Query 002141
Match_columns 960
No_of_seqs 356 out of 1878
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 14:05:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002141.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/002141hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1orn_A Endonuclease III; DNA r 100.0 7.4E-36 2.5E-40 307.9 18.3 175 408-617 40-214 (226)
2 2abk_A Endonuclease III; DNA-r 100.0 1.1E-35 3.6E-40 302.8 16.7 173 407-615 35-207 (211)
3 1kg2_A A/G-specific adenine gl 100.0 5.6E-35 1.9E-39 300.4 17.8 184 408-630 37-224 (225)
4 1kea_A Possible G-T mismatches 100.0 6.3E-35 2.2E-39 299.6 16.4 176 407-617 41-219 (221)
5 3n5n_X A/G-specific adenine DN 100.0 1.2E-34 3.9E-39 309.5 18.0 177 408-617 56-234 (287)
6 3fsp_A A/G-specific adenine gl 100.0 2.4E-34 8.2E-39 313.7 17.3 186 408-632 46-235 (369)
7 1pu6_A 3-methyladenine DNA gly 99.9 3E-28 1E-32 250.0 12.5 169 407-593 36-212 (218)
8 3fhf_A Mjogg, N-glycosylase/DN 99.9 1.6E-23 5.6E-28 215.6 12.0 140 407-597 50-196 (214)
9 3fhg_A Mjogg, N-glycosylase/DN 99.9 2.6E-23 8.9E-28 211.8 10.0 147 408-597 40-189 (207)
10 2yg9_A DNA-3-methyladenine gly 99.9 2E-21 6.8E-26 200.6 14.6 144 408-570 68-213 (225)
11 4b21_A Probable DNA-3-methylad 99.9 1.6E-21 5.4E-26 202.6 13.6 155 408-571 67-224 (232)
12 2h56_A DNA-3-methyladenine gly 99.9 1.5E-21 5.1E-26 202.3 12.6 140 408-560 58-201 (233)
13 3n0u_A Probable N-glycosylase/ 99.8 5.8E-21 2E-25 197.2 13.0 115 407-543 56-174 (219)
14 3s6i_A DNA-3-methyladenine gly 99.8 4.6E-20 1.6E-24 190.9 16.0 154 408-571 57-213 (228)
15 2xhi_A N-glycosylase/DNA lyase 99.8 3.9E-20 1.4E-24 202.9 11.2 128 408-542 159-298 (360)
16 3i0w_A 8-oxoguanine-DNA-glycos 99.8 1.4E-19 4.7E-24 193.1 13.8 141 409-557 123-269 (290)
17 1mpg_A ALKA, 3-methyladenine D 99.8 1.1E-17 3.7E-22 177.2 16.7 149 408-570 120-273 (282)
18 4e9f_A Methyl-CPG-binding doma 99.7 1.6E-18 5.4E-23 171.7 9.3 106 408-538 38-145 (161)
19 2jhn_A ALKA, 3-methyladenine D 99.7 2.8E-18 9.5E-23 183.1 11.2 150 408-569 125-282 (295)
20 1x2i_A HEF helicase/nuclease; 84.1 1.1 3.7E-05 37.6 4.5 39 474-518 27-65 (75)
21 2a1j_B DNA excision repair pro 82.0 1.6 5.5E-05 38.7 5.0 37 476-518 47-83 (91)
22 2ofk_A 3-methyladenine DNA gly 81.9 1.4 5E-05 44.9 5.2 64 414-484 44-112 (183)
23 1z00_A DNA excision repair pro 81.7 1.7 5.9E-05 38.2 5.1 39 474-518 32-70 (89)
24 1kft_A UVRC, excinuclease ABC 81.4 1.3 4.5E-05 38.2 4.1 36 477-518 40-75 (78)
25 3vdp_A Recombination protein R 78.8 1.4 4.8E-05 45.9 4.0 28 494-521 21-48 (212)
26 4glx_A DNA ligase; inhibitor, 76.6 3.5 0.00012 48.6 6.9 52 474-538 525-576 (586)
27 1vdd_A Recombination protein R 76.1 1.8 6.3E-05 45.5 4.0 27 495-521 8-34 (228)
28 2jg6_A DNA-3-methyladenine gly 75.6 6.1 0.00021 40.5 7.5 98 414-518 44-168 (186)
29 2fmp_A DNA polymerase beta; nu 74.0 7.1 0.00024 42.7 8.1 57 451-518 20-76 (335)
30 2owo_A DNA ligase; protein-DNA 73.4 3.9 0.00013 48.8 6.3 82 441-538 470-576 (671)
31 2fmp_A DNA polymerase beta; nu 71.4 7.6 0.00026 42.4 7.6 52 460-516 63-115 (335)
32 2bcq_A DNA polymerase lambda; 69.7 8.5 0.00029 42.1 7.5 56 451-518 21-76 (335)
33 2ztd_A Holliday junction ATP-d 69.4 2.7 9.4E-05 43.5 3.4 25 498-522 122-146 (212)
34 2ihm_A POL MU, DNA polymerase 67.4 6.4 0.00022 43.5 6.0 56 451-518 25-80 (360)
35 2duy_A Competence protein come 67.1 2.8 9.5E-05 35.8 2.4 21 498-518 26-46 (75)
36 2ztd_A Holliday junction ATP-d 64.9 4 0.00014 42.3 3.5 45 496-541 85-132 (212)
37 2duy_A Competence protein come 63.6 1.9 6.4E-05 36.9 0.6 55 442-518 18-72 (75)
38 1jms_A Terminal deoxynucleotid 63.1 7.5 0.00026 43.3 5.5 60 451-522 44-104 (381)
39 2bgw_A XPF endonuclease; hydro 62.1 8.8 0.0003 38.8 5.4 38 475-518 176-213 (219)
40 2bcq_A DNA polymerase lambda; 61.3 19 0.00066 39.3 8.2 48 461-515 64-112 (335)
41 2ihm_A POL MU, DNA polymerase 59.3 7.1 0.00024 43.1 4.4 51 461-516 68-119 (360)
42 2kp7_A Crossover junction endo 57.7 22 0.00075 32.0 6.6 40 466-516 36-75 (87)
43 1ixr_A Holliday junction DNA h 55.0 20 0.00068 36.5 6.5 25 498-522 106-130 (191)
44 1z00_B DNA repair endonuclease 53.8 9.6 0.00033 34.1 3.5 23 495-517 14-36 (84)
45 1cuk_A RUVA protein; DNA repai 53.5 16 0.00054 37.5 5.6 21 498-518 107-127 (203)
46 2edu_A Kinesin-like protein KI 53.4 16 0.00053 32.9 4.9 59 442-518 31-89 (98)
47 1ixr_A Holliday junction DNA h 53.1 8.1 0.00028 39.3 3.3 23 496-518 69-91 (191)
48 1dgs_A DNA ligase; AMP complex 53.0 12 0.00041 44.7 5.2 52 474-538 520-571 (667)
49 3b0x_A DNA polymerase beta fam 52.3 19 0.00067 41.7 6.7 22 497-518 91-112 (575)
50 1jms_A Terminal deoxynucleotid 51.4 11 0.00039 41.9 4.4 51 461-516 87-138 (381)
51 4gfj_A Topoisomerase V; helix- 51.3 8.1 0.00028 44.2 3.2 71 441-516 540-639 (685)
52 2edu_A Kinesin-like protein KI 51.0 9.4 0.00032 34.4 3.1 21 498-518 39-59 (98)
53 2a1j_A DNA repair endonuclease 50.9 9.5 0.00033 32.1 2.9 20 498-517 3-22 (63)
54 1cuk_A RUVA protein; DNA repai 49.2 10 0.00036 38.8 3.4 23 496-518 70-92 (203)
55 3sgi_A DNA ligase; HET: DNA AM 48.1 3.8 0.00013 48.5 0.0 37 476-518 544-580 (615)
56 1z00_A DNA excision repair pro 45.7 12 0.00042 32.7 2.9 24 497-521 17-40 (89)
57 3arc_U Photosystem II 12 kDa e 44.3 4.6 0.00016 37.2 -0.1 53 444-518 19-71 (97)
58 3c1y_A DNA integrity scanning 44.0 19 0.00066 40.3 4.8 38 473-516 327-364 (377)
59 1s5l_U Photosystem II 12 kDa e 43.7 7.7 0.00026 37.9 1.4 51 445-517 57-107 (134)
60 4gfj_A Topoisomerase V; helix- 43.5 33 0.0011 39.4 6.5 79 438-516 395-485 (685)
61 2i5h_A Hypothetical protein AF 42.7 9.2 0.00031 39.7 1.8 32 498-529 131-162 (205)
62 2a1j_B DNA excision repair pro 42.5 14 0.00049 32.5 2.9 24 497-521 30-53 (91)
63 1wcn_A Transcription elongatio 40.7 23 0.00078 30.6 3.7 37 437-476 26-62 (70)
64 1x2i_A HEF helicase/nuclease; 40.5 17 0.00058 30.2 2.9 24 497-521 12-35 (75)
65 1s5l_U Photosystem II 12 kDa e 35.9 12 0.0004 36.7 1.2 20 498-517 62-81 (134)
66 3arc_U Photosystem II 12 kDa e 35.6 11 0.00037 34.8 0.9 20 498-517 25-44 (97)
67 1xqo_A 8-oxoguanine DNA glycos 34.8 1.3E+02 0.0044 32.3 9.0 123 451-594 86-228 (256)
68 1kft_A UVRC, excinuclease ABC 33.7 11 0.00036 32.4 0.5 21 498-518 23-43 (78)
69 1vq8_Y 50S ribosomal protein L 29.5 11 0.00039 39.6 0.0 44 498-541 14-57 (241)
70 1b22_A DNA repair protein RAD5 28.6 79 0.0027 29.8 5.6 32 484-519 47-78 (114)
71 1z3e_B DNA-directed RNA polyme 27.7 70 0.0024 28.0 4.7 31 482-516 28-58 (73)
72 2w9m_A Polymerase X; SAXS, DNA 27.3 26 0.0009 40.7 2.5 38 860-904 482-520 (578)
73 3b0x_A DNA polymerase beta fam 25.9 36 0.0012 39.4 3.3 57 450-516 89-145 (575)
74 2w9m_A Polymerase X; SAXS, DNA 24.5 34 0.0012 39.8 2.7 22 497-518 95-116 (578)
75 3gfk_B DNA-directed RNA polyme 23.4 78 0.0027 28.3 4.2 28 485-516 38-65 (79)
76 1wcn_A Transcription elongatio 22.8 1.2E+02 0.0042 26.0 5.3 34 482-519 27-60 (70)
77 1u9l_A Transcription elongatio 22.8 1.1E+02 0.0038 26.4 5.0 43 472-519 17-59 (70)
78 3c65_A Uvrabc system protein C 21.2 20 0.00069 37.6 0.0 36 476-518 188-223 (226)
79 2ziu_A MUS81 protein; helix-ha 20.5 93 0.0032 33.0 4.9 22 496-517 234-255 (311)
No 1
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=100.00 E-value=7.4e-36 Score=307.87 Aligned_cols=175 Identities=21% Similarity=0.341 Sum_probs=158.9
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
....|+|.|.++.+...+|.. .++||++|++++.++|+++|+++|||++||++|+++|+.+.++|++
T Consensus 40 ~IlsQqts~~~v~~~~~~l~~---------~fpt~~~la~a~~~~l~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g---- 106 (226)
T 1orn_A 40 VVLSAQCTDALVNKVTKRLFE---------KYRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNG---- 106 (226)
T ss_dssp HHHHTTSCHHHHHHHHHHHHH---------HCCSHHHHHSSCHHHHHHHTGGGSSHHHHHHHHHHHHHHHHHHSTT----
T ss_pred HHHhCCCcHHHHHHHHHHHHH---------HCCCHHHHHcCCHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHhCC----
Confidence 457899999999998888752 3689999999999999999999999999999999999999998887
Q ss_pred hhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHHHHh
Q 002141 488 WLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKY 567 (960)
Q Consensus 488 ~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~Iqk~ 567 (960)
.+|.. +++|++|||||+|||++||+|+||+|+||||+||.|++.|+||+....+|++++..+++++| .
T Consensus 107 ---~~p~~--~~~L~~lpGIG~~TA~~il~~a~g~~~~~vD~~v~Rv~~rlg~~~~~~~~~~~~~~l~~~~p------~- 174 (226)
T 1orn_A 107 ---EVPRD--RDELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIP------K- 174 (226)
T ss_dssp ---SCCSC--HHHHTTSTTCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHTSSCTTCCHHHHHHHHHHHSC------G-
T ss_pred ---CcHHH--HHHHHHCCCccHHHHHHHHHHHCCCceeeeCHHHHHHHHHhCCCCCCCCHHHHHHHHHHhcC------h-
Confidence 56654 89999999999999999999999999999999999999999998756789999999988888 1
Q ss_pred hhhhhhcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhhhc
Q 002141 568 LWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFASA 617 (960)
Q Consensus 568 LW~rL~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yyas~ 617 (960)
+.+.+||.+||+||+.+|++++|+|+.|||++.|+++.+.
T Consensus 175 ----------~~~~~~~~~lv~~G~~~C~~~~P~C~~Cpl~~~C~~~~~~ 214 (226)
T 1orn_A 175 ----------EEWSITHHRMIFFGRYHCKAQSPQCPSCPLLHLCREGKKR 214 (226)
T ss_dssp ----------GGHHHHHHHHHHHHHHTSCSSCCCGGGCTTGGGCHHHHHH
T ss_pred ----------hhHHHHHHHHHHHHHHHcCCCCCCCCCCCChhhhhhHhhc
Confidence 2457999999999999999999999999999999998764
No 2
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=100.00 E-value=1.1e-35 Score=302.84 Aligned_cols=173 Identities=22% Similarity=0.274 Sum_probs=156.4
Q ss_pred ccccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCc
Q 002141 407 SKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDL 486 (960)
Q Consensus 407 ~~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDL 486 (960)
.....|+|+|.++.+.+.+|.. .++||++|++++.++|+++|+++|||++||++|+++|+.+.+.|++
T Consensus 35 ~~Il~qqts~~~v~~~~~~l~~---------~fpt~~~la~a~~~~l~~~i~~~G~~~~KA~~l~~~a~~~~~~~~g--- 102 (211)
T 2abk_A 35 AVLLSAQATDVSVNKATAKLYP---------VANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNG--- 102 (211)
T ss_dssp HHHHTTTSCHHHHHHHHHHHTT---------TCCSHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHTTT---
T ss_pred HHHHhCCCCHHHHHHHHHHHHH---------HCCCHHHHHCCCHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHcCC---
Confidence 3467899999999999988852 4689999999999999999999999999999999999999998877
Q ss_pred hhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHHHH
Q 002141 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQK 566 (960)
Q Consensus 487 e~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~Iqk 566 (960)
.+|.. +++|++|||||+|||++||+|+||+++||||+||+|++.|+||.. ..+|++++..+++++| .
T Consensus 103 ----~~~~~--~~~L~~l~GIG~~tA~~il~~~~~~~~~~vD~~v~Rv~~rlgl~~-~~~~~~~~~~~~~~~p------~ 169 (211)
T 2abk_A 103 ----EVPED--RAALEALPGVGRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAP-GKNVEQVEEKLLKVVP------A 169 (211)
T ss_dssp ----SCCSC--HHHHHHSTTCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCSSC-CSSHHHHHHHHHHHSC------G
T ss_pred ----CchHH--HHHHHhCCCCChHHHHHHHHHHCCCCcCCcCHHHHHHHHHhCCCC-CCCHHHHHHHHHHhcC------h
Confidence 45644 899999999999999999999999999999999999999999976 4689999999999988 2
Q ss_pred hhhhhhhcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhh
Q 002141 567 YLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFA 615 (960)
Q Consensus 567 ~LW~rL~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yya 615 (960)
..| .+||++||+||+.+|++++|+|+.|||++.|+++.
T Consensus 170 ~~~-----------~~~~~~l~~~G~~~C~~~~P~C~~Cpl~~~C~~~~ 207 (211)
T 2abk_A 170 EFK-----------VDCHHWLILHGRYTCIARKPRCGSCIIEDLCEYKE 207 (211)
T ss_dssp GGT-----------TTHHHHHHHHHHHTSCSSSCCGGGCTTGGGCCCTT
T ss_pred hhH-----------HHHHHHHHHHHHHHCCCCCCCCCCCCChhhCCCcC
Confidence 333 57999999999999999999999999999999864
No 3
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=100.00 E-value=5.6e-35 Score=300.43 Aligned_cols=184 Identities=19% Similarity=0.255 Sum_probs=155.2
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
....|+|.|.++.+.+.+|.. .++||++|++++.++|.++|+++||| +||++|+++|+.+.++|++
T Consensus 37 ~IlsQqt~~~~v~~~~~~l~~---------~~pt~~~la~~~~~~l~~~i~~~G~~-~kA~~l~~~a~~i~~~~~g---- 102 (225)
T 1kg2_A 37 EVMLQQTQVATVIPYFERFMA---------RFPTVTDLANAPLDEVLHLWTGLGYY-ARARNLHKAAQQVATLHGG---- 102 (225)
T ss_dssp HHHHTSSCHHHHHHHHHHHHH---------HCSSHHHHHHSCHHHHHHHHTTSCCT-HHHHHHHHHHHHHHHHSTT----
T ss_pred HHHHCcCCHHHHHHHHHHHHH---------HCCCHHHHHCCCHHHHHHHHHhCChH-HHHHHHHHHHHHHHHHhCC----
Confidence 456799999999998877742 46899999999999999999999999 5999999999999998887
Q ss_pred hhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCCHHHHH----HHHHHhCCchHH
Q 002141 488 WLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQ----LHLLELYPVLES 563 (960)
Q Consensus 488 ~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~tpEkle----k~LeellP~~e~ 563 (960)
.+|.. +++|++|||||+|||++||+|+||+++|+||+||+||+.|||++....++...+ ..++.++|
T Consensus 103 ---~~p~~--~~~L~~lpGIG~~TA~~il~~a~~~~~~~vD~~v~Rv~~rl~~~~~~~~~~~~~~~l~~~~~~~~p---- 173 (225)
T 1kg2_A 103 ---KFPET--FEEVAALPGVGRSTAGAILSLSLGKHFPILDGNVKRVLARCYAVSGWPGKKEVENKLWSLSEQVTP---- 173 (225)
T ss_dssp ---SCCCS--HHHHHTSTTCCHHHHHHHHHHHHCCSCCCCCHHHHHHHHHHHTCCSCTTSHHHHHHHHHHHHHHCC----
T ss_pred ---CchHH--HHHHhcCCCCcHHHHHHHHHHhCCCCcceeCHHHHHHHHHHcCCCCCCCccchHHHHHHHHHHHCC----
Confidence 56654 899999999999999999999999999999999999999996654333333333 33344555
Q ss_pred HHHhhhhhhhcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhhhccccccccCCCccc
Q 002141 564 IQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLALPGPEE 630 (960)
Q Consensus 564 Iqk~LW~rL~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yyas~~as~r~~lP~~e~ 630 (960)
.+.+.+||++||+||+.+|++++|+|+.|||++.|++|..+ ....+|.++.
T Consensus 174 -------------~~~~~~~~~~lv~~G~~~C~~~~P~C~~Cpl~~~C~~~~~~---~~~~~p~~~~ 224 (225)
T 1kg2_A 174 -------------AVGVERFNQAMMDLGAMICTRSKPKCSLCPLQNGCIAAANN---SWALYPGKKP 224 (225)
T ss_dssp -------------STTHHHHHHHHHHHHHHTSCSSSCCGGGCTTTTTCHHHHHT---CGGGSSCCCC
T ss_pred -------------cccHHHHHHHHHHHHHHHcCCCCCCCCCCCChhhCHHHHcC---CcccCCCCCC
Confidence 34568999999999999999999999999999999999887 4556777653
No 4
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation; 2.00A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.96.1.2
Probab=100.00 E-value=6.3e-35 Score=299.56 Aligned_cols=176 Identities=21% Similarity=0.305 Sum_probs=152.6
Q ss_pred ccccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCc
Q 002141 407 SKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDL 486 (960)
Q Consensus 407 ~~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDL 486 (960)
.....|+|.|.++.+.+.+|.. .++||++|++++.++|+++|+++||+++||++|+++|+.+.+.|++
T Consensus 41 ~~IlsQqts~~~~~~~~~~l~~---------~fptp~~la~a~~e~l~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g--- 108 (221)
T 1kea_A 41 TEILLRRTTAGHVKKIYDKFFV---------KYKCFEDILKTPKSEIAKDIKEIGLSNQRAEQLKELARVVINDYGG--- 108 (221)
T ss_dssp HHHHTTTSCHHHHHHHHHHHHH---------HCCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHTT---
T ss_pred HHHHHccCCHHHHHHHHHHHHH---------HCCCHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHhCC---
Confidence 3457899999999999888852 3689999999999999999999999999999999999999998887
Q ss_pred hhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHh-cCCCCCCCH--HHHHHHHHHhCCchHH
Q 002141 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRL-GWVPLQPLP--ESLQLHLLELYPVLES 563 (960)
Q Consensus 487 e~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RL-G~V~~~~tp--Eklek~LeellP~~e~ 563 (960)
.+|.. +++|++|||||+|||++||+|+||+++|+||+||+||+.|+ ||......+ ..+....+.++|
T Consensus 109 ----~~p~~--~~~L~~lpGIG~~TA~~il~~~~~~~~~~vD~~v~Rv~~rl~gl~~~~~~~~~~~l~~~ae~~~P---- 178 (221)
T 1kea_A 109 ----RVPRN--RKAILDLPGVGKYTCAAVMCLAFGKKAAMVDANFVRVINRYFGGSYENLNYNHKALWELAETLVP---- 178 (221)
T ss_dssp ----SCCSC--HHHHHTSTTCCHHHHHHHHHHTTCCCCCCCCHHHHHHHHHHHCGGGTTCCTTSHHHHHHHHHHSC----
T ss_pred ----CchHH--HHHHHhCCCCcHHHHHHHHHHhcCCCcceecHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHhCC----
Confidence 56754 89999999999999999999999999999999999999999 997532222 234445555566
Q ss_pred HHHhhhhhhhcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhhhc
Q 002141 564 IQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFASA 617 (960)
Q Consensus 564 Iqk~LW~rL~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yyas~ 617 (960)
.+.+++||++||+||+.+|++++|+|+.|||++.|++|..+
T Consensus 179 -------------~~~~~~~~~~lv~~G~~~C~~~~P~C~~Cpl~~~C~~~~~~ 219 (221)
T 1kea_A 179 -------------GGKCRDFNLGLMDFSAIICAPRKPKCEKCGMSKLCSYYEKC 219 (221)
T ss_dssp -------------TTCHHHHHHHHHHHHHHTSCSSSCCGGGCTTTTTCHHHHTC
T ss_pred -------------hhhHHHHHHHHHHHHHHHcCCCCCCCCCCCChhhchhhhcC
Confidence 23467999999999999999999999999999999998764
No 5
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=100.00 E-value=1.2e-34 Score=309.50 Aligned_cols=177 Identities=16% Similarity=0.282 Sum_probs=153.2
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
....|+|.|.++.+.+.+|.. .++||++|++++.++|+++|+++|||+ ||++|+++|++|+++|||
T Consensus 56 ~ILsQQts~~~v~~~~~rL~~---------~fptpe~La~a~~eel~~~ir~lG~~~-KA~~L~~~A~~i~~~~~g---- 121 (287)
T 3n5n_X 56 EVMLQQTQVATVINYYTGWMQ---------KWPTLQDLASASLEEVNQLWAGLGYYS-RGRRLQEGARKVVEELGG---- 121 (287)
T ss_dssp HHHHHTSCHHHHHHHHHHHHH---------HCCSHHHHHTSCHHHHHHHHTTSSCHH-HHHHHHHHHHHHHHHSTT----
T ss_pred HHHhCCCcHHHHHHHHHHHHH---------HCCCHHHHHcCCHHHHHHHHHHcCCHH-HHHHHHHHHHHHHHHhCC----
Confidence 356789999999998887752 368999999999999999999999997 999999999999999988
Q ss_pred hhhcCChHHHHHHHHh-CCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHHHH
Q 002141 488 WLRDVPPDKAKEYLLS-FRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQK 566 (960)
Q Consensus 488 ~Lr~vP~deareeLLs-LpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~Iqk 566 (960)
.+|.+ +++|++ |||||+|||++||+|+||+++|+||+||+||+.||||+....++.++++.+
T Consensus 122 ---~~p~~--~~~Ll~~LpGIG~kTA~~iL~~a~g~p~~~VDt~V~Rv~~Rlg~i~~~~~~~~~~~~l------------ 184 (287)
T 3n5n_X 122 ---HMPRT--AETLQQLLPGVGRYTAGAIASIAFGQATGVVDGNVARVLCRVRAIGADPSSTLVSQQL------------ 184 (287)
T ss_dssp ---CCCSS--HHHHHHHSTTCCHHHHHHHHHHHSCCCCCCCCHHHHHHHHHHTTCCSCTTSHHHHHHH------------
T ss_pred ---CCcHH--HHHHHHHcCCCCHHHHHHHHHHhcCCCCccccHHHHHHHHHhCCCCCCCChHHHHHHH------------
Confidence 57766 889998 999999999999999999999999999999999999987655665555443
Q ss_pred hhhhhh-hcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhhhc
Q 002141 567 YLWPRL-CKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFASA 617 (960)
Q Consensus 567 ~LW~rL-~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yyas~ 617 (960)
|..+ ..++...+++||++||+||+.+|++++|+|+.|||++.|++|..+
T Consensus 185 --~~~a~~~lp~~~~~~~h~~L~~~Gr~iC~~r~P~C~~Cpl~~~C~~~~~~ 234 (287)
T 3n5n_X 185 --WGLAQQLVDPARPGDFNQAAMELGATVCTPQRPLCSQCPVESLCRARQRV 234 (287)
T ss_dssp --HHHHHHHSCSSCHHHHHHHHHHHHHHTSCSSSCCTTSCTTGGGCHHHHHH
T ss_pred --HHHHHHhCCHHHHHHHHHHHHHHhHHHcCCCCCCCCCCCChhhhHHHHhc
Confidence 2111 113455678999999999999999999999999999999999886
No 6
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=100.00 E-value=2.4e-34 Score=313.66 Aligned_cols=186 Identities=20% Similarity=0.268 Sum_probs=162.1
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
....|+|+|.++.+.+.++.. ..+||++|++++.++|+++|+++|||+ ||++|+++|+.+.++|++
T Consensus 46 ~il~qqt~~~~~~~~~~~l~~---------~~pt~~~la~a~~~~l~~~i~~~G~~~-ra~~l~~~a~~~~~~~~g---- 111 (369)
T 3fsp_A 46 EVMLQQTRVETVIPYFEQFID---------RFPTLEALADADEDEVLKAWEGLGYYS-RVRNLHAAVKEVKTRYGG---- 111 (369)
T ss_dssp HHHTTTSCHHHHHHHHHHHHH---------HCCSHHHHHTSCHHHHHHTTTTSSCTH-HHHHHHHHHHHHHHHHTT----
T ss_pred HHHhccCcHHHHHHHHHHHHH---------HCCCHHHHHCCCHHHHHHHHHhcChHH-HHHHHHHHHHHHHHHcCC----
Confidence 456899999999998888752 368999999999999999999999998 999999999999999988
Q ss_pred hhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCC----HHHHHHHHHHhCCchHH
Q 002141 488 WLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPL----PESLQLHLLELYPVLES 563 (960)
Q Consensus 488 ~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~t----pEklek~LeellP~~e~ 563 (960)
.+|.. +++|++|||||+|||++||+|+||+++|+||+||+||+.|||++..... +.+++..++.++|
T Consensus 112 ---~~p~~--~~~L~~l~GIG~~tA~~il~~~~~~~~~~vD~~v~Rv~~rl~~~~~~~~~~~~~~~~~~~~~~~~p---- 182 (369)
T 3fsp_A 112 ---KVPDD--PDEFSRLKGVGPYTVGAVLSLAYGVPEPAVDGNVMRVLSRLFLVTDDIAKPSTRKRFEQIVREIMA---- 182 (369)
T ss_dssp ---CCCCS--HHHHHTSTTCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHTTCCSCTTSHHHHHHHHHHHHHHCC----
T ss_pred ---CChhH--HHHHhcCCCcCHHHHHHHHHHHCCCCcccccHHHHHHHHHHcCcccCccccchHHHHHHHHHHhCC----
Confidence 56755 8999999999999999999999999999999999999999999865433 3445555555655
Q ss_pred HHHhhhhhhhcCChhhHHHHHHHHHHHhHhhcccCCCCCCCCCCchhchhhhhccccccccCCCccccc
Q 002141 564 IQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLALPGPEEKA 632 (960)
Q Consensus 564 Iqk~LW~rL~klD~e~l~EfH~lLVefGK~ICt~rkP~Cd~CPLr~~C~yyas~~as~r~~lP~~e~k~ 632 (960)
...+++||++||+||+.+|++++|+|+.|||++.|++|..+ ....+|.+++|+
T Consensus 183 -------------~~~~~~~~~~l~~~G~~~C~~~~P~C~~Cpl~~~C~~~~~~---~~~~~PvK~~kk 235 (369)
T 3fsp_A 183 -------------YENPGAFNEALIELGALVCTPRRPSCLLCPVQAYCQAFAEG---VAEELPVKMKKT 235 (369)
T ss_dssp -------------SSSHHHHHHHHHHHHHHTSCSSSCCTTTCTTGGGCHHHHHT---CGGGCSCCCCCC
T ss_pred -------------hhhHHHHHHHHHHHHHHhcCCCCCCCCCCCChhhhHHHhcC---CcccCCcccccc
Confidence 33467999999999999999999999999999999999998 567889887664
No 7
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Probab=99.95 E-value=3e-28 Score=250.05 Aligned_cols=169 Identities=18% Similarity=0.252 Sum_probs=139.4
Q ss_pred ccccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCC------HHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHh
Q 002141 407 SKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLD------WEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRD 480 (960)
Q Consensus 407 ~~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~T------pEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~ 480 (960)
.....|+|+|.++.+++.+|.. .+.++ |++|++++.++|+++|+++||+++||++|+++|+++.+.
T Consensus 36 ~~ILsQqts~~~v~~~~~~L~~--------~~~pt~~~~~t~~~la~~~~e~L~~~ir~~G~~~~KA~~L~~~a~~i~~~ 107 (218)
T 1pu6_A 36 GAVLTQNTKFEAVLKSLENLKN--------AFILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKD 107 (218)
T ss_dssp HHHHTTTSCHHHHHHHHHHHHH--------TTSSCSCHHHHHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHcCCCCHHHHHHHHHHHHH--------ccCCCccccccHHHHHhCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHh
Confidence 4467899999999999999862 14677 999999999999999999999999999999999999998
Q ss_pred cCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCC-
Q 002141 481 HGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYP- 559 (960)
Q Consensus 481 yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP- 559 (960)
+++ ++.+ +..+++++|++|||||+|||++||+|+||+|+||||+||+|++.|+||. ..+|+++++.+++.+|
T Consensus 108 ~~~--l~~~---~~~~~~~~L~~lpGIG~kTA~~il~~a~~~~~~~vD~~v~Ri~~rlg~~--~~~~~~~~~~l~~~~p~ 180 (218)
T 1pu6_A 108 FQS--FENF---KQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKYSYLFLKKLGIE--IEDYDELQHFFEKGVQE 180 (218)
T ss_dssp HSS--HHHH---HHHCCHHHHHTSTTCCHHHHHHHHHHTTCCSCCCCCHHHHHHHHHTTCC--CCSHHHHHHHHHHHHHT
T ss_pred cCC--hhhc---cchHHHHHHHcCCCcCHHHHHHHHHHHCCCCccccCHHHHHHHHHcCCC--CCCHHHHHHHHHHhhhh
Confidence 876 3333 3445699999999999999999999999999999999999999999998 3789999999988443
Q ss_pred chHHHHHhhhhhhhcC-ChhhHHHHHHHHHHHhHh
Q 002141 560 VLESIQKYLWPRLCKL-DQRTLYELHYQMITFGKV 593 (960)
Q Consensus 560 ~~e~Iqk~LW~rL~kl-D~e~l~EfH~lLVefGK~ 593 (960)
.++.+.+ +++. .+ |.+.+++||++||+|||.
T Consensus 181 ~lp~~~~-~~~~--~~~~~~~~~~~h~liv~~Gk~ 212 (218)
T 1pu6_A 181 NLNSALA-LYEN--TISLAQLYARFHGKIVEFSKQ 212 (218)
T ss_dssp THHHHHH-TTTT--CSCHHHHHHHHHHHHHHHHHH
T ss_pred cCcchhh-hccc--ccchHHHHHHHHHHHHHHhhh
Confidence 1222111 0100 12 256789999999999997
No 8
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase; 2.00A {Methanocaldococcus jannaschii} PDB: 3knt_A*
Probab=99.89 E-value=1.6e-23 Score=215.56 Aligned_cols=140 Identities=15% Similarity=0.144 Sum_probs=117.9
Q ss_pred ccccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcC--ChHHHHHHHHHHHH--HHHHhcC
Q 002141 407 SKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERG--MNNMLAGRIKDFLN--RLVRDHG 482 (960)
Q Consensus 407 ~~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~G--fyn~KAkrIk~lA~--~Ive~yG 482 (960)
.....|||.|.++.+++.+|+ +.|+.++.++|+++|+++| ||++||++|+++++ .+.+.+
T Consensus 50 ~~ILsqqt~~~~v~~a~~~L~---------------~~l~~~~~eeL~~~Ir~~G~rf~~~KA~~I~~~a~~~~l~~~~- 113 (214)
T 3fhf_A 50 FCILTANFTAEGGIRIQKEIG---------------DGFLTLPREELEEKLKNLGHRFYRKRAEYIVLARRFKNIKDIV- 113 (214)
T ss_dssp HHHHHTTSCHHHHHHHHHHHT---------------THHHHSCHHHHHHHHHHTTCTTHHHHHHHHHHHGGGCCHHHHH-
T ss_pred HHHHcCCCCHHHHHHHHHHHH---------------HHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhHHHHHh-
Confidence 456789999999999999884 4699999999999999999 99999999999999 444433
Q ss_pred CCCchhhhcC-ChHHHHHHHH-hCCCccHHHHHHHHHHhcCCeeee-cchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCC
Q 002141 483 SVDLEWLRDV-PPDKAKEYLL-SFRGLGLKSVECVRLLTLHHLAFP-VDTNVGRIAVRLGWVPLQPLPESLQLHLLELYP 559 (960)
Q Consensus 483 giDLe~Lr~v-P~deareeLL-sLpGIGpKTAd~ILLfafgrpvfp-VDThV~RIl~RLG~V~~~~tpEklek~LeellP 559 (960)
..+ +..+++++|+ +|||||+|||++||+|+ +++.|+ ||+||+||+.||||++.. + +.
T Consensus 114 -------~~~~~~~~~re~Ll~~LpGVG~KTA~~vL~~~-g~~~~~vVDthv~Ri~~RlG~~~~~--~--------k~-- 173 (214)
T 3fhf_A 114 -------ESFENEKVAREFLVRNIKGIGYKEASHFLRNV-GYDDVAIIDRHILRELYENNYIDEI--P--------KT-- 173 (214)
T ss_dssp -------HHSSSHHHHHHHHHHHSTTCCHHHHHHHHHHT-TCCSCCCCCHHHHHHHHHTTSSSSC--C--------SS--
T ss_pred -------cccCCcHHHHHHHHHhCCCCCHHHHHHHHHHc-CCCCcccCcHHHHHHHHHcCCCCCC--C--------Cc--
Confidence 344 5567799999 99999999999999998 667776 999999999999998731 1 11
Q ss_pred chHHHHHhhhhhhhcCChhhHHHHHHHHHHHhHhhccc
Q 002141 560 VLESIQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTK 597 (960)
Q Consensus 560 ~~e~Iqk~LW~rL~klD~e~l~EfH~lLVefGK~ICt~ 597 (960)
++...|.++|..|++||+.+|.+
T Consensus 174 ---------------lt~~~y~e~~~~l~~~g~~~g~~ 196 (214)
T 3fhf_A 174 ---------------LSRRKYLEIENILRDIGEEVNLK 196 (214)
T ss_dssp ---------------CCHHHHHHHHHHHHHHHHHTTCC
T ss_pred ---------------CCHHHHHHHHHHHHHHHHHHCCC
Confidence 23456789999999999999975
No 9
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Probab=99.88 E-value=2.6e-23 Score=211.83 Aligned_cols=147 Identities=14% Similarity=0.116 Sum_probs=123.9
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcC--ChHHHHHHHHHHHHHHHHhcCCCC
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERG--MNNMLAGRIKDFLNRLVRDHGSVD 485 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~G--fyn~KAkrIk~lA~~Ive~yGgiD 485 (960)
....|+|+|.++.++..+| ++.|+.++.++|+++|+++| ||++||++|+++|+++.+.+++ +
T Consensus 40 ~ILsqqts~~~~~~~~~~L---------------~~~l~~~~~e~l~~~ir~~G~g~~~~KA~~l~~~a~~~~~~~~~-~ 103 (207)
T 3fhg_A 40 CLLTANSSFISAYQALNCL---------------GQKIYYANEEEIRNILKSCKYRFYNLKAKYIIMAREKVYGRLKE-E 103 (207)
T ss_dssp HHHHTTSCHHHHHHHHHHH---------------GGGGGTCCHHHHHHHHHHTTCTTHHHHHHHHHHHHHHHTTTHHH-H
T ss_pred HHHcCCCCHHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHhhh-h
Confidence 3567999999999998876 25689999999999999887 9999999999999987654433 5
Q ss_pred chhhhcCChHHHHHHHHhCCCccHHHHHHHHHH-hcCCeeeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHH
Q 002141 486 LEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL-TLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESI 564 (960)
Q Consensus 486 Le~Lr~vP~deareeLLsLpGIGpKTAd~ILLf-afgrpvfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~I 564 (960)
++.+...++++++++|++|||||+|||+|||+| ++ .++||||+||+|++.|+||++.. ++
T Consensus 104 l~~~~~~~~~~~~~~L~~lpGIG~kTA~~il~~~~~-~~~~~vD~~v~Ri~~rlg~~~~~-------------~~----- 164 (207)
T 3fhg_A 104 IKPLADEDQQLARERLLNIKGIGMQEASHFLRNVGY-FDLAIIDRHIIDFMRRIGAIGET-------------NV----- 164 (207)
T ss_dssp HHHHHHHCHHHHHHHHTTSTTCCHHHHHHHHHHTTC-CSSCCCCHHHHHHHHHTTSSCCC-------------CC-----
T ss_pred HHHHhCCCHHHHHHHHHcCCCcCHHHHHHHHHHhCC-CCcceecHHHHHHHHHcCCCCcc-------------cc-----
Confidence 777777888889999999999999999999998 66 78999999999999999998631 11
Q ss_pred HHhhhhhhhcCChhhHHHHHHHHHHHhHhhccc
Q 002141 565 QKYLWPRLCKLDQRTLYELHYQMITFGKVFCTK 597 (960)
Q Consensus 565 qk~LW~rL~klD~e~l~EfH~lLVefGK~ICt~ 597 (960)
+ .++...+.++|..|++||+.+|.+
T Consensus 165 -k-------~~~~k~y~~~~~~l~~~~~~~~~~ 189 (207)
T 3fhg_A 165 -K-------QLSKSLYISFENILKSIASNLNMS 189 (207)
T ss_dssp -S-------CCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred -c-------cCCHHHHHHHHHHHHHHHHHhCCC
Confidence 0 124566789999999999999864
No 10
>2yg9_A DNA-3-methyladenine glycosidase II, putative; hydrolase, DNA repair; 1.95A {Deinococcus radiodurans} PDB: 2yg8_A
Probab=99.86 E-value=2e-21 Score=200.60 Aligned_cols=144 Identities=17% Similarity=0.203 Sum_probs=123.2
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
....||++|.++.+.+.+|.. ..|.++|++|++++.++| +++||+++||++|+++|+.+.+ |.++++
T Consensus 68 ~IlsQq~s~~~a~~~~~rL~~-------~~G~ptp~~la~~~~e~L----r~~G~~~~KA~~i~~lA~~~~~--g~~~l~ 134 (225)
T 2yg9_A 68 SVAGQQLSVKAAQAIYGRLEG-------LPGGVVPAALLKVSGDDL----RGVGLSWAKVRTVQAAAAAAVS--GQIDFA 134 (225)
T ss_dssp HHHHTTSCHHHHHHHHHHHHT-------STTCSCHHHHTTSCHHHH----HHTTCCHHHHHHHHHHHHHHHT--TSSCGG
T ss_pred HHHhCcChHHHHHHHHHHHHH-------HhCcCCHHHHHcCCHHHH----HHCCCcHHHHHHHHHHHHHHHh--CCcCHH
Confidence 456799999999999888852 236699999999999886 8999999999999999999986 668999
Q ss_pred hhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeec-chHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHHH
Q 002141 488 WLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPV-DTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQ 565 (960)
Q Consensus 488 ~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpV-DThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~Iq 565 (960)
.|..+|.++++++|++|||||+|||+|||+|+||++ +||| |+||+|++.|+| + +++++...+.+.|.-...+
T Consensus 135 ~l~~~~~~e~~~~L~~l~GIG~~TA~~ill~~lg~~d~fpv~D~~v~r~~~~l~--~----~~~~~~~~e~~~P~r~~a~ 208 (225)
T 2yg9_A 135 HLSGQPDELVIAELVQLPGIGRWTAEMFLLFALARPDVFSSGDLALRQGVERLY--P----GEDWRDVTARWAPYRSLAS 208 (225)
T ss_dssp GCTTSCHHHHHHHHHTSTTCCHHHHHHHHHHTSCCSCCCCTTCHHHHHHHHHHS--T----TSCHHHHHHHHTTCHHHHH
T ss_pred HHhcCCHHHHHHHHHcCCCCCHHHHHHHHHHhCCCCCeeeCccHHHHHHHHHhC--C----HHHHHHHHHHcCCHHHHHH
Confidence 999999999999999999999999999999999998 8999 999999999998 2 3446666777877434445
Q ss_pred Hhhhh
Q 002141 566 KYLWP 570 (960)
Q Consensus 566 k~LW~ 570 (960)
.++|.
T Consensus 209 ~~Lw~ 213 (225)
T 2yg9_A 209 RYLWA 213 (225)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 55663
No 11
>4b21_A Probable DNA-3-methyladenine glycosylase 2; hydrolase-DNA complex, helix-hairpin-helix; HET: BGC 3DR; 1.45A {Schizosaccharomyces pombe} PDB: 4b22_A* 4b23_A* 4b24_A*
Probab=99.86 E-value=1.6e-21 Score=202.55 Aligned_cols=155 Identities=14% Similarity=0.161 Sum_probs=128.6
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCC-Cc
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSV-DL 486 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgi-DL 486 (960)
....||++|.++.+.+.+|.. +.-....+++|++|++++.++| +.+||+++||++|+++|+++.+ |.+ ++
T Consensus 67 ~Il~Qq~s~~~a~~~~~rL~~---~~G~~~~fPtpe~la~~~~e~L----r~~Gl~~~Ka~~l~~~A~~~~~--g~~p~l 137 (232)
T 4b21_A 67 AITSQKLSDAATNSIINKFCT---QCSDNDEFPTPKQIMETDVETL----HECGFSKLKSQEIHIVAEAALN--KQIPSK 137 (232)
T ss_dssp HHHTTTCCHHHHHHHHHHHHH---HHCSSSSCCCHHHHHTSCHHHH----HTTTCCHHHHHHHHHHHHHHHT--TCSCCH
T ss_pred HHHhCcCcHHHHHHHHHHHHH---HhCCCCCCCCHHHHHcCCHHHH----HHcCCcHHHHHHHHHHHHHHHh--CCCCCH
Confidence 356799999999988877752 1100012789999999999985 8899999999999999999986 667 89
Q ss_pred hhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeec-chHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHH
Q 002141 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPV-DTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESI 564 (960)
Q Consensus 487 e~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpV-DThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~I 564 (960)
+.|..++.++++++|++|||||+|||+|||+|+||+| +||| |+||+|++.|+...+..+++.+++...+.|-|.--..
T Consensus 138 ~~l~~~~~~~~~~~L~~l~GIG~~TA~~ill~alg~pd~fpv~D~~v~r~~~rl~~~~~~~~~~~~~~~~e~w~P~rs~A 217 (232)
T 4b21_A 138 SEIEKMSEEELMESLSKIKGVKRWTIEMYSIFTLGRLDIMPADDSTLKNEAKEFFGLSSKPQTEEVEKLTKPCKPYRTIA 217 (232)
T ss_dssp HHHHHSCHHHHHHHHTTSTTCCHHHHHHHHHHTSCCSSCCCTTCHHHHHHHHHHTTCSSCCCHHHHHHHTGGGTTCHHHH
T ss_pred HHHHcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCeeeCccHHHHHHHHHHhCCCCCCCHHHHHHHHHHccCHHHHH
Confidence 9999999999999999999999999999999999998 8999 9999999999965555567888887777777744444
Q ss_pred HHhhhhh
Q 002141 565 QKYLWPR 571 (960)
Q Consensus 565 qk~LW~r 571 (960)
+.+||..
T Consensus 218 ~~yLw~~ 224 (232)
T 4b21_A 218 AWYLWQI 224 (232)
T ss_dssp HHHHHTG
T ss_pred HHHHHHc
Confidence 6688864
No 12
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, struc genomics, PSI-2, protein structure initiative, joint center structural genomics; 2.55A {Bacillus halodurans}
Probab=99.85 E-value=1.5e-21 Score=202.30 Aligned_cols=140 Identities=11% Similarity=0.056 Sum_probs=120.8
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCC--CCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCC
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKD--SLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVD 485 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g--~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiD 485 (960)
....|+|+|.++.+.+.+|.. + .| +|||++|++++.++| +++||+++||++|+++|+.+.+. .++
T Consensus 58 ~IlsQqts~~~a~~~~~rL~~---~----~G~~fPtp~~la~~~~e~L----r~~G~~~~KA~~I~~~A~~i~~~--~~~ 124 (233)
T 2h56_A 58 SIVEQQLSIKAASAIYGRVEQ---L----VGGALEKPEQLYRVSDEAL----RQAGVSKRKIEYIRHVCEHVESG--RLD 124 (233)
T ss_dssp HHHHTTSCHHHHHHHHHHHHH---H----HTSCCCCTHHHHTSCHHHH----HHTTCCHHHHHHHHHHHHHHHTT--SSC
T ss_pred HHHcCCCCHHHHHHHHHHHHH---H----hCCCCCCHHHHHcCCHHHH----HHcCCCHHHHHHHHHHHHHHHhC--CCC
Confidence 457899999999998888752 1 12 359999999999986 89999999999999999999874 357
Q ss_pred chhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecchHHHHHHHHhcCCCC-CCCHHHHHHHHHHhCCc
Q 002141 486 LEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLGWVPL-QPLPESLQLHLLELYPV 560 (960)
Q Consensus 486 Le~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVDThV~RIl~RLG~V~~-~~tpEklek~LeellP~ 560 (960)
++.+..+|.++++++|++|||||+|||++||+|+||+| +||||+|+.|++.|+||... ..++++++..++.+.|.
T Consensus 125 ~~~l~~~p~~~~~~~L~~lpGIG~kTA~~ill~alg~pd~~pvdd~~~r~~~~~~~~~~~~~~~~~~~~~~e~~~P~ 201 (233)
T 2h56_A 125 FTELEGAEATTVIEKLTAIKGIGQWTAEMFMMFSLGRLDVLSVGDVGLQRGAKWLYGNGEGDGKKLLIYHGKAWAPY 201 (233)
T ss_dssp HHHHTTSCHHHHHHHHHTSTTCCHHHHHHHHHHTTCCSCCCCTTCHHHHHHHHHHHSSSCSCHHHHHHHHHGGGTTC
T ss_pred HHHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCeeeCchHHHHHHHHHhccCCCCCCHHHHHHHHHHcCcH
Confidence 88888999999999999999999999999999999999 99999999999999988643 36788888877777773
No 13
>3n0u_A Probable N-glycosylase/DNA lyase; structural genomics, ISFI, DNA repair, 8-oxoguanine, base EX repair, PSI-2, protein structure initiative; 1.50A {Thermotoga maritima}
Probab=99.84 E-value=5.8e-21 Score=197.16 Aligned_cols=115 Identities=18% Similarity=0.151 Sum_probs=102.4
Q ss_pred ccccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcC--ChHHHHHHHHHHHHHHHHhcCCC
Q 002141 407 SKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERG--MNNMLAGRIKDFLNRLVRDHGSV 484 (960)
Q Consensus 407 ~~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~G--fyn~KAkrIk~lA~~Ive~yGgi 484 (960)
.....|+|+|+++.++..+| |+.|+.++.++|+++|+++| ||++||+||+++|+.+ |
T Consensus 56 ~~ILsqqts~~~~~~a~~~L---------------p~~l~~~~~eeL~~~Ir~~G~Rf~~~KA~~I~~~a~~i----g-- 114 (219)
T 3n0u_A 56 FCVLTANWSAEGGIRAQKEI---------------GKGFVHLPLEELAEKLREVGHRYPQKRAEFIVENRKLL----G-- 114 (219)
T ss_dssp HHHHTTTSCHHHHHHHHHHH---------------TTHHHHCCHHHHHHHHHHTTCSSHHHHHHHHHHHGGGT----T--
T ss_pred HHHHhCCCCHHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHhcchHHHHHHHHHHHHHHHH----H--
Confidence 44678999999999988765 56799999999999999999 9999999999999987 2
Q ss_pred CchhhhcCChHHHHHHHH-hCCCccHHHHHHHHHHhcCC-eeeecchHHHHHHHHhcCCCC
Q 002141 485 DLEWLRDVPPDKAKEYLL-SFRGLGLKSVECVRLLTLHH-LAFPVDTNVGRIAVRLGWVPL 543 (960)
Q Consensus 485 DLe~Lr~vP~deareeLL-sLpGIGpKTAd~ILLfafgr-pvfpVDThV~RIl~RLG~V~~ 543 (960)
++..+...+..+++++|+ +|||||+|||++||+| +|+ ++||||+||.|++.|+||++.
T Consensus 115 ~l~~~~~~~~~~~r~~L~~~l~GVG~kTA~~vL~~-~g~~~~~~VDthv~Ri~~rlg~~~~ 174 (219)
T 3n0u_A 115 KLKNLVKGDPFQSREFLVRNAKGIGWKEASHFLRN-TGVEDLAILDKHVLRLMKRHGLIQE 174 (219)
T ss_dssp THHHHHHSCHHHHHHHHHHHSTTCCHHHHHHHHHT-TTCCSCCCCCHHHHHHHHHTTSCSS
T ss_pred HHHHHhcCCcHHHHHHHHHhCCCCCHHHHHHHHHH-cCCCCeeeecHHHHHHHHHcCCCCc
Confidence 355555778888999999 9999999999999999 777 899999999999999999864
No 14
>3s6i_A DNA-3-methyladenine glycosylase 1; DNA glycosylase, DNA repair, helix-hairpin-helix (HHH), ABAS tetrahydrofuran (THF); HET: 3DR; 2.28A {Schizosaccharomyces pombe}
Probab=99.83 E-value=4.6e-20 Score=190.90 Aligned_cols=154 Identities=16% Similarity=0.179 Sum_probs=126.9
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCC-Cc
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSV-DL 486 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgi-DL 486 (960)
....|+++|.++.+.+.+| ..- -....+++|++|+.++.++| +++||+++||++|+++|+.+.+ |.+ ++
T Consensus 57 ~Il~Qq~s~~~a~~~~~rL-~~~---Gg~~~fPtp~~la~~~~e~L----r~~G~~~rKa~~i~~~A~~~~~--g~~p~~ 126 (228)
T 3s6i_A 57 AVASQQLHSKAANAIFNRF-KSI---SNNGQFPTPEEIRDMDFEIM----RACGFSARKIDSLKSIAEATIS--GLIPTK 126 (228)
T ss_dssp HHHHSSSCHHHHHHHHHHH-HTS---SGGGSCCCHHHHHHSCHHHH----HHHTCCHHHHHHHHHHHHHHHH--TSSCCH
T ss_pred HHHhCcCCHHHHHHHHHHH-HHh---cCCCCCCCHHHHHcCCHHHH----HHcCCCHHHHHHHHHHHHHHHc--CCCCCh
Confidence 3567999999999988887 310 00124699999999999885 8899999999999999999985 667 78
Q ss_pred hhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecc-hHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHH
Q 002141 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVD-TNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESI 564 (960)
Q Consensus 487 e~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVD-ThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~I 564 (960)
+.|..+++++++++|++|||||+|||+|||+|+||++ +|||| .+++|++.|+......+++..++...+.+-|.--..
T Consensus 127 ~~l~~~~~~e~~~~L~~l~GIG~~TA~~ill~~lg~pd~fpvdD~~v~r~~~~~~~~~~~~~~~~~~~~~e~w~P~r~~A 206 (228)
T 3s6i_A 127 EEAERLSNEELIERLTQIKGIGRWTVEMLLIFSLNRDDVMPADDLSIRNGYRYLHRLPKIPTKMYVLKHSEICAPFRTAA 206 (228)
T ss_dssp HHHTTSCHHHHHHHHTTSTTCCHHHHHHHHHHTSCCSSCCCTTCHHHHHHHHHHTTCSSCCCHHHHHHHHGGGTTCHHHH
T ss_pred HHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCEEecccHHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCHHHHH
Confidence 9999999999999999999999999999999999999 89996 679999999855554567888888777777743444
Q ss_pred HHhhhhh
Q 002141 565 QKYLWPR 571 (960)
Q Consensus 565 qk~LW~r 571 (960)
+.+||..
T Consensus 207 ~~yLw~~ 213 (228)
T 3s6i_A 207 AWYLWKT 213 (228)
T ss_dssp HHHHHHG
T ss_pred HHHHHHh
Confidence 5567753
No 15
>2xhi_A N-glycosylase/DNA lyase; lyase-DNA complex, lyase/DNA complex, separation-OF-function helix-hairpin-helix, DNA repair; HET: 8OG; 1.55A {Homo sapiens} PDB: 1ko9_A 1lwy_A* 1hu0_A* 1lwv_A* 1lww_A* 2noe_A* 2noh_A* 2nol_A* 1n3c_A* 1fn7_A* 2noz_A* 1yqk_A 1yqr_A* 1yql_A* 1yqm_A* 2noi_A 1ebm_A* 1m3q_A* 1m3h_A* 1n39_A* ...
Probab=99.81 E-value=3.9e-20 Score=202.87 Aligned_cols=128 Identities=19% Similarity=0.238 Sum_probs=108.5
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCC---------CCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHH
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEH---------TKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLV 478 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~---------~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Iv 478 (960)
....||++|.++.+.+.+|.. +.-. ...+++|++|+.++.+ +.|+.+||. .||++|+++|+.+.
T Consensus 159 ~ILsQq~s~~~a~~~~~rL~~---~~G~~~~~~~g~~~~~fPtpe~La~~~~e---e~Lr~~Gl~-~RA~~I~~~A~~i~ 231 (360)
T 2xhi_A 159 FICSSNNNIARITGMVERLCQ---AFGPRLIQLDDVTYHGFPSLQALAGPEVE---AHLRKLGLG-YRARYVSASARAIL 231 (360)
T ss_dssp HHTTTTSCHHHHHHHHHHHHH---HHSCEEEEETTEEEECCCCHHHHTSTTHH---HHHHHTTCT-THHHHHHHHHHHHH
T ss_pred HHHhCcCcHHHHHHHHHHHHH---HhCCCcccCCCcccccCCCHHHHHcCCHH---HHHHHcCCc-HHHHHHHHHHHHHH
Confidence 456789999998888877741 1000 0146999999999654 458999994 79999999999999
Q ss_pred HhcCC-CCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecchHHHHHHHHh-cCCC
Q 002141 479 RDHGS-VDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRL-GWVP 542 (960)
Q Consensus 479 e~yGg-iDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVDThV~RIl~RL-G~V~ 542 (960)
+.||| ++|+.|..+|.++++++|++|||||+|||+|||+|+||++ +||||+||+||+.|+ ||..
T Consensus 232 ~~~~G~~~L~~l~~~~~~~~~~~L~~LpGIGp~TA~~ill~alg~pd~fpvDthV~Ri~~r~~gl~~ 298 (360)
T 2xhi_A 232 EEQGGLAWLQQLRESSYEEAHKALCILPGVGTCVADKICLMALDKPQAVPVNVHMWHIAQRDYSWHP 298 (360)
T ss_dssp HTTCTHHHHHGGGTSCHHHHHHHHTTSTTCCHHHHHHHHHHHSCCTTCCCCSHHHHHHHHHHHCCCC
T ss_pred hccCCccCHHHHhcCCHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCEEEecHHHHHHHHHHhCccc
Confidence 98866 5788999999999999999999999999999999999999 999999999999996 9875
No 16
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A
Probab=99.80 E-value=1.4e-19 Score=193.13 Aligned_cols=141 Identities=18% Similarity=0.252 Sum_probs=114.1
Q ss_pred ccccCCcHHHHHHHHHHcCCCC-CCC----CCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCC
Q 002141 409 EKQNDFDWDSLRRQVEANGGKK-ERP----EHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGS 483 (960)
Q Consensus 409 ~~~QnT~W~nL~kaL~nL~~k~-er~----~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGg 483 (960)
...|+++|.++.+.+.+|...- +.. .....+|+|++|+.++.++|.+ +|+.. ||++|+++|+.+.+ |.
T Consensus 123 IlsQq~s~~~a~~~~~rL~~~~G~~~~~~g~~~~~fPtpe~la~~~~e~L~~----~g~g~-Ra~~I~~~A~~i~~--g~ 195 (290)
T 3i0w_A 123 IISANNRIPMIKKCINNISEKAGKKLEYKGKIYYAFPTVDKLHEFTEKDFEE----CTAGF-RAKYLKDTVDRIYN--GE 195 (290)
T ss_dssp HHHTTCCHHHHHHHHHHHHHHHSCEEEETTEEEECCCCHHHHTTCCHHHHHH----TTCGG-GHHHHHHHHHHHHT--TS
T ss_pred HHhCcccHHHHHHHHHHHHHHhCCCcccCCcccccCCcHHHHHCCCHHHHHH----cCCch-HHHHHHHHHHHHHh--CC
Confidence 4578888888887777763100 000 0011368999999999999866 45543 89999999999986 55
Q ss_pred CCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHh
Q 002141 484 VDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLEL 557 (960)
Q Consensus 484 iDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVDThV~RIl~RLG~V~~~~tpEklek~Leel 557 (960)
++++.|..++.++++++|++|||||+|||+|||+|+||+| +||||+||+|++.|+|+.. .+++++++..+.+.
T Consensus 196 ~~l~~l~~~~~~~~~~~L~~lpGIG~~TA~~ill~~lg~pd~fpvD~~v~r~~~rl~~~~-~~~~~~i~~~~~~~ 269 (290)
T 3i0w_A 196 LNLEYIKSLNDNECHEELKKFMGVGPQVADCIMLFSMQKYSAFPVDTWVKKAMMSLYVAP-DVSLKKIRDFGREK 269 (290)
T ss_dssp SCHHHHHHSCHHHHHHHHTTSTTCCHHHHHHHHHHHHCCTTCCCCCHHHHHHHHHHTSCT-TCCHHHHHHHHHHH
T ss_pred CCHHHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCcceecHHHHHHHHHhcCCC-CCCHHHHHHHHHhh
Confidence 6899999999999999999999999999999999999997 9999999999999999876 46888888877443
No 17
>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, ALK hydrolase; 1.80A {Escherichia coli} SCOP: a.96.1.3 d.129.1.2 PDB: 1diz_A 1pvs_A* 3cvs_A* 3cvt_A* 3cw7_A* 3cwa_A* 3cws_A* 3cwt_A* 3cwu_A* 3d4v_A* 3ogd_A* 3oh9_A* 3oh6_A*
Probab=99.75 E-value=1.1e-17 Score=177.21 Aligned_cols=149 Identities=13% Similarity=0.052 Sum_probs=116.6
Q ss_pred cccccCCcHHHHHHHHHHcC----CCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCC
Q 002141 408 KEKQNDFDWDSLRRQVEANG----GKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGS 483 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~----~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGg 483 (960)
....|+++|.++.+.+.+|. .+.+-......+++|++|++++.++| +.+||+++||++|+++|+.+.+. .
T Consensus 120 ~Il~Qq~s~~~a~~~~~rL~~~~G~~~~~~~~~~~fPtp~~la~~~~~~L----r~~G~~~~ra~~i~~~A~~~~~~--~ 193 (282)
T 1mpg_A 120 AILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQAL----KALGMPLKRAEALIHLANAALEG--T 193 (282)
T ss_dssp HHHTTTSCHHHHHHHHHHHHHHHCCBCSSCTTCBCCCCHHHHHTCCHHHH----HHTTSCHHHHHHHHHHHHHHHHT--C
T ss_pred HHHhCcccHHHHHHHHHHHHHHhCCCCCCCCCcccCCCHHHHHcCCHHHH----HHcCCCHHHHHHHHHHHHHHHcC--C
Confidence 35679999999998888773 11000001134689999999999986 89999999999999999999973 3
Q ss_pred CCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchH
Q 002141 484 VDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLE 562 (960)
Q Consensus 484 iDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e 562 (960)
++++.+ .+.++++++|++|||||+|||+|||+|+||++ +||||+|+.| ++++ ..++++++..++.+.|.-.
T Consensus 194 ~~~~~~--~~~~~~~~~L~~lpGIG~~TA~~ill~~lg~~d~~pvdd~~~r--~~l~----~~~~~~~~~~~~~~~P~r~ 265 (282)
T 1mpg_A 194 LPMTIP--GDVEQAMKTLQTFPGIGRWTANYFALRGWQAKDVFLPDDYLIK--QRFP----GMTPAQIRRYAERWKPWRS 265 (282)
T ss_dssp SCSSCC--SCHHHHHHHHTTSTTCCHHHHHHHHHHHSCCSSCCCTTCHHHH--HHST----TCCHHHHHHHHGGGTTCHH
T ss_pred CCcccc--CCHHHHHHHHhcCCCcCHHHHHHHHHHhCCCCCcCccccHHHH--HHhc----cCCHHHHHHHHHHcCCHHH
Confidence 455554 57788999999999999999999999999999 9999988877 5663 4678889888888888434
Q ss_pred HHHHhhhh
Q 002141 563 SIQKYLWP 570 (960)
Q Consensus 563 ~Iqk~LW~ 570 (960)
..+.++|.
T Consensus 266 ~a~~~lw~ 273 (282)
T 1mpg_A 266 YALLHIWY 273 (282)
T ss_dssp HHHHHHHT
T ss_pred HHHHHHHH
Confidence 44555664
No 18
>4e9f_A Methyl-CPG-binding domain protein 4; HHH DNA glycosylase family, hydrolase-DNA complex; HET: DNA 3DR; 1.79A {Homo sapiens} PDB: 4e9e_A* 4e9g_A* 4e9h_A* 4ea5_A* 4dk9_A* 1ngn_A 4ea4_A* 4ew4_A* 4evv_A* 4ew0_A* 3iho_A
Probab=99.75 E-value=1.6e-18 Score=171.72 Aligned_cols=106 Identities=16% Similarity=0.178 Sum_probs=94.4
Q ss_pred cccccCCcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCch
Q 002141 408 KEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLE 487 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe 487 (960)
-...|+|.|++|.+...++.. ..+||++|++|+.++|+++|+++|||++||++|+++++.++.+
T Consensus 38 ~ILsqQT~~~~v~~~~~~l~~---------~~pt~~~la~a~~~el~~~i~~lG~y~~KAk~i~~~a~~~vp~------- 101 (161)
T 4e9f_A 38 TIFLNRTSGKMAIPVLWKFLE---------KYPSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTK------- 101 (161)
T ss_dssp HHHTTTSCHHHHHHHHHHHHH---------HSCSHHHHTTSCHHHHHHHHGGGSCHHHHHHHHHHHHHHHHHS-------
T ss_pred HHHHhhCcHHHHHHHHHHHHH---------HCCCHHHHhccChHhHHhHhhhcCCHHHHHHHHHHHhCCcCCC-------
Confidence 356789999999999888852 3589999999999999999999999999999999999876642
Q ss_pred hhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCC--eeeecchHHHHHHHHh
Q 002141 488 WLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHH--LAFPVDTNVGRIAVRL 538 (960)
Q Consensus 488 ~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgr--pvfpVDThV~RIl~RL 538 (960)
+ +++|++|||||+||||+|++||+|. +|+|+|.+++|++.|+
T Consensus 102 -------~--~~~L~~LpGVG~yTAdav~~F~~~e~~~V~p~D~~l~r~l~wl 145 (161)
T 4e9f_A 102 -------Q--WKYPIELHGIGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWL 145 (161)
T ss_dssp -------C--CSSGGGSTTCCHHHHHHHHHHTSSCGGGCCCCSHHHHHHHHHH
T ss_pred -------C--hhhhhcCCCchHHHHHHHHHHHCCCCCCCCCCcHHHHHHHHHH
Confidence 2 4579999999999999999999994 7999999999999987
No 19
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A
Probab=99.74 E-value=2.8e-18 Score=183.09 Aligned_cols=150 Identities=24% Similarity=0.256 Sum_probs=116.2
Q ss_pred cccccCCcHHHHHHHHHHcCCC-CCCCC----CCCCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcC
Q 002141 408 KEKQNDFDWDSLRRQVEANGGK-KERPE----HTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHG 482 (960)
Q Consensus 408 ~~~~QnT~W~nL~kaL~nL~~k-~er~~----~~~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yG 482 (960)
....||++|.++.+.+.+|... .+... ....+++|++|++++.++| +++||+++||++|+++|+. |
T Consensus 125 ~Il~Qq~s~~~a~~~~~rL~~~~G~~~~~~g~~~~~fPtp~~la~~~~~~L----r~~G~~~rKa~~i~~~A~~-----g 195 (295)
T 2jhn_A 125 AIIQQQISFVVAEKLAAKIVGRFGDEVEWNGLKFYGFPTQEAILKAGVEGL----RECGLSRRKAELIVEIAKE-----E 195 (295)
T ss_dssp HHHTTTSCHHHHHHHHHHHHHHHSCEEEETTEEEECCCCHHHHHHHHHHHH----HHTTCCHHHHHHHHHHHTC-----S
T ss_pred HHHcCcccHHHHHHHHHHHHHHhCCCCCCCCCccccCCCHHHHHcCCHHHH----HHcCCCHHHHHHHHHHHHC-----C
Confidence 3567899999988887777420 00000 0012689999999998885 8999999999999999987 3
Q ss_pred CCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCe-eeecc-hHHHHHHHHh-cCCCCCCCHHHHHHHHHHhCC
Q 002141 483 SVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVD-TNVGRIAVRL-GWVPLQPLPESLQLHLLELYP 559 (960)
Q Consensus 483 giDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrp-vfpVD-ThV~RIl~RL-G~V~~~~tpEklek~LeellP 559 (960)
+++.|..+|.++++++|++|||||+|||+|||+|+|| + +|||| .+++|++.|+ |+.....++.+++...+.+-|
T Consensus 196 --~l~~l~~~~~~e~~~~L~~lpGIG~~TA~~ill~~lg-~d~fpvdD~~~rr~~~~~~g~~~~~~~~~~~~~~~e~~~p 272 (295)
T 2jhn_A 196 --NLEELKEWGEEEAYEYLTSFKGIGRWTAELVLSIALG-KNVFPADDLGVRRAVSRLYFNGEIQSAEKVREIARERFGR 272 (295)
T ss_dssp --SGGGGGGSCHHHHHHHHHTSTTCCHHHHHHHHHHTTC-CCCCCTTCHHHHHHHHHHHSTTCCCCHHHHHHHHHHHTGG
T ss_pred --CHhhhhcCCHHHHHHHHhcCCCcCHHHHHHHHHHccC-CCcccchHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhccc
Confidence 6888889999999999999999999999999999999 8 99995 5566699998 775424678888887777777
Q ss_pred chHHHHHhhh
Q 002141 560 VLESIQKYLW 569 (960)
Q Consensus 560 ~~e~Iqk~LW 569 (960)
.-...+.++|
T Consensus 273 ~r~~a~~~Lw 282 (295)
T 2jhn_A 273 FARDILFYLF 282 (295)
T ss_dssp GHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3333344555
No 20
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=84.10 E-value=1.1 Score=37.60 Aligned_cols=39 Identities=26% Similarity=0.408 Sum_probs=27.2
Q ss_pred HHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 474 LNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 474 A~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
|+.|.+.||+ ++.+...+ .+.|..++|||+++|..|..+
T Consensus 27 a~~Ll~~fgs--~~~l~~a~----~~~L~~i~Gig~~~a~~i~~~ 65 (75)
T 1x2i_A 27 ARRLLKHFGS--VERVFTAS----VAELMKVEGIGEKIAKEIRRV 65 (75)
T ss_dssp HHHHHHHHCS--HHHHHHCC----HHHHTTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHcCC--HHHHHhCC----HHHHhcCCCCCHHHHHHHHHH
Confidence 3344445654 55665555 458999999999999988764
No 21
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=82.02 E-value=1.6 Score=38.75 Aligned_cols=37 Identities=30% Similarity=0.312 Sum_probs=26.7
Q ss_pred HHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 476 RLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 476 ~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
.|.+.||+ ++.+...+ .++|.+++|||+++|..|+.+
T Consensus 47 ~Ll~~fgs--~~~l~~as----~~eL~~i~GIG~~~a~~I~~~ 83 (91)
T 2a1j_B 47 TLLTTFGS--LEQLIAAS----REDLALCPGLGPQKARRLFDV 83 (91)
T ss_dssp HHHHHHSS--HHHHHSCC----HHHHHTSSSCCSHHHHHHHHH
T ss_pred HHHHHCCC--HHHHHhCC----HHHHHhCCCCCHHHHHHHHHH
Confidence 34444554 56666555 458999999999999998765
No 22
>2ofk_A 3-methyladenine DNA glycosylase I, constitutive; DNA repair, base excision, helix-hairpin-helix, hydrolase; HET: PGE; 1.50A {Salmonella typhi} PDB: 2ofi_A* 1lmz_A 1nku_A 1p7m_A*
Probab=81.89 E-value=1.4 Score=44.87 Aligned_cols=64 Identities=9% Similarity=0.142 Sum_probs=46.6
Q ss_pred CcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCC--hHHHHHHHHHHHHHHH---HhcCCC
Q 002141 414 FDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGM--NNMLAGRIKDFLNRLV---RDHGSV 484 (960)
Q Consensus 414 T~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gf--yn~KAkrIk~lA~~Iv---e~yGgi 484 (960)
-.|..+.+-- +....+...++++.|+..++++|+.++...|. ++.|.+.+..=|+.+. ++||+|
T Consensus 44 LSW~tIL~KR-------e~fr~AF~~Fd~~~VA~~~e~~ve~Ll~d~~IIRnr~KI~A~i~NA~~~l~i~~e~Gsf 112 (183)
T 2ofk_A 44 LSWITVLKKR-------ENYRACFHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESF 112 (183)
T ss_dssp SCHHHHHHTH-------HHHHHHTGGGCHHHHHTCCHHHHHHHTTCTTSCCCHHHHHHHHHHHHHHHHHHHTTCCH
T ss_pred CCHHHHHHhH-------HHHHHHHcCCCHHHHcCCCHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 3677776532 22333467899999999999999999999998 5677777777666654 455653
No 23
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=81.74 E-value=1.7 Score=38.24 Aligned_cols=39 Identities=28% Similarity=0.284 Sum_probs=27.3
Q ss_pred HHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 474 LNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 474 A~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
|+.|.+.||+ ++.+...+ .++|..++|||+++|..|+.+
T Consensus 32 A~~Ll~~fgs--l~~l~~a~----~~eL~~i~GIG~~~a~~I~~~ 70 (89)
T 1z00_A 32 SQTLLTTFGS--LEQLIAAS----REDLALCPGLGPQKARRLFDV 70 (89)
T ss_dssp HHHHHHHTCB--HHHHHHCC----HHHHHTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHCCC--HHHHHhCC----HHHHHhCCCCCHHHHHHHHHH
Confidence 3444455664 55665555 457999999999999988765
No 24
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=81.42 E-value=1.3 Score=38.17 Aligned_cols=36 Identities=22% Similarity=0.257 Sum_probs=25.9
Q ss_pred HHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 477 LVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 477 Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
|.+.||. ++.+...+ .++|.+++|||+++|..|+.+
T Consensus 40 Ll~~fgs--l~~l~~a~----~eeL~~i~GIG~~~a~~I~~~ 75 (78)
T 1kft_A 40 LLKYMGG--LQGLRNAS----VEEIAKVPGISQGLAEKIFWS 75 (78)
T ss_dssp HHHHHSC--HHHHHHCC----HHHHTTSSSTTSHHHHHHHHH
T ss_pred HHHHcCC--HHHHHHCC----HHHHHHCCCCCHHHHHHHHHH
Confidence 3344554 56665555 458999999999999988764
No 25
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=78.82 E-value=1.4 Score=45.91 Aligned_cols=28 Identities=21% Similarity=0.339 Sum_probs=22.3
Q ss_pred hHHHHHHHHhCCCccHHHHHHHHHHhcC
Q 002141 494 PDKAKEYLLSFRGLGLKSVECVRLLTLH 521 (960)
Q Consensus 494 ~deareeLLsLpGIGpKTAd~ILLfafg 521 (960)
-+++++.|.+|||||+|||.=+.++-+.
T Consensus 21 l~~LI~~l~~LPGIG~KsA~RlA~hLL~ 48 (212)
T 3vdp_A 21 VAKLIEELSKLPGIGPKTAQRLAFFIIN 48 (212)
T ss_dssp HHHHHHHHHTSTTCCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHc
Confidence 4678999999999999999665555443
No 26
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=76.61 E-value=3.5 Score=48.58 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=36.5
Q ss_pred HHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHh
Q 002141 474 LNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRL 538 (960)
Q Consensus 474 A~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RL 538 (960)
|+.|.+.|+ +++.|...+ .++|.+++|||+++|..|..|- -|-+.+.++.+|
T Consensus 525 a~~La~~f~--sl~~l~~a~----~e~l~~i~giG~~~A~si~~ff-------~~~~n~~~i~~L 576 (586)
T 4glx_A 525 AAGLAAYFG--TLEALEAAS----IEELQKVPDVGIVVASHVHNFF-------AEESNRNVISEL 576 (586)
T ss_dssp HHHHHHHHC--SHHHHHHCC----HHHHTTSTTCCHHHHHHHHHHH-------HSHHHHHHHHHH
T ss_pred HHHHHHHcC--CHHHHHccC----HHHHhcCCCccHHHHHHHHHHH-------cCHHHHHHHHHH
Confidence 444555555 466776665 4589999999999999998762 355666666666
No 27
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Probab=76.07 E-value=1.8 Score=45.47 Aligned_cols=27 Identities=19% Similarity=0.193 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCCccHHHHHHHHHHhcC
Q 002141 495 DKAKEYLLSFRGLGLKSVECVRLLTLH 521 (960)
Q Consensus 495 deareeLLsLpGIGpKTAd~ILLfafg 521 (960)
+++++.|.+|||||+|||.=+.++-+.
T Consensus 8 ~~LI~~l~~LPGIG~KSA~RlA~hLL~ 34 (228)
T 1vdd_A 8 VSLIRELSRLPGIGPKSAQRLAFHLFE 34 (228)
T ss_dssp HHHHHHHHTSTTCCHHHHHHHHHHHSS
T ss_pred HHHHHHHhHCCCCCHHHHHHHHHHHHc
Confidence 678999999999999999665555443
No 28
>2jg6_A DNA-3-methyladenine glycosidase; 3-methyladenine-DNA-glycosylase-I, hydrolase; 1.70A {Staphylococcus aureus} PDB: 4aia_A* 4ai5_A* 4ai4_A
Probab=75.57 E-value=6.1 Score=40.47 Aligned_cols=98 Identities=16% Similarity=0.169 Sum_probs=64.0
Q ss_pred CcHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHcCCHHHHHHHHhhcCC--hHHHHHHHHHHHHHHH---HhcCCCC-ch
Q 002141 414 FDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGM--NNMLAGRIKDFLNRLV---RDHGSVD-LE 487 (960)
Q Consensus 414 T~W~nL~kaL~nL~~k~er~~~~~g~~TpEaLA~As~eELeeLIRp~Gf--yn~KAkrIk~lA~~Iv---e~yGgiD-Le 487 (960)
-.|..+.+--.+.+ .+...++++.||..++++|+.++...|. ++.|.+.+..=|+.++ +++|+|+ +-
T Consensus 44 LSW~tIL~KRe~fR-------~AF~~FD~~~VA~~~e~dve~Ll~d~gIIRnr~KI~A~i~NA~~~l~i~~e~gsf~~yl 116 (186)
T 2jg6_A 44 LSWLTILKKKEAYE-------EAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 116 (186)
T ss_dssp SCHHHHHHHHHHHH-------HHTGGGCHHHHTTCCHHHHHHHTTCTTSCCCHHHHHHHHHHHHHHHHHHHHHSCHHHHH
T ss_pred CCHHHHHHhHHHHH-------HHHcCCCHHHHhCCCHHHHHHHhcCccchhhHHHHHHHHHHHHHHHHHHHhcCCHHHHH
Confidence 46877776433332 3467899999999999999999999998 5567777766566554 4566531 10
Q ss_pred h--------------hhcCCh-----HHHHHHHHh--CCCccHHHHHHHHHH
Q 002141 488 W--------------LRDVPP-----DKAKEYLLS--FRGLGLKSVECVRLL 518 (960)
Q Consensus 488 ~--------------Lr~vP~-----deareeLLs--LpGIGpKTAd~ILLf 518 (960)
| +.++|. +.+-+.|.+ ++-||+-|+.++|.-
T Consensus 117 W~fv~~~p~~~~~~~~~~vp~~t~~S~~lsKdLKkrGFkFvGpt~~YafmQA 168 (186)
T 2jg6_A 117 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEA 168 (186)
T ss_dssp HGGGTTSCEECCCCSGGGCCSCCHHHHHHHHHHHTTTCCSCCHHHHHHHHHH
T ss_pred HhcCCCCCccCCccchhhcCCCCHHHHHHHHHHHHCCCeeechHHHHHHHHH
Confidence 1 123332 133444554 677899888777653
No 29
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=74.01 E-value=7.1 Score=42.67 Aligned_cols=57 Identities=12% Similarity=0.081 Sum_probs=42.0
Q ss_pred HHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 451 NKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 451 eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
++|+.++.-.|=..-|++..+.+|..|.. ++. .+.. ..+|.+|||||+++|+.|.-+
T Consensus 20 ~~ia~l~e~~~~~~~rv~AYr~Aa~~l~~-l~~-------~i~~---~~~l~~LpGIG~~~A~kI~E~ 76 (335)
T 2fmp_A 20 TELANFEKNVSQAIHKYNAYRKAASVIAK-YPH-------KIKS---GAEAKKLPGVGTKIAEKIDEF 76 (335)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHHHHHHHHH-CSS-------CCCC---HHHHHTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCcHHHHHHHHHHHHHHh-CCc-------cccC---HHHHhcCCCCcHHHHHHHHHH
Confidence 46777776566666788888898888775 333 2222 346999999999999999866
No 30
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=73.37 E-value=3.9 Score=48.83 Aligned_cols=82 Identities=16% Similarity=0.107 Sum_probs=49.8
Q ss_pred CHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHH-------------------------HHHHHHhcCCCCchhhhcCChH
Q 002141 441 DWEAVRCADVNKIANTIKERGMNNMLAGRIKDF-------------------------LNRLVRDHGSVDLEWLRDVPPD 495 (960)
Q Consensus 441 TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~l-------------------------A~~Ive~yGgiDLe~Lr~vP~d 495 (960)
++.+|..+..++|.. --||...+|..|.+. |+.+.+.||+ ++.|...+
T Consensus 470 ~~aDL~~L~~~~L~~---l~gfG~Ksa~nLl~aIe~sk~~~l~R~L~algi~~VG~~~Ak~La~~Fgs--l~~l~~As-- 542 (671)
T 2owo_A 470 TPADLFKLTAGKLTG---LERMGPKSAQNVVNALEKAKETTFARFLYALGIREVGEATAAGLAAYFGT--LEALEAAS-- 542 (671)
T ss_dssp SGGGGGTCCHHHHHT---STTCCHHHHHHHHHHHHHHTBCCHHHHHHHTTCTTCCHHHHHHHHHHHCS--HHHHHTCC--
T ss_pred CHHHHHhhCHHHhhc---ccccchhHHHHHHHHHHHHhcCChhheehhhcccCccHHHHHHHHHHcCC--HHHHHhCC--
Confidence 666677776665533 257766666666553 2233344443 55565554
Q ss_pred HHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHh
Q 002141 496 KAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRL 538 (960)
Q Consensus 496 eareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RL 538 (960)
.++|.+++|||+++|..|..|- . +.+.+.++.+|
T Consensus 543 --~eeL~~i~GIG~~~A~sI~~ff-~------~~~~~~~i~~L 576 (671)
T 2owo_A 543 --IEELQKVPDVGIVVASHVHNFF-A------EESNRNVISEL 576 (671)
T ss_dssp --HHHHTTSTTCCHHHHHHHHHHH-T------CHHHHHHHHHH
T ss_pred --HHHHhhcCCCCHHHHHHHHHHH-H------hHHHHHHHHHH
Confidence 4588999999999999887653 1 33445555554
No 31
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=71.42 E-value=7.6 Score=42.43 Aligned_cols=52 Identities=23% Similarity=0.438 Sum_probs=34.1
Q ss_pred cCChHHHHHHHHHHHHHHHHhcCCC-CchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 460 RGMNNMLAGRIKDFLNRLVRDHGSV-DLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 460 ~Gfyn~KAkrIk~lA~~Ive~yGgi-DLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
-|.....|..|.++.+ .|.+ -|+.|+.-+.......|++++|||++||..+.
T Consensus 63 pGIG~~~A~kI~E~l~-----tG~~~~le~l~~~~~~~~l~~l~~V~GiGpk~a~~l~ 115 (335)
T 2fmp_A 63 PGVGTKIAEKIDEFLA-----TGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFV 115 (335)
T ss_dssp TTCCHHHHHHHHHHHH-----HSSCHHHHHHHHCHHHHHHHHHTTSTTCCHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHH-----hCCcHHHHHHHcccchhHHHHHhCCCCCCHHHHHHHH
Confidence 3555667777777654 2443 23444443434468899999999999998763
No 32
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=69.67 E-value=8.5 Score=42.08 Aligned_cols=56 Identities=18% Similarity=0.141 Sum_probs=39.3
Q ss_pred HHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 451 NKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 451 eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
++|+.++.-.|=. -|++..+.+|..|.. ++. .+.. .++|.+|||||+++|+.|.-+
T Consensus 21 ~~ia~~~e~~g~~-~r~~AYr~Aa~~l~~-l~~-------~i~~---~~~l~~lpGIG~~~A~kI~E~ 76 (335)
T 2bcq_A 21 EVLAKAYSVQGDK-WRALGYAKAINALKS-FHK-------PVTS---YQEACSIPGIGKRMAEKIIEI 76 (335)
T ss_dssp HHHHHHHHHTTCH-HHHHHHHHHHHHHHS-CCS-------CCCC---HHHHHTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHcCcc-HhHHHHHHHHHHHHh-CCc-------cccC---HHHHhcCCCccHHHHHHHHHH
Confidence 4566666666665 688888888887764 332 2222 345999999999999998866
No 33
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=69.37 E-value=2.7 Score=43.54 Aligned_cols=25 Identities=20% Similarity=0.197 Sum_probs=20.1
Q ss_pred HHHHHhCCCccHHHHHHHHHHhcCC
Q 002141 498 KEYLLSFRGLGLKSVECVRLLTLHH 522 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLfafgr 522 (960)
.+.|.++||||+|||+-|.+---++
T Consensus 122 ~~~L~~vpGIG~KtA~rIi~elk~k 146 (212)
T 2ztd_A 122 VAALTRVPGIGKRGAERMVLELRDK 146 (212)
T ss_dssp HHHHHTSTTCCHHHHHHHHHHHTTT
T ss_pred HHHHhhCCCCCHHHHHHHHHHHHHh
Confidence 5799999999999999887544343
No 34
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=67.44 E-value=6.4 Score=43.46 Aligned_cols=56 Identities=14% Similarity=0.033 Sum_probs=41.5
Q ss_pred HHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 451 NKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 451 eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
++|+.++.-.| ...|++..+.+|..|.. ++. + +.. .++|.+|||||+++|+.|.-+
T Consensus 25 ~~ia~~~e~~g-~~~r~~AYr~Aa~~l~~-l~~-~------i~~---~~~l~~lpGIG~~~A~kI~E~ 80 (360)
T 2ihm_A 25 ETLAEAAGFEA-NEGRLLSFSRAASVLKS-LPC-P------VAS---LSQLHGLPYFGEHSTRVIQEL 80 (360)
T ss_dssp HHHHHHHHHTT-CHHHHHHHHHHHHHHHH-CSS-C------CCS---GGGGTTCTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHcC-CcHHHHHHHHHHHHHHh-CCc-c------cCC---HHHHhcCCCCCHHHHHHHHHH
Confidence 46677777778 66789989998888875 333 2 222 224999999999999999866
No 35
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=67.06 E-value=2.8 Score=35.83 Aligned_cols=21 Identities=19% Similarity=0.159 Sum_probs=18.8
Q ss_pred HHHHHhCCCccHHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLf 518 (960)
.+.|.++||||+++|..|+.+
T Consensus 26 ~~~L~~ipGIG~~~A~~Il~~ 46 (75)
T 2duy_A 26 LEELMALPGIGPVLARRIVEG 46 (75)
T ss_dssp HHHHTTSTTCCHHHHHHHHHT
T ss_pred HHHHHhCCCCCHHHHHHHHHH
Confidence 568999999999999999875
No 36
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=64.89 E-value=4 Score=42.29 Aligned_cols=45 Identities=22% Similarity=0.127 Sum_probs=30.8
Q ss_pred HHHHHHHhCCCccHHHHHHHHHHhcCCeee---ecchHHHHHHHHhcCC
Q 002141 496 KAKEYLLSFRGLGLKSVECVRLLTLHHLAF---PVDTNVGRIAVRLGWV 541 (960)
Q Consensus 496 eareeLLsLpGIGpKTAd~ILLfafgrpvf---pVDThV~RIl~RLG~V 541 (960)
++...|.+++|||||+|..||. .|+-..+ +++..+.|+..==|+.
T Consensus 85 ~lf~~L~sv~GIGpk~A~~Ils-~~~~~~l~~aI~~~d~~~L~~vpGIG 132 (212)
T 2ztd_A 85 DLFLTLLSVSGVGPRLAMAALA-VHDAPALRQVLADGNVAALTRVPGIG 132 (212)
T ss_dssp HHHHHHHTSTTCCHHHHHHHHH-HSCHHHHHHHHHTTCHHHHHTSTTCC
T ss_pred HHHHHhcCcCCcCHHHHHHHHH-hCCHHHHHHHHHhCCHHHHhhCCCCC
Confidence 4567899999999999999986 3444333 5566666665443553
No 37
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=63.55 E-value=1.9 Score=36.92 Aligned_cols=55 Identities=24% Similarity=0.311 Sum_probs=34.2
Q ss_pred HHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 442 WEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 442 pEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
+-+|..++.++|..+ -|....+|+.|.+. + .+ -. .++|.+++|||+++++.|.-|
T Consensus 18 ~idiN~a~~~~L~~i---pGIG~~~A~~Il~~-------r-~~-------~s----~~eL~~v~Gig~k~~~~i~~~ 72 (75)
T 2duy_A 18 PVSLNEASLEELMAL---PGIGPVLARRIVEG-------R-PY-------AR----VEDLLKVKGIGPATLERLRPY 72 (75)
T ss_dssp SEETTTCCHHHHTTS---TTCCHHHHHHHHHT-------C-CC-------SS----GGGGGGSTTCCHHHHHHHGGG
T ss_pred ccChhhCCHHHHHhC---CCCCHHHHHHHHHH-------c-cc-------CC----HHHHHhCCCCCHHHHHHHHHh
Confidence 334666777776542 35655566555442 2 11 11 457889999999999987543
No 38
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=63.07 E-value=7.5 Score=43.29 Aligned_cols=60 Identities=12% Similarity=-0.071 Sum_probs=42.5
Q ss_pred HHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH-hcCC
Q 002141 451 NKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL-TLHH 522 (960)
Q Consensus 451 eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf-afgr 522 (960)
++|+.++.-.| ...|++..+.+|..|.. ++. + +.. .++|.+|||||+++|+.|.-+ .-|.
T Consensus 44 ~~ia~~~e~~g-~~~rv~AYr~Aa~~l~~-l~~-~------i~~---~~~l~~lpGIG~~ia~kI~E~l~tG~ 104 (381)
T 1jms_A 44 DILAENDELRE-NEGSCLAFMRASSVLKS-LPF-P------ITS---MKDTEGIPCLGDKVKSIIEGIIEDGE 104 (381)
T ss_dssp HHHHHHHHHTT-CHHHHHHHHHHHHHHHT-CSS-C------CCS---GGGGTTCSSCCHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHhhC-CcHHHHHHHHHHHHHHh-CCc-c------ccC---HHHHhcCCCCcHHHHHHHHHHHHcCC
Confidence 46666776677 66789989998888864 333 2 221 224899999999999999865 3344
No 39
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Probab=62.07 E-value=8.8 Score=38.80 Aligned_cols=38 Identities=26% Similarity=0.435 Sum_probs=26.8
Q ss_pred HHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 475 NRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 475 ~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
+.|.+.||. ++.+...+ .++|..++|||+++|..|..+
T Consensus 176 ~~Ll~~fgs--~~~l~~a~----~e~L~~v~GiG~~~a~~i~~~ 213 (219)
T 2bgw_A 176 ERILERFGS--LERFFTAS----KAEISKVEGIGEKRAEEIKKI 213 (219)
T ss_dssp HHHHHHHSS--HHHHTTCC----HHHHHHSTTCCHHHHHHHHHH
T ss_pred HHHHHHcCC--HHHHHhCC----HHHHhhCCCCCHHHHHHHHHH
Confidence 344455664 55565555 457999999999999988755
No 40
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=61.29 E-value=19 Score=39.31 Aligned_cols=48 Identities=23% Similarity=0.371 Sum_probs=30.6
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCCCchhhhcCC-hHHHHHHHHhCCCccHHHHHHH
Q 002141 461 GMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVP-PDKAKEYLLSFRGLGLKSVECV 515 (960)
Q Consensus 461 Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP-~deareeLLsLpGIGpKTAd~I 515 (960)
|.....|+.|.++.+ .|. +..|..+. ...+.+.|.+++|||+|||..+
T Consensus 64 GIG~~~A~kI~E~l~-----tG~--~~~le~l~~~~p~l~ll~~v~GiG~k~a~~l 112 (335)
T 2bcq_A 64 GIGKRMAEKIIEILE-----SGH--LRKLDHISESVPVLELFSNIWGAGTKTAQMW 112 (335)
T ss_dssp TCCHHHHHHHHHHHH-----SSS--CGGGGGCCTTHHHHHHHHTSTTCCHHHHHHH
T ss_pred CccHHHHHHHHHHHH-----cCC--chHHHHHhhhhHHHHHHhcCCCcCHHHHHHH
Confidence 555667777777643 344 33333331 1225666779999999999876
No 41
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=59.34 E-value=7.1 Score=43.10 Aligned_cols=51 Identities=16% Similarity=0.257 Sum_probs=32.8
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCC-CchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 461 GMNNMLAGRIKDFLNRLVRDHGSV-DLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 461 Gfyn~KAkrIk~lA~~Ive~yGgi-DLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
|.....|+.|.++.+ .|.+ -++.|+.=+.......|++++|||+|||..+.
T Consensus 68 GIG~~~A~kI~E~l~-----tG~~~~le~L~~d~~~~~l~~l~~I~GvG~kta~~l~ 119 (360)
T 2ihm_A 68 YFGEHSTRVIQELLE-----HGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWY 119 (360)
T ss_dssp TCCHHHHHHHHHHHH-----HSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH-----cCChHHHHHHhcccchHHHHHHhCCCCCCHHHHHHHH
Confidence 455567777776554 2443 23334322333457899999999999998773
No 42
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=57.73 E-value=22 Score=32.04 Aligned_cols=40 Identities=10% Similarity=-0.012 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 466 LAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 466 KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
++...+.++..|.. |+. .+.. -+++..|+|||+++|..|-
T Consensus 36 ~~~~Y~KA~~sLk~-~P~-------~i~s---~~e~~~L~giG~ki~~~L~ 75 (87)
T 2kp7_A 36 TRFVFQKALRSLQR-YPL-------PLRS---GKEAKILQHFGDRLCRMLD 75 (87)
T ss_dssp THHHHHHHHHHHHH-CCS-------CCCS---HHHHHTCTTTCHHHHHHHH
T ss_pred HHHHHHHHHHHHHh-CCC-------CCCC---HHHHHHhhcccHHHHHHHH
Confidence 45666676777665 553 2332 3578999999999998763
No 43
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=55.01 E-value=20 Score=36.47 Aligned_cols=25 Identities=24% Similarity=0.226 Sum_probs=20.1
Q ss_pred HHHHHhCCCccHHHHHHHHHHhcCC
Q 002141 498 KEYLLSFRGLGLKSVECVRLLTLHH 522 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLfafgr 522 (960)
.++|.++||||+|||.-|...--++
T Consensus 106 ~~~L~~vpGIG~K~A~rI~~~lk~k 130 (191)
T 1ixr_A 106 ARLLTSASGVGRRLAERIALELKGK 130 (191)
T ss_dssp HHHHTTSTTCCHHHHHHHHHHHTTT
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHh
Confidence 5799999999999999987643333
No 44
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=53.78 E-value=9.6 Score=34.15 Aligned_cols=23 Identities=17% Similarity=0.393 Sum_probs=19.0
Q ss_pred HHHHHHHHhCCCccHHHHHHHHH
Q 002141 495 DKAKEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 495 deareeLLsLpGIGpKTAd~ILL 517 (960)
..+...|..|||||++.+..+|.
T Consensus 14 ~~~~s~L~~IpGIG~kr~~~LL~ 36 (84)
T 1z00_B 14 PGPQDFLLKMPGVNAKNCRSLMH 36 (84)
T ss_dssp HHHHHHHHTCSSCCHHHHHHHHH
T ss_pred ccHHHHHHhCCCCCHHHHHHHHH
Confidence 45688999999999999877664
No 45
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=53.48 E-value=16 Score=37.49 Aligned_cols=21 Identities=24% Similarity=0.332 Sum_probs=18.5
Q ss_pred HHHHHhCCCccHHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLf 518 (960)
.++|.++||||+|||.-|...
T Consensus 107 ~~~L~~vpGIG~K~A~rI~~e 127 (203)
T 1cuk_A 107 VGALVKLPGIGKKTAERLIVE 127 (203)
T ss_dssp HHHHHTSTTCCHHHHHHHHHH
T ss_pred HHHHhhCCCCCHHHHHHHHHH
Confidence 579999999999999988654
No 46
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=53.36 E-value=16 Score=32.88 Aligned_cols=59 Identities=17% Similarity=0.166 Sum_probs=36.5
Q ss_pred HHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 442 WEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 442 pEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
+-+|..++.++|.. |..+| ...|+.|.+.-. ..|.| .. .++|..++|||+++|+.+...
T Consensus 31 ~i~iN~a~~~~L~~-ipGIG--~~~A~~Il~~r~----~~g~f-------~s----~edL~~v~Gig~k~~~~l~~~ 89 (98)
T 2edu_A 31 LDLLNEGSARDLRS-LQRIG--PKKAQLIVGWRE----LHGPF-------SQ----VEDLERVEGITGKQMESFLKA 89 (98)
T ss_dssp HHHHHHSCHHHHHH-STTCC--HHHHHHHHHHHH----HHCCC-------SS----GGGGGGSTTCCHHHHHHHHHH
T ss_pred CeehhhCCHHHHHH-CCCCC--HHHHHHHHHHHH----hcCCc-------CC----HHHHHhCCCCCHHHHHHHHHC
Confidence 34566777777643 44444 456666655421 12432 11 345899999999999988654
No 47
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=53.06 E-value=8.1 Score=39.29 Aligned_cols=23 Identities=30% Similarity=0.260 Sum_probs=19.2
Q ss_pred HHHHHHHhCCCccHHHHHHHHHH
Q 002141 496 KAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 496 eareeLLsLpGIGpKTAd~ILLf 518 (960)
++...|.+++|||+|+|..||..
T Consensus 69 ~~f~~L~~v~GIGpk~A~~iL~~ 91 (191)
T 1ixr_A 69 ALFELLLSVSGVGPKVALALLSA 91 (191)
T ss_dssp HHHHHHHSSSCCCHHHHHHHHHH
T ss_pred HHHHHHhcCCCcCHHHHHHHHHh
Confidence 44558999999999999998864
No 48
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=53.03 E-value=12 Score=44.74 Aligned_cols=52 Identities=19% Similarity=0.275 Sum_probs=34.4
Q ss_pred HHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHh
Q 002141 474 LNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRL 538 (960)
Q Consensus 474 A~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RL 538 (960)
|+.|.+.||. ++.|...+ .++|.+++|||+++|+.|..|-- +-+.+.++.+|
T Consensus 520 Ak~La~~Fgs--l~~l~~As----~eeL~~I~GIG~~~A~sI~~ff~-------~~~~~~~i~~L 571 (667)
T 1dgs_A 520 ARNLARRFGT--MDRLLEAS----LEELIEVEEVGELTARAILETLK-------DPAFRDLVRRL 571 (667)
T ss_dssp HHHHHHTTSB--HHHHTTCC----HHHHHTSTTCCHHHHHHHHHHHH-------CHHHHHHHHHH
T ss_pred HHHHHHHcCC--HHHHHhCC----HHHHHhccCcCHHHHHHHHHHHh-------hHHHHHHHHHH
Confidence 4444555554 56665554 46899999999999999987631 34455566555
No 49
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*
Probab=52.30 E-value=19 Score=41.67 Aligned_cols=22 Identities=14% Similarity=0.101 Sum_probs=18.7
Q ss_pred HHHHHHhCCCccHHHHHHHHHH
Q 002141 497 AKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 497 areeLLsLpGIGpKTAd~ILLf 518 (960)
....|++++|||||+|-.++..
T Consensus 91 ~~~~l~~v~GvGpk~A~~~~~~ 112 (575)
T 3b0x_A 91 GVLEVMEVPGVGPKTARLLYEG 112 (575)
T ss_dssp HHHHHHTSTTTCHHHHHHHHHT
T ss_pred HHHHHhcCCCcCHHHHHHHHHh
Confidence 4778999999999999888663
No 50
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=51.44 E-value=11 Score=41.90 Aligned_cols=51 Identities=18% Similarity=0.212 Sum_probs=32.7
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCC-CchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 461 GMNNMLAGRIKDFLNRLVRDHGSV-DLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 461 Gfyn~KAkrIk~lA~~Ive~yGgi-DLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
|....-|+.|.++.+ .|.+ -|+.|+.=+......+|++++|||+|||..+.
T Consensus 87 GIG~~ia~kI~E~l~-----tG~~~~le~l~~d~~~~~l~~l~~I~GvGpk~a~~ly 138 (381)
T 1jms_A 87 CLGDKVKSIIEGIIE-----DGESSEAKAVLNDERYKSFKLFTSVFGVGLKTAEKWF 138 (381)
T ss_dssp SCCHHHHHHHHHHHH-----HSSCHHHHHHHHCHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred CCcHHHHHHHHHHHH-----cCCcHHHHHHhcCcchhHHHHHHccCCCCHHHHHHHH
Confidence 555566777766544 2443 23344422333457899999999999998773
No 51
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=51.32 E-value=8.1 Score=44.17 Aligned_cols=71 Identities=27% Similarity=0.332 Sum_probs=31.7
Q ss_pred CHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHH------------HHHHHHhcCCCCchhhhcCCh--------------
Q 002141 441 DWEAVRCADVNKIANTIKERGMNNMLAGRIKDF------------LNRLVRDHGSVDLEWLRDVPP-------------- 494 (960)
Q Consensus 441 TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~l------------A~~Ive~yGgiDLe~Lr~vP~-------------- 494 (960)
+..++..+++++| |.+||+..|...|+.+ |..+.++||.+. +.-+.+|.
T Consensus 540 s~savr~~pv~el----relg~sd~~ia~ikgip~~~~~~~~~e~a~~l~er~~~~~-~~~~~~~~~~l~~~g~~~~~~~ 614 (685)
T 4gfj_A 540 SASAVRRLPVEEL----RELGFSDDEIAEIKGIPKKLREAFDLETAAELYERYGSLK-EIGRRLSYDDLLELGATPKAAA 614 (685)
T ss_dssp CHHHHHHSCHHHH----HTTSCCHHHHHHHHTCCHHHHHHSCHHHHHHHHHHHSSST-GGGGSCGGGCCSSSCCGGGC--
T ss_pred cHHHHHhccHHHH----HHcCCchhhHHHhcCCcHHHHhhcCHHHHHHHHHHhccHH-HHhhcCCHHHHhccCCCHHHHH
Confidence 5678999999986 8889999998888755 444555666531 11111221
Q ss_pred ---HHHHHHHHhCCCccHHHHHHHH
Q 002141 495 ---DKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 495 ---deareeLLsLpGIGpKTAd~IL 516 (960)
+-+.+.|+.++||||+.|+-++
T Consensus 615 eik~p~~k~ll~~~gv~p~la~r~~ 639 (685)
T 4gfj_A 615 EIKGPEFKFLLNIEGVGPKLAERIL 639 (685)
T ss_dssp -------------------------
T ss_pred HhcChhHHHhhcccCCCHHHHHHHH
Confidence 1235678888888888876554
No 52
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=51.01 E-value=9.4 Score=34.35 Aligned_cols=21 Identities=19% Similarity=0.167 Sum_probs=18.9
Q ss_pred HHHHHhCCCccHHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLf 518 (960)
.+.|.+|||||+++|..|+-+
T Consensus 39 ~~~L~~ipGIG~~~A~~Il~~ 59 (98)
T 2edu_A 39 ARDLRSLQRIGPKKAQLIVGW 59 (98)
T ss_dssp HHHHHHSTTCCHHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHHH
Confidence 457999999999999999876
No 53
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=50.89 E-value=9.5 Score=32.09 Aligned_cols=20 Identities=20% Similarity=0.476 Sum_probs=16.4
Q ss_pred HHHHHhCCCccHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILL 517 (960)
...|..|||||++.+..+|.
T Consensus 3 ~s~L~~IpGIG~kr~~~LL~ 22 (63)
T 2a1j_A 3 QDFLLKMPGVNAKNCRSLMH 22 (63)
T ss_dssp CHHHHTSTTCCHHHHHHHHH
T ss_pred HhHHHcCCCCCHHHHHHHHH
Confidence 35799999999999877664
No 54
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=49.21 E-value=10 Score=38.80 Aligned_cols=23 Identities=17% Similarity=0.076 Sum_probs=19.2
Q ss_pred HHHHHHHhCCCccHHHHHHHHHH
Q 002141 496 KAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 496 eareeLLsLpGIGpKTAd~ILLf 518 (960)
++...|.+++|||+|+|-.||..
T Consensus 70 ~~f~~L~~V~GIGpk~A~~iL~~ 92 (203)
T 1cuk_A 70 TLFKELIKTNGVGPKLALAILSG 92 (203)
T ss_dssp HHHHHHHHSSSCCHHHHHHHHHH
T ss_pred HHHHHHhcCCCcCHHHHHHHHhh
Confidence 34557999999999999998864
No 55
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Probab=48.07 E-value=3.8 Score=48.52 Aligned_cols=37 Identities=22% Similarity=0.335 Sum_probs=0.0
Q ss_pred HHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 476 RLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 476 ~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
.+.+.||. ++.|...+ .++|.+++|||+++|..|..|
T Consensus 544 ~La~~Fgs--le~L~~As----~eeL~~I~GIG~~~A~sI~~f 580 (615)
T 3sgi_A 544 ALATEFGS--LDAIAAAS----TDQLAAVEGVGPTIAAAVTEW 580 (615)
T ss_dssp -------------------------------------------
T ss_pred HHHHHcCC--HHHHHhCC----HHHHhhCCCCCHHHHHHHHHH
Confidence 34444554 45555444 468999999999999998765
No 56
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=45.71 E-value=12 Score=32.71 Aligned_cols=24 Identities=8% Similarity=0.130 Sum_probs=19.1
Q ss_pred HHHHHHhCCCccHHHHHHHHHHhcC
Q 002141 497 AKEYLLSFRGLGLKSVECVRLLTLH 521 (960)
Q Consensus 497 areeLLsLpGIGpKTAd~ILLfafg 521 (960)
....|..+||||+++|..++.. ||
T Consensus 17 ~~~~L~~IpgIG~~~A~~Ll~~-fg 40 (89)
T 1z00_A 17 VTECLTTVKSVNKTDSQTLLTT-FG 40 (89)
T ss_dssp HHHHHTTSSSCCHHHHHHHHHH-TC
T ss_pred HHHHHHcCCCCCHHHHHHHHHH-CC
Confidence 3567889999999999888754 44
No 57
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U*
Probab=44.31 E-value=4.6 Score=37.25 Aligned_cols=53 Identities=19% Similarity=0.235 Sum_probs=35.4
Q ss_pred HHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 444 AVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 444 aLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
+|-.|+.++|.. | -|+...+|+.|.+ +|.| .. +++|+.++|||+++.+-+.-+
T Consensus 19 diNtAs~~eL~~-l--pGIG~~~A~~IV~--------~GpF-------~s----~edL~~V~Gig~~~~e~l~~~ 71 (97)
T 3arc_U 19 DLNNTNIAAFIQ-Y--RGLYPTLAKLIVK--------NAPY-------ES----VEDVLNIPGLTERQKQILREN 71 (97)
T ss_dssp ETTTSCGGGGGG-S--TTCTTHHHHHHHH--------HCCC-------SS----GGGGGGCTTCCHHHHHHHHHT
T ss_pred eCCcCCHHHHhH-C--CCCCHHHHHHHHH--------cCCC-------CC----HHHHHhccCCCHHHHHHHHHH
Confidence 355667766644 3 4555567766665 4653 12 568899999999998887654
No 58
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Probab=44.04 E-value=19 Score=40.34 Aligned_cols=38 Identities=21% Similarity=0.282 Sum_probs=31.4
Q ss_pred HHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 473 FLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 473 lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
+++.+++.||. ++.+...+ .++|.++.|||.+.|..|.
T Consensus 327 iae~Lv~~FGs--Lq~Il~AS----~eEL~~VeGIGe~rAr~Ir 364 (377)
T 3c1y_A 327 IGYNVVRMFKT--LDQISKAS----VEDLKKVEGIGEKRARAIS 364 (377)
T ss_dssp HHHHHHHHHCS--HHHHTTCC----HHHHTTSTTCCHHHHHHHH
T ss_pred HHHHHHHHhCC--HHHHHhCC----HHHHHhccCccHHHHHHHH
Confidence 58888999996 67776666 5689999999999998774
No 59
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=43.66 E-value=7.7 Score=37.93 Aligned_cols=51 Identities=20% Similarity=0.258 Sum_probs=35.2
Q ss_pred HHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHH
Q 002141 445 VRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 445 LA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILL 517 (960)
|-.|+.++|. +--|++..||+.|. .+|.| -. .++|+.++|||+++.+.+--
T Consensus 57 iNtA~~~eL~---~LpGiGp~~A~~II--------~~GpF-------~s----vedL~~V~GIg~k~~e~l~~ 107 (134)
T 1s5l_U 57 LNNTNIAAFI---QYRGLYPTLAKLIV--------KNAPY-------ES----VEDVLNIPGLTERQKQILRE 107 (134)
T ss_dssp TTTSCGGGGG---GSTTCTHHHHHHHH--------HTCCC-------SS----GGGGGGCTTCCHHHHHHHHH
T ss_pred CcccCHHHHH---HCCCCCHHHHHHHH--------HcCCC-------CC----HHHHHhCCCCCHHHHHHHHH
Confidence 4556666654 34588888888776 25664 12 45799999999998776643
No 60
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=43.47 E-value=33 Score=39.39 Aligned_cols=79 Identities=23% Similarity=0.242 Sum_probs=48.9
Q ss_pred CCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHHHH---HhcCCCCchhhhcCCh--HHH-------HHHHHhCC
Q 002141 438 DSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLV---RDHGSVDLEWLRDVPP--DKA-------KEYLLSFR 505 (960)
Q Consensus 438 g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~Iv---e~yGgiDLe~Lr~vP~--dea-------reeLLsLp 505 (960)
..++|++|..|=+-.|+.+-..-|....-|.++...+.... +.-..+....|..+|. ++. ..-|.+|+
T Consensus 395 R~IhPNAIRGAveiqLASLAvkfG~g~eTAe~L~~~agr~l~leqi~rdrEvgkL~SVpGikek~sktL~eqeamLtAIa 474 (685)
T 4gfj_A 395 GRLSEEAYRAAVEIQLAELTKKEGVGRKTAERLLRAFGNPERVKQLAREFEIEKLASVEGVGERVLRSLVPGYASLISIR 474 (685)
T ss_dssp TSSCHHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHSSHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHSTTHHHHHTST
T ss_pred CCCCHHHHhhhHhhhhhhhhhhcCCchHHHHHHHHHhcchhhhhhhhhhhhhhcccccccchhhhhcccccceeeeeccC
Confidence 34788888887656666666666777666777766665511 1011123334555554 222 25788889
Q ss_pred CccHHHHHHHH
Q 002141 506 GLGLKSVECVR 516 (960)
Q Consensus 506 GIGpKTAd~IL 516 (960)
|||+.+|.-+|
T Consensus 475 GIGp~tAeRLL 485 (685)
T 4gfj_A 475 GIDRERAERLL 485 (685)
T ss_dssp TCCHHHHHHHH
T ss_pred CCCHHHHHHHH
Confidence 99999987766
No 61
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=42.72 E-value=9.2 Score=39.73 Aligned_cols=32 Identities=13% Similarity=-0.011 Sum_probs=23.1
Q ss_pred HHHHHhCCCccHHHHHHHHHHhcCCeeeecch
Q 002141 498 KEYLLSFRGLGLKSVECVRLLTLHHLAFPVDT 529 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLfafgrpvfpVDT 529 (960)
.++|..|||||+++|..|+-+--..+.-.+|.
T Consensus 131 ~~eL~~LpGIG~k~A~~IIeyRe~G~F~s~eD 162 (205)
T 2i5h_A 131 MHQLELLPGVGKKMMWAIIEERKKRPFESFED 162 (205)
T ss_dssp SBGGGGSTTCCHHHHHHHHHHHHHSCCCSHHH
T ss_pred HHHHhcCCCcCHHHHHHHHHHHhcCCCCCHHH
Confidence 46899999999999999998732233334443
No 62
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=42.51 E-value=14 Score=32.54 Aligned_cols=24 Identities=8% Similarity=0.130 Sum_probs=18.8
Q ss_pred HHHHHHhCCCccHHHHHHHHHHhcC
Q 002141 497 AKEYLLSFRGLGLKSVECVRLLTLH 521 (960)
Q Consensus 497 areeLLsLpGIGpKTAd~ILLfafg 521 (960)
+...|..+||||+++|..++.. ||
T Consensus 30 ~~~~L~~IpgIG~~~A~~Ll~~-fg 53 (91)
T 2a1j_B 30 VTECLTTVKSVNKTDSQTLLTT-FG 53 (91)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHH-HS
T ss_pred HHHHHHcCCCCCHHHHHHHHHH-CC
Confidence 4567889999999999887753 44
No 63
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B
Probab=40.71 E-value=23 Score=30.59 Aligned_cols=37 Identities=14% Similarity=0.229 Sum_probs=33.0
Q ss_pred CCCCCHHHHHcCCHHHHHHHHhhcCChHHHHHHHHHHHHH
Q 002141 437 KDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNR 476 (960)
Q Consensus 437 ~g~~TpEaLA~As~eELeeLIRp~Gfyn~KAkrIk~lA~~ 476 (960)
.|..|.++|+.++.++|..+ .|+...||..|+..|+.
T Consensus 26 ~Gi~TvedlA~~~~~eL~~i---~gise~kA~~ii~aAr~ 62 (70)
T 1wcn_A 26 RGVCTLEDLAEQGIDDLADI---EGLTDEKAGALIMAARN 62 (70)
T ss_dssp TTCCSHHHHHTSCHHHHHTS---SSCCHHHHHHHHHHHHH
T ss_pred cCCCcHHHHHcCCHHHHHHc---cCCCHHHHHHHHHHHHH
Confidence 47899999999999998664 49999999999999987
No 64
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=40.52 E-value=17 Score=30.17 Aligned_cols=24 Identities=0% Similarity=-0.114 Sum_probs=19.1
Q ss_pred HHHHHHhCCCccHHHHHHHHHHhcC
Q 002141 497 AKEYLLSFRGLGLKSVECVRLLTLH 521 (960)
Q Consensus 497 areeLLsLpGIGpKTAd~ILLfafg 521 (960)
....|..+||||+++|..++-. ||
T Consensus 12 ~~~~L~~i~giG~~~a~~Ll~~-fg 35 (75)
T 1x2i_A 12 QRLIVEGLPHVSATLARRLLKH-FG 35 (75)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHH-HC
T ss_pred HHHHHcCCCCCCHHHHHHHHHH-cC
Confidence 4567889999999999888763 44
No 65
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=35.91 E-value=12 Score=36.71 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=17.8
Q ss_pred HHHHHhCCCccHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILL 517 (960)
.++|.+|||||++.|..|..
T Consensus 62 ~~eL~~LpGiGp~~A~~II~ 81 (134)
T 1s5l_U 62 IAAFIQYRGLYPTLAKLIVK 81 (134)
T ss_dssp GGGGGGSTTCTHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHHH
Confidence 46899999999999999983
No 66
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U*
Probab=35.59 E-value=11 Score=34.79 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=18.1
Q ss_pred HHHHHhCCCccHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILL 517 (960)
.++|..|||||+++|..|..
T Consensus 25 ~~eL~~lpGIG~~~A~~IV~ 44 (97)
T 3arc_U 25 IAAFIQYRGLYPTLAKLIVK 44 (97)
T ss_dssp GGGGGGSTTCTTHHHHHHHH
T ss_pred HHHHhHCCCCCHHHHHHHHH
Confidence 45899999999999999987
No 67
>1xqo_A 8-oxoguanine DNA glycosylase; helix-hairpin-helix, archaea, P.aerophilum, PA-AGOG native, DNA repair, lyase; 1.03A {Pyrobaculum aerophilum} SCOP: a.96.1.6 PDB: 1xqp_A*
Probab=34.77 E-value=1.3e+02 Score=32.31 Aligned_cols=123 Identities=16% Similarity=0.180 Sum_probs=73.7
Q ss_pred HHHHHHHhhcCC----hHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCcc--HH-------HHHHHHH
Q 002141 451 NKIANTIKERGM----NNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLG--LK-------SVECVRL 517 (960)
Q Consensus 451 eELeeLIRp~Gf----yn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIG--pK-------TAd~ILL 517 (960)
+++...++...+ .++|.++|+.+...+. ++.+ -..+++.|..+-|-. .| ++.....
T Consensus 86 ~~~~~Fl~~s~~n~Rl~~~KikRi~k~~~~~~---------~~~d--l~~l~~~LA~~l~s~~~~KTIVFAvKM~~Ya~r 154 (256)
T 1xqo_A 86 RDFLKYIETSPFLKIGVEARKKRALKACDYVP---------NLED--LGLTLRQLSHIVGARREQKTLVFTIKILNYAYM 154 (256)
T ss_dssp HHHHHHHHHCTTCCTTHHHHHHHHHHHTTCCC---------CTTC--HHHHHHHHHHHHTSCTTSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCchhHHHHHHHHHHHHHHhhhhh---------HHHH--HHHHHHHHHHHhCCCCCcceeeeHHHHHHHHHH
Confidence 366677777654 3688888888743322 2222 234566677666654 23 3333333
Q ss_pred HhcC--Ce-----eeecchHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCchHHHHHhhhhhhhcCChhhHHHHHHHHHHH
Q 002141 518 LTLH--HL-----AFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRLCKLDQRTLYELHYQMITF 590 (960)
Q Consensus 518 fafg--rp-----vfpVDThV~RIl~RLG~V~~~~tpEklek~LeellP~~e~Iqk~LW~rL~klD~e~l~EfH~lLVef 590 (960)
.++| +| -+|||.-|..+....|++.. .++++-+ ..+.++ ..|..++....-.+-.+...+|-+
T Consensus 155 ~~~g~~~~~p~~IpIPvD~Rv~~lT~~s~l~~~--~~~~~mr-------~~~~~~-~~W~~Var~sgIPplHLDSilWli 224 (256)
T 1xqo_A 155 CSRGVNRVLPFDIPIPVDYRVARLTWCAGLIDF--PPEEALR-------RYEAVQ-KIWDAVARETGIPPLHLDTLLWLA 224 (256)
T ss_dssp HHHTCCCCCCTTSCCCCCHHHHHHHHHTTSCSS--CHHHHHH-------THHHHH-HHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred HHcCCCCCCCCCCCCCchHHHHHHHHHhccccC--Chhhhhh-------hhHHHH-HHHHHHHHccCCCchhhhHHHHHh
Confidence 3445 33 48999999999999999874 2332211 122333 568776543344456788888888
Q ss_pred hHhh
Q 002141 591 GKVF 594 (960)
Q Consensus 591 GK~I 594 (960)
|+..
T Consensus 225 g~~~ 228 (256)
T 1xqo_A 225 GRAV 228 (256)
T ss_dssp HHHH
T ss_pred cccc
Confidence 8765
No 68
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=33.72 E-value=11 Score=32.42 Aligned_cols=21 Identities=19% Similarity=0.232 Sum_probs=17.4
Q ss_pred HHHHHhCCCccHHHHHHHHHH
Q 002141 498 KEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLf 518 (960)
...|..+||||+++|..++-.
T Consensus 23 ~~~L~~I~gIG~~~A~~Ll~~ 43 (78)
T 1kft_A 23 TSSLETIEGVGPKRRQMLLKY 43 (78)
T ss_dssp CCGGGGCTTCSSSHHHHHHHH
T ss_pred HHHHhcCCCCCHHHHHHHHHH
Confidence 346889999999999888754
No 69
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=29.53 E-value=11 Score=39.62 Aligned_cols=44 Identities=16% Similarity=0.107 Sum_probs=0.0
Q ss_pred HHHHHhCCCccHHHHHHHHHHhcCCeeeecchHHHHHHHHhcCC
Q 002141 498 KEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWV 541 (960)
Q Consensus 498 reeLLsLpGIGpKTAd~ILLfafgrpvfpVDThV~RIl~RLG~V 541 (960)
...|..|||||+++|..++-.+|+-..-.......++..--|+.
T Consensus 14 ~~~L~~IpGIGpk~a~~Ll~~gf~sve~L~~a~~~eL~~v~GIG 57 (241)
T 1vq8_Y 14 YTELTDISGVGPSKAESLREAGFESVEDVRGADQSALADVSGIG 57 (241)
T ss_dssp --------------------------------------------
T ss_pred hhHHhcCCCCCHHHHHHHHHcCCCCHHHHHhCCHHHHHhccCCC
Confidence 45789999999999998887655443212333333444333443
No 70
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Probab=28.62 E-value=79 Score=29.76 Aligned_cols=32 Identities=16% Similarity=0.243 Sum_probs=25.4
Q ss_pred CCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHh
Q 002141 484 VDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLT 519 (960)
Q Consensus 484 iDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfa 519 (960)
.+++.+...+ ++.|..++|||...|+-|+..+
T Consensus 47 ~Tve~va~a~----~~eL~~i~GIse~ka~kIi~aA 78 (114)
T 1b22_A 47 HTVEAVAYAP----KKELINIKGISEAKADKILAEA 78 (114)
T ss_dssp SSGGGBTSSB----HHHHHTTTTCSTTHHHHHHHHH
T ss_pred CcHHHHHhCC----HHHHHHccCCCHHHHHHHHHHH
Confidence 3566666666 5699999999999999988765
No 71
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=27.75 E-value=70 Score=28.03 Aligned_cols=31 Identities=32% Similarity=0.442 Sum_probs=23.9
Q ss_pred CCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 482 GSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 482 GgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
|=..+..|...+ .++|++++|+|+|+.+-|.
T Consensus 28 gI~Tv~dL~~~s----~~dLlki~n~G~kSl~EI~ 58 (73)
T 1z3e_B 28 GINTVQELANKT----EEDMMKVRNLGRKSLEEVK 58 (73)
T ss_dssp TCCBHHHHHTSC----HHHHHTSTTCCHHHHHHHH
T ss_pred CCCcHHHHHcCC----HHHHHHcCCCCHHHHHHHH
Confidence 333667777777 4589999999999987664
No 72
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=27.31 E-value=26 Score=40.72 Aligned_cols=38 Identities=16% Similarity=0.113 Sum_probs=18.7
Q ss_pred CccceeeeeeeeccCCCCCCcccchhhhccCC-ceeEEecCChhhh
Q 002141 860 NGTYFQVNEVFADHDSSLKPINVPREWLWNLP-RRTVYFGTSIPSI 904 (960)
Q Consensus 860 NGTYFQvNEVFaDh~SS~~PI~vpr~~iw~L~-rr~vyfGtSv~sI 904 (960)
+|+|+|+|-- +... ...+.++.-+. ...+.+||-+|..
T Consensus 482 ~g~~lEIN~~------~~r~-~~~~~~~~~a~eGl~i~igSDAH~~ 520 (578)
T 2w9m_A 482 NGTVVEINAN------AARL-DLDWREALRWRERLKFAINTDAHVP 520 (578)
T ss_dssp HTCEEEEECS------TTTC-BSCHHHHHHHTTTCCEEEECCCSSG
T ss_pred CCCEEEEECC------CCCc-CcHHHHHHHHHcCCEEEEECCCCCh
Confidence 3889998842 2110 11222222122 3456777777764
No 73
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*
Probab=25.91 E-value=36 Score=39.44 Aligned_cols=57 Identities=21% Similarity=0.285 Sum_probs=33.4
Q ss_pred HHHHHHHHhhcCChHHHHHHHHHHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 450 VNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 450 ~eELeeLIRp~Gfyn~KAkrIk~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
.+.+..+++--|....+|..|.. ..|..+++.|...-. ...|.++||||+|||.-|+
T Consensus 89 ~~~~~~l~~v~GvGpk~A~~~~~-------~lg~~~~~~l~~a~~---~~~l~~~~GiG~k~a~~i~ 145 (575)
T 3b0x_A 89 PRGVLEVMEVPGVGPKTARLLYE-------GLGIDSLEKLKAALD---RGDLTRLKGFGPKRAERIR 145 (575)
T ss_dssp CHHHHHHHTSTTTCHHHHHHHHH-------TSCCCSHHHHHHHHH---HTGGGGSTTCCHHHHHHHH
T ss_pred HHHHHHHhcCCCcCHHHHHHHHH-------hcCCCCHHHHHHHHH---cCCcccCCCCCccHHHHHH
Confidence 34456666667777655544433 223334444432110 1347899999999999874
No 74
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=24.51 E-value=34 Score=39.81 Aligned_cols=22 Identities=36% Similarity=0.468 Sum_probs=19.3
Q ss_pred HHHHHHhCCCccHHHHHHHHHH
Q 002141 497 AKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 497 areeLLsLpGIGpKTAd~ILLf 518 (960)
....|++++|||+|+|..++.-
T Consensus 95 ~~~~L~~v~GVGpk~A~~i~~~ 116 (578)
T 2w9m_A 95 GLLDLLGVRGLGPKKIRSLWLA 116 (578)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHT
T ss_pred HHHHHhCCCCcCHHHHHHHHHc
Confidence 4678999999999999999864
No 75
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} SCOP: a.60.3.1
Probab=23.35 E-value=78 Score=28.27 Aligned_cols=28 Identities=32% Similarity=0.458 Sum_probs=22.8
Q ss_pred CchhhhcCChHHHHHHHHhCCCccHHHHHHHH
Q 002141 485 DLEWLRDVPPDKAKEYLLSFRGLGLKSVECVR 516 (960)
Q Consensus 485 DLe~Lr~vP~deareeLLsLpGIGpKTAd~IL 516 (960)
.+..|..++ .++|++++|+|+|+.+-|.
T Consensus 38 Tv~dL~~~s----e~dLlki~n~G~kSl~EI~ 65 (79)
T 3gfk_B 38 TVQELANKT----EEDMMKVRNLGRKSLEEVK 65 (79)
T ss_dssp BHHHHTTCC----HHHHTTSTTCHHHHHHHHH
T ss_pred CHHHHHhCC----HHHHHHcCCCCHhHHHHHH
Confidence 666777777 4589999999999998765
No 76
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B
Probab=22.79 E-value=1.2e+02 Score=25.99 Aligned_cols=34 Identities=21% Similarity=0.215 Sum_probs=27.0
Q ss_pred CCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHh
Q 002141 482 GSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLT 519 (960)
Q Consensus 482 GgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfa 519 (960)
|-.+++.|...+ .++|..++||+...|+.|.+-|
T Consensus 27 Gi~TvedlA~~~----~~eL~~i~gise~kA~~ii~aA 60 (70)
T 1wcn_A 27 GVCTLEDLAEQG----IDDLADIEGLTDEKAGALIMAA 60 (70)
T ss_dssp TCCSHHHHHTSC----HHHHHTSSSCCHHHHHHHHHHH
T ss_pred CCCcHHHHHcCC----HHHHHHccCCCHHHHHHHHHHH
Confidence 444778888777 4589999999999999887644
No 77
>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A
Probab=22.76 E-value=1.1e+02 Score=26.44 Aligned_cols=43 Identities=40% Similarity=0.484 Sum_probs=0.0
Q ss_pred HHHHHHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHHh
Q 002141 472 DFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLT 519 (960)
Q Consensus 472 ~lA~~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLfa 519 (960)
..++.+.+. |-.+++.+..+| +++|+.++|+...+|+-|..-+
T Consensus 17 ~~a~~L~~~-Gf~tve~vA~~~----~~eL~~I~G~dE~~a~~l~~~A 59 (70)
T 1u9l_A 17 DFATVLVEE-GFSTLEELAYVP----MKELLEIEGLDEPTVEALRERA 59 (70)
T ss_dssp HHHHHHHHT-TCCCHHHHHHSC----HHHHTTSTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHc-CcCcHHHHHcCC----HHHHhhccCCCHHHHHHHHHHH
No 78
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=21.25 E-value=20 Score=37.56 Aligned_cols=36 Identities=17% Similarity=0.129 Sum_probs=0.0
Q ss_pred HHHHhcCCCCchhhhcCChHHHHHHHHhCCCccHHHHHHHHHH
Q 002141 476 RLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLL 518 (960)
Q Consensus 476 ~Ive~yGgiDLe~Lr~vP~deareeLLsLpGIGpKTAd~ILLf 518 (960)
.|.+.||+ ++.+...+ .++|.++ |||+++|..|..|
T Consensus 188 ~Ll~~FGS--l~~i~~As----~eeL~~V-GIG~~~A~~I~~~ 223 (226)
T 3c65_A 188 ALLNYFGS--VKKMKEAT----VEELQRA-NIPRAVAEKIYEK 223 (226)
T ss_dssp -------------------------------------------
T ss_pred HHHHHhCC--HHHHHhCC----HHHHHHc-CCCHHHHHHHHHH
Confidence 34445565 34444433 4678999 9999999888643
No 79
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=20.53 E-value=93 Score=33.05 Aligned_cols=22 Identities=14% Similarity=0.095 Sum_probs=18.1
Q ss_pred HHHHHHHhCCCccHHHHHHHHH
Q 002141 496 KAKEYLLSFRGLGLKSVECVRL 517 (960)
Q Consensus 496 eareeLLsLpGIGpKTAd~ILL 517 (960)
.....|++||||+++.|..|+.
T Consensus 234 ~~~~mL~~IpGVs~~~A~~I~~ 255 (311)
T 2ziu_A 234 VFARQLMQISGVSGDKAAAVLE 255 (311)
T ss_dssp HHHHHHTTBTTCCHHHHHHHHH
T ss_pred HHHHHHHhccCCCHHHHHHHHH
Confidence 3567899999999999988763
Done!