RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781074|ref|YP_003065487.1| uracil-DNA glycosylase [Candidatus Liberibacter asiaticus str. psy62] (227 letters) >gnl|CDD|179976 PRK05254, PRK05254, uracil-DNA glycosylase; Provisional. Length = 224 Score = 384 bits (989), Expect = e-107 Identities = 122/221 (55%), Positives = 165/221 (74%) Query: 4 VKIHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVI 63 + + SWK +L+ F+ + + L EFL +E+ GK I+P G FRAF++TPF+ VKVVI Sbjct: 4 MLLEPSWKEVLKPEFKKPYFQELLEFLRAERAAGKTIYPPGEDIFRAFNLTPFDDVKVVI 63 Query: 64 LGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIPPTHGFLEHWGHEGVLL 123 LGQDPYH GQAHGL FSVP G+ IPPSL N++KEL++D+ F P HG L W +GVLL Sbjct: 64 LGQDPYHGPGQAHGLSFSVPPGVPIPPSLRNIFKELEDDLGFPIPNHGDLTSWAEQGVLL 123 Query: 124 LNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHL 183 LN VLTVE G+A SH G+GWE FTD+VI ++ + +VF+LWG+ AQKK+ ++D+ +HL Sbjct: 124 LNTVLTVEAGQANSHAGKGWETFTDAVIKALNERREPVVFILWGSHAQKKKALIDNSKHL 183 Query: 184 VLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 +L++ HPSPLSA GFFG +HFSKAN L++HGKT ++WQ+ Sbjct: 184 ILESPHPSPLSAHRGFFGSKHFSKANALLKQHGKTPIDWQL 224 >gnl|CDD|161966 TIGR00628, ung, uracil-DNA glycosylase. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 212 Score = 312 bits (803), Expect = 4e-86 Identities = 115/212 (54%), Positives = 144/212 (67%), Gaps = 1/212 (0%) Query: 7 HESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILGQ 66 SW++ L+ F+ + + L F+ E+ + ++P F P VKVVILGQ Sbjct: 1 SPSWRAFLQPEFKKPYFQELLAFVKRERATQETVYPPKEDVFAWTRFCPPEDVKVVILGQ 60 Query: 67 DPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGVLLLN 125 DPYH GQAHGL FSV G+ IPPSL N++KEL+ D +F PP HG LE W +GVLLLN Sbjct: 61 DPYHGPGQAHGLAFSVKPGVPIPPSLKNIFKELEADYPDFPPPKHGCLEAWARQGVLLLN 120 Query: 126 AVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLVL 185 VLTV G+ SH G GWE+FTD+VI +S +VFMLWGA AQKK+ ++D K+HLVL Sbjct: 121 TVLTVRAGQPGSHSGLGWERFTDAVISRLSERRDGLVFMLWGAHAQKKKSLIDAKKHLVL 180 Query: 186 KAAHPSPLSASHGFFGCRHFSKANRYLQEHGK 217 K+ HPSPLSA GFFGCRHFSKAN YL++HGK Sbjct: 181 KSPHPSPLSARRGFFGCRHFSKANEYLEKHGK 212 >gnl|CDD|177588 PHA03347, PHA03347, uracil DNA glycosylase; Provisional. Length = 252 Score = 219 bits (561), Expect = 3e-58 Identities = 88/174 (50%), Positives = 115/174 (66%), Gaps = 9/174 (5%) Query: 59 VKVVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWG 117 +KVVILGQDPYH GQA+GL FSV G +PPSL N++ EL V +F PP HG L+ W Sbjct: 79 IKVVILGQDPYHG-GQANGLAFSVAYGFPVPPSLRNIFAELHRSVPDFSPPDHGCLDAWA 137 Query: 118 HEGVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVL 177 +GVLLLN +LTVE+G+ SH GW FTD +I +S + VFMLWG+ A K ++ Sbjct: 138 RQGVLLLNTILTVEKGKPGSHSDLGWAWFTDYIISSLSEKLKACVFMLWGSKAIDKASLI 197 Query: 178 DHKRHLVLKAAHPSPLSASHG-------FFGCRHFSKANRYLQEHGKTTVNWQI 224 + ++HLVLKA HPSPL+A+ F GC HF AN+YL +HGK ++W + Sbjct: 198 NSQKHLVLKAQHPSPLAANSTRSSTWPKFLGCNHFVLANKYLTQHGKGPIDWNL 251 >gnl|CDD|165467 PHA03200, PHA03200, uracil DNA glycosylase; Provisional. Length = 255 Score = 205 bits (524), Expect = 7e-54 Identities = 91/223 (40%), Positives = 127/223 (56%), Gaps = 6/223 (2%) Query: 6 IHESWKSLLE-NHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVIL 64 I+E W L + +R + + + ++++ ++P R + VKVVI+ Sbjct: 32 INEDWLRFLNLSDHDISQLRRIVDAVDRDRQRLT-VYPPPEDVHRWSRLCSPEDVKVVIV 90 Query: 65 GQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGVLL 123 GQDPYH+ G A GL F G PPSL NV++EL+ V NF P G L+ W +GVLL Sbjct: 91 GQDPYHD-GSACGLAFGTVRGRSAPPSLKNVFRELERTVPNFSRPDSGCLDSWCRQGVLL 149 Query: 124 LNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHL 183 LN V TV G+ SH GW+ +D VI +S +++VFMLWGA AQK + ++D ++HL Sbjct: 150 LNTVFTVVHGQPGSHEALGWQTLSDRVISRLSEKREHLVFMLWGAQAQKLEYLIDSRKHL 209 Query: 184 VLKAAHPSP--LSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 +LK+AHPSP A F G HF AN YL HGK ++W I Sbjct: 210 ILKSAHPSPRVKGARTPFIGNNHFVLANEYLSTHGKRPIDWNI 252 >gnl|CDD|165469 PHA03202, PHA03202, uracil DNA glycosylase; Provisional. Length = 313 Score = 191 bits (487), Expect = 1e-49 Identities = 101/223 (45%), Positives = 132/223 (59%), Gaps = 10/223 (4%) Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKR---KGKRIFPRGSHYFRAFDITPFNKVKVV 62 I SW+ +LE Q ++R LL+E + + +FP F +P KV+VV Sbjct: 96 IAPSWRPILEREMQQPYVR----LLLNEYKLRCAREEVFPPKEDIFAWTRFSPPEKVRVV 151 Query: 63 ILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGV 121 I+GQDPYH GQAHGL FSV G+ +PPSL N+Y +Q+ +F PP HGFLE W +GV Sbjct: 152 IVGQDPYHAPGQAHGLAFSVRKGVPVPPSLRNIYSAVQKSYPSFRPPMHGFLEKWAEQGV 211 Query: 122 LLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKR 181 LL+N LTV G+ SH GW + +VID + Q +VFMLWGA AQK + + Sbjct: 212 LLINTTLTVARGKPGSHATLGWHRLVRAVIDRLCTTSQGLVFMLWGAHAQKSCSP-NRQH 270 Query: 182 HLVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 HLVL HPSPLS + F C HF +AN YL + G+ V+WQI Sbjct: 271 HLVLTYGHPSPLSRVN-FRDCPHFLEANAYLTKTGRKPVDWQI 312 >gnl|CDD|165466 PHA03199, PHA03199, uracil DNA glycosylase; Provisional. Length = 304 Score = 183 bits (465), Expect = 4e-47 Identities = 92/220 (41%), Positives = 121/220 (55%), Gaps = 3/220 (1%) Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILG 65 I W LL + F+ + + + E G+ IFP F K++VVI+G Sbjct: 87 IDPEWHDLLRDEFEEPYAKGIFEEYNQLLNNGEEIFPIKGDIFAWTRFCGPEKIRVVIIG 146 Query: 66 QDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDV-NFIPPTHGFLEHWGHEGVLLL 124 QDPYH G AHGL FSV GI IPPSL N++ L E + PTHG L++W +GVLLL Sbjct: 147 QDPYHGAGHAHGLAFSVKRGIPIPPSLKNIFAALMESYPHLPLPTHGCLDNWARQGVLLL 206 Query: 125 NAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHKRHLV 184 N LTV+ G SH GW+ ++ + N +VFMLWGA AQK + + HLV Sbjct: 207 NTTLTVKRGTPGSHFYLGWDMLIKRMLKRLCENRTGLVFMLWGAHAQKTIQP-NPRCHLV 265 Query: 185 LKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 L AHPSPLS S F C+HF +AN Y + G+ ++W I Sbjct: 266 LTHAHPSPLSRSE-FRNCKHFLQANEYFLKKGEPEIDWSI 304 >gnl|CDD|165471 PHA03204, PHA03204, uracil DNA glycosylase; Provisional. Length = 322 Score = 172 bits (437), Expect = 7e-44 Identities = 92/223 (41%), Positives = 120/223 (53%), Gaps = 8/223 (3%) Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKG--KRIFPRGSHYFRAFDITPFNKVKVVI 63 I WK +L + L +R+ + ++P S F + VKVVI Sbjct: 102 IDCRWKEILLPELCCP---TGSKILAEYERRARYEEVYPPKSDIFAWTRYCAPDHVKVVI 158 Query: 64 LGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIP-PTHGFLEHWGHEGVL 122 +GQDPY N GQAHGL FSV G IPPSL N+ ++ I +HG LE W GVL Sbjct: 159 VGQDPYANPGQAHGLAFSVKPGSPIPPSLKNILAAVKACYPSIELGSHGCLEDWAKRGVL 218 Query: 123 LLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVLDHK-R 181 LLN+VLTV+ G SH GW+ +V+ +S + + IVFMLWGA AQ D+ R Sbjct: 219 LLNSVLTVKRGDPGSHHSVGWQILVRNVLRRLSQSTRGIVFMLWGAQAQTMYFQTDNDDR 278 Query: 182 HLVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 HLVLK +HPSPLS F C HF AN +L + GK ++W + Sbjct: 279 HLVLKYSHPSPLS-RKPFAHCTHFKDANEFLCKMGKGAIDWSL 320 >gnl|CDD|165468 PHA03201, PHA03201, uracil DNA glycosylase; Provisional. Length = 318 Score = 160 bits (405), Expect = 4e-40 Identities = 93/227 (40%), Positives = 122/227 (53%), Gaps = 18/227 (7%) Query: 6 IHESWKSLLENHFQSEHMRNLKEFLLSEKRKGKR----IFPRGSHYFRAFDITPFNKVKV 61 + ++W+ LLE E L L++E + R + PR + TP ++V+V Sbjct: 102 VGDAWRPLLE----PELANPLTARLMAEYERRCRTEEVLPPREDVFSWTRYCTP-DEVRV 156 Query: 62 VILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQEDVNFIPPT----HGFLEHWG 117 VI+GQDPYH GQAHGL FSV G PPSL N+ ++ N P HG LE W Sbjct: 157 VIIGQDPYHQPGQAHGLAFSVRPGTPAPPSLRNILAAVR---NCCPDARMSGHGCLEKWA 213 Query: 118 HEGVLLLNAVLTVEEGRAASHRGRGWEQFTDSVIDLISNNHQNIVFMLWGASAQKKQDVL 177 GVLLLN LTV G ASH GW++F SV+ ++ + +VFMLWGA AQ Sbjct: 214 RGGVLLLNTTLTVRRGEPASHAKIGWDRFVGSVVRRLAASRPGLVFMLWGAHAQNAIRP- 272 Query: 178 DHKRHLVLKAAHPSPLSASHGFFGCRHFSKANRYLQEHGKTTVNWQI 224 D + H VL +HPSPLS F CRHF AN+YL+E ++W Sbjct: 273 DPRVHRVLTYSHPSPLSKV-PFGSCRHFCLANQYLRERSLAPIDWST 318 >gnl|CDD|184120 PRK13533, PRK13533, 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Provisional. Length = 487 Score = 30.6 bits (70), Expect = 0.34 Identities = 17/65 (26%), Positives = 23/65 (35%), Gaps = 1/65 (1%) Query: 42 PRGSHYFRAFDITPFNKVKVVILGQDPYHNYGQAHGLCFSVPLGIRIPPSLVNVYKELQE 101 P + R + K ++I D N + L F P G PP L Y QE Sbjct: 374 PEVLRHHRRLERLTLGKKALLITAGDKPENDSEDDVLFFKPPFGP-FPPELSETYPLSQE 432 Query: 102 DVNFI 106 + I Sbjct: 433 EPEEI 437 >gnl|CDD|180221 PRK05720, mtnA, methylthioribose-1-phosphate isomerase; Reviewed. Length = 344 Score = 28.6 bits (65), Expect = 1.2 Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 1/20 (5%) Query: 37 GKRIFPRGSHYFR-AFDITP 55 G RI P G + AFD+TP Sbjct: 296 GVRIAPEGVKVYNPAFDVTP 315 >gnl|CDD|133848 PHA00028, rep, RNA replicase, beta subunit. Length = 561 Score = 28.2 bits (63), Expect = 1.6 Identities = 8/13 (61%), Positives = 10/13 (76%) Query: 44 GSHYFRAFDITPF 56 G+HYF D+TPF Sbjct: 380 GAHYFAGVDVTPF 392 >gnl|CDD|180340 PRK05989, cobN, cobaltochelatase subunit CobN; Reviewed. Length = 1244 Score = 27.2 bits (61), Expect = 3.6 Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 24/60 (40%) Query: 60 KVVILGQDPYHNYGQAHGLCFSVPLGIRI--------PPSLVNVYKELQE---DVNFIPP 108 +V ++ NY G RI P S V + + L+ DV +P Sbjct: 375 RVALI----LANYPTKDG---------RIGNAVGLDTPASAVRLLRALRAAGYDVGDLPA 421 >gnl|CDD|182457 PRK10434, srlR, DNA-bindng transcriptional repressor SrlR; Provisional. Length = 256 Score = 27.0 bits (60), Expect = 4.3 Identities = 7/12 (58%), Positives = 9/12 (75%) Query: 210 RYLQEHGKTTVN 221 YLQ+ GKT+V Sbjct: 12 EYLQKQGKTSVE 23 >gnl|CDD|178392 PLN02795, PLN02795, allantoinase. Length = 505 Score = 26.7 bits (59), Expect = 4.9 Identities = 9/25 (36%), Positives = 16/25 (64%) Query: 134 RAASHRGRGWEQFTDSVIDLISNNH 158 R A++R W+ D ID++S++H Sbjct: 343 RDAANRELLWKALLDGDIDMLSSDH 367 >gnl|CDD|180393 PRK06087, PRK06087, short chain acyl-CoA synthetase; Reviewed. Length = 547 Score = 26.2 bits (58), Expect = 6.2 Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 2/61 (3%) Query: 20 SEHMRNLKEFL--LSEKRKGKRIFPRGSHYFRAFDITPFNKVKVVILGQDPYHNYGQAHG 77 H L+E + S KR K +P T K++ +L +D Q Sbjct: 484 PHHSLTLEEVVAFFSRKRVAKYKYPEHIVVIDKLPRTASGKIQKFLLRKDIMRRLTQDVC 543 Query: 78 L 78 Sbjct: 544 E 544 >gnl|CDD|131798 TIGR02751, PEPCase_arch, phosphoenolpyruvate carboxylase, archaeal type. This family is the archaeal-type phosphoenolpyruvate carboxylase, although not every host species is archaeal. These sequences bear little resemblance to the bacterial/eukaryotic type. The members from Sulfolobus solfataricus and Methanothermobacter thermautotrophicus were verified experimentally, while the activity is known to be present in a number of other archaea. Length = 506 Score = 26.2 bits (58), Expect = 7.0 Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 2/61 (3%) Query: 69 YHNYGQAHGLCFSVPLGIRIP-PSLVNV-YKELQEDVNFIPPTHGFLEHWGHEGVLLLNA 126 Y+++ + H L + L R+P P++ K L E + IP + + E + + Sbjct: 66 YYDFFKEHILGKDIFLTYRVPNPAIEGAEAKLLLETLESIPRNYDVAREFYDERIAPIFE 125 Query: 127 V 127 V Sbjct: 126 V 126 >gnl|CDD|183496 PRK12393, PRK12393, amidohydrolase; Provisional. Length = 457 Score = 25.8 bits (57), Expect = 8.5 Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 3/25 (12%) Query: 115 HWGHEG---VLLLNAVLTVEEGRAA 136 HWG G VL L+A+ T+ G+AA Sbjct: 362 HWGTAGGARVLGLDAIGTLAVGQAA 386 >gnl|CDD|161677 TIGR00042, TIGR00042, non-canonical purine NTP pyrophosphatase, rdgB/HAM1 family. Saccharomyces cerevisiae HAM1 protects against the mutagenic effects of the base analog 6-N-hydroxylaminopurine, which can be a natural product of monooxygenase activity on adenine. Methanococcus jannaschii MJ0226 and E. coli RdgB are also characterized as pyrophosphatases active against non-standard purines NTPs. E. coli RdgB appears to act by intercepting non-canonical deoxyribonucleotide triphosphates from replication precursor pools. Length = 184 Score = 25.8 bits (57), Expect = 8.8 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 15/44 (34%) Query: 105 FIPPTHG--FLEHWGHEGVLLLNAVLTVEEGRAASHRGRGWEQF 146 FIPP G F E LT EE SHRG+ +++F Sbjct: 149 FIPPEEGKTFAE-------------LTTEEKNKISHRGKAFKKF 179 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.138 0.436 Gapped Lambda K H 0.267 0.0685 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 3,840,452 Number of extensions: 237888 Number of successful extensions: 465 Number of sequences better than 10.0: 1 Number of HSP's gapped: 445 Number of HSP's successfully gapped: 24 Length of query: 227 Length of database: 5,994,473 Length adjustment: 90 Effective length of query: 137 Effective length of database: 4,049,753 Effective search space: 554816161 Effective search space used: 554816161 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: 55 (25.1 bits)