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)