Query 004805
Match_columns 729
No_of_seqs 316 out of 2015
Neff 6.3
Searched_HMMs 29240
Date Mon Mar 25 06:18:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004805.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004805hhsearch_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 3.3E-76 1.1E-80 659.1 36.6 411 9-438 7-434 (435)
2 3osn_A DNA polymerase IOTA; ho 100.0 2.5E-74 8.6E-79 640.9 34.9 387 7-440 23-417 (420)
3 4dez_A POL IV 1, DNA polymeras 100.0 1.9E-74 6.5E-79 629.7 24.6 342 10-439 1-346 (356)
4 1jx4_A DNA polymerase IV (fami 100.0 1.9E-73 6.6E-78 620.9 30.6 348 12-451 1-351 (352)
5 3bq0_A POL IV, DBH, DNA polyme 100.0 5.9E-73 2E-77 617.4 31.8 348 12-451 1-353 (354)
6 4f4y_A POL IV, DNA polymerase 100.0 1.6E-72 5.6E-77 615.6 32.6 349 13-452 2-354 (362)
7 3gqc_A DNA repair protein REV1 100.0 1.1E-72 3.9E-77 637.5 31.6 354 10-440 86-499 (504)
8 3mfi_A DNA polymerase ETA; DNA 100.0 6.4E-72 2.2E-76 635.0 32.7 411 9-440 28-517 (520)
9 3pzp_A DNA polymerase kappa; D 100.0 5.6E-71 1.9E-75 627.6 31.6 392 9-440 87-509 (517)
10 1t94_A Polymerase (DNA directe 100.0 2.2E-71 7.6E-76 624.4 24.6 396 8-440 30-453 (459)
11 2aq4_A DNA repair protein REV1 100.0 2.5E-68 8.6E-73 595.6 30.0 351 9-438 49-433 (434)
12 1im4_A DBH; DNA polymerase PAL 100.0 5.4E-57 1.9E-61 461.3 21.5 215 10-283 4-221 (221)
13 1unn_C POL IV, DNA polymerase 98.9 9.2E-10 3.2E-14 100.6 6.0 99 312-439 5-106 (115)
14 2kwv_A RAD30 homolog B, DNA po 95.5 0.0058 2E-07 45.9 2.3 21 682-702 14-34 (48)
15 2a1j_A DNA repair endonuclease 95.2 0.03 1E-06 45.3 5.8 51 247-299 6-57 (63)
16 1wcn_A Transcription elongatio 95.1 0.015 5E-07 48.3 3.6 53 246-299 8-62 (70)
17 3bqs_A Uncharacterized protein 93.2 0.048 1.7E-06 47.7 3.2 35 246-281 5-39 (93)
18 1z00_B DNA repair endonuclease 92.8 0.096 3.3E-06 44.9 4.3 51 247-299 20-71 (84)
19 3mab_A Uncharacterized protein 92.8 0.082 2.8E-06 46.3 3.9 35 246-281 5-39 (93)
20 1z3e_B DNA-directed RNA polyme 91.0 0.26 9E-06 41.1 4.9 52 244-297 8-61 (73)
21 3gfk_B DNA-directed RNA polyme 89.4 0.36 1.2E-05 40.9 4.4 54 240-295 11-66 (79)
22 1b22_A DNA repair protein RAD5 89.4 0.29 9.8E-06 44.4 4.1 56 244-300 22-81 (114)
23 2khu_A Immunoglobulin G-bindin 88.6 0.16 5.5E-06 44.2 1.8 29 683-711 67-96 (108)
24 2a1j_B DNA excision repair pro 88.1 0.66 2.3E-05 39.8 5.4 50 247-298 34-85 (91)
25 1kft_A UVRC, excinuclease ABC 87.7 0.37 1.3E-05 40.2 3.4 50 245-296 24-75 (78)
26 1z00_A DNA excision repair pro 86.7 0.62 2.1E-05 39.8 4.4 51 247-299 21-73 (89)
27 1qw2_A Conserved hypothetical 85.3 0.34 1.2E-05 42.9 2.0 27 50-76 74-100 (102)
28 3k4g_A DNA-directed RNA polyme 85.1 0.98 3.3E-05 38.8 4.7 52 244-297 11-64 (86)
29 1vq8_Y 50S ribosomal protein L 81.7 0.28 9.7E-06 50.1 0.0 52 245-297 15-68 (241)
30 2nrt_A Uvrabc system protein C 81.7 1.4 4.7E-05 44.4 4.9 49 246-296 169-218 (220)
31 2kz3_A Putative uncharacterize 81.6 3.4 0.00012 35.2 6.7 44 244-288 3-46 (83)
32 1coo_A RNA polymerase alpha su 80.5 0.87 3E-05 40.1 2.7 51 245-297 24-76 (98)
33 1ci4_A Protein (barrier-TO-aut 77.5 1.8 6E-05 37.4 3.6 34 240-274 13-46 (89)
34 2va8_A SSO2462, SKI2-type heli 77.5 1.2 4.2E-05 51.8 3.6 52 245-298 657-708 (715)
35 3im1_A Protein SNU246, PRE-mRN 76.3 3.4 0.00012 43.6 6.3 61 244-305 156-218 (328)
36 1pzn_A RAD51, DNA repair and r 75.4 2.2 7.6E-05 45.5 4.6 54 244-298 34-89 (349)
37 2i1q_A DNA repair and recombin 75.4 3.1 0.0001 43.4 5.6 54 246-300 4-59 (322)
38 1x2i_A HEF helicase/nuclease; 71.5 4 0.00014 33.0 4.3 51 246-298 15-67 (75)
39 2p6r_A Afuhel308 helicase; pro 71.3 1.8 6.1E-05 50.4 2.8 52 245-298 632-683 (702)
40 2q0z_X Protein Pro2281; SEC63, 70.4 4.5 0.00015 43.0 5.5 56 245-301 161-218 (339)
41 1gm5_A RECG; helicase, replica 67.1 2.6 9E-05 50.0 3.1 30 245-275 115-144 (780)
42 2zj8_A DNA helicase, putative 65.3 4.7 0.00016 47.0 4.7 51 244-297 645-695 (720)
43 3lda_A DNA repair protein RAD5 61.4 9.4 0.00032 41.6 5.9 56 242-298 78-137 (400)
44 3ai4_A Yeast enhanced green fl 59.9 2.5 8.7E-05 43.5 1.0 24 682-705 249-273 (283)
45 2fmp_A DNA polymerase beta; nu 59.1 4.4 0.00015 43.2 2.8 64 187-276 65-128 (335)
46 1ixr_A Holliday junction DNA h 59.0 4.6 0.00016 39.7 2.6 55 247-301 74-131 (191)
47 1dgs_A DNA ligase; AMP complex 58.4 8.2 0.00028 44.9 5.0 49 248-296 444-494 (667)
48 2z43_A DNA repair and recombin 57.6 2.2 7.4E-05 44.9 0.0 42 245-287 12-53 (324)
49 3sei_A Caskin-1; SAM domain, p 57.4 14 0.00048 34.6 5.6 76 201-288 48-123 (149)
50 2owo_A DNA ligase; protein-DNA 57.1 8.7 0.0003 44.7 4.9 51 246-296 447-499 (671)
51 2bgw_A XPF endonuclease; hydro 56.8 8.8 0.0003 38.0 4.3 50 247-298 164-215 (219)
52 2duy_A Competence protein come 54.9 8.7 0.0003 31.4 3.3 30 247-276 29-58 (75)
53 1cuk_A RUVA protein; DNA repai 53.7 6.1 0.00021 39.1 2.5 54 247-300 75-131 (203)
54 2ihm_A POL MU, DNA polymerase 53.7 5.6 0.00019 42.8 2.5 28 247-275 104-131 (360)
55 2bcq_A DNA polymerase lambda; 53.6 6.3 0.00021 42.0 2.8 28 248-276 99-126 (335)
56 1jms_A Terminal deoxynucleotid 52.0 6 0.0002 43.0 2.3 28 247-275 123-150 (381)
57 3c65_A Uvrabc system protein C 46.5 4.2 0.00014 41.1 0.0 50 245-296 173-223 (226)
58 2e8m_A Epidermal growth factor 45.9 18 0.00063 31.7 4.0 42 251-298 46-87 (99)
59 1wwu_A Hypothetical protein FL 45.2 21 0.00072 31.3 4.3 42 252-298 37-78 (99)
60 1u9l_A Transcription elongatio 42.5 22 0.00074 29.1 3.7 47 250-297 11-59 (70)
61 4glx_A DNA ligase; inhibitor, 41.4 22 0.00076 40.7 4.9 48 249-297 450-500 (586)
62 4f92_B U5 small nuclear ribonu 38.1 26 0.00087 45.3 5.3 56 245-301 1557-1614(1724)
63 4gfj_A Topoisomerase V; helix- 38.1 31 0.0011 37.7 5.0 49 247-300 470-518 (685)
64 1v5w_A DMC1, meiotic recombina 34.7 8.2 0.00028 40.8 0.0 41 246-287 26-68 (343)
65 2ztd_A Holliday junction ATP-d 29.9 29 0.001 34.5 3.1 53 249-301 92-147 (212)
66 3arc_U Photosystem II 12 kDa e 29.0 41 0.0014 29.3 3.5 30 247-276 28-57 (97)
67 2w9m_A Polymerase X; SAXS, DNA 28.2 25 0.00087 40.0 2.6 29 247-276 99-127 (578)
68 3tvk_A DGC, diguanylate cyclas 28.0 77 0.0026 30.1 5.7 24 190-213 99-130 (179)
69 3b0x_A DNA polymerase beta fam 27.5 24 0.00082 40.2 2.2 29 247-275 95-123 (575)
70 1s5l_U Photosystem II 12 kDa e 26.1 49 0.0017 30.6 3.6 38 233-277 57-95 (134)
71 2edu_A Kinesin-like protein KI 23.8 53 0.0018 28.1 3.3 29 248-276 43-75 (98)
72 2bcq_A DNA polymerase lambda; 22.9 45 0.0015 35.3 3.2 54 247-302 59-119 (335)
73 3b0x_A DNA polymerase beta fam 22.8 33 0.0011 39.0 2.2 81 209-303 99-180 (575)
74 3vdp_A Recombination protein R 20.1 35 0.0012 33.9 1.5 17 246-262 27-43 (212)
75 3r8n_M 30S ribosomal protein S 20.1 91 0.0031 27.9 4.1 30 246-275 17-49 (114)
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=3.3e-76 Score=659.08 Aligned_cols=411 Identities=43% Similarity=0.701 Sum_probs=338.7
Q ss_pred CCCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEcccc
Q 004805 9 SGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVA 88 (729)
Q Consensus 9 ~~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~ 88 (729)
.+.|+|+||||||||||||++++|+|+|+||||++++.+++|+|+||||+||++||++||++++|+++||++++++++..
T Consensus 7 ~~~r~I~hiD~d~FyAsvE~~~~P~L~~kPvvV~~~~~~~~g~viA~syeAR~~GV~~gm~~~~A~~lcP~l~~~~~~~~ 86 (435)
T 4ecq_A 7 GQDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWADDAKKLCPDLLLAQVRES 86 (435)
T ss_dssp SCSCCEEEEEETTHHHHHHHHHCGGGTTSCEEEEECSTTTTCEEEEECHHHHTTTCCTTCBHHHHHHHCTTCEEEECCEE
T ss_pred CCCcEEEEEccchHHHHHHhhhCccccCCcEEEeccCCCCCCeEEEeCHHHHHhCCCCCCcHHHHHHhCCCeEEeccccc
Confidence 46799999999999999999999999999999999876668899999999999999999999999999999999987766
Q ss_pred CCCCChHHHHHHHHHHHHHHHhcCCeeeeccceeEEecccchhHhh---hcCCCCCcchhhHHHhh-hhcccCccC----
Q 004805 89 RGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAEAML---AETPPESLDEVDEEALK-SHILGLESK---- 160 (729)
Q Consensus 89 ~~k~d~~~Yr~~S~~I~~iL~~~~~vE~~SIDEafLDlT~~~~~~l---~~~~~~~~~~~~~~~~~-~~l~G~~~~---- 160 (729)
++|+||+.|+++|++|+++|.+|..||++||||+|||||++....| ...+.+ .+.++ .++.|....
T Consensus 87 ~~~~~~~~Y~~~S~~i~~il~~~~~vE~~SiDEafLDlT~~~~~~l~~l~g~~~~------~~~~~~~~~~g~~~~~~~~ 160 (435)
T 4ecq_A 87 RGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQERLQKLQGQPIS------ADLLPSTYIEGLPQGPTTA 160 (435)
T ss_dssp TTEECCHHHHHHHHHHHHHHHHHSCEEEEETTEEEEECHHHHHHHHHHHTTCCCC------GGGCTTEEETTCSCCCC--
T ss_pred cCCCCHHHHHHHHHHHHHHHHhcCceeecccceEEEECccchhhcchhccccccc------cccccccccccCCCccccc
Confidence 7778999999999999999999889999999999999999875432 111100 00000 000011000
Q ss_pred CCCCch-----hhhhhhhhc---cCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceee
Q 004805 161 DGNDSK-----ATVKEWLCR---CDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTT 232 (729)
Q Consensus 161 ~~~~~~-----~~~~~w~~~---~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtv 232 (729)
.+.... .++..|++. ++.+|.|..|..|+.+|++||++|++++|||||||||+||++||||++++||+|+++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ia~~Ir~~I~~~~Gl~~svGIa~nk~lAKlAs~~~Kp~g~~v 240 (435)
T 4ecq_A 161 EETVQKEGMRKQGLFQWLDSLQIDNLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTL 240 (435)
T ss_dssp ---CSHHHHHHHHHHHHHHHCCTTCTTCHHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHHHHHHHSCSSCEEE
T ss_pred ccccchhhhhcccccccccccccccccchhhhhhHHHHHHHHHHHHHHHHhCCcEEEEecCCHHHHHHHhccCCCCceEE
Confidence 000001 134456542 455678888999999999999999999999999999999999999999999999999
Q ss_pred ccCCchhcccccCcccccCCCcHHHHHH-HHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccccCC
Q 004805 233 VPFSSVKGLLDSLPIKKMKQLGGKLGTS-LQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLP 311 (729)
Q Consensus 233 v~~~~v~~fL~~LPI~~L~GIG~k~~~~-L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~p 311 (729)
++++++.+||+++||++|||||++++.+ |+ .+||+|+|||+++|+..|+++||...|.+||++|+|+|.++|.+..++
T Consensus 241 v~~~~~~~~L~~lpv~~l~GiG~~~~~~lL~-~lGI~TigdLa~~~~~~L~~~fG~~~g~~L~~~a~G~d~~~v~~~~~~ 319 (435)
T 4ecq_A 241 VSHGSVPQLFSQMPIRKIRSLGGKLGASVIE-ILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLP 319 (435)
T ss_dssp CCGGGHHHHHHTCBGGGSTTCSSHHHHHHHH-HHTCCBGGGGGGSCHHHHHHHHCHHHHHHHHHHTTTCCCCCCCCBCSC
T ss_pred EehhHHHHHHhhCCHHHhcCCCHHHHHHHHH-HcCCCcHHHHhhCCHHHHHHHhCccHHHHHHHHhhCCCCcccCCCCCC
Confidence 9999999999999999999999999877 65 999999999999999999999995579999999999999999998899
Q ss_pred cccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcch
Q 004805 312 KSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTA 391 (729)
Q Consensus 312 KSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~ 391 (729)
|||+.+++|+.+.++.+.+++..+|..|+++|+.||+++..++++.|++|+|++++.+...+ ...+|+++++.+
T Consensus 320 ksi~~~~tf~~~~~i~~~~~l~~~l~~la~~l~~rLr~~~~~~~~~~~~l~v~ir~~~~~~~----~~~~R~~~l~~~-- 393 (435)
T 4ecq_A 320 KTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRVQGDKRL----SSLRRCCALTRY-- 393 (435)
T ss_dssp SCEEEEEECCGGGCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHSEEEEEEEEEEEETTCCSS----CSEEEEEECCSC--
T ss_pred CeeeeeEEcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhhhhcCceEEEEEEEEEeCCCCCC----ceeEEeccCCCC--
Confidence 99999999984324889999999999999999999998644468999999999998643222 335899999753
Q ss_pred hHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCccc
Q 004805 392 KIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVP 438 (729)
Q Consensus 392 ~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~ 438 (729)
++..|++.++.+|.+.+....+ ..| +.+||+|||++++|++
T Consensus 394 ----~~~~i~~~a~~L~~~~~~~~~~-~~~-~~pir~lgvs~s~f~~ 434 (435)
T 4ecq_A 394 ----DAHKMSHDAFTVIKNCNTSGIQ-TEW-SPPLTMLFLCATKFSA 434 (435)
T ss_dssp ----CHHHHHHHHHHHHGGGCCCSST-TEE-EEEEEEEEEEEEEEEE
T ss_pred ----CHHHHHHHHHHHHHHHhhcccc-ccC-CCCeeEEEEEEeeccc
Confidence 3456888888888876532111 011 3579999999999976
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=2.5e-74 Score=640.86 Aligned_cols=387 Identities=30% Similarity=0.438 Sum_probs=324.9
Q ss_pred CCCCCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEcc
Q 004805 7 DSSGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVP 86 (729)
Q Consensus 7 ~~~~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp 86 (729)
...+.|+|+||||||||||||++++|+|+++||||++ +|+|+||||+||++||++||++++|+++||++++++ |
T Consensus 23 ~~~~~r~i~hiD~d~FyASvE~~~~P~L~~~Pv~V~~-----~g~V~a~syeAR~~GV~~gm~~~~A~~lcP~lv~v~-~ 96 (420)
T 3osn_A 23 PNASSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVKKLMNVRDAKEKCPQLVLVN-G 96 (420)
T ss_dssp --CCCCCEEEEEETTHHHHHHHHHCGGGTTSCEEEEE-----TTEEEEECHHHHTTTCCTTEEHHHHHHHCTTCEEEE-C
T ss_pred CCCCCCEEEEEecCcHHHHHHHHhCcCccCCeEEEcC-----CCEEEECCHHHHHcCCCCCCcHHHHHHhCccccccC-C
Confidence 3457899999999999999999999999999999986 379999999999999999999999999999998875 1
Q ss_pred ccCCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCc
Q 004805 87 VARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDS 165 (729)
Q Consensus 87 ~~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~ 165 (729)
+||+.|+++|++|+++|.+| |.||++||||+|||+|++....+.+.+...++. .....|+||.+..
T Consensus 97 -----~~~~~Y~~~S~~i~~il~~~tp~ve~~SiDE~fLDvt~~~~~~l~~~~~~~~~~---~~~~g~l~g~~~~----- 163 (420)
T 3osn_A 97 -----EDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELSA---VTVSGHVYNNQSI----- 163 (420)
T ss_dssp -----CCCHHHHHHHHHHHHHHHHHCSCEEEETTTEEEEECHHHHHHHHHHSCSSSGGG---CCCCSEEGGGCCC-----
T ss_pred -----CCHHHHHHHHHHHHHHHHHhCCCeEEecCCEEEEECcccchhhccccccccccc---ccccccccccccc-----
Confidence 39999999999999999996 899999999999999998754443333221110 0012355653210
Q ss_pred hhhhhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccC
Q 004805 166 KATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL 245 (729)
Q Consensus 166 ~~~~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~L 245 (729)
+..+|.+..+..+..+|++||++|++++|||||||||+||+|||||++++||+|++++.++++.+||++|
T Consensus 164 ----------~~~~~~~~~l~~~~~la~~Ir~~I~~~~Glt~svGIa~nk~LAKlAs~~~KP~g~~vl~~~~~~~~L~~L 233 (420)
T 3osn_A 164 ----------NLLDVLHIRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSL 233 (420)
T ss_dssp ----------CTTCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHTSSCSSCEEECCGGGHHHHHHHC
T ss_pred ----------ccccchhhcchHHHHHHHHHHHHHHHHHCCcEEEEEeCCHHHHHHhhhhcCCCCeEEecHHHHHHhhccC
Confidence 0124556777788999999999999999999999999999999999999999999999999999999999
Q ss_pred c-ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccccCCcccccccccCCCC
Q 004805 246 P-IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPR 324 (729)
Q Consensus 246 P-I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~ 324 (729)
| |++|||||++++++|+ .+||+|+|||+++|+..|+++||...|.+||++++|+|+++|.+..++|||+.+++|.
T Consensus 234 ppv~~l~GIG~~t~~~L~-~lGI~TigdLa~~~~~~L~~~fG~~~g~~L~~~a~G~d~~~V~~~~~~kSi~~e~tf~--- 309 (420)
T 3osn_A 234 NHIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFK--- 309 (420)
T ss_dssp SSGGGSTTCCHHHHHHHH-HTTCCSHHHHHHSCHHHHHHHHHHHHHHHHHHHHTTCCCCCCCCCCSCSEEEEEEECS---
T ss_pred ccHHHccCCCHHHHHHHH-HhCCCcHHHHhhCCHHHHHHHhCchHHHHHHHHhcCCCccccCCCCCCCceeeeeeCC---
Confidence 7 9999999999999997 9999999999999999999999976799999999999999999888999999999996
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccC-CCCCCCCCcCcccccCCCcch-h----HHHhHH
Q 004805 325 ALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKS-SDSDSRKKFPSKSCPLRYGTA-K----IQEDTF 398 (729)
Q Consensus 325 di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~-~~~~s~~~~~srs~~L~~~t~-~----i~~~a~ 398 (729)
++.+.+++..+|.+|+++|+.||++ .++.+++|+|+++++.. ..| ...+|+++++.++. . -++.+.
T Consensus 310 ~~~~~~~~~~~l~~La~~l~~rLr~----~~~~~~tv~l~ir~~~~~~~~----~~~sr~~~l~~~~~~~l~~~~t~~~~ 381 (420)
T 3osn_A 310 KCSSEVEAKNKIEELLASLLNRVCQ----DGRKPHTVRLIIRRYSSEKHY----GRESRQCPIPSHVIQKLGTGNYDVMT 381 (420)
T ss_dssp SCCCSSSHHHHHHHHHHHHHHHHHH----HCSCEEEEEEEEEEECSSCCC----CCEEEEEECCTTTCCC-----CTTHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH----cCCcccEEEEEEEeCCCCCCC----ceeEEEEECCCccccccccCCCchHH
Confidence 3778899999999999999999998 48999999999996521 112 23588999987521 0 125677
Q ss_pred HHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCccccc
Q 004805 399 NLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVL 440 (729)
Q Consensus 399 ~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~~ 440 (729)
.|+++++.||.+.++. ..+++||+|||++++|++.+
T Consensus 382 ~i~~~a~~Lf~~~~~~------~~~~~iRllgv~~~~l~~~~ 417 (420)
T 3osn_A 382 PMVDILMKLFRNMVNV------KMPFHLTLLSVCFCNLKALN 417 (420)
T ss_dssp HHHHHHHHHHHHHSCS------SSCCEEEEEEEEEEEEC---
T ss_pred HHHHHHHHHHHHhhcc------cCCcceeEEEEEEeCcccCc
Confidence 8999999999876531 23456999999999998875
No 3
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}
Probab=100.00 E-value=1.9e-74 Score=629.68 Aligned_cols=342 Identities=26% Similarity=0.350 Sum_probs=218.9
Q ss_pred CCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccC--CCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccc
Q 004805 10 GARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNE--WKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPV 87 (729)
Q Consensus 10 ~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~--~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~ 87 (729)
+.|+|+||||||||||||++++|+|+|+||||++.++ .++|+|+||||+||++||++||++++|+++||++++++
T Consensus 1 M~R~I~hiD~d~FyasvE~~~~P~L~~kPv~V~~~~d~~~~~g~v~a~syeAr~~GV~~gm~~~~A~~lcP~l~~~~--- 77 (356)
T 4dez_A 1 MTKWVLHVDLDQFLASVELRRRPDLRGQPVIVGGSGDPSEPRKVVTCASYEAREFGVHAGMPLRAAARRCPDATFLP--- 77 (356)
T ss_dssp -CEEEEEEEETTHHHHHHHHHCGGGTTSCEEEEEC------CCEEEEECHHHHTTTCCTTSBHHHHHHHCTTCEEEE---
T ss_pred CceEEEEEcCCcHHHHHHhhhCccccCCeEEEEeCCCCCCCceEEEEECHHHHHhCCCCCCcHHHHHHhCCCeEEEC---
Confidence 5799999999999999999999999999999998653 24689999999999999999999999999999999985
Q ss_pred cCCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCch
Q 004805 88 ARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSK 166 (729)
Q Consensus 88 ~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~ 166 (729)
+|++.|+++|++|+++|.+| |.||++||||+|||+|+...
T Consensus 78 ----~~~~~Y~~~s~~v~~il~~~~p~ve~~SiDEafld~t~~~~----------------------------------- 118 (356)
T 4dez_A 78 ----SDPAAYDEASEQVMGLLRDLGHPLEVWGWDEAYLGADLPDE----------------------------------- 118 (356)
T ss_dssp ----CCHHHHHHHHHHHHHHHHTTSSCEEEETTTEEEEEEECCTT-----------------------------------
T ss_pred ----CcHHHHHHHHHHHHHHhhhcCCceeecCcchhheecccccC-----------------------------------
Confidence 79999999999999999996 89999999999999987520
Q ss_pred hhhhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCc
Q 004805 167 ATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLP 246 (729)
Q Consensus 167 ~~~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LP 246 (729)
..+..++++||++|++++|++||||||+||+|||||++++||+|+++++++++.+||+++|
T Consensus 119 -------------------~~~~~~a~~ir~~i~~~~gl~~siGIa~nk~lAKlAs~~~Kp~g~~~i~~~~~~~~L~~lp 179 (356)
T 4dez_A 119 -------------------SDPVEVAERIRTVVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTEANWMTVMGDRP 179 (356)
T ss_dssp -------------------CCHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHHHHHHHHCSSCEEECCTTTHHHHHTTSC
T ss_pred -------------------CCHHHHHHHHHHHHHHHhCCccccchhccHHHHHHHHHHhhhcCcccccchhhhhhhhcCc
Confidence 0134689999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccc-cCCcccccccccCCCCC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR-LLPKSHGSGKSFPGPRA 325 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~-~~pKSis~s~tF~~p~d 325 (729)
|++|||||++++++|+ .+||+|++||+++++..|+++||...|.+||++++|+|+++|.+. ..+||++.++||+ .+
T Consensus 180 v~~l~GiG~~~~~~L~-~~GI~Ti~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~~~~ksi~~~~tf~--~~ 256 (356)
T 4dez_A 180 PDALWGVGPKTTKKLA-AMGITTVADLAVTDPSVLTTAFGPSTGLWLLLLAKGGGDTEVSSEPWVPRSRSHVVTFP--QD 256 (356)
T ss_dssp GGGSTTCCHHHHHHHH-HTTCCSHHHHHTSCHHHHHHHHCHHHHHHHHHHHTTCCCCCCCC-------------------
T ss_pred HHHHcCCchhHHHHHH-HcCCCeecccccCCHHHHHHHhCChHHHHHHHHHcCCCcccccccccccccccccccCC--Cc
Confidence 9999999999999997 999999999999999999999997679999999999999999875 4679999999998 57
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcchhHHHhHHHHHHHHH
Q 004805 326 LKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGL 405 (729)
Q Consensus 326 i~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~~a~~L~~aal 405 (729)
+.+.+++..+|..|+++++.||++ +++.+++|+|++++.+ |. ..+++.+++.+| +++..|+++++
T Consensus 257 ~~~~~~l~~~l~~la~~~~~rLr~----~~~~~~~l~v~ir~~~---f~----~~t~~~~l~~pt----~d~~~i~~~a~ 321 (356)
T 4dez_A 257 LTERREMDSAVRDLALQTLAEIVE----QGRIVTRVAVTVRTST---FY----TRTKIRKLPAPS----TDAGQIVDTAL 321 (356)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH----cCCceeEEEEEEEeCC---Ce----EEEEEEECCccc----CCHHHHHHHHH
Confidence 999999999999999999999997 5899999999998743 32 247888898888 47778999988
Q ss_pred HHhhcccCccccCCCCCCcceeEEEEEccCcccc
Q 004805 406 REFLGSFGVKTQGSHYSGWRITALSVSASKIVPV 439 (729)
Q Consensus 406 ~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~ 439 (729)
.+|.+. +.+.+||+|||++++|.+.
T Consensus 322 ~ll~~~---------~~~~~vRliGV~ls~l~d~ 346 (356)
T 4dez_A 322 AVLDQF---------ELDRPVRLLGVRLELAMDD 346 (356)
T ss_dssp ----------------------------------
T ss_pred HHHHhc---------cCCCCEEEEEEEECCCCCC
Confidence 887643 3467899999999999775
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=1.9e-73 Score=620.85 Aligned_cols=348 Identities=26% Similarity=0.401 Sum_probs=304.9
Q ss_pred CEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccC--CCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccccC
Q 004805 12 RIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNE--WKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVAR 89 (729)
Q Consensus 12 rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~--~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~~ 89 (729)
|+|+||||||||||||++++|+|+|+||||++... .++|+|+||||+||++||++||++++|+++||++++++
T Consensus 1 r~i~hiD~d~FyasvE~~~~p~l~~~Pv~V~~~~~~~~~~g~V~a~syeAr~~GV~~gm~~~~A~~lcP~l~~~~----- 75 (352)
T 1jx4_A 1 MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLP----- 75 (352)
T ss_dssp CCEEEEEETTHHHHHHHHHCGGGTTSCEEEEEECSSSTTCEEEEEECHHHHTTTCCTTSBHHHHHHHCTTSEEEE-----
T ss_pred CEEEEEecCcHHHHHHhHhCccccCCcEEEEeCCCCCCCCeEEEECCHHHHHcCCCCCCcHHHHHHHCCCeEEEC-----
Confidence 68999999999999999999999999999996321 24689999999999999999999999999999999886
Q ss_pred CCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCchhh
Q 004805 90 GKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKAT 168 (729)
Q Consensus 90 ~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~~~ 168 (729)
+|++.|+++|++|++++.+| |.||++||||+|||+|++. +
T Consensus 76 --~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~----------------------~--------------- 116 (352)
T 1jx4_A 76 --MRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKV----------------------R--------------- 116 (352)
T ss_dssp --CCHHHHHHHHHHHHHHHTTTCSCEEEEETTEEEEECTTTC----------------------S---------------
T ss_pred --CCHHHHHHHHHHHHHHHHHhCCCeEEecCceEEEeccCcc----------------------c---------------
Confidence 79999999999999999996 8999999999999999864 1
Q ss_pred hhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCccc
Q 004805 169 VKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIK 248 (729)
Q Consensus 169 ~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~ 248 (729)
+|+.+..+|++||++|++++|+|||||||+||++||||++++||+|+++++++++.+||+++||+
T Consensus 117 ---------------~~~~~~~~a~~ir~~i~~~~Gl~~svGia~nk~lAKlAs~~~Kp~g~~~~~~~~~~~~L~~lpv~ 181 (352)
T 1jx4_A 117 ---------------DYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIA 181 (352)
T ss_dssp ---------------SHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHHHHCSSCEEECCHHHHHHHHHHSBGG
T ss_pred ---------------ccccHHHHHHHHHHHHHHHHCCcEEEEEcCCHHHHHHHhccCCCCCEEEECHHHHHHHHHhCCCC
Confidence 23446689999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccccCCcccccccccCCCCCCCc
Q 004805 249 KMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKT 328 (729)
Q Consensus 249 ~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~di~~ 328 (729)
+|||||++++++|+ .+||+|+|||+++|...|+++||...|.++|++|+|+|+++|.+.. +|||+.+++|+ .++.+
T Consensus 182 ~l~GiG~~~~~~L~-~~Gi~t~~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~-~ksi~~~~tf~--~~~~~ 257 (352)
T 1jx4_A 182 DVPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV-RKSIGRIVTMK--RNSRN 257 (352)
T ss_dssp GSTTCCHHHHHHHH-TTTCCBGGGGGSSCHHHHHHHHCHHHHHHHHHHHTTCCCCCCCCCC-CCEEEEEEEEE--EEECC
T ss_pred cccccCHHHHHHHH-HcCCchHHHHHCCCHHHHHHhcChhHHHHHHHHhCCCCCCCccCCC-CceEEeeeecC--CCCCC
Confidence 99999999999997 9999999999999999999999974499999999999999999888 99999999998 57999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcchhHHHhHHHHHHHHHHHh
Q 004805 329 VASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREF 408 (729)
Q Consensus 329 ~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~~a~~L~~aal~l~ 408 (729)
.+++..+|..|+++|+.||++ . .+++|+|++++.+ +. ..+++.+++.+|+ ++..|++ +..+|
T Consensus 258 ~~~l~~~l~~l~~~l~~rL~~-----~-~~~~v~l~l~~~~---~~----~~~~~~~l~~pt~----~~~~l~~-a~~ll 319 (352)
T 1jx4_A 258 LEEIKPYLFRAIEESYYKLDK-----R-IPKAIHVVAVTED---LD----IVSRGRTFPHGIS----KETAYSE-SVKLL 319 (352)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-----C-CEEEEEEEEEETT---SC----EEEEEEECSSCCC----HHHHHHH-HHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----h-cCCEEEEEEEECC---CC----cceeEEecCCCCC----CHHHHHH-HHHHH
Confidence 999999999999999999985 3 8999999999753 22 2478888888884 5667888 88877
Q ss_pred hcccCccccCCCCCCcceeEEEEEccCcccccccccccccccc
Q 004805 409 LGSFGVKTQGSHYSGWRITALSVSASKIVPVLSGTCSIMKYFN 451 (729)
Q Consensus 409 ~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~~~~~~si~dlF~ 451 (729)
...+. ..+.+||+|||++++|.+. ..|.+||+
T Consensus 320 ~~~~~-------~~~~~vr~lgv~~~~l~~~----~~q~~LF~ 351 (352)
T 1jx4_A 320 QKILE-------EDERKIRRIGVRFSKFIEA----IGLDKFFD 351 (352)
T ss_dssp HHHHH-------HCCSCEEEEEEEEEEEC--------------
T ss_pred HHHHh-------cCCCCEEEEEEEEeCCCCc----cccccccc
Confidence 75431 0267999999999999775 34788885
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=5.9e-73 Score=617.44 Aligned_cols=348 Identities=24% Similarity=0.380 Sum_probs=304.8
Q ss_pred CEEEEEeCCchhHhhhchhCCCCCCCcEEEEec-c-CCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccccC
Q 004805 12 RIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQY-N-EWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVAR 89 (729)
Q Consensus 12 rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~-~-~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~~ 89 (729)
|+|+||||||||||||++++|+|+|+||||++. . .+++|+|+||||+||++||++||++++|+++||++++++
T Consensus 1 r~i~hiD~d~FyasvE~~~~p~l~~~Pv~V~~~~~~~~~~g~V~a~syeAr~~GV~~gm~~~~A~~lcP~l~~~~----- 75 (354)
T 3bq0_A 1 MIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVP----- 75 (354)
T ss_dssp CCEEEEEETTHHHHHHHHHCGGGTTSCEEEEECCC---CCCEEEEECHHHHHTTCCTTCBHHHHHHHCTTCEEEE-----
T ss_pred CEEEEEecChHHHHHHHHhCccccCCcEEEEcCCCCCCCCeEEEECCHHHHHhCCCCCCcHHHHHHHCCCeEEEC-----
Confidence 689999999999999999999999999999972 1 124689999999999999999999999999999999886
Q ss_pred CCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCchhh
Q 004805 90 GKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKAT 168 (729)
Q Consensus 90 ~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~~~ 168 (729)
+|++.|+++|++|++++.+| |.||++||||+|||+|++. +
T Consensus 76 --~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~----------------------~--------------- 116 (354)
T 3bq0_A 76 --MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKV----------------------E--------------- 116 (354)
T ss_dssp --CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTT----------------------T---------------
T ss_pred --CCHHHHHHHHHHHHHHHHHhCCCEEEecCCeeEEecCcch----------------------h---------------
Confidence 79999999999999999996 8899999999999999864 1
Q ss_pred hhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCccc
Q 004805 169 VKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIK 248 (729)
Q Consensus 169 ~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~ 248 (729)
.+|+.+..++++||++|++++|+|||||||+||++||||++++||+|+++++++++.+||+++||+
T Consensus 117 --------------~~~~~~~~la~~ir~~i~~~~Gl~~svGia~nk~lAKlAs~~~Kp~g~~~~~~~~~~~~L~~lpv~ 182 (354)
T 3bq0_A 117 --------------GNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDID 182 (354)
T ss_dssp --------------TCHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHHTTCSSCEEECCGGGHHHHHHHCBST
T ss_pred --------------hccCCHHHHHHHHHHHHHHHHCCcEEeeeccCHHHHHHHhccCCCCCEEEECHHHHHHHHHhCCcc
Confidence 023346688999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccccCCcccccccccCCCCCCCc
Q 004805 249 KMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKT 328 (729)
Q Consensus 249 ~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~di~~ 328 (729)
+|||||++++++|+ .+||+|+|||+++|+..|+++||...|.++|++|+|+|+++|.+.. +|||+.+++|+ .++.+
T Consensus 183 ~l~GiG~~~~~~L~-~~Gi~t~~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~-~ksi~~~~tf~--~~~~~ 258 (354)
T 3bq0_A 183 EIPGIGSVLARRLN-ELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKS-KIPHGRYLTLP--YNTRD 258 (354)
T ss_dssp TSTTCCHHHHHHHT-TTTCCBGGGGGGSCHHHHHHHHCHHHHHHHHHHHTTCCCCCCCSEE-CCCEEEEEEEE--EEECC
T ss_pred cccCcCHHHHHHHH-HcCCccHHHHhcCCHHHHHHHHCHHHHHHHHHHhCCCCCCCCcCCC-CceeEEeEeCC--CCCCC
Confidence 99999999999997 9999999999999999999999974499999999999999999888 99999999998 57999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcchhHHHhHHHHHHHHHHHh
Q 004805 329 VASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREF 408 (729)
Q Consensus 329 ~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~~a~~L~~aal~l~ 408 (729)
.+++..+|..|+++|+.||+ . .+++|+|++++.+ +. ..+++.+++.+|+ ++..|++ +..+|
T Consensus 259 ~~~l~~~l~~l~~~l~~rL~------~-~~~~v~l~~~~~~---~~----~~~~~~~l~~pt~----~~~~i~~-~~~ll 319 (354)
T 3bq0_A 259 VKVILPYLKKAINEAYNKVN------G-IPMRITVIAIMED---LD----ILSKGKKFKHGIS----IDNAYKV-AEDLL 319 (354)
T ss_dssp HHHHHHHHHHHHHHHHTTTS------S-EEEEEEEEEEETT---SC----EEEEEEECSSCCC----HHHHHHH-HHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH------h-hCCEEEEEEEeCC---CC----cceEEEECCCccC----CHHHHHH-HHHHH
Confidence 99999999999999999997 2 8999999999753 22 2478888888884 6677888 88888
Q ss_pred hcccCccccCCCCCCc-c-eeEEEEEccCcccccccccccccccc
Q 004805 409 LGSFGVKTQGSHYSGW-R-ITALSVSASKIVPVLSGTCSIMKYFN 451 (729)
Q Consensus 409 ~~~~~~~~~~~~~~~~-~-IR~IGVsls~L~~~~~~~~si~dlF~ 451 (729)
.+.+. .+. + ||+|||++++|.+.. ..|.+||+
T Consensus 320 ~~~~~--------~~~~~~vr~lgv~~~~l~~~~---~~q~~LF~ 353 (354)
T 3bq0_A 320 RELLV--------RDKRRNVRRIGVKLDNIIINK---TNLSDFFD 353 (354)
T ss_dssp HHHTT--------SCSSCCEEEEEEEEEEEECC------------
T ss_pred HHHhc--------cCCCCceEEEEEEEecCCCCC---cccccccc
Confidence 75431 244 8 999999999998762 46788885
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=1.6e-72 Score=615.63 Aligned_cols=349 Identities=25% Similarity=0.396 Sum_probs=303.7
Q ss_pred EEEEEeCCchhHhhhchhCCCCCCCcEEEEeccC--CCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccccCC
Q 004805 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNE--WKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVARG 90 (729)
Q Consensus 13 vI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~--~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~~~ 90 (729)
+|+||||||||||||++++|+|+++||||++.+. .++|+|+||||+||++||++||++++|+++||++++++
T Consensus 2 ~i~hiD~d~FyasvE~~~~P~L~~~Pv~V~~~~~~~~~~g~V~a~sy~Ar~~GV~~gm~~~~A~~lcP~l~~~~------ 75 (362)
T 4f4y_A 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVP------ 75 (362)
T ss_dssp CEEEEECTTHHHHHHHHHCGGGTTSCEEEEEECSSSSSCEEEEEECHHHHHTTCCTTCBHHHHHHHCTTSEEEE------
T ss_pred EEEEEecCCHHHHHHhHhCccccCCeEEEecCCCCCCCCeEEEECCHHHHHcCCCCCCcHHHHHHHCCCeEEEC------
Confidence 6999999999999999999999999999998641 24688999999999999999999999999999999885
Q ss_pred CCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCchhhh
Q 004805 91 KADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATV 169 (729)
Q Consensus 91 k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~~~~ 169 (729)
+|++.|+++|++|+++|.+| |.||++||||+|||+|++.+
T Consensus 76 -~~~~~Y~~~s~~i~~il~~~tp~ve~~SiDEa~LDvt~~~~-------------------------------------- 116 (362)
T 4f4y_A 76 -MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVE-------------------------------------- 116 (362)
T ss_dssp -CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTT--------------------------------------
T ss_pred -CCHHHHHHHHHHHHHHHHHhCCCEEEecCceEEEecCCccc--------------------------------------
Confidence 79999999999999999996 88999999999999998641
Q ss_pred hhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCcccc
Q 004805 170 KEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249 (729)
Q Consensus 170 ~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~~ 249 (729)
.+|+.+..++++||++|++++|+|||||||+||++||||++++||+|+++++++++.+||+++||++
T Consensus 117 -------------~~~~~~~~~a~~ir~~I~~~~Gl~~svGIa~nk~lAKlAs~~~Kp~g~~~~~~~~~~~~L~~lpv~~ 183 (362)
T 4f4y_A 117 -------------GNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183 (362)
T ss_dssp -------------TCHHHHHHHHHHHHHHHHHHHCCCCEEEEESSHHHHHHHHHTSCSSCEEECCTTTHHHHHHTCBSTT
T ss_pred -------------cccCCHHHHHHHHHHHHHHHHCCcEEEEEeCCHHHHHHHHhcccCCCEEEECHHHHHHHHHhCChhh
Confidence 0223456789999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcCCCcccccccCCcccccccccCCCCCCCcH
Q 004805 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTV 329 (729)
Q Consensus 250 L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~di~~~ 329 (729)
|||||++++++|+ .+||+|++||+++|+..|+++||...|.+||++|+|+|+++|.+..+ |||+.+++|+ .++.+.
T Consensus 184 l~GiG~~~~~~L~-~~GI~Ti~dL~~~~~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~~-ksi~~~~tf~--~~~~~~ 259 (362)
T 4f4y_A 184 IPGIGSVLARRLN-ELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYNEPIRTRVR-KSIGRYLTLP--YNTRDV 259 (362)
T ss_dssp STTCCSTTHHHHH-HTTCCBGGGGTTSCHHHHHHHHCHHHHHHHHHHHTTCCCCCCCCCCC-CEEEEEEEEE--EEECCH
T ss_pred ccCCCHHHHHHHH-HcCCChHHHHhcCCHHHHHHHhChHHHHHHHHHhcCCCCCcCccCCC-cceEEEEecC--CCCCCH
Confidence 9999999999997 99999999999999999999999547999999999999999998888 9999999998 579999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcchhHHHhHHHHHHHHHHHhh
Q 004805 330 ASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFL 409 (729)
Q Consensus 330 eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~~a~~L~~aal~l~~ 409 (729)
+++..+|..|+++|+.||+ . .+++|+|++++.+ +.. .+++.+++.+ + ++..|++.+..+|.
T Consensus 260 ~~l~~~l~~l~~~l~~rLr------~-~~~~v~l~i~~~~---~~~----~t~s~~l~~p-~----d~~~i~~~a~~ll~ 320 (362)
T 4f4y_A 260 KVILPYLKKAINEAYNKVN------G-IPMRITVIAIMED---LDI----LSKGKKFKHG-I----SIDNAYKVAEDLLR 320 (362)
T ss_dssp HHHHHHHHHHHHHHHHHCS------S-EEEEEEEEEEETT---SCE----EEEEEECSSC-C----CHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH------h-CCCEEEEEEEECC---CcE----EEEEEECCCC-C----CHHHHHHHHHHHHH
Confidence 9999999999999999997 3 8999999999853 322 3677788766 4 56678888888887
Q ss_pred cccCccccCCCCCCcc-eeEEEEEccCccccccccccccccccc
Q 004805 410 GSFGVKTQGSHYSGWR-ITALSVSASKIVPVLSGTCSIMKYFNG 452 (729)
Q Consensus 410 ~~~~~~~~~~~~~~~~-IR~IGVsls~L~~~~~~~~si~dlF~~ 452 (729)
..+. ..+.+ ||+|||++++|.+. ...|.++|+-
T Consensus 321 ~~~~-------~~~~~~vr~lGV~~~~L~~~---~~~q~~~~~~ 354 (362)
T 4f4y_A 321 ELLV-------RDKRRNVRRIGVKLDNIIIN---KTNLSDFFDI 354 (362)
T ss_dssp HHTT-------SSCSCCEEEEEEEEEEEEC--------------
T ss_pred HHHh-------hcCCccEEEEEEEEeccccC---Cccccccccc
Confidence 6531 13667 99999999999876 3567888863
No 7
>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=1.1e-72 Score=637.49 Aligned_cols=354 Identities=26% Similarity=0.388 Sum_probs=312.4
Q ss_pred CCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccC-------------------------------------------
Q 004805 10 GARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNE------------------------------------------- 46 (729)
Q Consensus 10 ~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~------------------------------------------- 46 (729)
..|+|+||||||||||||++.+|+|+|+||||++...
T Consensus 86 ~~r~I~HvDmd~FfaSve~~~~P~LrgkPvaV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ 165 (504)
T 3gqc_A 86 HQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSA 165 (504)
T ss_dssp -CCCEEEEEETTHHHHHHTTTCTTTTTSCEEECSSCSSCBCCCCTTBCHHHHHHHHHTTTTCC-----------------
T ss_pred CCcEEEEEeccchhhhhhhccCccccCCCeEEEecCCCCccccccccchhhhhhhhhhhhcccccccccccccccccchh
Confidence 4799999999999999999999999999999985321
Q ss_pred CCCcE--------EEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccccCCCCChHHHHHHHHHHHHHHHhc-CCeeee
Q 004805 47 WKGGG--------LIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARK-GRCERA 117 (729)
Q Consensus 47 ~~~g~--------ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~ 117 (729)
.++|+ |+||||+||++||++||++++|+++||++++++ +||+.|+++|++|+++|.+| |.||++
T Consensus 166 ~~~Gv~av~s~s~V~aaSyeAR~~GVrsGMp~~~A~~lcP~livv~-------~d~~~Y~~~S~~i~~il~~~tp~VE~~ 238 (504)
T 3gqc_A 166 QANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVP-------YDFHAYKEVAQTLYETLASYTHNIEAV 238 (504)
T ss_dssp ----CGGGBCCCBCSEECHHHHTTTCCTTCBHHHHHHHCTTCEEEC-------CCHHHHHHHHHHHHHHHHTTCSCEEEE
T ss_pred hccccceeccCCEEEECCHHHHHcCCCCCCcHHHHHHhCCCcEEEC-------CCHHHHHHHHHHHHHHHHHhCCeEEEe
Confidence 12344 789999999999999999999999999998874 79999999999999999996 899999
Q ss_pred ccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCchhhhhhhhhccCcchhhhhhhhHHHHHHHHHH
Q 004805 118 SIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRM 197 (729)
Q Consensus 118 SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~~~~~~w~~~~~~~~~d~ll~~~~~la~~IR~ 197 (729)
||||+|||+|++. ++||. .+..+|++||+
T Consensus 239 SiDEafLDvtg~~----------------------~l~g~-----------------------------~~~~la~~Ir~ 267 (504)
T 3gqc_A 239 SCDEALVDITEIL----------------------AETKL-----------------------------TPDEFANAVRM 267 (504)
T ss_dssp ETTEEEEECHHHH----------------------HHHCC-----------------------------CHHHHHHHHHH
T ss_pred cCCeEEEeccchH----------------------hhcCC-----------------------------CHHHHHHHHHH
Confidence 9999999999975 22331 24578999999
Q ss_pred HHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCcccccCCCcHHHHHHHHHHhCCcchhhhhcCC
Q 004805 198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFS 277 (729)
Q Consensus 198 ~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~ 277 (729)
+|++++||+||||||+||+|||||++++||+|+++|+++++.+||++|||++|||||++++++|+ .+||+|+|||+++|
T Consensus 268 ~I~~~tGlt~SvGIa~nk~LAKlAs~~~KP~G~~vl~~~~~~~~L~~LPV~~l~GIG~~t~~kL~-~lGI~TigDLa~~~ 346 (504)
T 3gqc_A 268 EIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLA-SLGIKTCGDLQYMT 346 (504)
T ss_dssp HHHHHHSCCEEEEEESSHHHHHHHHHHHCSSCEEECCGGGHHHHHHHSBGGGSTTCCHHHHHHHH-HTTCCBHHHHTTSC
T ss_pred HHHHHhCCcEEEEEeCCHHHHHHHHhhCccCCEEEECHHHHHHHHhcCChhHhhCcCHHHHHHHH-HcCCCcHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999997 99999999999999
Q ss_pred HHHHHHhhCCChHHHHHHHHhcCCCcccccccCCcccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCce
Q 004805 278 EDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRI 357 (729)
Q Consensus 278 ~~~L~~rFG~~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~ 357 (729)
+..|+++||+..|.+||+.|+|+|+++|.+..++|||+.+++|+ .++.+.+++..+|..|+++|+.||++ .++.
T Consensus 347 ~~~L~~~fG~~~g~~L~~~a~GiD~~pV~~~~~~KSi~~e~tf~--~d~~~~~~l~~~L~~La~~l~~rLr~----~~~~ 420 (504)
T 3gqc_A 347 MAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYG--IRFTQPKEAEAFLLSLSEEIQRRLEA----TGMK 420 (504)
T ss_dssp HHHHHHHHCHHHHHHHHHHTTTCCCCCCCCCCCCCCEEEEECSS--CCCCSHHHHHHHHHHHHHHHHHHHHH----TTEE
T ss_pred HHHHHHhhChhHHHHHHHHhcCCCccccccccCCcceeeeeccC--CCCCCHHHHHHHHHHHHHHHHHHHHH----cCCc
Confidence 99999999976799999999999999999888899999999998 57999999999999999999999997 6999
Q ss_pred eEEEEEEEeeccC------CCCCCCC--CcCcccccCCCcchhHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEE
Q 004805 358 AHTLTLHASAFKS------SDSDSRK--KFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITAL 429 (729)
Q Consensus 358 artLtL~lr~~~~------~~~~s~~--~~~srs~~L~~~t~~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~I 429 (729)
+++|+|++++.+. .+|..+. ...+++.+|+.+| +++..|++++..+|..++ +.+.+||+|
T Consensus 421 ~~~vtLkl~~r~~d~~~~t~~f~~~g~~~~~trs~tL~~pT----~d~~~I~~~A~~Ll~~~~--------~~~~~vRll 488 (504)
T 3gqc_A 421 GKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQAT----DNAKIIGKAMLNMFHTMK--------LNISDMRGV 488 (504)
T ss_dssp EEEEEEEEEEECTTSCSBCSSTTCCCSEEEEEEEEEEEEEE----CCHHHHHHHHHHHHHTSC--------CCGGGEEEE
T ss_pred eeEEEEEEEEecccccccccccccCCCcccceeEeecCCCc----CCHHHHHHHHHHHHHHhc--------CCCCCeEEE
Confidence 9999999986431 1222111 2357889999888 477889999999988542 235799999
Q ss_pred EEEccCccccc
Q 004805 430 SVSASKIVPVL 440 (729)
Q Consensus 430 GVsls~L~~~~ 440 (729)
||++++|.+..
T Consensus 489 GV~~s~L~~~~ 499 (504)
T 3gqc_A 489 GIHVNQLVPTN 499 (504)
T ss_dssp EEEEEEEEECC
T ss_pred EEEEcCcccCC
Confidence 99999998864
No 8
>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=6.4e-72 Score=634.96 Aligned_cols=411 Identities=27% Similarity=0.382 Sum_probs=325.8
Q ss_pred CCCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEc---
Q 004805 9 SGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQV--- 85 (729)
Q Consensus 9 ~~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~V--- 85 (729)
++.|+|+||||||||||||++++|+|+++||||+|+ |+|+||||+||++||++||++++|+++||+++++||
T Consensus 28 ~p~r~I~hiD~d~FyAsvE~~~~p~l~~~Pv~v~~~-----~~via~sy~AR~~GI~~~~~~~~A~~~CP~l~~v~~~v~ 102 (520)
T 3mfi_A 28 SSLACIAHIDMNAFFAQVEQMRCGLSKEDPVVCVQW-----NSIIAVSYAARKYGISRMDTIQEALKKCSNLIPIHTAVF 102 (520)
T ss_dssp STTCCEEEEEETTHHHHHHHHHTTCCTTSCEEEEET-----TEEEEECHHHHTTTCCTTCBHHHHHTTCTTCEEEECEEE
T ss_pred CCCCEEEEEecccHHHHHHHHhCccccCCcEEEecC-----CEEEEeCHHHHHcCCCCCCcHHHHHHhCccceEeeeeee
Confidence 678999999999999999999999999999999985 579999999999999999999999999999998864
Q ss_pred ------------------------cccCCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCC
Q 004805 86 ------------------------PVARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPE 140 (729)
Q Consensus 86 ------------------------p~~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~ 140 (729)
|+.++|++|+.|+++|++|+++|.+| +.||++||||+|||||+.+...|......
T Consensus 103 ~~ge~~~~y~~~~~~~~~~~~~~~~~~~~k~~~~~Yr~~S~~i~~il~~~~~~vE~~SIDEaflDlt~~~~~~l~~~~~~ 182 (520)
T 3mfi_A 103 KKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALAIFKWACDLVERASIDEVFLDLGRICFNMLMFDNEY 182 (520)
T ss_dssp ETTCSCEECCTTCSTTCSCTTSCCCTTSEEEECHHHHHHHHHHHHHHHHHCSCEEEEETTEEEEECHHHHHHHHHHCSSC
T ss_pred ecccccccccccccccccccccccCcccccCCHHHHHHHHHHHHHHHHHhCCCeEEeccceEEEEcCcchhhcccccccc
Confidence 44445679999999999999999996 89999999999999999864332110000
Q ss_pred ----Ccc-hhhHHHhhh-hcccCccCCCCCchhhhhhhh--------------hccCcchhhhhhhhHHHHHHHHHHHHH
Q 004805 141 ----SLD-EVDEEALKS-HILGLESKDGNDSKATVKEWL--------------CRCDADHRDKLLACGVLIVTELRMQVL 200 (729)
Q Consensus 141 ----~~~-~~~~~~~~~-~l~G~~~~~~~~~~~~~~~w~--------------~~~~~~~~d~ll~~~~~la~~IR~~I~ 200 (729)
.+. ......++. ...|.. +-......+-.|+ .....+|.|.+|..+..+|++||++|+
T Consensus 183 ~~~~~~~~~~~~~~l~~~~~~g~~--~~~~~~p~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ia~~IR~~I~ 260 (520)
T 3mfi_A 183 ELTGDLKLKDALSNIREAFIGGNY--DINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVILALGSQVCKGIRDSIK 260 (520)
T ss_dssp EEETTEEHHHHTHHHHHHHHHTCC--CTTSEEECCCGGGGGCCCCSEECCTTCCCSCCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccccccccchhhhhhccccccc--cccccccccccchhcccccccccccccccccccccccccchHHHHHHHHHHHHH
Confidence 000 000000000 000000 0000000000000 011346788999999999999999999
Q ss_pred hHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhccccc--CcccccCCCcHHHHHHHHHHh-CC---cch----
Q 004805 201 KETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDS--LPIKKMKQLGGKLGTSLQNEL-GV---TTV---- 270 (729)
Q Consensus 201 ~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~--LPI~~L~GIG~k~~~~L~~~l-GI---~Ti---- 270 (729)
++||||||||||+||+|||||++++||+|+++|+++++.+||++ +||++|||||++++++|. .+ || +|+
T Consensus 261 ~~tGlt~SvGIa~nK~LAKlAs~~~KP~G~~vi~~~~~~~fL~~~~lPV~~l~GIG~~t~~~L~-~llGI~~~~ti~~i~ 339 (520)
T 3mfi_A 261 DILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGKELI-DVLDLPHENSIKHIR 339 (520)
T ss_dssp HHHCCCEEEEEESSHHHHHHHHTTSCSSEEEECCGGGHHHHHTSSSCCGGGSTTCSSHHHHHHH-HHTTCCSSSHHHHHH
T ss_pred HHhCCcEEEEEeCCHHHHHHHhcccCCCCeEEcChHHHHHHhhccCCcHHHhcCCCHHHHHHHH-HhcCCCcccchhhhh
Confidence 99999999999999999999999999999999999999999998 999999999999999997 77 99 665
Q ss_pred -------hhhhcCCHHHHHHhhCC------------ChHHHHHHHHhcCCCcccccccCCcccccccccCCCCCCCcHHH
Q 004805 271 -------GDLLKFSEDKLQESYGF------------NTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVAS 331 (729)
Q Consensus 271 -------gDLa~l~~~~L~~rFG~------------~~g~~L~~~arGiD~~~V~~~~~pKSis~s~tF~~p~di~~~ee 331 (729)
+||++++...|+++||. ..|.+||++|+|+|+++|.+..++|||+.+++|.. .++.+.++
T Consensus 340 ~l~~~t~~dL~~~~~~~L~~~fG~~~~~~~d~~~~g~~g~~L~~~arGid~~~V~~~~~~KSi~~~~tf~~-~~i~~~~~ 418 (520)
T 3mfi_A 340 ETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVD 418 (520)
T ss_dssp HHSCSCHHHHHHHHHHHHHSTTCC---CCCCTTCHHHHHHHHHHHTTTCCCCCCCCCCSCSCEEEEEECCT-TTTCSHHH
T ss_pred hccCCCHHHHHhcCHHHHHHhcCccccccccchhhhHHHHHHHHHhCCCCCCCCCCCCCCCceeeEEEcCC-CCcCCHHH
Confidence 88999999999999994 47999999999999999999889999999999984 14899999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh--cCceeEEEEEEEeeccCCCCCCCCCcCcccccCCCcchhHHHhHHHHHHHHHHHhh
Q 004805 332 VQHWLNQLCEELSERLCSDLEQ--NKRIAHTLTLHASAFKSSDSDSRKKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFL 409 (729)
Q Consensus 332 l~~~L~~LaeeL~~RLr~~~~~--~~~~artLtL~lr~~~~~~~~s~~~~~srs~~L~~~t~~i~~~a~~L~~aal~l~~ 409 (729)
+..+|..|+++|+.||++...+ .++.|++|+|++++.+ |.+ .+++.+++.+|.. +++..|++++.++|.
T Consensus 419 l~~~L~~la~~l~~rLr~~~~~~~~~~~~rtvtl~ir~~d---f~~----~trs~~l~~pt~~--~~~~~I~~~a~~Ll~ 489 (520)
T 3mfi_A 419 CISWLEVFCAELTSRIQDLEQEYNKIVIPRTVSISLKTKS---YEV----YRKSGPVAYKGIN--FQSHELLKVGIKFVT 489 (520)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEEEECTT---CCE----EEEEEECCCCCGG--GHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcccccccceeeeEEEEEEEeCC---CCc----ceEEEECCCCCcc--CCHHHHHHHHHHHHH
Confidence 9999999999999999974111 2589999999999743 322 4788999888721 256678888888887
Q ss_pred cccCccccCCCCCCcceeEEEEEccCccccc
Q 004805 410 GSFGVKTQGSHYSGWRITALSVSASKIVPVL 440 (729)
Q Consensus 410 ~~~~~~~~~~~~~~~~IR~IGVsls~L~~~~ 440 (729)
.++.. .+...+.+||+|||++++|....
T Consensus 490 ~~~~~---~~~~~~~~iRliGV~~s~Le~~~ 517 (520)
T 3mfi_A 490 DLDIK---GKNKSYYPLTKLSMTITNFDIID 517 (520)
T ss_dssp HHHHH---TTTSSCSSCSEEEEEEEEEEEEE
T ss_pred HHhhh---cccccCCceeEEEEEEeCCEecC
Confidence 65421 00112579999999999998764
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=5.6e-71 Score=627.61 Aligned_cols=392 Identities=24% Similarity=0.357 Sum_probs=312.7
Q ss_pred CCCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEcccc
Q 004805 9 SGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPVA 88 (729)
Q Consensus 9 ~~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~~ 88 (729)
...|+|+||||||||||||++++|+|+|+||||+++ ++|+||||+||++||++||++++|+++||+|++|+
T Consensus 87 ~~~r~I~hiDmDaFYAsvE~~~~P~Lr~kPvaV~~~-----~vV~t~nYeAR~~GVr~gMp~~~Ak~lCP~Lvvv~---- 157 (517)
T 3pzp_A 87 NLSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM-----SMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVP---- 157 (517)
T ss_dssp CCSCCEEEEEESSHHHHHHHHHCGGGTTSCEEEEET-----TEEEEECHHHHTTTCCTTSCHHHHHHHCTTCEEEC----
T ss_pred CcCcEEEEEecCcHHHHHHHHhCccccCCcEEEecC-----CEEEecCHHHHHcCCCCCCcHHHHHHhCCceEEEC----
Confidence 567999999999999999999999999999999874 58899999999999999999999999999998874
Q ss_pred CCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCc-------------------chhhHH
Q 004805 89 RGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESL-------------------DEVDEE 148 (729)
Q Consensus 89 ~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~-------------------~~~~~~ 148 (729)
+||+.|+++|.+|++||.+| |.||++||||+|||||++++..+. .+.+.- ..+.+.
T Consensus 158 ---~d~~~Y~~~S~~v~~il~~ytp~ve~~SiDEafLDvT~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (517)
T 3pzp_A 158 ---PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQN-WPEDKRRYFIKMGSSVENDNPGKEVNKLSEH 233 (517)
T ss_dssp ---CCHHHHHHHHHHHHHHHHTTCTTCBCCSSSEEEEETHHHHHHHTS-CCSTTTEEECC--------------------
T ss_pred ---CCHHHHHHHHHHHHHHHHHcCCcEEEECCceEEEEcccccccccc-ccccccccccccccccccccccccccccccc
Confidence 79999999999999999997 889999999999999998643321 000000 000000
Q ss_pred H--hhhhcccCccCCCCCch-h-hhhhhhh----ccCcchhhhhhhh-HHHHHHHHHHHHHhHhCCceeEeecCCHHHHH
Q 004805 149 A--LKSHILGLESKDGNDSK-A-TVKEWLC----RCDADHRDKLLAC-GVLIVTELRMQVLKETEFTCSAGIAHNKMLAK 219 (729)
Q Consensus 149 ~--~~~~l~G~~~~~~~~~~-~-~~~~w~~----~~~~~~~d~ll~~-~~~la~~IR~~I~~etGlt~S~GIA~NklLAK 219 (729)
. ..+.+|.... .+.. . ....+.| +.+..+...+|+. +..+|++||++|+++||||||||||+||+|||
T Consensus 234 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~ia~~IR~~I~~~tGlt~S~GIA~Nk~LAK 310 (517)
T 3pzp_A 234 ERSISPLLFEESP---SDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAK 310 (517)
T ss_dssp ---------------------------------------CCEEECCSSHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHH
T ss_pred ccccccccccccc---ccccccccccccccccccccccchhhhhcCChHHHHHHHHHHHHHHHhCCeEEEEEcCCHHHHH
Confidence 0 0000000000 0000 0 0000000 1111122356664 77899999999999999999999999999999
Q ss_pred HhccCCCCCceeeccCC--chhcccccCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHH
Q 004805 220 LASGMNKPAQQTTVPFS--SVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIA 297 (729)
Q Consensus 220 LAS~~~KPngqtvv~~~--~v~~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~a 297 (729)
||++++|||||++|+++ ++.+||++|||++|||||++++++|. .+||+|+|||++++ ..|.++||...+.++|+.|
T Consensus 311 lAs~~~KP~G~~vl~~~~~~v~~fL~~LPV~kl~GIG~~t~~~L~-~lGI~TigDL~~~~-~~L~~~fG~~~~~~l~~~a 388 (517)
T 3pzp_A 311 VCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQQR-ALLSLLFSETSWHYFLHIS 388 (517)
T ss_dssp HHHHTTCSSCEEECCSSHHHHHHHHTTCBGGGSTTCCHHHHHHHH-HTTCCBHHHHHHHH-HHHHHHSCHHHHHHHHHHH
T ss_pred HHhCcCCCCCEEEecCChHHHHHHHhcCChhhhccccHHHHHHHH-HhCCCcHHHHHhhH-HHHHHHhChHHHHHHHHHH
Confidence 99999999999999875 68999999999999999999999997 99999999999984 7999999986678899999
Q ss_pred hcCCCcccccccCCcccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCC
Q 004805 298 RGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRK 377 (729)
Q Consensus 298 rGiD~~~V~~~~~pKSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~ 377 (729)
+|+|+++|.+..++|||+.+++|+ . +.+.+++..+|..|+++|+.||++ .++.+++|+|++++.+ |.
T Consensus 389 ~Gid~~~v~~~~~~KSi~~e~tf~--~-~~~~e~l~~~l~~La~~l~~rLr~----~~~~~~~vtlklk~~~---f~--- 455 (517)
T 3pzp_A 389 LGLGSTHLTRDGERKSMSVERTFS--E-INKAEEQYSLCQELCSELAQDLQK----ERLKGRTVTIKLKNVN---FE--- 455 (517)
T ss_dssp TTCCCCSCCCCCCCCCEEEEEEEE--E-ECCHHHHHHHHHHHHHHHHHHHHT----TTCCBSCEEEEEEETT---SC---
T ss_pred cCCCcccccCCCCCccceeEEEcc--c-ccCHHHHHHHHHHHHHHHHHHHHH----cCCceeEEEEEEEecC---Cc---
Confidence 999999999888999999999997 3 788999999999999999999997 6899999999999753 32
Q ss_pred CcCcccccCCCcchhHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCccccc
Q 004805 378 KFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVL 440 (729)
Q Consensus 378 ~~~srs~~L~~~t~~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~~ 440 (729)
..+++.+++.+|+ ++..|++.+..+|...++. ....+.+||+|||++++|++..
T Consensus 456 -~~tr~~tl~~~t~----~~~~i~~~a~~Ll~~~~~~----~~~~~~~iRllGV~~s~l~~~~ 509 (517)
T 3pzp_A 456 -VKTRASTVSSVVS----TAEEIFAIAKELLKTEIDA----DFPHPLRLRLMGVRISSFPNEE 509 (517)
T ss_dssp -EEEECCCCSSCBC----SHHHHHHHHHHHHHHHHHH----HTTSCCCEEEEEEEECCCCCCC
T ss_pred -eeeEEEeCCCCCC----CHHHHHHHHHHHHHHHhhh----ccCCCCcEEEEEEEecCCcChh
Confidence 2488899998884 6778898888888754320 0113557999999999998864
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=2.2e-71 Score=624.43 Aligned_cols=396 Identities=23% Similarity=0.356 Sum_probs=301.5
Q ss_pred CCCCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccc
Q 004805 8 SSGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPV 87 (729)
Q Consensus 8 ~~~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~ 87 (729)
..+.|+|+||||||||||||++++|+|+++||||+++ |+|+||||+||++||++||++++|+++||+|++++
T Consensus 30 ~~~~r~i~hiD~D~FyAsvE~~~~P~L~~kPvaV~~~-----~~V~a~syeAR~~GV~~gm~~~~A~~lCP~lv~v~--- 101 (459)
T 1t94_A 30 RNLSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM-----SMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVP--- 101 (459)
T ss_dssp CCCSCCEEEEEETTHHHHHHHHHCGGGTTSCEEEECS-----SCEEEECHHHHHTTCCTTCCHHHHHHHCTTCEEEC---
T ss_pred cCCCceEEEEecccHHHHHHHhhCccccCCcEEEccC-----CeEEecCHHHHHcCCCCCCcHHHHHHHCCCeEEEC---
Confidence 3577999999999999999999999999999999863 68999999999999999999999999999998885
Q ss_pred cCCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcC----------C----C-CC---cchhhHH
Q 004805 88 ARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAET----------P----P-ES---LDEVDEE 148 (729)
Q Consensus 88 ~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~----------~----~-~~---~~~~~~~ 148 (729)
+|++.|+++|++|+++|.+| |.||++||||+|||||++....+... . . .. ...+++.
T Consensus 102 ----~d~~~Y~~~S~~i~~il~~~~p~ve~~SiDEafLDvT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (459)
T 1t94_A 102 ----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEH 177 (459)
T ss_dssp ----CCHHHHHHHHHHHHHHHHHHCTTCEECSSSEEEEECHHHHHHHTTCCGGGSEEECCC---CCCCCCCGGGGGGSTT
T ss_pred ----CCHHHHHHHHHHHHHHHHHhCCceEEeecceEEEECchhHHHhhcccccccccccccccccccccccCcccccccc
Confidence 79999999999999999996 88999999999999999875322000 0 0 00 0000000
Q ss_pred H--hhhhcccCccC----CCCCchhhhhhhhhccCcchhhhhhh-hHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHh
Q 004805 149 A--LKSHILGLESK----DGNDSKATVKEWLCRCDADHRDKLLA-CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLA 221 (729)
Q Consensus 149 ~--~~~~l~G~~~~----~~~~~~~~~~~w~~~~~~~~~d~ll~-~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLA 221 (729)
. ..+.+++..+. .|........+|. +....+.+.+|+ .+..+|++||++|++++|||||||||+||+|||||
T Consensus 178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~fg~~~~~la~~IR~~I~~~~Glt~S~GIa~nk~LAKlA 256 (459)
T 1t94_A 178 ERSISPLLFEESPSDVQPPGDPFQVNFEEQN-NPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVC 256 (459)
T ss_dssp TTTTGGGCC-----------------------CCCCCCCEEECCSSHHHHHHHHHHHHHHHHSCCEEEEEESSHHHHHHH
T ss_pred ccccccccccccccccccccccccccccccc-ccccccchhhccCCHHHHHHHHHHHHHHHhCCeEEEeecccHHHHHHH
Confidence 0 00011100000 0000000001111 111122334453 58899999999999999999999999999999999
Q ss_pred ccCCCCCceeeccCC--chhcccccCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhc
Q 004805 222 SGMNKPAQQTTVPFS--SVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARG 299 (729)
Q Consensus 222 S~~~KPngqtvv~~~--~v~~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arG 299 (729)
++++|||||++++++ ++.+||+++||++|||||++++++|. .+||+|++||++++ ..|+++||...|.+||+.++|
T Consensus 257 s~~~KP~g~~vl~~~~~~v~~fL~~lpv~~l~GiG~~~~~~L~-~lGI~T~gdL~~~~-~~L~~~fG~~~~~~l~~~a~G 334 (459)
T 1t94_A 257 SDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQQR-ALLSLLFSETSWHYFLHISLG 334 (459)
T ss_dssp HHHTTTTCEEECCSSHHHHHHHHTTCBGGGCTTSCHHHHHHHH-HTTCCBHHHHHHTH-HHHHHHSCHHHHHHHHHHHTT
T ss_pred hhccCCCCEEEecCcHHHHHHHHHcCCHHhcCCcCHHHHHHHH-HcCCCcHHHHHhhH-HHHHHHhChHhHHHHHHHHcC
Confidence 999999999999984 79999999999999999999999996 99999999999986 789999997679999999999
Q ss_pred CCCcccccccCCcccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeeccCCCCCCCCCc
Q 004805 300 ISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFKSSDSDSRKKF 379 (729)
Q Consensus 300 iD~~~V~~~~~pKSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~~~~~~s~~~~ 379 (729)
+|+++|.+..++|||+.+++|+ . +.+.+++..+|..|+++|+.||++ +++.+++|+|++++.+ |. .
T Consensus 335 ~d~~~v~~~~~~kSi~~~~tf~--~-~~~~~~l~~~l~~L~~~l~~rL~~----~~~~~~~vtl~l~~~~---~~----~ 400 (459)
T 1t94_A 335 LGSTHLTRDGERKSMSVERTFS--E-INKAEEQYSLCQELCSELAQDLQK----ERLKGRTVTIKLKNVN---FE----V 400 (459)
T ss_dssp CCCSCC---C--CCEEEEEEEE--E-ECCHHHHHHHHHHHHSSTTCCCC-------CCCSCEEEEEEETT---CC----E
T ss_pred CCCcccCCCCCCcceeeeeecC--C-CCCHHHHHHHHHHHHHHHHHHHHH----hCCCcceEEEEEEECC---Cc----e
Confidence 9999999888999999999997 3 789999999999999999999987 5889999999998743 22 2
Q ss_pred CcccccCCCcchhHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCccccc
Q 004805 380 PSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPVL 440 (729)
Q Consensus 380 ~srs~~L~~~t~~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~~ 440 (729)
.+++++++.+|+ ++..|++.+..+|...+.. ....+.+||+|||++++|.+..
T Consensus 401 ~srs~~l~~~t~----~~~~i~~~a~~ll~~~~~~----~~~~~~~ir~lGv~~~~l~~~~ 453 (459)
T 1t94_A 401 KTRASTVSSVVS----TAEEIFAIAKELLKTEIDA----DFPHPLRLRLMGVRISSFPNEE 453 (459)
T ss_dssp EEECC-CCCCCC----C--CHHHHHHHHHHHHHSS----STTSCCCEEEEEEEECC-----
T ss_pred eeEEEECCCccC----CHHHHHHHHHHHHHHHHhh----ccCCCCcEEEEEEEEccCcCcc
Confidence 478888988884 5667888888887765421 0113567999999999998864
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=2.5e-68 Score=595.59 Aligned_cols=351 Identities=21% Similarity=0.251 Sum_probs=304.3
Q ss_pred CCCCEEEEEeCCchhHhhhchhCC------CCCCCcEEEEeccCCCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCC---
Q 004805 9 SGARIIAHVDLDCFYVQVEQRKQP------KLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQ--- 79 (729)
Q Consensus 9 ~~~rvI~HIDmD~FyASVE~~~~P------~LrgkPvaV~q~~~~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~--- 79 (729)
...|+|+||||||||||||++++| +|+++||||++.. ++|.|+||||+||++||++||++++|+++||+
T Consensus 49 ~~~r~i~hiD~d~FyaSvE~~~~p~~l~~~~l~~~Pv~V~~~~--~~~~V~a~syeAR~~GV~~gm~~~~A~~lcP~~~~ 126 (434)
T 2aq4_A 49 KDTYIIFHIDFDCFFATVAYLCRSSSFSACDFKRDPIVVCHGT--KNSDIASCNYVARSYGIKNGMWVSQAEKMLPNGIK 126 (434)
T ss_dssp SCEEEEEEEEETTTTHHHHHHTCCGGGTTCCTTTSCEEECSCS--SSCBCSEECHHHHHTTCCTTCBHHHHHTTCCTTCC
T ss_pred CCceEEEEEecCcHHHHHHHHHcCcccccccccCCcEEEEecC--CCCeEEEcCHHHHHcCCCCCCcHHHHHHhCCCCCC
Confidence 356899999999999999999999 9999999998542 24679999999999999999999999999999
Q ss_pred cEEEEccccCCCCChHHHHHHHHHHHHHHHhc---CCeeeeccceeEEe--cccchhHhhhcCCCCCcchhhHHHhhhhc
Q 004805 80 IELVQVPVARGKADLSSYRNAGSEVVSILARK---GRCERASIDEVYLD--LTDAAEAMLAETPPESLDEVDEEALKSHI 154 (729)
Q Consensus 80 L~vv~Vp~~~~k~d~~~Yr~~S~~I~~iL~~~---~~vE~~SIDEafLD--lT~~~~~~l~~~~~~~~~~~~~~~~~~~l 154 (729)
|++++ +||+.|+++|++|+++|.+| +.||++||||+||| +|++.. +
T Consensus 127 lvv~~-------~~~~~Y~~~S~~i~~il~~~~~t~~ve~~SiDEaflD~~vt~~~~----------------------~ 177 (434)
T 2aq4_A 127 LISLP-------YTFEQFQLKSEAFYSTLKRLNIFNLILPISIDEAVCVRIIPDNIH----------------------N 177 (434)
T ss_dssp CEEEC-------CCHHHHHHHHHHHHHHHHHTTCCSEEEEEETTEEEEEEEECC--------------------------
T ss_pred EEEEC-------CChHHHHHHHHHHHHHHHhcCCCCCEEEEcCceeEEcCcCccchh----------------------h
Confidence 98874 79999999999999999994 68999999999999 888641 1
Q ss_pred ccCccCCCCCchhhhhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHh-CCceeEeecCCHHHHHHhccCCCCCceeec
Q 004805 155 LGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKET-EFTCSAGIAHNKMLAKLASGMNKPAQQTTV 233 (729)
Q Consensus 155 ~G~~~~~~~~~~~~~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~et-Glt~S~GIA~NklLAKLAS~~~KPngqtvv 233 (729)
+ ++.+..+|++||++|++++ |||||||||+||+|||||++++||+|++++
T Consensus 178 ~-----------------------------~~~~~~la~~Ir~~I~~~~gGlt~svGIa~nk~lAKlAs~~aKp~G~~~l 228 (434)
T 2aq4_A 178 T-----------------------------NTLNARLCEEIRQEIFQGTNGCTVSIGCSDSLVLARLALKMAKPNGYNIT 228 (434)
T ss_dssp -------------------------------CHHHHHHHHHHHHHHHHHSSCCEEEEEESSHHHHHHHHHHHCSSCEECC
T ss_pred c-----------------------------CCCHHHHHHHHHHHHHHHcCCCcEEEEecCCHHHHHHHHhcCCCCCEEEE
Confidence 1 1235678999999999999 899999999999999999999999999999
Q ss_pred cCCch-hcccccCcccccCCCcHHHHHHHHHH--hCCcchhhhhcC-CHHHHHHhhCCChHHHHHHHHhcCCCcccc---
Q 004805 234 PFSSV-KGLLDSLPIKKMKQLGGKLGTSLQNE--LGVTTVGDLLKF-SEDKLQESYGFNTGTWLWNIARGISGEEVQ--- 306 (729)
Q Consensus 234 ~~~~v-~~fL~~LPI~~L~GIG~k~~~~L~~~--lGI~TigDLa~l-~~~~L~~rFG~~~g~~L~~~arGiD~~~V~--- 306 (729)
+++++ .+||+++||++|||||++++++|+ . +||+|++||+++ |...|+++||...|.++|++|+|+|+++|.
T Consensus 229 ~~~~~~~~~l~~lpv~~l~GiG~~~~~~L~-~~~~GI~ti~dL~~~~~~~~L~~~fG~~~g~~l~~~a~G~d~~~v~~~~ 307 (434)
T 2aq4_A 229 FKSNLSEEFWSSFKLDDLPGVGHSTLSRLE-STFDSPHSLNDLRKRYTLDALKASVGSKLGMKIHLALQGQDDEESLKIL 307 (434)
T ss_dssp CGGGCCHHHHTTCCGGGSTTCCHHHHHHHH-HHTTCCCSHHHHHHHCCHHHHHHHHCSSHHHHHHHHTTTCCCHHHHHHH
T ss_pred CChhhHHHHhhcCCcccccCcCHHHHHHHH-HhcCCceEHHHHHhcCCHHHHHHHhCHHHHHHHHHHhcCCCcccccccc
Confidence 99887 689999999999999999999997 8 899999999999 999999999965799999999999999985
Q ss_pred --cc--cCCcccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEEEEEeecc-CCCCCC--C---
Q 004805 307 --AR--LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTLHASAFK-SSDSDS--R--- 376 (729)
Q Consensus 307 --~~--~~pKSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLtL~lr~~~-~~~~~s--~--- 376 (729)
+. .++|||+.+++|+ .++.+.+++..+|..|+++|+.||++ .++.+++|+|+++++. +..+.. +
T Consensus 308 ~~~~~~~~~ksi~~~~tf~--~~~~~~~~l~~~l~~l~~~l~~rLr~----~~~~~~~v~l~l~~r~~~~~~~~~ky~g~ 381 (434)
T 2aq4_A 308 YDPKEVLQRKSLSIDINWG--IRFKNITQVDLFIERGCQYLLEKLNE----INKTTSQITLKLMRRCKDAPIEPPKYMGM 381 (434)
T ss_dssp HCHHHHHSCCCEEEEECSS--CCCSSHHHHHHHHHHHHHHHHHHHHH----TTEEEEEEEEEEEEECTTSCSSCSSTTCC
T ss_pred cCcccCCCCceeEEEEECC--CCCCCHHHHHHHHHHHHHHHHHHHHH----cCCcceEEEEEEEEecCCCCcccccccCC
Confidence 32 4789999999998 57999999999999999999999997 6999999999998532 111110 1
Q ss_pred --CCcCcccccCCCcchhHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCccc
Q 004805 377 --KKFPSKSCPLRYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVP 438 (729)
Q Consensus 377 --~~~~srs~~L~~~t~~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~ 438 (729)
....+++.+++.+|+ ++..|++.+..+|...+ +.+.+||+|||++++|.+
T Consensus 382 gd~~~~s~s~~l~~pt~----~~~~i~~~a~~ll~~~~--------~~~~~vR~lgv~~s~l~~ 433 (434)
T 2aq4_A 382 GRCDSFSRSSRLGIPTN----EFGIIATEMKSLYRTLG--------CPPMELRGLALQFNKLVD 433 (434)
T ss_dssp CSEEEEEEEEEEEEEEC----CHHHHHHHHHHHHHHHT--------CCGGGEEEEEEEEEEEEE
T ss_pred CCcccceEEeecCCCcC----CHHHHHHHHHHHHHHhc--------CCCCCEEEEEEEEeCccc
Confidence 013578888888884 67788888888887542 236799999999999865
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=5.4e-57 Score=461.33 Aligned_cols=215 Identities=29% Similarity=0.505 Sum_probs=188.1
Q ss_pred CCCEEEEEeCCchhHhhhchhCCCCCCCcEEEEeccC--CCCcEEEEcCHHHHHcCCCCCCCHHHHHhhCCCcEEEEccc
Q 004805 10 GARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNE--WKGGGLIAVGYEARNYGVKRSMRGDEAKEVCPQIELVQVPV 87 (729)
Q Consensus 10 ~~rvI~HIDmD~FyASVE~~~~P~LrgkPvaV~q~~~--~~~g~ViA~SYeARk~GVk~GM~~~eA~~LCP~L~vv~Vp~ 87 (729)
++.+|+||||||||||||++++|+|+++||||++... .++|+|+||||+||++||++||++++|+++||++++++
T Consensus 4 ~~~~~~hiD~d~FyasvE~~~~p~L~~~Pv~V~~~~~~~~~~g~V~a~s~~Ar~~GV~~gm~~~~A~~lcP~l~v~~--- 80 (221)
T 1im4_A 4 HHHIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVP--- 80 (221)
T ss_dssp SSCCEEEEEETTHHHHHHHHHSGGGTTSCEEEEEEC----CCEEEEEECHHHHTTTCCTTCBHHHHHHHCTTSEEEE---
T ss_pred cceEEEEEecCcHHHHHHHHHCccccCCcEEEEecCCcCCCCCEEEECCHHHHHcCCCCCCcHHHHHHHCCCeEEEC---
Confidence 5678999999999999999999999999999995321 24689999999999999999999999999999999885
Q ss_pred cCCCCChHHHHHHHHHHHHHHHhc-CCeeeeccceeEEecccchhHhhhcCCCCCcchhhHHHhhhhcccCccCCCCCch
Q 004805 88 ARGKADLSSYRNAGSEVVSILARK-GRCERASIDEVYLDLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSK 166 (729)
Q Consensus 88 ~~~k~d~~~Yr~~S~~I~~iL~~~-~~vE~~SIDEafLDlT~~~~~~l~~~~~~~~~~~~~~~~~~~l~G~~~~~~~~~~ 166 (729)
+|++.|+++|++|++++.+| |.||++||||+|||+|++. +
T Consensus 81 ----~~~~~Y~~~s~~i~~~l~~~tp~ve~~siDE~~lDvt~~~----------------------~------------- 121 (221)
T 1im4_A 81 ----MRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKV----------------------E------------- 121 (221)
T ss_dssp ----CCHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTT----------------------T-------------
T ss_pred ----CCHHHHHHHHHHHHHHHHHhCCceEEecCCeEEEEecchh----------------------h-------------
Confidence 79999999999999999996 8899999999999999864 1
Q ss_pred hhhhhhhhccCcchhhhhhhhHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCc
Q 004805 167 ATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLP 246 (729)
Q Consensus 167 ~~~~~w~~~~~~~~~d~ll~~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LP 246 (729)
.+|+.+..++++||++|++++|++||+|||+||++||||++++||+|+++++++++.+||++||
T Consensus 122 ----------------~l~~~~~~la~~ir~~i~~~~Gl~~svGia~nk~lAKlas~~~Kp~g~~~~~~~~~~~~L~~lp 185 (221)
T 1im4_A 122 ----------------GNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELD 185 (221)
T ss_dssp ----------------TCHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHHHHHHHHHHTCSSCEEECCGGGHHHHHHTCB
T ss_pred ----------------hccCCHHHHHHHHHHHHHHHhCCeEEEEeCCCHHHHHHHHhhcCCCCEEEECHHHHHHHHHhCC
Confidence 0233456789999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHH
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE 283 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~ 283 (729)
|++|||||+++.++|+ .+||+|++||+++|+..|++
T Consensus 186 v~~l~giG~~~~~~L~-~~Gi~TigdL~~~~~~~L~~ 221 (221)
T 1im4_A 186 IDEIPGIGSVLARRLN-ELGIQKLRDILSKNYNELEK 221 (221)
T ss_dssp GGGSTTCCHHHHHHHH-HTTCCBTTC-----------
T ss_pred cccccCCCHHHHHHHH-HcCCCcHHHHHCCCHHHhhC
Confidence 9999999999999997 99999999999999988764
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=98.92 E-value=9.2e-10 Score=100.56 Aligned_cols=99 Identities=10% Similarity=0.164 Sum_probs=79.8
Q ss_pred cccccccccCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhcCceeEEEE---EEEeeccCCCCCCCCCcCcccccCCC
Q 004805 312 KSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLT---LHASAFKSSDSDSRKKFPSKSCPLRY 388 (729)
Q Consensus 312 KSis~s~tF~~p~di~~~eel~~~L~~LaeeL~~RLr~~~~~~~~~artLt---L~lr~~~~~~~~s~~~~~srs~~L~~ 388 (729)
..+|.+.||+ .|+.+.+++..+|..|+++++.||++ .+ .+++|+ |+++|.+ |.+ .+++.+ .
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--EDIHHWSECEAIIERLYPELERRLAK----VK-PDLLIARQGVKLKFDD---FQQ----TTQEHV--W 68 (115)
T ss_dssp CEEEEEEEEE--EEECCHHHHHHHHHHHHHHHHHHHHH----HC-TTCBCSEEEEEEEETT---SCE----EEEEEE--C
T ss_pred CCCccceECC--CCCCCHHHHHHHHHHHHHHHHHHHHh----hC-CCCeEEEeEEEEEECC---CCe----EEeccc--c
Confidence 3578999998 68999999999999999999999997 47 899999 9999854 432 355555 4
Q ss_pred cchhHHHhHHHHHHHHHHHhhcccCccccCCCCCCcceeEEEEEccCcccc
Q 004805 389 GTAKIQEDTFNLFQAGLREFLGSFGVKTQGSHYSGWRITALSVSASKIVPV 439 (729)
Q Consensus 389 ~t~~i~~~a~~L~~aal~l~~~~~~~~~~~~~~~~~~IR~IGVsls~L~~~ 439 (729)
|| +++..|++++..+|... |.+.+||+|||++++|.+.
T Consensus 69 pt----~~~~~i~~~a~~Ll~~~---------~~~~~vRllGV~ls~L~~~ 106 (115)
T 1unn_C 69 PR----LNKADLIATARKTWDER---------RGGRGVRLVGLHVTLLDPQ 106 (115)
T ss_dssp SB----CCHHHHHHHHHHHHHHH---------CTTCCEEEEEEEEECCCCC
T ss_pred Cc----CCHHHHHHHHHHHHHhh---------hcCCCEEEEEEEEeCCCCC
Confidence 56 36677888888888753 3467999999999999765
No 14
>2kwv_A RAD30 homolog B, DNA polymerase IOTA; ubiquitin-binding motif, UBM, TL protein binding-signaling protein complex; HET: DNA; NMR {Mus musculus}
Probab=95.54 E-value=0.0058 Score=45.91 Aligned_cols=21 Identities=43% Similarity=0.756 Sum_probs=18.8
Q ss_pred ccCCccccccCChHHHHHHHH
Q 004805 682 EEIDPSVIDELPKEIQDEIQA 702 (729)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~~~~ 702 (729)
+.||+.|+.+||.+||.||-+
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 569999999999999999853
No 15
>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=95.21 E-value=0.03 Score=45.34 Aligned_cols=51 Identities=22% Similarity=0.328 Sum_probs=44.8
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCCh-HHHHHHHHhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT-GTWLWNIARG 299 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~-g~~L~~~arG 299 (729)
+.++||||++....|...+| ++.+|..++.+.|.+..|... +..+|++.+.
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 46789999999999975555 999999999999999999888 8999998874
No 16
>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=95.11 E-value=0.015 Score=48.34 Aligned_cols=53 Identities=25% Similarity=0.287 Sum_probs=44.9
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC--ChHHHHHHHHhc
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF--NTGTWLWNIARG 299 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~--~~g~~L~~~arG 299 (729)
+|.+|+|||+.+..+|. ..||+|+.||+.++...|....|. ..+..+...||.
T Consensus 8 ~l~~L~Gi~~~~~~kL~-e~Gi~TvedlA~~~~~eL~~i~gise~kA~~ii~aAr~ 62 (70)
T 1wcn_A 8 DLLNLEGVDRDLAFKLA-ARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN 62 (70)
T ss_dssp HHHSSTTCCHHHHHHHH-TTTCCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHHHHH
T ss_pred HHHHcCCCCHHHHHHHH-HcCCCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHH
Confidence 45678899999999997 999999999999999999998884 346677777763
No 17
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=93.25 E-value=0.048 Score=47.73 Aligned_cols=35 Identities=17% Similarity=0.306 Sum_probs=30.9
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHH
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKL 281 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L 281 (729)
.|++||+||+++++.|. .+||+|+.||..+.+..+
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 999999999998766543
No 18
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=92.79 E-value=0.096 Score=44.94 Aligned_cols=51 Identities=24% Similarity=0.314 Sum_probs=44.9
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCCh-HHHHHHHHhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT-GTWLWNIARG 299 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~-g~~L~~~arG 299 (729)
+..|||||++...+|. --+.++.+|..++.+.|.+..|... +..+|.+++.
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 5688999999999996 4566999999999999999999888 8999998863
No 19
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=92.76 E-value=0.082 Score=46.26 Aligned_cols=35 Identities=17% Similarity=0.306 Sum_probs=30.9
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHH
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKL 281 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L 281 (729)
.|++||+||+++++.|. ..||.|+.||..+.....
T Consensus 5 ~L~dLPNig~~~e~~L~-~~GI~t~~~Lr~~Ga~~a 39 (93)
T 3mab_A 5 NLSELPNIGKVLEQDLI-KAGIKTPVELKDVGSKEA 39 (93)
T ss_dssp CGGGSTTCCHHHHHHHH-HTTCCSHHHHHHHCHHHH
T ss_pred HHhhCCCCCHHHHHHHH-HcCCCCHHHHHhCCHHHH
Confidence 47899999999999997 999999999999876543
No 20
>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=91.02 E-value=0.26 Score=41.12 Aligned_cols=52 Identities=17% Similarity=0.234 Sum_probs=42.3
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHH
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 297 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~a 297 (729)
..||..| ++..+...-|. +.||+|++||...+.+.|.+. ||.+....+...+
T Consensus 8 ~~~Ie~L-~LS~Ra~NcLk-ragI~Tv~dL~~~s~~dLlki~n~G~kSl~EI~~~L 61 (73)
T 1z3e_B 8 EMTIEEL-DLSVRSYNCLK-RAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKL 61 (73)
T ss_dssp TCBGGGS-CCBHHHHHHHH-HTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred cCcHHHh-CCCHHHHHHHH-HcCCCcHHHHHcCCHHHHHHcCCCCHHHHHHHHHHH
Confidence 4788888 79999999997 999999999999999999765 7765544454444
No 21
>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=89.38 E-value=0.36 Score=40.93 Aligned_cols=54 Identities=17% Similarity=0.214 Sum_probs=42.5
Q ss_pred cccccCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHH
Q 004805 240 GLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWN 295 (729)
Q Consensus 240 ~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~ 295 (729)
.-+-.+||..| ++..+...-|. +.||+|++||...+...|.+. ||.+....+..
T Consensus 11 ~~~l~~~Ie~L-~LS~Ra~NcLk-~agI~Tv~dL~~~se~dLlki~n~G~kSl~EI~~ 66 (79)
T 3gfk_B 11 EKVLEMTIEEL-DLSVRSYNCLK-RAGINTVQELANKTEEDMMKVRNLGRKSLEEVKA 66 (79)
T ss_dssp CCGGGCBGGGS-CCBHHHHHHHH-HTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHH
T ss_pred HHHhcCcHHHh-CCCHHHHHHHH-HhCCCCHHHHHhCCHHHHHHcCCCCHhHHHHHHH
Confidence 34557899998 89999999997 999999999999999988655 66554444443
No 22
>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=89.38 E-value=0.29 Score=44.40 Aligned_cols=56 Identities=18% Similarity=0.231 Sum_probs=46.4
Q ss_pred cCcccccC--CCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC--ChHHHHHHHHhcC
Q 004805 244 SLPIKKMK--QLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF--NTGTWLWNIARGI 300 (729)
Q Consensus 244 ~LPI~~L~--GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~--~~g~~L~~~arGi 300 (729)
++||.+|+ |||+...++|. .-|++|+.+|+..++..|.+.=|. ..+..+...|+-.
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 35888888 99999999997 999999999999999999876664 3566777777644
No 23
>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=88.64 E-value=0.16 Score=44.22 Aligned_cols=29 Identities=41% Similarity=0.793 Sum_probs=21.6
Q ss_pred cCCccccccCChHHHHHH-HHhhCCCCCCC
Q 004805 683 EIDPSVIDELPKEIQDEI-QAWLRPSKRPH 711 (729)
Q Consensus 683 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 711 (729)
+|||.|+.|||+|+|+|+ ..|=|..--++
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 45866544333
No 24
>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=88.07 E-value=0.66 Score=39.84 Aligned_cols=50 Identities=16% Similarity=0.318 Sum_probs=41.1
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHHh
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIAR 298 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~ar 298 (729)
+..++|||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++....
T Consensus 34 L~~IpgIG~~~A~~Ll~~fg--s~~~l~~as~~eL~~i~GIG~~~a~~I~~~l~ 85 (91)
T 2a1j_B 34 LTTVKSVNKTDSQTLLTTFG--SLEQLIAASREDLALCPGLGPQKARRLFDVLH 85 (91)
T ss_dssp HTTSTTCCHHHHHHHHHHHS--SHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHH
T ss_pred HHcCCCCCHHHHHHHHHHCC--CHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHh
Confidence 45789999999999987776 7899999999999888 77766777776654
No 25
>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=87.67 E-value=0.37 Score=40.16 Aligned_cols=50 Identities=12% Similarity=0.146 Sum_probs=39.1
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHH
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNI 296 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~ 296 (729)
..+..++|||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++..
T Consensus 24 ~~L~~I~gIG~~~A~~Ll~~fg--sl~~l~~a~~eeL~~i~GIG~~~a~~I~~~ 75 (78)
T 1kft_A 24 SSLETIEGVGPKRRQMLLKYMG--GLQGLRNASVEEIAKVPGISQGLAEKIFWS 75 (78)
T ss_dssp CGGGGCTTCSSSHHHHHHHHHS--CHHHHHHCCHHHHTTSSSTTSHHHHHHHHH
T ss_pred HHHhcCCCCCHHHHHHHHHHcC--CHHHHHHCCHHHHHHCCCCCHHHHHHHHHH
Confidence 3466889999999999987776 7889999999999887 666555555544
No 26
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=86.66 E-value=0.62 Score=39.77 Aligned_cols=51 Identities=16% Similarity=0.307 Sum_probs=41.1
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHHhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIARG 299 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~arG 299 (729)
+..+||||++++.+|.+.+| ++.+|...+.+.|.+. +|...+..++.....
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 55789999999999986666 7899999999999888 666666777766653
No 27
>1qw2_A Conserved hypothetical protein TA1206; structural genomics, beta/alpha, antiparallel beta sandwich, protein structure initiative; 1.50A {Thermoplasma acidophilum} SCOP: d.249.1.1
Probab=85.32 E-value=0.34 Score=42.87 Aligned_cols=27 Identities=11% Similarity=0.132 Sum_probs=24.3
Q ss_pred cEEEEcCHHHHHcCCCCCCCHHHHHhh
Q 004805 50 GGLIAVGYEARNYGVKRSMRGDEAKEV 76 (729)
Q Consensus 50 g~ViA~SYeARk~GVk~GM~~~eA~~L 76 (729)
+-|.++|..|++.||+.||+..+|+.+
T Consensus 74 a~i~~vt~~A~elGI~~GM~g~eAL~k 100 (102)
T 1qw2_A 74 AKVVEASQEAQKVGINPGDVLRNVIDK 100 (102)
T ss_dssp SBCSEECHHHHHTTCCTTCBHHHHGGG
T ss_pred ChHHHHHHHHHHhCCCCCCCHHHHHHh
Confidence 347899999999999999999999864
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=85.10 E-value=0.98 Score=38.85 Aligned_cols=52 Identities=19% Similarity=0.310 Sum_probs=41.7
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHH--hhCCChHHHHHHHH
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE--SYGFNTGTWLWNIA 297 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~--rFG~~~g~~L~~~a 297 (729)
..||..| ++..+...-|. +.||+|++||...+.+.|.+ -||.+....+...+
T Consensus 11 ~~~I~~L-~LSvRa~NcLk-ragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L 64 (86)
T 3k4g_A 11 LRPVDDL-ELTVRSANCLX-AEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVL 64 (86)
T ss_dssp GSBGGGG-CCCHHHHHHHH-HTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred hCcHHHh-CCCHHHHHHHH-HcCCCcHHHHHhCCHHHHhhccccCcccHHHHHHHH
Confidence 5688888 79999999997 99999999999999988864 47766555555544
No 29
>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=81.74 E-value=0.28 Score=50.13 Aligned_cols=52 Identities=17% Similarity=0.219 Sum_probs=0.0
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHH
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 297 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~a 297 (729)
..+..|+|||++++..|. ..|+.++.+|...+...|.+. ||.+.+..++..+
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 457788999999999998 559999999999999999888 7766666665443
No 30
>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=81.66 E-value=1.4 Score=44.42 Aligned_cols=49 Identities=12% Similarity=0.238 Sum_probs=42.7
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC-ChHHHHHHH
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF-NTGTWLWNI 296 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~-~~g~~L~~~ 296 (729)
++..++|||+++++.|.+.+| ++..|...+.+.|.+.+|. ..+..++++
T Consensus 169 ~LdgIpGIG~k~ak~Ll~~Fg--Sl~~i~~As~EeL~~VIG~~~~A~~I~~~ 218 (220)
T 2nrt_A 169 VLDNVPGIGPIRKKKLIEHFG--SLENIRSASLEEIARVIGSTEIARRVLDI 218 (220)
T ss_dssp HHTTSTTCCHHHHHHHHHHHC--SHHHHHTSCHHHHHHHHTCHHHHHHHHHH
T ss_pred cccCCCCcCHHHHHHHHHHcC--CHHHHHhCCHHHHHHHhChHHHHHHHHHH
Confidence 467899999999999987887 8999999999999999998 877777764
No 31
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}
Probab=81.57 E-value=3.4 Score=35.21 Aligned_cols=44 Identities=18% Similarity=0.228 Sum_probs=39.4
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN 288 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~ 288 (729)
.+.++..||+...+.+.|+ +-||+|+.|+...++.+|.+..|..
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 4556666999999999997 9999999999999999999999974
No 32
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=80.52 E-value=0.87 Score=40.11 Aligned_cols=51 Identities=20% Similarity=0.323 Sum_probs=42.1
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHH
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIA 297 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~a 297 (729)
+||..| ++..+...-|. +.||+|++||...+...|-+. ||.+....+...+
T Consensus 24 ~~Ie~L-~LSvRs~NcLk-ragI~Tv~dL~~~se~dLlki~n~G~KSl~EI~~~L 76 (98)
T 1coo_A 24 RPVDDL-ELTVRSANCLK-AEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 76 (98)
T ss_dssp SBGGGG-TCCTTTHHHHH-TTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred CcHHHh-CCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHhcCCCCHHHHHHHHHHH
Confidence 788888 78889999997 999999999999999998655 8876555555555
No 33
>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=77.54 E-value=1.8 Score=37.37 Aligned_cols=34 Identities=24% Similarity=0.389 Sum_probs=28.1
Q ss_pred cccccCcccccCCCcHHHHHHHHHHhCCcchhhhh
Q 004805 240 GLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLL 274 (729)
Q Consensus 240 ~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa 274 (729)
+-|..-+|+.+||||+.++.+|. .-|+.+..+|.
T Consensus 13 EPmgeK~V~evpGIG~~~~~~L~-~~Gf~kAy~lL 46 (89)
T 1ci4_A 13 EPMGEKPVGSLAGIGEVLGKKLE-ERGFDKAYVVL 46 (89)
T ss_dssp SCCTTCCGGGSTTCCHHHHHHHH-HTTCCSHHHHH
T ss_pred CCCCCCCcccCCCcCHHHHHHHH-HcCccHHHHHH
Confidence 33455689999999999999997 89999876665
No 34
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=77.52 E-value=1.2 Score=51.77 Aligned_cols=52 Identities=23% Similarity=0.376 Sum_probs=46.1
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHh
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 298 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~ar 298 (729)
+|+..|||||+..+.+|. ..|++|+.||+ +++..|.+.+|...|..++..+.
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 588899999999999997 99999999999 99999999998777777777543
No 35
>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=76.27 E-value=3.4 Score=43.64 Aligned_cols=61 Identities=15% Similarity=0.269 Sum_probs=49.9
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC--hHHHHHHHHhcCCCccc
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGISGEEV 305 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~--~g~~L~~~arGiD~~~V 305 (729)
..|+..|||||+...++|. ..||.|+.||..++...+...+|.. .|..++..++....-.|
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 3588899999999999996 8999999999999999999987743 46677777776654444
No 36
>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=75.43 E-value=2.2 Score=45.51 Aligned_cols=54 Identities=24% Similarity=0.266 Sum_probs=43.8
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC--hHHHHHHHHh
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIAR 298 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~--~g~~L~~~ar 298 (729)
..+|.+|+||++.+.++|. ..|++|+.+++..++..|.+.-|.. ....+.+.++
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 3478899999999999997 9999999999999999999998853 2344444443
No 37
>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=75.40 E-value=3.1 Score=43.42 Aligned_cols=54 Identities=15% Similarity=0.188 Sum_probs=43.8
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC--hHHHHHHHHhcC
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGI 300 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~--~g~~L~~~arGi 300 (729)
+|.+|+||++.+..+|. .-||+|+.||+..++..|.+.-|.. ....+...|+-.
T Consensus 4 ~~~~l~gi~~~~~~kL~-~~gi~t~~~~~~~~~~~L~~~~gis~~~a~~~i~~a~~~ 59 (322)
T 2i1q_A 4 NLTDLPGVGPSTAEKLV-EAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARDL 59 (322)
T ss_dssp -CTTSTTCCHHHHHHHH-HHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred cHhhcCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHhhCcCHHHHHHHHHHHHHh
Confidence 67788999999999997 9999999999999999999888854 234556656543
No 38
>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=71.52 E-value=4 Score=32.97 Aligned_cols=51 Identities=12% Similarity=0.180 Sum_probs=38.3
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHHh
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIAR 298 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~ar 298 (729)
.+..++|||++++.+|.+.+ .++.+|...+.+.|.+. +|...+..++....
T Consensus 15 ~L~~i~giG~~~a~~Ll~~f--gs~~~l~~a~~~~L~~i~Gig~~~a~~i~~~~~ 67 (75)
T 1x2i_A 15 IVEGLPHVSATLARRLLKHF--GSVERVFTASVAELMKVEGIGEKIAKEIRRVIT 67 (75)
T ss_dssp HHTTSTTCCHHHHHHHHHHH--CSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred HHcCCCCCCHHHHHHHHHHc--CCHHHHHhCCHHHHhcCCCCCHHHHHHHHHHHh
Confidence 35688999999999998655 45888888999999877 55555555655443
No 39
>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=71.27 E-value=1.8 Score=50.39 Aligned_cols=52 Identities=13% Similarity=0.278 Sum_probs=47.5
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHh
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 298 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~ar 298 (729)
+|+..|||||+..+++|. ..|++|+.||+.++ ..|.+.+|...|..++..+.
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 578899999999999997 99999999999999 99999998778888888887
No 40
>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=70.39 E-value=4.5 Score=43.00 Aligned_cols=56 Identities=9% Similarity=0.110 Sum_probs=45.8
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC--hHHHHHHHHhcCC
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGIS 301 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~--~g~~L~~~arGiD 301 (729)
.|+..|||||+...++|. ..||.|+.||..++...+...+|.. .+..+++.++-..
T Consensus 161 ~pL~Qlp~i~~~~~~~l~-~~~i~s~~~l~~~~~~e~~~ll~l~~~~~~~i~~~~~~~P 218 (339)
T 2q0z_X 161 SYLKQLPHFTSEHIKRCT-DKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCNRYP 218 (339)
T ss_dssp CGGGGSTTCCHHHHHHHH-HTTCCSHHHHHHSCHHHHHHHHCCCHHHHHHHHHHHTTSC
T ss_pred CceecCCCCCHHHHHHHH-hcCCCCHHHHHhCCHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence 588999999999999996 8999999999999999998888842 2455666665443
No 41
>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=67.09 E-value=2.6 Score=50.03 Aligned_cols=30 Identities=33% Similarity=0.500 Sum_probs=27.8
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhc
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLK 275 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~ 275 (729)
.||..|+|||++.++.|. ++||.|++||+.
T Consensus 115 ~~~~~l~gvg~~~~~~l~-~lgi~~~~dll~ 144 (780)
T 1gm5_A 115 TDIQYAKGVGPNRKKKLK-KLGIETLRDLLE 144 (780)
T ss_dssp CCSSSSSSCCHHHHHHHH-TTTCCSSGGGTS
T ss_pred CCchhcCCCCHHHHHHHH-HCCCCcHHHHHh
Confidence 489999999999999997 999999999975
No 42
>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=65.28 E-value=4.7 Score=46.96 Aligned_cols=51 Identities=14% Similarity=0.240 Sum_probs=41.3
Q ss_pred cCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHH
Q 004805 244 SLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIA 297 (729)
Q Consensus 244 ~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~a 297 (729)
.+|+..|||||+..+++|. ..|++|+.||+.++...|.+. ...|..++..+
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 12344444444
No 43
>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=61.36 E-value=9.4 Score=41.59 Aligned_cols=56 Identities=23% Similarity=0.198 Sum_probs=45.1
Q ss_pred cccCcccccCC--CcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCCh--HHHHHHHHh
Q 004805 242 LDSLPIKKMKQ--LGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNT--GTWLWNIAR 298 (729)
Q Consensus 242 L~~LPI~~L~G--IG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~--g~~L~~~ar 298 (729)
-..+||.+|.+ |++++.++|. ..|++|+.+|+..++..|.+..|... ...+...++
T Consensus 78 ~~~~~~~~l~~~gi~~~~~~~L~-~ag~~tv~~~~~~~~~~L~~~~gis~~~~~~i~~~a~ 137 (400)
T 3lda_A 78 GSFVPIEKLQVNGITMADVKKLR-ESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAA 137 (400)
T ss_dssp CCSCBGGGGCCTTCCHHHHHHHH-HTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred cCccCHHHHHhCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 34578888886 8899999997 99999999999999999999999742 334444444
No 44
>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=59.91 E-value=2.5 Score=43.48 Aligned_cols=24 Identities=50% Similarity=0.945 Sum_probs=19.9
Q ss_pred ccCCccccccCChHHHHHHH-HhhC
Q 004805 682 EEIDPSVIDELPKEIQDEIQ-AWLR 705 (729)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~~~-~~~~ 705 (729)
-++||.|+.|||+|.|+|+- .|=|
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 46999999999999999974 5755
No 45
>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=59.11 E-value=4.4 Score=43.16 Aligned_cols=64 Identities=20% Similarity=0.240 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHhHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCcccccCCCcHHHHHHHHHHhC
Q 004805 187 CGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELG 266 (729)
Q Consensus 187 ~~~~la~~IR~~I~~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~~L~GIG~k~~~~L~~~lG 266 (729)
.|..+|+.|.+-+. +|- -..+..+-.+. .+..+.. +..+||||++++.+|. ..|
T Consensus 65 IG~~~A~kI~E~l~--tG~--------~~~le~l~~~~---------~~~~l~~------l~~V~GiGpk~a~~l~-~~G 118 (335)
T 2fmp_A 65 VGTKIAEKIDEFLA--TGK--------LRKLEKIRQDD---------TSSSINF------LTRVSGIGPSAARKFV-DEG 118 (335)
T ss_dssp CCHHHHHHHHHHHH--HSS--------CHHHHHHHHCH---------HHHHHHH------HTTSTTCCHHHHHHHH-HTT
T ss_pred CcHHHHHHHHHHHH--hCC--------cHHHHHHHccc---------chhHHHH------HhCCCCCCHHHHHHHH-HcC
Confidence 35567888887773 552 23444443321 1222333 4478999999999998 559
Q ss_pred CcchhhhhcC
Q 004805 267 VTTVGDLLKF 276 (729)
Q Consensus 267 I~TigDLa~l 276 (729)
|+|+.||...
T Consensus 119 i~tledL~~a 128 (335)
T 2fmp_A 119 IKTLEDLRKN 128 (335)
T ss_dssp CCSHHHHHTC
T ss_pred CCCHHHHHHh
Confidence 9999999874
No 46
>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=58.96 E-value=4.6 Score=39.67 Aligned_cols=55 Identities=16% Similarity=0.148 Sum_probs=44.1
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhh-hhcCCHHHHHHh--hCCChHHHHHHHHhcCC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGD-LLKFSEDKLQES--YGFNTGTWLWNIARGIS 301 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigD-La~l~~~~L~~r--FG~~~g~~L~~~arGiD 301 (729)
+..++|||+|++..|.+.+|-.++-+ +...+.+.|.+. .|.+.+++++..+++.-
T Consensus 74 L~~v~GIGpk~A~~iL~~f~~~~l~~aI~~~d~~~L~~vpGIG~K~A~rI~~~lk~k~ 131 (191)
T 1ixr_A 74 LLSVSGVGPKVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIALELKGKV 131 (191)
T ss_dssp HHSSSCCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHHHHHTTTS
T ss_pred HhcCCCcCHHHHHHHHHhCChHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence 44689999999999987788876654 777899999988 66677888888887653
No 47
>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=58.41 E-value=8.2 Score=44.93 Aligned_cols=49 Identities=24% Similarity=0.254 Sum_probs=39.9
Q ss_pred cccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHH--hhCCChHHHHHHH
Q 004805 248 KKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE--SYGFNTGTWLWNI 296 (729)
Q Consensus 248 ~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~--rFG~~~g~~L~~~ 296 (729)
-+|.|+|+++..+|.+..+|+++.||..+..+.|.. .||.+.+..|++.
T Consensus 444 ldI~GLG~k~i~~L~~~g~I~~~~DL~~L~~e~L~~l~g~G~Ksa~nLl~a 494 (667)
T 1dgs_A 444 MDIEGLGEKLIERLLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQNLLRQ 494 (667)
T ss_dssp SCCTTCCHHHHHHHHHTTSCSSGGGGGGGCCHHHHTTSSCCSTTHHHHHHH
T ss_pred cCcCcCCHHHHHHHHHcCCCCCHHHHHhcCHHHHhcccccchhhHHHHHHH
Confidence 378999999999998677899999999999777765 4887766666643
No 48
>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=57.60 E-value=2.2 Score=44.88 Aligned_cols=42 Identities=19% Similarity=0.235 Sum_probs=0.0
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF 287 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~ 287 (729)
.||..|+||++.+.++|+ ..|++|+.+++..++..|.+.-|.
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 488899999999999997 999999999999999998887774
No 49
>3sei_A Caskin-1; SAM domain, protein-protein interaction, signaling protein; 2.40A {Homo sapiens} PDB: 3sen_A
Probab=57.40 E-value=14 Score=34.60 Aligned_cols=76 Identities=17% Similarity=0.184 Sum_probs=52.8
Q ss_pred hHhCCceeEeecCCHHHHHHhccCCCCCceeeccCCchhcccccCcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHH
Q 004805 201 KETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDK 280 (729)
Q Consensus 201 ~etGlt~S~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~ 280 (729)
.++|++- .++-+-+-+-+..+.+|+......|..+.+||..+ |++ +....+. ..|+.++..|..++.+.
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 4566654 34555444444556666554444567899999866 444 5566776 89999999999999999
Q ss_pred HHHhhCCC
Q 004805 281 LQESYGFN 288 (729)
Q Consensus 281 L~~rFG~~ 288 (729)
| +..|+.
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 678874
No 50
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=57.08 E-value=8.7 Score=44.74 Aligned_cols=51 Identities=24% Similarity=0.260 Sum_probs=40.7
Q ss_pred cccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHH--hhCCChHHHHHHH
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE--SYGFNTGTWLWNI 296 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~--rFG~~~g~~L~~~ 296 (729)
..-+|+|+|+++..+|.+..+|+++.||..+..+.|.. .||.+.+..|++.
T Consensus 447 ~aldI~GLG~k~i~~L~~~g~I~~~aDL~~L~~~~L~~l~gfG~Ksa~nLl~a 499 (671)
T 2owo_A 447 RAMDVDGMGDKIIDQLVEKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNA 499 (671)
T ss_dssp TTTCCTTCCHHHHHHHHHTTCCSSGGGGGTCCHHHHHTSTTCCHHHHHHHHHH
T ss_pred hhcCCCCCCHHHHHHHHHcCCCCCHHHHHhhCHHHhhcccccchhHHHHHHHH
Confidence 44578999999999998666789999999999888876 4776666666543
No 51
>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=56.82 E-value=8.8 Score=37.95 Aligned_cols=50 Identities=10% Similarity=0.248 Sum_probs=40.3
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh--hCCChHHHHHHHHh
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES--YGFNTGTWLWNIAR 298 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r--FG~~~g~~L~~~ar 298 (729)
+..+||||++++..|.+.+| ++.+|...+.+.|... +|.+.+..++...+
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 55789999999999986666 4889999999999888 66666777776654
No 52
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=54.92 E-value=8.7 Score=31.39 Aligned_cols=30 Identities=23% Similarity=0.311 Sum_probs=24.3
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 276 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l 276 (729)
+..++|||++++.++.+..+..++.||..+
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 456899999999999866678888888754
No 53
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=53.74 E-value=6.1 Score=39.14 Aligned_cols=54 Identities=15% Similarity=0.111 Sum_probs=43.4
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchh-hhhcCCHHHHHHh--hCCChHHHHHHHHhcC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVG-DLLKFSEDKLQES--YGFNTGTWLWNIARGI 300 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~Tig-DLa~l~~~~L~~r--FG~~~g~~L~~~arGi 300 (729)
+..++|||+|++..|...+|-.++- .+...+.+.|.+. .|.+.+++++..+++.
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 4468999999999998778876665 4778899999998 6667788888877754
No 54
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=53.66 E-value=5.6 Score=42.81 Aligned_cols=28 Identities=18% Similarity=0.270 Sum_probs=24.6
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLK 275 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~ 275 (729)
+..+||||++++.+|. ..||+|+.||..
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 4588999999999998 559999999983
No 55
>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=53.60 E-value=6.3 Score=42.02 Aligned_cols=28 Identities=14% Similarity=0.165 Sum_probs=24.7
Q ss_pred cccCCCcHHHHHHHHHHhCCcchhhhhcC
Q 004805 248 KKMKQLGGKLGTSLQNELGVTTVGDLLKF 276 (729)
Q Consensus 248 ~~L~GIG~k~~~~L~~~lGI~TigDLa~l 276 (729)
..+||||++++.+|. ..||+|+.||...
T Consensus 99 ~~v~GiG~k~a~~l~-~~Gi~tledL~~a 126 (335)
T 2bcq_A 99 SNIWGAGTKTAQMWY-QQGFRSLEDIRSQ 126 (335)
T ss_dssp HTSTTCCHHHHHHHH-HTTCCSHHHHHHH
T ss_pred hcCCCcCHHHHHHHH-HcCCCCHHHHHHH
Confidence 488999999999998 5699999999763
No 56
>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=52.04 E-value=6 Score=42.97 Aligned_cols=28 Identities=14% Similarity=0.214 Sum_probs=24.7
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLK 275 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~ 275 (729)
+..+||||++++.+|- ..||+|+.||..
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 4478999999999998 559999999984
No 57
>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=46.50 E-value=4.2 Score=41.07 Aligned_cols=50 Identities=14% Similarity=0.177 Sum_probs=0.0
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHh-hCCChHHHHHHH
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES-YGFNTGTWLWNI 296 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~r-FG~~~g~~L~~~ 296 (729)
.++..|||||++++++|.+.+ .++..|...+.+.|.+. +|...+..++++
T Consensus 173 s~L~~IpGIG~k~ak~Ll~~F--GSl~~i~~As~eeL~~VGIG~~~A~~I~~~ 223 (226)
T 3c65_A 173 SVLDDIPGVGEKRKKALLNYF--GSVKKMKEATVEELQRANIPRAVAEKIYEK 223 (226)
T ss_dssp -----------------------------------------------------
T ss_pred ccccccCCCCHHHHHHHHHHh--CCHHHHHhCCHHHHHHcCCCHHHHHHHHHH
Confidence 456789999999999997554 46778888899999888 555555555544
No 58
>2e8m_A Epidermal growth factor receptor kinase substrate 8; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=45.92 E-value=18 Score=31.67 Aligned_cols=42 Identities=21% Similarity=0.325 Sum_probs=34.5
Q ss_pred CCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHh
Q 004805 251 KQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 298 (729)
Q Consensus 251 ~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~ar 298 (729)
.|+...+. +.||+.|-.||..+++++|+..+| + |.+||..+.
T Consensus 46 kgFS~~tv----~~Lg~ltGaqLl~Ltk~eL~~vCg-E-G~RlysqL~ 87 (99)
T 2e8m_A 46 KGFNPVTV----NSLGVLNGAQLFSLNKDELRTVCP-E-GARVYSQIT 87 (99)
T ss_dssp HTCCHHHH----HHTSSSCHHHHHHCCHHHHHHHCT-T-HHHHHHHHH
T ss_pred cCCCHHHH----HHHcCCCHHHHHcCCHHHHHHHCC-c-hHHHHHHHH
Confidence 35665543 278999999999999999999999 5 999998654
No 59
>1wwu_A Hypothetical protein FLJ21935; structural genomics, protein regulation, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens}
Probab=45.19 E-value=21 Score=31.30 Aligned_cols=42 Identities=17% Similarity=0.358 Sum_probs=34.6
Q ss_pred CCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHh
Q 004805 252 QLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIAR 298 (729)
Q Consensus 252 GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~ar 298 (729)
|+...+.+ .||+.|-.||..++++.|+..+|. .|.+||..+.
T Consensus 37 gFS~~tv~----~Lg~ltGaqLf~Ltk~eL~~vCg~-EG~RlysqL~ 78 (99)
T 1wwu_A 37 AFSPRIVE----NLGILTGPQLFSLNKEELKKVCGE-EGVRVYSQLT 78 (99)
T ss_dssp TCCTTHHH----HTTSSCHHHHHTCCHHHHHHHHTT-THHHHHHHHH
T ss_pred CCCHHHHH----HHcCCCHHHHHcCCHHHHHHHCcc-hhHHHHHHHH
Confidence 55555432 789999999999999999999994 5999998764
No 60
>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=42.47 E-value=22 Score=29.13 Aligned_cols=47 Identities=26% Similarity=0.227 Sum_probs=36.6
Q ss_pred cCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC--ChHHHHHHHH
Q 004805 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF--NTGTWLWNIA 297 (729)
Q Consensus 250 L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~--~~g~~L~~~a 297 (729)
..||+...+.+|. .-|++|+.+++..|...|...=|. .....+...|
T Consensus 11 ~lgI~e~~a~~L~-~~Gf~tve~vA~~~~~eL~~I~G~dE~~a~~l~~~A 59 (70)
T 1u9l_A 11 YLDIDEDFATVLV-EEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERA 59 (70)
T ss_dssp HHTCCHHHHHHHH-HTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred hCCCCHHHHHHHH-HcCcCcHHHHHcCCHHHHhhccCCCHHHHHHHHHHH
Confidence 3499999999997 999999999999999999776553 2344444444
No 61
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=41.43 E-value=22 Score=40.70 Aligned_cols=48 Identities=27% Similarity=0.326 Sum_probs=40.2
Q ss_pred ccCCCcHHHHHHHHHHhC-CcchhhhhcCCHHHHHH--hhCCChHHHHHHHH
Q 004805 249 KMKQLGGKLGTSLQNELG-VTTVGDLLKFSEDKLQE--SYGFNTGTWLWNIA 297 (729)
Q Consensus 249 ~L~GIG~k~~~~L~~~lG-I~TigDLa~l~~~~L~~--rFG~~~g~~L~~~a 297 (729)
+|.|+|.++.++|- ..| |+++.||..+..+.|.. +||.+.+..|++..
T Consensus 450 dI~GlG~~~i~~L~-~~g~i~~~~Dly~L~~~~L~~l~g~geKsa~nL~~aI 500 (586)
T 4glx_A 450 DVDGMGDKIIDQLV-EKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNAL 500 (586)
T ss_dssp CCTTCCHHHHHHHH-HTTCCSSGGGGGTCCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred cCCCcCHHHHHHHH-hcCCCCCHHHHhCCCHHHHhcccCccHHHHHHHHHHH
Confidence 67899999999998 788 69999999999999986 58877677776543
No 62
>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=38.13 E-value=26 Score=45.33 Aligned_cols=56 Identities=9% Similarity=0.110 Sum_probs=46.4
Q ss_pred CcccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCC--hHHHHHHHHhcCC
Q 004805 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFN--TGTWLWNIARGIS 301 (729)
Q Consensus 245 LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~--~g~~L~~~arGiD 301 (729)
.|+..|||||+..+++|. ..||+|+.||+.++...+...++.. .+..+.+.++...
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 8999999999999999999888743 3555666665443
No 63
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=38.08 E-value=31 Score=37.72 Aligned_cols=49 Identities=12% Similarity=0.220 Sum_probs=36.5
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCCChHHHHHHHHhcC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGI 300 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~~~g~~L~~~arGi 300 (729)
+..|+|||+.++++|.+.+| |+.-+..++.+.|+. -|. |..-.+...|.
T Consensus 470 LtAIaGIGp~tAeRLLEkFG--SVe~Vm~AteDELRe-dGI--GekqarrI~gl 518 (685)
T 4gfj_A 470 LISIRGIDRERAERLLKKYG--GYSKVREAGVEELRE-DGL--TDAQIRELKGL 518 (685)
T ss_dssp HHTSTTCCHHHHHHHHHHHT--SHHHHHHSCHHHHHH-TTC--CHHHHHHHHTC
T ss_pred eeccCCCCHHHHHHHHHHhc--CHHHHHhCCHHHHHH-ccc--cHHHHHHHhhH
Confidence 45789999999999988888 667777788888855 674 55555666665
No 64
>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=34.66 E-value=8.2 Score=40.83 Aligned_cols=41 Identities=15% Similarity=0.199 Sum_probs=0.0
Q ss_pred cccccC--CCcHHHHHHHHHHhCCcchhhhhcCCHHHHHHhhCC
Q 004805 246 PIKKMK--QLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGF 287 (729)
Q Consensus 246 PI~~L~--GIG~k~~~~L~~~lGI~TigDLa~l~~~~L~~rFG~ 287 (729)
||..|+ ||+..+..+|+ ..|++|+.|++..++..|.+.-|.
T Consensus 26 ~~~~l~~~g~~~~~~~~l~-~~g~~t~~~~~~~~~~~l~~~~~i 68 (343)
T 1v5w_A 26 DIDLLQKHGINVADIKKLK-SVGICTIKGIQMTTRRALCNVKGL 68 (343)
T ss_dssp --------------------------------------------
T ss_pred cHHHHhhCCCCHHHHHHHH-HcCCCcHHHHHhCCHHHHHHhhCC
Confidence 788888 99999999997 999999999999999999887774
No 65
>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=29.89 E-value=29 Score=34.50 Aligned_cols=53 Identities=11% Similarity=0.004 Sum_probs=41.5
Q ss_pred ccCCCcHHHHHHHHHHhCCcchh-hhhcCCHHHHHHhh--CCChHHHHHHHHhcCC
Q 004805 249 KMKQLGGKLGTSLQNELGVTTVG-DLLKFSEDKLQESY--GFNTGTWLWNIARGIS 301 (729)
Q Consensus 249 ~L~GIG~k~~~~L~~~lGI~Tig-DLa~l~~~~L~~rF--G~~~g~~L~~~arGiD 301 (729)
.++|||+|++.++.+.+|..++. .+..-+...|.+.= |+++++++...+++.-
T Consensus 92 sv~GIGpk~A~~Ils~~~~~~l~~aI~~~d~~~L~~vpGIG~KtA~rIi~elk~kl 147 (212)
T 2ztd_A 92 SVSGVGPRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRDKV 147 (212)
T ss_dssp TSTTCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTTTC
T ss_pred CcCCcCHHHHHHHHHhCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhh
Confidence 37999999999888788888876 36677888888875 4556778887777754
No 66
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U*
Probab=29.01 E-value=41 Score=29.31 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=23.5
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 276 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l 276 (729)
+..|||||+++++++-+.=+++++.||...
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 447899999999998743347889998865
No 67
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=28.17 E-value=25 Score=40.03 Aligned_cols=29 Identities=24% Similarity=0.236 Sum_probs=25.2
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhcC
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKF 276 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~l 276 (729)
+.++||||+|++.+|. .-||.|+.||...
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 4588999999999998 5599999999863
No 68
>3tvk_A DGC, diguanylate cyclase YDEH; putative zinc sensor, C-DI-GMP, transfe; HET: C2E; 1.80A {Escherichia coli}
Probab=28.04 E-value=77 Score=30.11 Aligned_cols=24 Identities=17% Similarity=0.166 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHhH--------hCCceeEeecC
Q 004805 190 LIVTELRMQVLKE--------TEFTCSAGIAH 213 (729)
Q Consensus 190 ~la~~IR~~I~~e--------tGlt~S~GIA~ 213 (729)
.++.+|++.|... ..+++|+||+.
T Consensus 99 ~~~~~i~~~i~~~~~~~~~~~~~vt~SiGia~ 130 (179)
T 3tvk_A 99 RAGVRICQLVDNHAITHSEGHINITVTAGVSR 130 (179)
T ss_dssp HHHHHHHHHHHHSCEEETTEEECCCEEEEEEE
T ss_pred HHHHHHHHHHHcCCcccCCceEEEEEEEEEEe
Confidence 4567777777542 36899999983
No 69
>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=27.51 E-value=24 Score=40.18 Aligned_cols=29 Identities=21% Similarity=0.351 Sum_probs=24.6
Q ss_pred ccccCCCcHHHHHHHHHHhCCcchhhhhc
Q 004805 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLK 275 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~lGI~TigDLa~ 275 (729)
+..++|||+|++..+...+|+.|+.||..
T Consensus 95 l~~v~GvGpk~A~~~~~~lg~~~~~~l~~ 123 (575)
T 3b0x_A 95 VMEVPGVGPKTARLLYEGLGIDSLEKLKA 123 (575)
T ss_dssp HHTSTTTCHHHHHHHHHTSCCCSHHHHHH
T ss_pred HhcCCCcCHHHHHHHHHhcCCCCHHHHHH
Confidence 44789999999999875689999999875
No 70
>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=26.11 E-value=49 Score=30.59 Aligned_cols=38 Identities=13% Similarity=0.227 Sum_probs=28.5
Q ss_pred ccCCchhcccccCcccccCCCcHHHHHHHHHHh-CCcchhhhhcCC
Q 004805 233 VPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNEL-GVTTVGDLLKFS 277 (729)
Q Consensus 233 v~~~~v~~fL~~LPI~~L~GIG~k~~~~L~~~l-GI~TigDLa~l~ 277 (729)
|...++.+|. .|||||++.++++- .. ...++.||.+.+
T Consensus 57 iNtA~~~eL~------~LpGiGp~~A~~II-~~GpF~svedL~~V~ 95 (134)
T 1s5l_U 57 LNNTNIAAFI------QYRGLYPTLAKLIV-KNAPYESVEDVLNIP 95 (134)
T ss_dssp TTTSCGGGGG------GSTTCTHHHHHHHH-HTCCCSSGGGGGGCT
T ss_pred CcccCHHHHH------HCCCCCHHHHHHHH-HcCCCCCHHHHHhCC
Confidence 4444555443 68999999999997 55 488999999764
No 71
>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=23.79 E-value=53 Score=28.09 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=19.6
Q ss_pred cccCCCcHHHHHHHHHHh----CCcchhhhhcC
Q 004805 248 KKMKQLGGKLGTSLQNEL----GVTTVGDLLKF 276 (729)
Q Consensus 248 ~~L~GIG~k~~~~L~~~l----GI~TigDLa~l 276 (729)
..++|||++++.+|.+.. .+.++.||..+
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 467888888887776433 35667776654
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=22.90 E-value=45 Score=35.33 Aligned_cols=54 Identities=11% Similarity=0.281 Sum_probs=30.3
Q ss_pred ccccCCCcHHHHHHHHHHh--C-CcchhhhhcC-C-HHHHHHhhC--CChHHHHHHHHhcCCC
Q 004805 247 IKKMKQLGGKLGTSLQNEL--G-VTTVGDLLKF-S-EDKLQESYG--FNTGTWLWNIARGISG 302 (729)
Q Consensus 247 I~~L~GIG~k~~~~L~~~l--G-I~TigDLa~l-~-~~~L~~rFG--~~~g~~L~~~arGiD~ 302 (729)
+..|||||+++++++.+-+ | +..+.+|..- + ...|.+.+| ++++..+|+. |+..
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 ACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTAQMWYQQ--GFRS 119 (335)
T ss_dssp HHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHHHHHHHHTSTTCCHHHHHHHHHT--TCCS
T ss_pred HhcCCCccHHHHHHHHHHHHcCCchHHHHHhhhhHHHHHHhcCCCcCHHHHHHHHHc--CCCC
Confidence 6789999999999887332 2 4555555321 1 111223334 3445556653 6654
No 73
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*
Probab=22.80 E-value=33 Score=39.01 Aligned_cols=81 Identities=15% Similarity=0.177 Sum_probs=53.6
Q ss_pred EeecCCHHHHHHhccCCCCCceeeccCCchhcccccCcccccCCCcHHHHHHHHHHhCCcchhhhhc-CCHHHHHHhhCC
Q 004805 209 AGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLK-FSEDKLQESYGF 287 (729)
Q Consensus 209 ~GIA~NklLAKLAS~~~KPngqtvv~~~~v~~fL~~LPI~~L~GIG~k~~~~L~~~lGI~TigDLa~-l~~~~L~~rFG~ 287 (729)
-|||+.+-++.+.. + .+.+.+++...+..-.|.++||||+|+++++. +|+....|+.. +++......
T Consensus 99 ~GvGpk~A~~~~~~-l------g~~~~~~l~~a~~~~~l~~~~GiG~k~a~~i~--~~l~~~~~~~~r~~~~e~~~~--- 166 (575)
T 3b0x_A 99 PGVGPKTARLLYEG-L------GIDSLEKLKAALDRGDLTRLKGFGPKRAERIR--EGLALAQAAGKRRPLGAVLSL--- 166 (575)
T ss_dssp TTTCHHHHHHHHHT-S------CCCSHHHHHHHHHHTGGGGSTTCCHHHHHHHH--HHHHHHHHHTCCEEHHHHHHH---
T ss_pred CCcCHHHHHHHHHh-c------CCCCHHHHHHHHHcCCcccCCCCCccHHHHHH--HHHHHHHHhccceeHHHHHHH---
Confidence 48888666665553 1 12234444444444447899999999999984 88888888764 566655543
Q ss_pred ChHHHHHHHHhcCCCc
Q 004805 288 NTGTWLWNIARGISGE 303 (729)
Q Consensus 288 ~~g~~L~~~arGiD~~ 303 (729)
+..+...++++++.
T Consensus 167 --~~~i~~~l~~~~~~ 180 (575)
T 3b0x_A 167 --ARSLLEAIRALPGV 180 (575)
T ss_dssp --HHHHHHHHHTSTTC
T ss_pred --HHHHHHHHHhCCCC
Confidence 45577778877653
No 74
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=20.13 E-value=35 Score=33.90 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=14.9
Q ss_pred cccccCCCcHHHHHHHH
Q 004805 246 PIKKMKQLGGKLGTSLQ 262 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~ 262 (729)
.+++|||||+|++.||.
T Consensus 27 ~l~~LPGIG~KsA~RlA 43 (212)
T 3vdp_A 27 ELSKLPGIGPKTAQRLA 43 (212)
T ss_dssp HHHTSTTCCHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHH
Confidence 35689999999999996
No 75
>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=20.05 E-value=91 Score=27.93 Aligned_cols=30 Identities=10% Similarity=0.323 Sum_probs=23.8
Q ss_pred cccccCCCcHHHHHHHHHHhCCc---chhhhhc
Q 004805 246 PIKKMKQLGGKLGTSLQNELGVT---TVGDLLK 275 (729)
Q Consensus 246 PI~~L~GIG~k~~~~L~~~lGI~---TigDLa~ 275 (729)
.++.+.|||..++..+...+||. .++||-.
T Consensus 17 aLt~I~GIG~~~A~~I~~~~gid~~~r~~~Lt~ 49 (114)
T 3r8n_M 17 ALTSIYGVGKTRSKAILAAAGIAEDVKISELSE 49 (114)
T ss_dssp HGGGSTTCCHHHHHHHHHHTTCCTTCCSTTCCH
T ss_pred hHhhhcCcCHHHHHHHHHHcCcCcccCcccCCH
Confidence 46789999999999988899996 4555543
Done!