Query 039604
Match_columns 373
No_of_seqs 194 out of 1560
Neff 5.5
Searched_HMMs 29240
Date Mon Mar 25 19:32:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039604.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039604hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4b21_A Probable DNA-3-methylad 100.0 4.9E-50 1.7E-54 377.4 24.0 206 120-325 18-227 (232)
2 3s6i_A DNA-3-methyladenine gly 100.0 2.1E-47 7.2E-52 358.4 23.7 202 124-326 11-217 (228)
3 2yg9_A DNA-3-methyladenine gly 100.0 9.4E-47 3.2E-51 353.3 21.6 209 107-324 7-216 (225)
4 3i0w_A 8-oxoguanine-DNA-glycos 100.0 3.3E-45 1.1E-49 354.4 23.4 204 118-326 75-288 (290)
5 2jhn_A ALKA, 3-methyladenine D 100.0 5.9E-44 2E-48 346.0 20.1 199 118-324 76-286 (295)
6 2h56_A DNA-3-methyladenine gly 100.0 6.7E-42 2.3E-46 321.8 22.9 200 119-322 13-212 (233)
7 2xhi_A N-glycosylase/DNA lyase 100.0 8.1E-42 2.8E-46 339.8 22.8 205 118-325 111-339 (360)
8 1mpg_A ALKA, 3-methyladenine D 100.0 2.8E-40 9.4E-45 318.1 19.4 191 118-324 78-276 (282)
9 1orn_A Endonuclease III; DNA r 100.0 8.5E-31 2.9E-35 245.2 20.0 193 140-360 12-212 (226)
10 1kea_A Possible G-T mismatches 100.0 3.7E-31 1.3E-35 246.6 17.0 190 142-358 16-215 (221)
11 2abk_A Endonuclease III; DNA-r 100.0 1.8E-31 6.2E-36 246.8 12.4 191 140-358 8-205 (211)
12 1kg2_A A/G-specific adenine gl 100.0 5E-30 1.7E-34 239.4 14.3 191 141-359 9-211 (225)
13 1pu6_A 3-methyladenine DNA gly 100.0 3.3E-28 1.1E-32 226.5 13.7 149 152-307 22-176 (218)
14 3fhg_A Mjogg, N-glycosylase/DN 99.9 1.7E-27 5.8E-32 220.0 13.1 170 141-323 14-201 (207)
15 3n0u_A Probable N-glycosylase/ 99.9 5.8E-27 2E-31 218.7 13.1 167 140-323 29-213 (219)
16 3fsp_A A/G-specific adenine gl 99.9 4.4E-26 1.5E-30 226.4 17.4 180 149-359 28-220 (369)
17 3n5n_X A/G-specific adenine DN 99.9 6.4E-26 2.2E-30 219.4 15.8 202 120-359 7-231 (287)
18 3fhf_A Mjogg, N-glycosylase/DN 99.9 1.4E-24 4.8E-29 202.1 14.3 162 144-323 28-208 (214)
19 4e9f_A Methyl-CPG-binding doma 99.9 1.1E-21 3.8E-26 175.2 12.1 118 157-294 28-150 (161)
20 3vdp_A Recombination protein R 90.2 0.23 7.8E-06 45.8 4.2 30 243-272 21-50 (212)
21 1vdd_A Recombination protein R 89.3 0.29 1E-05 45.5 4.2 30 243-272 7-36 (228)
22 4glx_A DNA ligase; inhibitor, 86.9 1.4 4.8E-05 46.3 8.0 44 234-290 534-577 (586)
23 4gfj_A Topoisomerase V; helix- 86.2 0.27 9.1E-06 50.0 2.0 76 185-265 534-639 (685)
24 1s5l_U Photosystem II 12 kDa e 85.5 0.65 2.2E-05 39.9 3.8 49 200-265 57-106 (134)
25 2ztd_A Holliday junction ATP-d 81.9 2.2 7.4E-05 39.2 6.0 25 247-271 122-146 (212)
26 2bcq_A DNA polymerase lambda; 81.2 3.8 0.00013 39.8 7.8 19 246-264 94-112 (335)
27 2ihm_A POL MU, DNA polymerase 80.6 1.4 4.8E-05 43.3 4.5 51 212-265 68-119 (360)
28 1dgs_A DNA ligase; AMP complex 79.3 4.7 0.00016 42.9 8.3 44 234-290 529-572 (667)
29 2ztd_A Holliday junction ATP-d 79.0 1.3 4.3E-05 40.8 3.4 25 242-266 82-106 (212)
30 2fmp_A DNA polymerase beta; nu 77.9 1.9 6.3E-05 42.0 4.4 51 212-265 64-115 (335)
31 1ixr_A Holliday junction DNA h 77.8 3.7 0.00013 36.9 6.0 25 247-271 106-130 (191)
32 1x2i_A HEF helicase/nuclease; 77.1 2 6.8E-05 31.6 3.5 29 235-267 37-65 (75)
33 1cuk_A RUVA protein; DNA repai 76.3 4.4 0.00015 36.7 6.1 21 247-267 107-127 (203)
34 2duy_A Competence protein come 76.2 1.5 5.2E-05 32.9 2.6 21 247-267 26-46 (75)
35 1z00_A DNA excision repair pro 75.3 2.9 0.0001 32.3 4.1 30 235-268 42-71 (89)
36 1jms_A Terminal deoxynucleotid 75.1 2.2 7.6E-05 42.3 4.2 44 222-265 94-138 (381)
37 2edu_A Kinesin-like protein KI 75.0 7 0.00024 30.9 6.4 59 197-268 31-90 (98)
38 2bcq_A DNA polymerase lambda; 74.6 3.3 0.00011 40.3 5.1 91 211-318 30-124 (335)
39 1ixr_A Holliday junction DNA h 74.3 2.1 7.1E-05 38.6 3.4 27 240-266 64-90 (191)
40 2ofk_A 3-methyladenine DNA gly 73.5 16 0.00053 32.8 8.9 89 139-230 10-104 (183)
41 3b0x_A DNA polymerase beta fam 73.1 6.2 0.00021 40.8 7.1 67 197-266 44-111 (575)
42 2a1j_B DNA excision repair pro 72.7 3 0.0001 32.5 3.6 29 235-267 55-83 (91)
43 2a1j_A DNA repair endonuclease 71.6 2.3 8E-05 31.3 2.6 24 247-271 3-26 (63)
44 1z00_B DNA repair endonuclease 70.8 3.2 0.00011 32.5 3.4 26 244-270 14-39 (84)
45 2a1j_A DNA repair endonuclease 70.8 5.6 0.00019 29.2 4.5 38 182-225 17-55 (63)
46 1kft_A UVRC, excinuclease ABC 70.8 2.5 8.7E-05 31.9 2.7 29 235-267 47-75 (78)
47 1cuk_A RUVA protein; DNA repai 70.7 2.7 9.3E-05 38.1 3.3 25 242-266 67-91 (203)
48 2w9m_A Polymerase X; SAXS, DNA 70.2 1.7 5.9E-05 45.1 2.1 44 223-267 72-116 (578)
49 2duy_A Competence protein come 70.0 3 0.0001 31.3 2.9 52 197-265 18-70 (75)
50 2owo_A DNA ligase; protein-DNA 69.7 17 0.00058 38.7 9.6 43 234-289 534-576 (671)
51 2jg6_A DNA-3-methyladenine gly 69.3 19 0.00066 32.3 8.5 89 138-229 9-103 (186)
52 2csb_A Topoisomerase V, TOP61; 68.9 6 0.00021 38.0 5.3 51 221-273 385-435 (519)
53 3arc_U Photosystem II 12 kDa e 67.5 4.4 0.00015 32.7 3.6 51 199-266 19-70 (97)
54 1jms_A Terminal deoxynucleotid 67.4 6.9 0.00024 38.7 5.7 93 211-318 53-149 (381)
55 2ihm_A POL MU, DNA polymerase 67.1 6.6 0.00023 38.5 5.5 93 211-318 34-130 (360)
56 2fmp_A DNA polymerase beta; nu 66.3 6.6 0.00023 38.1 5.2 48 211-267 29-76 (335)
57 2kp7_A Crossover junction endo 66.2 7.1 0.00024 30.8 4.5 41 216-265 35-75 (87)
58 1x2i_A HEF helicase/nuclease; 63.0 15 0.00051 26.7 5.6 39 181-224 26-65 (75)
59 3c1y_A DNA integrity scanning 62.2 12 0.0004 37.3 6.1 45 181-230 327-372 (377)
60 1wcn_A Transcription elongatio 59.1 19 0.00064 27.0 5.5 34 194-227 28-62 (70)
61 2a1j_B DNA excision repair pro 58.3 22 0.00075 27.4 6.0 38 182-224 45-83 (91)
62 1kft_A UVRC, excinuclease ABC 57.6 16 0.00054 27.3 5.0 38 182-224 37-75 (78)
63 2edu_A Kinesin-like protein KI 57.2 6.1 0.00021 31.2 2.6 21 247-267 39-59 (98)
64 1z3e_B DNA-directed RNA polyme 56.8 25 0.00085 26.8 5.9 32 230-265 27-58 (73)
65 1z00_A DNA excision repair pro 55.8 22 0.00077 27.1 5.7 39 182-225 32-71 (89)
66 3arc_U Photosystem II 12 kDa e 54.0 4.6 0.00016 32.6 1.4 20 247-266 25-44 (97)
67 1s5l_U Photosystem II 12 kDa e 51.2 6.1 0.00021 33.9 1.7 19 247-265 62-80 (134)
68 1z00_B DNA repair endonuclease 51.0 15 0.00052 28.6 4.0 38 182-225 31-69 (84)
69 2bgw_A XPF endonuclease; hydro 50.9 12 0.00042 33.4 3.9 29 235-267 185-213 (219)
70 2i5h_A Hypothetical protein AF 49.6 6.9 0.00024 35.8 2.0 22 247-268 131-152 (205)
71 1vq8_Y 50S ribosomal protein L 45.4 4.4 0.00015 37.7 0.0 27 247-273 14-40 (241)
72 3r8n_M 30S ribosomal protein S 44.5 14 0.00048 30.7 2.9 43 246-289 14-59 (114)
73 3u5c_S 40S ribosomal protein S 42.0 12 0.00041 32.4 2.2 28 246-273 28-55 (146)
74 1u9l_A Transcription elongatio 41.4 41 0.0014 25.3 4.9 36 194-229 27-63 (70)
75 1b22_A DNA repair protein RAD5 39.4 54 0.0018 26.9 5.7 55 204-268 24-78 (114)
76 3gfk_B DNA-directed RNA polyme 39.4 42 0.0014 26.0 4.8 32 230-265 34-65 (79)
77 2w9m_A Polymerase X; SAXS, DNA 39.3 12 0.00041 38.8 2.1 44 212-264 104-147 (578)
78 3iz6_M 40S ribosomal protein S 39.3 17 0.00058 31.6 2.8 44 245-289 25-71 (152)
79 3j20_O 30S ribosomal protein S 39.2 17 0.0006 31.4 2.8 28 246-273 21-48 (148)
80 1ucv_A Ephrin type-A receptor 38.5 57 0.002 24.7 5.4 27 196-222 33-61 (81)
81 2owo_A DNA ligase; protein-DNA 37.4 98 0.0034 32.9 8.8 31 231-265 466-497 (671)
82 1b22_A DNA repair protein RAD5 37.2 32 0.0011 28.3 4.0 46 181-230 37-83 (114)
83 1wcn_A Transcription elongatio 36.8 77 0.0026 23.6 5.8 35 230-268 26-60 (70)
84 4gfj_A Topoisomerase V; helix- 34.8 26 0.0009 35.7 3.6 40 183-227 482-521 (685)
85 4glx_A DNA ligase; inhibitor, 34.3 1.2E+02 0.0041 31.7 8.7 72 231-314 466-538 (586)
86 2xzm_M RPS18E; ribosome, trans 33.4 24 0.00082 30.8 2.8 23 246-268 28-50 (155)
87 3sei_A Caskin-1; SAM domain, p 28.9 94 0.0032 26.3 5.8 69 195-270 34-104 (149)
88 2vqe_M 30S ribosomal protein S 27.9 25 0.00084 29.7 1.8 22 246-267 15-36 (126)
89 3c1y_A DNA integrity scanning 27.7 36 0.0012 33.7 3.3 36 225-264 328-363 (377)
90 3psf_A Transcription elongatio 26.8 1.1E+02 0.0038 34.2 7.2 84 173-266 643-735 (1030)
91 1vq8_Y 50S ribosomal protein L 26.4 14 0.00047 34.4 0.0 45 212-266 22-66 (241)
92 2bgw_A XPF endonuclease; hydro 25.9 1.1E+02 0.0036 27.1 5.9 38 182-224 175-213 (219)
93 2qkq_A Ephrin type-B receptor 24.9 71 0.0024 24.1 3.9 21 194-214 39-59 (83)
94 1dgs_A DNA ligase; AMP complex 24.8 84 0.0029 33.4 5.6 28 234-265 465-492 (667)
95 2dkz_A Hypothetical protein LO 24.7 41 0.0014 26.5 2.4 46 196-248 11-60 (84)
96 3k4g_A DNA-directed RNA polyme 23.5 65 0.0022 25.3 3.4 32 230-265 30-61 (86)
97 3k1r_B Usher syndrome type-1G 23.4 1.5E+02 0.0052 22.0 5.4 20 195-214 26-45 (74)
98 3bzc_A TEX; helix-turn-helix, 22.5 58 0.002 35.3 3.9 54 202-268 504-558 (785)
99 2nrt_A Uvrabc system protein C 22.0 49 0.0017 30.4 2.8 24 246-270 166-189 (220)
100 1exn_A 5'-exonuclease, 5'-nucl 21.8 37 0.0013 32.3 2.0 19 248-266 203-221 (290)
101 2nrt_A Uvrabc system protein C 21.7 97 0.0033 28.4 4.7 36 182-223 181-217 (220)
102 2b6g_A VTS1P; alpha-helix, pen 21.6 1.5E+02 0.0051 24.7 5.4 31 195-225 71-103 (119)
103 1b4f_A EPHB2; SAM domain, EPH 21.5 1.7E+02 0.0057 21.9 5.4 29 196-224 37-67 (82)
104 1coo_A RNA polymerase alpha su 21.4 78 0.0027 25.5 3.5 31 231-265 43-73 (98)
105 1pk1_B Sex COMB on midleg CG94 21.4 85 0.0029 24.4 3.7 34 225-260 37-70 (89)
106 3h8m_A Ephrin type-A receptor 20.9 1.8E+02 0.0062 22.5 5.6 30 196-225 51-82 (90)
No 1
>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=100.00 E-value=4.9e-50 Score=377.39 Aligned_cols=206 Identities=27% Similarity=0.538 Sum_probs=194.7
Q ss_pred CCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcC--CCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCC-CCC
Q 039604 120 RPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFD--SFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEA-GVV 196 (373)
Q Consensus 120 r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~--~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~-~pt 196 (373)
.+|+||.|+++++++|.+.||.|+.+++.+|+++++ ...||||+||++||+||++++++.+++.+|+++||+.. ||+
T Consensus 18 ~~ldld~d~~~~~~~L~~~Dp~l~~li~~~~g~rl~~~~~~dpfe~Lv~~Il~Qq~s~~~a~~~~~rL~~~~G~~~~fPt 97 (232)
T 4b21_A 18 SHMSKDSDYKRAEKHLSSIDNKWSSLVKKVGPCTLTPHPEHAPYEGIIRAITSQKLSDAATNSIINKFCTQCSDNDEFPT 97 (232)
T ss_dssp ---CHHHHHHHHHHHHTTTCHHHHHHHHHHCSCCCCCCTTSCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHCSSSSCCC
T ss_pred CcCCCccCHHHHHHHHHhhCHHHHHHHHHcCCCCCCCCCCCCHHHHHHHHHHhCcCcHHHHHHHHHHHHHHhCCCCCCCC
Confidence 479999999999999998899999999999998875 35699999999999999999999999999999999754 799
Q ss_pred HHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCC-CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCcc
Q 039604 197 PETVLALTPQQLRQIGVSGRKASYLHDLARKYQNGIL-SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVL 275 (373)
Q Consensus 197 Pe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l-~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvf 275 (373)
|++|+.+++++|+.|||+++|++||+++|+++.+|.+ +++.|.+++++++++.|++|||||+|||+|||+|+||++|+|
T Consensus 98 pe~la~~~~e~Lr~~Gl~~~Ka~~l~~~A~~~~~g~~p~l~~l~~~~~~~~~~~L~~l~GIG~~TA~~ill~alg~pd~f 177 (232)
T 4b21_A 98 PKQIMETDVETLHECGFSKLKSQEIHIVAEAALNKQIPSKSEIEKMSEEELMESLSKIKGVKRWTIEMYSIFTLGRLDIM 177 (232)
T ss_dssp HHHHHTSCHHHHHTTTCCHHHHHHHHHHHHHHHTTCSCCHHHHHHSCHHHHHHHHTTSTTCCHHHHHHHHHHTSCCSSCC
T ss_pred HHHHHcCCHHHHHHcCCcHHHHHHHHHHHHHHHhCCCCCHHHHHcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCee
Confidence 9999999999999999999999999999999999999 799999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHhcCCCCCCHHHHHHHHhhcCCchHHHHHHHHHhhhh
Q 039604 276 PINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWRFVEA 325 (373)
Q Consensus 276 Pv~D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~~ 325 (373)
|++|+||+|+++++||++..+++++++++.+.|+||||||++|||++++.
T Consensus 178 pv~D~~v~r~~~rl~~~~~~~~~~~~~~~~e~w~P~rs~A~~yLw~~~~~ 227 (232)
T 4b21_A 178 PADDSTLKNEAKEFFGLSSKPQTEEVEKLTKPCKPYRTIAAWYLWQIPKL 227 (232)
T ss_dssp CTTCHHHHHHHHHHTTCSSCCCHHHHHHHTGGGTTCHHHHHHHHHTGGGC
T ss_pred eCccHHHHHHHHHHhCCCCCCCHHHHHHHHHHccCHHHHHHHHHHHcCcc
Confidence 99999999999999999888899999999999999999999999999874
No 2
>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=100.00 E-value=2.1e-47 Score=358.42 Aligned_cols=202 Identities=29% Similarity=0.500 Sum_probs=187.5
Q ss_pred CchhHHHHHHHHHhhChHHHHHHHhCCCCCcCCCC---CHHHHHHHHHHhhccCHHHHHHHHHHHHHHh-CCCCCCCHHH
Q 039604 124 SEGEVEAAIRHLRNADRQLASLIDIHPPPTFDSFH---TPFLALTRSILYQQLAFKAGTSIYTRFIALC-GGEAGVVPET 199 (373)
Q Consensus 124 ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~~~---dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~-G~~~~ptPe~ 199 (373)
...||++++++|.+.||.|+.+++.+|+++++... |+||+||++||+||+|++++.+++.+| ++| |...||+|+.
T Consensus 11 i~~~~~~~~~~L~~~Dp~l~~li~~~g~~r~~~~~~~~d~fe~Lv~~Il~Qq~s~~~a~~~~~rL-~~~Gg~~~fPtp~~ 89 (228)
T 3s6i_A 11 IVTSLTKAEIHLSGLDENWKRLVKLVGNYRPNRSMEKKEPYEELIRAVASQQLHSKAANAIFNRF-KSISNNGQFPTPEE 89 (228)
T ss_dssp -----CHHHHHHHTSCHHHHHHHHHHCSCCCCCTTTTSCHHHHHHHHHHHSSSCHHHHHHHHHHH-HTSSGGGSCCCHHH
T ss_pred chHHHHHHHHHHHhhChHHHHHHHHcCCCCCCCCCCcCCHHHHHHHHHHhCcCCHHHHHHHHHHH-HHhcCCCCCCCHHH
Confidence 45678899999998999999999999999987544 999999999999999999999999999 999 5445899999
Q ss_pred HhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCC-CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCC
Q 039604 200 VLALTPQQLRQIGVSGRKASYLHDLARKYQNGIL-SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPIN 278 (373)
Q Consensus 200 La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l-~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~ 278 (373)
|+.++.++|+.|||+++|++||+++|+++.+|.+ +++.|.+++++++++.|++|||||+|||+|||+|+||++|+||++
T Consensus 90 la~~~~e~Lr~~G~~~rKa~~i~~~A~~~~~g~~p~~~~l~~~~~~e~~~~L~~l~GIG~~TA~~ill~~lg~pd~fpvd 169 (228)
T 3s6i_A 90 IRDMDFEIMRACGFSARKIDSLKSIAEATISGLIPTKEEAERLSNEELIERLTQIKGIGRWTVEMLLIFSLNRDDVMPAD 169 (228)
T ss_dssp HHHSCHHHHHHHTCCHHHHHHHHHHHHHHHHTSSCCHHHHTTSCHHHHHHHHTTSTTCCHHHHHHHHHHTSCCSSCCCTT
T ss_pred HHcCCHHHHHHcCCCHHHHHHHHHHHHHHHcCCCCChHHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCEEecc
Confidence 9999999999999999999999999999999999 689999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhcCCCCCCHHHHHHHHhhcCCchHHHHHHHHHhhhhc
Q 039604 279 DLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWRFVEAK 326 (373)
Q Consensus 279 D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~ 326 (373)
|++++|+++++|++...+++++++++.+.|+||||||++|||++++..
T Consensus 170 D~~v~r~~~~~~~~~~~~~~~~~~~~~e~w~P~r~~A~~yLw~~~~~~ 217 (228)
T 3s6i_A 170 DLSIRNGYRYLHRLPKIPTKMYVLKHSEICAPFRTAAAWYLWKTSKLA 217 (228)
T ss_dssp CHHHHHHHHHHTTCSSCCCHHHHHHHHGGGTTCHHHHHHHHHHGGGST
T ss_pred cHHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHhCccc
Confidence 999999999999998888999999999999999999999999998743
No 3
>2yg9_A DNA-3-methyladenine glycosidase II, putative; hydrolase, DNA repair; 1.95A {Deinococcus radiodurans} PDB: 2yg8_A
Probab=100.00 E-value=9.4e-47 Score=353.28 Aligned_cols=209 Identities=32% Similarity=0.523 Sum_probs=188.0
Q ss_pred hhhhhcchhhhhcCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCC-CcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHH
Q 039604 107 QQQQTLTVPRIIARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPP-TFDSFHTPFLALTRSILYQQLAFKAGTSIYTRF 185 (373)
Q Consensus 107 ~~~r~~~~~~~~~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~-r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL 185 (373)
+..|+++.|++-...+..+.++++++++|...||.|+.+++.+|++ ++....++||.||++||+||+|++++.+++.+|
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~l~~l~~~~~~~~~~~~~~dpfe~Lv~~IlsQq~s~~~a~~~~~rL 86 (225)
T 2yg9_A 7 HQNRRVTLPSVPLPAVLPPLTDHAGAVAHLSRDPVLAQVTSLCGELPVLAPTPDPFGRLVRSVAGQQLSVKAAQAIYGRL 86 (225)
T ss_dssp ------------CCCCCCCCSCSHHHHHHHTTSHHHHHHHHHHCCCCCCCCCSCHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred CccccccCcccccccCCChhhHHHHHHHHHhcCHHHHHHHHHcCCCCCCCCCCCHHHHHHHHHHhCcChHHHHHHHHHHH
Confidence 3458888888655778889999999999999999999999999998 888899999999999999999999999999999
Q ss_pred HHHhCCCCCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 186 IALCGGEAGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 186 ~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
+++||. |+|+.|+++++++|+.|||+++|++||+++|+++.+|.++++.|..++++++++.|++|||||+|||+|||
T Consensus 87 ~~~~G~---ptp~~la~~~~e~Lr~~G~~~~KA~~i~~lA~~~~~g~~~l~~l~~~~~~e~~~~L~~l~GIG~~TA~~il 163 (225)
T 2yg9_A 87 EGLPGG---VVPAALLKVSGDDLRGVGLSWAKVRTVQAAAAAAVSGQIDFAHLSGQPDELVIAELVQLPGIGRWTAEMFL 163 (225)
T ss_dssp HTSTTC---SCHHHHTTSCHHHHHHTTCCHHHHHHHHHHHHHHHTTSSCGGGCTTSCHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred HHHhCc---CCHHHHHcCCHHHHHHCCCcHHHHHHHHHHHHHHHhCCcCHHHHhcCCHHHHHHHHHcCCCCCHHHHHHHH
Confidence 999986 79999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhCCCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHHHHHhhcCCchHHHHHHHHHhhh
Q 039604 266 IFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWRFVE 324 (373)
Q Consensus 266 Lf~lgrpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~ 324 (373)
+|+||++|+||++|+||+|+++++| + +++++++.+.|+||++|+++|||++++
T Consensus 164 l~~lg~~d~fpv~D~~v~r~~~~l~-----~-~~~~~~~~e~~~P~r~~a~~~Lw~~~~ 216 (225)
T 2yg9_A 164 LFALARPDVFSSGDLALRQGVERLY-----P-GEDWRDVTARWAPYRSLASRYLWANSA 216 (225)
T ss_dssp HHTSCCSCCCCTTCHHHHHHHHHHS-----T-TSCHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred HHhCCCCCeeeCccHHHHHHHHHhC-----C-HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 9999999999999999999999997 2 567899999999999999999998775
No 4
>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=100.00 E-value=3.3e-45 Score=354.41 Aligned_cols=204 Identities=19% Similarity=0.246 Sum_probs=192.7
Q ss_pred hcCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCC-----
Q 039604 118 IARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGE----- 192 (373)
Q Consensus 118 ~~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~----- 192 (373)
+.+||+||.|++.++++|. .||.|+++++.++|+|+.. .+|||+||++||+||+|+++|.+++++|+++||..
T Consensus 75 ~~~~fdLd~d~~~~~~~l~-~Dp~l~~~~~~~~glR~~~-~dpfE~Lv~~IlsQq~s~~~a~~~~~rL~~~~G~~~~~~g 152 (290)
T 3i0w_A 75 WSEYFDLYRDYGEIKKELS-RDPLLKKSVDFGEGIRILR-QDPFEILLSFIISANNRIPMIKKCINNISEKAGKKLEYKG 152 (290)
T ss_dssp HHHHTTTTSCHHHHHHHHT-TSHHHHHHHHHTTTCCCCC-CCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHSCEEEETT
T ss_pred HHHHcCCCCCHHHHHHHHh-hCHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHhCcccHHHHHHHHHHHHHHhCCCcccCC
Confidence 5689999999999999998 8999999999999999864 99999999999999999999999999999999964
Q ss_pred ----CCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 193 ----AGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 193 ----~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
.||+|++|+.+++++|+.||+ ++||+||+++|+++.+|.++++.|..++++++++.|++|||||||||+||++|+
T Consensus 153 ~~~~~fPtpe~la~~~~e~L~~~g~-g~Ra~~I~~~A~~i~~g~~~l~~l~~~~~~~~~~~L~~lpGIG~~TA~~ill~~ 231 (290)
T 3i0w_A 153 KIYYAFPTVDKLHEFTEKDFEECTA-GFRAKYLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGVGPQVADCIMLFS 231 (290)
T ss_dssp EEEECCCCHHHHTTCCHHHHHHTTC-GGGHHHHHHHHHHHHTTSSCHHHHHHSCHHHHHHHHTTSTTCCHHHHHHHHHHH
T ss_pred cccccCCcHHHHHCCCHHHHHHcCC-chHHHHHHHHHHHHHhCCCCHHHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHh
Confidence 379999999999999999999 579999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHHHHH-hhcCCchHHHHHHHHHhhhhc
Q 039604 269 LHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLC-EKWRPYRSVASWYLWRFVEAK 326 (373)
Q Consensus 269 lgrpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~~l~-e~w~Pyrg~a~~yLW~~~~~~ 326 (373)
||++|+||+ |+||+|+++++|+.. .+++++++++. +.|+||+|||++|||++.+..
T Consensus 232 lg~pd~fpv-D~~v~r~~~rl~~~~-~~~~~~i~~~~~~~~~p~~~~A~~~Lw~~~R~~ 288 (290)
T 3i0w_A 232 MQKYSAFPV-DTWVKKAMMSLYVAP-DVSLKKIRDFGREKFGSLSGFAQQYLFYYAREN 288 (290)
T ss_dssp HCCTTCCCC-CHHHHHHHHHHTSCT-TCCHHHHHHHHHHHHGGGHHHHHHHHHHHHHHT
T ss_pred CCCCCccee-cHHHHHHHHHhcCCC-CCCHHHHHHHHHhhcchHHHHHHHHHHHhhhhh
Confidence 999999999 999999999998765 46889999987 999999999999999998754
No 5
>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=100.00 E-value=5.9e-44 Score=346.02 Aligned_cols=199 Identities=22% Similarity=0.359 Sum_probs=187.9
Q ss_pred hcCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcCC--CCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCC---
Q 039604 118 IARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDS--FHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGE--- 192 (373)
Q Consensus 118 ~~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~--~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~--- 192 (373)
+.+||+||.|++.+ ++...||.|+.+++.++++++.. ..|+||+||++||+||+|++++.+++.+|+++||..
T Consensus 76 ~~~~fdLd~d~~~~--~~~~~D~~l~~l~~~~~glr~~~~~~~d~fe~lv~~Il~Qq~s~~~a~~~~~rL~~~~G~~~~~ 153 (295)
T 2jhn_A 76 LVEYLGLQNPEELY--RFMDGDEKLRMLKNRFYGFGRAGLMSMSVFEGIAKAIIQQQISFVVAEKLAAKIVGRFGDEVEW 153 (295)
T ss_dssp HHHHHTCSCCHHHH--HHHHTSHHHHHHHHHTTTCCSCCCSCSSHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHSCEEEE
T ss_pred HHHHhCCCCCHHHH--HhhccCHHHHHHHHHcCCCCCCCCCCCCHHHHHHHHHHcCcccHHHHHHHHHHHHHHhCCCCCC
Confidence 66899999999998 67779999999999999999987 799999999999999999999999999999999963
Q ss_pred ------CCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 193 ------AGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 193 ------~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
.||+|++|+++++++|+.|||+++|++||+++|++ | +++.|..++++++++.|++|||||+|||+||++
T Consensus 154 ~g~~~~~fPtp~~la~~~~~~Lr~~G~~~rKa~~i~~~A~~---g--~l~~l~~~~~~e~~~~L~~lpGIG~~TA~~ill 228 (295)
T 2jhn_A 154 NGLKFYGFPTQEAILKAGVEGLRECGLSRRKAELIVEIAKE---E--NLEELKEWGEEEAYEYLTSFKGIGRWTAELVLS 228 (295)
T ss_dssp TTEEEECCCCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTC---S--SGGGGGGSCHHHHHHHHHTSTTCCHHHHHHHHH
T ss_pred CCCccccCCCHHHHHcCCHHHHHHcCCCHHHHHHHHHHHHC---C--CHhhhhcCCHHHHHHHHhcCCCcCHHHHHHHHH
Confidence 27999999999999999999999999999999998 5 777888999999999999999999999999999
Q ss_pred HhCCCCCccCCCCHHHHHHHHHHhcCCC-CCCHHHHHHHHhhcCCchHHHHHHHHHhhh
Q 039604 267 FSLHRPDVLPINDLGVRKGVQLLYSLEE-LPRPSQMDQLCEKWRPYRSVASWYLWRFVE 324 (373)
Q Consensus 267 f~lgrpDvfPv~D~~VrR~l~rlygl~~-~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~ 324 (373)
|+|| +|+||++|.+++|+++++||+.. .+++++++++.+.|+||++|+++|||++++
T Consensus 229 ~~lg-~d~fpvdD~~~rr~~~~~~g~~~~~~~~~~~~~~~e~~~p~r~~a~~~Lw~~~~ 286 (295)
T 2jhn_A 229 IALG-KNVFPADDLGVRRAVSRLYFNGEIQSAEKVREIARERFGRFARDILFYLFLYDR 286 (295)
T ss_dssp HTTC-CCCCCTTCHHHHHHHHHHHSTTCCCCHHHHHHHHHHHTGGGHHHHHHHHHHHHH
T ss_pred HccC-CCcccchHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhcccHHHHHHHHHHHhcc
Confidence 9999 99999999999999999999876 678899999999999999999999999876
No 6
>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=100.00 E-value=6.7e-42 Score=321.76 Aligned_cols=200 Identities=33% Similarity=0.584 Sum_probs=186.1
Q ss_pred cCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHH
Q 039604 119 ARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPE 198 (373)
Q Consensus 119 ~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe 198 (373)
+|||+.. ...+++|...|+.|+.+++.+++++++...+|||.||++||+||++++++.+++.+|+++||. .||+|+
T Consensus 13 ~~~~~~~---~~~~~~l~~~d~~l~~l~~~~~~~~~~~~~dpfe~Lv~~IlsQqts~~~a~~~~~rL~~~~G~-~fPtp~ 88 (233)
T 2h56_A 13 MRYFSTD---SPEVKTIVAQDSRLFQFIEIAGEVQLPTKPNPFQSLVSSIVEQQLSIKAASAIYGRVEQLVGG-ALEKPE 88 (233)
T ss_dssp EEEECTT---SHHHHHHHTTCHHHHHHHHHHCCEEEECCSCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTS-CCCCTH
T ss_pred HHHhhhH---HHHHHHHHhcCHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhCC-CCCCHH
Confidence 4677643 566778888999999999999999888889999999999999999999999999999999986 368999
Q ss_pred HHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCC
Q 039604 199 TVLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPIN 278 (373)
Q Consensus 199 ~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~ 278 (373)
+|++++.++|+.|||+++||+||+++|+++.+|.++++.+..++++++++.|++|||||+|||+|||+|+||++|+||++
T Consensus 89 ~la~~~~e~Lr~~G~~~~KA~~I~~~A~~i~~~~~~~~~l~~~p~~~~~~~L~~lpGIG~kTA~~ill~alg~pd~~pvd 168 (233)
T 2h56_A 89 QLYRVSDEALRQAGVSKRKIEYIRHVCEHVESGRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMFMMFSLGRLDVLSVG 168 (233)
T ss_dssp HHHTSCHHHHHHTTCCHHHHHHHHHHHHHHHTTSSCHHHHTTSCHHHHHHHHHTSTTCCHHHHHHHHHHTTCCSCCCCTT
T ss_pred HHHcCCHHHHHHcCCCHHHHHHHHHHHHHHHhCCCCHHHHhcCCHHHHHHHHHhCCCcCHHHHHHHHHHhCCCCCeeeCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhcCCCCCCHHHHHHHHhhcCCchHHHHHHHHHh
Q 039604 279 DLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWRF 322 (373)
Q Consensus 279 D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~ 322 (373)
|.++++++.+.|+....+++++++++.+.|+||++|+++|||..
T Consensus 169 d~~~r~~~~~~~~~~~~~~~~~~~~~~e~~~P~~~~a~~~lw~~ 212 (233)
T 2h56_A 169 DVGLQRGAKWLYGNGEGDGKKLLIYHGKAWAPYETVACLYLWKA 212 (233)
T ss_dssp CHHHHHHHHHHHSSSCSCHHHHHHHHHGGGTTCHHHHHHHHHHH
T ss_pred hHHHHHHHHHhccCCCCCCHHHHHHHHHHcCcHHHHHHHHHHhc
Confidence 99999999988887666788999999999999999999999944
No 7
>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=100.00 E-value=8.1e-42 Score=339.84 Aligned_cols=205 Identities=16% Similarity=0.233 Sum_probs=185.1
Q ss_pred hcCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCC-----
Q 039604 118 IARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGE----- 192 (373)
Q Consensus 118 ~~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~----- 192 (373)
+.+||+||.|++.++++|...||.|+.+++.++|+|+. ..|+||+||++||+||++++++.+++.+|+++||..
T Consensus 111 ~r~~fdLd~d~~~~~~~l~~~Dp~l~~l~~~~~glR~~-~~dpfE~LV~~ILsQq~s~~~a~~~~~rL~~~~G~~~~~~~ 189 (360)
T 2xhi_A 111 VRKYFQLDVTLAQLYHHWGSVDSHFQEVAQKFQGVRLL-RQDPIECLFSFICSSNNNIARITGMVERLCQAFGPRLIQLD 189 (360)
T ss_dssp HHHHTTTTSCHHHHHHHHHHHCHHHHHHHHHSTTCCCC-CCCHHHHHHHHHTTTTSCHHHHHHHHHHHHHHHSCEEEEET
T ss_pred HHHhcccCCCHHHHHHHHHhhCHHHHHHHHHcCCCCCC-CCCHHHHHHHHHHhCcCcHHHHHHHHHHHHHHhCCCcccCC
Confidence 66899999999999999988999999999999999985 589999999999999999999999999999999974
Q ss_pred -----CCCCHHHHhcCChH-HHHhcCCChhHHHHHHHHHHHHHcC---CCCchhhhCCChHHHHHHHhcCCCCCHHHHHH
Q 039604 193 -----AGVVPETVLALTPQ-QLRQIGVSGRKASYLHDLARKYQNG---ILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHM 263 (373)
Q Consensus 193 -----~~ptPe~La~l~~e-eLr~~Gls~~KA~yI~~lA~~i~~G---~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~ 263 (373)
.||+|++|+.++.+ +|+.||| ++||+||+++|+++.+| +++++.|..++++++++.|++|||||+|||+|
T Consensus 190 g~~~~~fPtpe~La~~~~ee~Lr~~Gl-~~RA~~I~~~A~~i~~~~~G~~~L~~l~~~~~~~~~~~L~~LpGIGp~TA~~ 268 (360)
T 2xhi_A 190 DVTYHGFPSLQALAGPEVEAHLRKLGL-GYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTCVADK 268 (360)
T ss_dssp TEEEECCCCHHHHTSTTHHHHHHHTTC-TTHHHHHHHHHHHHHHTTCTHHHHHGGGTSCHHHHHHHHTTSTTCCHHHHHH
T ss_pred CcccccCCCHHHHHcCCHHHHHHHcCC-cHHHHHHHHHHHHHHhccCCccCHHHHhcCCHHHHHHHHHhCCCCCHHHHHH
Confidence 47999999999874 7999999 79999999999999975 47889999999999999999999999999999
Q ss_pred HHHHhCCCCCccCCCCHHHHHHHHHHhcCCCC------CCHHH---H-HHHHhhcCCchHHHHHHHHHhhhh
Q 039604 264 FMIFSLHRPDVLPINDLGVRKGVQLLYSLEEL------PRPSQ---M-DQLCEKWRPYRSVASWYLWRFVEA 325 (373)
Q Consensus 264 vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~------~~~~e---~-~~l~e~w~Pyrg~a~~yLW~~~~~ 325 (373)
||+|+||++|+||+ |+||+|+++++||+... ++++. + +.+.+.|+||++|+++|||++...
T Consensus 269 ill~alg~pd~fpv-DthV~Ri~~r~~gl~~~~~~~k~~~~~~~~~l~~~~~e~w~p~~~~a~~yLw~~~~~ 339 (360)
T 2xhi_A 269 ICLMALDKPQAVPV-NVHMWHIAQRDYSWHPTTSQAKGPSPQTNKELGNFFRSLWGPYAGWAQAVLFSADLR 339 (360)
T ss_dssp HHHHHSCCTTCCCC-SHHHHHHHHHHHCCCCSSCSCSSCCHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHC
T ss_pred HHHHhCCCCCEEEe-cHHHHHHHHHHhCcccccccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999 99999999999997542 22332 2 336889999999999999987553
No 8
>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=100.00 E-value=2.8e-40 Score=318.12 Aligned_cols=191 Identities=23% Similarity=0.339 Sum_probs=174.8
Q ss_pred hcCCCCCchhHHHHHHHHHhhChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCC-----
Q 039604 118 IARPLSSEGEVEAAIRHLRNADRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGE----- 192 (373)
Q Consensus 118 ~~r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~----- 192 (373)
+.++|++|.|+..+++.| ..+++.++|+|+....|+||+||++||+||++++++.+++.+|+++||+.
T Consensus 78 ~~~~~~ld~d~~~~~~~l-------~~l~~~~~glR~~~~~d~fe~lv~~Il~Qq~s~~~a~~~~~rL~~~~G~~~~~~~ 150 (282)
T 1mpg_A 78 MSRLFDLQCNPQIVNGAL-------GRLGAARPGLRLPGCVDAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFP 150 (282)
T ss_dssp HHHHHTTTCCHHHHHHHH-------GGGGTTCTTCCCCCCSCHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHCCBCSSCT
T ss_pred HHHHHcCCCCHHHHHHHH-------HHHHHHcCCCcCCCCCCHHHHHHHHHHhCcccHHHHHHHHHHHHHHhCCCCCCCC
Confidence 568999999999888755 35678899999987799999999999999999999999999999999974
Q ss_pred ---CCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhC
Q 039604 193 ---AGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSL 269 (373)
Q Consensus 193 ---~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~l 269 (373)
.||+|++|+++++++|+.|||+++|++||+++|+++.+|.++++.+ ++++++++.|++|||||+|||+||++|+|
T Consensus 151 ~~~~fPtp~~la~~~~~~Lr~~G~~~~ra~~i~~~A~~~~~~~~~~~~~--~~~~~~~~~L~~lpGIG~~TA~~ill~~l 228 (282)
T 1mpg_A 151 EYICFPTPQRLAAADPQALKALGMPLKRAEALIHLANAALEGTLPMTIP--GDVEQAMKTLQTFPGIGRWTANYFALRGW 228 (282)
T ss_dssp TCBCCCCHHHHHTCCHHHHHHTTSCHHHHHHHHHHHHHHHHTCSCSSCC--SCHHHHHHHHTTSTTCCHHHHHHHHHHHS
T ss_pred CcccCCCHHHHHcCCHHHHHHcCCCHHHHHHHHHHHHHHHcCCCCcccc--CCHHHHHHHHhcCCCcCHHHHHHHHHHhC
Confidence 3789999999999999999999999999999999999998887755 78899999999999999999999999999
Q ss_pred CCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHHHHHhhcCCchHHHHHHHHHhhh
Q 039604 270 HRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWRPYRSVASWYLWRFVE 324 (373)
Q Consensus 270 grpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~ 324 (373)
|++|+||++|.++++.+. ..++++++++.+.|+||++|+++|||++++
T Consensus 229 g~~d~~pvdd~~~r~~l~-------~~~~~~~~~~~~~~~P~r~~a~~~lw~~~~ 276 (282)
T 1mpg_A 229 QAKDVFLPDDYLIKQRFP-------GMTPAQIRRYAERWKPWRSYALLHIWYTEG 276 (282)
T ss_dssp CCSSCCCTTCHHHHHHST-------TCCHHHHHHHHGGGTTCHHHHHHHHHTCTT
T ss_pred CCCCcCccccHHHHHHhc-------cCCHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence 999999999999987662 467899999999999999999999999865
No 9
>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=99.97 E-value=8.5e-31 Score=245.18 Aligned_cols=193 Identities=15% Similarity=0.119 Sum_probs=164.6
Q ss_pred hHHHHHHHhCCCCCc-CCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHH----HHhcCCC
Q 039604 140 RQLASLIDIHPPPTF-DSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQ----LRQIGVS 214 (373)
Q Consensus 140 p~La~li~~~gg~r~-~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~ee----Lr~~Gls 214 (373)
.++..|.+.||+..+ ....||||.||++||+||++++++..++.+|...| |+|++|+.++.++ |+.+||+
T Consensus 12 ~i~~~L~~~y~~~~~~l~~~~pfe~Lv~~IlsQqts~~~v~~~~~~l~~~f-----pt~~~la~a~~~~l~~~i~~~G~~ 86 (226)
T 1orn_A 12 YCLDEMAKMFPDAHCELVHRNPFELLIAVVLSAQCTDALVNKVTKRLFEKY-----RTPHDYIAVPLEELEQDIRSIGLY 86 (226)
T ss_dssp HHHHHHHHHCTTCCCCSCCSSHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-----CSHHHHHSSCHHHHHHHTGGGSSH
T ss_pred HHHHHHHHHcCccCCCCCCCCHHHHHHHHHHhCCCcHHHHHHHHHHHHHHC-----CCHHHHHcCCHHHHHHHHHHcCCh
Confidence 356778888887643 35789999999999999999999999999999986 6899999999998 5789999
Q ss_pred hhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcC-C
Q 039604 215 GRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSL-E 293 (373)
Q Consensus 215 ~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl-~ 293 (373)
++||+||+++|+.+.++. + .+.++.++.|++|||||+|||++||+|+||++ +||+ |+||+|++.|+ |+ .
T Consensus 87 ~~KA~~l~~~a~~i~~~~-~------g~~p~~~~~L~~lpGIG~~TA~~il~~a~g~~-~~~v-D~~v~Rv~~rl-g~~~ 156 (226)
T 1orn_A 87 RNKARNIQKLCAMLIDKY-N------GEVPRDRDELMKLPGVGRKTANVVVSVAFGVP-AIAV-DTHVERVSKRL-GFCR 156 (226)
T ss_dssp HHHHHHHHHHHHHHHHHS-T------TSCCSCHHHHTTSTTCCHHHHHHHHHHHHCCC-CCCC-CHHHHHHHHHH-TSSC
T ss_pred HHHHHHHHHHHHHHHHHh-C------CCcHHHHHHHHHCCCccHHHHHHHHHHHCCCc-eeee-CHHHHHHHHHh-CCCC
Confidence 999999999999998731 0 01124689999999999999999999999997 9999 99999999998 55 4
Q ss_pred CCCCHHHHHHHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhccCC--CCchhhhhhhhHHHHhhhh
Q 039604 294 ELPRPSQMDQLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAGAAL--PQPQQEEQQQPQLLDQINS 360 (373)
Q Consensus 294 ~~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 360 (373)
...+++++++..+.|.|++.|..+|.|.. .+|... ...++|+.|-++.+|+-..
T Consensus 157 ~~~~~~~~~~~l~~~~p~~~~~~~~~~lv-------------~~G~~~C~~~~P~C~~Cpl~~~C~~~~ 212 (226)
T 1orn_A 157 WDDSVLEVEKTLMKIIPKEEWSITHHRMI-------------FFGRYHCKAQSPQCPSCPLLHLCREGK 212 (226)
T ss_dssp TTCCHHHHHHHHHHHSCGGGHHHHHHHHH-------------HHHHHTSCSSCCCGGGCTTGGGCHHHH
T ss_pred CCCCHHHHHHHHHHhcChhhHHHHHHHHH-------------HHHHHHcCCCCCCCCCCCChhhhhhHh
Confidence 36788899999999999999999998874 566664 5688999999999998643
No 10
>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=99.97 E-value=3.7e-31 Score=246.59 Aligned_cols=190 Identities=16% Similarity=0.214 Sum_probs=161.5
Q ss_pred HHHHHHhCCC-CCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHH----HhcCCChh
Q 039604 142 LASLIDIHPP-PTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQL----RQIGVSGR 216 (373)
Q Consensus 142 La~li~~~gg-~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeL----r~~Gls~~ 216 (373)
|..+.+.++. ++|+...+|||.||++||+||++++++.+++.+|.+.| |+|++|++++.++| +.+||+++
T Consensus 16 l~~~~~~~~~~~pw~~~~~pfe~lv~~IlsQqts~~~~~~~~~~l~~~f-----ptp~~la~a~~e~l~~~i~~~G~~~~ 90 (221)
T 1kea_A 16 ILTFWNTDRRDFPWRHTRDPYVILITEILLRRTTAGHVKKIYDKFFVKY-----KCFEDILKTPKSEIAKDIKEIGLSNQ 90 (221)
T ss_dssp HHHHHHHSCCCCGGGGCCCHHHHHHHHHHTTTSCHHHHHHHHHHHHHHC-----CSHHHHHHSCHHHHHHHTGGGSCHHH
T ss_pred HHHHHHHhhhhCcCCCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHHHC-----CCHHHHHCCCHHHHHHHHHHCCCCHH
Confidence 5566666663 55777889999999999999999999999999999986 68999999999988 78999999
Q ss_pred HHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCCCC
Q 039604 217 KASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELP 296 (373)
Q Consensus 217 KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~~ 296 (373)
||+||+++|+.+.++. + ..+ ++.++.|++|||||+|||++||+|+|+++ +||+ |+||+|++.|+||+...+
T Consensus 91 KA~~l~~~a~~i~~~~-~----g~~--p~~~~~L~~lpGIG~~TA~~il~~~~~~~-~~~v-D~~v~Rv~~rl~gl~~~~ 161 (221)
T 1kea_A 91 RAEQLKELARVVINDY-G----GRV--PRNRKAILDLPGVGKYTCAAVMCLAFGKK-AAMV-DANFVRVINRYFGGSYEN 161 (221)
T ss_dssp HHHHHHHHHHHHHHHH-T----TSC--CSCHHHHHTSTTCCHHHHHHHHHHTTCCC-CCCC-CHHHHHHHHHHHCGGGTT
T ss_pred HHHHHHHHHHHHHHHh-C----CCc--hHHHHHHHhCCCCcHHHHHHHHHHhcCCC-ccee-cHHHHHHHHHHhCCCCCC
Confidence 9999999999998631 0 012 24589999999999999999999999997 7999 999999999999986433
Q ss_pred C---HHHHHHHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhccCC--CCchhhhhhhhHHHHhh
Q 039604 297 R---PSQMDQLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAGAAL--PQPQQEEQQQPQLLDQI 358 (373)
Q Consensus 297 ~---~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 358 (373)
+ .+++.++++.|.||+.|..+|.|- |.+|... ...++|+.|-++.+|+.
T Consensus 162 ~~~~~~~l~~~ae~~~P~~~~~~~~~~l-------------v~~G~~~C~~~~P~C~~Cpl~~~C~~ 215 (221)
T 1kea_A 162 LNYNHKALWELAETLVPGGKCRDFNLGL-------------MDFSAIICAPRKPKCEKCGMSKLCSY 215 (221)
T ss_dssp CCTTSHHHHHHHHHHSCTTCHHHHHHHH-------------HHHHHHTSCSSSCCGGGCTTTTTCHH
T ss_pred CcHHHHHHHHHHHHhCChhhHHHHHHHH-------------HHHHHHHcCCCCCCCCCCCChhhchh
Confidence 2 357888999999999999999887 4677774 66899999998888885
No 11
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=99.97 E-value=1.8e-31 Score=246.79 Aligned_cols=191 Identities=16% Similarity=0.165 Sum_probs=161.5
Q ss_pred hHHHHHHHhCCCCC-cCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHH----HhcCCC
Q 039604 140 RQLASLIDIHPPPT-FDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQL----RQIGVS 214 (373)
Q Consensus 140 p~La~li~~~gg~r-~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeL----r~~Gls 214 (373)
.++..|.+.||... +....||||.||++||+||++++++.+++.+|...| ++|++|+++++++| +.+||+
T Consensus 8 ~i~~~L~~~~~~~~~~~~~~~pfe~lv~~Il~qqts~~~v~~~~~~l~~~f-----pt~~~la~a~~~~l~~~i~~~G~~ 82 (211)
T 2abk_A 8 EILTRLRENNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVA-----NTPAAMLELGVEGVKTYIKTIGLY 82 (211)
T ss_dssp HHHHHHHHHCSSCCCSSCCSSHHHHHHHHHHTTTSCHHHHHHHHHHHTTTC-----CSHHHHHHHHHHHHHHHHTTSTTH
T ss_pred HHHHHHHHHcCCCCcCCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHC-----CCHHHHHCCCHHHHHHHHHHcCCC
Confidence 46778888898754 456789999999999999999999999999997654 79999999999885 679999
Q ss_pred hhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCC
Q 039604 215 GRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEE 294 (373)
Q Consensus 215 ~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~ 294 (373)
++||+||+++|+.+.++. +.+.++.++.|++|||||+|||++||+|+||++ +||+ |+||+|++.|+ |+..
T Consensus 83 ~~KA~~l~~~a~~~~~~~-------~g~~~~~~~~L~~l~GIG~~tA~~il~~~~~~~-~~~v-D~~v~Rv~~rl-gl~~ 152 (211)
T 2abk_A 83 NSKAENIIKTCRILLEQH-------NGEVPEDRAALEALPGVGRKTANVVLNTAFGWP-TIAV-DTHIFRVCNRT-QFAP 152 (211)
T ss_dssp HHHHHHHHHHHHHHHHHT-------TTSCCSCHHHHHHSTTCCHHHHHHHHHHHHCCC-CCCC-CHHHHHHHHHH-CSSC
T ss_pred hHHHHHHHHHHHHHHHHc-------CCCchHHHHHHHhCCCCChHHHHHHHHHHCCCC-cCCc-CHHHHHHHHHh-CCCC
Confidence 999999999999998741 112235689999999999999999999999999 8999 99999999998 7766
Q ss_pred CCCHHHHHHHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhccCC--CCchhhhhhhhHHHHhh
Q 039604 295 LPRPSQMDQLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAGAAL--PQPQQEEQQQPQLLDQI 358 (373)
Q Consensus 295 ~~~~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 358 (373)
..+++++++..+.|.|+..+..+|.|-. .+|... ...++|+.|-++-+|+.
T Consensus 153 ~~~~~~~~~~~~~~~p~~~~~~~~~~l~-------------~~G~~~C~~~~P~C~~Cpl~~~C~~ 205 (211)
T 2abk_A 153 GKNVEQVEEKLLKVVPAEFKVDCHHWLI-------------LHGRYTCIARKPRCGSCIIEDLCEY 205 (211)
T ss_dssp CSSHHHHHHHHHHHSCGGGTTTHHHHHH-------------HHHHHTSCSSSCCGGGCTTGGGCCC
T ss_pred CCCHHHHHHHHHHhcChhhHHHHHHHHH-------------HHHHHHCCCCCCCCCCCCChhhCCC
Confidence 6788999999999999888777776653 556654 56788988888888874
No 12
>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=99.96 E-value=5e-30 Score=239.44 Aligned_cols=191 Identities=16% Similarity=0.154 Sum_probs=157.8
Q ss_pred HHHHHHHhCCC--CCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHHH----hcCCC
Q 039604 141 QLASLIDIHPP--PTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQLR----QIGVS 214 (373)
Q Consensus 141 ~La~li~~~gg--~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeLr----~~Gls 214 (373)
.|..+++.+|. +.|+...||||.||++||+||++++++..++.+|...| ++|++|+++++++|+ .+||+
T Consensus 9 ~l~~~~~~~g~~~l~w~~~~~pfe~lv~~IlsQqt~~~~v~~~~~~l~~~~-----pt~~~la~~~~~~l~~~i~~~G~~ 83 (225)
T 1kg2_A 9 QVLDWYDKYGRKTLPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARF-----PTVTDLANAPLDEVLHLWTGLGYY 83 (225)
T ss_dssp HHHHHHHHHCCCCSGGGSSCCHHHHHHHHHHHTSSCHHHHHHHHHHHHHHC-----SSHHHHHHSCHHHHHHHHTTSCCT
T ss_pred HHHHHHHHcCCCCCCCCCCCCHHHHHHHHHHHCcCCHHHHHHHHHHHHHHC-----CCHHHHHCCCHHHHHHHHHhCChH
Confidence 35677777773 67878899999999999999999999999999999886 689999999999885 69998
Q ss_pred hhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCC
Q 039604 215 GRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEE 294 (373)
Q Consensus 215 ~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~ 294 (373)
+||+||+++|+.+.++. +. ++ ++.++.|++|||||+|||++||+|+||+++ |++ |+||+|++.|+||+..
T Consensus 84 -~kA~~l~~~a~~i~~~~-~g----~~--p~~~~~L~~lpGIG~~TA~~il~~a~~~~~-~~v-D~~v~Rv~~rl~~~~~ 153 (225)
T 1kg2_A 84 -ARARNLHKAAQQVATLH-GG----KF--PETFEEVAALPGVGRSTAGAILSLSLGKHF-PIL-DGNVKRVLARCYAVSG 153 (225)
T ss_dssp -HHHHHHHHHHHHHHHHS-TT----SC--CCSHHHHHTSTTCCHHHHHHHHHHHHCCSC-CCC-CHHHHHHHHHHHTCCS
T ss_pred -HHHHHHHHHHHHHHHHh-CC----Cc--hHHHHHHhcCCCCcHHHHHHHHHHhCCCCc-cee-CHHHHHHHHHHcCCCC
Confidence 69999999999998641 10 12 235899999999999999999999999995 787 9999999999998764
Q ss_pred CC----CHHHHHHHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhccCC--CCchhhhhhhhHHHHhhh
Q 039604 295 LP----RPSQMDQLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAGAAL--PQPQQEEQQQPQLLDQIN 359 (373)
Q Consensus 295 ~~----~~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 359 (373)
.. +++++.++++.|.|+..|..++.|- |.+|... ...++|+.|-++-+|+..
T Consensus 154 ~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~l-------------v~~G~~~C~~~~P~C~~Cpl~~~C~~~ 211 (225)
T 1kg2_A 154 WPGKKEVENKLWSLSEQVTPAVGVERFNQAM-------------MDLGAMICTRSKPKCSLCPLQNGCIAA 211 (225)
T ss_dssp CTTSHHHHHHHHHHHHHHCCSTTHHHHHHHH-------------HHHHHHTSCSSSCCGGGCTTTTTCHHH
T ss_pred CCCccchHHHHHHHHHHHCCcccHHHHHHHH-------------HHHHHHHcCCCCCCCCCCCChhhCHHH
Confidence 32 2456777888999988777777665 3556663 568899989888888864
No 13
>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=3.3e-28 Score=226.49 Aligned_cols=149 Identities=19% Similarity=0.166 Sum_probs=126.7
Q ss_pred CCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHH-hCCCC-CCCHHHHhcCChHHH----HhcCCChhHHHHHHHHH
Q 039604 152 PTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIAL-CGGEA-GVVPETVLALTPQQL----RQIGVSGRKASYLHDLA 225 (373)
Q Consensus 152 ~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~-~G~~~-~ptPe~La~l~~eeL----r~~Gls~~KA~yI~~lA 225 (373)
..|+...||||.||++||+||++++++.+++.+|+++ |+... +++|++|++++.++| +.+||+++||+||+++|
T Consensus 22 ~~~~~~~dpfe~Lv~~ILsQqts~~~v~~~~~~L~~~~~pt~~~~~t~~~la~~~~e~L~~~ir~~G~~~~KA~~L~~~a 101 (218)
T 1pu6_A 22 AWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLS 101 (218)
T ss_dssp TTSSTTTTSHHHHHHHHHTTTSCHHHHHHHHHHHHHTTSSCSCHHHHHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHH
T ss_pred CcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHccCCCccccccHHHHHhCCHHHHHHHHHHCCCcHHHHHHHHHHH
Confidence 3356678999999999999999999999999999988 53100 112999999999988 78999999999999999
Q ss_pred HHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 039604 226 RKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLC 305 (373)
Q Consensus 226 ~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~~l~ 305 (373)
+++.++...++ .++.+++++.|++|||||+|||+|||+|+|+++ +||+ |+|++|++.|+ |+. ..++++++++.
T Consensus 102 ~~i~~~~~~l~---~~~~~~~~~~L~~lpGIG~kTA~~il~~a~~~~-~~~v-D~~v~Ri~~rl-g~~-~~~~~~~~~~l 174 (218)
T 1pu6_A 102 GNILKDFQSFE---NFKQEVTREWLLDQKGIGKESADAILCYACAKE-VMVV-DKYSYLFLKKL-GIE-IEDYDELQHFF 174 (218)
T ss_dssp HHHHHHHSSHH---HHHHHCCHHHHHTSTTCCHHHHHHHHHHTTCCS-CCCC-CHHHHHHHHHT-TCC-CCSHHHHHHHH
T ss_pred HHHHHhcCChh---hccchHHHHHHHcCCCcCHHHHHHHHHHHCCCC-cccc-CHHHHHHHHHc-CCC-CCCHHHHHHHH
Confidence 99987533333 345677899999999999999999999999997 9999 99999999996 876 57888988877
Q ss_pred hh
Q 039604 306 EK 307 (373)
Q Consensus 306 e~ 307 (373)
+.
T Consensus 175 ~~ 176 (218)
T 1pu6_A 175 EK 176 (218)
T ss_dssp HH
T ss_pred HH
Confidence 66
No 14
>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=99.95 E-value=1.7e-27 Score=220.02 Aligned_cols=170 Identities=14% Similarity=0.127 Sum_probs=137.4
Q ss_pred HHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHH----HHhcC--CC
Q 039604 141 QLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQ----LRQIG--VS 214 (373)
Q Consensus 141 ~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~ee----Lr~~G--ls 214 (373)
.+....+.|+...|+...+|||.||++||+||++++++.+++.+| |+.|+.+++++ |+.|| |+
T Consensus 14 ~v~~~~~~f~~~~~~~~~~~fe~Lv~~ILsqqts~~~~~~~~~~L-----------~~~l~~~~~e~l~~~ir~~G~g~~ 82 (207)
T 3fhg_A 14 RVLERVDEFRLNNLSNEEVWFRELTLCLLTANSSFISAYQALNCL-----------GQKIYYANEEEIRNILKSCKYRFY 82 (207)
T ss_dssp HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHTTSCHHHHHHHHHHH-----------GGGGGTCCHHHHHHHHHHTTCTTH
T ss_pred HHHHHHHHHhhccCCCcCCHHHHHHHHHHcCCCCHHHHHHHHHHH-----------HHHHHcCCHHHHHHHHHHhccCcH
Confidence 444555666666677788999999999999999999999999998 25677777776 56677 88
Q ss_pred hhHHHHHHHHHHHHHcCC-CCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCC
Q 039604 215 GRKASYLHDLARKYQNGI-LSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLE 293 (373)
Q Consensus 215 ~~KA~yI~~lA~~i~~G~-l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~ 293 (373)
++||+||+++|+++.++. .+++.+..++++++++.|++|||||+|||+|||+|. ++.++||+ |+||+|++.|++...
T Consensus 83 ~~KA~~l~~~a~~~~~~~~~~l~~~~~~~~~~~~~~L~~lpGIG~kTA~~il~~~-~~~~~~~v-D~~v~Ri~~rlg~~~ 160 (207)
T 3fhg_A 83 NLKAKYIIMAREKVYGRLKEEIKPLADEDQQLARERLLNIKGIGMQEASHFLRNV-GYFDLAII-DRHIIDFMRRIGAIG 160 (207)
T ss_dssp HHHHHHHHHHHHHHTTTHHHHHHHHHHHCHHHHHHHHTTSTTCCHHHHHHHHHHT-TCCSSCCC-CHHHHHHHHHTTSSC
T ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHhCCCHHHHHHHHHcCCCcCHHHHHHHHHHh-CCCCccee-cHHHHHHHHHcCCCC
Confidence 899999999999887532 146677778999999999999999999999999982 33689999 999999999995433
Q ss_pred C----CCCHH-------HHHHHHhhcCCchHHHHHHHHHhh
Q 039604 294 E----LPRPS-------QMDQLCEKWRPYRSVASWYLWRFV 323 (373)
Q Consensus 294 ~----~~~~~-------e~~~l~e~w~Pyrg~a~~yLW~~~ 323 (373)
. ..+++ .+..+++.++...|+..+|+|+..
T Consensus 161 ~~~~k~~~~k~y~~~~~~l~~~~~~~~~~~~~lDl~lw~~~ 201 (207)
T 3fhg_A 161 ETNVKQLSKSLYISFENILKSIASNLNMSVGILDLFIWYKE 201 (207)
T ss_dssp CCCCSCCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred ccccccCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 2 22333 355677888999999999999974
No 15
>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=99.94 E-value=5.8e-27 Score=218.75 Aligned_cols=167 Identities=16% Similarity=0.173 Sum_probs=138.8
Q ss_pred hHHHHHHHhCCC-CCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHH----HHhcC--
Q 039604 140 RQLASLIDIHPP-PTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQ----LRQIG-- 212 (373)
Q Consensus 140 p~La~li~~~gg-~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~ee----Lr~~G-- 212 (373)
+.+..-++.|.. ..|....++|+.||.+||+||++++++.+++.+| |+.|+.+++++ |+.+|
T Consensus 29 ~~i~~r~~ef~~~~~~~~~~~~fe~Lv~~ILsqqts~~~~~~a~~~L-----------p~~l~~~~~eeL~~~Ir~~G~R 97 (219)
T 3n0u_A 29 PLVEQRFEEFKRLGEEGTEEDLFCELSFCVLTANWSAEGGIRAQKEI-----------GKGFVHLPLEELAEKLREVGHR 97 (219)
T ss_dssp HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTTSCHHHHHHHHHHH-----------TTHHHHCCHHHHHHHHHHTTCS
T ss_pred HHHHHHHHHHhhhccCCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHH-----------HHHHHcCCHHHHHHHHHHhcch
Confidence 444455555533 3455677999999999999999999999999998 45788888887 57899
Q ss_pred CChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHh-cCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhc
Q 039604 213 VSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLT-MVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYS 291 (373)
Q Consensus 213 ls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~-sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlyg 291 (373)
|+++||+||+++|+.+ | ++..+.+++.+++++.|+ +|||||+|||+|||+| +|+.++||| |+||+|++.|++.
T Consensus 98 f~~~KA~~I~~~a~~i--g--~l~~~~~~~~~~~r~~L~~~l~GVG~kTA~~vL~~-~g~~~~~~V-Dthv~Ri~~rlg~ 171 (219)
T 3n0u_A 98 YPQKRAEFIVENRKLL--G--KLKNLVKGDPFQSREFLVRNAKGIGWKEASHFLRN-TGVEDLAIL-DKHVLRLMKRHGL 171 (219)
T ss_dssp SHHHHHHHHHHHGGGT--T--THHHHHHSCHHHHHHHHHHHSTTCCHHHHHHHHHT-TTCCSCCCC-CHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHHHHH--H--HHHHHhcCCcHHHHHHHHHhCCCCCHHHHHHHHHH-cCCCCeeee-cHHHHHHHHHcCC
Confidence 9999999999999987 4 456677899999999999 9999999999999999 888889999 9999999999944
Q ss_pred CCC---CCCHH-------HHHHHHhhcCCchHHHHHHHHHhh
Q 039604 292 LEE---LPRPS-------QMDQLCEKWRPYRSVASWYLWRFV 323 (373)
Q Consensus 292 l~~---~~~~~-------e~~~l~e~w~Pyrg~a~~yLW~~~ 323 (373)
.+. ..+++ .+.++++.++.+.+...+|+|+..
T Consensus 172 ~~~~~k~~t~k~y~~ie~~~~~~a~~~g~~~~~ldl~lW~~~ 213 (219)
T 3n0u_A 172 IQEIPKGWSKKRYLYVEEILRKVAEAFGESPGKFDLYLWYLV 213 (219)
T ss_dssp CSSCCSSCCHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred CCcCcCcCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333 22333 456678899999999999999974
No 16
>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=99.94 E-value=4.4e-26 Score=226.37 Aligned_cols=180 Identities=13% Similarity=0.200 Sum_probs=149.4
Q ss_pred CCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHH----HhcCCChhHHHHHHHH
Q 039604 149 HPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQL----RQIGVSGRKASYLHDL 224 (373)
Q Consensus 149 ~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeL----r~~Gls~~KA~yI~~l 224 (373)
...++|+...|||+.||++||+||++++++..++.+|.++| ++|++|++++.++| +.+||++ ||+||+++
T Consensus 28 ~r~lpw~~~~~p~~~lv~~il~qqt~~~~~~~~~~~l~~~~-----pt~~~la~a~~~~l~~~i~~~G~~~-ra~~l~~~ 101 (369)
T 3fsp_A 28 RRDLPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRF-----PTLEALADADEDEVLKAWEGLGYYS-RVRNLHAA 101 (369)
T ss_dssp CCCCGGGSCCCHHHHHHHHHHTTTSCHHHHHHHHHHHHHHC-----CSHHHHHTSCHHHHHHTTTTSSCTH-HHHHHHHH
T ss_pred CCCCCCCCCCChHHHHHHHHHhccCcHHHHHHHHHHHHHHC-----CCHHHHHCCCHHHHHHHHHhcChHH-HHHHHHHH
Confidence 34678888899999999999999999999999999999987 58999999999987 5799987 99999999
Q ss_pred HHHHHc---CCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCCCC----C
Q 039604 225 ARKYQN---GILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELP----R 297 (373)
Q Consensus 225 A~~i~~---G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~~----~ 297 (373)
|+.+.+ |.++ +.++.|++|||||+|||++||+|+||++ +|++ |+||+|++.|+++++... +
T Consensus 102 a~~~~~~~~g~~p----------~~~~~L~~l~GIG~~tA~~il~~~~~~~-~~~v-D~~v~Rv~~rl~~~~~~~~~~~~ 169 (369)
T 3fsp_A 102 VKEVKTRYGGKVP----------DDPDEFSRLKGVGPYTVGAVLSLAYGVP-EPAV-DGNVMRVLSRLFLVTDDIAKPST 169 (369)
T ss_dssp HHHHHHHHTTCCC----------CSHHHHHTSTTCCHHHHHHHHHHHHCCC-CCCC-CHHHHHHHHHHTTCCSCTTSHHH
T ss_pred HHHHHHHcCCCCh----------hHHHHHhcCCCcCHHHHHHHHHHHCCCC-cccc-cHHHHHHHHHHcCcccCccccch
Confidence 999986 4332 3589999999999999999999999998 7898 999999999998775432 3
Q ss_pred HHHHHHHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhccCC--CCchhhhhhhhHHHHhhh
Q 039604 298 PSQMDQLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAGAAL--PQPQQEEQQQPQLLDQIN 359 (373)
Q Consensus 298 ~~e~~~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 359 (373)
+++++++++.|.|..-+..++.+- |.+|... ...++|..|-++-+|+-.
T Consensus 170 ~~~~~~~~~~~~p~~~~~~~~~~l-------------~~~G~~~C~~~~P~C~~Cpl~~~C~~~ 220 (369)
T 3fsp_A 170 RKRFEQIVREIMAYENPGAFNEAL-------------IELGALVCTPRRPSCLLCPVQAYCQAF 220 (369)
T ss_dssp HHHHHHHHHHHCCSSSHHHHHHHH-------------HHHHHHTSCSSSCCTTTCTTGGGCHHH
T ss_pred HHHHHHHHHHhCChhhHHHHHHHH-------------HHHHHHhcCCCCCCCCCCCChhhhHHH
Confidence 467788889999976555554432 3455553 567888888888888753
No 17
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=99.93 E-value=6.4e-26 Score=219.35 Aligned_cols=202 Identities=14% Similarity=0.157 Sum_probs=150.6
Q ss_pred CCCCCchhHHHHHHHHHhhChHHHHHHHhCC-CCCcCC--------CCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhC
Q 039604 120 RPLSSEGEVEAAIRHLRNADRQLASLIDIHP-PPTFDS--------FHTPFLALTRSILYQQLAFKAGTSIYTRFIALCG 190 (373)
Q Consensus 120 r~l~ld~Dl~~~~~~L~~~Dp~La~li~~~g-g~r~~~--------~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G 190 (373)
.+|+-+.++..+.+.| -.+.+.++ .++|+. ..++|+.||++||+||++++++..++.+|.++|
T Consensus 7 ~~~~~~~~~~~~~~~l-------l~Wy~~~~R~lPWR~~~~~~~d~~~dpfe~LVs~ILsQQts~~~v~~~~~rL~~~f- 78 (287)
T 3n5n_X 7 HLFRDVAEVTAFRGSL-------LSWYDQEKRDLPWRRRAEDEMDLDRRAYAVWVSEVMLQQTQVATVINYYTGWMQKW- 78 (287)
T ss_dssp TSCCCHHHHHHHHHHH-------HHHHHHHCCCCHHHHHHHHCCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-
T ss_pred cccCCHHHHHHHHHHH-------HHHHHHcCCCCCCcCcCccccCCCCCHHHHHHHHHHhCCCcHHHHHHHHHHHHHHC-
Confidence 4566556665554433 34444443 456653 257999999999999999999999999999987
Q ss_pred CCCCCCHHHHhcCChHHH----HhcCCChhHHHHHHHHHHHHHc---CCCCchhhhCCChHHHHHHHhc-CCCCCHHHHH
Q 039604 191 GEAGVVPETVLALTPQQL----RQIGVSGRKASYLHDLARKYQN---GILSDSAIVNMDDKSLFTMLTM-VNGIGSWSVH 262 (373)
Q Consensus 191 ~~~~ptPe~La~l~~eeL----r~~Gls~~KA~yI~~lA~~i~~---G~l~L~~L~~~~~ee~~~~L~s-LpGIGpwTA~ 262 (373)
++|++|+.++.++| +.+||++ ||+||+++|+.+.+ |.+ +. .++.|++ |||||+|||+
T Consensus 79 ----ptpe~La~a~~eel~~~ir~lG~~~-KA~~L~~~A~~i~~~~~g~~--------p~--~~~~Ll~~LpGIG~kTA~ 143 (287)
T 3n5n_X 79 ----PTLQDLASASLEEVNQLWAGLGYYS-RGRRLQEGARKVVEELGGHM--------PR--TAETLQQLLPGVGRYTAG 143 (287)
T ss_dssp ----CSHHHHHTSCHHHHHHHHTTSSCHH-HHHHHHHHHHHHHHHSTTCC--------CS--SHHHHHHHSTTCCHHHHH
T ss_pred ----CCHHHHHcCCHHHHHHHHHHcCCHH-HHHHHHHHHHHHHHHhCCCC--------cH--HHHHHHHHcCCCCHHHHH
Confidence 58999999999886 6799986 99999999999986 332 22 3788998 9999999999
Q ss_pred HHHHHhCCCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHH----HHHhhcCCchHHHHHHHHHhhhhcCCCCchhhhhhc
Q 039604 263 MFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMD----QLCEKWRPYRSVASWYLWRFVEAKGAPSSAAAVAAG 338 (373)
Q Consensus 263 ~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~----~l~e~w~Pyrg~a~~yLW~~~~~~~~~~~~~~~~~~ 338 (373)
+||+|+||++ +|+| |+||+|++.|+++.....+..+++ .+++.+-|..-+..++.+- |.+|
T Consensus 144 ~iL~~a~g~p-~~~V-Dt~V~Rv~~Rlg~i~~~~~~~~~~~~l~~~a~~~lp~~~~~~~h~~L-------------~~~G 208 (287)
T 3n5n_X 144 AIASIAFGQA-TGVV-DGNVARVLCRVRAIGADPSSTLVSQQLWGLAQQLVDPARPGDFNQAA-------------MELG 208 (287)
T ss_dssp HHHHHHSCCC-CCCC-CHHHHHHHHHHTTCCSCTTSHHHHHHHHHHHHHHSCSSCHHHHHHHH-------------HHHH
T ss_pred HHHHHhcCCC-Cccc-cHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHhCCHHHHHHHHHHH-------------HHHh
Confidence 9999999998 6898 999999999997765433333332 2335555555444444332 4667
Q ss_pred cCC--CCchhhhhhhhHHHHhhh
Q 039604 339 AAL--PQPQQEEQQQPQLLDQIN 359 (373)
Q Consensus 339 ~~~--~~~~~~~~~~~~~~~~~~ 359 (373)
... ...++|..|.++.+|+..
T Consensus 209 r~iC~~r~P~C~~Cpl~~~C~~~ 231 (287)
T 3n5n_X 209 ATVCTPQRPLCSQCPVESLCRAR 231 (287)
T ss_dssp HHTSCSSSCCTTSCTTGGGCHHH
T ss_pred HHHcCCCCCCCCCCCChhhhHHH
Confidence 764 567888888777777653
No 18
>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=99.92 E-value=1.4e-24 Score=202.05 Aligned_cols=162 Identities=17% Similarity=0.202 Sum_probs=131.9
Q ss_pred HHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHH----HhcC--CChhH
Q 039604 144 SLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQL----RQIG--VSGRK 217 (373)
Q Consensus 144 ~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeL----r~~G--ls~~K 217 (373)
.-++.|..+++....+||+.||.+||+||++++++.+++.+|. +.|+.+++++| +++| |+++|
T Consensus 28 ~r~~ef~~~~~~~~~~~fe~Lv~~ILsqqt~~~~v~~a~~~L~-----------~~l~~~~~eeL~~~Ir~~G~rf~~~K 96 (214)
T 3fhf_A 28 KRIQEFKSFKNKSNEEWFKELCFCILTANFTAEGGIRIQKEIG-----------DGFLTLPREELEEKLKNLGHRFYRKR 96 (214)
T ss_dssp HHHHHHHGGGGSCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHT-----------THHHHSCHHHHHHHHHHTTCTTHHHH
T ss_pred HHHHHHHhhccCCCCChHHHHHHHHHcCCCCHHHHHHHHHHHH-----------HHHHCCCHHHHHHHHHHHhhHHHHHH
Confidence 3445566666556789999999999999999999999999984 35777887775 7899 99999
Q ss_pred HHHHHHHHHHHHcCCCCchhhhCC-ChHHHHHHHh-cCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCC-
Q 039604 218 ASYLHDLARKYQNGILSDSAIVNM-DDKSLFTMLT-MVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEE- 294 (373)
Q Consensus 218 A~yI~~lA~~i~~G~l~L~~L~~~-~~ee~~~~L~-sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~- 294 (373)
|+||+++|+ + |.+ ++.+..+ +.++.+++|+ +|||||+|||+|||+++ ++ +.||+-|+||+|+++|+ |+..
T Consensus 97 A~~I~~~a~-~--~~l-~~~~~~~~~~~~~re~Ll~~LpGVG~KTA~~vL~~~-g~-~~~~vVDthv~Ri~~Rl-G~~~~ 169 (214)
T 3fhf_A 97 AEYIVLARR-F--KNI-KDIVESFENEKVAREFLVRNIKGIGYKEASHFLRNV-GY-DDVAIIDRHILRELYEN-NYIDE 169 (214)
T ss_dssp HHHHHHHGG-G--CCH-HHHHHHSSSHHHHHHHHHHHSTTCCHHHHHHHHHHT-TC-CSCCCCCHHHHHHHHHT-TSSSS
T ss_pred HHHHHHHHH-h--hHH-HHHhcccCCcHHHHHHHHHhCCCCCHHHHHHHHHHc-CC-CCcccCcHHHHHHHHHc-CCCCC
Confidence 999999999 5 332 4556665 7889999999 99999999999999998 77 56783399999999998 5532
Q ss_pred ---CCCHH-------HHHHHHhhcCCchHHHHHHHHHhh
Q 039604 295 ---LPRPS-------QMDQLCEKWRPYRSVASWYLWRFV 323 (373)
Q Consensus 295 ---~~~~~-------e~~~l~e~w~Pyrg~a~~yLW~~~ 323 (373)
..+++ .+..+++.|+-+.|+..+|+|+..
T Consensus 170 ~~k~lt~~~y~e~~~~l~~~g~~~g~~~g~lDl~lW~~~ 208 (214)
T 3fhf_A 170 IPKTLSRRKYLEIENILRDIGEEVNLKLSELDLYIWYLR 208 (214)
T ss_dssp CCSSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred CCCcCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 12233 456678999999999999999974
No 19
>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=99.86 E-value=1.1e-21 Score=175.21 Aligned_cols=118 Identities=19% Similarity=0.327 Sum_probs=104.7
Q ss_pred CCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHH----HhcCCChhHHHHHHHHHHHHHcCC
Q 039604 157 FHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQL----RQIGVSGRKASYLHDLARKYQNGI 232 (373)
Q Consensus 157 ~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeL----r~~Gls~~KA~yI~~lA~~i~~G~ 232 (373)
..|||+.||.+||+||++++++..++.+|.++| ++|++|++++.++| +.+||+++||++|+++++.+....
T Consensus 28 ~~dP~~vLVs~ILsqQT~~~~v~~~~~~l~~~~-----pt~~~la~a~~~el~~~i~~lG~y~~KAk~i~~~a~~~vp~~ 102 (161)
T 4e9f_A 28 FHDPWKLLIATIFLNRTSGKMAIPVLWKFLEKY-----PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQ 102 (161)
T ss_dssp TTSHHHHHHHHHHTTTSCHHHHHHHHHHHHHHS-----CSHHHHTTSCHHHHHHHHGGGSCHHHHHHHHHHHHHHHHHSC
T ss_pred cCChHHHHHHHHHHhhCcHHHHHHHHHHHHHHC-----CCHHHHhccChHhHHhHhhhcCCHHHHHHHHHHHhCCcCCCC
Confidence 468999999999999999999999999999997 58999999999886 679999999999999998765321
Q ss_pred CCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCC-CCccCCCCHHHHHHHHHHhcCCC
Q 039604 233 LSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHR-PDVLPINDLGVRKGVQLLYSLEE 294 (373)
Q Consensus 233 l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgr-pDvfPv~D~~VrR~l~rlygl~~ 294 (373)
.+.|++|||||+|||+++++|+++. ..|+|+ |.+++|.+.+++...+
T Consensus 103 --------------~~~L~~LpGVG~yTAdav~~F~~~e~~~V~p~-D~~l~r~l~wl~~~~e 150 (161)
T 4e9f_A 103 --------------WKYPIELHGIGKYGNDSYRIFCVNEWKQVHPE-DHKLNKYHDWLWENHE 150 (161)
T ss_dssp --------------CSSGGGSTTCCHHHHHHHHHHTSSCGGGCCCC-SHHHHHHHHHHHHTC-
T ss_pred --------------hhhhhcCCCchHHHHHHHHHHHCCCCCCCCCC-cHHHHHHHHHHHcCcc
Confidence 4678999999999999999999996 467888 9999999999986544
No 20
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=90.23 E-value=0.23 Score=45.83 Aligned_cols=30 Identities=23% Similarity=0.416 Sum_probs=27.3
Q ss_pred hHHHHHHHhcCCCCCHHHHHHHHHHhCCCC
Q 039604 243 DKSLFTMLTMVNGIGSWSVHMFMIFSLHRP 272 (373)
Q Consensus 243 ~ee~~~~L~sLpGIGpwTA~~vLLf~lgrp 272 (373)
.+++++.|..|||||+|||.-+.++-+.++
T Consensus 21 l~~LI~~l~~LPGIG~KsA~RlA~hLL~~~ 50 (212)
T 3vdp_A 21 VAKLIEELSKLPGIGPKTAQRLAFFIINMP 50 (212)
T ss_dssp HHHHHHHHHTSTTCCHHHHHHHHHHHTTSC
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHcCC
Confidence 578999999999999999999999888765
No 21
>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=89.31 E-value=0.29 Score=45.55 Aligned_cols=30 Identities=27% Similarity=0.351 Sum_probs=27.0
Q ss_pred hHHHHHHHhcCCCCCHHHHHHHHHHhCCCC
Q 039604 243 DKSLFTMLTMVNGIGSWSVHMFMIFSLHRP 272 (373)
Q Consensus 243 ~ee~~~~L~sLpGIGpwTA~~vLLf~lgrp 272 (373)
.+++++.|..|||||+|||.-+.++-+.+.
T Consensus 7 l~~LI~~l~~LPGIG~KSA~RlA~hLL~~~ 36 (228)
T 1vdd_A 7 LVSLIRELSRLPGIGPKSAQRLAFHLFEQP 36 (228)
T ss_dssp HHHHHHHHHTSTTCCHHHHHHHHHHHSSSC
T ss_pred HHHHHHHHhHCCCCCHHHHHHHHHHHHcCC
Confidence 378899999999999999999999888765
No 22
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=86.91 E-value=1.4 Score=46.25 Aligned_cols=44 Identities=16% Similarity=0.058 Sum_probs=32.4
Q ss_pred CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHh
Q 039604 234 SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLY 290 (373)
Q Consensus 234 ~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rly 290 (373)
+++.|.+.+. +.|.+|+|||+.+|+.+.-|- .|-+.+..+.+|.
T Consensus 534 sl~~l~~a~~----e~l~~i~giG~~~A~si~~ff---------~~~~n~~~i~~L~ 577 (586)
T 4glx_A 534 TLEALEAASI----EELQKVPDVGIVVASHVHNFF---------AEESNRNVISELL 577 (586)
T ss_dssp SHHHHHHCCH----HHHTTSTTCCHHHHHHHHHHH---------HSHHHHHHHHHHH
T ss_pred CHHHHHccCH----HHHhcCCCccHHHHHHHHHHH---------cCHHHHHHHHHHH
Confidence 4555555543 578999999999999998762 1677778888774
No 23
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=86.19 E-value=0.27 Score=49.98 Aligned_cols=76 Identities=20% Similarity=0.359 Sum_probs=34.2
Q ss_pred HHHHhCCCCCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHHHHc--------------C-------CCCchhhhCC--
Q 039604 185 FIALCGGEAGVVPETVLALTPQQLRQIGVSGRKASYLHDLARKYQN--------------G-------ILSDSAIVNM-- 241 (373)
Q Consensus 185 L~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~i~~--------------G-------~l~L~~L~~~-- 241 (373)
|..+|| +...+..++.++|+.+|||..|...|+.+-+.+.+ | .++.++|...
T Consensus 534 lkr~yg-----s~savr~~pv~elrelg~sd~~ia~ikgip~~~~~~~~~e~a~~l~er~~~~~~~~~~~~~~~l~~~g~ 608 (685)
T 4gfj_A 534 LKRKYG-----SASAVRRLPVEELRELGFSDDEIAEIKGIPKKLREAFDLETAAELYERYGSLKEIGRRLSYDDLLELGA 608 (685)
T ss_dssp HHHHSS-----CHHHHHHSCHHHHHTTSCCHHHHHHHHTCCHHHHHHSCHHHHHHHHHHHSSSTGGGGSCGGGCCSSSCC
T ss_pred HHHhhc-----cHHHHHhccHHHHHHcCCchhhHHHhcCCcHHHHhhcCHHHHHHHHHHhccHHHHhhcCCHHHHhccCC
Confidence 455666 67888999999999999999999988765444322 1 1222222111
Q ss_pred -------ChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 242 -------DDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 242 -------~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
=.+..++.|+.++||||+.|+-++
T Consensus 609 ~~~~~~eik~p~~k~ll~~~gv~p~la~r~~ 639 (685)
T 4gfj_A 609 TPKAAAEIKGPEFKFLLNIEGVGPKLAERIL 639 (685)
T ss_dssp GGGC---------------------------
T ss_pred CHHHHHHhcChhHHHhhcccCCCHHHHHHHH
Confidence 112347899999999999999876
No 24
>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=85.48 E-value=0.65 Score=39.93 Aligned_cols=49 Identities=10% Similarity=0.073 Sum_probs=37.8
Q ss_pred HhcCChHHHHhc-CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 200 VLALTPQQLRQI-GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 200 La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
|-.++.++|+.+ |+...||+.|. .+|... -.++|..++|||+++-+.+-
T Consensus 57 iNtA~~~eL~~LpGiGp~~A~~II------~~GpF~-----------svedL~~V~GIg~k~~e~l~ 106 (134)
T 1s5l_U 57 LNNTNIAAFIQYRGLYPTLAKLIV------KNAPYE-----------SVEDVLNIPGLTERQKQILR 106 (134)
T ss_dssp TTTSCGGGGGGSTTCTHHHHHHHH------HTCCCS-----------SGGGGGGCTTCCHHHHHHHH
T ss_pred CcccCHHHHHHCCCCCHHHHHHHH------HcCCCC-----------CHHHHHhCCCCCHHHHHHHH
Confidence 456778888876 88889998887 466643 15789999999999877764
No 25
>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=81.86 E-value=2.2 Score=39.16 Aligned_cols=25 Identities=24% Similarity=0.310 Sum_probs=20.4
Q ss_pred HHHHhcCCCCCHHHHHHHHHHhCCC
Q 039604 247 FTMLTMVNGIGSWSVHMFMIFSLHR 271 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf~lgr 271 (373)
.+.|+.+||||+|||+-+.+---++
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 4889999999999999997644344
No 26
>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=81.17 E-value=3.8 Score=39.81 Aligned_cols=19 Identities=16% Similarity=0.499 Sum_probs=11.6
Q ss_pred HHHHHhcCCCCCHHHHHHH
Q 039604 246 LFTMLTMVNGIGSWSVHMF 264 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~v 264 (373)
+++.|++|+||||+||.-+
T Consensus 94 ~l~ll~~v~GiG~k~a~~l 112 (335)
T 2bcq_A 94 VLELFSNIWGAGTKTAQMW 112 (335)
T ss_dssp HHHHHHTSTTCCHHHHHHH
T ss_pred HHHHHhcCCCcCHHHHHHH
Confidence 4555556666666666654
No 27
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=80.56 E-value=1.4 Score=43.30 Aligned_cols=51 Identities=10% Similarity=0.176 Sum_probs=33.7
Q ss_pred CCChhHHHHHHHHHHHHHcCCCC-chhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 212 GVSGRKASYLHDLARKYQNGILS-DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 212 Gls~~KA~yI~~lA~~i~~G~l~-L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
|+...-|+.|.. .+..|.+. ++.|..-.....+..|++|+|||++||..+-
T Consensus 68 GIG~~~A~kI~E---~l~tG~~~~le~L~~d~~~~~l~~l~~I~GvG~kta~~l~ 119 (360)
T 2ihm_A 68 YFGEHSTRVIQE---LLEHGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWY 119 (360)
T ss_dssp TCCHHHHHHHHH---HHHHSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred CCCHHHHHHHHH---HHHcCChHHHHHHhcccchHHHHHHhCCCCCCHHHHHHHH
Confidence 343444554444 44468763 4445443556678899999999999999774
No 28
>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=79.35 E-value=4.7 Score=42.93 Aligned_cols=44 Identities=16% Similarity=0.146 Sum_probs=30.8
Q ss_pred CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHh
Q 039604 234 SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLY 290 (373)
Q Consensus 234 ~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rly 290 (373)
+++.|.+.+. +.|.+++|||+++|+-+.-|- + +-+.+..+.+|.
T Consensus 529 sl~~l~~As~----eeL~~I~GIG~~~A~sI~~ff-~--------~~~~~~~i~~L~ 572 (667)
T 1dgs_A 529 TMDRLLEASL----EELIEVEEVGELTARAILETL-K--------DPAFRDLVRRLK 572 (667)
T ss_dssp BHHHHTTCCH----HHHHTSTTCCHHHHHHHHHHH-H--------CHHHHHHHHHHH
T ss_pred CHHHHHhCCH----HHHHhccCcCHHHHHHHHHHH-h--------hHHHHHHHHHHH
Confidence 3555655553 578899999999999998662 1 455666776663
No 29
>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=79.01 E-value=1.3 Score=40.76 Aligned_cols=25 Identities=24% Similarity=0.420 Sum_probs=21.9
Q ss_pred ChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 242 DDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 242 ~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
+..+++..|.+++||||++|..++-
T Consensus 82 ~Er~lf~~L~sv~GIGpk~A~~Ils 106 (212)
T 2ztd_A 82 ETRDLFLTLLSVSGVGPRLAMAALA 106 (212)
T ss_dssp HHHHHHHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHHHHhcCcCCcCHHHHHHHHH
Confidence 4567889999999999999999984
No 30
>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=77.86 E-value=1.9 Score=42.01 Aligned_cols=51 Identities=29% Similarity=0.377 Sum_probs=33.3
Q ss_pred CCChhHHHHHHHHHHHHHcCCCC-chhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 212 GVSGRKASYLHDLARKYQNGILS-DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 212 Gls~~KA~yI~~lA~~i~~G~l~-L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
|+...-|+.|.. .+..|.+. ++.|..-.....+..|++|+||||+||..+-
T Consensus 64 GIG~~~A~kI~E---~l~tG~~~~le~l~~~~~~~~l~~l~~V~GiGpk~a~~l~ 115 (335)
T 2fmp_A 64 GVGTKIAEKIDE---FLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFV 115 (335)
T ss_dssp TCCHHHHHHHHH---HHHHSSCHHHHHHHHCHHHHHHHHHTTSTTCCHHHHHHHH
T ss_pred CCcHHHHHHHHH---HHHhCCcHHHHHHHcccchhHHHHHhCCCCCCHHHHHHHH
Confidence 443444544444 44467763 4444444335678999999999999999774
No 31
>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=77.83 E-value=3.7 Score=36.95 Aligned_cols=25 Identities=16% Similarity=0.187 Sum_probs=20.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHHhCCC
Q 039604 247 FTMLTMVNGIGSWSVHMFMIFSLHR 271 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf~lgr 271 (373)
.+.|+.+||||++||+-+...--++
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 4789999999999999997643333
No 32
>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=77.14 E-value=2 Score=31.64 Aligned_cols=29 Identities=17% Similarity=0.152 Sum_probs=21.5
Q ss_pred chhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 235 DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 235 L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
++.+...+ .+.|..++|||+++|..+..+
T Consensus 37 ~~~l~~a~----~~~L~~i~Gig~~~a~~i~~~ 65 (75)
T 1x2i_A 37 VERVFTAS----VAELMKVEGIGEKIAKEIRRV 65 (75)
T ss_dssp HHHHHHCC----HHHHTTSTTCCHHHHHHHHHH
T ss_pred HHHHHhCC----HHHHhcCCCCCHHHHHHHHHH
Confidence 45555554 467899999999999988754
No 33
>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=76.28 E-value=4.4 Score=36.75 Aligned_cols=21 Identities=19% Similarity=0.313 Sum_probs=18.5
Q ss_pred HHHHhcCCCCCHHHHHHHHHH
Q 039604 247 FTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf 267 (373)
.+.|+.+||||++||+-+.+.
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 478999999999999988754
No 34
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=76.22 E-value=1.5 Score=32.94 Aligned_cols=21 Identities=19% Similarity=0.162 Sum_probs=18.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHH
Q 039604 247 FTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf 267 (373)
...|.+|||||+++|..++-.
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 467899999999999998863
No 35
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=75.30 E-value=2.9 Score=32.31 Aligned_cols=30 Identities=10% Similarity=0.170 Sum_probs=22.4
Q ss_pred chhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 235 DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 235 L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
++.+.+.+. +.|..++|||+++|..+..+-
T Consensus 42 l~~l~~a~~----~eL~~i~GIG~~~a~~I~~~l 71 (89)
T 1z00_A 42 LEQLIAASR----EDLALCPGLGPQKARRLFDVL 71 (89)
T ss_dssp HHHHHHCCH----HHHHTSTTCCHHHHHHHHHHH
T ss_pred HHHHHhCCH----HHHHhCCCCCHHHHHHHHHHH
Confidence 455555553 568999999999999887653
No 36
>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=75.08 E-value=2.2 Score=42.25 Aligned_cols=44 Identities=20% Similarity=0.296 Sum_probs=31.2
Q ss_pred HHHHHHHHcCCCC-chhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 222 HDLARKYQNGILS-DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 222 ~~lA~~i~~G~l~-L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
..+.+.+..|.+. ++.|..-.....+..|++|+|||++||..+-
T Consensus 94 ~kI~E~l~tG~~~~le~l~~d~~~~~l~~l~~I~GvGpk~a~~ly 138 (381)
T 1jms_A 94 SIIEGIIEDGESSEAKAVLNDERYKSFKLFTSVFGVGLKTAEKWF 138 (381)
T ss_dssp HHHHHHHHHSSCHHHHHHHHCHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred HHHHHHHHcCCcHHHHHHhcCcchhHHHHHHccCCCCHHHHHHHH
Confidence 3344455568763 4455544556778899999999999999774
No 37
>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=74.98 E-value=7 Score=30.86 Aligned_cols=59 Identities=19% Similarity=0.253 Sum_probs=37.2
Q ss_pred HHHHhcCChHHHHhc-CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 197 PETVLALTPQQLRQI-GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 197 Pe~La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
+-+|-.++.++|..+ |+....|+.|.+.-. ..|.+. + .+.|..++|||+++++.+.-.+
T Consensus 31 ~i~iN~a~~~~L~~ipGIG~~~A~~Il~~r~--~~g~f~-------s----~edL~~v~Gig~k~~~~l~~~g 90 (98)
T 2edu_A 31 LDLLNEGSARDLRSLQRIGPKKAQLIVGWRE--LHGPFS-------Q----VEDLERVEGITGKQMESFLKAN 90 (98)
T ss_dssp HHHHHHSCHHHHHHSTTCCHHHHHHHHHHHH--HHCCCS-------S----GGGGGGSTTCCHHHHHHHHHHH
T ss_pred CeehhhCCHHHHHHCCCCCHHHHHHHHHHHH--hcCCcC-------C----HHHHHhCCCCCHHHHHHHHHCc
Confidence 345556677777764 676666666655421 135441 1 2448999999999999886544
No 38
>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=74.59 E-value=3.3 Score=40.28 Aligned_cols=91 Identities=11% Similarity=0.100 Sum_probs=54.9
Q ss_pred cCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHH---HHHh-CCCCCccCCCCHHHHHHH
Q 039604 211 IGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMF---MIFS-LHRPDVLPINDLGVRKGV 286 (373)
Q Consensus 211 ~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~v---LLf~-lgrpDvfPv~D~~VrR~l 286 (373)
.|- ++|+..-+++|..+..-..++.. .+.|..|||||+.+|+.| +--| +...+-+- ..+-+...+
T Consensus 30 ~g~-~~r~~AYr~Aa~~l~~l~~~i~~---------~~~l~~lpGIG~~~A~kI~E~l~tG~~~~le~l~-~~~p~l~ll 98 (335)
T 2bcq_A 30 QGD-KWRALGYAKAINALKSFHKPVTS---------YQEACSIPGIGKRMAEKIIEILESGHLRKLDHIS-ESVPVLELF 98 (335)
T ss_dssp TTC-HHHHHHHHHHHHHHHSCCSCCCC---------HHHHHTSTTCCHHHHHHHHHHHHSSSCGGGGGCC-TTHHHHHHH
T ss_pred cCc-cHhHHHHHHHHHHHHhCCccccC---------HHHHhcCCCccHHHHHHHHHHHHcCCchHHHHHh-hhhHHHHHH
Confidence 344 48999999999999874444321 235999999999999765 3322 22222221 134455555
Q ss_pred HHHhcCCCCCCHHHHHHHHhhcCCchHHHHHH
Q 039604 287 QLLYSLEELPRPSQMDQLCEKWRPYRSVASWY 318 (373)
Q Consensus 287 ~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~y 318 (373)
.+.+|+. ++.++++.+. .++++..+.
T Consensus 99 ~~v~GiG----~k~a~~l~~~--Gi~tledL~ 124 (335)
T 2bcq_A 99 SNIWGAG----TKTAQMWYQQ--GFRSLEDIR 124 (335)
T ss_dssp HTSTTCC----HHHHHHHHHT--TCCSHHHHH
T ss_pred hcCCCcC----HHHHHHHHHc--CCCCHHHHH
Confidence 5555543 4566666664 566665543
No 39
>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=74.29 E-value=2.1 Score=38.60 Aligned_cols=27 Identities=22% Similarity=0.447 Sum_probs=22.2
Q ss_pred CCChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 240 NMDDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 240 ~~~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
+....+++..|.+++||||++|..+|-
T Consensus 64 ~~~ek~~f~~L~~v~GIGpk~A~~iL~ 90 (191)
T 1ixr_A 64 DEENLALFELLLSVSGVGPKVALALLS 90 (191)
T ss_dssp SHHHHHHHHHHHSSSCCCHHHHHHHHH
T ss_pred CHHHHHHHHHHhcCCCcCHHHHHHHHH
Confidence 334556778999999999999999984
No 40
>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=73.52 E-value=16 Score=32.84 Aligned_cols=89 Identities=12% Similarity=0.020 Sum_probs=65.1
Q ss_pred ChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHHHh----cC--
Q 039604 139 DRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQLRQ----IG-- 212 (373)
Q Consensus 139 Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeLr~----~G-- 212 (373)
||.+..--+.-=|.+.....-.||.|+-.+...-+||..+.+=...|.++|-+ .+|+.|+..+++++.. -|
T Consensus 10 ~ply~~YHD~EWG~P~~Dd~~LFE~L~Le~fQAGLSW~tIL~KRe~fr~AF~~---Fd~~~VA~~~e~~ve~Ll~d~~II 86 (183)
T 2ofk_A 10 DPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRACFHQ---FDPIRIAAMQEEDVERLLQNTGII 86 (183)
T ss_dssp CHHHHHHHHHTTTCCCCCHHHHHHHHHHHHHTTTSCHHHHHHTHHHHHHHTGG---GCHHHHHTCCHHHHHHHTTCTTSC
T ss_pred ChHHHHHHHhccCCcccCcHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHcC---CCHHHHcCCCHHHHHHHhcCCcch
Confidence 44443333322233333455699999999999999999999989999999864 5899999999988753 34
Q ss_pred CChhHHHHHHHHHHHHHc
Q 039604 213 VSGRKASYLHDLARKYQN 230 (373)
Q Consensus 213 ls~~KA~yI~~lA~~i~~ 230 (373)
-++.|.+.+.+=|+++.+
T Consensus 87 Rnr~KI~A~i~NA~~~l~ 104 (183)
T 2ofk_A 87 RHRGKIQAIISNARAWLA 104 (183)
T ss_dssp CCHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 456788888887877763
No 41
>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=73.08 E-value=6.2 Score=40.82 Aligned_cols=67 Identities=13% Similarity=0.148 Sum_probs=37.9
Q ss_pred HHHHhcCChHHHHhc-CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 197 PETVLALTPQQLRQI-GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 197 Pe~La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
.+.+.....+.+..+ |+...=+.+|.. .+.+|.+.+-........+.+..|++++||||++|..++-
T Consensus 44 i~~~~~~~~~~~~~lp~iG~~~~~~i~~---~v~~g~~~l~~~~~~~~~~~~~~l~~v~GvGpk~A~~~~~ 111 (575)
T 3b0x_A 44 IEEIAEKGKEALMELPGVGPDLAEKILE---FLRTGKVRKHEELSRKVPRGVLEVMEVPGVGPKTARLLYE 111 (575)
T ss_dssp HHHHHTTCHHHHHTSTTCCHHHHHHHHH---HHHHSSCHHHHHHHHHSCHHHHHHHTSTTTCHHHHHHHHH
T ss_pred hhhHhhcchhHHHhCCCCCHHHHHHHHH---HHHcCcHHHHhhhhhhhHHHHHHHhcCCCcCHHHHHHHHH
Confidence 344444332225544 443333444443 4456776543222222335789999999999999998864
No 42
>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=72.74 E-value=3 Score=32.47 Aligned_cols=29 Identities=10% Similarity=0.200 Sum_probs=22.3
Q ss_pred chhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 235 DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 235 L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
++.+.+.+. +.|..++|||+++|..++.+
T Consensus 55 ~~~l~~as~----~eL~~i~GIG~~~a~~I~~~ 83 (91)
T 2a1j_B 55 LEQLIAASR----EDLALCPGLGPQKARRLFDV 83 (91)
T ss_dssp HHHHHSCCH----HHHHTSSSCCSHHHHHHHHH
T ss_pred HHHHHhCCH----HHHHhCCCCCHHHHHHHHHH
Confidence 555666654 56899999999999988765
No 43
>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=71.65 E-value=2.3 Score=31.29 Aligned_cols=24 Identities=13% Similarity=0.216 Sum_probs=19.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHHhCCC
Q 039604 247 FTMLTMVNGIGSWSVHMFMIFSLHR 271 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf~lgr 271 (373)
...|..|||||++.+..+|- .||-
T Consensus 3 ~s~L~~IpGIG~kr~~~LL~-~Fgs 26 (63)
T 2a1j_A 3 QDFLLKMPGVNAKNCRSLMH-HVKN 26 (63)
T ss_dssp CHHHHTSTTCCHHHHHHHHH-HCSS
T ss_pred HhHHHcCCCCCHHHHHHHHH-HcCC
Confidence 36789999999999999874 4543
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=70.83 E-value=3.2 Score=32.54 Aligned_cols=26 Identities=12% Similarity=0.164 Sum_probs=21.6
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHhCC
Q 039604 244 KSLFTMLTMVNGIGSWSVHMFMIFSLH 270 (373)
Q Consensus 244 ee~~~~L~sLpGIGpwTA~~vLLf~lg 270 (373)
......|..|||||++....+|- .||
T Consensus 14 ~~~~s~L~~IpGIG~kr~~~LL~-~Fg 39 (84)
T 1z00_B 14 PGPQDFLLKMPGVNAKNCRSLMH-HVK 39 (84)
T ss_dssp HHHHHHHHTCSSCCHHHHHHHHH-HSS
T ss_pred ccHHHHHHhCCCCCHHHHHHHHH-HcC
Confidence 45689999999999999999874 354
No 45
>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=70.81 E-value=5.6 Score=29.20 Aligned_cols=38 Identities=18% Similarity=0.211 Sum_probs=30.4
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhcCCChhH-HHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQIGVSGRK-ASYLHDLA 225 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~K-A~yI~~lA 225 (373)
..+|..+|| +.+.|.+++.|+|..+ ++..+ |+.|++..
T Consensus 17 ~~~LL~~Fg-----s~~~i~~As~eeL~~v-ig~~~~A~~I~~~l 55 (63)
T 2a1j_A 17 CRSLMHHVK-----NIAELAALSQDELTSI-LGNAANAKQLYDFI 55 (63)
T ss_dssp HHHHHHHCS-----SHHHHHTCCHHHHHHH-HSCHHHHHHHHHHH
T ss_pred HHHHHHHcC-----CHHHHHHCCHHHHHHH-cCchHHHHHHHHHH
Confidence 456777888 6999999999999988 76777 88886543
No 46
>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=70.78 E-value=2.5 Score=31.90 Aligned_cols=29 Identities=14% Similarity=0.069 Sum_probs=21.9
Q ss_pred chhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 235 DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 235 L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
++.+.+.+ .+.|..++|||+++|..+..+
T Consensus 47 l~~l~~a~----~eeL~~i~GIG~~~a~~I~~~ 75 (78)
T 1kft_A 47 LQGLRNAS----VEEIAKVPGISQGLAEKIFWS 75 (78)
T ss_dssp HHHHHHCC----HHHHTTSSSTTSHHHHHHHHH
T ss_pred HHHHHHCC----HHHHHHCCCCCHHHHHHHHHH
Confidence 55565554 357899999999999988754
No 47
>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=70.68 E-value=2.7 Score=38.12 Aligned_cols=25 Identities=24% Similarity=0.445 Sum_probs=21.1
Q ss_pred ChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 242 DDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 242 ~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
...+++..|.+++||||++|..+|-
T Consensus 67 ~ek~~f~~L~~V~GIGpk~A~~iL~ 91 (203)
T 1cuk_A 67 QERTLFKELIKTNGVGPKLALAILS 91 (203)
T ss_dssp HHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCcCHHHHHHHHh
Confidence 3456678899999999999999985
No 48
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=70.15 E-value=1.7 Score=45.14 Aligned_cols=44 Identities=16% Similarity=0.158 Sum_probs=29.4
Q ss_pred HHHHHHHcCCCCch-hhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 223 DLARKYQNGILSDS-AIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 223 ~lA~~i~~G~l~L~-~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
.+...+.+|.+.+- ++..-. .+.+..|++++||||++|..++--
T Consensus 72 ~i~~~v~~g~~~~~~~~~~~~-~~~~~~L~~v~GVGpk~A~~i~~~ 116 (578)
T 2w9m_A 72 ELSDFARSGTFAPLEAAAGQL-PPGLLDLLGVRGLGPKKIRSLWLA 116 (578)
T ss_dssp HHHHHHHHSSCHHHHHHHHHS-CHHHHHHTTSTTCCHHHHHHHHHT
T ss_pred HHHHHHcCChHHHHHHHhhhh-HHHHHHHhCCCCcCHHHHHHHHHc
Confidence 44455556766432 232222 346788999999999999998753
No 49
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=70.03 E-value=3 Score=31.28 Aligned_cols=52 Identities=17% Similarity=0.188 Sum_probs=34.7
Q ss_pred HHHHhcCChHHHHhc-CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 197 PETVLALTPQQLRQI-GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 197 Pe~La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
+-++-.++.++|..+ |+...+|+.|.+. . .. .-.++|..++|||+++++-+.
T Consensus 18 ~idiN~a~~~~L~~ipGIG~~~A~~Il~~-------r-~~---------~s~~eL~~v~Gig~k~~~~i~ 70 (75)
T 2duy_A 18 PVSLNEASLEELMALPGIGPVLARRIVEG-------R-PY---------ARVEDLLKVKGIGPATLERLR 70 (75)
T ss_dssp SEETTTCCHHHHTTSTTCCHHHHHHHHHT-------C-CC---------SSGGGGGGSTTCCHHHHHHHG
T ss_pred ccChhhCCHHHHHhCCCCCHHHHHHHHHH-------c-cc---------CCHHHHHhCCCCCHHHHHHHH
Confidence 345566778888775 7766666655442 1 11 114678899999999998774
No 50
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=69.69 E-value=17 Score=38.68 Aligned_cols=43 Identities=16% Similarity=0.093 Sum_probs=30.6
Q ss_pred CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHH
Q 039604 234 SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLL 289 (373)
Q Consensus 234 ~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rl 289 (373)
+++.|.+.+ .++|.+++|||+.+|+.+.-|- + +-+.+..+.+|
T Consensus 534 sl~~l~~As----~eeL~~i~GIG~~~A~sI~~ff-~--------~~~~~~~i~~L 576 (671)
T 2owo_A 534 TLEALEAAS----IEELQKVPDVGIVVASHVHNFF-A--------EESNRNVISEL 576 (671)
T ss_dssp SHHHHHTCC----HHHHTTSTTCCHHHHHHHHHHH-T--------CHHHHHHHHHH
T ss_pred CHHHHHhCC----HHHHhhcCCCCHHHHHHHHHHH-H--------hHHHHHHHHHH
Confidence 355565555 3679999999999999997652 2 45666667666
No 51
>2jg6_A DNA-3-methyladenine glycosidase; 3-methyladenine-DNA-glycosylase-I, hydrolase; 1.70A {Staphylococcus aureus} PDB: 4aia_A* 4ai5_A* 4ai4_A
Probab=69.31 E-value=19 Score=32.33 Aligned_cols=89 Identities=15% Similarity=0.055 Sum_probs=64.2
Q ss_pred hChHHHHHHHhCCCCCcCCCCCHHHHHHHHHHhhccCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHHHh----cC-
Q 039604 138 ADRQLASLIDIHPPPTFDSFHTPFLALTRSILYQQLAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQLRQ----IG- 212 (373)
Q Consensus 138 ~Dp~La~li~~~gg~r~~~~~dpfE~LV~aILsQQ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeLr~----~G- 212 (373)
.||.+..--+.-=|.+.....-.||.|+-.+...-+||..+.+=.+.|.++|-+ .+|+.|+..+++++.. -|
T Consensus 9 ~~ply~~YHD~EWG~Pv~Dd~~LFE~L~LEgfQAGLSW~tIL~KRe~fR~AF~~---FD~~~VA~~~e~dve~Ll~d~gI 85 (186)
T 2jg6_A 9 KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAFYD---FEPEKVAQMTAQDIDRLMTFPNI 85 (186)
T ss_dssp CCHHHHHHHHHTTTSCCCCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHTGG---GCHHHHTTCCHHHHHHHTTCTTS
T ss_pred CChHHHHHHHhccCCcccCcHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHcC---CCHHHHhCCCHHHHHHHhcCccc
Confidence 345443333322233333455699999999998899999999999999999864 5899999999988753 34
Q ss_pred -CChhHHHHHHHHHHHHH
Q 039604 213 -VSGRKASYLHDLARKYQ 229 (373)
Q Consensus 213 -ls~~KA~yI~~lA~~i~ 229 (373)
-++.|.+.+.+=|+++.
T Consensus 86 IRnr~KI~A~i~NA~~~l 103 (186)
T 2jg6_A 86 VHHRKKLEAIVNQAQGYL 103 (186)
T ss_dssp CCCHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHH
Confidence 35678777777777775
No 52
>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix-H helix, HHH motif, three helix bundle, methanopyrus kandleri isomerase; 2.30A {Methanopyrus kandleri} SCOP: a.60.2.4 a.60.2.4 a.60.2.4 a.60.2.4 a.267.1.1 PDB: 2csd_A
Probab=68.87 E-value=6 Score=38.04 Aligned_cols=51 Identities=24% Similarity=0.408 Sum_probs=35.3
Q ss_pred HHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCC
Q 039604 221 LHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPD 273 (373)
Q Consensus 221 I~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpD 273 (373)
|..+-+++.+|.++.+..+.. .+--..+|+.-.|||++||+-.| ++||.|+
T Consensus 385 leeiermyeegrlseeayraa-veiqlaeltkkegvgrktaerll-rafgnpe 435 (519)
T 2csb_A 385 LEEIERMYEEGRLSEEAYRAA-VEIQLAELTKKEGVGRKTAERLL-RAFGNPE 435 (519)
T ss_dssp HHHHHHHHHHTSSCHHHHHHH-HHHHHHHHHTSTTCCHHHHHHHH-HHHSSHH
T ss_pred HHHHHHHHHcccccHHHHHHH-HHHHHHHHhhhcccchhHHHHHH-HHhCCHH
Confidence 445556666788776544332 22335789999999999999864 7888764
No 53
>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=67.49 E-value=4.4 Score=32.70 Aligned_cols=51 Identities=10% Similarity=0.046 Sum_probs=38.1
Q ss_pred HHhcCChHHHHhc-CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 199 TVLALTPQQLRQI-GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 199 ~La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
+|-.++.++|+.+ |+...+|+.|.. .|.+. -++.|..++|||+++.+-+.-
T Consensus 19 diNtAs~~eL~~lpGIG~~~A~~IV~------~GpF~-----------s~edL~~V~Gig~~~~e~l~~ 70 (97)
T 3arc_U 19 DLNNTNIAAFIQYRGLYPTLAKLIVK------NAPYE-----------SVEDVLNIPGLTERQKQILRE 70 (97)
T ss_dssp ETTTSCGGGGGGSTTCTTHHHHHHHH------HCCCS-----------SGGGGGGCTTCCHHHHHHHHH
T ss_pred eCCcCCHHHHhHCCCCCHHHHHHHHH------cCCCC-----------CHHHHHhccCCCHHHHHHHHH
Confidence 4456778888764 777788888876 46542 157889999999999888764
No 54
>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=67.39 E-value=6.9 Score=38.69 Aligned_cols=93 Identities=5% Similarity=-0.040 Sum_probs=55.2
Q ss_pred cCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH-hCCCCCccCCCCH---HHHHHH
Q 039604 211 IGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF-SLHRPDVLPINDL---GVRKGV 286 (373)
Q Consensus 211 ~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf-~lgrpDvfPv~D~---~VrR~l 286 (373)
-| ..+|+..-+++|..+..-..++..+ +.|..|||||+.+|+.|-=+ .-|+...+ .++ -+-+++
T Consensus 53 ~g-~~~rv~AYr~Aa~~l~~l~~~i~~~---------~~l~~lpGIG~~ia~kI~E~l~tG~~~~l--e~l~~d~~~~~l 120 (381)
T 1jms_A 53 RE-NEGSCLAFMRASSVLKSLPFPITSM---------KDTEGIPCLGDKVKSIIEGIIEDGESSEA--KAVLNDERYKSF 120 (381)
T ss_dssp TT-CHHHHHHHHHHHHHHHTCSSCCCSG---------GGGTTCSSCCHHHHHHHHHHHHHSSCHHH--HHHHHCHHHHHH
T ss_pred hC-CcHHHHHHHHHHHHHHhCCccccCH---------HHHhcCCCCcHHHHHHHHHHHHcCCcHHH--HHHhcCcchhHH
Confidence 45 6789999999999998644443322 23999999999999988743 34443211 011 222334
Q ss_pred HHHhcCCCCCCHHHHHHHHhhcCCchHHHHHH
Q 039604 287 QLLYSLEELPRPSQMDQLCEKWRPYRSVASWY 318 (373)
Q Consensus 287 ~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~y 318 (373)
..++.+.. ..++.++++.+. .++++..+.
T Consensus 121 ~~l~~I~G-vGpk~a~~ly~~--Gi~tledL~ 149 (381)
T 1jms_A 121 KLFTSVFG-VGLKTAEKWFRM--GFRTLSKIQ 149 (381)
T ss_dssp HHHHTSTT-CCHHHHHHHHHT--TCCSHHHHH
T ss_pred HHHHccCC-CCHHHHHHHHHc--CCCcHHHHH
Confidence 44443322 345666666554 566665443
No 55
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=67.06 E-value=6.6 Score=38.49 Aligned_cols=93 Identities=6% Similarity=0.016 Sum_probs=56.8
Q ss_pred cCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH-hCCCCCccCCCCH---HHHHHH
Q 039604 211 IGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF-SLHRPDVLPINDL---GVRKGV 286 (373)
Q Consensus 211 ~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf-~lgrpDvfPv~D~---~VrR~l 286 (373)
-| ..+|+..-+++|..+.+-..++.. + +.|..|||||+.+|+.|.=+ .-|....+ .++ -+.+++
T Consensus 34 ~g-~~~r~~AYr~Aa~~l~~l~~~i~~---~------~~l~~lpGIG~~~A~kI~E~l~tG~~~~l--e~L~~d~~~~~l 101 (360)
T 2ihm_A 34 EA-NEGRLLSFSRAASVLKSLPCPVAS---L------SQLHGLPYFGEHSTRVIQELLEHGTCEEV--KQVRCSERYQTM 101 (360)
T ss_dssp TT-CHHHHHHHHHHHHHHHHCSSCCCS---G------GGGTTCTTCCHHHHHHHHHHHHHSCCHHH--HHHHHSHHHHHH
T ss_pred cC-CcHHHHHHHHHHHHHHhCCcccCC---H------HHHhcCCCCCHHHHHHHHHHHHcCChHHH--HHHhcccchHHH
Confidence 46 688999999999998864444332 1 23999999999999988733 34444321 122 233344
Q ss_pred HHHhcCCCCCCHHHHHHHHhhcCCchHHHHHH
Q 039604 287 QLLYSLEELPRPSQMDQLCEKWRPYRSVASWY 318 (373)
Q Consensus 287 ~rlygl~~~~~~~e~~~l~e~w~Pyrg~a~~y 318 (373)
..++.+.. ..++.++++.+. .++++..+.
T Consensus 102 ~~l~~I~G-vG~kta~~l~~~--Gi~tledL~ 130 (360)
T 2ihm_A 102 KLFTQVFG-VGVKTANRWYQE--GLRTLDELR 130 (360)
T ss_dssp HHHHTSTT-CCHHHHHHHHHT--TCCSHHHHH
T ss_pred HHHhCCCC-CCHHHHHHHHHc--CCCCHHHHH
Confidence 44444432 345666666554 566665554
No 56
>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=66.27 E-value=6.6 Score=38.08 Aligned_cols=48 Identities=10% Similarity=-0.041 Sum_probs=36.3
Q ss_pred cCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 211 IGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 211 ~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
.|-..+|+..-+++|..+..-..++. . ...|..|||||+.+|+.|.=+
T Consensus 29 ~~~~~~rv~AYr~Aa~~l~~l~~~i~---~------~~~l~~LpGIG~~~A~kI~E~ 76 (335)
T 2fmp_A 29 VSQAIHKYNAYRKAASVIAKYPHKIK---S------GAEAKKLPGVGTKIAEKIDEF 76 (335)
T ss_dssp TTCCHHHHHHHHHHHHHHHHCSSCCC---C------HHHHHTSTTCCHHHHHHHHHH
T ss_pred cCCCcHHHHHHHHHHHHHHhCCcccc---C------HHHHhcCCCCcHHHHHHHHHH
Confidence 56667899999999999886443332 1 235999999999999988743
No 57
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=66.20 E-value=7.1 Score=30.76 Aligned_cols=41 Identities=12% Similarity=0.028 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 216 RKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 216 ~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
.++.....++..+.+-.+.+. + .+++..|+|||+++++.+-
T Consensus 35 k~~~~Y~KA~~sLk~~P~~i~-----s----~~e~~~L~giG~ki~~~L~ 75 (87)
T 2kp7_A 35 HTRFVFQKALRSLQRYPLPLR-----S----GKEAKILQHFGDRLCRMLD 75 (87)
T ss_dssp TTHHHHHHHHHHHHHCCSCCC-----S----HHHHHTCTTTCHHHHHHHH
T ss_pred hHHHHHHHHHHHHHhCCCCCC-----C----HHHHHHhhcccHHHHHHHH
Confidence 446677788888887666543 1 4778999999999998764
No 58
>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=63.02 E-value=15 Score=26.73 Aligned_cols=39 Identities=18% Similarity=0.356 Sum_probs=29.7
Q ss_pred HHHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHH
Q 039604 181 IYTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDL 224 (373)
Q Consensus 181 i~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~l 224 (373)
...+|.+.|| +.+.|..++.++|..+ |+...++..|...
T Consensus 26 ~a~~Ll~~fg-----s~~~l~~a~~~~L~~i~Gig~~~a~~i~~~ 65 (75)
T 1x2i_A 26 LARRLLKHFG-----SVERVFTASVAELMKVEGIGEKIAKEIRRV 65 (75)
T ss_dssp HHHHHHHHHC-----SHHHHHHCCHHHHTTSTTCCHHHHHHHHHH
T ss_pred HHHHHHHHcC-----CHHHHHhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 3455666787 5889999999999876 8877888777654
No 59
>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=62.16 E-value=12 Score=37.28 Aligned_cols=45 Identities=9% Similarity=0.261 Sum_probs=38.1
Q ss_pred HHHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHHHHHHHc
Q 039604 181 IYTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDLARKYQN 230 (373)
Q Consensus 181 i~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~lA~~i~~ 230 (373)
+.++|+++|| +.+.|.+++.++|..+ |+...||+.|++....+..
T Consensus 327 iae~Lv~~FG-----sLq~Il~AS~eEL~~VeGIGe~rAr~IregL~r~~~ 372 (377)
T 3c1y_A 327 IGYNVVRMFK-----TLDQISKASVEDLKKVEGIGEKRARAISESISSLKH 372 (377)
T ss_dssp HHHHHHHHHC-----SHHHHTTCCHHHHTTSTTCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhC-----CHHHHHhCCHHHHHhccCccHHHHHHHHHHHHHHhc
Confidence 4567888888 6999999999999875 7889999999998887763
No 60
>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=59.12 E-value=19 Score=27.05 Aligned_cols=34 Identities=24% Similarity=0.163 Sum_probs=31.0
Q ss_pred CCCHHHHhcCChHHHHh-cCCChhHHHHHHHHHHH
Q 039604 194 GVVPETVLALTPQQLRQ-IGVSGRKASYLHDLARK 227 (373)
Q Consensus 194 ~ptPe~La~l~~eeLr~-~Gls~~KA~yI~~lA~~ 227 (373)
+-|.++|+.++.++|.. .|++..||..|+..|+.
T Consensus 28 i~TvedlA~~~~~eL~~i~gise~kA~~ii~aAr~ 62 (70)
T 1wcn_A 28 VCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN 62 (70)
T ss_dssp CCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHHHHH
T ss_pred CCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHH
Confidence 46899999999999986 79999999999999986
No 61
>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=58.34 E-value=22 Score=27.41 Aligned_cols=38 Identities=24% Similarity=0.357 Sum_probs=28.9
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDL 224 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~l 224 (373)
..+|.+.|| +.+.|..++.++|..+ |+...++..|...
T Consensus 45 A~~Ll~~fg-----s~~~l~~as~~eL~~i~GIG~~~a~~I~~~ 83 (91)
T 2a1j_B 45 SQTLLTTFG-----SLEQLIAASREDLALCPGLGPQKARRLFDV 83 (91)
T ss_dssp HHHHHHHHS-----SHHHHHSCCHHHHHTSSSCCSHHHHHHHHH
T ss_pred HHHHHHHCC-----CHHHHHhCCHHHHHhCCCCCHHHHHHHHHH
Confidence 345666677 5889999999999876 7877888777654
No 62
>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=57.63 E-value=16 Score=27.35 Aligned_cols=38 Identities=11% Similarity=0.119 Sum_probs=29.1
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDL 224 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~l 224 (373)
.++|.+.|| +.+.|..++.++|..+ |+...++..|...
T Consensus 37 A~~Ll~~fg-----sl~~l~~a~~eeL~~i~GIG~~~a~~I~~~ 75 (78)
T 1kft_A 37 RQMLLKYMG-----GLQGLRNASVEEIAKVPGISQGLAEKIFWS 75 (78)
T ss_dssp HHHHHHHHS-----CHHHHHHCCHHHHTTSSSTTSHHHHHHHHH
T ss_pred HHHHHHHcC-----CHHHHHHCCHHHHHHCCCCCHHHHHHHHHH
Confidence 345666677 5889999999999875 7878888877653
No 63
>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=57.18 E-value=6.1 Score=31.20 Aligned_cols=21 Identities=14% Similarity=0.189 Sum_probs=18.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHH
Q 039604 247 FTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf 267 (373)
...|..|||||+.+|..++-.
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 467899999999999998865
No 64
>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=56.84 E-value=25 Score=26.76 Aligned_cols=32 Identities=19% Similarity=0.238 Sum_probs=26.0
Q ss_pred cCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 230 NGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 230 ~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
.|--.+.+|..++. +.|+.++|+|+++.+-+.
T Consensus 27 agI~Tv~dL~~~s~----~dLlki~n~G~kSl~EI~ 58 (73)
T 1z3e_B 27 AGINTVQELANKTE----EDMMKVRNLGRKSLEEVK 58 (73)
T ss_dssp TTCCBHHHHHTSCH----HHHHTSTTCCHHHHHHHH
T ss_pred cCCCcHHHHHcCCH----HHHHHcCCCCHHHHHHHH
Confidence 36667888888874 678999999999988664
No 65
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=55.80 E-value=22 Score=27.13 Aligned_cols=39 Identities=23% Similarity=0.337 Sum_probs=29.5
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDLA 225 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~lA 225 (373)
..+|.+.|| +.+.+..++.++|..+ |+...++..|....
T Consensus 32 A~~Ll~~fg-----sl~~l~~a~~~eL~~i~GIG~~~a~~I~~~l 71 (89)
T 1z00_A 32 SQTLLTTFG-----SLEQLIAASREDLALCPGLGPQKARRLFDVL 71 (89)
T ss_dssp HHHHHHHTC-----BHHHHHHCCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred HHHHHHHCC-----CHHHHHhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 445666777 5889999999999876 78778887776543
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=54.04 E-value=4.6 Score=32.55 Aligned_cols=20 Identities=5% Similarity=0.081 Sum_probs=18.2
Q ss_pred HHHHhcCCCCCHHHHHHHHH
Q 039604 247 FTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLL 266 (373)
.++|..|||||+..|..+.-
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 47899999999999999987
No 67
>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=51.18 E-value=6.1 Score=33.87 Aligned_cols=19 Identities=5% Similarity=0.121 Sum_probs=17.5
Q ss_pred HHHHhcCCCCCHHHHHHHH
Q 039604 247 FTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vL 265 (373)
.++|++||||||..|.-|.
T Consensus 62 ~~eL~~LpGiGp~~A~~II 80 (134)
T 1s5l_U 62 IAAFIQYRGLYPTLAKLIV 80 (134)
T ss_dssp GGGGGGSTTCTHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHHHH
Confidence 4778999999999999998
No 68
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=50.99 E-value=15 Score=28.59 Aligned_cols=38 Identities=18% Similarity=0.211 Sum_probs=30.0
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhcCCChhH-HHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQIGVSGRK-ASYLHDLA 225 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~K-A~yI~~lA 225 (373)
..+|..+|| +.+.|..++.++|..+ ++... |+.|+...
T Consensus 31 ~~~LL~~Fg-----Sl~~i~~AS~eEL~~v-ig~~~~A~~I~~~l 69 (84)
T 1z00_B 31 CRSLMHHVK-----NIAELAALSQDELTSI-LGNAANAKQLYDFI 69 (84)
T ss_dssp HHHHHHHSS-----CHHHHHHSCHHHHHHH-HSCHHHHHHHHHHH
T ss_pred HHHHHHHcC-----CHHHHHHCCHHHHHHH-hCchHHHHHHHHHH
Confidence 456777887 6999999999999987 66666 78776644
No 69
>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=50.92 E-value=12 Score=33.38 Aligned_cols=29 Identities=14% Similarity=0.163 Sum_probs=19.2
Q ss_pred chhhhCCChHHHHHHHhcCCCCCHHHHHHHHHH
Q 039604 235 DSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 235 L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf 267 (373)
+..+.+.+. +.|..++|||+++|+.+.-|
T Consensus 185 ~~~l~~a~~----e~L~~v~GiG~~~a~~i~~~ 213 (219)
T 2bgw_A 185 LERFFTASK----AEISKVEGIGEKRAEEIKKI 213 (219)
T ss_dssp HHHHTTCCH----HHHHHSTTCCHHHHHHHHHH
T ss_pred HHHHHhCCH----HHHhhCCCCCHHHHHHHHHH
Confidence 455555553 45777888888888877644
No 70
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=49.64 E-value=6.9 Score=35.75 Aligned_cols=22 Identities=14% Similarity=0.247 Sum_probs=18.8
Q ss_pred HHHHhcCCCCCHHHHHHHHHHh
Q 039604 247 FTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
.+.|..|||||+++|..|+-+-
T Consensus 131 ~~eL~~LpGIG~k~A~~IIeyR 152 (205)
T 2i5h_A 131 MHQLELLPGVGKKMMWAIIEER 152 (205)
T ss_dssp SBGGGGSTTCCHHHHHHHHHHH
T ss_pred HHHHhcCCCcCHHHHHHHHHHH
Confidence 4678999999999999998653
No 71
>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=45.36 E-value=4.4 Score=37.75 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=0.0
Q ss_pred HHHHhcCCCCCHHHHHHHHHHhCCCCC
Q 039604 247 FTMLTMVNGIGSWSVHMFMIFSLHRPD 273 (373)
Q Consensus 247 ~~~L~sLpGIGpwTA~~vLLf~lgrpD 273 (373)
...|..|+||||++|..++-.+|+-.+
T Consensus 14 ~~~L~~IpGIGpk~a~~Ll~~gf~sve 40 (241)
T 1vq8_Y 14 YTELTDISGVGPSKAESLREAGFESVE 40 (241)
T ss_dssp ---------------------------
T ss_pred hhHHhcCCCCCHHHHHHHHHcCCCCHH
Confidence 456778888888888877765454433
No 72
>3r8n_M 30S ribosomal protein S13; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_M* 3j18_M 3oaq_M 3ofa_M 3ofx_M 3ofo_M 3r8o_M 4a2i_M 4gd1_M 4gd2_M 3i1m_M 1vs7_M* 3e1a_F 3e1c_F 1vs5_M 3i1o_M 3i1q_M 3i1s_M 3i1z_M 3i21_M ...
Probab=44.53 E-value=14 Score=30.65 Aligned_cols=43 Identities=16% Similarity=0.128 Sum_probs=28.2
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCC---HHHHHHHHHH
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPIND---LGVRKGVQLL 289 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D---~~VrR~l~rl 289 (373)
+.-.|+.|+|||+.+|..++-.+-=.++. -++| -.|.++..-+
T Consensus 14 v~~aLt~I~GIG~~~A~~I~~~~gid~~~-r~~~Lt~~ei~~l~~~i 59 (114)
T 3r8n_M 14 AVIALTSIYGVGKTRSKAILAAAGIAEDV-KISELSEGQIDTLRDEV 59 (114)
T ss_dssp HHHHGGGSTTCCHHHHHHHHHHTTCCTTC-CSTTCCHHHHHHHHHHH
T ss_pred eHhhHhhhcCcCHHHHHHHHHHcCcCccc-CcccCCHHHHHHHHHHH
Confidence 56779999999999999998654333332 3333 3455555444
No 73
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L 3u5g_S 1s1h_M 3jyv_M* 2zkq_m
Probab=42.03 E-value=12 Score=32.39 Aligned_cols=28 Identities=14% Similarity=0.150 Sum_probs=21.4
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHhCCCCC
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIFSLHRPD 273 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf~lgrpD 273 (373)
+.-.|+.|+|||+.+|..++-.+-=.++
T Consensus 28 v~~ALt~I~GIG~~~A~~I~~~~gid~~ 55 (146)
T 3u5c_S 28 IVYALTTIKGVGRRYSNLVCKKADVDLH 55 (146)
T ss_dssp TTTTGGGSTTCCHHHHHHHHHHHTCCTT
T ss_pred hHhhHhhhcCCCHHHHHHHHHHcCCCCC
Confidence 3467999999999999999865533343
No 74
>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=41.39 E-value=41 Score=25.27 Aligned_cols=36 Identities=14% Similarity=0.090 Sum_probs=32.3
Q ss_pred CCCHHHHhcCChHHHHh-cCCChhHHHHHHHHHHHHH
Q 039604 194 GVVPETVLALTPQQLRQ-IGVSGRKASYLHDLARKYQ 229 (373)
Q Consensus 194 ~ptPe~La~l~~eeLr~-~Gls~~KA~yI~~lA~~i~ 229 (373)
|-+.+.|+..+.++|-. -||+..|+.-|+.-|+.+.
T Consensus 27 f~tve~vA~~~~~eL~~I~G~dE~~a~~l~~~A~~~l 63 (70)
T 1u9l_A 27 FSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNAL 63 (70)
T ss_dssp CCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHHHH
T ss_pred cCcHHHHHcCCHHHHhhccCCCHHHHHHHHHHHHHHH
Confidence 57899999999999988 5999999999999998765
No 75
>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=39.45 E-value=54 Score=26.92 Aligned_cols=55 Identities=16% Similarity=0.232 Sum_probs=37.6
Q ss_pred ChHHHHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 204 TPQQLRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 204 ~~eeLr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
+.++|..+|+...-+ ..|. ..|--+.+.+...+ .+.|..++|||+-.|+-++-.+
T Consensus 24 ~I~~L~~~GIg~~~i---~kL~---eAG~~Tve~va~a~----~~eL~~i~GIse~ka~kIi~aA 78 (114)
T 1b22_A 24 PISRLEQCGINANDV---KKLE---EAGFHTVEAVAYAP----KKELINIKGISEAKADKILAEA 78 (114)
T ss_dssp CHHHHHHTTCSHHHH---HHHH---TTCCSSGGGBTSSB----HHHHHTTTTCSTTHHHHHHHHH
T ss_pred cHHHHHhcCCCHHHH---HHHH---HcCcCcHHHHHhCC----HHHHHHccCCCHHHHHHHHHHH
Confidence 466788788854332 2222 23666777777765 5789999999999988877544
No 76
>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=39.40 E-value=42 Score=25.97 Aligned_cols=32 Identities=19% Similarity=0.238 Sum_probs=26.3
Q ss_pred cCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 230 NGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 230 ~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
.|--.+.+|..++. +.|+.++|+|+++.+-|.
T Consensus 34 agI~Tv~dL~~~se----~dLlki~n~G~kSl~EI~ 65 (79)
T 3gfk_B 34 AGINTVQELANKTE----EDMMKVRNLGRKSLEEVK 65 (79)
T ss_dssp TTCCBHHHHTTCCH----HHHTTSTTCHHHHHHHHH
T ss_pred hCCCCHHHHHhCCH----HHHHHcCCCCHhHHHHHH
Confidence 36667888988875 578999999999998765
No 77
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=39.27 E-value=12 Score=38.76 Aligned_cols=44 Identities=23% Similarity=0.186 Sum_probs=29.7
Q ss_pred CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHH
Q 039604 212 GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMF 264 (373)
Q Consensus 212 Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~v 264 (373)
|+...+|..|.+ .|-.++++|... -....|+.+||||+||++-+
T Consensus 104 GVGpk~A~~i~~------~G~~s~edL~~a---~~~~~L~~~~GiG~Ktaq~I 147 (578)
T 2w9m_A 104 GLGPKKIRSLWL------AGIDSLERLREA---AESGELAGLKGFGAKSAATI 147 (578)
T ss_dssp TCCHHHHHHHHH------TTCCSHHHHHHH---HHHTTTTTSTTCCHHHHHHH
T ss_pred CcCHHHHHHHHH------cCCCCHHHHHHH---HhhCccccCCCCCHHHHHHH
Confidence 665666666653 366677666431 01237899999999999988
No 78
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=39.25 E-value=17 Score=31.65 Aligned_cols=44 Identities=11% Similarity=0.159 Sum_probs=29.0
Q ss_pred HHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCH---HHHHHHHHH
Q 039604 245 SLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDL---GVRKGVQLL 289 (373)
Q Consensus 245 e~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~---~VrR~l~rl 289 (373)
.+.-.|+.|+|||+.+|..++--+-=.++. -++|+ .|.++..-+
T Consensus 25 ~v~~ALt~I~GIG~~~A~~I~~~~gid~~~-r~g~Lt~~ei~~l~~~i 71 (152)
T 3iz6_M 25 KIMFALTSIKGVGRRFSNIVCKKADIDMNK-RAGELSAEEMDRLMAVV 71 (152)
T ss_dssp BHHHHHTTSTTCCHHHHHHHHHHHTCCSSS-BTTTSCHHHHHHHHHHH
T ss_pred EeHhhhhhccCcCHHHHHHHHHHcCCCCCc-EeCcCCHHHHHHHHHHH
Confidence 356789999999999999998655333432 34443 455544443
No 79
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=39.23 E-value=17 Score=31.44 Aligned_cols=28 Identities=29% Similarity=0.167 Sum_probs=22.1
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHhCCCCC
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIFSLHRPD 273 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf~lgrpD 273 (373)
+.-.|+.|+|||+.+|..++-.+-=.++
T Consensus 21 v~~aLt~I~GIG~~~A~~I~~~~gid~~ 48 (148)
T 3j20_O 21 LRWALTAIKGIGINFATMVCRVAGLDPF 48 (148)
T ss_dssp HHHHHHHSTTCCHHHHHHHHHHHTCCSS
T ss_pred ehhhhhhccCcCHHHHHHHHHHhCCCCC
Confidence 5678999999999999999865543343
No 80
>1ucv_A Ephrin type-A receptor 8; receptor oligomerization, developmental regulation, tyrosine kinase, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: a.60.1.2
Probab=38.50 E-value=57 Score=24.66 Aligned_cols=27 Identities=22% Similarity=0.358 Sum_probs=20.3
Q ss_pred CHHHHhcCChHHHHhcCCCh--hHHHHHH
Q 039604 196 VPETVLALTPQQLRQIGVSG--RKASYLH 222 (373)
Q Consensus 196 tPe~La~l~~eeLr~~Gls~--~KA~yI~ 222 (373)
+.+.|..++.++|+.+|+.. -|.+-+.
T Consensus 33 ~~~~l~~lt~~DL~~lGI~~~GhrkkIl~ 61 (81)
T 1ucv_A 33 SLGMVLRMNAQDVRALGITLMGHQKKILG 61 (81)
T ss_dssp BHHHHTTCCHHHHHHHTCCCHHHHHHHHH
T ss_pred hHHHHHHcCHHHHHhCCCCChhHHHHHHH
Confidence 38999999999999999863 4443333
No 81
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=37.39 E-value=98 Score=32.87 Aligned_cols=31 Identities=13% Similarity=0.188 Sum_probs=24.2
Q ss_pred CCC-CchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 231 GIL-SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 231 G~l-~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
|.+ ++.+|..+. .+.|..++|+|.|+++.++
T Consensus 466 g~I~~~aDL~~L~----~~~L~~l~gfG~Ksa~nLl 497 (671)
T 2owo_A 466 EYVHTPADLFKLT----AGKLTGLERMGPKSAQNVV 497 (671)
T ss_dssp TCCSSGGGGGTCC----HHHHHTSTTCCHHHHHHHH
T ss_pred CCCCCHHHHHhhC----HHHhhcccccchhHHHHHH
Confidence 443 677777775 3568899999999999887
No 82
>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=37.18 E-value=32 Score=28.30 Aligned_cols=46 Identities=22% Similarity=0.107 Sum_probs=37.1
Q ss_pred HHHHHHHHhCCCCCCCHHHHhcCChHHHHh-cCCChhHHHHHHHHHHHHHc
Q 039604 181 IYTRFIALCGGEAGVVPETVLALTPQQLRQ-IGVSGRKASYLHDLARKYQN 230 (373)
Q Consensus 181 i~~rL~~~~G~~~~ptPe~La~l~~eeLr~-~Gls~~KA~yI~~lA~~i~~ 230 (373)
..++|.+. | |-|.+.|+.+++++|.. .|++..|+.-|+..|+.+..
T Consensus 37 ~i~kL~eA-G---~~Tve~va~a~~~eL~~i~GIse~ka~kIi~aA~kl~~ 83 (114)
T 1b22_A 37 DVKKLEEA-G---FHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVP 83 (114)
T ss_dssp HHHHHHTT-C---CSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHHSC
T ss_pred HHHHHHHc-C---cCcHHHHHhCCHHHHHHccCCCHHHHHHHHHHHHHHcc
Confidence 34556544 5 46899999999999976 79999999999999988753
No 83
>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=36.78 E-value=77 Score=23.57 Aligned_cols=35 Identities=9% Similarity=0.154 Sum_probs=28.0
Q ss_pred cCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 230 NGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 230 ~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
.|--++++|...+. +.|+.++||+.-.|+-+.+-+
T Consensus 26 ~Gi~TvedlA~~~~----~eL~~i~gise~kA~~ii~aA 60 (70)
T 1wcn_A 26 RGVCTLEDLAEQGI----DDLADIEGLTDEKAGALIMAA 60 (70)
T ss_dssp TTCCSHHHHHTSCH----HHHHTSSSCCHHHHHHHHHHH
T ss_pred cCCCcHHHHHcCCH----HHHHHccCCCHHHHHHHHHHH
Confidence 36668888888864 667889999999999887654
No 84
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=34.83 E-value=26 Score=35.74 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=34.4
Q ss_pred HHHHHHhCCCCCCCHHHHhcCChHHHHhcCCChhHHHHHHHHHHH
Q 039604 183 TRFIALCGGEAGVVPETVLALTPQQLRQIGVSGRKASYLHDLARK 227 (373)
Q Consensus 183 ~rL~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~KA~yI~~lA~~ 227 (373)
++|.++|| +.+.+..+++++|+.-|+...|++.|+.+-..
T Consensus 482 eRLLEkFG-----SVe~Vm~AteDELRedGIGekqarrI~gl~~l 521 (685)
T 4gfj_A 482 ERLLKKYG-----GYSKVREAGVEELREDGLTDAQIRELKGLKTL 521 (685)
T ss_dssp HHHHHHHT-----SHHHHHHSCHHHHHHTTCCHHHHHHHHTCHHH
T ss_pred HHHHHHhc-----CHHHHHhCCHHHHHHccccHHHHHHHhhHHHH
Confidence 57778888 68999999999999999999999999876543
No 85
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=34.31 E-value=1.2e+02 Score=31.66 Aligned_cols=72 Identities=11% Similarity=0.174 Sum_probs=41.4
Q ss_pred CCC-CchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCccCCCCHHHHHHHHHHhcCCCCCCHHHHHHHHhhcC
Q 039604 231 GIL-SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLHRPDVLPINDLGVRKGVQLLYSLEELPRPSQMDQLCEKWR 309 (373)
Q Consensus 231 G~l-~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lgrpDvfPv~D~~VrR~l~rlygl~~~~~~~e~~~l~e~w~ 309 (373)
|-+ ++.+|..++. +.|.+++|+|+++|+.++- ++..-- +.-+.|.+.-| |+.. ......+.++++|+
T Consensus 466 g~i~~~~Dly~L~~----~~L~~l~g~geKsa~nL~~-aIe~sk-----~~~l~r~l~aL-GI~~-vG~~~a~~La~~f~ 533 (586)
T 4glx_A 466 EYVHTPADLFKLTA----GKLTGLERMGPKSAQNVVN-ALEKAK-----ETTFARFLYAL-GIRE-VGEATAAGLAAYFG 533 (586)
T ss_dssp TCCSSGGGGGTCCH----HHHHTSTTCCHHHHHHHHH-HHHHHT-----BCCHHHHHHHT-TCTT-CCHHHHHHHHHHHC
T ss_pred CCCCCHHHHhCCCH----HHHhcccCccHHHHHHHHH-HHHHHc-----CCCHHHHHHHc-CCCc-hhHHHHHHHHHHcC
Confidence 443 6667778864 5689999999999998762 222111 12223433322 3322 34455566677776
Q ss_pred CchHH
Q 039604 310 PYRSV 314 (373)
Q Consensus 310 Pyrg~ 314 (373)
-+..+
T Consensus 534 sl~~l 538 (586)
T 4glx_A 534 TLEAL 538 (586)
T ss_dssp SHHHH
T ss_pred CHHHH
Confidence 55444
No 86
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M
Probab=33.40 E-value=24 Score=30.80 Aligned_cols=23 Identities=22% Similarity=0.132 Sum_probs=19.8
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHh
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
+.-.|+.|+|||+.+|..++-.+
T Consensus 28 v~~aLt~I~GIG~~~A~~I~~~~ 50 (155)
T 2xzm_M 28 TPIALTGIRGIGRRFAYIICKVL 50 (155)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHHT
T ss_pred EEEeeecccccCHHHHHHHHHHc
Confidence 46689999999999999998654
No 87
>3sei_A Caskin-1; SAM domain, protein-protein interaction, signaling protein; 2.40A {Homo sapiens} PDB: 3sen_A
Probab=28.88 E-value=94 Score=26.30 Aligned_cols=69 Identities=16% Similarity=0.234 Sum_probs=41.9
Q ss_pred CCHHHHhcCChHHHHhcCCCh--hHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHhCC
Q 039604 195 VVPETVLALTPQQLRQIGVSG--RKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFSLH 270 (373)
Q Consensus 195 ptPe~La~l~~eeLr~~Gls~--~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~lg 270 (373)
.+.+.|..++.++|+.+|+.. -|.+.+.++. .+... +.+.......+.++|.+| |.+.++-.+. -.++.
T Consensus 34 ~d~~~l~~lt~~DL~~lGIt~~gHrkkil~ai~-~L~~~----~~~~~~~p~~v~~WL~~i-gL~qY~~~F~-~~g~d 104 (149)
T 3sei_A 34 YDLPTISRMTPEDLTAIGVTKPGHRKKIAAEIS-GLSIP----DWLPEHKPANLAVWLSMI-GLAQYYKVLV-DNGYE 104 (149)
T ss_dssp CCHHHHTTCCHHHHHHTTCCSHHHHHHHHHHHH-TCCCC----CCSCSSCCSCHHHHHHHT-TCGGGHHHHH-HTTCC
T ss_pred CCHHHHccCCHHHHHHcCCCCHHHHHHHHHHHH-HHHhc----cccCCCCcccHHHHHHHc-CchhhHHHHH-HCCCc
Confidence 468889999999999999863 3433333332 22111 112233344678888888 8888876444 34444
No 88
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ...
Probab=27.89 E-value=25 Score=29.69 Aligned_cols=22 Identities=23% Similarity=0.173 Sum_probs=19.0
Q ss_pred HHHHHhcCCCCCHHHHHHHHHH
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIF 267 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf 267 (373)
+.-.|+.|.|||+.+|..++-.
T Consensus 15 v~~aLt~I~GIG~~~A~~I~~~ 36 (126)
T 2vqe_M 15 VDVALTYIYGIGKARAKEALEK 36 (126)
T ss_dssp HHHHHTTSSSCCSHHHHHHTTT
T ss_pred eeeehhccccccHHHHHHHHHH
Confidence 5668999999999999999754
No 89
>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=27.65 E-value=36 Score=33.72 Aligned_cols=36 Identities=17% Similarity=0.092 Sum_probs=21.2
Q ss_pred HHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHH
Q 039604 225 ARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMF 264 (373)
Q Consensus 225 A~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~v 264 (373)
|+.+.+.--++..+.+.+. ++|..+.|||++.|..+
T Consensus 328 ae~Lv~~FGsLq~Il~AS~----eEL~~VeGIGe~rAr~I 363 (377)
T 3c1y_A 328 GYNVVRMFKTLDQISKASV----EDLKKVEGIGEKRARAI 363 (377)
T ss_dssp HHHHHHHHCSHHHHTTCCH----HHHTTSTTCCHHHHHHH
T ss_pred HHHHHHHhCCHHHHHhCCH----HHHHhccCccHHHHHHH
Confidence 4444443335566666553 55677777777777654
No 90
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces cerevisiae}
Probab=26.76 E-value=1.1e+02 Score=34.17 Aligned_cols=84 Identities=12% Similarity=0.067 Sum_probs=41.6
Q ss_pred cCHHHHHHHHHHHHHHhCCCCCCCHHHHhcCChHHHHhcCCChh--------HHHHHHHHHHHHHc-CCCCchhhhCCCh
Q 039604 173 LAFKAGTSIYTRFIALCGGEAGVVPETVLALTPQQLRQIGVSGR--------KASYLHDLARKYQN-GILSDSAIVNMDD 243 (373)
Q Consensus 173 ~S~~aA~~i~~rL~~~~G~~~~ptPe~La~l~~eeLr~~Gls~~--------KA~yI~~lA~~i~~-G~l~L~~L~~~~~ 243 (373)
++.+.|.++-+||.+- ...++.++++++.++|+..+ -.+.|..+..-+.+ -.+|+..-..-
T Consensus 643 ~~~R~AVSiaRrlQDP--------LaElvki~pkdi~sigvg~yQhdv~q~~L~~~L~~vv~d~VN~vGVdiNtA~~~-- 712 (1030)
T 3psf_A 643 PLVKYCIALARYMHSP--------LLEYANLTSEEVRSLSIHPHQNLLSSEQLSWALETAFVDIVNLVSVEVNKATDN-- 712 (1030)
T ss_dssp HHHHHHHHHHHHHHCH--------HHHHHTSCHHHHHTSCCCTTGGGSCHHHHHHHHHHHHHHHHHHHCEEHHHHHTC--
T ss_pred HHHHHHHHHHHHHhCh--------HHHHhccCcccceeeeccccccccCHHHHHHHHHHHHHhhccccCccHHHhhcC--
Confidence 4455566666666322 14566777777888777542 12233332222222 12333211110
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHH
Q 039604 244 KSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 244 ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
.-....|..++||||..|..++-
T Consensus 713 ~~s~~lL~~v~GlGp~kA~~Iv~ 735 (1030)
T 3psf_A 713 NYYASALKYISGFGKRKAIDFLQ 735 (1030)
T ss_dssp HHHHTTGGGSTTCCHHHHHHHHH
T ss_pred cCCHHHHhhCCCCCHHHHHHHHH
Confidence 11356677777777777776653
No 91
>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=26.39 E-value=14 Score=34.37 Aligned_cols=45 Identities=29% Similarity=0.305 Sum_probs=0.0
Q ss_pred CCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHH
Q 039604 212 GVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 212 Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLL 266 (373)
|+...++..|... |.-+++.|...+ .+.|..++|||+++|+-++.
T Consensus 22 GIGpk~a~~Ll~~------gf~sve~L~~a~----~~eL~~v~GIG~ktAe~I~~ 66 (241)
T 1vq8_Y 22 GVGPSKAESLREA------GFESVEDVRGAD----QSALADVSGIGNALAARIKA 66 (241)
T ss_dssp -------------------------------------------------------
T ss_pred CCCHHHHHHHHHc------CCCCHHHHHhCC----HHHHHhccCCCHHHHHHHHH
Confidence 5545666665542 222444454333 57899999999999998854
No 92
>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=25.95 E-value=1.1e+02 Score=27.09 Aligned_cols=38 Identities=13% Similarity=0.372 Sum_probs=29.1
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhc-CCChhHHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQI-GVSGRKASYLHDL 224 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~-Gls~~KA~yI~~l 224 (373)
..+|.++|| +++.|..++.++|..+ |+...+|+.|...
T Consensus 175 a~~Ll~~fg-----s~~~l~~a~~e~L~~v~GiG~~~a~~i~~~ 213 (219)
T 2bgw_A 175 AERILERFG-----SLERFFTASKAEISKVEGIGEKRAEEIKKI 213 (219)
T ss_dssp HHHHHHHHS-----SHHHHTTCCHHHHHHSTTCCHHHHHHHHHH
T ss_pred HHHHHHHcC-----CHHHHHhCCHHHHhhCCCCCHHHHHHHHHH
Confidence 345666777 6899999999999875 7777888777654
No 93
>2qkq_A Ephrin type-B receptor 4; ATP-binding, glycoprotein, kinase, membrane, nucleotide- binding, phosphorylation, repeat, signal, transferase; 2.10A {Homo sapiens}
Probab=24.93 E-value=71 Score=24.14 Aligned_cols=21 Identities=29% Similarity=0.257 Sum_probs=18.9
Q ss_pred CCCHHHHhcCChHHHHhcCCC
Q 039604 194 GVVPETVLALTPQQLRQIGVS 214 (373)
Q Consensus 194 ~ptPe~La~l~~eeLr~~Gls 214 (373)
+.+.+.|..++.++|+.+|+.
T Consensus 39 ~~~~~~l~~lt~~dL~~lGI~ 59 (83)
T 2qkq_A 39 FGSFELVSQISAEDLLRIGVT 59 (83)
T ss_dssp CCSHHHHTTCCHHHHHHHTCC
T ss_pred CCcHHHHhhCCHHHHHHCCCC
Confidence 368999999999999999986
No 94
>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=24.79 E-value=84 Score=33.36 Aligned_cols=28 Identities=11% Similarity=0.169 Sum_probs=21.9
Q ss_pred CchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 234 SDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 234 ~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
++.+|..+.. +.|..++|+|.|+++.++
T Consensus 465 ~~~DL~~L~~----e~L~~l~g~G~Ksa~nLl 492 (667)
T 1dgs_A 465 DVADLYHLRK----EDLLGLERMGEKSAQNLL 492 (667)
T ss_dssp SGGGGGGGCC----HHHHTTSSCCSTTHHHHH
T ss_pred CHHHHHhcCH----HHHhcccccchhhHHHHH
Confidence 5666766653 568899999999999876
No 95
>2dkz_A Hypothetical protein LOC64762; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=24.68 E-value=41 Score=26.51 Aligned_cols=46 Identities=20% Similarity=0.339 Sum_probs=32.1
Q ss_pred CHHHHhcCChHH----HHhcCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHH
Q 039604 196 VPETVLALTPQQ----LRQIGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFT 248 (373)
Q Consensus 196 tPe~La~l~~ee----Lr~~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~ 248 (373)
-|.+|..++.+| |+-+||+.. ++..|....+|=..|..|+.|.+.+
T Consensus 11 pP~dLs~lSv~EVs~~Lr~igL~e~-------vv~~F~~e~IDG~lL~~L~ee~L~e 60 (84)
T 2dkz_A 11 PPADLSGLSIEEVSKSLRFIGLSED-------VISFFVTEKIDGNLLVQLTEEILSE 60 (84)
T ss_dssp CCSCCSSCCHHHHHHHGGGTCCCHH-------HHHHHHTTTCCHHHHHHCCHHHHHH
T ss_pred CchhhhhcCHHHHHHHHHHcCCcHH-------HHHHHHHHccchHHHHhCCHHHHHh
Confidence 356777888877 577899643 4556777788877788887665433
No 96
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} SCOP: a.60.3.1 PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D
Probab=23.53 E-value=65 Score=25.30 Aligned_cols=32 Identities=16% Similarity=0.126 Sum_probs=26.1
Q ss_pred cCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 230 NGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 230 ~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
.|--.+.+|..++. +.|+.++|+|+++.+-|.
T Consensus 30 agI~Tv~dL~~~se----~dLlki~n~G~KSl~EI~ 61 (86)
T 3k4g_A 30 EAIHYIGDLVQRTE----VELLXTPNLGXXSLTEIX 61 (86)
T ss_dssp TTCCBHHHHHHSCH----HHHHTSTTCCHHHHHHHH
T ss_pred cCCCcHHHHHhCCH----HHHhhccccCcccHHHHH
Confidence 36567888888875 568999999999998775
No 97
>3k1r_B Usher syndrome type-1G protein; protein-protein complex, alternative splicing, coiled coil, deafness, hearing, non-syndromic deafness, polymorphism; 2.30A {Homo sapiens}
Probab=23.42 E-value=1.5e+02 Score=22.04 Aligned_cols=20 Identities=25% Similarity=0.355 Sum_probs=18.0
Q ss_pred CCHHHHhcCChHHHHhcCCC
Q 039604 195 VVPETVLALTPQQLRQIGVS 214 (373)
Q Consensus 195 ptPe~La~l~~eeLr~~Gls 214 (373)
.+.+.|..++.++|+.+|+.
T Consensus 26 id~e~l~~lt~~DL~~lGI~ 45 (74)
T 3k1r_B 26 IDLEALMLCSDLDLRSISVP 45 (74)
T ss_dssp CCHHHHTTCCHHHHHHTTCC
T ss_pred cCHHHHhHCCHHHHHHcCCC
Confidence 58999999999999999875
No 98
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=22.52 E-value=58 Score=35.25 Aligned_cols=54 Identities=17% Similarity=0.158 Sum_probs=39.6
Q ss_pred cCChHHHHh-cCCChhHHHHHHHHHHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHHHHh
Q 039604 202 ALTPQQLRQ-IGVSGRKASYLHDLARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFMIFS 268 (373)
Q Consensus 202 ~l~~eeLr~-~Gls~~KA~yI~~lA~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vLLf~ 268 (373)
.++.++|.. .|+..++|+.|...=. .+|.+.- ++.|..++|||+++.+.+.-|.
T Consensus 504 tAs~~~L~~v~GiG~~~A~~Iv~yR~--~~G~f~s-----------r~~L~~V~giG~k~~ekl~~FL 558 (785)
T 3bzc_A 504 TASAALLARISGLNSTLAQNIVAHRD--ANGAFRT-----------RDELKKVSRLGEKTFEQAAGFL 558 (785)
T ss_dssp TCCHHHHHTSTTCCHHHHHHHHHHHH--HHCCCSS-----------GGGGGGSTTCCHHHHHHHGGGE
T ss_pred cCCHHHHhhcCCCCHHHHHHHHHHHH--hcCCCCC-----------HHHHHhcCCCCHHHHHHhhheE
Confidence 357788876 6999999999876422 3566521 5778899999999988866554
No 99
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=21.97 E-value=49 Score=30.37 Aligned_cols=24 Identities=25% Similarity=0.328 Sum_probs=19.2
Q ss_pred HHHHHhcCCCCCHHHHHHHHHHhCC
Q 039604 246 LFTMLTMVNGIGSWSVHMFMIFSLH 270 (373)
Q Consensus 246 ~~~~L~sLpGIGpwTA~~vLLf~lg 270 (373)
....|..|||||++++..++- .||
T Consensus 166 ~~s~LdgIpGIG~k~ak~Ll~-~Fg 189 (220)
T 2nrt_A 166 LRSVLDNVPGIGPIRKKKLIE-HFG 189 (220)
T ss_dssp HHHHHTTSTTCCHHHHHHHHH-HHC
T ss_pred ccccccCCCCcCHHHHHHHHH-HcC
Confidence 356789999999999998875 354
No 100
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=21.84 E-value=37 Score=32.30 Aligned_cols=19 Identities=21% Similarity=0.164 Sum_probs=14.8
Q ss_pred HHHhcCCCCCHHHHHHHHH
Q 039604 248 TMLTMVNGIGSWSVHMFMI 266 (373)
Q Consensus 248 ~~L~sLpGIGpwTA~~vLL 266 (373)
+.+-.+||||+|||--++-
T Consensus 203 DniPGVpGIG~KTA~kLL~ 221 (290)
T 1exn_A 203 DNIRGVEGIGAKRGYNIIR 221 (290)
T ss_dssp GTBCCCTTCCHHHHHHHHH
T ss_pred CCCCCCCcCCHhHHHHHHH
Confidence 3456799999999987653
No 101
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=21.67 E-value=97 Score=28.37 Aligned_cols=36 Identities=14% Similarity=0.268 Sum_probs=28.1
Q ss_pred HHHHHHHhCCCCCCCHHHHhcCChHHHHhcCCCh-hHHHHHHH
Q 039604 182 YTRFIALCGGEAGVVPETVLALTPQQLRQIGVSG-RKASYLHD 223 (373)
Q Consensus 182 ~~rL~~~~G~~~~ptPe~La~l~~eeLr~~Gls~-~KA~yI~~ 223 (373)
.++|.++|| +.+.|.+++.|+|..+ +.. ..|+.|.+
T Consensus 181 ak~Ll~~Fg-----Sl~~i~~As~EeL~~V-IG~~~~A~~I~~ 217 (220)
T 2nrt_A 181 KKKLIEHFG-----SLENIRSASLEEIARV-IGSTEIARRVLD 217 (220)
T ss_dssp HHHHHHHHC-----SHHHHHTSCHHHHHHH-HTCHHHHHHHHH
T ss_pred HHHHHHHcC-----CHHHHHhCCHHHHHHH-hChHHHHHHHHH
Confidence 456777787 6899999999999988 766 67776654
No 102
>2b6g_A VTS1P; alpha-helix, pentaloop, hairpin, RNA binding protein; NMR {Saccharomyces cerevisiae}
Probab=21.61 E-value=1.5e+02 Score=24.66 Aligned_cols=31 Identities=19% Similarity=0.265 Sum_probs=22.9
Q ss_pred CCHHHHhcCChHHHHhcCCC--hhHHHHHHHHH
Q 039604 195 VVPETVLALTPQQLRQIGVS--GRKASYLHDLA 225 (373)
Q Consensus 195 ptPe~La~l~~eeLr~~Gls--~~KA~yI~~lA 225 (373)
.+++.+..+++++|+.+|+. +.|.+.+..++
T Consensus 71 ~~~d~l~~LTeeDL~~lGVta~GaRrKlL~AI~ 103 (119)
T 2b6g_A 71 TPWIELIYLDDETLEKKGVLALGARRKLLKAFG 103 (119)
T ss_dssp SCHHHHTTCCHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred CCHHHHHhcCHHHHHHCCCCccccHHHHHHHHH
Confidence 47889999999999999986 44444444443
No 103
>1b4f_A EPHB2; SAM domain, EPH receptor, signal transduction, oligomer; 1.95A {Homo sapiens} SCOP: a.60.1.2 PDB: 1f0m_A 1sgg_A
Probab=21.49 E-value=1.7e+02 Score=21.90 Aligned_cols=29 Identities=17% Similarity=0.395 Sum_probs=22.0
Q ss_pred CHHHHhcCChHHHHhcCCC--hhHHHHHHHH
Q 039604 196 VPETVLALTPQQLRQIGVS--GRKASYLHDL 224 (373)
Q Consensus 196 tPe~La~l~~eeLr~~Gls--~~KA~yI~~l 224 (373)
+.+.|..++.++|+.+|+. +.|.+-+.++
T Consensus 37 ~~~~l~~lt~~dL~~lGI~~~GhrkkIl~ai 67 (82)
T 1b4f_A 37 SFDVVSQMMMEDILRVGVTLAGHQKKILNSI 67 (82)
T ss_dssp SHHHHTTCCHHHHHHTTCCCHHHHHHHHHHH
T ss_pred CHHHHHhCCHHHHHHcCCCCHHHHHHHHHHH
Confidence 7899999999999999986 3444444443
No 104
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=21.42 E-value=78 Score=25.46 Aligned_cols=31 Identities=16% Similarity=0.121 Sum_probs=25.6
Q ss_pred CCCCchhhhCCChHHHHHHHhcCCCCCHHHHHHHH
Q 039604 231 GILSDSAIVNMDDKSLFTMLTMVNGIGSWSVHMFM 265 (373)
Q Consensus 231 G~l~L~~L~~~~~ee~~~~L~sLpGIGpwTA~~vL 265 (373)
|--.+.+|..++. +.|+.++|+|+++.+-|.
T Consensus 43 gI~Tv~dL~~~se----~dLlki~n~G~KSl~EI~ 73 (98)
T 1coo_A 43 AIHYIGDLVQRTE----VELLKTPNLGKKSLTEIK 73 (98)
T ss_dssp TCCBHHHHHTSCH----HHHTTSTTCCHHHHHHHH
T ss_pred CCCcHHHHHhCCH----HHHHhcCCCCHHHHHHHH
Confidence 5567888888875 568999999999998665
No 105
>1pk1_B Sex COMB on midleg CG9495-PA; hetero SAM domain, polymers, transcriptional repression, transcription repression; 1.80A {Drosophila melanogaster} SCOP: a.60.1.2 PDB: 1pk3_A
Probab=21.41 E-value=85 Score=24.44 Aligned_cols=34 Identities=6% Similarity=0.253 Sum_probs=26.3
Q ss_pred HHHHHcCCCCchhhhCCChHHHHHHHhcCCCCCHHH
Q 039604 225 ARKYQNGILSDSAIVNMDDKSLFTMLTMVNGIGSWS 260 (373)
Q Consensus 225 A~~i~~G~l~L~~L~~~~~ee~~~~L~sLpGIGpwT 260 (373)
+..|.+.+||=..|..++.+++++. +.|+ +||-.
T Consensus 37 ~~~F~~~eIDG~aLL~Lt~~dl~~~-mgik-lGpal 70 (89)
T 1pk1_B 37 GDLFRKHEIDGKALLRLNSERMMKY-MGLK-LGPAL 70 (89)
T ss_dssp HHHHHHTTCCHHHHHTCCHHHHHHH-SCCC-HHHHH
T ss_pred HHHHHHcCcChHHHhcCCHHHHHHc-cCCC-ccHHH
Confidence 4567778899899999998887776 5576 88844
No 106
>3h8m_A Ephrin type-A receptor 7; SAM domain, kinase,structural genomics, structural genomics consortium, SGC, alternative splicing, ATP-binding; 2.10A {Homo sapiens}
Probab=20.93 E-value=1.8e+02 Score=22.52 Aligned_cols=30 Identities=17% Similarity=0.406 Sum_probs=22.7
Q ss_pred CHHHHhcCChHHHHhcCCC--hhHHHHHHHHH
Q 039604 196 VPETVLALTPQQLRQIGVS--GRKASYLHDLA 225 (373)
Q Consensus 196 tPe~La~l~~eeLr~~Gls--~~KA~yI~~lA 225 (373)
+.+.|..++.++|+.+|+. +-|.+-+..+.
T Consensus 51 ~~e~l~~lt~~DL~~lGIt~~GHRkkIL~ai~ 82 (90)
T 3h8m_A 51 SLESVARMTIEDVMSLGITLVGHQKKIMSSIQ 82 (90)
T ss_dssp SHHHHHTCCHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred hHHHHhhCCHHHHHHCCCCCHHHHHHHHHHHH
Confidence 4899999999999999986 34555554443
Done!