RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 001299
(1105 letters)
>d1pu6a_ a.96.1.5 (A:) 3-Methyladenine DNA glycosylase III (MagIII)
{Helicobacter pylori [TaxId: 210]}
Length = 217
Score = 88.3 bits (218), Expect = 3e-20
Identities = 29/189 (15%), Positives = 69/189 (36%), Gaps = 16/189 (8%)
Query: 560 SDNTVQQDWDLLRRIYSTGEERSHDKMDSVDWEAVRCADESEIADAIKERGQQNIIAGRI 619
V + + L+ + + D ++ + + + S++A+ ++ G N A R+
Sbjct: 43 KFEAVLKSLENLKNAFILEND------DEINLKKIAYIEFSKLAECVRPSGFYNQKAKRL 96
Query: 620 KEFLNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVN 679
+ +++ + N + +E+LLD +G+G +S + + + VD
Sbjct: 97 IDLSGNILKDF-----QSFENFKQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKY 151
Query: 680 VGRIAVRLGWVPLQPLPGDLHIHLLKEYPVMDKIQMYLWPRLCYLDQKTLY-ELHYQMIT 738
+LG +L K + + L + LY H +++
Sbjct: 152 SYLFLKKLGIEI--EDYDELQHFFEKGVQ--ENLNSALALYENTISLAQLYARFHGKIVE 207
Query: 739 FGKIFCKKR 747
F K + +
Sbjct: 208 FSKQKLELK 216
>d1orna_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId:
562]}
Length = 214
Score = 59.6 bits (143), Expect = 2e-10
Identities = 33/123 (26%), Positives = 55/123 (44%), Gaps = 19/123 (15%)
Query: 641 VPPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLH 700
VP D+ + L+ + G+G K+ V ++ A VD +V R++ RLG+ ++
Sbjct: 105 VPRDR--DELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVE 162
Query: 701 IHLLKEYPVMDKIQMYLWPRLCYLDQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGEC 760
L+K P + H++MI FG+ CK +SP C +CPL C
Sbjct: 163 KTLMKIIPKEEW-----------------SITHHRMIFFGRYHCKAQSPQCPSCPLLHLC 205
Query: 761 KHF 763
+
Sbjct: 206 REG 208
>d1kg2a_ a.96.1.2 (A:) Catalytic domain of MutY {Escherichia coli
[TaxId: 562]}
Length = 224
Score = 59.6 bits (143), Expect = 2e-10
Identities = 31/173 (17%), Positives = 59/173 (34%), Gaps = 19/173 (10%)
Query: 595 RCADESEIADAIKERGQQNIIAGRIKEFLNRLVELHGSIDLEWLRNV-PPDKVKEYLLDI 653
R +++A+A + + R LH + + + E + +
Sbjct: 58 RFPTVTDLANAPLDEVLHLW---TGLGYYARARNLHKAAQQVATLHGGKFPETFEEVAAL 114
Query: 654 EGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLHIHLLKEYPVMDKI 713
G+G + + LSL +D NV R+ R V +P ++
Sbjct: 115 PGVGRSTAGAILSLSLGKHFPILDGNVKRVLARCYAVS--------------GWPGKKEV 160
Query: 714 QMYLWPRLCYL-DQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGECKHFAS 765
+ LW + + + M+ G + C + P C CPL+ C A+
Sbjct: 161 ENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSLCPLQNGCIAAAN 213
>d2abka_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId:
562]}
Length = 211
Score = 57.3 bits (137), Expect = 1e-09
Identities = 32/178 (17%), Positives = 58/178 (32%), Gaps = 27/178 (15%)
Query: 586 MDSVDWEAVRCADESEIADAIKERGQQNIIAGRIKEFLNRLVELHGSIDLEWLRNVPPDK 645
+ A+ + IK G N A I + L+E H E
Sbjct: 56 PVANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPED-------- 107
Query: 646 VKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLHIHLLK 705
+ L + G+G K+ V + VD ++ R+ R + P
Sbjct: 108 -RAALEALPGVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAP-------------- 152
Query: 706 EYPVMDKIQMYLWPRLCYLDQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGECKHF 763
++ L + + + H+ +I G+ C R P CG+C + C++
Sbjct: 153 ----GKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCIIEDLCEYK 206
>d1keaa_ a.96.1.2 (A:) Thymine-DNA glycosylase {Archaeon
Methanobacterium thermoformicicum [TaxId: 145262]}
Length = 217
Score = 54.6 bits (130), Expect = 9e-09
Identities = 12/65 (18%), Positives = 23/65 (35%), Gaps = 1/65 (1%)
Query: 700 HIHLLKEYPVMDKIQMYLWPRLCYL-DQKTLYELHYQMITFGKIFCKKRSPNCGACPLRG 758
+ + Y ++ LW L + + ++ F I C R P C C +
Sbjct: 150 NRYFGGSYENLNYNHKALWELAETLVPGGKCRDFNLGLMDFSAIICAPRKPKCEKCGMSK 209
Query: 759 ECKHF 763
C ++
Sbjct: 210 LCSYY 214
>d1rrqa1 a.96.1.2 (A:9-229) Catalytic domain of MutY {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 221
Score = 54.6 bits (130), Expect = 1e-08
Identities = 25/128 (19%), Positives = 45/128 (35%), Gaps = 13/128 (10%)
Query: 642 PPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVNVGRIAVRLGWVPLQPLPGDLHI 701
+ ++G+G +V V L+ V+ NV R+ RL V
Sbjct: 101 KVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVNGNVMRVLSRLFLVT---------- 150
Query: 702 HLLKEYPVMDKIQMYLWPRLCYLDQKTLYELHYQMITFGKIFCKKRSPNCGACPLRGECK 761
+ + + + + + +I G + C R P+C CP++ C+
Sbjct: 151 ---DDIAKCSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLLCPVQAYCQ 207
Query: 762 HFASAVAS 769
FA VA
Sbjct: 208 AFAEGVAE 215
>d2noha1 a.96.1.3 (A:136-325) 8-oxoguanine glycosylase {Human (Homo
sapiens) [TaxId: 9606]}
Length = 190
Score = 49.4 bits (117), Expect = 4e-07
Identities = 23/137 (16%), Positives = 51/137 (37%), Gaps = 8/137 (5%)
Query: 559 NSDNTVQQDWDLLRRIYST--GEERSHDKMDSVDWEAVRCADESEIADAIKERGQQNIIA 616
N+ + + L + + + +A+ + + + A
Sbjct: 15 NNIARITGMVERLCQAFGPRLIQLDDVTYHGFPSLQALAGPEVEAHLRKLGLGYR----A 70
Query: 617 GRIKEFLNRLVELHGSI-DLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHI-AF 674
+ ++E G + L+ LR ++ + L + G+G + +C+ L++L A
Sbjct: 71 RYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTQVADCICLMALDKPQAV 130
Query: 675 PVDVNVGRIAVRLGWVP 691
PVDV++ IA R
Sbjct: 131 PVDVHMWHIAQRDYSWH 147
>d1mhyb_ a.25.1.2 (B:) Methane monooxygenase hydrolase beta subunit
{Methylosinus trichosporium [TaxId: 426]}
Length = 383
Score = 32.5 bits (74), Expect = 0.25
Identities = 16/110 (14%), Positives = 31/110 (28%), Gaps = 5/110 (4%)
Query: 532 SPRGKGKSKEYKSDMKNDRTKKTTPKKNSDNTVQQDWDLLRRIYSTGEERSHDKMDSVDW 591
PR K EY+ + + P + DW ++ + DW
Sbjct: 33 QPRWK-PLSEYE-QLSCYA--QPNPDWIAGGLDWGDWTQKFHGGRPSWGNESTELRTTDW 88
Query: 592 EAVRCADESEIADAIKERGQQNIIAGRIKEFLNRLVELHGSIDLEWLRNV 641
R +K++ ++ R + +ID W +
Sbjct: 89 YRHRDPARRWHHPYVKDKSEEARYTQRFLAAYSS-EGSIRTIDPYWRDEI 137
>d1s0aa_ c.67.1.4 (A:) Adenosylmethionine-8-amino-7-oxononanoate
aminotransferase, BioA {Escherichia coli [TaxId: 562]}
Length = 429
Score = 32.3 bits (72), Expect = 0.32
Identities = 35/249 (14%), Positives = 67/249 (26%), Gaps = 21/249 (8%)
Query: 565 QQDWDLLRRIYSTGEERSHDKMDSVDWEAVRCADESEIADAIKERGQQNIIAGRI--KEF 622
+L + + D+ D V + + A EIA I E Q R+ E+
Sbjct: 168 YLPENLFAPAPQSRMDGEWDERDMVGFARLMAAHRHEIAAVIIEPIVQGAGGMRMYHPEW 227
Query: 623 LNRLVELHGSIDLEWLRNVPPDKVKEYLLDIEGLGLKSVECVRLLSLQHIAFPVDVNVGR 682
L R+ ++ + D++ L + L +
Sbjct: 228 LKRIRKICD----REGILLIADEIATGFGRTGKLFACEHAEIAPDILCLGKALTGGTMTL 283
Query: 683 IAVRLGWVPLQPLPGDLHIHLLKEYPVMDKIQMYLWPRLCYLDQKTLYELHYQMITFGKI 742
A + + P + L + Q+
Sbjct: 284 SATLTTREVAETISNG-EAGCFMHGPTFMGNPLACAAANASLAILESGDWQQQVADIEVQ 342
Query: 743 FCK-----KRSPNCGACPLRG-----ECKHFASAVASARFALPGPSEKGIVTSEFGNGIG 792
+ + + + G E H + A +F + E+G+ FG I
Sbjct: 343 LREQLAPARDAEMVADVRVLGAIGVVETTHPVNMAALQKFFV----EQGVWIRPFGKLIY 398
Query: 793 QSPPLVVNP 801
PP ++ P
Sbjct: 399 LMPPYIILP 407
>d2gjca1 c.3.1.6 (A:16-326) Thiazole biosynthetic enzyme Thi4
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 311
Score = 28.7 bits (63), Expect = 3.9
Identities = 8/42 (19%), Positives = 12/42 (28%)
Query: 835 QCSESPESEIDDDDFSIGDIEEIPTLRLQEREFKENFPNFME 876
C + D DF I E R + ++ F
Sbjct: 9 HCLSDIVKKEDWSDFKFAPIRESTVSRAMTSRYFKDLDKFAV 50
>d2ns9a1 d.129.3.10 (A:10-156) Hypothetical protein APE2225
{Aeropyrum pernix [TaxId: 56636]}
Length = 147
Score = 27.6 bits (60), Expect = 5.5
Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 4/30 (13%)
Query: 627 VELHGSIDLEWLRNVPPDKVKEYLLDIEGL 656
V GS ++ + P++V E+L D +
Sbjct: 3 VRYEGSFEV----SKTPEEVFEFLTDPKRF 28
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
0.316 0.132 0.395
Gapped
Lambda K H
0.267 0.0437 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 4,034,911
Number of extensions: 193024
Number of successful extensions: 453
Number of sequences better than 10.0: 1
Number of HSP's gapped: 451
Number of HSP's successfully gapped: 13
Length of query: 1105
Length of database: 2,407,596
Length adjustment: 95
Effective length of query: 1010
Effective length of database: 1,103,246
Effective search space: 1114278460
Effective search space used: 1114278460
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: 58 (26.9 bits)