RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780743|ref|YP_003065156.1| putative uracil-DNA
glycosylase [Candidatus Liberibacter asiaticus str. psy62]
(261 letters)
>1vk2_A Uracil-DNA glycosylase TM0511; structural genomics, JCSG,
PSI, protein structure initiative, joint center for
structural genomics, hydrolase; 1.90A {Thermotoga
maritima} (A:)
Length = 204
Score = 123 bits (310), Expect = 2e-29
Identities = 35/204 (17%), Positives = 78/204 (38%), Gaps = 5/204 (2%)
Query: 60 HSPLVQQADSIAQKACSLHELKSLLRSFHDCHLCSTSLSTICATQTEGQDLMIIGYTPSD 119
+ + + ++ C L + + ++ +G P +
Sbjct: 3 SDKIHHHHHHXYTREELXEIVSERVKKCTACPLHLNRTNVVVGEGNLDTRIVFVGEGPGE 62
Query: 120 SDNISGKPFSGKTGNMLDKMLQSIEIMRTQIHISMISPWHPPGNRNLSNIEMEICRPIIM 179
++ +G+PF G+ G +L ++L+ I R ++I + PP NR + E C ++
Sbjct: 63 EEDKTGRPFVGRAGXLLTELLRESGIRREDVYICNVVKCRPPNNRTPTPEEQAACGHFLL 122
Query: 180 RQIELISPKILLFIGNKTKNFFFNNDAQKTYQNLGKWSNLCTPHSIIPTLATVHPQELIQ 239
QIE+I+P +++ +G +FF + + G + + T HP L++
Sbjct: 123 AQIEIINPDVIVALGATALSFFVDGKKVSITKVRGNPIDWLGG---KKVIPTFHPSYLLR 179
Query: 240 YPLI--KKNTWHALITLKKALKNL 261
++ + K +K
Sbjct: 180 NRSNELRRIVLEDIEKAKSFIKKE 203
>1ui0_A Uracil-DNA glycosylase; base excision repair, iron/sulfer
cluster, thermophIle, riken structural
genomics/proteomics initiative, RSGI; 1.50A {Thermus
thermophilus} (A:)
Length = 205
Score = 108 bits (272), Expect = 5e-25
Identities = 51/192 (26%), Positives = 85/192 (44%), Gaps = 11/192 (5%)
Query: 76 SLHELKSLLRSFHDCHLCSTSLSTICATQTEGQDLMIIGYTPSDSDNISGKPFSGKTGNM 135
+L L++ ++ C L + LMI+G P + ++ +G+PF GK G +
Sbjct: 2 TLELLQAQAQNCTACRLMEGRTRVVFGEGNPDAKLMIVGEGPGEEEDKTGRPFVGKAGQL 61
Query: 136 LDKMLQSIEIMRTQIHISMISPWHPPGNRNLSNIEMEICRPIIM-RQIELISPKILLFIG 194
L+++L++ I R +++I+ I PP NR E +IC + +QIELI+P+I++ +G
Sbjct: 62 LNRILEAAGIPREEVYITNIVKCRPPQNRAPLPDEAKICTDKWLLKQIELIAPQIIVPLG 121
Query: 195 NKTKNFFFNNDAQKTYQNLGKWSNLCTPHSIIPTLATVHP-----QELIQYPLIKKNTWH 249
FF T + GKW HP K TW
Sbjct: 122 AVAAEFFLGEKVSIT-KVRGKWYEWHGI----KVFPMFHPAYLLRNPSRAPGSPKHLTWL 176
Query: 250 ALITLKKALKNL 261
+ +K+AL L
Sbjct: 177 DIQEVKRALDAL 188
>1oe4_A SMUG1, single-strand selective monofunctional uracil DNA
glycosylase; hydrolase, hydrolase/complex, SMUG1; HET:
3DR; 2.0A {Xenopus laevis} (A:)
Length = 247
Score = 97.0 bits (241), Expect = 2e-21
Identities = 19/213 (8%), Positives = 53/213 (24%), Gaps = 34/213 (15%)
Query: 62 PLVQQADSIAQKACSLHELKSLLRSFHDCHLCSTSLSTICA-TQTEGQDLMIIGYTPSDS 120
+ ++K + + ++ + Q EG P
Sbjct: 45 YVQTYCK--SKKEVLFLGMNPGPFGMAQTGVPFGEVNHVRDWLQIEGPVSKPEVEHPKRR 102
Query: 121 DNISGKPFSGKTGNMLDKMLQSIEIMRTQ----IHISMISPWHP-----------PGNRN 165
P S +G + +S+ + P +
Sbjct: 103 IRGFECPQSEVSGARFWSLFKSLCGQPETFFKHCFVHNHCPLIFMNHSGKNLTPTDLPKA 162
Query: 166 LSNIEMEICRPIIMRQIELISPKILLFIGNKTKNFFFNNDAQKTYQNLGKWSNLCTPHSI 225
+ +EIC + + + ++ K+++ +G +++ + +
Sbjct: 163 QRDTLLEICDEALCQAVRVLGVKLVIGVGRF---------SEQRARKALMAEGID----- 208
Query: 226 IPTLATVHPQELIQY--PLIKKNTWHALITLKK 256
+ +HP + L+ L
Sbjct: 209 VTVKGIMHPSPRNPQANKGWEGIVRGQLLELGV 241
>3ikb_A Uncharacterized conserved protein; APC63946, streptococcus
mutans UA159, structural genomics, PSI-2, protein
structure initiative; HET: FLC; 1.67A {Streptococcus
mutans} (A:34-198)
Length = 165
Score = 92.7 bits (230), Expect = 4e-20
Identities = 19/161 (11%), Positives = 47/161 (29%), Gaps = 16/161 (9%)
Query: 109 DLMIIGYTPSDSDNISGKPFSGKTGNMLDKM---LQSIEIMRTQIHISMISPWHPPGNRN 165
+ I+G P S ++ K+G+ L + + ++P ++
Sbjct: 6 RINIVGQAPGIKAQESRLYWNDKSGDRLREWXGVDYDTFYHSGYFAVIPXDFYYPGKGKS 65
Query: 166 LSNIEMEICRPIIMRQI--ELISPKILLFIGNKTKNFFFNNDAQKTYQNL-GKWSNLCTP 222
+ + I L ++ + IGN + ++ + + + +
Sbjct: 66 GDLPPRKGFAQKWHQPILDLLPDIQLTILIGNYAQKYYLHQKSSVKLTDTVAHYKKYL-- 123
Query: 223 HSIIPTLATVHPQELIQY-----PLIKKNTWHALITLKKAL 258
VHP Q P + L + + +
Sbjct: 124 ---PDYFPLVHPSPRNQIWXSRHPWFEAQVVPDLKKIIQQI 161
>2d3y_A Uracil-DNA glycosylase; base excision repair, iron/sulfer
cluster, thermophIle, structural genomics, NPPSFA; HET:
DU; 1.55A {Thermus thermophilus HB8} PDB: 2ddg_A*
2dem_A* 2dp6_A* (A:)
Length = 219
Score = 92.0 bits (228), Expect = 6e-20
Identities = 23/211 (10%), Positives = 55/211 (26%), Gaps = 15/211 (7%)
Query: 61 SPLVQQADSIAQKACSLHELKSLLRSFHDCHLCSTSLSTICATQTEGQDLMIIGYTPSDS 120
VQ + + + ++ + +++ G P
Sbjct: 4 EAFVQTLTACRLCPRLVAWREEVVGRKRAFRGEPYWARPVPGFGDPEARILLFGLAPGAH 63
Query: 121 D-NISGKPFSG-KTGNMLDKMLQSIEIMRTQIHISMISPWHP-----------PGNRNLS 167
N +G+PF+G +G L +L + + P +
Sbjct: 64 GSNRTGRPFTGDASGAFLYPLLHEAGLSSKPESLPGDDLRLYGVYLTAAVRCAPPKNKPT 123
Query: 168 NIEMEICRPIIMRQIELI-SPKILLFIGNKTKNFFFNNDAQKTYQNLGKWSNLCTPHSII 226
E+ C ++ L+ ++ + +G + + + +
Sbjct: 124 PEELRACARWTEVELGLLPEVRVYVALGRIALEALLAHFGLRKSAHPFRHGAHYPLPGGR 183
Query: 227 PTLATVHPQELIQYPLIKKNTWHALITLKKA 257
LA+ H + L L +A
Sbjct: 184 HLLASYHVSRQNTQTG-RLTREMFLEVLMEA 213
>1wyw_A TDG, G/T mismatch-specific thymine DNA glycosylase;
hydrolase; 2.10A {Homo sapiens} (A:1-199)
Length = 199
Score = 89.0 bits (220), Expect = 6e-19
Identities = 27/193 (13%), Positives = 54/193 (27%), Gaps = 19/193 (9%)
Query: 87 FHDCHLCSTSLSTICATQTEGQDLMIIGYTPSDSDNISGKPFSGKTGNMLDKMLQSIEIM 146
+ T+ T D++IIG P G + G + + S
Sbjct: 2 SNGVSEAELLTKTLPDILTFNLDIVIIGINPGLMAAYKGHHYPGPGNHFWKCLFMSGLSE 61
Query: 147 R-------------TQIHISMISPWHPPGNRNLSNIEMEICRPIIMRQIELISPKILLFI 193
I + + PG+++LS+ E I++++++ P+I +F
Sbjct: 62 VQLNHMDDHTLPGKYGIGFTNMVERTTPGSKDLSSKEFREGGRILVQKLQKYQPRIAVFN 121
Query: 194 GNKTKNFFFNNDAQKTYQNLGKWSNLCTPHSI--IPTLATVHPQELIQYPLI---KKNTW 248
G F ++ K + +
Sbjct: 122 GKCIYEIFSKEVFGVK-VKNLEFGLQPHKIPDTETLCYVMPSSSARCAQFPRAQDKVHYY 180
Query: 249 HALITLKKALKNL 261
L L+ LK +
Sbjct: 181 IKLKDLRDQLKGI 193
>1mug_A Protein (G:T/U specific DNA glycosylase); hydrolase; 1.80A
{Escherichia coli} (A:)
Length = 168
Score = 78.5 bits (193), Expect = 9e-16
Identities = 20/163 (12%), Positives = 42/163 (25%), Gaps = 20/163 (12%)
Query: 109 DLMIIGYTPSDSDNISGKPFSGKTGNMLDKMLQSIEIMRTQ-------------IHISMI 155
++ G P S +G PF+ N K++ Q ++ +
Sbjct: 11 RVVFCGINPGLSSAGTGFPFAHP-ANRFWKVIYQAGFTDRQLKPQEAQHLLDYRCGVTKL 69
Query: 156 SPWHPPGNRNLSNIEMEICRPIIMRQIELISPKILLFIGNKTKNFFFNNDAQKTYQNLGK 215
+S E+ ++ +IE P+ L +G + F+ +
Sbjct: 70 VDRPTVQANEVSKQELHAGGRKLIEKIEDYQPQALAILGKQAYEQGFSQRGAQW-GKQTL 128
Query: 216 WSNLCTPHSIIPTLATVHPQELIQYPLIKKNTWHALITLKKAL 258
+ I L + + L
Sbjct: 129 T----IGSTQIWVLPNPSGLSRVSLEK-LVEAYRELDQALVVR 166
>2c2q_A G/U mismatch-specific DNA glycosylase; radiation resistance,
DNA repair enzymes, uracil-DNA glycosylase, MUG,
hydrolase; 1.7A {Deinococcus radiodurans} PDB: 2c2p_A
(A:)
Length = 199
Score = 74.0 bits (181), Expect = 2e-14
Identities = 19/192 (9%), Positives = 47/192 (24%), Gaps = 19/192 (9%)
Query: 85 RSFHDCHLCSTSLSTICATQTEGQDLMIIGYTPSDSDNISGKPFSGKTGNMLDKMLQSI- 143
L + + G L+++G PS + ++ +
Sbjct: 3 APHDVPDLTGSGEYLVPDVLQPGLTLVLVGTAPSGISARARAYYANPENKFWRTLHAVGL 62
Query: 144 -----------EIMRTQIHISMISPWHPPGNRNLSNIEMEICRPIIMRQIELISPKILLF 192
+ + + ++ ++ H L + R++E P+I+ F
Sbjct: 63 TPRQLVPQEYATLPQYGLGLTDVAKRHSGVAAALPGEAW--RPDELRRKVEHYRPRIVAF 120
Query: 193 IGNKTKNFFFNNDAQKTYQNLGKWSNLCTPHSIIPTLATVHP--QELIQYPLIKKNTWHA 250
+ + K + L P + L
Sbjct: 121 TSKRGASETLGVPTGKL-PYGPQPQPLDWPAE-TELWVLPSTSPLGHNHFRLEPWQALGD 178
Query: 251 LI-TLKKALKNL 261
+ L+ A +
Sbjct: 179 RVRELRGAAEAG 190
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
translation termination, ATP-binding, cytoplasm,
hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
(A:1-326)
Length = 326
Score = 28.2 bits (62), Expect = 1.0
Identities = 13/127 (10%), Positives = 36/127 (28%), Gaps = 34/127 (26%)
Query: 102 ATQTEGQDLMIIGYTPSDSDNISGKPFSGKTGNMLDKMLQSIEIMRTQIHISMISPWHPP 161
++++ + G +GKT ++M+S
Sbjct: 153 LLSNPPRNMIGQSQS--------G---TGKTAAFA---------------LTMLSRVDAS 186
Query: 162 GNRNLSNIEMEICRPIIMR--QIELISPKILLFIGNKTKNFFFNNDAQKTYQNLGKWSNL 219
+ + P QI + ++ + KT ++ + + +
Sbjct: 187 VPK----PQAICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKG--AKIDAQIVI 240
Query: 220 CTPHSII 226
TP +++
Sbjct: 241 GTPGTVM 247
>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane,
transducer, signaling protein; HET: GDP; 2.00A {Mus
musculus} (A:64-187)
Length = 124
Score = 25.8 bits (56), Expect = 6.7
Identities = 6/28 (21%), Positives = 11/28 (39%), Gaps = 1/28 (3%)
Query: 235 QELIQY-PLIKKNTWHALITLKKALKNL 261
+ ++ P I N + L A + L
Sbjct: 1 RAREEFRPTIYSNVIKGMRVLVDAREKL 28
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(A:550-614)
Length = 65
Score = 25.1 bits (54), Expect = 9.3
Identities = 3/6 (50%), Positives = 6/6 (100%)
Query: 168 NIEMEI 173
N+E++I
Sbjct: 1 NVEVKI 6
>2qe8_A Uncharacterized protein; YP_324691.1, structural genomics,
joint center for structural genomics, JCSG; HET: MSE UNL
PG4; 1.35A {Anabaena variabilis atcc 29413} (A:19-116)
Length = 98
Score = 25.0 bits (55), Expect = 10.0
Identities = 6/26 (23%), Positives = 9/26 (34%)
Query: 228 TLATVHPQELIQYPLIKKNTWHALIT 253
+A + LI +P N T
Sbjct: 25 QVAELTQDGLIPFPPQSGNAIITFDT 50
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.319 0.133 0.397
Gapped
Lambda K H
0.267 0.0595 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,881,068
Number of extensions: 78445
Number of successful extensions: 185
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 18
Length of query: 261
Length of database: 4,956,049
Length adjustment: 87
Effective length of query: 174
Effective length of database: 2,015,014
Effective search space: 350612436
Effective search space used: 350612436
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: 54 (24.9 bits)