Query 006108
Match_columns 661
No_of_seqs 283 out of 1886
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 16:09:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006108.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/006108hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4ecq_A DNA polymerase ETA; tra 100.0 1E-57 3.5E-62 502.8 31.8 359 2-376 62-434 (435)
2 3osn_A DNA polymerase IOTA; ho 100.0 1.2E-57 4.1E-62 500.1 31.6 335 2-378 75-417 (420)
3 3gqc_A DNA repair protein REV1 100.0 1E-56 3.4E-61 501.2 29.8 299 2-377 191-498 (504)
4 1jx4_A DNA polymerase IV (fami 100.0 1E-56 3.5E-61 481.9 26.9 295 2-389 55-351 (352)
5 3bq0_A POL IV, DBH, DNA polyme 100.0 1.6E-56 5.6E-61 480.7 27.3 296 2-389 55-353 (354)
6 4f4y_A POL IV, DNA polymerase 100.0 2.5E-56 8.7E-61 481.1 27.5 298 2-390 55-354 (362)
7 3mfi_A DNA polymerase ETA; DNA 100.0 2.1E-56 7.1E-61 501.2 27.6 346 2-377 78-516 (520)
8 4dez_A POL IV 1, DNA polymeras 100.0 9.4E-57 3.2E-61 482.9 20.1 288 2-377 57-346 (356)
9 3pzp_A DNA polymerase kappa; D 100.0 4.7E-55 1.6E-59 490.3 27.9 342 2-378 137-509 (517)
10 1t94_A Polymerase (DNA directe 100.0 3.2E-55 1.1E-59 486.1 21.2 345 2-378 81-453 (459)
11 2aq4_A DNA repair protein REV1 100.0 3.4E-53 1.2E-57 466.8 27.0 298 2-376 108-433 (434)
12 1im4_A DBH; DNA polymerase PAL 100.0 2.6E-39 8.8E-44 326.4 16.5 161 2-221 60-221 (221)
13 1unn_C POL IV, DNA polymerase 99.0 4E-10 1.4E-14 101.7 7.2 106 250-387 5-113 (115)
14 2a1j_A DNA repair endonuclease 96.4 0.0054 1.9E-07 49.4 5.8 51 185-237 6-57 (63)
15 1wcn_A Transcription elongatio 95.9 0.0045 1.5E-07 51.0 3.4 52 185-237 9-62 (70)
16 2kwv_A RAD30 homolog B, DNA po 95.6 0.0053 1.8E-07 46.0 2.3 21 614-634 14-34 (48)
17 1z00_B DNA repair endonuclease 95.1 0.018 6.1E-07 49.1 4.2 51 185-237 20-71 (84)
18 3bqs_A Uncharacterized protein 94.3 0.027 9.1E-07 48.9 3.4 35 184-219 5-39 (93)
19 3mab_A Uncharacterized protein 93.9 0.047 1.6E-06 47.4 4.1 34 184-218 5-38 (93)
20 1kft_A UVRC, excinuclease ABC 92.3 0.1 3.6E-06 43.1 3.8 51 183-235 24-76 (78)
21 1b22_A DNA repair protein RAD5 92.2 0.076 2.6E-06 47.8 3.0 56 182-238 22-81 (114)
22 2a1j_B DNA excision repair pro 92.0 0.18 6.3E-06 42.9 5.2 51 185-237 34-86 (91)
23 1z3e_B DNA-directed RNA polyme 91.9 0.17 5.7E-06 42.0 4.6 53 181-235 7-61 (73)
24 1z00_A DNA excision repair pro 91.6 0.18 6E-06 42.8 4.5 51 185-237 21-73 (89)
25 3gfk_B DNA-directed RNA polyme 89.5 0.29 9.9E-06 41.2 3.9 53 179-233 12-66 (79)
26 1vq8_Y 50S ribosomal protein L 89.4 0.068 2.3E-06 54.1 0.0 52 183-235 15-68 (241)
27 2khu_A Immunoglobulin G-bindin 89.2 0.14 4.7E-06 44.4 1.8 29 615-643 67-96 (108)
28 3k4g_A DNA-directed RNA polyme 88.9 0.48 1.6E-05 40.5 4.9 53 181-235 10-64 (86)
29 2nrt_A Uvrabc system protein C 87.8 0.43 1.5E-05 47.6 4.5 50 183-234 168-218 (220)
30 2kz3_A Putative uncharacterize 86.3 1.7 5.8E-05 36.8 6.8 44 182-226 3-46 (83)
31 2va8_A SSO2462, SKI2-type heli 84.9 0.42 1.4E-05 54.9 3.1 52 183-236 657-708 (715)
32 1ci4_A Protein (barrier-TO-aut 84.7 0.57 1.9E-05 40.1 3.0 33 180-213 15-47 (89)
33 1coo_A RNA polymerase alpha su 84.2 0.59 2E-05 40.9 3.0 52 182-235 23-76 (98)
34 1pzn_A RAD51, DNA repair and r 83.6 1 3.4E-05 47.6 5.2 54 182-236 34-89 (349)
35 2i1q_A DNA repair and recombin 83.1 1.3 4.5E-05 45.6 5.7 54 183-237 3-58 (322)
36 1x2i_A HEF helicase/nuclease; 82.8 1.3 4.4E-05 35.5 4.4 50 185-236 16-67 (75)
37 3im1_A Protein SNU246, PRE-mRN 82.7 1.4 4.8E-05 46.0 5.8 61 182-243 156-218 (328)
38 2p6r_A Afuhel308 helicase; pro 81.2 0.6 2.1E-05 53.6 2.5 52 183-236 632-683 (702)
39 2q0z_X Protein Pro2281; SEC63, 79.7 1.9 6.4E-05 45.3 5.5 57 183-240 161-219 (339)
40 2zj8_A DNA helicase, putative 77.7 1.5 5E-05 50.5 4.2 51 182-235 645-695 (720)
41 1ixr_A Holliday junction DNA h 76.5 1.2 4.1E-05 43.4 2.6 54 185-238 74-130 (191)
42 2fmp_A DNA polymerase beta; nu 72.1 1.8 6.2E-05 45.7 2.8 29 185-214 100-128 (335)
43 2bgw_A XPF endonuclease; hydro 71.7 3.1 0.0001 40.8 4.2 50 185-236 164-215 (219)
44 1cuk_A RUVA protein; DNA repai 71.6 1.7 5.7E-05 42.8 2.2 54 185-238 75-131 (203)
45 1dgs_A DNA ligase; AMP complex 71.3 2.9 9.9E-05 48.1 4.5 52 183-234 441-494 (667)
46 1gm5_A RECG; helicase, replica 71.1 1.7 5.9E-05 50.9 2.6 31 183-214 115-145 (780)
47 3lda_A DNA repair protein RAD5 69.8 5 0.00017 43.3 5.7 57 179-236 77-137 (400)
48 2bcq_A DNA polymerase lambda; 69.3 2.5 8.6E-05 44.6 3.2 27 186-213 99-125 (335)
49 2z43_A DNA repair and recombin 69.1 0.98 3.4E-05 46.9 0.0 42 183-225 12-53 (324)
50 3c65_A Uvrabc system protein C 68.8 1 3.5E-05 45.1 0.0 52 182-235 172-224 (226)
51 2owo_A DNA ligase; protein-DNA 68.5 3.5 0.00012 47.5 4.4 54 181-234 444-499 (671)
52 2ihm_A POL MU, DNA polymerase 67.7 2.2 7.6E-05 45.4 2.4 28 185-213 104-131 (360)
53 1jms_A Terminal deoxynucleotid 66.8 2.4 8.2E-05 45.5 2.4 28 185-213 123-150 (381)
54 3sei_A Caskin-1; SAM domain, p 66.4 11 0.00037 35.0 6.6 76 139-226 48-123 (149)
55 3ai4_A Yeast enhanced green fl 62.4 2.2 7.4E-05 43.6 1.0 24 614-637 249-273 (283)
56 2duy_A Competence protein come 62.3 4.5 0.00015 32.8 2.7 30 185-214 29-58 (75)
57 2w9m_A Polymerase X; SAXS, DNA 56.3 3.3 0.00011 46.8 1.2 29 185-214 99-127 (578)
58 4gfj_A Topoisomerase V; helix- 55.1 11 0.00039 40.7 4.9 50 185-239 470-519 (685)
59 4glx_A DNA ligase; inhibitor, 55.0 8.7 0.0003 43.5 4.4 50 185-235 448-500 (586)
60 2e8m_A Epidermal growth factor 54.3 13 0.00046 32.3 4.4 52 173-236 36-87 (99)
61 2ztd_A Holliday junction ATP-d 51.6 8.4 0.00029 38.1 3.1 52 188-239 93-147 (212)
62 1wwu_A Hypothetical protein FL 50.9 17 0.00059 31.6 4.6 53 173-236 26-78 (99)
63 1u9l_A Transcription elongatio 50.2 16 0.00056 29.6 4.1 48 188-236 11-60 (70)
64 3tvk_A DGC, diguanylate cyclas 50.1 25 0.00087 33.2 6.2 25 127-151 98-130 (179)
65 3b0x_A DNA polymerase beta fam 49.4 7.9 0.00027 43.6 2.9 80 148-241 100-180 (575)
66 4f92_B U5 small nuclear ribonu 46.7 14 0.00049 47.0 4.9 56 183-239 1557-1614(1724)
67 1v5w_A DMC1, meiotic recombina 44.3 4.7 0.00016 42.1 0.0 54 182-236 23-81 (343)
68 3b0x_A DNA polymerase beta fam 38.7 13 0.00044 41.9 2.4 51 185-235 95-148 (575)
69 3vdp_A Recombination protein R 37.7 18 0.00063 35.6 3.0 16 185-200 28-43 (212)
70 3arc_U Photosystem II 12 kDa e 37.7 21 0.00073 30.8 3.1 30 185-214 28-57 (97)
71 3hva_A Protein FIMX; ggdef dig 35.3 1E+02 0.0035 27.4 7.7 25 127-151 109-141 (177)
72 2bcq_A DNA polymerase lambda; 34.2 17 0.00056 38.3 2.2 52 185-240 59-119 (335)
73 2edu_A Kinesin-like protein KI 32.5 23 0.00078 30.2 2.5 29 186-214 43-75 (98)
74 3r8n_M 30S ribosomal protein S 31.7 28 0.00097 31.0 3.0 36 185-220 18-53 (114)
75 1vdd_A Recombination protein R 31.4 25 0.00086 35.0 2.8 28 185-220 14-41 (228)
76 2okq_A Hypothetical protein YB 31.0 53 0.0018 30.3 4.7 40 17-63 29-68 (141)
77 2w9m_A Polymerase X; SAXS, DNA 30.7 21 0.00073 40.1 2.5 77 148-239 104-181 (578)
78 1s5l_U Photosystem II 12 kDa e 30.6 31 0.001 31.7 3.1 29 186-215 66-95 (134)
79 3u5c_S 40S ribosomal protein S 29.1 32 0.0011 31.9 3.0 38 183-220 30-67 (146)
80 3ign_A Diguanylate cyclase; gg 27.7 79 0.0027 28.3 5.5 25 127-151 104-136 (177)
81 2owo_A DNA ligase; protein-DNA 26.5 43 0.0015 38.5 4.1 33 188-222 517-549 (671)
82 3iz6_M 40S ribosomal protein S 25.5 36 0.0012 31.9 2.6 36 185-220 30-65 (152)
83 2xzm_M RPS18E; ribosome, trans 25.3 33 0.0011 32.2 2.4 36 185-220 32-67 (155)
84 2vqe_M 30S ribosomal protein S 24.9 31 0.0011 31.3 2.0 36 185-220 19-54 (126)
85 2ihm_A POL MU, DNA polymerase 24.5 42 0.0014 35.5 3.3 54 185-240 63-125 (360)
86 4f92_B U5 small nuclear ribonu 24.3 70 0.0024 40.8 5.8 60 182-243 725-785 (1724)
87 3hvw_A Diguanylate-cyclase (DG 23.6 1.3E+02 0.0044 27.1 6.2 25 127-151 94-125 (176)
88 2fmp_A DNA polymerase beta; nu 23.6 42 0.0014 35.1 3.0 54 185-240 59-121 (335)
89 1w25_A Stalked-cell differenti 22.7 1.1E+02 0.0038 32.2 6.3 25 127-151 384-418 (459)
90 3j20_O 30S ribosomal protein S 22.6 35 0.0012 31.8 1.9 36 185-220 25-60 (148)
91 1jms_A Terminal deoxynucleotid 21.4 53 0.0018 35.0 3.3 54 185-240 82-144 (381)
92 1dgs_A DNA ligase; AMP complex 20.9 71 0.0024 36.7 4.4 52 177-233 504-557 (667)
93 3idw_A Actin cytoskeleton-regu 20.7 24 0.00082 29.0 0.4 36 597-632 12-47 (72)
94 2a6h_A DNA-directed RNA polyme 20.2 22 0.00074 37.2 0.0 49 182-232 253-303 (315)
95 3h7h_A Transcription elongatio 20.2 48 0.0016 29.8 2.3 28 607-634 71-106 (120)
96 3bq7_A Diacylglycerol kinase d 20.2 1.3E+02 0.0043 24.5 4.7 54 163-226 2-55 (81)
No 1
>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A {Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A* 4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A* 4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A* 4ecy_A* 4ecz_A* ...
Probab=100.00 E-value=1e-57 Score=502.79 Aligned_cols=359 Identities=38% Similarity=0.604 Sum_probs=286.9
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhcCCeEEeccceEEEEcCchhhhhhhCCCCCCcc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAMLAETPPESLD 81 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l~ 81 (661)
|++||++++|+++||++++++++..++|+||++|+++|++||+||.+|..||++||||+|||||++...+|.........
T Consensus 62 V~~gm~~~~A~~lcP~l~~~~~~~~~~~~~~~~Y~~~S~~i~~il~~~~~vE~~SiDEafLDlT~~~~~~l~~l~g~~~~ 141 (435)
T 4ecq_A 62 VTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQERLQKLQGQPIS 141 (435)
T ss_dssp CCTTCBHHHHHHHCTTCEEEECCEETTEECCHHHHHHHHHHHHHHHHHSCEEEEETTEEEEECHHHHHHHHHHHTTCCCC
T ss_pred CCCCCcHHHHHHhCCCeEEeccccccCCCCHHHHHHHHHHHHHHHHhcCceeecccceEEEECccchhhcchhccccccc
Confidence 89999999999999999999877667789999999999999999999989999999999999999875432111100000
Q ss_pred hhhHHHhh-hhhccCccC----CCCCch-----hhhhhhhhc---cCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEE
Q 006108 82 EVDEEALK-SHILGLESK----DGNDSK-----ATVKEWLCR---CDADHRDKLLACGVLIVTELRMQVLKETEFTCSAG 148 (661)
Q Consensus 82 ~~~~e~~~-s~l~g~~~~----~g~d~~-----~~v~~w~~~---~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiG 148 (661)
.+.+. +++.|.... .|.... ..+.+|++. .+.+|.|..|..|+.+|++||++|++++|||||||
T Consensus 142 ---~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ia~~Ir~~I~~~~Gl~~svG 218 (435)
T 4ecq_A 142 ---ADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAG 218 (435)
T ss_dssp ---GGGCTTEEETTCSCCCC-----CSHHHHHHHHHHHHHHHCCTTCTTCHHHHHHHHHHHHHHHHHHHHHHHSCCEEEE
T ss_pred ---cccccccccccCCCcccccccccchhhhhcccccccccccccccccchhhhhhHHHHHHHHHHHHHHHHhCCcEEEE
Confidence 00000 000010000 000001 134456542 45578888999999999999999999999999999
Q ss_pred ecCCHHHHHHHhcCCCCCcccccCcccHHHhcccCCCccccCCchHHHHH-HHHhcCCccHHHHhhCCHHHHHHHhCcCc
Q 006108 149 IAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTS-LQNELGVTTVGDLLKFSEDKLQESYGFNT 227 (661)
Q Consensus 149 IA~NKlLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~r-L~~~lGI~TigDL~~l~~~~L~~~FG~~~ 227 (661)
||+||+|||||++++||+|+++++++++.+||+++||++|||||++++.+ |. .+||+|++||+++++..|+++||...
T Consensus 219 Ia~nk~lAKlAs~~~Kp~g~~vv~~~~~~~~L~~lpv~~l~GiG~~~~~~lL~-~lGI~TigdLa~~~~~~L~~~fG~~~ 297 (435)
T 4ecq_A 219 ISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIE-ILGIEYMGELTQFTESQLQSHFGEKN 297 (435)
T ss_dssp EESSHHHHHHHHHHSCSSCEEECCGGGHHHHHHTCBGGGSTTCSSHHHHHHHH-HHTCCBGGGGGGSCHHHHHHHHCHHH
T ss_pred ecCCHHHHHHHhccCCCCceEEEehhHHHHHHhhCCHHHhcCCCHHHHHHHHH-HcCCCcHHHHhhCCHHHHHHHhCccH
Confidence 99999999999999999999999999999999999999999999999877 66 99999999999999999999999557
Q ss_pred HHHHHHHHhCCCCCcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeecc
Q 006108 228 GTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFK 307 (661)
Q Consensus 228 G~~L~~~arGiD~~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~ 307 (661)
|.+||+.|+|+|+++|.+..++|||+.+++|+.+.++.+.+++..+|..|+++|+.||+++..++++.|++|+|++++.+
T Consensus 298 g~~L~~~a~G~d~~~v~~~~~~ksi~~~~tf~~~~~i~~~~~l~~~l~~la~~l~~rLr~~~~~~~~~~~~l~v~ir~~~ 377 (435)
T 4ecq_A 298 GSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRVQG 377 (435)
T ss_dssp HHHHHHHTTTCCCCCCCCBCSCSCEEEEEECCGGGCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHSEEEEEEEEEEEETT
T ss_pred HHHHHHHhhCCCCcccCCCCCCCeeeeeEEcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhhhhcCceEEEEEEEEEeCC
Confidence 99999999999999999888899999999998321488999999999999999999999864456899999999999864
Q ss_pred CCCCCCCCCcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCcc
Q 006108 308 SSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVP 376 (661)
Q Consensus 308 ~~~~~s~~~~~srs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~ 376 (661)
...+ ...+++++++.+ ++..|++.++.+|.+.+....+ .....+||.|||++++|++
T Consensus 378 ~~~~----~~~~R~~~l~~~------~~~~i~~~a~~L~~~~~~~~~~--~~~~~pir~lgvs~s~f~~ 434 (435)
T 4ecq_A 378 DKRL----SSLRRCCALTRY------DAHKMSHDAFTVIKNCNTSGIQ--TEWSPPLTMLFLCATKFSA 434 (435)
T ss_dssp CCSS----CSEEEEEECCSC------CHHHHHHHHHHHHGGGCCCSST--TEEEEEEEEEEEEEEEEEE
T ss_pred CCCC----ceeEEeccCCCC------CHHHHHHHHHHHHHHHhhcccc--ccCCCCeeEEEEEEeeccc
Confidence 3222 235899999764 3456788888888776522111 1113479999999999985
No 2
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 4ebc_A* 4ebd_A* ...
Probab=100.00 E-value=1.2e-57 Score=500.11 Aligned_cols=335 Identities=28% Similarity=0.381 Sum_probs=278.8
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | .+||++|+++|++|++||.+| |.||++||||+|||+|++....+.+.+++.+
T Consensus 75 V~~gm~~~~A~~lcP~lv~v--~----~~~~~~Y~~~S~~i~~il~~~tp~ve~~SiDE~fLDvt~~~~~~l~~~~~~~~ 148 (420)
T 3osn_A 75 VKKLMNVRDAKEKCPQLVLV--N----GEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDEL 148 (420)
T ss_dssp CCTTEEHHHHHHHCTTCEEE--E----CCCCHHHHHHHHHHHHHHHHHCSCEEEETTTEEEEECHHHHHHHHHHSCSSSG
T ss_pred CCCCCcHHHHHHhCcccccc--C----CCCHHHHHHHHHHHHHHHHHhCCCeEEecCCEEEEECcccchhhccccccccc
Confidence 89999999999999999887 4 149999999999999999998 8999999999999999987544433332211
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+ .....+|+||.... ...+|.+..+..+..+|++||++|++++|||||||||+||+|||||+
T Consensus 149 ~---~~~~~g~l~g~~~~---------------~~~~~~~~~l~~~~~la~~Ir~~I~~~~Glt~svGIa~nk~LAKlAs 210 (420)
T 3osn_A 149 S---AVTVSGHVYNNQSI---------------NLLDVLHIRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVS 210 (420)
T ss_dssp G---GCCCCSEEGGGCCC---------------CTTCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHH
T ss_pred c---cccccccccccccc---------------ccccchhhcchHHHHHHHHHHHHHHHHHCCcEEEEEeCCHHHHHHhh
Confidence 1 00122355653210 11345677778889999999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCC-CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLP-IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGIS 239 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LP-I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD 239 (661)
+++||+|++++.++++.+||++|| |++|||||++++++|. .+||+|++||+++++..|+++||...|.+||++++|+|
T Consensus 211 ~~~KP~g~~vl~~~~~~~~L~~Lppv~~l~GIG~~t~~~L~-~lGI~TigdLa~~~~~~L~~~fG~~~g~~L~~~a~G~d 289 (420)
T 3osn_A 211 GVFKPNQQTVLLPESCQHLIHSLNHIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGED 289 (420)
T ss_dssp TSSCSSCEEECCGGGHHHHHHHCSSGGGSTTCCHHHHHHHH-HTTCCSHHHHHHSCHHHHHHHHHHHHHHHHHHHHTTCC
T ss_pred hhcCCCCeEEecHHHHHHhhccCccHHHccCCCHHHHHHHH-HhCCCcHHHHhhCCHHHHHHHhCchHHHHHHHHhcCCC
Confidence 999999999999999999999997 9999999999999997 99999999999999999999999867999999999999
Q ss_pred CCcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccC-CCCCCCCCcC
Q 006108 240 GEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKS-SDSDSRKKFP 318 (661)
Q Consensus 240 ~~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~-~~~~s~~~~~ 318 (661)
+++|.+..++|||+.++||. ++.+.+++..+|..|+++|+.||+++ ++.+++|+|+++++.. ..| ...
T Consensus 290 ~~~V~~~~~~kSi~~e~tf~---~~~~~~~~~~~l~~La~~l~~rLr~~----~~~~~tv~l~ir~~~~~~~~----~~~ 358 (420)
T 3osn_A 290 NSPVILSGPPQSFSEEDSFK---KCSSEVEAKNKIEELLASLLNRVCQD----GRKPHTVRLIIRRYSSEKHY----GRE 358 (420)
T ss_dssp CCCCCCCCSCSEEEEEEECS---SCCCSSSHHHHHHHHHHHHHHHHHHH----CSCEEEEEEEEEEECSSCCC----CCE
T ss_pred ccccCCCCCCCceeeeeeCC---CCCCHHHHHHHHHHHHHHHHHHHHHc----CCcccEEEEEEEeCCCCCCC----cee
Confidence 99999888899999999997 47888999999999999999999986 9999999999996421 112 235
Q ss_pred cceeeCCCcchh-----hHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCcccc
Q 006108 319 SKSCPLRYGTAK-----IQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVL 378 (661)
Q Consensus 319 srs~~L~~~t~~-----i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~~~ 378 (661)
+++++++.++.. -++.+.+|++++++||.++++. ..+++||+|||++++|++.+
T Consensus 359 sr~~~l~~~~~~~l~~~~t~~~~~i~~~a~~Lf~~~~~~------~~~~~iRllgv~~~~l~~~~ 417 (420)
T 3osn_A 359 SRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNV------KMPFHLTLLSVCFCNLKALN 417 (420)
T ss_dssp EEEEECCTTTCCC-----CTTHHHHHHHHHHHHHHHSCS------SSCCEEEEEEEEEEEEC---
T ss_pred EEEEECCCccccccccCCCchHHHHHHHHHHHHHHhhcc------cCCcceeEEEEEEeCcccCc
Confidence 889999876210 1246778999999999887621 23456999999999999864
No 3
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Probab=100.00 E-value=1e-56 Score=501.17 Aligned_cols=299 Identities=23% Similarity=0.333 Sum_probs=268.9
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||+.|+++|++|++||.+| |.||++||||+|||+|++..
T Consensus 191 VrsGMp~~~A~~lcP~livv--~-----~d~~~Y~~~S~~i~~il~~~tp~VE~~SiDEafLDvtg~~~----------- 252 (504)
T 3gqc_A 191 IKNGMFFGHAKQLCPNLQAV--P-----YDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILA----------- 252 (504)
T ss_dssp CCTTCBHHHHHHHCTTCEEE--C-----CCHHHHHHHHHHHHHHHHTTCSCEEEEETTEEEEECHHHHH-----------
T ss_pred CCCCCcHHHHHHhCCCcEEE--C-----CCHHHHHHHHHHHHHHHHHhCCeEEEecCCeEEEeccchHh-----------
Confidence 89999999999999999887 5 89999999999999999998 89999999999999999752
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+||. .+..+|++||++|++++|||||||||+||+|||||+
T Consensus 253 -----------l~g~-----------------------------~~~~la~~Ir~~I~~~tGlt~SvGIa~nk~LAKlAs 292 (504)
T 3gqc_A 253 -----------ETKL-----------------------------TPDEFANAVRMEIKDQTKCAASVGIGSNILLARMAT 292 (504)
T ss_dssp -----------HHCC-----------------------------CHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHHHHH
T ss_pred -----------hcCC-----------------------------CHHHHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHH
Confidence 2321 135789999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISG 240 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD~ 240 (661)
+++||+|+++|+++++.+||++|||++|||||++++++|. .+||+|++||+++++..|+++||...|.+||+.|+|+|+
T Consensus 293 ~~~KP~G~~vl~~~~~~~~L~~LPV~~l~GIG~~t~~kL~-~lGI~TigDLa~~~~~~L~~~fG~~~g~~L~~~a~GiD~ 371 (504)
T 3gqc_A 293 RKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLA-SLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDD 371 (504)
T ss_dssp HHHCSSCEEECCGGGHHHHHHHSBGGGSTTCCHHHHHHHH-HTTCCBHHHHTTSCHHHHHHHHCHHHHHHHHHHTTTCCC
T ss_pred hhCccCCEEEECHHHHHHHHhcCChhHhhCcCHHHHHHHH-HcCCCcHHHHHhccHHHHHHhhChhHHHHHHHHhcCCCc
Confidence 9999999999999999999999999999999999999997 999999999999999999999997679999999999999
Q ss_pred CcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccC------CCCCCC
Q 006108 241 EEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKS------SDSDSR 314 (661)
Q Consensus 241 ~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~------~~~~s~ 314 (661)
++|.+..++|||+.+++|+ .++.+.+++..+|..|+++|+.||+++ ++.+++|+|++++... .+|..+
T Consensus 372 ~pV~~~~~~KSi~~e~tf~--~d~~~~~~l~~~L~~La~~l~~rLr~~----~~~~~~vtLkl~~r~~d~~~~t~~f~~~ 445 (504)
T 3gqc_A 372 RPVRTEKERKSVSAEINYG--IRFTQPKEAEAFLLSLSEEIQRRLEAT----GMKGKRLTLKIMVRKPGAPVETAKFGGH 445 (504)
T ss_dssp CCCCCCCCCCCEEEEECSS--CCCCSHHHHHHHHHHHHHHHHHHHHHT----TEEEEEEEEEEEEECTTSCSBCSSTTCC
T ss_pred cccccccCCcceeeeeccC--CCCCCHHHHHHHHHHHHHHHHHHHHHc----CCceeEEEEEEEEecccccccccccccC
Confidence 9999888899999999998 689999999999999999999999985 9999999999986421 223222
Q ss_pred C--CcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCccc
Q 006108 315 K--KFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPV 377 (661)
Q Consensus 315 ~--~~~srs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~~ 377 (661)
. +..+++.+|+.+|+ ++..|++++.++|.+++ ..+.+||+|||++++|.+.
T Consensus 446 g~~~~~trs~tL~~pT~----d~~~I~~~A~~Ll~~~~--------~~~~~vRllGV~~s~L~~~ 498 (504)
T 3gqc_A 446 GICDNIARTVTLDQATD----NAKIIGKAMLNMFHTMK--------LNISDMRGVGIHVNQLVPT 498 (504)
T ss_dssp CSEEEEEEEEEEEEEEC----CHHHHHHHHHHHHHTSC--------CCGGGEEEEEEEEEEEEEC
T ss_pred CCcccceeEeecCCCcC----CHHHHHHHHHHHHHHhc--------CCCCCeEEEEEEEcCcccC
Confidence 2 23588899999986 77889999999988653 3457999999999999976
No 4
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Probab=100.00 E-value=1e-56 Score=481.93 Aligned_cols=295 Identities=24% Similarity=0.352 Sum_probs=259.0
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||+.|+++|++|++++.+| |.||++||||+|||+|++..
T Consensus 55 V~~gm~~~~A~~lcP~l~~~--~-----~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~~----------- 116 (352)
T 1jx4_A 55 VKAGIPIVEAKKILPNAVYL--P-----MRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVR----------- 116 (352)
T ss_dssp CCTTSBHHHHHHHCTTSEEE--E-----CCHHHHHHHHHHHHHHHTTTCSCEEEEETTEEEEECTTTCS-----------
T ss_pred CCCCCcHHHHHHHCCCeEEE--C-----CCHHHHHHHHHHHHHHHHHhCCCeEEecCceEEEeccCccc-----------
Confidence 89999999999999999988 4 89999999999999999998 89999999999999999652
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+|| .+..+|++||++|++++|||||||||+||+||||||
T Consensus 117 -----------~~~------------------------------~~~~~a~~ir~~i~~~~Gl~~svGia~nk~lAKlAs 155 (352)
T 1jx4_A 117 -----------DYR------------------------------EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAA 155 (352)
T ss_dssp -----------SHH------------------------------HHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHH
T ss_pred -----------ccc------------------------------cHHHHHHHHHHHHHHHHCCcEEEEEcCCHHHHHHHh
Confidence 121 256799999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISG 240 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD~ 240 (661)
+++||+|+++++++++.+||+++||++|||||++++++|. .+||+|++||++++...|+++||...|.++|++|+|+|+
T Consensus 156 ~~~Kp~g~~~~~~~~~~~~L~~lpv~~l~GiG~~~~~~L~-~~Gi~t~~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~ 234 (352)
T 1jx4_A 156 DMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN 234 (352)
T ss_dssp HHHCSSCEEECCHHHHHHHHHHSBGGGSTTCCHHHHHHHH-TTTCCBGGGGGSSCHHHHHHHHCHHHHHHHHHHHTTCCC
T ss_pred ccCCCCCEEEECHHHHHHHHHhCCCCcccccCHHHHHHHH-HcCCchHHHHHCCCHHHHHHhcChhHHHHHHHHhCCCCC
Confidence 9999999999999999999999999999999999999997 999999999999999999999998449999999999999
Q ss_pred CcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccCCCCCCCCCcCcc
Q 006108 241 EEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSK 320 (661)
Q Consensus 241 ~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~sr 320 (661)
++|.+.. +|||+.+++|+ .++.+.+++..+|..|+++|+.||++ . .+++|+|++++.+ |. ..++
T Consensus 235 ~~v~~~~-~ksi~~~~tf~--~~~~~~~~l~~~l~~l~~~l~~rL~~-----~-~~~~v~l~l~~~~---~~----~~~~ 298 (352)
T 1jx4_A 235 EPIRTRV-RKSIGRIVTMK--RNSRNLEEIKPYLFRAIEESYYKLDK-----R-IPKAIHVVAVTED---LD----IVSR 298 (352)
T ss_dssp CCCCCCC-CCEEEEEEEEE--EEECCHHHHHHHHHHHHHHHHHHHTT-----C-CEEEEEEEEEETT---SC----EEEE
T ss_pred CCccCCC-CceEEeeeecC--CCCCCHHHHHHHHHHHHHHHHHHHHH-----h-cCCEEEEEEEECC---CC----ccee
Confidence 9999888 99999999998 68999999999999999999999986 4 9999999999753 32 2478
Q ss_pred eeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCC-CCcceeEEEEEccCCccccccccccccccc
Q 006108 321 SCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHY-SGWRITALSVSASKIVPVLSGTCSIMKYFN 389 (661)
Q Consensus 321 s~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~-~g~~ir~lgVsls~L~~~~~~~~sq~~lF~ 389 (661)
+.+++.+|+ ++..|++ +.++|.+++ . .+.+||++||++++|.+. ..|.+||+
T Consensus 299 ~~~l~~pt~----~~~~l~~-a~~ll~~~~--------~~~~~~vr~lgv~~~~l~~~----~~q~~LF~ 351 (352)
T 1jx4_A 299 GRTFPHGIS----KETAYSE-SVKLLQKIL--------EEDERKIRRIGVRFSKFIEA----IGLDKFFD 351 (352)
T ss_dssp EEECSSCCC----HHHHHHH-HHHHHHHHH--------HHCCSCEEEEEEEEEEEC--------------
T ss_pred EEecCCCCC----CHHHHHH-HHHHHHHHH--------hcCCCCEEEEEEEEeCCCCc----cccccccc
Confidence 889998886 5667888 888777653 2 367999999999999875 35788985
No 5
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Probab=100.00 E-value=1.6e-56 Score=480.71 Aligned_cols=296 Identities=22% Similarity=0.345 Sum_probs=259.1
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||+.|+++|++|++++.+| |.||++||||+|||+|+....
T Consensus 55 V~~gm~~~~A~~lcP~l~~~--~-----~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~~~---------- 117 (354)
T 3bq0_A 55 VKAGMPIIKAMQIAPSAIYV--P-----MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG---------- 117 (354)
T ss_dssp CCTTCBHHHHHHHCTTCEEE--E-----CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT----------
T ss_pred CCCCCcHHHHHHHCCCeEEE--C-----CCHHHHHHHHHHHHHHHHHhCCCEEEecCCeeEEecCcchhh----------
Confidence 89999999999999999888 4 89999999999999999998 899999999999999996510
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+|| .+..+|++||++|++++|||||||||+||+||||||
T Consensus 118 -----------~~~------------------------------~~~~la~~ir~~i~~~~Gl~~svGia~nk~lAKlAs 156 (354)
T 3bq0_A 118 -----------NFE------------------------------NGIELARKIKQEILEKEKITVTVGVAPNKILAKIIA 156 (354)
T ss_dssp -----------CHH------------------------------HHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHH
T ss_pred -----------ccC------------------------------CHHHHHHHHHHHHHHHHCCcEEeeeccCHHHHHHHh
Confidence 121 246789999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISG 240 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD~ 240 (661)
+++||+|+++++++++.+||+++||++|||||++++++|. .+||+|++||++++...|+++||...|.++|++|+|+|+
T Consensus 157 ~~~Kp~g~~~~~~~~~~~~L~~lpv~~l~GiG~~~~~~L~-~~Gi~t~~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~ 235 (354)
T 3bq0_A 157 DKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLN-ELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYS 235 (354)
T ss_dssp HTTCSSCEEECCGGGHHHHHHHCBSTTSTTCCHHHHHHHT-TTTCCBGGGGGGSCHHHHHHHHCHHHHHHHHHHHTTCCC
T ss_pred ccCCCCCEEEECHHHHHHHHHhCCcccccCcCHHHHHHHH-HcCCccHHHHhcCCHHHHHHHHCHHHHHHHHHHhCCCCC
Confidence 9999999999999999999999999999999999999997 999999999999999999999998449999999999999
Q ss_pred CcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccCCCCCCCCCcCcc
Q 006108 241 EEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSK 320 (661)
Q Consensus 241 ~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~sr 320 (661)
++|.+.. +|||+.+++|+ .++.+.+++..+|..|+++|+.||+ . .+++|+|++++.+ |. ..++
T Consensus 236 ~~v~~~~-~ksi~~~~tf~--~~~~~~~~l~~~l~~l~~~l~~rL~------~-~~~~v~l~~~~~~---~~----~~~~ 298 (354)
T 3bq0_A 236 EPVENKS-KIPHGRYLTLP--YNTRDVKVILPYLKKAINEAYNKVN------G-IPMRITVIAIMED---LD----ILSK 298 (354)
T ss_dssp CCCCSEE-CCCEEEEEEEE--EEECCHHHHHHHHHHHHHHHHTTTS------S-EEEEEEEEEEETT---SC----EEEE
T ss_pred CCCcCCC-CceeEEeEeCC--CCCCCHHHHHHHHHHHHHHHHHHHH------h-hCCEEEEEEEeCC---CC----cceE
Confidence 9999888 99999999998 6899999999999999999999997 3 9999999999753 32 2478
Q ss_pred eeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCc-c-eeEEEEEccCCccccccccccccccc
Q 006108 321 SCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGW-R-ITALSVSASKIVPVLSGTCSIMKYFN 389 (661)
Q Consensus 321 s~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~-~-ir~lgVsls~L~~~~~~~~sq~~lF~ 389 (661)
+.+++.+|+ ++..|++ +..+|.+.+ ..+. + ||++||++++|.+. ...|.+||+
T Consensus 299 ~~~l~~pt~----~~~~i~~-~~~ll~~~~--------~~~~~~~vr~lgv~~~~l~~~---~~~q~~LF~ 353 (354)
T 3bq0_A 299 GKKFKHGIS----IDNAYKV-AEDLLRELL--------VRDKRRNVRRIGVKLDNIIIN---KTNLSDFFD 353 (354)
T ss_dssp EEECSSCCC----HHHHHHH-HHHHHHHHT--------TSCSSCCEEEEEEEEEEEECC------------
T ss_pred EEECCCccC----CHHHHHH-HHHHHHHHh--------ccCCCCceEEEEEEEecCCCC---Ccccccccc
Confidence 888988886 5677888 888887654 2344 7 99999999999876 357888995
No 6
>4f4y_A POL IV, DNA polymerase IV; Y-family polymerase, transferase-DNA complex; HET: DNA DCP; 2.34A {Sulfolobus acidocaldarius} PDB: 3bq0_A* 3bq1_A* 3bq2_A* 4hyk_A* 1k1q_A 1k1s_A
Probab=100.00 E-value=2.5e-56 Score=481.05 Aligned_cols=298 Identities=23% Similarity=0.352 Sum_probs=258.6
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||+.|+++|++|+++|.+| |.||++||||+|||+|++...
T Consensus 55 V~~gm~~~~A~~lcP~l~~~--~-----~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDEa~LDvt~~~~~---------- 117 (362)
T 4f4y_A 55 VKAGMPIIKAMQIAPSAIYV--P-----MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG---------- 117 (362)
T ss_dssp CCTTCBHHHHHHHCTTSEEE--E-----CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT----------
T ss_pred CCCCCcHHHHHHHCCCeEEE--C-----CCHHHHHHHHHHHHHHHHHhCCCEEEecCceEEEecCCcccc----------
Confidence 89999999999999999887 4 89999999999999999998 899999999999999986420
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+|| .+..+|++||++|++++|||||||||+||+||||||
T Consensus 118 -----------~~~------------------------------~~~~~a~~ir~~I~~~~Gl~~svGIa~nk~lAKlAs 156 (362)
T 4f4y_A 118 -----------NFE------------------------------NGIELARKIKQEILEKEKITVTVGVAPNKILAKIIA 156 (362)
T ss_dssp -----------CHH------------------------------HHHHHHHHHHHHHHHHHCCCCEEEEESSHHHHHHHH
T ss_pred -----------ccC------------------------------CHHHHHHHHHHHHHHHHCCcEEEEEeCCHHHHHHHH
Confidence 111 246789999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISG 240 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD~ 240 (661)
+++||+|+++++++++.+||+++||++|||||++++++|. .+||+|++||+++|...|+++||...|.+||+.++|+|+
T Consensus 157 ~~~Kp~g~~~~~~~~~~~~L~~lpv~~l~GiG~~~~~~L~-~~GI~Ti~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~ 235 (362)
T 4f4y_A 157 DKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLN-ELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYN 235 (362)
T ss_dssp HTSCSSCEEECCTTTHHHHHHTCBSTTSTTCCSTTHHHHH-HTTCCBGGGGTTSCHHHHHHHHCHHHHHHHHHHHTTCCC
T ss_pred hcccCCCEEEECHHHHHHHHHhCChhhccCCCHHHHHHHH-HcCCChHHHHhcCCHHHHHHHhChHHHHHHHHHhcCCCC
Confidence 9999999999999999999999999999999999999997 999999999999999999999994479999999999999
Q ss_pred CcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccCCCCCCCCCcCcc
Q 006108 241 EEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSK 320 (661)
Q Consensus 241 ~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~sr 320 (661)
++|.+..+ |||+.+++|+ .++.+.+++..+|..|+++|+.||+ . .+++|+|++++.+ |.+ .++
T Consensus 236 ~~v~~~~~-ksi~~~~tf~--~~~~~~~~l~~~l~~l~~~l~~rLr------~-~~~~v~l~i~~~~---~~~----~t~ 298 (362)
T 4f4y_A 236 EPIRTRVR-KSIGRYLTLP--YNTRDVKVILPYLKKAINEAYNKVN------G-IPMRITVIAIMED---LDI----LSK 298 (362)
T ss_dssp CCCCCCCC-CEEEEEEEEE--EEECCHHHHHHHHHHHHHHHHHHCS------S-EEEEEEEEEEETT---SCE----EEE
T ss_pred CcCccCCC-cceEEEEecC--CCCCCHHHHHHHHHHHHHHHHHHHH------h-CCCEEEEEEEECC---CcE----EEE
Confidence 99998877 9999999998 6899999999999999999999997 3 9999999999753 332 477
Q ss_pred eeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcc-eeEEEEEccCCcccccccccccccccC
Q 006108 321 SCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWR-ITALSVSASKIVPVLSGTCSIMKYFNG 390 (661)
Q Consensus 321 s~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~-ir~lgVsls~L~~~~~~~~sq~~lF~~ 390 (661)
+.+++.+ + ++..|++++.++|.+++. ..+.+ ||++||++++|.+. ...|.++|+-
T Consensus 299 s~~l~~p-~----d~~~i~~~a~~ll~~~~~-------~~~~~~vr~lGV~~~~L~~~---~~~q~~~~~~ 354 (362)
T 4f4y_A 299 GKKFKHG-I----SIDNAYKVAEDLLRELLV-------RDKRRNVRRIGVKLDNIIIN---KTNLSDFFDI 354 (362)
T ss_dssp EEECSSC-C----CHHHHHHHHHHHHHHHTT-------SSCSCCEEEEEEEEEEEEC--------------
T ss_pred EEECCCC-C----CHHHHHHHHHHHHHHHHh-------hcCCccEEEEEEEEeccccC---Cccccccccc
Confidence 8888877 5 567788888888876541 14667 99999999999876 4678899973
No 7
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A*
Probab=100.00 E-value=2.1e-56 Score=501.17 Aligned_cols=346 Identities=25% Similarity=0.353 Sum_probs=278.6
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccc---------------------------cCCCCChHHHHHHHHHHHHHHhhc-CCeE
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPV---------------------------ARGKADLSSYRNAGSEVVSILARK-GRCE 53 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~---------------------------~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE 53 (661)
|++|||+++|+++||+|++|||++ .++|+||++|+++|++||+||++| |.||
T Consensus 78 I~~~~~~~~A~~~CP~l~~v~~~v~~~ge~~~~y~~~~~~~~~~~~~~~~~~~~k~~~~~Yr~~S~~i~~il~~~~~~vE 157 (520)
T 3mfi_A 78 ISRMDTIQEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALAIFKWACDLVE 157 (520)
T ss_dssp CCTTCBHHHHHTTCTTCEEEECEEEETTCSCEECCTTCSTTCSCTTSCCCTTSEEEECHHHHHHHHHHHHHHHHHCSCEE
T ss_pred CCCCCcHHHHHHhCccceEeeeeeeecccccccccccccccccccccccCcccccCCHHHHHHHHHHHHHHHHHhCCCeE
Confidence 899999999999999999987533 334579999999999999999998 8999
Q ss_pred EeccceEEEEcCchhhhhhhCCCCC----Ccc-hhhHHHh---------------------------hhhhccCccCCCC
Q 006108 54 RASIDEVYLDLTDAAEAMLAETPPE----SLD-EVDEEAL---------------------------KSHILGLESKDGN 101 (661)
Q Consensus 54 ~~SIDEayLDlT~~~~~~L~~~~~~----~l~-~~~~e~~---------------------------~s~l~g~~~~~g~ 101 (661)
+|||||+|||||+...++|...... .+. ....+.+ .+++|+..
T Consensus 158 ~~SIDEaflDlt~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~p~~~~~~~~~~~~g~~~~~~----- 232 (520)
T 3mfi_A 158 RASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPE----- 232 (520)
T ss_dssp EEETTEEEEECHHHHHHHHHHCSSCEEETTEEHHHHTHHHHHHHHHTCCCTTSEEECCCGGGGGCCCCSEECCTT-----
T ss_pred EeccceEEEEcCcchhhccccccccccccccccccchhhhhhccccccccccccccccccchhcccccccccccc-----
Confidence 9999999999999864333210000 000 0000000 00111100
Q ss_pred CchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHhcCCCCCcccccCcccHHHhcc
Q 006108 102 DSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLD 181 (661)
Q Consensus 102 d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS~~~KP~G~~vl~~~~v~~fL~ 181 (661)
. .....+|+|.++..+..+|++||++|+++||||||||||+||+||||||+++||+|+++|+++++.+||+
T Consensus 233 -~--------~~~~~~~~~~~~~~~~~ia~~IR~~I~~~tGlt~SvGIa~nK~LAKlAs~~~KP~G~~vi~~~~~~~fL~ 303 (520)
T 3mfi_A 233 -G--------RDLITDWDDVILALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLD 303 (520)
T ss_dssp -C--------CCSCCSHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHTTSCSSEEEECCGGGHHHHHT
T ss_pred -c--------ccccccccccccchHHHHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHhcccCCCCeEEcChHHHHHHhh
Confidence 0 0123478899999999999999999999999999999999999999999999999999999999999999
Q ss_pred c--CCCccccCCchHHHHHHHHhc-CC---ccH-----------HHHhhCCHHHHHHHhCc------------CcHHHHH
Q 006108 182 S--LPIKKMKQLGGKLGTSLQNEL-GV---TTV-----------GDLLKFSEDKLQESYGF------------NTGTWLW 232 (661)
Q Consensus 182 ~--LPI~kLpGIG~k~~~rL~~~l-GI---~Ti-----------gDL~~l~~~~L~~~FG~------------~~G~~L~ 232 (661)
+ +||++|||||++++++|. .+ || +|+ +||++++...|+++||. ..|.+||
T Consensus 304 ~~~lPV~~l~GIG~~t~~~L~-~llGI~~~~ti~~i~~l~~~t~~dL~~~~~~~L~~~fG~~~~~~~d~~~~g~~g~~L~ 382 (520)
T 3mfi_A 304 CGKFEITSFWTLGGVLGKELI-DVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEKLF 382 (520)
T ss_dssp SSSCCGGGSTTCSSHHHHHHH-HHTTCCSSSHHHHHHHHSCSCHHHHHHHHHHHHHSTTCC---CCCCTTCHHHHHHHHH
T ss_pred ccCCcHHHhcCCCHHHHHHHH-HhcCCCcccchhhhhhccCCCHHHHHhcCHHHHHHhcCccccccccchhhhHHHHHHH
Confidence 8 999999999999999998 77 99 665 88888888999999994 4799999
Q ss_pred HHHhCCCCCcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh--hcCceeeEEEEEEeeccCCC
Q 006108 233 NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLE--QNKRIAHTLTLHASAFKSSD 310 (661)
Q Consensus 233 ~~arGiD~~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~--~~~~~artLtL~lr~~~~~~ 310 (661)
++|+|+|+++|.+..++|||+++++|.. .++.+.+++..+|..|+++|+.||++... .+++.|++|+|++++.+
T Consensus 383 ~~arGid~~~V~~~~~~KSi~~~~tf~~-~~i~~~~~l~~~L~~la~~l~~rLr~~~~~~~~~~~~rtvtl~ir~~d--- 458 (520)
T 3mfi_A 383 KLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVDCISWLEVFCAELTSRIQDLEQEYNKIVIPRTVSISLKTKS--- 458 (520)
T ss_dssp HHTTTCCCCCCCCCCSCSCEEEEEECCT-TTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEEEECTT---
T ss_pred HHhCCCCCCCCCCCCCCCceeeEEEcCC-CCcCCHHHHHHHHHHHHHHHHHHHHhcccccccceeeeEEEEEEEeCC---
Confidence 9999999999999888999999999983 14899999999999999999999998521 12589999999999743
Q ss_pred CCCCCCcCcceeeCCCcc--hhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCccc
Q 006108 311 SDSRKKFPSKSCPLRYGT--AKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPV 377 (661)
Q Consensus 311 ~~s~~~~~srs~~L~~~t--~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~~ 377 (661)
|.+ .+++.+|+.+| + ++..|++++.++|..++.. ++...+.+||+|||++++|...
T Consensus 459 f~~----~trs~~l~~pt~~~----~~~~I~~~a~~Ll~~~~~~---~~~~~~~~iRliGV~~s~Le~~ 516 (520)
T 3mfi_A 459 YEV----YRKSGPVAYKGINF----QSHELLKVGIKFVTDLDIK---GKNKSYYPLTKLSMTITNFDII 516 (520)
T ss_dssp CCE----EEEEEECCCCCGGG----HHHHHHHHHHHHHHHHHHH---TTTSSCSSCSEEEEEEEEEEEE
T ss_pred CCc----ceEEEECCCCCccC----CHHHHHHHHHHHHHHHhhh---cccccCCceeEEEEEEeCCEec
Confidence 432 58899999888 5 5677888888888766510 0011257999999999999875
No 8
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}
Probab=100.00 E-value=9.4e-57 Score=482.94 Aligned_cols=288 Identities=24% Similarity=0.315 Sum_probs=171.8
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||++|+++|++|+++|.+| |.||++||||+|||+|+...
T Consensus 57 V~~gm~~~~A~~lcP~l~~~--~-----~~~~~Y~~~s~~v~~il~~~~p~ve~~SiDEafld~t~~~~----------- 118 (356)
T 4dez_A 57 VHAGMPLRAAARRCPDATFL--P-----SDPAAYDEASEQVMGLLRDLGHPLEVWGWDEAYLGADLPDE----------- 118 (356)
T ss_dssp CCTTSBHHHHHHHCTTCEEE--E-----CCHHHHHHHHHHHHHHHHTTSSCEEEETTTEEEEEEECCTT-----------
T ss_pred CCCCCcHHHHHHhCCCeEEE--C-----CcHHHHHHHHHHHHHHhhhcCCceeecCcchhheecccccC-----------
Confidence 89999999999999999988 4 89999999999999999998 89999999999999997531
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+ .+..+|.+||++|+++||||||||||+||+|||||+
T Consensus 119 -------------~------------------------------~~~~~a~~ir~~i~~~~gl~~siGIa~nk~lAKlAs 155 (356)
T 4dez_A 119 -------------S------------------------------DPVEVAERIRTVVAAETGLSCSVGISDNKQRAKVAT 155 (356)
T ss_dssp -------------C------------------------------CHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHHHHH
T ss_pred -------------C------------------------------CHHHHHHHHHHHHHHHhCCccccchhccHHHHHHHH
Confidence 0 135689999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCCC
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISG 240 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD~ 240 (661)
+++||+|++++.++++.+||+++||++|||||++++++|+ .+||+|++||+++++..|+++||...|.+||++++|+|+
T Consensus 156 ~~~Kp~g~~~i~~~~~~~~L~~lpv~~l~GiG~~~~~~L~-~~GI~Ti~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~ 234 (356)
T 4dez_A 156 GFAKPAGIYVLTEANWMTVMGDRPPDALWGVGPKTTKKLA-AMGITTVADLAVTDPSVLTTAFGPSTGLWLLLLAKGGGD 234 (356)
T ss_dssp HHHCSSCEEECCTTTHHHHHTTSCGGGSTTCCHHHHHHHH-HTTCCSHHHHHTSCHHHHHHHHCHHHHHHHHHHHTTCCC
T ss_pred HHhhhcCcccccchhhhhhhhcCcHHHHcCCchhHHHHHH-HcCCCeecccccCCHHHHHHHhCChHHHHHHHHHcCCCc
Confidence 9999999999999999999999999999999999999997 999999999999999999999997679999999999999
Q ss_pred Cccccc-CCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEEEEeeccCCCCCCCCCcCc
Q 006108 241 EEVQAR-LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPS 319 (661)
Q Consensus 241 ~pV~~~-~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~s 319 (661)
++|.+. ..+|||+.++||+ .++.+.++++.+|..|+++++.||+++ ++.+++|+|++++.+ |. ..+
T Consensus 235 ~~v~~~~~~~ksi~~~~tf~--~~~~~~~~l~~~l~~la~~~~~rLr~~----~~~~~~l~v~ir~~~---f~----~~t 301 (356)
T 4dez_A 235 TEVSSEPWVPRSRSHVVTFP--QDLTERREMDSAVRDLALQTLAEIVEQ----GRIVTRVAVTVRTST---FY----TRT 301 (356)
T ss_dssp CCCCC---------------------------------------------------------------------------
T ss_pred ccccccccccccccccccCC--CcCCCHHHHHHHHHHHHHHHHHHHHHc----CCceeEEEEEEEeCC---Ce----EEE
Confidence 999875 4679999999998 689999999999999999999999985 999999999999743 43 357
Q ss_pred ceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCccc
Q 006108 320 KSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPV 377 (661)
Q Consensus 320 rs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~~ 377 (661)
++.+|+.||+ ++..|+++++.+|.+. +.+.+||+|||++++|.+.
T Consensus 302 ~~~~l~~pt~----d~~~i~~~a~~ll~~~---------~~~~~vRliGV~ls~l~d~ 346 (356)
T 4dez_A 302 KIRKLPAPST----DAGQIVDTALAVLDQF---------ELDRPVRLLGVRLELAMDD 346 (356)
T ss_dssp ----------------------------------------------------------
T ss_pred EEEECCcccC----CHHHHHHHHHHHHHhc---------cCCCCEEEEEEEECCCCCC
Confidence 8888999986 6778999998888653 3466899999999999864
No 9
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens}
Probab=100.00 E-value=4.7e-55 Score=490.34 Aligned_cols=342 Identities=22% Similarity=0.320 Sum_probs=264.9
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCC-
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPES- 79 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~- 79 (661)
|++|||+++|+++||+|++| | +||++|+++|++|++||.+| |.||++||||+|||||++...++.. +.+.
T Consensus 137 Vr~gMp~~~Ak~lCP~Lvvv--~-----~d~~~Y~~~S~~v~~il~~ytp~ve~~SiDEafLDvT~~~~~~~~~-~~~~~ 208 (517)
T 3pzp_A 137 VRAAMPGFIAKRLCPQLIIV--P-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNW-PEDKR 208 (517)
T ss_dssp CCTTSCHHHHHHHCTTCEEE--C-----CCHHHHHHHHHHHHHHHHTTCTTCBCCSSSEEEEETHHHHHHHTSC-CSTTT
T ss_pred CCCCCcHHHHHHhCCceEEE--C-----CCHHHHHHHHHHHHHHHHHcCCcEEEECCceEEEEccccccccccc-ccccc
Confidence 89999999999999999887 5 89999999999999999998 8999999999999999986433210 0000
Q ss_pred ---------c---------chhhHH--HhhhhhccCccCC--CCCchhhhhhhhhc----cCccchhhhhh-hHHHHHHH
Q 006108 80 ---------L---------DEVDEE--ALKSHILGLESKD--GNDSKATVKEWLCR----CDADHRDKLLA-CGVLIVTE 132 (661)
Q Consensus 80 ---------l---------~~~~~e--~~~s~l~g~~~~~--g~d~~~~v~~w~~~----~~~~~~d~ll~-~~~~lA~~ 132 (661)
. ..+.+. .....+|...+.+ +.+. ...+.+. .+..+...+|. .+..+|++
T Consensus 209 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~lfg~~~~~ia~~ 285 (517)
T 3pzp_A 209 RYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGD---PFQVNFEEQNNPQILQNSVVFGTSAQEVVKE 285 (517)
T ss_dssp EEECC-----------------------------------------------------------CCEEECCSSHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccc---ccccccccccccccchhhhhcCChHHHHHHH
Confidence 0 000000 0000000000000 0000 0000000 00111123443 36789999
Q ss_pred HHHHHHHhhCCceeEEecCCHHHHHHHhcCCCCCcccccCcc--cHHHhcccCCCccccCCchHHHHHHHHhcCCccHHH
Q 006108 133 LRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFS--SVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGD 210 (661)
Q Consensus 133 IR~~I~~etGlt~SiGIA~NKlLAKLAS~~~KP~G~~vl~~~--~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigD 210 (661)
||++|+++||||||||||+||+||||||+++||+|+++|.++ ++.+||++|||++|||||++++++|. .+||+||+|
T Consensus 286 IR~~I~~~tGlt~S~GIA~Nk~LAKlAs~~~KP~G~~vl~~~~~~v~~fL~~LPV~kl~GIG~~t~~~L~-~lGI~TigD 364 (517)
T 3pzp_A 286 IRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLK-ALGIITCTE 364 (517)
T ss_dssp HHHHHHHHHSCCEEEEEESSHHHHHHHHHTTCSSCEEECCSSHHHHHHHHTTCBGGGSTTCCHHHHHHHH-HTTCCBHHH
T ss_pred HHHHHHHHhCCeEEEEEcCCHHHHHHHhCcCCCCCEEEecCChHHHHHHHhcCChhhhccccHHHHHHHH-HhCCCcHHH
Confidence 999999999999999999999999999999999999999874 78999999999999999999999997 999999999
Q ss_pred HhhCCHHHHHHHhCcCcHHHHHHHHhCCCCCcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q 006108 211 LLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLE 290 (661)
Q Consensus 211 L~~l~~~~L~~~FG~~~G~~L~~~arGiD~~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~ 290 (661)
|++++ ..|.++||...+.++|+.|+|+|+++|.+..++|||+.++||+ . +.+.+++..+|..|+++|+.||+++
T Consensus 365 L~~~~-~~L~~~fG~~~~~~l~~~a~Gid~~~v~~~~~~KSi~~e~tf~--~-~~~~e~l~~~l~~La~~l~~rLr~~-- 438 (517)
T 3pzp_A 365 LYQQR-ALLSLLFSETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFS--E-INKAEEQYSLCQELCSELAQDLQKE-- 438 (517)
T ss_dssp HHHHH-HHHHHHSCHHHHHHHHHHHTTCCCCSCCCCCCCCCEEEEEEEE--E-ECCHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred HHhhH-HHHHHHhChHHHHHHHHHHcCCCcccccCCCCCccceeEEEcc--c-ccCHHHHHHHHHHHHHHHHHHHHHc--
Confidence 99984 7899999986678899999999999999888999999999997 3 7899999999999999999999975
Q ss_pred hcCceeeEEEEEEeeccCCCCCCCCCcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEE
Q 006108 291 QNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVS 370 (661)
Q Consensus 291 ~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVs 370 (661)
++.+++|+|++++.+ |.. .+++++++.+|+ ++.+|++.+..+|...+.. ....+.+||++||+
T Consensus 439 --~~~~~~vtlklk~~~---f~~----~tr~~tl~~~t~----~~~~i~~~a~~Ll~~~~~~----~~~~~~~iRllGV~ 501 (517)
T 3pzp_A 439 --RLKGRTVTIKLKNVN---FEV----KTRASTVSSVVS----TAEEIFAIAKELLKTEIDA----DFPHPLRLRLMGVR 501 (517)
T ss_dssp --TCCBSCEEEEEEETT---SCE----EEECCCCSSCBC----SHHHHHHHHHHHHHHHHHH----HTTSCCCEEEEEEE
T ss_pred --CCceeEEEEEEEecC---Cce----eeEEEeCCCCCC----CHHHHHHHHHHHHHHHhhh----ccCCCCcEEEEEEE
Confidence 999999999999753 332 478899999886 6778888888888765410 00135579999999
Q ss_pred ccCCcccc
Q 006108 371 ASKIVPVL 378 (661)
Q Consensus 371 ls~L~~~~ 378 (661)
+++|.+..
T Consensus 502 ~s~l~~~~ 509 (517)
T 3pzp_A 502 ISSFPNEE 509 (517)
T ss_dssp ECCCCCCC
T ss_pred ecCCcChh
Confidence 99999764
No 10
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Probab=100.00 E-value=3.2e-55 Score=486.07 Aligned_cols=345 Identities=22% Similarity=0.310 Sum_probs=253.6
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCC-----
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAET----- 75 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~----- 75 (661)
|++|||+++|+++||+|+++ | +||++|+++|++|++||.+| |.||++||||+|||||++....+...
T Consensus 81 V~~gm~~~~A~~lCP~lv~v--~-----~d~~~Y~~~S~~i~~il~~~~p~ve~~SiDEafLDvT~~~~~~~~~~~~~~~ 153 (459)
T 1t94_A 81 VRAAMPGFIAKRLCPQLIIV--P-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRR 153 (459)
T ss_dssp CCTTCCHHHHHHHCTTCEEE--C-----CCHHHHHHHHHHHHHHHHHHCTTCEECSSSEEEEECHHHHHHHTTCCGGGSE
T ss_pred CCCCCcHHHHHHHCCCeEEE--C-----CCHHHHHHHHHHHHHHHHHhCCceEEeecceEEEECchhHHHhhcccccccc
Confidence 89999999999999999887 4 89999999999999999998 89999999999999999864321000
Q ss_pred -----C----C-CCc---chhhHHH--hhhhhccCcc----CCCCCchhhhhhhhhccCccchhhhh-hhHHHHHHHHHH
Q 006108 76 -----P----P-ESL---DEVDEEA--LKSHILGLES----KDGNDSKATVKEWLCRCDADHRDKLL-ACGVLIVTELRM 135 (661)
Q Consensus 76 -----~----~-~~l---~~~~~e~--~~s~l~g~~~----~~g~d~~~~v~~w~~~~~~~~~d~ll-~~~~~lA~~IR~ 135 (661)
. . ..+ ..+.+.. ....+++..+ ..|........+|. .....+.+.+| ..+..+|++||+
T Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~fg~~~~~la~~IR~ 232 (459)
T 1t94_A 154 YFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVNFEEQN-NPQILQNSVVFGTSAQEVVKEIRF 232 (459)
T ss_dssp EECCC---CCCCCCCGGGGGGSTTTTTTGGGCC-----------------------CCCCCCCEEECCSSHHHHHHHHHH
T ss_pred cccccccccccccccCccccccccccccccccccccccccccccccccccccccc-ccccccchhhccCCHHHHHHHHHH
Confidence 0 0 000 0000000 0000000000 00000000001111 01111223334 357899999999
Q ss_pred HHHHhhCCceeEEecCCHHHHHHHhcCCCCCcccccCc--ccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhh
Q 006108 136 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPF--SSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK 213 (661)
Q Consensus 136 ~I~~etGlt~SiGIA~NKlLAKLAS~~~KP~G~~vl~~--~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~ 213 (661)
+|++++|||||||||+||+||||||+++||||+++|++ +++..||+++||++|||||++++++|. .+||+|++||++
T Consensus 233 ~I~~~~Glt~S~GIa~nk~LAKlAs~~~KP~g~~vl~~~~~~v~~fL~~lpv~~l~GiG~~~~~~L~-~lGI~T~gdL~~ 311 (459)
T 1t94_A 233 RIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQ 311 (459)
T ss_dssp HHHHHHSCCEEEEEESSHHHHHHHHHHTTTTCEEECCSSHHHHHHHHTTCBGGGCTTSCHHHHHHHH-HTTCCBHHHHHH
T ss_pred HHHHHhCCeEEEeecccHHHHHHHhhccCCCCEEEecCcHHHHHHHHHcCCHHhcCCcCHHHHHHHH-HcCCCcHHHHHh
Confidence 99999999999999999999999999999999999988 479999999999999999999999997 999999999999
Q ss_pred CCHHHHHHHhCcCcHHHHHHHHhCCCCCcccccCCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 006108 214 FSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNK 293 (661)
Q Consensus 214 l~~~~L~~~FG~~~G~~L~~~arGiD~~pV~~~~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~ 293 (661)
++ ..|+++||...|.+||+.++|+|+++|.+..++|||+.+++|+ . +.+.+++..+|..|+++|+.||+++ +
T Consensus 312 ~~-~~L~~~fG~~~~~~l~~~a~G~d~~~v~~~~~~kSi~~~~tf~--~-~~~~~~l~~~l~~L~~~l~~rL~~~----~ 383 (459)
T 1t94_A 312 QR-ALLSLLFSETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFS--E-INKAEEQYSLCQELCSELAQDLQKE----R 383 (459)
T ss_dssp TH-HHHHHHSCHHHHHHHHHHHTTCCCSCC---C--CCEEEEEEEE--E-ECCHHHHHHHHHHHHSSTTCCCC-------
T ss_pred hH-HHHHHHhChHhHHHHHHHHcCCCCcccCCCCCCcceeeeeecC--C-CCCHHHHHHHHHHHHHHHHHHHHHh----C
Confidence 85 7899999986799999999999999999888899999999997 4 8899999999999999999999875 9
Q ss_pred ceeeEEEEEEeeccCCCCCCCCCcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccC
Q 006108 294 RIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASK 373 (661)
Q Consensus 294 ~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~ 373 (661)
+.+++|+|++++.+ |.. .+++++++.+|+ ++..|++.+..+|.+.+.. ....+.+||++||++++
T Consensus 384 ~~~~~vtl~l~~~~---~~~----~srs~~l~~~t~----~~~~i~~~a~~ll~~~~~~----~~~~~~~ir~lGv~~~~ 448 (459)
T 1t94_A 384 LKGRTVTIKLKNVN---FEV----KTRASTVSSVVS----TAEEIFAIAKELLKTEIDA----DFPHPLRLRLMGVRISS 448 (459)
T ss_dssp CCCSCEEEEEEETT---CCE----EEECC-CCCCCC----C--CHHHHHHHHHHHHHSS----STTSCCCEEEEEEEECC
T ss_pred CCcceEEEEEEECC---Cce----eeEEEECCCccC----CHHHHHHHHHHHHHHHHhh----ccCCCCcEEEEEEEEcc
Confidence 99999999999743 322 478888988886 5566788888877765410 01135689999999999
Q ss_pred Ccccc
Q 006108 374 IVPVL 378 (661)
Q Consensus 374 L~~~~ 378 (661)
|.+..
T Consensus 449 l~~~~ 453 (459)
T 1t94_A 449 FPNEE 453 (459)
T ss_dssp -----
T ss_pred CcCcc
Confidence 98753
No 11
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A*
Probab=100.00 E-value=3.4e-53 Score=466.78 Aligned_cols=298 Identities=20% Similarity=0.208 Sum_probs=257.6
Q ss_pred CCCCCcHHHHHHhCCC---cEEEeccccCCCCChHHHHHHHHHHHHHHhhc---CCeEEeccceEEEE--cCchhhhhhh
Q 006108 2 VVSSMRGDEAKEVCPQ---IELVQVPVARGKADLSSYRNAGSEVVSILARK---GRCERASIDEVYLD--LTDAAEAMLA 73 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~---L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~---~~VE~~SIDEayLD--lT~~~~~~L~ 73 (661)
|++|||+++|+++||+ |+++ | +||+.|+++|++|++||.+| |.||++||||+||| +|+...
T Consensus 108 V~~gm~~~~A~~lcP~~~~lvv~--~-----~~~~~Y~~~S~~i~~il~~~~~t~~ve~~SiDEaflD~~vt~~~~---- 176 (434)
T 2aq4_A 108 IKNGMWVSQAEKMLPNGIKLISL--P-----YTFEQFQLKSEAFYSTLKRLNIFNLILPISIDEAVCVRIIPDNIH---- 176 (434)
T ss_dssp CCTTCBHHHHHTTCCTTCCCEEE--C-----CCHHHHHHHHHHHHHHHHHTTCCSEEEEEETTEEEEEEEECC-------
T ss_pred CCCCCcHHHHHHhCCCCCCEEEE--C-----CChHHHHHHHHHHHHHHHhcCCCCCEEEEcCceeEEcCcCccchh----
Confidence 8999999999999999 9887 5 89999999999999999995 58999999999999 888541
Q ss_pred CCCCCCcchhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhh-CCceeEEecCC
Q 006108 74 ETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKET-EFTCSAGIAHN 152 (661)
Q Consensus 74 ~~~~~~l~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~et-Glt~SiGIA~N 152 (661)
+++ ..+..+|++||++|++++ |||||||||+|
T Consensus 177 ------------------~~~-----------------------------~~~~~la~~Ir~~I~~~~gGlt~svGIa~n 209 (434)
T 2aq4_A 177 ------------------NTN-----------------------------TLNARLCEEIRQEIFQGTNGCTVSIGCSDS 209 (434)
T ss_dssp --------------------------------------------------CHHHHHHHHHHHHHHHHHSSCCEEEEEESS
T ss_pred ------------------hcC-----------------------------CCHHHHHHHHHHHHHHHcCCCcEEEEecCC
Confidence 110 124678999999999999 89999999999
Q ss_pred HHHHHHHhcCCCCCcccccCcccH-HHhcccCCCccccCCchHHHHHHHHh--cCCccHHHHhhC-CHHHHHHHhCcCcH
Q 006108 153 KMLAKLASGMNKPAQQTTVPFSSV-KGLLDSLPIKKMKQLGGKLGTSLQNE--LGVTTVGDLLKF-SEDKLQESYGFNTG 228 (661)
Q Consensus 153 KlLAKLAS~~~KP~G~~vl~~~~v-~~fL~~LPI~kLpGIG~k~~~rL~~~--lGI~TigDL~~l-~~~~L~~~FG~~~G 228 (661)
|+|||||++++||+|+++++++++ ..||+++||++|||||++++++|. . +||+|++||+++ +...|+++||...|
T Consensus 210 k~lAKlAs~~aKp~G~~~l~~~~~~~~~l~~lpv~~l~GiG~~~~~~L~-~~~~GI~ti~dL~~~~~~~~L~~~fG~~~g 288 (434)
T 2aq4_A 210 LVLARLALKMAKPNGYNITFKSNLSEEFWSSFKLDDLPGVGHSTLSRLE-STFDSPHSLNDLRKRYTLDALKASVGSKLG 288 (434)
T ss_dssp HHHHHHHHHHHCSSCEECCCGGGCCHHHHTTCCGGGSTTCCHHHHHHHH-HHTTCCCSHHHHHHHCCHHHHHHHHCSSHH
T ss_pred HHHHHHHHhcCCCCCEEEECChhhHHHHhhcCCcccccCcCHHHHHHHH-HhcCCceEHHHHHhcCCHHHHHHHhCHHHH
Confidence 999999999999999999999887 789999999999999999999997 8 899999999999 99999999996579
Q ss_pred HHHHHHHhCCCCCccc-----cc--CCCccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEEE
Q 006108 229 TWLWNIARGISGEEVQ-----AR--LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 301 (661)
Q Consensus 229 ~~L~~~arGiD~~pV~-----~~--~~~KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLtL 301 (661)
.++|+.|+|+|+++|. +. .++|||+.+++|+ .++.+.+++..+|..|+++|+.||+++ ++.+++|+|
T Consensus 289 ~~l~~~a~G~d~~~v~~~~~~~~~~~~~ksi~~~~tf~--~~~~~~~~l~~~l~~l~~~l~~rLr~~----~~~~~~v~l 362 (434)
T 2aq4_A 289 MKIHLALQGQDDEESLKILYDPKEVLQRKSLSIDINWG--IRFKNITQVDLFIERGCQYLLEKLNEI----NKTTSQITL 362 (434)
T ss_dssp HHHHHHTTTCCCHHHHHHHHCHHHHHSCCCEEEEECSS--CCCSSHHHHHHHHHHHHHHHHHHHHHT----TEEEEEEEE
T ss_pred HHHHHHhcCCCcccccccccCcccCCCCceeEEEEECC--CCCCCHHHHHHHHHHHHHHHHHHHHHc----CCcceEEEE
Confidence 9999999999999985 32 4789999999998 689999999999999999999999985 999999999
Q ss_pred EEeecc-CCCCCCCC-------CcCcceeeCCCcchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccC
Q 006108 302 HASAFK-SSDSDSRK-------KFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASK 373 (661)
Q Consensus 302 ~lr~~~-~~~~~s~~-------~~~srs~~L~~~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~ 373 (661)
++++.. ...+...+ ...+++++++.+|+ ++..|++.+..+|...+ ..+.+||+|||++++
T Consensus 363 ~l~~r~~~~~~~~~ky~g~gd~~~~s~s~~l~~pt~----~~~~i~~~a~~ll~~~~--------~~~~~vR~lgv~~s~ 430 (434)
T 2aq4_A 363 KLMRRCKDAPIEPPKYMGMGRCDSFSRSSRLGIPTN----EFGIIATEMKSLYRTLG--------CPPMELRGLALQFNK 430 (434)
T ss_dssp EEEEECTTSCSSCSSTTCCCSEEEEEEEEEEEEEEC----CHHHHHHHHHHHHHHHT--------CCGGGEEEEEEEEEE
T ss_pred EEEEecCCCCcccccccCCCCcccceEEeecCCCcC----CHHHHHHHHHHHHHHhc--------CCCCCEEEEEEEEeC
Confidence 998422 11111111 13578888888886 67788888888887653 236799999999999
Q ss_pred Ccc
Q 006108 374 IVP 376 (661)
Q Consensus 374 L~~ 376 (661)
|.+
T Consensus 431 l~~ 433 (434)
T 2aq4_A 431 LVD 433 (434)
T ss_dssp EEE
T ss_pred ccc
Confidence 865
No 12
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7
Probab=100.00 E-value=2.6e-39 Score=326.45 Aligned_cols=161 Identities=27% Similarity=0.478 Sum_probs=140.1
Q ss_pred CCCCCcHHHHHHhCCCcEEEeccccCCCCChHHHHHHHHHHHHHHhhc-CCeEEeccceEEEEcCchhhhhhhCCCCCCc
Q 006108 2 VVSSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL 80 (661)
Q Consensus 2 Vk~GMp~~eAkklCP~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~-~~VE~~SIDEayLDlT~~~~~~L~~~~~~~l 80 (661)
|++|||+++|+++||+|+++ | +||+.|+++|++|++++.+| |.||++||||+|||+|+....
T Consensus 60 V~~gm~~~~A~~lcP~l~v~--~-----~~~~~Y~~~s~~i~~~l~~~tp~ve~~siDE~~lDvt~~~~~---------- 122 (221)
T 1im4_A 60 VKAGMPIIKAMQIAPSAIYV--P-----MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG---------- 122 (221)
T ss_dssp CCTTCBHHHHHHHCTTSEEE--E-----CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT----------
T ss_pred CCCCCcHHHHHHHCCCeEEE--C-----CCHHHHHHHHHHHHHHHHHhCCceEEecCCeEEEEecchhhh----------
Confidence 89999999999999999888 4 89999999999999999998 899999999999999996510
Q ss_pred chhhHHHhhhhhccCccCCCCCchhhhhhhhhccCccchhhhhhhHHHHHHHHHHHHHHhhCCceeEEecCCHHHHHHHh
Q 006108 81 DEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLAS 160 (661)
Q Consensus 81 ~~~~~e~~~s~l~g~~~~~g~d~~~~v~~w~~~~~~~~~d~ll~~~~~lA~~IR~~I~~etGlt~SiGIA~NKlLAKLAS 160 (661)
+|| .+..+|++||++|++++|||||+|||+||+|||||+
T Consensus 123 -----------l~~------------------------------~~~~la~~ir~~i~~~~Gl~~svGia~nk~lAKlas 161 (221)
T 1im4_A 123 -----------NFE------------------------------NGIELARKIKQEILEKEKITVTVGVAPNKILAKIIA 161 (221)
T ss_dssp -----------CHH------------------------------HHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHH
T ss_pred -----------ccC------------------------------CHHHHHHHHHHHHHHHhCCeEEEEeCCCHHHHHHHH
Confidence 222 246789999999999999999999999999999999
Q ss_pred cCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHH
Q 006108 161 GMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE 221 (661)
Q Consensus 161 ~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~ 221 (661)
+++||+|+++++++++.+||++|||++|||||++++++|. .+||+|++||+++|+..|++
T Consensus 162 ~~~Kp~g~~~~~~~~~~~~L~~lpv~~l~giG~~~~~~L~-~~Gi~TigdL~~~~~~~L~~ 221 (221)
T 1im4_A 162 DKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLN-ELGIQKLRDILSKNYNELEK 221 (221)
T ss_dssp HHTCSSCEEECCGGGHHHHHHTCBGGGSTTCCHHHHHHHH-HTTCCBTTC-----------
T ss_pred hhcCCCCEEEECHHHHHHHHHhCCcccccCCCHHHHHHHH-HcCCCcHHHHHCCCHHHhhC
Confidence 9999999999999999999999999999999999999997 99999999999999888753
No 13
>1unn_C POL IV, DNA polymerase IV; beta-clamp, translesion, transferase, DNA-directed D polymerase, DNA replication; HET: DNA; 1.9A {Escherichia coli} SCOP: d.240.1.1
Probab=99.01 E-value=4e-10 Score=101.73 Aligned_cols=106 Identities=9% Similarity=0.148 Sum_probs=84.2
Q ss_pred ccccccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeEEE---EEEeeccCCCCCCCCCcCcceeeCCC
Q 006108 250 KSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLT---LHASAFKSSDSDSRKKFPSKSCPLRY 326 (661)
Q Consensus 250 KSIs~e~tF~~~~~i~~~eel~~~L~~L~eeL~~RLr~~~~~~~~~artLt---L~lr~~~~~~~~s~~~~~srs~~L~~ 326 (661)
..+|.+.||+ .++.+.+++..+|..|+++++.||++. + .+++|+ |++++.+ |.+ .+++.+ .
T Consensus 5 ~~~g~e~Tf~--~d~~~~~~l~~~l~~l~~~v~~rLr~~----~-~~~tV~k~~vkir~~d---F~~----~trs~t--~ 68 (115)
T 1unn_C 5 HHVGVERTMA--EDIHHWSECEAIIERLYPELERRLAKV----K-PDLLIARQGVKLKFDD---FQQ----TTQEHV--W 68 (115)
T ss_dssp CEEEEEEEEE--EEECCHHHHHHHHHHHHHHHHHHHHHH----C-TTCBCSEEEEEEEETT---SCE----EEEEEE--C
T ss_pred CCCccceECC--CCCCCHHHHHHHHHHHHHHHHHHHHhh----C-CCCeEEEeEEEEEECC---CCe----EEeccc--c
Confidence 3578999998 799999999999999999999999985 7 999999 9999853 433 356665 4
Q ss_pred cchhhHHhHHHHHHHHHHHHhcccCccccCCCCCCcceeEEEEEccCCccccccccccccc
Q 006108 327 GTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKY 387 (661)
Q Consensus 327 ~t~~i~~da~~L~~aal~l~~~~~~~~l~~~~~~g~~ir~lgVsls~L~~~~~~~~sq~~l 387 (661)
||+ ++..|++++.++|.+.+ .+.+||++||++++|.+.. ..|.+|
T Consensus 69 pt~----~~~~i~~~a~~Ll~~~~---------~~~~vRllGV~ls~L~~~~---~~Ql~L 113 (115)
T 1unn_C 69 PRL----NKADLIATARKTWDERR---------GGRGVRLVGLHVTLLDPQM---ERQLVL 113 (115)
T ss_dssp SBC----CHHHHHHHHHHHHHHHC---------TTCCEEEEEEEEECCCCCC---CCBCCC
T ss_pred CcC----CHHHHHHHHHHHHHhhh---------cCCCEEEEEEEEeCCCCCC---cccCCC
Confidence 665 66778888888887543 4679999999999997652 345544
No 14
>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=96.36 E-value=0.0054 Score=49.35 Aligned_cols=51 Identities=22% Similarity=0.328 Sum_probs=45.1
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCc-HHHHHHHHhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT-GTWLWNIARG 237 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~-G~~L~~~arG 237 (661)
+.+|||||++...+|...+| ++.+|..++.++|.+..|... ++.+|...+.
T Consensus 6 L~~IpGIG~kr~~~LL~~Fg--s~~~i~~As~eeL~~vig~~~~A~~I~~~l~~ 57 (63)
T 2a1j_A 6 LLKMPGVNAKNCRSLMHHVK--NIAELAALSQDELTSILGNAANAKQLYDFIHT 57 (63)
T ss_dssp HHTSTTCCHHHHHHHHHHCS--SHHHHHTCCHHHHHHHHSCHHHHHHHHHHHHC
T ss_pred HHcCCCCCHHHHHHHHHHcC--CHHHHHHCCHHHHHHHcCchHHHHHHHHHHhc
Confidence 45789999999999975555 999999999999999999988 8999998874
No 15
>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=95.93 E-value=0.0045 Score=50.98 Aligned_cols=52 Identities=25% Similarity=0.297 Sum_probs=45.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCc--CcHHHHHHHHhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF--NTGTWLWNIARG 237 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~--~~G~~L~~~arG 237 (661)
|.+|+|||..+..+|. ..||+|+.||+.++...|....|. ..+..++..||.
T Consensus 9 l~~L~Gi~~~~~~kL~-e~Gi~TvedlA~~~~~eL~~i~gise~kA~~ii~aAr~ 62 (70)
T 1wcn_A 9 LLNLEGVDRDLAFKLA-ARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN 62 (70)
T ss_dssp HHSSTTCCHHHHHHHH-TTTCCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHHHHH
T ss_pred HHHcCCCCHHHHHHHH-HcCCCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHH
Confidence 5578899999999998 999999999999999999998883 347778887773
No 16
>2kwv_A RAD30 homolog B, DNA polymerase IOTA; ubiquitin-binding motif, UBM, TL protein binding-signaling protein complex; HET: DNA; NMR {Mus musculus}
Probab=95.61 E-value=0.0053 Score=45.95 Aligned_cols=21 Identities=43% Similarity=0.756 Sum_probs=18.8
Q ss_pred ccCCccccccCChHHHHHHHH
Q 006108 614 EEIDPSVIDELPKEIQDEIQA 634 (661)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~ 634 (661)
+.||+.|+.+||.+||.||-+
T Consensus 14 ~~VD~eVF~~LP~dIQ~Ells 34 (48)
T 2kwv_A 14 EGVDQEVFKQLPADIQEEILS 34 (48)
T ss_dssp TTCCGGGTTTSCHHHHHHHTT
T ss_pred CCCCHHHHHHCcHHHHHHHHh
Confidence 569999999999999999843
No 17
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=95.10 E-value=0.018 Score=49.11 Aligned_cols=51 Identities=24% Similarity=0.314 Sum_probs=44.7
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCc-HHHHHHHHhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT-GTWLWNIARG 237 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~-G~~L~~~arG 237 (661)
|.+|||||++...+|. -...++.+|..++.++|.+.+|... |+.+|.+++.
T Consensus 20 L~~IpGIG~kr~~~LL--~~FgSl~~i~~AS~eEL~~vig~~~~A~~I~~~l~~ 71 (84)
T 1z00_B 20 LLKMPGVNAKNCRSLM--HHVKNIAELAALSQDELTSILGNAANAKQLYDFIHT 71 (84)
T ss_dssp HHTCSSCCHHHHHHHH--HHSSCHHHHHHSCHHHHHHHHSCHHHHHHHHHHHTS
T ss_pred HHhCCCCCHHHHHHHH--HHcCCHHHHHHCCHHHHHHHhCchHHHHHHHHHHHh
Confidence 4568899999999997 4566999999999999999999888 8999998873
No 18
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=94.28 E-value=0.027 Score=48.94 Aligned_cols=35 Identities=17% Similarity=0.306 Sum_probs=30.7
Q ss_pred CCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHH
Q 006108 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKL 219 (661)
Q Consensus 184 PI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L 219 (661)
.|++||+||+++++.|. +.||+|+.||+.+....+
T Consensus 5 ~L~~LPNiG~~~e~~L~-~vGI~s~e~L~~~Ga~~a 39 (93)
T 3bqs_A 5 NLSELPNIGKVLEQDLI-KAGIKTPVELKDVGSKEA 39 (93)
T ss_dssp CGGGSTTCCHHHHHHHH-HTTCCSHHHHHHHHHHHH
T ss_pred HhhcCCCCCHHHHHHHH-HcCCCCHHHHHhCCHHHH
Confidence 47899999999999997 999999999998765543
No 19
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=93.88 E-value=0.047 Score=47.42 Aligned_cols=34 Identities=18% Similarity=0.327 Sum_probs=30.6
Q ss_pred CCccccCCchHHHHHHHHhcCCccHHHHhhCCHHH
Q 006108 184 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDK 218 (661)
Q Consensus 184 PI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~ 218 (661)
.|++||+||+++++.|. +.||.|+.||+.+....
T Consensus 5 ~L~dLPNig~~~e~~L~-~~GI~t~~~Lr~~Ga~~ 38 (93)
T 3mab_A 5 NLSELPNIGKVLEQDLI-KAGIKTPVELKDVGSKE 38 (93)
T ss_dssp CGGGSTTCCHHHHHHHH-HTTCCSHHHHHHHCHHH
T ss_pred HHhhCCCCCHHHHHHHH-HcCCCCHHHHHhCCHHH
Confidence 47899999999999997 99999999999987653
No 20
>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=92.26 E-value=0.1 Score=43.13 Aligned_cols=51 Identities=12% Similarity=0.136 Sum_probs=40.3
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHH
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~a 235 (661)
..+..+||||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++...
T Consensus 24 ~~L~~I~gIG~~~A~~Ll~~fg--sl~~l~~a~~eeL~~i~GIG~~~a~~I~~~~ 76 (78)
T 1kft_A 24 SSLETIEGVGPKRRQMLLKYMG--GLQGLRNASVEEIAKVPGISQGLAEKIFWSL 76 (78)
T ss_dssp CGGGGCTTCSSSHHHHHHHHHS--CHHHHHHCCHHHHTTSSSTTSHHHHHHHHHH
T ss_pred HHHhcCCCCCHHHHHHHHHHcC--CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHH
Confidence 3467899999999999986766 7899999999999887 6665566665543
No 21
>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=92.17 E-value=0.076 Score=47.75 Aligned_cols=56 Identities=18% Similarity=0.202 Sum_probs=47.2
Q ss_pred cCCCcccc--CCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhC--cCcHHHHHHHHhCC
Q 006108 182 SLPIKKMK--QLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYG--FNTGTWLWNIARGI 238 (661)
Q Consensus 182 ~LPI~kLp--GIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG--~~~G~~L~~~arGi 238 (661)
++||.+|+ |||+....+|. ..|+.|+.+|+..++..|...-| ...+..+...++-.
T Consensus 22 ~~~I~~L~~~GIg~~~i~kL~-eAG~~Tve~va~a~~~eL~~i~GIse~ka~kIi~aA~kl 81 (114)
T 1b22_A 22 PQPISRLEQCGINANDVKKLE-EAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKL 81 (114)
T ss_dssp CCCHHHHHHTTCSHHHHHHHH-TTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHH
T ss_pred CccHHHHHhcCCCHHHHHHHH-HcCcCcHHHHHhCCHHHHHHccCCCHHHHHHHHHHHHHH
Confidence 45788888 99999999998 99999999999999999987755 34577788877754
No 22
>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=92.04 E-value=0.18 Score=42.91 Aligned_cols=51 Identities=16% Similarity=0.307 Sum_probs=42.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHHhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIARG 237 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~arG 237 (661)
|..+||||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++..+..
T Consensus 34 L~~IpgIG~~~A~~Ll~~fg--s~~~l~~as~~eL~~i~GIG~~~a~~I~~~l~~ 86 (91)
T 2a1j_B 34 LTTVKSVNKTDSQTLLTTFG--SLEQLIAASREDLALCPGLGPQKARRLFDVLHE 86 (91)
T ss_dssp HTTSTTCCHHHHHHHHHHHS--SHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHHS
T ss_pred HHcCCCCCHHHHHHHHHHCC--CHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHhh
Confidence 45689999999999986676 7899999999999888 777777778776653
No 23
>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=91.94 E-value=0.17 Score=41.96 Aligned_cols=53 Identities=17% Similarity=0.204 Sum_probs=43.5
Q ss_pred ccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHH
Q 006108 181 DSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 181 ~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~a 235 (661)
..+||.++ ++..+...-|. +.||+|++||...+.+.|.+. ||.+....+...+
T Consensus 7 l~~~Ie~L-~LS~Ra~NcLk-ragI~Tv~dL~~~s~~dLlki~n~G~kSl~EI~~~L 61 (73)
T 1z3e_B 7 LEMTIEEL-DLSVRSYNCLK-RAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKL 61 (73)
T ss_dssp HTCBGGGS-CCBHHHHHHHH-HTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred hcCcHHHh-CCCHHHHHHHH-HcCCCcHHHHHcCCHHHHHHcCCCCHHHHHHHHHHH
Confidence 34888888 89999999997 999999999999999998876 7876555555444
No 24
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=91.57 E-value=0.18 Score=42.76 Aligned_cols=51 Identities=16% Similarity=0.307 Sum_probs=42.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHHhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIARG 237 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~arG 237 (661)
+..+||||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++.....
T Consensus 21 L~~IpgIG~~~A~~Ll~~fg--sl~~l~~a~~~eL~~i~GIG~~~a~~I~~~l~~ 73 (89)
T 1z00_A 21 LTTVKSVNKTDSQTLLTTFG--SLEQLIAASREDLALCPGLGPQKARRLFDVLHE 73 (89)
T ss_dssp HTTSSSCCHHHHHHHHHHTC--BHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHS
T ss_pred HHcCCCCCHHHHHHHHHHCC--CHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 45689999999999986666 7899999999999888 777677777777653
No 25
>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=89.53 E-value=0.29 Score=41.17 Aligned_cols=53 Identities=17% Similarity=0.223 Sum_probs=42.8
Q ss_pred hcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHH
Q 006108 179 LLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWN 233 (661)
Q Consensus 179 fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~ 233 (661)
-+..+||.++ ++..+...-|. +.||+|++||...+...|.+. ||.+....+..
T Consensus 12 ~~l~~~Ie~L-~LS~Ra~NcLk-~agI~Tv~dL~~~se~dLlki~n~G~kSl~EI~~ 66 (79)
T 3gfk_B 12 KVLEMTIEEL-DLSVRSYNCLK-RAGINTVQELANKTEEDMMKVRNLGRKSLEEVKA 66 (79)
T ss_dssp CGGGCBGGGS-CCBHHHHHHHH-HTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHH
T ss_pred HHhcCcHHHh-CCCHHHHHHHH-HhCCCCHHHHHhCCHHHHHHcCCCCHhHHHHHHH
Confidence 4557889988 89999999997 999999999999999988765 66654444443
No 26
>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=89.43 E-value=0.068 Score=54.14 Aligned_cols=52 Identities=17% Similarity=0.219 Sum_probs=0.0
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHH
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~a 235 (661)
..|.+|||||++++.+|. ..|+.++.+|...+...|.+. ||.+.++.++..+
T Consensus 15 ~~L~~IpGIGpk~a~~Ll-~~gf~sve~L~~a~~~eL~~v~GIG~ktAe~I~~~l 68 (241)
T 1vq8_Y 15 TELTDISGVGPSKAESLR-EAGFESVEDVRGADQSALADVSGIGNALAARIKADV 68 (241)
T ss_dssp -------------------------------------------------------
T ss_pred hHHhcCCCCCHHHHHHHH-HcCCCCHHHHHhCCHHHHHhccCCCHHHHHHHHHHH
Confidence 467789999999999998 569999999999999999888 7777677665444
No 27
>2khu_A Immunoglobulin G-binding protein G, DNA polymerase IOTA; UBM, ubiquitin-binding domain, translesion synthesis, TLS, ubiquitin-binding protein; NMR {Streptococcus SP} PDB: 2khw_A 2l0f_B*
Probab=89.22 E-value=0.14 Score=44.38 Aligned_cols=29 Identities=41% Similarity=0.793 Sum_probs=21.6
Q ss_pred cCCccccccCChHHHHHH-HHhhCCCCCCC
Q 006108 615 EIDPSVIDELPKEIQDEI-QAWLRPSKRPH 643 (661)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 643 (661)
+|||.|+.|||+|+|+|+ ..|=|..--++
T Consensus 67 ~VDP~VFyeLP~eVQ~ELla~Wr~~~~~~~ 96 (108)
T 2khu_A 67 DIDPQVFYELPEAVQKELLAEWKRTGSDFH 96 (108)
T ss_dssp TCCHHHHTTSCHHHHHHHHHHHHHHC----
T ss_pred CCCHHHHHHccHHHHHHHHHHHHHhCCCCC
Confidence 899999999999999996 45866544433
No 28
>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=88.95 E-value=0.48 Score=40.47 Aligned_cols=53 Identities=19% Similarity=0.283 Sum_probs=43.1
Q ss_pred ccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHH
Q 006108 181 DSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 181 ~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~a 235 (661)
...||.++ ++..+...-|. +.||+|++||...+.+.|.+. ||.+....+...+
T Consensus 10 l~~~I~~L-~LSvRa~NcLk-ragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L 64 (86)
T 3k4g_A 10 LLRPVDDL-ELTVRSANCLX-AEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVL 64 (86)
T ss_dssp GGSBGGGG-CCCHHHHHHHH-HTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred HhCcHHHh-CCCHHHHHHHH-HcCCCcHHHHHhCCHHHHhhccccCcccHHHHHHHH
Confidence 35688888 89999999997 999999999999999988765 7776555555544
No 29
>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=87.80 E-value=0.43 Score=47.61 Aligned_cols=50 Identities=12% Similarity=0.219 Sum_probs=43.8
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCc-CcHHHHHHH
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF-NTGTWLWNI 234 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~-~~G~~L~~~ 234 (661)
-++..|||||++++++|.+.+| ++..|.+.+.++|.+.+|. ..++.++..
T Consensus 168 s~LdgIpGIG~k~ak~Ll~~Fg--Sl~~i~~As~EeL~~VIG~~~~A~~I~~~ 218 (220)
T 2nrt_A 168 SVLDNVPGIGPIRKKKLIEHFG--SLENIRSASLEEIARVIGSTEIARRVLDI 218 (220)
T ss_dssp HHHTTSTTCCHHHHHHHHHHHC--SHHHHHTSCHHHHHHHHTCHHHHHHHHHH
T ss_pred ccccCCCCcCHHHHHHHHHHcC--CHHHHHhCCHHHHHHHhChHHHHHHHHHH
Confidence 4678899999999999987777 8999999999999999998 888877764
No 30
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}
Probab=86.33 E-value=1.7 Score=36.76 Aligned_cols=44 Identities=18% Similarity=0.228 Sum_probs=39.3
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN 226 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~ 226 (661)
.+.++..||+-.-+.++|+ +.||+|+.|+...++.+|.+..|..
T Consensus 3 ~l~~~~~p~Lse~~~~~L~-~~~I~Tv~Dfl~~d~~eL~~~~~ls 46 (83)
T 2kz3_A 3 VLRVGLCPGLTEEMIQLLR-SHRIKTVVDLVSADLEEVAQKCGLS 46 (83)
T ss_dssp CCCTTSSTTCCHHHHHHHH-HTTCCCHHHHTTSCHHHHHHHHTCC
T ss_pred ccccccCCCCCHHHHHHHH-HCCCCCHHHHHhCCHHHHHHHhCCC
Confidence 4556667999999999997 9999999999999999999999963
No 31
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=84.86 E-value=0.42 Score=54.91 Aligned_cols=52 Identities=23% Similarity=0.376 Sum_probs=46.2
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHh
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 236 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~ar 236 (661)
+|+..|||||+..+.+|. ..|++|+.||+ +++..|.+.+|.+.|..++..+.
T Consensus 657 ~~L~qlp~i~~~rar~L~-~~g~~s~~~l~-~~~~~l~~~l~~~~~~~i~~~~~ 708 (715)
T 2va8_A 657 LELVQISGVGRKRARLLY-NNGIKELGDVV-MNPDKVKNLLGQKLGEKVVQEAA 708 (715)
T ss_dssp HHHHTSTTCCHHHHHHHH-HTTCCSHHHHH-HCHHHHHHHHCHHHHHHHHHHHH
T ss_pred cchhhCCCCCHHHHHHHH-HcCCCCHHHHh-CCHHHHHHHhChhHHHHHHHHHH
Confidence 577889999999999997 99999999999 99999999998777888877554
No 32
>1ci4_A Protein (barrier-TO-autointegration factor (BAF) ); DNA binding protein, retroviral integration, preintegration complex; 1.90A {Homo sapiens} SCOP: a.60.5.1 PDB: 1qck_A 2bzf_A 2ezx_A 2ezy_A 2ezz_A 2odg_A
Probab=84.65 E-value=0.57 Score=40.12 Aligned_cols=33 Identities=24% Similarity=0.421 Sum_probs=27.9
Q ss_pred cccCCCccccCCchHHHHHHHHhcCCccHHHHhh
Q 006108 180 LDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK 213 (661)
Q Consensus 180 L~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~ 213 (661)
|..-+|++|||||+.++.+|. .-|+.+..+|..
T Consensus 15 mgeK~V~evpGIG~~~~~~L~-~~Gf~kAy~lLG 47 (89)
T 1ci4_A 15 MGEKPVGSLAGIGEVLGKKLE-ERGFDKAYVVLG 47 (89)
T ss_dssp CTTCCGGGSTTCCHHHHHHHH-HTTCCSHHHHHH
T ss_pred CCCCCcccCCCcCHHHHHHHH-HcCccHHHHHHH
Confidence 334589999999999999997 899999877764
No 33
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=84.24 E-value=0.59 Score=40.86 Aligned_cols=52 Identities=19% Similarity=0.304 Sum_probs=43.3
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHH
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~a 235 (661)
.+||.++ ++..+...-|. +.||+|++||...+...|.+. ||.+....+...+
T Consensus 23 ~~~Ie~L-~LSvRs~NcLk-ragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L 76 (98)
T 1coo_A 23 LRPVDDL-ELTVRSANCLK-AEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 76 (98)
T ss_dssp HSBGGGG-TCCTTTHHHHH-TTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred cCcHHHh-CCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHhcCCCCHHHHHHHHHHH
Confidence 3788888 78889999997 999999999999999998766 8876666565555
No 34
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11
Probab=83.59 E-value=1 Score=47.56 Aligned_cols=54 Identities=24% Similarity=0.266 Sum_probs=44.2
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHh
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIAR 236 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~ar 236 (661)
..+|.+|||||..+.++|. ..|++|+.+++..++..|.+.-|.. .+..+.+.++
T Consensus 34 ~~~l~~l~Gi~~~~~~kL~-~ag~~t~~~~~~~~~~~L~~~~~~s~~~~~~~l~~~~ 89 (349)
T 1pzn_A 34 IRSIEDLPGVGPATAEKLR-EAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAAR 89 (349)
T ss_dssp -CCSSCCTTCCHHHHHHHH-TTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_pred cccHHHcCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHhhcCCCHHHHHHHHHHHh
Confidence 3588999999999999997 9999999999999999999988852 2444555544
No 35
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*
Probab=83.09 E-value=1.3 Score=45.58 Aligned_cols=54 Identities=15% Similarity=0.147 Sum_probs=43.7
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHhC
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARG 237 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~arG 237 (661)
.+|.+|+||++.++.+|+ ..||.|+.||+..++..|.+.-|.. .+..+...|+-
T Consensus 3 ~~~~~l~gi~~~~~~kL~-~~gi~t~~~~~~~~~~~L~~~~gis~~~a~~~i~~a~~ 58 (322)
T 2i1q_A 3 DNLTDLPGVGPSTAEKLV-EAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58 (322)
T ss_dssp --CTTSTTCCHHHHHHHH-HHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHHHHHHH
T ss_pred ccHhhcCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHhhCcCHHHHHHHHHHHHH
Confidence 368889999999999998 9999999999999999999887753 24556666654
No 36
>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=82.83 E-value=1.3 Score=35.54 Aligned_cols=50 Identities=12% Similarity=0.201 Sum_probs=39.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHHh
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIAR 236 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~ar 236 (661)
+..+||||.+++.+|.+.+ .++.+|...+.+.|.+. +|...+..++....
T Consensus 16 L~~i~giG~~~a~~Ll~~f--gs~~~l~~a~~~~L~~i~Gig~~~a~~i~~~~~ 67 (75)
T 1x2i_A 16 VEGLPHVSATLARRLLKHF--GSVERVFTASVAELMKVEGIGEKIAKEIRRVIT 67 (75)
T ss_dssp HTTSTTCCHHHHHHHHHHH--CSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred HcCCCCCCHHHHHHHHHHc--CCHHHHHhCCHHHHhcCCCCCHHHHHHHHHHHh
Confidence 4679999999999998555 46889999999999877 66656666666554
No 37
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA helicase, rnpase, RNA unwindase, molecular model mRNA splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A* 3hib_A
Probab=82.67 E-value=1.4 Score=46.02 Aligned_cols=61 Identities=15% Similarity=0.269 Sum_probs=50.5
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHhCCCCCcc
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGISGEEV 243 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~arGiD~~pV 243 (661)
..|+..|||||+..+++|. ..||.|+.||.+++...+...+|.. .|..++..++....-.|
T Consensus 156 ~~pL~Qlp~i~~~~~~~l~-~~~i~s~~~l~~~~~~e~~~ll~~~~~~~~~v~~~~~~~P~l~v 218 (328)
T 3im1_A 156 DNPLRQIPHFNNKILEKCK-EINVETVYDIMALEDEERDEILTLTDSQLAQVAAFVNNYPNVEL 218 (328)
T ss_dssp SCGGGGSTTCCHHHHHHHH-HTTCCSHHHHHHSCHHHHHHHCCCCHHHHHHHHHHHHHCCCEEE
T ss_pred CCceeCCCCCCHHHHHHHH-hCCCCCHHHHhcCCHHHHHhHhCCCHHHHHHHHHHHHhCCCEEE
Confidence 3578899999999999997 8999999999999999999887742 46778888886654444
No 38
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A
Probab=81.23 E-value=0.6 Score=53.55 Aligned_cols=52 Identities=13% Similarity=0.278 Sum_probs=47.5
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHh
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 236 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~ar 236 (661)
+|+..|||||+..+.+|. ..|++|+.||++++ ..|.+.+|.+.|..++..++
T Consensus 632 ~~L~qlp~v~~~~ar~l~-~~g~~s~~~l~~~~-~~l~~ll~~~~~~~i~~~~~ 683 (702)
T 2p6r_A 632 LELVRIRHIGRVRARKLY-NAGIRNAEDIVRHR-EKVASLIGRGIAERVVEGIS 683 (702)
T ss_dssp HHHHTSTTCCHHHHHHHH-TTTCCSHHHHHHTH-HHHHHHHCHHHHHHHHHHHH
T ss_pred HhhhcCCCCCHHHHHHHH-HcCCCCHHHHHhhh-HHHHHHhChhHHHHHHHhcC
Confidence 567789999999999997 99999999999999 99999998778999998888
No 39
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics, translocase, northeast structural genomics consortium, PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22
Probab=79.73 E-value=1.9 Score=45.32 Aligned_cols=57 Identities=9% Similarity=0.110 Sum_probs=47.0
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHhCCCC
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGISG 240 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~arGiD~ 240 (661)
.|+..|||||+..+++|. ..||.|+.||.+++...+...+|.. .+..+++.++-...
T Consensus 161 ~pL~Qlp~i~~~~~~~l~-~~~i~s~~~l~~~~~~e~~~ll~l~~~~~~~i~~~~~~~P~ 219 (339)
T 2q0z_X 161 SYLKQLPHFTSEHIKRCT-DKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCNRYPN 219 (339)
T ss_dssp CGGGGSTTCCHHHHHHHH-HTTCCSHHHHHHSCHHHHHHHHCCCHHHHHHHHHHHTTSCC
T ss_pred CceecCCCCCHHHHHHHH-hcCCCCHHHHHhCCHHHHHHHHCCCHHHHHHHHHHHHhCCc
Confidence 588999999999999997 9999999999999999998888732 35667776665443
No 40
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Probab=77.67 E-value=1.5 Score=50.50 Aligned_cols=51 Identities=14% Similarity=0.240 Sum_probs=41.5
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHH
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIA 235 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~a 235 (661)
.+|+..|||||+..+.+|. ..||+|+.||+.++++.|... ...|..++..+
T Consensus 645 ~~~L~qlp~v~~~rar~L~-~~G~~s~~dl~~~~~~~l~~~--~~~~~~i~~~~ 695 (720)
T 2zj8_A 645 LIPLMQLPLVGRRRARALY-NSGFRSIEDISQARPEELLKI--EGIGVKTVEAI 695 (720)
T ss_dssp GGGGTTSTTCCHHHHHHHH-TTTCCSHHHHHTCCHHHHHTS--TTCCHHHHHHH
T ss_pred chhhhhCCCCCHHHHHHHH-HcCCCCHHHHHhCCHHHHHHh--HhHHHHHHHHH
Confidence 3688899999999999997 999999999999999999877 22344444444
No 41
>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=76.52 E-value=1.2 Score=43.39 Aligned_cols=54 Identities=17% Similarity=0.156 Sum_probs=43.9
Q ss_pred CccccCCchHHHHHHHHhcCCccHH-HHhhCCHHHHHHH--hCcCcHHHHHHHHhCC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVG-DLLKFSEDKLQES--YGFNTGTWLWNIARGI 238 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~Tig-DL~~l~~~~L~~~--FG~~~G~~L~~~arGi 238 (661)
+..++|||++++.+|...+|-.++- .+...+.+.|.+. .|.+.+++++..+++.
T Consensus 74 L~~v~GIGpk~A~~iL~~f~~~~l~~aI~~~d~~~L~~vpGIG~K~A~rI~~~lk~k 130 (191)
T 1ixr_A 74 LLSVSGVGPKVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIALELKGK 130 (191)
T ss_dssp HHSSSCCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHHHHHTTT
T ss_pred HhcCCCcCHHHHHHHHHhCChHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence 4459999999999998778876665 3677889999988 7777899999888765
No 42
>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=72.15 E-value=1.8 Score=45.66 Aligned_cols=29 Identities=21% Similarity=0.389 Sum_probs=25.5
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 214 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l 214 (661)
+.+|||||++++.+|. ..||+|+.||...
T Consensus 100 l~~V~GiGpk~a~~l~-~~Gi~tledL~~a 128 (335)
T 2fmp_A 100 LTRVSGIGPSAARKFV-DEGIKTLEDLRKN 128 (335)
T ss_dssp HTTSTTCCHHHHHHHH-HTTCCSHHHHHTC
T ss_pred HhCCCCCCHHHHHHHH-HcCCCCHHHHHHh
Confidence 4579999999999998 5599999999973
No 43
>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=71.73 E-value=3.1 Score=40.79 Aligned_cols=50 Identities=10% Similarity=0.248 Sum_probs=41.1
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHHHh
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIAR 236 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~ar 236 (661)
+..+||||++++.+|.+.+| ++.+|...+.+.|... +|.+.+..++...+
T Consensus 164 L~~i~gVg~~~a~~Ll~~fg--s~~~l~~a~~e~L~~v~GiG~~~a~~i~~~~~ 215 (219)
T 2bgw_A 164 LQSFPGIGRRTAERILERFG--SLERFFTASKAEISKVEGIGEKRAEEIKKILM 215 (219)
T ss_dssp HHTSTTCCHHHHHHHHHHHS--SHHHHTTCCHHHHHHSTTCCHHHHHHHHHHHH
T ss_pred HhcCCCCCHHHHHHHHHHcC--CHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHh
Confidence 45799999999999986665 5889999999999888 67777787877665
No 44
>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=71.59 E-value=1.7 Score=42.78 Aligned_cols=54 Identities=15% Similarity=0.111 Sum_probs=43.5
Q ss_pred CccccCCchHHHHHHHHhcCCccHH-HHhhCCHHHHHHH--hCcCcHHHHHHHHhCC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVG-DLLKFSEDKLQES--YGFNTGTWLWNIARGI 238 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~Tig-DL~~l~~~~L~~~--FG~~~G~~L~~~arGi 238 (661)
+..++|||++++.+|...+|..++- .+...+.+.|.+. .|.+.+++++..+++.
T Consensus 75 L~~V~GIGpk~A~~iL~~f~~~~l~~aI~~~d~~~L~~vpGIG~K~A~rI~~elk~k 131 (203)
T 1cuk_A 75 LIKTNGVGPKLALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMKDR 131 (203)
T ss_dssp HHHSSSCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred HhcCCCcCHHHHHHHHhhCChHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHh
Confidence 3458999999999998678876654 5777899999998 7777899998888754
No 45
>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=71.29 E-value=2.9 Score=48.10 Aligned_cols=52 Identities=23% Similarity=0.204 Sum_probs=42.0
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHH
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNI 234 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~ 234 (661)
-..-+|+|+|+++..+|.+..+|.++.||..+..+.|... ||.+.+..|++.
T Consensus 441 r~aldI~GLG~k~i~~L~~~g~I~~~~DL~~L~~e~L~~l~g~G~Ksa~nLl~a 494 (667)
T 1dgs_A 441 RKAMDIEGLGEKLIERLLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQNLLRQ 494 (667)
T ss_dssp TTSSCCTTCCHHHHHHHHHTTSCSSGGGGGGGCCHHHHTTSSCCSTTHHHHHHH
T ss_pred ccccCcCcCCHHHHHHHHHcCCCCCHHHHHhcCHHHHhcccccchhhHHHHHHH
Confidence 3445789999999999987778999999999997777764 887777766644
No 46
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19
Probab=71.10 E-value=1.7 Score=50.94 Aligned_cols=31 Identities=35% Similarity=0.559 Sum_probs=28.5
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhC
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKF 214 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l 214 (661)
.||+.++|||++++++|. ++||.|++||...
T Consensus 115 ~~~~~l~gvg~~~~~~l~-~lgi~~~~dll~~ 145 (780)
T 1gm5_A 115 TDIQYAKGVGPNRKKKLK-KLGIETLRDLLEF 145 (780)
T ss_dssp CCSSSSSSCCHHHHHHHH-TTTCCSSGGGTSC
T ss_pred CCchhcCCCCHHHHHHHH-HCCCCcHHHHHhh
Confidence 489999999999999997 9999999999863
No 47
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Probab=69.79 E-value=5 Score=43.26 Aligned_cols=57 Identities=25% Similarity=0.218 Sum_probs=45.5
Q ss_pred hcccCCCccccC--CchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCc--HHHHHHHHh
Q 006108 179 LLDSLPIKKMKQ--LGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT--GTWLWNIAR 236 (661)
Q Consensus 179 fL~~LPI~kLpG--IG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~--G~~L~~~ar 236 (661)
.-..++|.+|.+ |++.+.++|. ..|+.|+.+|+..++..|.+..|... ...+...++
T Consensus 77 ~~~~~~~~~l~~~gi~~~~~~~L~-~ag~~tv~~~~~~~~~~L~~~~gis~~~~~~i~~~a~ 137 (400)
T 3lda_A 77 LGSFVPIEKLQVNGITMADVKKLR-ESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAA 137 (400)
T ss_dssp -CCSCBGGGGCCTTCCHHHHHHHH-HTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred ccCccCHHHHHhCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 345678999986 8899999997 99999999999999999999988632 344455444
No 48
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=69.25 E-value=2.5 Score=44.56 Aligned_cols=27 Identities=15% Similarity=0.203 Sum_probs=24.5
Q ss_pred ccccCCchHHHHHHHHhcCCccHHHHhh
Q 006108 186 KKMKQLGGKLGTSLQNELGVTTVGDLLK 213 (661)
Q Consensus 186 ~kLpGIG~k~~~rL~~~lGI~TigDL~~ 213 (661)
.+|||||++++.+|. ..||+|+.||..
T Consensus 99 ~~v~GiG~k~a~~l~-~~Gi~tledL~~ 125 (335)
T 2bcq_A 99 SNIWGAGTKTAQMWY-QQGFRSLEDIRS 125 (335)
T ss_dssp HTSTTCCHHHHHHHH-HTTCCSHHHHHH
T ss_pred hcCCCcCHHHHHHHH-HcCCCCHHHHHH
Confidence 479999999999998 569999999986
No 49
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*
Probab=69.14 E-value=0.98 Score=46.86 Aligned_cols=42 Identities=19% Similarity=0.235 Sum_probs=0.0
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCc
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF 225 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~ 225 (661)
.||.+||||++.+.++|+ ..|++|+.+++..++..|.+..|.
T Consensus 12 ~~~~~l~g~~~~~~~~l~-~~g~~t~~~~~~~~~~~l~~~~g~ 53 (324)
T 2z43_A 12 KTINDLPGISQTVINKLI-EAGYSSLETLAVASPQDLSVAAGI 53 (324)
T ss_dssp -------------------------------------------
T ss_pred ccHHHcCCCCHHHHHHHH-HcCCCcHHHHHcCCHHHHHHhhCC
Confidence 488999999999999997 999999999999998888887774
No 50
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=68.80 E-value=1 Score=45.11 Aligned_cols=52 Identities=13% Similarity=0.162 Sum_probs=0.0
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH-hCcCcHHHHHHHH
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES-YGFNTGTWLWNIA 235 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~-FG~~~G~~L~~~a 235 (661)
..++..|||||++++++|.+.+ .++..|.+.+.+.|.+. +|...++.++...
T Consensus 172 ~s~L~~IpGIG~k~ak~Ll~~F--GSl~~i~~As~eeL~~VGIG~~~A~~I~~~f 224 (226)
T 3c65_A 172 HSVLDDIPGVGEKRKKALLNYF--GSVKKMKEATVEELQRANIPRAVAEKIYEKL 224 (226)
T ss_dssp -------------------------------------------------------
T ss_pred cccccccCCCCHHHHHHHHHHh--CCHHHHHhCCHHHHHHcCCCHHHHHHHHHHh
Confidence 4567889999999999998544 56788888898999888 5555566665543
No 51
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=68.50 E-value=3.5 Score=47.46 Aligned_cols=54 Identities=24% Similarity=0.216 Sum_probs=43.0
Q ss_pred ccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHHH
Q 006108 181 DSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNI 234 (661)
Q Consensus 181 ~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~~ 234 (661)
.+-..-+|+|+|.++..+|.+..+|+++.||..+..+.|... ||.+.+..|++.
T Consensus 444 ~sr~aldI~GLG~k~i~~L~~~g~I~~~aDL~~L~~~~L~~l~gfG~Ksa~nLl~a 499 (671)
T 2owo_A 444 VSRRAMDVDGMGDKIIDQLVEKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNA 499 (671)
T ss_dssp HSTTTTCCTTCCHHHHHHHHHTTCCSSGGGGGTCCHHHHHTSTTCCHHHHHHHHHH
T ss_pred hhhhhcCCCCCCHHHHHHHHHcCCCCCHHHHHhhCHHHhhcccccchhHHHHHHHH
Confidence 344566799999999999986677999999999998888774 777666666644
No 52
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=67.73 E-value=2.2 Score=45.41 Aligned_cols=28 Identities=18% Similarity=0.270 Sum_probs=24.8
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhh
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLK 213 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~ 213 (661)
+.+|||||++++.+|. ..||+|+.||..
T Consensus 104 l~~I~GvG~kta~~l~-~~Gi~tledL~~ 131 (360)
T 2ihm_A 104 FTQVFGVGVKTANRWY-QEGLRTLDELRE 131 (360)
T ss_dssp HHTSTTCCHHHHHHHH-HTTCCSHHHHHT
T ss_pred HhCCCCCCHHHHHHHH-HcCCCCHHHHHh
Confidence 4579999999999998 559999999984
No 53
>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=66.77 E-value=2.4 Score=45.54 Aligned_cols=28 Identities=14% Similarity=0.214 Sum_probs=24.9
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhh
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLK 213 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~ 213 (661)
+.+|||||++++.+|. ..||+|+.||..
T Consensus 123 l~~I~GvGpk~a~~ly-~~Gi~tledL~~ 150 (381)
T 1jms_A 123 FTSVFGVGLKTAEKWF-RMGFRTLSKIQS 150 (381)
T ss_dssp HHTSTTCCHHHHHHHH-HTTCCSHHHHHH
T ss_pred HHccCCCCHHHHHHHH-HcCCCcHHHHHh
Confidence 4579999999999998 559999999995
No 54
>3sei_A Caskin-1; SAM domain, protein-protein interaction, signaling protein; 2.40A {Homo sapiens} PDB: 3sen_A
Probab=66.44 E-value=11 Score=34.97 Aligned_cols=76 Identities=17% Similarity=0.184 Sum_probs=55.2
Q ss_pred HhhCCceeEEecCCHHHHHHHhcCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHH
Q 006108 139 KETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDK 218 (661)
Q Consensus 139 ~etGlt~SiGIA~NKlLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~ 218 (661)
+++|++- .++-|-+-+-...+.+|+......|..+.+||..+ |++ +....+. ..|+.+...|..++.+.
T Consensus 48 ~~lGIt~---~gHrkkil~ai~~L~~~~~~~~~~p~~v~~WL~~i------gL~-qY~~~F~-~~g~d~~~~l~~lt~~d 116 (149)
T 3sei_A 48 TAIGVTK---PGHRKKIAAEISGLSIPDWLPEHKPANLAVWLSMI------GLA-QYYKVLV-DNGYENIDFITDITWED 116 (149)
T ss_dssp HHTTCCS---HHHHHHHHHHHHTCCCCCCSCSSCCSCHHHHHHHT------TCG-GGHHHHH-HTTCCSHHHHTTCCHHH
T ss_pred HHcCCCC---HHHHHHHHHHHHHHHhccccCCCCcccHHHHHHHc------Cch-hhHHHHH-HCCCchHHHHhhCCHHH
Confidence 4666654 24555555555567777765455677899999988 443 5667776 89999999999999999
Q ss_pred HHHHhCcC
Q 006108 219 LQESYGFN 226 (661)
Q Consensus 219 L~~~FG~~ 226 (661)
| ..+|+.
T Consensus 117 L-~~lGI~ 123 (149)
T 3sei_A 117 L-QEIGIT 123 (149)
T ss_dssp H-HHHTCC
T ss_pred H-HHCCCC
Confidence 9 568874
No 55
>3ai4_A Yeast enhanced green fluorescent protein, DNA POL IOTA; UBM, ubiquitin-binding motif, GFP, fusion, fluorescent prote replication; HET: CR2; 1.60A {Aequorea victoria} PDB: 2kwu_A* 2ktf_B* 2l0g_A*
Probab=62.37 E-value=2.2 Score=43.63 Aligned_cols=24 Identities=50% Similarity=0.945 Sum_probs=19.8
Q ss_pred ccCCccccccCChHHHHHHH-HhhC
Q 006108 614 EEIDPSVIDELPKEIQDEIQ-AWLR 637 (661)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~-~~~~ 637 (661)
-++||.|+.|||+|.|+|+- .|=|
T Consensus 249 ~~vd~~vf~~lp~~vq~el~~~w~~ 273 (283)
T 3ai4_A 249 PDIDPQVFYELPEEVQKELMAEWER 273 (283)
T ss_dssp TTSCHHHHTTSCHHHHHHTTGGGC-
T ss_pred CCCCHHHHHhCCHHHHHHHHHHHHh
Confidence 36999999999999999974 5655
No 56
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=62.30 E-value=4.5 Score=32.78 Aligned_cols=30 Identities=23% Similarity=0.311 Sum_probs=23.7
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 214 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l 214 (661)
+..+||||++++.++.+..+..++.||..+
T Consensus 29 L~~ipGIG~~~A~~Il~~r~~~s~~eL~~v 58 (75)
T 2duy_A 29 LMALPGIGPVLARRIVEGRPYARVEDLLKV 58 (75)
T ss_dssp HTTSTTCCHHHHHHHHHTCCCSSGGGGGGS
T ss_pred HHhCCCCCHHHHHHHHHHcccCCHHHHHhC
Confidence 345799999999999866677788887754
No 57
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=56.29 E-value=3.3 Score=46.76 Aligned_cols=29 Identities=24% Similarity=0.236 Sum_probs=24.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 214 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l 214 (661)
+.+|||||++++.+|. .-||.|+.||...
T Consensus 99 L~~v~GVGpk~A~~i~-~~G~~s~edL~~a 127 (578)
T 2w9m_A 99 LLGVRGLGPKKIRSLW-LAGIDSLERLREA 127 (578)
T ss_dssp HTTSTTCCHHHHHHHH-HTTCCSHHHHHHH
T ss_pred HhCCCCcCHHHHHHHH-HcCCCCHHHHHHH
Confidence 3568999999999988 5599999999863
No 58
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=55.09 E-value=11 Score=40.74 Aligned_cols=50 Identities=12% Similarity=0.216 Sum_probs=38.9
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHhCCC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGIS 239 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~arGiD 239 (661)
|+.|+|||+.++++|.+.+| |+.-+...+.+.|+. -|. |..-.+...|+.
T Consensus 470 LtAIaGIGp~tAeRLLEkFG--SVe~Vm~AteDELRe-dGI--GekqarrI~gl~ 519 (685)
T 4gfj_A 470 LISIRGIDRERAERLLKKYG--GYSKVREAGVEELRE-DGL--TDAQIRELKGLK 519 (685)
T ss_dssp HHTSTTCCHHHHHHHHHHHT--SHHHHHHSCHHHHHH-TTC--CHHHHHHHHTCH
T ss_pred eeccCCCCHHHHHHHHHHhc--CHHHHHhCCHHHHHH-ccc--cHHHHHHHhhHH
Confidence 45689999999999998888 778888888888855 664 666666777763
No 59
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=55.01 E-value=8.7 Score=43.53 Aligned_cols=50 Identities=26% Similarity=0.299 Sum_probs=41.3
Q ss_pred CccccCCchHHHHHHHHhcC-CccHHHHhhCCHHHHHH--HhCcCcHHHHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELG-VTTVGDLLKFSEDKLQE--SYGFNTGTWLWNIA 235 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lG-I~TigDL~~l~~~~L~~--~FG~~~G~~L~~~a 235 (661)
-=+|-|+|.++.++|. ..| |+++.||..|+.+.|.. .||.+.+..|++..
T Consensus 448 amdI~GlG~~~i~~L~-~~g~i~~~~Dly~L~~~~L~~l~g~geKsa~nL~~aI 500 (586)
T 4glx_A 448 AMDVDGMGDKIIDQLV-EKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNAL 500 (586)
T ss_dssp TTCCTTCCHHHHHHHH-HTTCCSSGGGGGTCCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred cccCCCcCHHHHHHHH-hcCCCCCHHHHhCCCHHHHhcccCccHHHHHHHHHHH
Confidence 3457799999999998 777 69999999999999886 48877777776654
No 60
>2e8m_A Epidermal growth factor receptor kinase substrate 8; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=54.25 E-value=13 Score=32.28 Aligned_cols=52 Identities=25% Similarity=0.320 Sum_probs=39.9
Q ss_pred cccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHh
Q 006108 173 FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 236 (661)
Q Consensus 173 ~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~ar 236 (661)
++++..+|.. .|+...+. +.||+.|-.||..|++++|+.++| + |.+||..+.
T Consensus 36 p~EV~~WL~~------kgFS~~tv----~~Lg~ltGaqLl~Ltk~eL~~vCg-E-G~RlysqL~ 87 (99)
T 2e8m_A 36 PEDVKTWLQS------KGFNPVTV----NSLGVLNGAQLFSLNKDELRTVCP-E-GARVYSQIT 87 (99)
T ss_dssp TTHHHHHHHH------HTCCHHHH----HHTSSSCHHHHHHCCHHHHHHHCT-T-HHHHHHHHH
T ss_pred HHHHHHHHHH------cCCCHHHH----HHHcCCCHHHHHcCCHHHHHHHCC-c-hHHHHHHHH
Confidence 4566666643 25554443 378999999999999999999999 5 999998764
No 61
>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=51.56 E-value=8.4 Score=38.06 Aligned_cols=52 Identities=12% Similarity=0.019 Sum_probs=42.2
Q ss_pred ccCCchHHHHHHHHhcCCccHH-HHhhCCHHHHHHH--hCcCcHHHHHHHHhCCC
Q 006108 188 MKQLGGKLGTSLQNELGVTTVG-DLLKFSEDKLQES--YGFNTGTWLWNIARGIS 239 (661)
Q Consensus 188 LpGIG~k~~~rL~~~lGI~Tig-DL~~l~~~~L~~~--FG~~~G~~L~~~arGiD 239 (661)
++|||++++.++...+|..++. .+..-+.+.|.+. .|.+.++++...+++.-
T Consensus 93 v~GIGpk~A~~Ils~~~~~~l~~aI~~~d~~~L~~vpGIG~KtA~rIi~elk~kl 147 (212)
T 2ztd_A 93 VSGVGPRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRDKV 147 (212)
T ss_dssp STTCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTTTC
T ss_pred cCCcCHHHHHHHHHhCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhh
Confidence 8899999999988788988876 4667788888887 56677888888888764
No 62
>1wwu_A Hypothetical protein FLJ21935; structural genomics, protein regulation, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens}
Probab=50.86 E-value=17 Score=31.60 Aligned_cols=53 Identities=19% Similarity=0.377 Sum_probs=41.1
Q ss_pred cccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcCcHHHHHHHHh
Q 006108 173 FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 236 (661)
Q Consensus 173 ~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~~G~~L~~~ar 236 (661)
++++..+|.. .|+...+. +.||+.|-.||..+++++|+..+|. -|.+||..+.
T Consensus 26 p~EV~~WL~~------kgFS~~tv----~~Lg~ltGaqLf~Ltk~eL~~vCg~-EG~RlysqL~ 78 (99)
T 1wwu_A 26 PDEVRAWLEA------KAFSPRIV----ENLGILTGPQLFSLNKEELKKVCGE-EGVRVYSQLT 78 (99)
T ss_dssp HHHHHHHHHH------HTCCTTHH----HHTTSSCHHHHHTCCHHHHHHHHTT-THHHHHHHHH
T ss_pred HHHHHHHHHH------cCCCHHHH----HHHcCCCHHHHHcCCHHHHHHHCcc-hhHHHHHHHH
Confidence 4567777653 25555543 3789999999999999999999995 6999998765
No 63
>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=50.25 E-value=16 Score=29.63 Aligned_cols=48 Identities=25% Similarity=0.241 Sum_probs=37.6
Q ss_pred ccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCc--CcHHHHHHHHh
Q 006108 188 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF--NTGTWLWNIAR 236 (661)
Q Consensus 188 LpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~--~~G~~L~~~ar 236 (661)
..||+...+.+|. .-|+.|+.+++..|...|..+=|. .....|...++
T Consensus 11 ~lgI~e~~a~~L~-~~Gf~tve~vA~~~~~eL~~I~G~dE~~a~~l~~~A~ 60 (70)
T 1u9l_A 11 YLDIDEDFATVLV-EEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAK 60 (70)
T ss_dssp HHTCCHHHHHHHH-HTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred hCCCCHHHHHHHH-HcCcCcHHHHHcCCHHHHhhccCCCHHHHHHHHHHHH
Confidence 3499999999998 999999999999999999876553 33455555443
No 64
>3tvk_A DGC, diguanylate cyclase YDEH; putative zinc sensor, C-DI-GMP, transfe; HET: C2E; 1.80A {Escherichia coli}
Probab=50.10 E-value=25 Score=33.17 Aligned_cols=25 Identities=16% Similarity=0.159 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHh--------hCCceeEEecC
Q 006108 127 VLIVTELRMQVLKE--------TEFTCSAGIAH 151 (661)
Q Consensus 127 ~~lA~~IR~~I~~e--------tGlt~SiGIA~ 151 (661)
..++.+|++.|.+. ..+++|+||+.
T Consensus 98 ~~~~~~i~~~i~~~~~~~~~~~~~vt~SiGia~ 130 (179)
T 3tvk_A 98 CRAGVRICQLVDNHAITHSEGHINITVTAGVSR 130 (179)
T ss_dssp HHHHHHHHHHHHHSCEEETTEEECCCEEEEEEE
T ss_pred HHHHHHHHHHHHcCCcccCCceEEEEEEEEEEe
Confidence 45677777777542 36899999983
No 65
>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=49.43 E-value=7.9 Score=43.56 Aligned_cols=80 Identities=15% Similarity=0.163 Sum_probs=55.2
Q ss_pred EecCCHHHHHHHhcCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhh-CCHHHHHHHhCcC
Q 006108 148 GIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK-FSEDKLQESYGFN 226 (661)
Q Consensus 148 GIA~NKlLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~-l~~~~L~~~FG~~ 226 (661)
|||+.+-++-+.. ..+...+++...+..-.|.++||||+|+++++. +|+....|+.. ++..+...
T Consensus 100 GvGpk~A~~~~~~-------lg~~~~~~l~~a~~~~~l~~~~GiG~k~a~~i~--~~l~~~~~~~~r~~~~e~~~----- 165 (575)
T 3b0x_A 100 GVGPKTARLLYEG-------LGIDSLEKLKAALDRGDLTRLKGFGPKRAERIR--EGLALAQAAGKRRPLGAVLS----- 165 (575)
T ss_dssp TTCHHHHHHHHHT-------SCCCSHHHHHHHHHHTGGGGSTTCCHHHHHHHH--HHHHHHHHHTCCEEHHHHHH-----
T ss_pred CcCHHHHHHHHHh-------cCCCCHHHHHHHHHcCCcccCCCCCccHHHHHH--HHHHHHHHhccceeHHHHHH-----
Confidence 8888766665553 123455666665555558899999999999984 88888888865 56666554
Q ss_pred cHHHHHHHHhCCCCC
Q 006108 227 TGTWLWNIARGISGE 241 (661)
Q Consensus 227 ~G~~L~~~arGiD~~ 241 (661)
.+..+...++++++.
T Consensus 166 ~~~~i~~~l~~~~~~ 180 (575)
T 3b0x_A 166 LARSLLEAIRALPGV 180 (575)
T ss_dssp HHHHHHHHHHTSTTC
T ss_pred HHHHHHHHHHhCCCC
Confidence 355577778877653
No 66
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B
Probab=46.75 E-value=14 Score=47.01 Aligned_cols=56 Identities=9% Similarity=0.110 Sum_probs=46.6
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHhCCC
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGIS 239 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~arGiD 239 (661)
.|+..|||||+..+++|. ..||+|+.||+.++...+...++.. .+..+.+.++...
T Consensus 1557 ~~L~qip~i~~~~ar~l~-~~gi~t~~dl~~~~~~~~~~ll~~~~~~~~~i~~~~~~~P 1614 (1724)
T 4f92_B 1557 SYLKQLPHFTSEHIKRCT-DKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCNRYP 1614 (1724)
T ss_dssp CGGGGSTTCCHHHHHHHH-HHTCCSHHHHHSSCHHHHTTSSCCCHHHHHHHHHHHHHSC
T ss_pred cCEecCCCCCHHHHHHHH-HCCCCCHHHHHhCCHHHHHHHHCCChHHHHHHHHHHHhCC
Confidence 578999999999999997 9999999999999999998888742 3555666666543
No 67
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Probab=44.31 E-value=4.7 Score=42.13 Aligned_cols=54 Identities=13% Similarity=0.129 Sum_probs=0.0
Q ss_pred cC-CCcccc--CCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC--cHHHHHHHHh
Q 006108 182 SL-PIKKMK--QLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIAR 236 (661)
Q Consensus 182 ~L-PI~kLp--GIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~--~G~~L~~~ar 236 (661)
++ ||.+|+ ||+..+..+|. ..|++|+.||+..++..|.+..|.. ....+.+.+.
T Consensus 23 ~~~~~~~l~~~g~~~~~~~~l~-~~g~~t~~~~~~~~~~~l~~~~~is~~~~~~~~~~a~ 81 (343)
T 1v5w_A 23 LFQDIDLLQKHGINVADIKKLK-SVGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAAN 81 (343)
T ss_dssp ------------------------------------------------------------
T ss_pred ccCcHHHHhhCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHhhCCCHHHHHHHHHHHH
Confidence 44 889998 99999999997 9999999999999998888776642 2344444444
No 68
>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=38.72 E-value=13 Score=41.87 Aligned_cols=51 Identities=16% Similarity=0.218 Sum_probs=34.3
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCC-HHHHHHH--hCcCcHHHHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFS-EDKLQES--YGFNTGTWLWNIA 235 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~-~~~L~~~--FG~~~G~~L~~~a 235 (661)
+..+||||++++.++...+|+.|+.||...- ...|.+. ||.++++++...+
T Consensus 95 l~~v~GvGpk~A~~~~~~lg~~~~~~l~~a~~~~~l~~~~GiG~k~a~~i~~~l 148 (575)
T 3b0x_A 95 VMEVPGVGPKTARLLYEGLGIDSLEKLKAALDRGDLTRLKGFGPKRAERIREGL 148 (575)
T ss_dssp HHTSTTTCHHHHHHHHHTSCCCSHHHHHHHHHHTGGGGSTTCCHHHHHHHHHHH
T ss_pred HhcCCCcCHHHHHHHHHhcCCCCHHHHHHHHHcCCcccCCCCCccHHHHHHHHH
Confidence 3468999999999987468999999998631 1224332 5555565553333
No 69
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=37.72 E-value=18 Score=35.60 Aligned_cols=16 Identities=25% Similarity=0.441 Sum_probs=13.9
Q ss_pred CccccCCchHHHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQ 200 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~ 200 (661)
+++|||||+|++.||.
T Consensus 28 l~~LPGIG~KsA~RlA 43 (212)
T 3vdp_A 28 LSKLPGIGPKTAQRLA 43 (212)
T ss_dssp HHTSTTCCHHHHHHHH
T ss_pred HHHCCCCCHHHHHHHH
Confidence 4678999999999995
No 70
>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=37.66 E-value=21 Score=30.83 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=23.6
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhC
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 214 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l 214 (661)
+..|||||++++.++-+.=+.+++.||...
T Consensus 28 L~~lpGIG~~~A~~IV~~GpF~s~edL~~V 57 (97)
T 3arc_U 28 FIQYRGLYPTLAKLIVKNAPYESVEDVLNI 57 (97)
T ss_dssp GGGSTTCTTHHHHHHHHHCCCSSGGGGGGC
T ss_pred HhHCCCCCHHHHHHHHHcCCCCCHHHHHhc
Confidence 456899999999999843347888888865
No 71
>3hva_A Protein FIMX; ggdef diguanylate cyclase, biofilm, C-DI-GMP, transferase; 2.04A {Pseudomonas aeruginosa PAO1}
Probab=35.33 E-value=1e+02 Score=27.44 Aligned_cols=25 Identities=24% Similarity=0.206 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHH--------hhCCceeEEecC
Q 006108 127 VLIVTELRMQVLK--------ETEFTCSAGIAH 151 (661)
Q Consensus 127 ~~lA~~IR~~I~~--------etGlt~SiGIA~ 151 (661)
..++.+|+..+.+ ...+++|+||+.
T Consensus 109 ~~~~~~i~~~~~~~~~~~~~~~~~~~~siGi~~ 141 (177)
T 3hva_A 109 QAALQRLLKKVENHLFELNGRSAQATLSIGVAG 141 (177)
T ss_dssp HHHHHHHHHHHHTCCEEETTEEECCCEEEEEEE
T ss_pred HHHHHHHHHHHHhCccccCCceeeEEEEEEEEE
Confidence 4567888888865 235899999984
No 72
>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=34.20 E-value=17 Score=38.26 Aligned_cols=52 Identities=12% Similarity=0.245 Sum_probs=31.1
Q ss_pred CccccCCchHHHHHHHHhc---CCccHHHHhhCCHHHHHHHh------CcCcHHHHHHHHhCCCC
Q 006108 185 IKKMKQLGGKLGTSLQNEL---GVTTVGDLLKFSEDKLQESY------GFNTGTWLWNIARGISG 240 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~l---GI~TigDL~~l~~~~L~~~F------G~~~G~~L~~~arGiD~ 240 (661)
+..|||||++++.++.+-+ .+..+.+|..- .. +.+.| |++++..+|+. |+..
T Consensus 59 l~~lpGIG~~~A~kI~E~l~tG~~~~le~l~~~-~p-~l~ll~~v~GiG~k~a~~l~~~--Gi~t 119 (335)
T 2bcq_A 59 ACSIPGIGKRMAEKIIEILESGHLRKLDHISES-VP-VLELFSNIWGAGTKTAQMWYQQ--GFRS 119 (335)
T ss_dssp HHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTT-HH-HHHHHHTSTTCCHHHHHHHHHT--TCCS
T ss_pred HhcCCCccHHHHHHHHHHHHcCCchHHHHHhhh-hH-HHHHHhcCCCcCHHHHHHHHHc--CCCC
Confidence 5679999999999987322 24444555321 11 33344 45566767764 7765
No 73
>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=32.51 E-value=23 Score=30.16 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=19.9
Q ss_pred ccccCCchHHHHHHHHhc----CCccHHHHhhC
Q 006108 186 KKMKQLGGKLGTSLQNEL----GVTTVGDLLKF 214 (661)
Q Consensus 186 ~kLpGIG~k~~~rL~~~l----GI~TigDL~~l 214 (661)
..|||||++++.++.+.. .+.++.||..+
T Consensus 43 ~~ipGIG~~~A~~Il~~r~~~g~f~s~edL~~v 75 (98)
T 2edu_A 43 RSLQRIGPKKAQLIVGWRELHGPFSQVEDLERV 75 (98)
T ss_dssp HHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGS
T ss_pred HHCCCCCHHHHHHHHHHHHhcCCcCCHHHHHhC
Confidence 457899999888776433 35667777654
No 74
>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=31.70 E-value=28 Score=30.98 Aligned_cols=36 Identities=11% Similarity=0.265 Sum_probs=26.0
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
|+.|.|||..++..+...+||.--.-+-.++.+++.
T Consensus 18 Lt~I~GIG~~~A~~I~~~~gid~~~r~~~Lt~~ei~ 53 (114)
T 3r8n_M 18 LTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQID 53 (114)
T ss_dssp GGGSTTCCHHHHHHHHHHTTCCTTCCSTTCCHHHHH
T ss_pred HhhhcCcCHHHHHHHHHHcCcCcccCcccCCHHHHH
Confidence 578999999999998889999644344444555544
No 75
>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=31.35 E-value=25 Score=34.98 Aligned_cols=28 Identities=14% Similarity=0.336 Sum_probs=19.9
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
+++|||||+|++.||. -.|.+.+.+.+.
T Consensus 14 l~~LPGIG~KSA~RlA--------~hLL~~~~~~~~ 41 (228)
T 1vdd_A 14 LSRLPGIGPKSAQRLA--------FHLFEQPREDIE 41 (228)
T ss_dssp HHTSTTCCHHHHHHHH--------HHHSSSCHHHHH
T ss_pred HhHCCCCCHHHHHHHH--------HHHHcCCHHHHH
Confidence 4568999999999995 345555555443
No 76
>2okq_A Hypothetical protein YBAA; YBAA protein, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; 1.80A {Shigella flexneri} SCOP: d.58.4.18
Probab=31.05 E-value=53 Score=30.26 Aligned_cols=40 Identities=18% Similarity=0.293 Sum_probs=30.6
Q ss_pred CcEEEeccccCCCCChHHHHHHHHHHHHHHhhcCCeEEeccceEEEE
Q 006108 17 QIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLD 63 (661)
Q Consensus 17 ~L~iV~VP~~~~k~d~~~Yr~~S~~V~~iL~~~~~VE~~SIDEayLD 63 (661)
+.-++.|| +.+.+.|++.+++.-.++.+|..++.. |||-|
T Consensus 29 DGFv~pVP----~ankeaY~~~A~~a~~vfke~GAl~~v---EcWgd 68 (141)
T 2okq_A 29 DGFVVAVP----ADKKDAYREMAAKAAPLFKEFGALRIV---ECWAS 68 (141)
T ss_dssp EEEEEEEE----GGGHHHHHHHHHHHHHHHHHTTCSEEE---EEEEE
T ss_pred EEEEEECc----HHHHHHHHHHHHHHHHHHHHhCCeeee---eeecc
Confidence 34466678 599999999999999999999655443 55653
No 77
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=30.66 E-value=21 Score=40.09 Aligned_cols=77 Identities=13% Similarity=0.076 Sum_probs=54.7
Q ss_pred EecCCHHHHHHHhcCCCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhh-CCHHHHHHHhCcC
Q 006108 148 GIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK-FSEDKLQESYGFN 226 (661)
Q Consensus 148 GIA~NKlLAKLAS~~~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~-l~~~~L~~~FG~~ 226 (661)
|||+.+-++-+.. | +...+++...+..-.|.++||||+|+++++. .||....++.. ++..+...
T Consensus 104 GVGpk~A~~i~~~------G--~~s~edL~~a~~~~~L~~~~GiG~Ktaq~I~--~~l~~~~~~~~r~~~~e~~~----- 168 (578)
T 2w9m_A 104 GLGPKKIRSLWLA------G--IDSLERLREAAESGELAGLKGFGAKSAATIL--ENVVFLFEARQRQSLRAGLA----- 168 (578)
T ss_dssp TCCHHHHHHHHHT------T--CCSHHHHHHHHHHTTTTTSTTCCHHHHHHHH--HHHHHHHHHCSSEEHHHHHH-----
T ss_pred CcCHHHHHHHHHc------C--CCCHHHHHHHHhhCccccCCCCCHHHHHHHH--HHHHHHHhhcCCeeHHHHHH-----
Confidence 9999777766653 2 3456677666655689999999999999984 67777777764 46655543
Q ss_pred cHHHHHHHHhCCC
Q 006108 227 TGTWLWNIARGIS 239 (661)
Q Consensus 227 ~G~~L~~~arGiD 239 (661)
.+..+...+++++
T Consensus 169 ~~~~i~~~l~~~~ 181 (578)
T 2w9m_A 169 VAEELAGALTDLS 181 (578)
T ss_dssp HHHHHHHHTGGGC
T ss_pred HHHHHHHHHHhCC
Confidence 3455777777776
No 78
>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=30.63 E-value=31 Score=31.67 Aligned_cols=29 Identities=17% Similarity=0.179 Sum_probs=24.1
Q ss_pred ccccCCchHHHHHHHHhc-CCccHHHHhhCC
Q 006108 186 KKMKQLGGKLGTSLQNEL-GVTTVGDLLKFS 215 (661)
Q Consensus 186 ~kLpGIG~k~~~rL~~~l-GI~TigDL~~l~ 215 (661)
..+||||++.++++- .. ...++.||.+.+
T Consensus 66 ~~LpGiGp~~A~~II-~~GpF~svedL~~V~ 95 (134)
T 1s5l_U 66 IQYRGLYPTLAKLIV-KNAPYESVEDVLNIP 95 (134)
T ss_dssp GGSTTCTHHHHHHHH-HTCCCSSGGGGGGCT
T ss_pred HHCCCCCHHHHHHHH-HcCCCCCHHHHHhCC
Confidence 358999999999998 55 478999999864
No 79
>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=29.07 E-value=32 Score=31.94 Aligned_cols=38 Identities=11% Similarity=0.232 Sum_probs=26.3
Q ss_pred CCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 183 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 183 LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
..|+.|.|||++++..+.+.+||.--.-+-.++.+++.
T Consensus 30 ~ALt~I~GIG~~~A~~I~~~~gid~~~r~g~Lt~~ei~ 67 (146)
T 3u5c_S 30 YALTTIKGVGRRYSNLVCKKADVDLHKRAGELTQEELE 67 (146)
T ss_dssp TTGGGSTTCCHHHHHHHHHHHTCCTTSCSSSCCHHHHH
T ss_pred hhHhhhcCCCHHHHHHHHHHcCCCCCceeccCCHHHHH
Confidence 45788999999999998889999533333334444443
No 80
>3ign_A Diguanylate cyclase; ggdef domain, A1U3W3_marav, NESG, MQR89A, structural genomics, PSI-2, protein structure initiative; HET: C2E; 1.83A {Marinobacter aquaeolei VT8}
Probab=27.71 E-value=79 Score=28.33 Aligned_cols=25 Identities=32% Similarity=0.534 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHH--------hhCCceeEEecC
Q 006108 127 VLIVTELRMQVLK--------ETEFTCSAGIAH 151 (661)
Q Consensus 127 ~~lA~~IR~~I~~--------etGlt~SiGIA~ 151 (661)
..++.+|+..+.+ ...+++|+||+.
T Consensus 104 ~~~~~~i~~~~~~~~~~~~~~~~~~~~siGi~~ 136 (177)
T 3ign_A 104 RVICERIREAIEKSTVSTSAGDIQYTVSMGIAQ 136 (177)
T ss_dssp HHHHHHHHHHHHTCCEECSSCEECCCEEEEEEE
T ss_pred HHHHHHHHHHHHhcCcccCCCceeEEEEEEEEe
Confidence 4577888888865 246789999984
No 81
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=26.49 E-value=43 Score=38.50 Aligned_cols=33 Identities=24% Similarity=0.362 Sum_probs=15.8
Q ss_pred ccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH
Q 006108 188 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES 222 (661)
Q Consensus 188 LpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~ 222 (661)
|+|||.++++.|...+| ++..|...+.+.|...
T Consensus 517 i~~VG~~~Ak~La~~Fg--sl~~l~~As~eeL~~i 549 (671)
T 2owo_A 517 IREVGEATAAGLAAYFG--TLEALEAASIEELQKV 549 (671)
T ss_dssp CTTCCHHHHHHHHHHHC--SHHHHHTCCHHHHTTS
T ss_pred ccCccHHHHHHHHHHcC--CHHHHHhCCHHHHhhc
Confidence 34555555555543322 3444555555555444
No 82
>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=25.54 E-value=36 Score=31.85 Aligned_cols=36 Identities=8% Similarity=0.238 Sum_probs=24.9
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
|+.|.|||+.++..+...+||.--.-+-.|+.+++.
T Consensus 30 Lt~I~GIG~~~A~~I~~~~gid~~~r~g~Lt~~ei~ 65 (152)
T 3iz6_M 30 LTSIKGVGRRFSNIVCKKADIDMNKRAGELSAEEMD 65 (152)
T ss_dssp HTTSTTCCHHHHHHHHHHHTCCSSSBTTTSCHHHHH
T ss_pred hhhccCcCHHHHHHHHHHcCCCCCcEeCcCCHHHHH
Confidence 577899999999998889999533333334444443
No 83
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M
Probab=25.28 E-value=33 Score=32.18 Aligned_cols=36 Identities=11% Similarity=0.225 Sum_probs=25.1
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
|+.|.|||..++..+...+||..-.-+-.|+.+++.
T Consensus 32 Lt~I~GIG~~~A~~I~~~~gid~~~r~~~Lt~~ei~ 67 (155)
T 2xzm_M 32 LTGIRGIGRRFAYIICKVLKIDPNARAGLLTEDQCN 67 (155)
T ss_dssp HTTSTTCCHHHHHHHHHHTTCCSSSCSSCSCHHHHH
T ss_pred eecccccCHHHHHHHHHHcCCCcccccccCCHHHHH
Confidence 577999999999999889999543333334444443
No 84
>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=24.90 E-value=31 Score=31.28 Aligned_cols=36 Identities=8% Similarity=0.207 Sum_probs=25.7
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
|+.|.|||..++..+...+||..-.-+-+|+.+++.
T Consensus 19 Lt~I~GIG~~~A~~I~~~~gi~~~~r~~~Lt~~ei~ 54 (126)
T 2vqe_M 19 LTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVV 54 (126)
T ss_dssp HTTSSSCCSHHHHHHTTTTTCCTTSBGGGCCHHHHH
T ss_pred hhccccccHHHHHHHHHHcCCCcccccCcCCHHHHH
Confidence 577999999999999889999543333444455544
No 85
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=24.54 E-value=42 Score=35.48 Aligned_cols=54 Identities=15% Similarity=0.241 Sum_probs=33.5
Q ss_pred CccccCCchHHHHHHHHhc--C-CccHHHHhh--CC--HHHHHHHhC--cCcHHHHHHHHhCCCC
Q 006108 185 IKKMKQLGGKLGTSLQNEL--G-VTTVGDLLK--FS--EDKLQESYG--FNTGTWLWNIARGISG 240 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~l--G-I~TigDL~~--l~--~~~L~~~FG--~~~G~~L~~~arGiD~ 240 (661)
+.+|||||++++.++.+-+ | +..+.+|.. .+ ...|.+++| ++++..+|+. |+..
T Consensus 63 l~~lpGIG~~~A~kI~E~l~tG~~~~le~L~~d~~~~~l~~l~~I~GvG~kta~~l~~~--Gi~t 125 (360)
T 2ihm_A 63 LHGLPYFGEHSTRVIQELLEHGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWYQE--GLRT 125 (360)
T ss_dssp GTTCTTCCHHHHHHHHHHHHHSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHHHT--TCCS
T ss_pred HhcCCCCCHHHHHHHHHHHHcCChHHHHHHhcccchHHHHHHhCCCCCCHHHHHHHHHc--CCCC
Confidence 7789999999999887322 2 444555543 11 124555555 4556777765 8765
No 86
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B
Probab=24.35 E-value=70 Score=40.81 Aligned_cols=60 Identities=10% Similarity=0.231 Sum_probs=49.7
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCc-CcHHHHHHHHhCCCCCcc
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF-NTGTWLWNIARGISGEEV 243 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~-~~G~~L~~~arGiD~~pV 243 (661)
..|+..++|||.....+|. ..|+ |+.+|.+++..+|...++. ..|..+++.++-...-.+
T Consensus 725 ~~~L~q~~~i~~~~~~~l~-~~~~-~~~~l~~~~~~~l~~~~~~~~~g~~i~~~~~~~P~~~~ 785 (1724)
T 4f92_B 725 MCPLRQFRKLPEEVVKKIE-KKNF-PFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLEL 785 (1724)
T ss_dssp SCGGGGSTTSCHHHHHHHH-TSSC-CGGGGGGCCHHHHHHHHTCSTTHHHHHHHHTTSCCEEE
T ss_pred CCceecCCCCCHHHHHHHH-hcCC-CHHHHHhCCHHHHHHHHCCchHHHHHHHHHHHCCCceE
Confidence 4689999999999999997 8999 8999999999988877663 358889998887654433
No 87
>3hvw_A Diguanylate-cyclase (DGC); alpha-beta protein., structural genomics, PSI-2, protein structure initiative; 1.70A {Pseudomonas aeruginosa}
Probab=23.58 E-value=1.3e+02 Score=27.14 Aligned_cols=25 Identities=8% Similarity=0.008 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHH-------hhCCceeEEecC
Q 006108 127 VLIVTELRMQVLK-------ETEFTCSAGIAH 151 (661)
Q Consensus 127 ~~lA~~IR~~I~~-------etGlt~SiGIA~ 151 (661)
..++.+|+..+.+ ...+++|+||+.
T Consensus 94 ~~~~~~l~~~~~~~~~~~~~~~~~~~siGi~~ 125 (176)
T 3hvw_A 94 ESVCLRLLRAFESPVVCRGIPIKANVGLGVLP 125 (176)
T ss_dssp HHHHHHHHHHTTSCEEETTEEECCCCEEEEEE
T ss_pred HHHHHHHHHHHhCCcccCCEEEEEEEEEEEEe
Confidence 4567777777643 346889999984
No 88
>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=23.56 E-value=42 Score=35.14 Aligned_cols=54 Identities=19% Similarity=0.259 Sum_probs=32.6
Q ss_pred CccccCCchHHHHHHHHhc--C-CccHHHHhhCC-HH---HHHHHhC--cCcHHHHHHHHhCCCC
Q 006108 185 IKKMKQLGGKLGTSLQNEL--G-VTTVGDLLKFS-ED---KLQESYG--FNTGTWLWNIARGISG 240 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~l--G-I~TigDL~~l~-~~---~L~~~FG--~~~G~~L~~~arGiD~ 240 (661)
+..|||||++++.++.+-+ | +..+.+|..-+ +. .|.+++| ++++..+|+. |+..
T Consensus 59 l~~LpGIG~~~A~kI~E~l~tG~~~~le~l~~~~~~~~l~~l~~V~GiGpk~a~~l~~~--Gi~t 121 (335)
T 2fmp_A 59 AKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFVDE--GIKT 121 (335)
T ss_dssp HHTSTTCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHTTSTTCCHHHHHHHHHT--TCCS
T ss_pred HhcCCCCcHHHHHHHHHHHHhCCcHHHHHHHcccchhHHHHHhCCCCCCHHHHHHHHHc--CCCC
Confidence 5789999999999887422 2 34444554433 23 3444444 4556767765 8765
No 89
>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*
Probab=22.66 E-value=1.1e+02 Score=32.20 Aligned_cols=25 Identities=28% Similarity=0.371 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHH----------hhCCceeEEecC
Q 006108 127 VLIVTELRMQVLK----------ETEFTCSAGIAH 151 (661)
Q Consensus 127 ~~lA~~IR~~I~~----------etGlt~SiGIA~ 151 (661)
..++.+|+..|.+ ...+++|+||+.
T Consensus 384 ~~~~~~i~~~~~~~~~~~~~~~~~~~~t~siG~~~ 418 (459)
T 1w25_A 384 LRIAERIRMHVSGSPFTVAHGREMLNVTISIGVSA 418 (459)
T ss_dssp HHHHHHHHHHHHTSCEECGGGSCEECCCEEEEEEE
T ss_pred HHHHHHHHHHHHhCCccccCCCceeEEEEEEEEEe
Confidence 4678888888763 246899999974
No 90
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=22.62 E-value=35 Score=31.81 Aligned_cols=36 Identities=11% Similarity=0.230 Sum_probs=25.1
Q ss_pred CccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHH
Q 006108 185 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQ 220 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~ 220 (661)
|+.|.|||+.++..+...+||.--.-+-.|+.+++.
T Consensus 25 Lt~I~GIG~~~A~~I~~~~gid~~~r~g~Lt~~ei~ 60 (148)
T 3j20_O 25 LTAIKGIGINFATMVCRVAGLDPFMKAGYLTDEQVK 60 (148)
T ss_dssp HHHSTTCCHHHHHHHHHHHTCCSSSCTTBCCHHHHH
T ss_pred hhhccCcCHHHHHHHHHHhCCCCCceeccCCHHHHH
Confidence 467899999999999889999543333334444443
No 91
>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=21.42 E-value=53 Score=35.04 Aligned_cols=54 Identities=15% Similarity=0.292 Sum_probs=33.2
Q ss_pred CccccCCchHHHHHHHHhc--C-CccHHHHhh--CC--HHHHHHHhC--cCcHHHHHHHHhCCCC
Q 006108 185 IKKMKQLGGKLGTSLQNEL--G-VTTVGDLLK--FS--EDKLQESYG--FNTGTWLWNIARGISG 240 (661)
Q Consensus 185 I~kLpGIG~k~~~rL~~~l--G-I~TigDL~~--l~--~~~L~~~FG--~~~G~~L~~~arGiD~ 240 (661)
+.+|||||++++.++.+-+ | +..+.+|.. .+ ...|.+++| ++.+..+|+. |+..
T Consensus 82 l~~lpGIG~~ia~kI~E~l~tG~~~~le~l~~d~~~~~l~~l~~I~GvGpk~a~~ly~~--Gi~t 144 (381)
T 1jms_A 82 TEGIPCLGDKVKSIIEGIIEDGESSEAKAVLNDERYKSFKLFTSVFGVGLKTAEKWFRM--GFRT 144 (381)
T ss_dssp GTTCSSCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHHTSTTCCHHHHHHHHHT--TCCS
T ss_pred HhcCCCCcHHHHHHHHHHHHcCCcHHHHHHhcCcchhHHHHHHccCCCCHHHHHHHHHc--CCCc
Confidence 7889999999999987432 2 334445543 11 123445555 4556777765 8765
No 92
>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=20.93 E-value=71 Score=36.72 Aligned_cols=52 Identities=29% Similarity=0.347 Sum_probs=29.8
Q ss_pred HHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHHH
Q 006108 177 KGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWN 233 (661)
Q Consensus 177 ~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~~ 233 (661)
..||..|- |+|||.++++.|.+.+| ++..|.+.+.+.|... +|...+..++.
T Consensus 504 ~R~L~alG---I~~VG~~~Ak~La~~Fg--sl~~l~~As~eeL~~I~GIG~~~A~sI~~ 557 (667)
T 1dgs_A 504 ERLLYALG---LPGVGEVLARNLARRFG--TMDRLLEASLEELIEVEEVGELTARAILE 557 (667)
T ss_dssp HHHHHHTT---CSSCCHHHHHHHHHTTS--BHHHHTTCCHHHHHTSTTCCHHHHHHHHH
T ss_pred HHhhHhhc---cCCccHHHHHHHHHHcC--CHHHHHhCCHHHHHhccCcCHHHHHHHHH
Confidence 34454443 56777777777753443 5666666676666665 44444444443
No 93
>3idw_A Actin cytoskeleton-regulatory complex protein SLA; clathrin adaptor, endocytosis, SAM domain, yeast, actin-BIND membrane, endosome; 1.85A {Saccharomyces cerevisiae}
Probab=20.73 E-value=24 Score=28.96 Aligned_cols=36 Identities=11% Similarity=0.331 Sum_probs=31.0
Q ss_pred CCcccccccccccccccccCCccccccCChHHHHHH
Q 006108 597 CGSDQIQQRSESWKLRIEEIDPSVIDELPKEIQDEI 632 (661)
Q Consensus 597 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 632 (661)
|+.+.+..-+++=.|.=+-||.+++.+|-+|+-+++
T Consensus 12 aGv~~~~c~rYA~~F~~~ri~e~mL~Dl~~~~Lr~L 47 (72)
T 3idw_A 12 CGVDVSNCQRYTINFDREQLTEDMMPDINNSMLRTL 47 (72)
T ss_dssp TTCCHHHHHHHHHHHHHTTCCGGGGGGCCHHHHHHT
T ss_pred cCCChHHHHHHHHHHHHccCCHHHHhhCCHHHHHHc
Confidence 666666667888899999999999999999999874
No 94
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A* 3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* ...
Probab=20.25 E-value=22 Score=37.17 Aligned_cols=49 Identities=24% Similarity=0.352 Sum_probs=0.0
Q ss_pred cCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHH--hCcCcHHHHH
Q 006108 182 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLW 232 (661)
Q Consensus 182 ~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~--FG~~~G~~L~ 232 (661)
.+||.+| .+.-+...=|. +.||+|+|||.+.+.+.|.+. ||.+....+.
T Consensus 253 ~~~i~~L-~LsvRs~NcLk-~a~I~ti~dL~~~se~~l~~~~n~G~kSl~Ei~ 303 (315)
T 2a6h_A 253 DLPLEEL-GLSTRVLHSLK-EEGIESVRALLALNLKDLKNIPGIGERSLEEIK 303 (315)
T ss_dssp -----------------------------------------------------
T ss_pred cCcHHHc-cCcHHHHHHHH-HcCCcCHHHHhhCCHHHHhcCCCCCcchHHHHH
Confidence 3788888 57778888887 999999999999998887653 7876544443
No 95
>3h7h_A Transcription elongation factor SPT4; helices surrounding beta sheet, activator, ME binding, nucleus, repressor, transcription regulation; 1.55A {Homo sapiens}
Probab=20.21 E-value=48 Score=29.80 Aligned_cols=28 Identities=29% Similarity=0.596 Sum_probs=23.7
Q ss_pred cccccccccCCc--------cccccCChHHHHHHHH
Q 006108 607 ESWKLRIEEIDP--------SVIDELPKEIQDEIQA 634 (661)
Q Consensus 607 ~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~ 634 (661)
.+|-=+...||- +|-++||.||++|+..
T Consensus 71 ~SwVAk~~~i~~~vPG~YAlkV~g~lp~~i~~~le~ 106 (120)
T 3h7h_A 71 DSWVSKWQRVSNFKPGVYAVSVTGRLPQGIVRELKS 106 (120)
T ss_dssp GCHHHHHTTCTTSCSEEEEEEECCCCCHHHHHHHHH
T ss_pred HHHHHHHhccCCCCCCeEEEEecCcCCHHHHHHHHH
Confidence 477777677776 8999999999999987
No 96
>3bq7_A Diacylglycerol kinase delta; SAM domain, polymerization domain, alternative splicing, cytoplasm, membrane, metal-binding, phorbol-ester binding; 2.90A {Homo sapiens}
Probab=20.21 E-value=1.3e+02 Score=24.53 Aligned_cols=54 Identities=19% Similarity=0.266 Sum_probs=39.2
Q ss_pred CCCCcccccCcccHHHhcccCCCccccCCchHHHHHHHHhcCCccHHHHhhCCHHHHHHHhCcC
Q 006108 163 NKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN 226 (661)
Q Consensus 163 ~KP~G~~vl~~~~v~~fL~~LPI~kLpGIG~k~~~rL~~~lGI~TigDL~~l~~~~L~~~FG~~ 226 (661)
.+|..+.-+.+++|..||..+ |++ .....+. ..||.... |..++.+.|.. +|+.
T Consensus 2 ~~~~~v~~Ws~~~V~~WL~~l------gl~-~Y~~~F~-~~~idg~~-Ll~Lt~~dL~~-lGI~ 55 (81)
T 3bq7_A 2 EKTRPVHLWGTEEVAAWLEHL------SLC-EYKDIFT-RHDIRGSG-LLHLERRDLKD-LGVT 55 (81)
T ss_dssp ---CCGGGCCHHHHHHHHHHT------TCG-GGHHHHH-HTTCCHHH-HTTCCHHHHHH-TTCC
T ss_pred CCCCChhhCCHHHHHHHHHHC------CCH-HHHHHHH-HcCCCHHH-HCcCCHHHHhH-cCCC
Confidence 456667788899999999987 444 3567776 78886555 89999999975 8873
Done!