVHLRFGLPPHASRELKDRIKKA 134 >d2rdza1 a.138.1.3 (A:38-477) Cytochrome c nitrite reductase {Escherichia coli [TaxId: 562]} Length = 440 Score = 27.9 bits (61), Expect = 2.9 Identities = 10/30 (33%), Positives = 14/30 (46%) Query: 88 SVQRLAAIAGVPLPVVDPKIEKKEKIQTDL 117 + RL A G+ + P I KEK Q + Sbjct: 378 KLARLLATKGITHEIQIPDISTKEKAQQAI 407 >d1jgca_ a.25.1.1 (A:) Bacterioferritin (cytochrome b1) {Rhodobacter capsulatus [TaxId: 1061]} Length = 160 Score = 27.7 bits (61), Expect = 3.3 Identities = 13/113 (11%), Positives = 30/113 (26%), Gaps = 9/113 (7%) Query: 530 KYFLPEEIHQRLCERGFGELLKQLDRQVRDAGLWSATTEANIVDVRQGYQQALALYKRFR 589 K E I + + L+ L + + LA Sbjct: 42 KKSREESIEEMGHADKIIARILFLEGHPNLQKLDPLRIGEGPRET---LECDLAGEHDAL 98 Query: 590 LLSRQKEEIEKQIAQVTAKGEAEKTAILISILHEVHIQIHQIESQEAMIEGFG 642 + + G+ I S++ + + +E+Q ++ + G Sbjct: 99 ------KLYREARDYCAEVGDIVSKNIFESLITDEEGHVDFLETQISLYDRLG 145 >d1ll7a1 c.1.8.5 (A:36-292,A:355-427) Chitinase 1 {Fungus (Coccidioides immitis) [TaxId: 5501]} Length = 330 Score = 26.7 bits (58), Expect = 5.4 Identities = 8/63 (12%), Positives = 17/63 (26%) Query: 5 RDFIKDLLIHIPISNLIGQYVDWDRRKTNAVKGDYWACCPFHDEKTPSFHCNDSKGFYYC 64 + F L + G +DW + D+ E ++ G + Sbjct: 113 KKFADTSLKLMKDLGFDGIDIDWQYPEDEKQANDFVLLLKACREALDAYSAKHPNGKKFL 172 Query: 65 FSC 67 + Sbjct: 173 LTI 175 >d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]} Length = 165 Score = 26.9 bits (58), Expect = 5.9 Identities = 17/151 (11%), Positives = 38/151 (25%), Gaps = 13/151 (8%) Query: 367 GKTAFEKLIVESL--PLVDMLWKRETENRSFNTPDERAELEIHLKNCINHIKDQKLRYYY 424 GK+ + + ++L L+D E + E + + L + Sbjct: 13 GKSTIGRRLAKALGVGLLDTDVAIEQRTGRSIADIFATDGEQEFRRIEEDVVRAALADHD 72 Query: 425 SQAIRDRLQQLFQKYITEHSGYGRYWKKNARHRDQKGPSQRLMQSSLVKGKLSKKPSLRE 484 +G+ + + + + + +P L Sbjct: 73 GVLSLGGGAVTSPGVRAALAGHTVVYLEISAAEGVRRTGGN-----------TVRPLLAG 121 Query: 485 AALLLTLINHPAILQEQYQELADIRYDNNEL 515 A Y+ +A +R D N Sbjct: 122 PDRAEKYRALMAKRAPLYRRVATMRVDTNRR 152 >d1tota1 g.44.1.6 (A:1-52) CREB-binding protein, CBP {Mouse (Mus musculus) [TaxId: 10090]} Length = 52 Score = 26.7 bits (59), Expect = 6.2 Identities = 5/21 (23%), Positives = 10/21 (47%) Query: 53 FHCNDSKGFYYCFSCHVKGDH 73 +HC + + C +C+ H Sbjct: 20 WHCTVCEDYDLCINCYNTKSH 40 >d1f5va_ d.90.1.1 (A:) Oxygen-insensitive NAD(P)H nitroreductase {Escherichia coli, major form, NfsA [TaxId: 562]} Length = 240 Score = 26.7 bits (58), Expect = 6.5 Identities = 9/48 (18%), Positives = 22/48 (45%), Gaps = 3/48 (6%) Query: 134 NARDKRLHYYLDERGIDSHAI---EMFKLGYAPDSRYSLREHLRQKGF 178 D++L Y RG ++ + + +SR + ++L ++G+ Sbjct: 190 AQYDEQLAEYYLTRGSNNRRDTWSDHIRRTIIKESRPFILDYLHKQGW 237 >d1u09a_ e.8.1.4 (A:) Viral RNA polymerase {Foot-and-mouth disease virus [TaxId: 12110]} Length = 476 Score = 26.5 bits (58), Expect = 7.2 Identities = 12/72 (16%), Positives = 27/72 (37%), Gaps = 4/72 (5%) Query: 56 NDSKGFYYCFSCHVKGDHLSFLSALLGCSFIESVQRLAAIAGVPLPVVD-PKIE--KKEK 112 + + G + +G + F + +G +E+ +L K E EK Sbjct: 114 DTAPGLPWALQGKRRGALIDFENGTVGPE-VEAALKLMEKREYKFACQTFLKDEIRPMEK 172 Query: 113 IQTDLIRLIEVA 124 ++ R+++V Sbjct: 173 VRAGKTRIVDVL 184 >d2dipa1 g.44.1.6 (A:8-92) Zinc finger ZZ-type-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 85 Score = 26.1 bits (57), Expect = 8.0 Identities = 6/23 (26%), Positives = 10/23 (43%) Query: 53 FHCNDSKGFYYCFSCHVKGDHLS 75 + C + ++ C C HLS Sbjct: 40 YKCTECIEYHLCQECFDSYCHLS 62 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 0.322 0.139 0.413 Gapped Lambda K H 0.267 0.0433 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 2,483,822 Number of extensions: 121239 Number of successful extensions: 454 Number of sequences better than 10.0: 1 Number of HSP's gapped: 442 Number of HSP's successfully gapped: 29 Length of query: 648 Length of database: 2,407,596 Length adjustment: 91 Effective length of query: 557 Effective length of database: 1,158,166 Effective search space: 645098462 Effective search space used: 645098462 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 (21.9 bits) S2: 56 (26.1 bits)