RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9547
(363 letters)
>d1rrqa1 a.96.1.2 (A:9-229) Catalytic domain of MutY {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 221
Score = 186 bits (473), Expect = 3e-58
Identities = 105/217 (48%), Positives = 146/217 (67%)
Query: 13 FQESILTWYKQNARQLPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIKTYPTIKDFA 72
FQ +L W+ + R LPWR+ +PY VW+SEVMLQQT+V+TV+PY+E+FI +PT++ A
Sbjct: 5 FQRDLLDWFARERRDLPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALA 64
Query: 73 FDTEDNVLKMWEGLGYYSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKGVGDYTAGALA 132
ED VLK WEGLGYYSRVRN A ++V ++GG+VP D + +KGVG YT GA+
Sbjct: 65 DADEDEVLKAWEGLGYYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVL 124
Query: 133 SICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTNAREFNQALMD 192
S+ Y +P PAV+GNV R+ RLF + DDI+K T+ +E +V + M+ N FN+AL++
Sbjct: 125 SLAYGVPEPAVNGNVMRVLSRLFLVTDDIAKCSTRKRFEQIVREIMAYENPGAFNEALIE 184
Query: 193 LGATVCLFKNPKCKECPLSRFCSAYKNNTIENFPVKL 229
LGA VC + P C CP+ +C A+ E PVK+
Sbjct: 185 LGALVCTPRRPSCLLCPVQAYCQAFAEGVAEELPVKM 221
>d1kg2a_ a.96.1.2 (A:) Catalytic domain of MutY {Escherichia coli
[TaxId: 562]}
Length = 224
Score = 170 bits (431), Expect = 5e-52
Identities = 88/217 (40%), Positives = 122/217 (56%), Gaps = 1/217 (0%)
Query: 13 FQESILTWYKQNARQ-LPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIKTYPTIKDF 71
F +L WY + R+ LPW+ PY VW+SEVMLQQTQV TV+PY+E+F+ +PT+ D
Sbjct: 6 FSAQVLDWYDKYGRKTLPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDL 65
Query: 72 AFDTEDNVLKMWEGLGYYSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKGVGDYTAGAL 131
A D VL +W GLGYY+R RN +QV GG+ P +++ ++ GVG TAGA+
Sbjct: 66 ANAPLDEVLHLWTGLGYYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAI 125
Query: 132 ASICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTNAREFNQALM 191
S+ P +DGNV R+ R + + K + + +L + FNQA+M
Sbjct: 126 LSLSLGKHFPILDGNVKRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMM 185
Query: 192 DLGATVCLFKNPKCKECPLSRFCSAYKNNTIENFPVK 228
DLGA +C PKC CPL C A NN+ +P K
Sbjct: 186 DLGAMICTRSKPKCSLCPLQNGCIAAANNSWALYPGK 222
>d1keaa_ a.96.1.2 (A:) Thymine-DNA glycosylase {Archaeon
Methanobacterium thermoformicicum [TaxId: 145262]}
Length = 217
Score = 155 bits (392), Expect = 2e-46
Identities = 64/216 (29%), Positives = 105/216 (48%), Gaps = 2/216 (0%)
Query: 4 NLSAKEILAFQESILTWYKQNARQLPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIK 63
+ + K+ F +ILT++ + R PWR + +PY + I+E++L++T V Y+KF
Sbjct: 1 DATNKKRKVFVSTILTFWNTDRRDFPWRHTRDPYVILITEILLRRTTAGHVKKIYDKFFV 60
Query: 64 TYPTIKDFAFDTEDNVLK-MWEGLGYYSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKG 122
Y +D + + K + E R + R VI +GG VPR++K +L + G
Sbjct: 61 KYKCFEDILKTPKSEIAKDIKEIGLSNQRAEQLKELARVVINDYGGRVPRNRKAILDLPG 120
Query: 123 VGDYTAGALASICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTN 182
VG YT A+ + + VD N R+ R F + K + L +
Sbjct: 121 VGKYTCAAVMCLAFGKKAAMVDANFVRVINRYFGGSYENLNYNHKAL-WELAETLVPGGK 179
Query: 183 AREFNQALMDLGATVCLFKNPKCKECPLSRFCSAYK 218
R+FN LMD A +C + PKC++C +S+ CS Y+
Sbjct: 180 CRDFNLGLMDFSAIICAPRKPKCEKCGMSKLCSYYE 215
>d1orna_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId:
562]}
Length = 214
Score = 146 bits (368), Expect = 7e-43
Identities = 53/218 (24%), Positives = 97/218 (44%), Gaps = 8/218 (3%)
Query: 5 LSAKEILAFQESILTWYKQNARQLPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIKT 64
L+ ++I + + + +L R NP+ + I+ V+ Q V ++ +
Sbjct: 2 LTKQQIRYCLDEMAKMFPDAHCELVHR---NPFELLIAVVLSAQCTDALVNKVTKRLFEK 58
Query: 65 YPTIKDFAF-DTEDNVLKMWEGLGYYSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKGV 123
Y T D+ E+ + Y ++ RN Q C +I+++ GEVPRD+ +L+ + GV
Sbjct: 59 YRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNGEVPRDRDELMKLPGV 118
Query: 124 GDYTAGALASICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTNA 183
G TA + S+ + +P AVD +V R+ RL D + + E + K + +
Sbjct: 119 GRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWD----DSVLEVEKTLMKIIPKEEW 174
Query: 184 REFNQALMDLGATVCLFKNPKCKECPLSRFCSAYKNNT 221
+ ++ G C ++P+C CPL C K
Sbjct: 175 SITHHRMIFFGRYHCKAQSPQCPSCPLLHLCREGKKRM 212
>d2abka_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId:
562]}
Length = 211
Score = 127 bits (319), Expect = 1e-35
Identities = 47/209 (22%), Positives = 83/209 (39%), Gaps = 6/209 (2%)
Query: 15 ESILTWYKQNARQLPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIKTYPTIKDFAFD 74
E + + N ++P+ + I+ ++ Q +V K T
Sbjct: 8 EILTRLRENNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLEL 67
Query: 75 TEDNVLKMWEGLGY-YSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKGVGDYTAGALAS 133
+ V + +G S+ N CR ++EQ GEVP D+ L ++ GVG TA + +
Sbjct: 68 GVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLN 127
Query: 134 ICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTNAREFNQALMDL 193
+ PT AVD ++FR+ R + GK E + K + + + L+
Sbjct: 128 TAFGWPTIAVDTHIFRVCNRT-----QFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILH 182
Query: 194 GATVCLFKNPKCKECPLSRFCSAYKNNTI 222
G C+ + P+C C + C + I
Sbjct: 183 GRYTCIARKPRCGSCIIEDLCEYKEKVDI 211
>d1pu6a_ a.96.1.5 (A:) 3-Methyladenine DNA glycosylase III (MagIII)
{Helicobacter pylori [TaxId: 210]}
Length = 217
Score = 114 bits (287), Expect = 5e-31
Identities = 27/212 (12%), Positives = 67/212 (31%), Gaps = 25/212 (11%)
Query: 9 EILAFQESILTWYKQNARQLPWRESNNPYYVWISEVMLQQTQVKTV-------LPYYEKF 61
EIL +++ + W + + + V+ Q T+ + V +
Sbjct: 5 EIL---KALKSLDLLKNAPAWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILE 61
Query: 62 IKTYPTIKDFAFDTEDNVLKMWEGLGYY-SRVRNFQAGCRQVIEQFG----GEVPRDKKQ 116
+K A+ + + G+Y + + +++ F + ++
Sbjct: 62 NDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREW 121
Query: 117 LLSIKGVGDYTAGALASICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKV-------V 169
LL KG+G +A A+ VD + +L +D + + +
Sbjct: 122 LLDQKGIGKESADAILCYACAKEVMVVDKYSYLFLKKLGIEIEDYDELQHFFEKGVQENL 181
Query: 170 YETLVSKTMSQTNAR---EFNQALMDLGATVC 198
L + + A+ F+ +++
Sbjct: 182 NSALALYENTISLAQLYARFHGKIVEFSKQKL 213
>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 = 106 bits (265), Expect = 1e-28
Identities = 23/139 (16%), Positives = 57/139 (41%), Gaps = 8/139 (5%)
Query: 26 RQLPWRESNNPYYVWISEVMLQQTQVKTVLPYYEKFIKTYPTIKDFAFDTEDNVLKMWEG 85
+ ++P+ + I+ + L +T K +P +F++ YP+ + +V ++ +
Sbjct: 10 NLVQEILFHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKP 69
Query: 86 LGYYSRVRNFQAGCRQVIEQFGGEVPRDKKQLLSIKGVGDYTAGALASICYN--IPTPAV 143
LG Y + +I+ + + + + + G+G Y + C N
Sbjct: 70 LGLYDL------RAKTIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEWKQVHPE 123
Query: 144 DGNVFRIYGRLFEIEDDIS 162
D + + + L+E + +S
Sbjct: 124 DHKLNKYHDWLWENHEKLS 142
>d2noha1 a.96.1.3 (A:136-325) 8-oxoguanine glycosylase {Human (Homo
sapiens) [TaxId: 9606]}
Length = 190
Score = 73.3 bits (179), Expect = 5e-16
Identities = 23/159 (14%), Positives = 47/159 (29%), Gaps = 29/159 (18%)
Query: 35 NPYYVWISEVMLQQTQVKTVLPYYEKFIKTY---------------PTIKDFAFDTEDNV 79
+P S + + + E+ + + P+++ A +
Sbjct: 1 DPIECLFSFICSSNNNIARITGMVERLCQAFGPRLIQLDDVTYHGFPSLQALAGPEVEAH 60
Query: 80 LKMWEGLGYYSRVRNFQAGCRQVI----------EQFGGEVPRDKKQLLSIKGVGDYTAG 129
L+ R R A R ++ + K L + GVG A
Sbjct: 61 LRKLG---LGYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTQVAD 117
Query: 130 ALASICYNIPTP-AVDGNVFRIYGRLFEIEDDISKGKTK 167
+ + + P VD +++ I R + S+ K
Sbjct: 118 CICLMALDKPQAVPVDVHMWHIAQRDYSWHPTTSQAKGP 156
>d1rrqa2 d.113.1.3 (A:234-360) Adenine glycosylase MutY, C-terminal
domain {Bacillus stearothermophilus [TaxId: 1422]}
Length = 127
Score = 69.4 bits (169), Expect = 4e-15
Identities = 44/126 (34%), Positives = 68/126 (53%), Gaps = 4/126 (3%)
Query: 234 VKDVFLLTVVVKTDTNKYLIQKRPTTGLLSNFYMFLSFESDTPYTSQ--VEFLSENLPFK 291
VK V L V+ D + LI+KR +TGLL+N + F S E+D + + + E +
Sbjct: 1 VKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWEFPSCETDGADGKEKLEQMVGEQYGLQ 60
Query: 292 VNLNEKCLGNVKHVFSHLKWNMDVYSGTAKEKTIPANKTYKLITETQMKKYAFPVPYQKV 351
V L E + +H FSHL W + V+ G P + Y+L E ++K YAFPV +Q+V
Sbjct: 61 VELTEPI-VSFEHAFSHLVWQLTVFPGRLVHGG-PVEEPYRLAPEDELKAYAFPVSHQRV 118
Query: 352 WKLFTK 357
W+ + +
Sbjct: 119 WREYKE 124
>d1x51a1 d.113.1.3 (A:8-149) A/G-specific adenine DNA glycosylase
{Human (Homo sapiens) [TaxId: 9606]}
Length = 142
Score = 61.5 bits (148), Expect = 3e-12
Identities = 26/141 (18%), Positives = 52/141 (36%), Gaps = 9/141 (6%)
Query: 226 PVKLGKTKVKDVFLLTVVVK---TDTNKYLIQKRPTTGLLSNFYMFLSFESDTPYTSQVE 282
P K + ++ T V++ + L+ +RP +GLL+ + F S + Q +
Sbjct: 1 PRKASRKPPREESSATCVLEQPGALGAQILLVQRPNSGLLAGLWEFPSVTWEPSEQLQRK 60
Query: 283 FLSENLPFKVNLNEKCLGNVKHV----FSHLKWNMDVYSGTAKEKTIPA--NKTYKLITE 336
L + L FSH+K VY + +T + +T+
Sbjct: 61 ALLQELQRWAGPLPATHLRHLGEVVHTFSHIKLTYQVYGLALEGQTPVTTVPPGARWLTQ 120
Query: 337 TQMKKYAFPVPYQKVWKLFTK 357
+ A +KV++++
Sbjct: 121 EEFHTAAVSTAMKKVFRVYQG 141
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 56
Score = 27.8 bits (62), Expect = 0.35
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 6/58 (10%)
Query: 116 QLLSIKGVGDYTAGALASICYNIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETL 173
L +I+GVG L + + IS+G + ++ +L
Sbjct: 3 SLETIEGVGPKRRQMLLKYMGGL------QGLRNASVEEIAKVPGISQGLAEKIFWSL 54
>d2e1fa1 a.60.8.1 (A:1142-1235) Werner syndrome ATP-dependent
helicase, WRN {Human (Homo sapiens) [TaxId: 9606]}
Length = 94
Score = 27.1 bits (60), Expect = 1.2
Identities = 4/26 (15%), Positives = 10/26 (38%)
Query: 100 RQVIEQFGGEVPRDKKQLLSIKGVGD 125
+++ P + + I GV +
Sbjct: 40 NKILVDMAKMRPTTVENVKRIDGVSE 65
>d1puna_ d.113.1.1 (A:) Nucleoside triphosphate pyrophosphorylase
(MutT) {Escherichia coli [TaxId: 562]}
Length = 129
Score = 26.0 bits (56), Expect = 4.6
Identities = 11/107 (10%), Positives = 30/107 (28%), Gaps = 4/107 (3%)
Query: 243 VVKTDTNKYLIQKRPTTGLLSNFYMF----LSFESDTPYTSQVEFLSENLPFKVNLNEKC 298
+++ + N+ I +R ++N F + E E + +
Sbjct: 10 IIRNENNEIFITRRAADAHMANKLEFPGGKIEMGETPEQAVVRELQEEVGITPQHFSLFE 69
Query: 299 LGNVKHVFSHLKWNMDVYSGTAKEKTIPANKTYKLITETQMKKYAFP 345
+ H+ + E + + ++ + FP
Sbjct: 70 KLEYEFPDRHITLWFWLVERWEGEPWGKEGQPGEWMSLVGLNADDFP 116
>d1wuda1 a.60.8.1 (A:530-606) HRDC domain from RecQ helicase
{Escherichia coli [TaxId: 562]}
Length = 77
Score = 25.1 bits (55), Expect = 4.9
Identities = 6/25 (24%), Positives = 13/25 (52%)
Query: 101 QVIEQFGGEVPRDKKQLLSIKGVGD 125
+ + ++P ++LS+ GVG
Sbjct: 32 ATLIEMAEQMPITASEMLSVNGVGM 56
>d2p06a1 a.204.1.3 (A:1-84) Hypothetical protein AF0060
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 84
Score = 24.6 bits (53), Expect = 6.3
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 137 NIPTPAVDGNVFRIYGRLFEIEDDISKGKTKVVYETLVSKTMSQTN 182
N P P D + R+ RLFE D++ + K +E L + + N
Sbjct: 27 NTPRPWFDFSEERLLSRLFEEMDELREAVEKEDWENLRDELLDVAN 72
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
0.319 0.134 0.401
Gapped
Lambda K H
0.267 0.0552 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,323,791
Number of extensions: 61218
Number of successful extensions: 159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 19
Length of query: 363
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 277
Effective length of database: 1,226,816
Effective search space: 339828032
Effective search space used: 339828032
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: 53 (24.6 bits)