RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 039604
(373 letters)
>d1mpga1 a.96.1.3 (A:100-282) 3-Methyladenine DNA glycosylase II
(gene alkA or aidA) {Escherichia coli [TaxId: 562]}
Length = 183
Score = 127 bits (321), Expect = 3e-36
Identities = 41/182 (22%), Positives = 71/182 (39%), Gaps = 21/182 (11%)
Query: 148 IHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVP--------ET 199
+ P D F R+IL Q ++ + R L G P +
Sbjct: 6 LRLPGCVD----AFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQR 61
Query: 200 VLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSW 259
+ A PQ L+ +G+ ++A L LA G L + D + L GIG W
Sbjct: 62 LAAADPQALKALGMPLKRAEALIHLANAALEGTLPMTI--PGDVEQAMKTLQTFPGIGRW 119
Query: 260 SVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYL 319
+ + F + DV +D +++ + P+Q+ + E+W+P+RS A ++
Sbjct: 120 TANYFALRGWQAKDVFLPDDYLIKQRFPGMT-------PAQIRRYAERWKPWRSYALLHI 172
Query: 320 WR 321
W
Sbjct: 173 WY 174
>d2noha1 a.96.1.3 (A:136-325) 8-oxoguanine glycosylase {Human (Homo
sapiens) [TaxId: 9606]}
Length = 190
Score = 89.5 bits (221), Expect = 8e-22
Identities = 28/184 (15%), Positives = 55/184 (29%), Gaps = 24/184 (13%)
Query: 160 PFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVV----------PETVLALTPQQLR 209
P L I T + R G + + + +
Sbjct: 2 PIECLFSFICSSNNNIARITGMVERLCQAFGPRLIQLDDVTYHGFPSLQALAGPEVEAHL 61
Query: 210 QIGVSGRKASYLHDLARK---YQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMI 266
+ G +A Y+ AR Q G+ + + L ++ G+G+ +
Sbjct: 62 RKLGLGYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTQVADCICL 121
Query: 267 FSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQ----------MDQLCEKWRPYRSVAS 316
+L +P +P+ D+ + Q YS ++ + W PY A+
Sbjct: 122 MALDKPQAVPV-DVHMWHIAQRDYSWHPTTSQAKGPSPQTNKELGNFFRSLWGPYAGWAA 180
Query: 317 WYLW 320
L+
Sbjct: 181 AVLF 184
>d1pu6a_ a.96.1.5 (A:) 3-Methyladenine DNA glycosylase III (MagIII)
{Helicobacter pylori [TaxId: 210]}
Length = 217
Score = 50.2 bits (119), Expect = 7e-08
Identities = 28/179 (15%), Positives = 55/179 (30%), Gaps = 13/179 (7%)
Query: 149 HPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCG--GEAGVVPETVLALTPQ 206
+ P + F AL ++L Q F+A + + + + +
Sbjct: 18 NAPAWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIAYIEFS 77
Query: 207 QL----RQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVH 262
+L R G +KA L DL+ + N + L GIG S
Sbjct: 78 KLAECVRPSGFYNQKAKRLIDLSGNILK---DFQSFENFKQEVTREWLLDQKGIGKESAD 134
Query: 263 MFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWR 321
+ ++ + + D ++ L E ++ EK ++ L+
Sbjct: 135 AILCYACAKEV--MVVDKYSYLFLKKLGIEIEDYD--ELQHFFEKGVQENLNSALALYE 189
>d1ngna_ a.96.1.2 (A:) Mismatch-specific thymine glycosylase domain
of the methyl-GpG binding protein mbd4 {Mouse (Mus
musculus) [TaxId: 10090]}
Length = 144
Score = 39.7 bits (92), Expect = 1e-04
Identities = 20/138 (14%), Positives = 46/138 (33%), Gaps = 15/138 (10%)
Query: 157 FHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQLRQIGVSGR 216
FH P+ L +I + + K + F+ ++ + L+ +G+
Sbjct: 17 FHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVS-ELLKPLGLYDL 75
Query: 217 KASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLP 276
+A + + +Y + ++GIG + + IF ++ +
Sbjct: 76 RAKTIIKFSDEYLTKQ--------------WRYPIELHGIGKYGNDSYRIFCVNEWKQVH 121
Query: 277 INDLGVRKGVQLLYSLEE 294
D + K L+ E
Sbjct: 122 PEDHKLNKYHDWLWENHE 139
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle
domain {Mycobacterium leprae [TaxId: 1769]}
Length = 71
Score = 26.6 bits (59), Expect = 1.2
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 242 DDKSLFTMLTMVNGIG 257
+++ LF L V+G+G
Sbjct: 3 ENRDLFLALLSVSGVG 18
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle
domain {Thermus thermophilus [TaxId: 274]}
Length = 73
Score = 26.2 bits (58), Expect = 1.7
Identities = 6/18 (33%), Positives = 13/18 (72%)
Query: 240 NMDDKSLFTMLTMVNGIG 257
+ ++ +LF +L V+G+G
Sbjct: 2 DEENLALFELLLSVSGVG 19
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle
domain {Escherichia coli [TaxId: 562]}
Length = 78
Score = 25.9 bits (57), Expect = 2.4
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 240 NMDDKSLFTMLTMVNGIGS 258
N +++LF L NG+G
Sbjct: 1 NKQERTLFKELIKTNGVGP 19
>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus
thermophilus [TaxId: 274]}
Length = 205
Score = 27.0 bits (59), Expect = 2.9
Identities = 21/131 (16%), Positives = 39/131 (29%), Gaps = 14/131 (10%)
Query: 173 LAFKAG-TSIYTRFIALCGGEAGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQNG 231
L K G T I+ + VP TV+ P + Q + L QN
Sbjct: 5 LGVKVGMTRIFR--------DDRAVPVTVILAGPCPVVQRRTPEKDGYTAVQLGFLPQNP 56
Query: 232 ILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRK-----GV 286
+ + K+ + ++ I ++ + ++ G K GV
Sbjct: 57 KRVNRPLKGHFAKAGVEPVRILREIRDFNPEGDTVTVEIFKPGERVDVTGTSKGRGFAGV 116
Query: 287 QLLYSLEELPR 297
++ P
Sbjct: 117 MKRWNFAGGPD 127
>d1jjcb2 a.6.1.1 (B:400-474) Domains B1 and B5 of PheRS-beta, PheT
{Thermus thermophilus [TaxId: 274]}
Length = 75
Score = 25.2 bits (55), Expect = 4.0
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 60 PPSKIPLRPRKIRKL 74
PP IP RP +L
Sbjct: 1 PPEAIPFRPEYANRL 15
>d2b7oa1 c.1.10.8 (A:1-462) Probable DAHP synthetase AroG,
phenylalanine-repressible {Mycobacterium tuberculosis
[TaxId: 1773]}
Length = 462
Score = 26.8 bits (59), Expect = 5.0
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 7/71 (9%)
Query: 77 DNGVDQASSSQPTESSKATSAKSTKSRAIQQQ-----QQTLTVPRIIAR--PLSSEGEVE 129
D +DQ S P + T + ++ QQ Q L + ++ P++ E+
Sbjct: 6 DIPIDQLPSLPPLPTDLRTRLDAALAKPAAQQPTWPADQALAMRTVLESVPPVTVPSEIV 65
Query: 130 AAIRHLRNADR 140
L +
Sbjct: 66 RLQEQLAQVAK 76
>d2ixma1 a.268.1.1 (A:23-322) Serine/threonine-protein phosphatase
2A regulatory subunit B', PTPA {Human (Homo sapiens)
[TaxId: 9606]}
Length = 300
Score = 26.7 bits (59), Expect = 5.3
Identities = 12/40 (30%), Positives = 15/40 (37%)
Query: 117 IIARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDS 156
+ + L+ E V AI L L ID PP S
Sbjct: 37 VKGKKLTFEYRVSEAIEKLLALLNTLDRWIDETPPVDQPS 76
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
0.314 0.129 0.370
Gapped
Lambda K H
0.267 0.0464 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,273,608
Number of extensions: 56311
Number of successful extensions: 189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 182
Number of HSP's successfully gapped: 14
Length of query: 373
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 286
Effective length of database: 1,213,086
Effective search space: 346942596
Effective search space used: 346942596
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.2 bits)