Query gi|254780237|ref|YP_003064650.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 340
No_of_seqs 142 out of 1377
Neff 5.5
Searched_HMMs 23785
Date Tue May 24 02:40:14 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780237.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3lu0_A DNA-directed RNA polyme 100.0 0 0 810.3 20.7 324 2-331 1-328 (329)
2 2a6h_A DNA-directed RNA polyme 100.0 0 0 755.4 22.6 298 20-318 13-314 (315)
3 1bdf_A RNA polymerase alpha su 100.0 0 0 589.1 24.6 230 2-234 1-234 (235)
4 2pa8_D DNA-directed RNA polyme 100.0 1E-36 4.3E-41 256.6 10.0 208 22-233 7-258 (265)
5 3h0g_C DNA-directed RNA polyme 100.0 1.9E-32 8.1E-37 228.9 7.6 211 19-233 8-261 (297)
6 1twf_C B44.5, DNA-directed RNA 100.0 3.8E-31 1.6E-35 220.5 10.7 211 19-233 9-260 (318)
7 1coo_A RNA polymerase alpha su 99.9 2.9E-27 1.2E-31 195.4 5.0 85 247-331 13-97 (98)
8 3k4g_A DNA-directed RNA polyme 99.9 7.8E-27 3.3E-31 192.6 4.7 83 249-331 3-85 (86)
9 3gfk_B DNA-directed RNA polyme 99.9 6.4E-22 2.7E-26 160.8 6.5 74 247-320 5-78 (79)
10 1z3e_B DNA-directed RNA polyme 99.8 1.2E-21 5.1E-26 158.9 7.6 70 251-320 2-71 (73)
11 1b22_A DNA repair protein RAD5 96.5 0.002 8.4E-08 41.0 4.1 56 258-313 23-81 (114)
12 3lda_A DNA repair protein RAD5 96.0 0.02 8.5E-07 34.5 6.8 58 256-313 79-139 (400)
13 1pzn_A RAD51, DNA repair and r 95.8 0.0097 4.1E-07 36.6 4.6 57 257-313 34-91 (349)
14 2zj8_A DNA helicase, putative 94.9 0.04 1.7E-06 32.6 5.4 45 267-312 657-701 (720)
15 2i1q_A DNA repair and recombin 94.3 0.098 4.1E-06 30.1 6.1 24 200-223 143-166 (322)
16 1vq8_Y 50S ribosomal protein L 93.1 0.013 5.7E-07 35.6 0.0 18 299-316 211-228 (241)
17 2pa8_L DNA-directed RNA polyme 93.0 0.24 9.9E-06 27.6 6.2 48 180-233 38-85 (92)
18 2z43_A DNA repair and recombin 93.0 0.015 6.2E-07 35.4 0.0 20 201-220 143-162 (324)
19 1dgs_A DNA ligase; AMP complex 92.6 0.32 1.3E-05 26.8 6.4 49 264-312 448-497 (667)
20 1v5w_A DMC1, meiotic recombina 91.2 0.032 1.3E-06 33.3 0.0 23 199-221 156-178 (343)
21 1twf_K B13.6, DNA-directed RNA 90.5 0.84 3.5E-05 24.0 6.8 36 198-233 68-103 (120)
22 3h0g_K DNA-directed RNA polyme 90.1 0.38 1.6E-05 26.2 4.8 36 198-233 67-102 (123)
23 2pa8_L DNA-directed RNA polyme 89.9 0.32 1.4E-05 26.7 4.3 39 22-65 7-45 (92)
24 1xpp_A TA1416, DNA-directed RN 89.5 0.69 2.9E-05 24.6 5.6 47 180-233 48-94 (115)
25 2owo_A DNA ligase; protein/DNA 89.1 0.86 3.6E-05 24.0 5.9 44 56-99 107-162 (671)
26 3h0g_K DNA-directed RNA polyme 89.0 0.5 2.1E-05 25.5 4.7 41 13-59 16-56 (123)
27 1u9l_A Transcription elongatio 88.9 0.99 4.1E-05 23.6 6.1 59 255-313 4-62 (70)
28 1z00_A DNA excision repair pro 87.4 1.1 4.6E-05 23.3 5.5 44 268-313 31-74 (89)
29 1im4_A DBH; DNA polymerase PAL 86.0 0.41 1.7E-05 26.1 2.7 40 255-294 181-221 (221)
30 3bq0_A POL IV, DBH, DNA polyme 84.8 1 4.2E-05 23.5 4.3 53 255-309 176-229 (354)
31 3gqc_A DNA repair protein REV1 84.2 1.7 7E-05 22.1 5.2 54 254-309 311-365 (504)
32 1jx4_A DNA polymerase IV (fami 83.9 0.96 4E-05 23.7 3.8 52 255-308 175-227 (352)
33 3im1_A Protein SNU246, PRE-mRN 79.8 3 0.00013 20.4 8.6 94 214-314 113-214 (328)
34 1kft_A UVRC, excinuclease ABC 79.6 2.2 9.4E-05 21.3 4.5 42 268-311 36-77 (78)
35 1wcn_A Transcription elongatio 78.7 3.3 0.00014 20.2 5.4 47 264-310 14-60 (70)
36 3osn_A DNA polymerase IOTA; ho 76.0 3.8 0.00016 19.8 4.8 49 259-309 235-284 (420)
37 1x2i_A HEF helicase/nuclease; 75.7 4 0.00017 19.6 5.1 51 259-312 18-68 (75)
38 2a1j_B DNA excision repair pro 72.7 4.6 0.00019 19.3 4.5 41 271-312 46-86 (91)
39 1feu_A 50S ribosomal protein L 70.8 2.5 0.0001 21.0 2.8 34 113-149 68-102 (206)
40 2bgw_A XPF endonuclease; hydro 69.6 5.5 0.00023 18.7 8.1 48 264-312 169-216 (219)
41 2kp7_A Crossover junction endo 69.0 4.1 0.00017 19.6 3.6 41 268-314 42-82 (87)
42 3mr3_A DNA polymerase ETA; POL 63.9 7.1 0.0003 18.0 4.3 52 257-310 252-305 (435)
43 2w9m_A Polymerase X; SAXS, DNA 60.0 6.1 0.00026 18.4 3.1 23 302-324 471-493 (578)
44 2q0z_X Protein Pro2281; SEC63, 59.0 8.7 0.00036 17.5 4.2 96 215-313 117-217 (339)
45 2zjr_S 50S ribosomal protein L 58.1 2.7 0.00011 20.7 1.0 24 114-137 147-171 (237)
46 2x7i_A Mevalonate kinase; tran 55.9 9.7 0.00041 17.1 4.5 77 260-338 207-295 (308)
47 1zco_A 2-dehydro-3-deoxyphosph 52.3 7.9 0.00033 17.7 2.6 15 77-91 70-84 (262)
48 2aq4_A DNA repair protein REV1 52.1 11 0.00047 16.8 3.8 50 257-308 240-293 (434)
49 3bz1_U Photosystem II 12 kDa e 51.3 6.1 0.00026 18.4 1.9 41 267-315 44-84 (104)
50 1s5l_U Photosystem II 12 kDa e 46.2 8.8 0.00037 17.4 2.1 39 267-313 74-112 (134)
51 2a1j_A DNA repair endonuclease 42.9 15 0.00065 15.8 3.9 47 264-312 11-57 (63)
52 3bqs_A Uncharacterized protein 42.4 16 0.00066 15.8 3.0 77 259-338 5-84 (93)
53 1kea_A Possible G-T mismatches 41.0 10 0.00044 17.0 1.8 53 256-308 78-133 (221)
54 3c1y_A DNA integrity scanning 36.0 20 0.00083 15.2 3.8 50 264-313 308-370 (377)
55 1kg2_A A/G-specific adenine gl 35.9 12 0.00051 16.5 1.5 51 258-308 75-127 (225)
56 2e1f_A Werner syndrome ATP-dep 35.6 13 0.00056 16.2 1.7 47 270-316 37-90 (103)
57 1gm5_A RECG; helicase, replica 34.3 13 0.00055 16.3 1.4 22 68-89 113-134 (780)
58 1x40_A ARAP2; ASAP-related pro 34.2 21 0.00088 15.0 3.6 40 259-299 21-62 (91)
59 1vr6_A Phospho-2-dehydro-3-deo 33.5 22 0.00091 14.9 2.6 17 204-220 217-233 (350)
60 1t94_A Polymerase (DNA directe 33.1 22 0.00092 14.8 3.8 49 255-306 279-328 (459)
61 2cz9_A Probable galactokinase; 31.7 23 0.00097 14.7 8.2 62 259-321 239-300 (350)
62 2rrd_A BLM HRDC domain, HRDC d 30.9 15 0.00063 15.9 1.3 45 269-313 43-91 (101)
63 3fsp_A A/G-specific adenine gl 30.0 18 0.00076 15.4 1.6 17 287-303 115-131 (369)
64 1vs1_A 3-deoxy-7-phosphoheptul 29.0 26 0.0011 14.4 2.3 11 82-92 54-64 (276)
65 2duy_A Competence protein come 28.0 13 0.00054 16.3 0.5 24 287-310 50-73 (75)
66 1wuu_A Galactokinase; galactos 27.9 27 0.0011 14.3 2.4 63 260-322 289-351 (399)
67 1ow5_A Serine/threonine-protei 26.9 28 0.0012 14.2 4.0 53 258-313 20-74 (85)
68 3cqj_A L-ribulose-5-phosphate 26.7 11 0.00044 16.9 -0.1 49 169-229 239-287 (295)
69 3fhf_A Mjogg, N-glycosylase/DN 25.5 30 0.0012 14.0 3.6 41 267-307 95-142 (214)
70 2kg5_A ARF-GAP, RHO-GAP domain 24.1 31 0.0013 13.8 4.4 49 260-312 33-81 (100)
71 1npy_A Hypothetical shikimate 23.6 6.4 0.00027 18.3 -1.7 15 37-51 17-31 (271)
72 1dxs_A P53-like transcription 22.6 33 0.0014 13.7 2.8 50 260-313 13-64 (80)
73 2h56_A DNA-3-methyladenine gly 22.6 34 0.0014 13.7 5.2 48 259-306 97-154 (233)
74 2abk_A Endonuclease III; DNA-r 21.6 35 0.0015 13.5 2.1 53 256-308 72-127 (211)
75 1ucv_A Ephrin type-A receptor 21.4 35 0.0015 13.5 2.6 35 260-295 14-48 (81)
76 1z00_B DNA repair endonuclease 21.4 35 0.0015 13.5 4.2 47 264-312 25-71 (84)
77 1orn_A Endonuclease III; DNA r 21.2 33 0.0014 13.7 1.5 52 256-307 76-130 (226)
78 2hfs_A Mevalonate kinase, puta 21.0 36 0.0015 13.4 8.5 114 200-339 188-312 (332)
79 2rhf_A DNA helicase RECQ; HRDC 21.0 21 0.0009 14.9 0.6 37 269-305 26-62 (77)
80 1pie_A Galactokinase; galactos 20.4 37 0.0016 13.4 3.0 61 261-321 305-365 (419)
81 2edu_A Kinesin-like protein KI 20.3 37 0.0016 13.4 7.0 54 283-336 33-90 (98)
82 2ihm_A POL MU, DNA polymerase 20.2 37 0.0016 13.3 4.6 11 38-48 68-78 (360)
No 1
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=100.00 E-value=0 Score=810.30 Aligned_cols=324 Identities=45% Similarity=0.798 Sum_probs=304.0
Q ss_pred CCCHHHHCCCCCCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHH
Q ss_conf 52205751797420158636788815899996169756678889999987416983068899988714431466462444
Q gi|254780237|r 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 (340)
Q Consensus 2 ~~~~~~~~~~P~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~ED 81 (340)
|+..|++|++|+.+++ ++.+++||||+++||+||||+|||||||||||||++|+|||+|||+||.|||++|+||+||
T Consensus 1 m~~~~~~~~~p~~i~~---~~~~~~yg~f~i~Ple~G~g~TlGnaLRRvLLssi~G~ait~vkI~gv~HEfsti~GV~Ed 77 (329)
T 3lu0_A 1 MQGSVTEFLKPRLVDI---EQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQED 77 (329)
T ss_dssp CCCSTTTSSSCCCCCE---EECTTSEEEEEECCCCTTCHHHHHHHHHHHTTTSSCEEEEEEEEESSCSSTTCCCTTBSSC
T ss_pred CCCHHHHHCCCCEEEE---ECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCC
T ss_conf 9613666138857787---2268867899997688862636688999998856984588999989965545568996237
Q ss_pred HHHHHHHHCCCEEEECCCCCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEEEEEC-CCCEEEEEEEEECCCCCEECCC
Q ss_conf 999998401141777279827999999447169963351389859988880899977-8964999999746876320344
Q gi|254780237|r 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKH 160 (340)
Q Consensus 82 V~eIiLNLK~I~~k~~~~~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~IaTl~-~~~~l~iel~ie~G~GY~~~e~ 160 (340)
|++|+||||+|+|+.+++.+..++|+++|||+|||+||++|++++|+||||||||++ +++.|+|+++|++|+||++++.
T Consensus 78 v~~IilNLK~i~~~~~~~~~~~~~l~~~Gpg~vtA~di~~p~~veivNpdq~IaTl~~~~~~l~~e~~i~~G~GY~~~~~ 157 (329)
T 3lu0_A 78 ILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPAST 157 (329)
T ss_dssp HHHHHHHHHSCCCEESSCSCEEEEECCCSSSCEETTSSCCCSSEECSCTTCEEECBCSSCCCCCEEEEEEEESSEECTTT
T ss_pred HHHHHHHCCCCCEEECCCCCEEEEEEEECCCCEEECCCCCCCCEEEECCCEEEEEECCCCCEEEEEEEEEECCCEEECCC
T ss_conf 99999846733156426872589999616776681136667987995899889996588926999999990565264200
Q ss_pred CC---CCCCCCCEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 44---655754302124311114422357764116887762189999993896177799999999999988876224444
Q gi|254780237|r 161 HR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 (340)
Q Consensus 161 ~~---~~~~~ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~~~~~ 237 (340)
++ ....++|+||+||+||||+||||.|+++|+|++++||+|+|||||||||+|++||++||++|++||++|.++++.
T Consensus 158 ~~~~~~~~~~ig~i~iDa~FsPV~kVny~Ve~~rv~~~~~~e~L~lEI~TnGsI~P~eAl~~AakiL~~~f~~f~~~~~~ 237 (329)
T 3lu0_A 158 RIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 (329)
T ss_dssp SCCCSTTSSSCCCEECCEECCCEEEEEEEEEEECCSSCSCEEEEEEEEEECSSSCHHHHHHHHHHHHHHHTTTSSSCC--
T ss_pred CCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 23554334667834036655563789999864355667751038999983898898999999999999999976263101
Q ss_pred CCCCCCHHHCCCCHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf 32210000000001123331112210110588898988398371888744988886188988644999999999808312
Q gi|254780237|r 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 (340)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~l 317 (340)
..... ..+..+.++.+.++||+||||+||+||||||||+|||||+++|++||+++||||+||++||+++|+++||+|
T Consensus 238 ~~~~~---~~~~~~~~~~l~~~Ie~LeLSvRs~NcLkra~I~ti~dLv~~s~~dLl~ikNfGkKSl~EI~~kL~~~gl~l 314 (329)
T 3lu0_A 238 RQPEV---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 314 (329)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCCCC---CCCCCCCCHHHHCCHHHHCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHHHHCCCCC
T ss_conf 34444---444444265763879885277888865757189189997647999995589976200999999999749777
Q ss_pred CCCCCCCCHHHHHH
Q ss_conf 67687898677999
Q gi|254780237|r 318 GMNLPDWPPESIEE 331 (340)
Q Consensus 318 g~~l~~~~~~~~~~ 331 (340)
||++++|||+++++
T Consensus 315 gm~l~~~~~~~~~~ 328 (329)
T 3lu0_A 315 GMRLENWPPASIAD 328 (329)
T ss_dssp --------------
T ss_pred CCCCCCCCCCCCCC
T ss_conf 78789999534356
No 2
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* 2gho_A 1hqm_A ...
Probab=100.00 E-value=0 Score=755.37 Aligned_cols=298 Identities=37% Similarity=0.567 Sum_probs=276.2
Q ss_pred CCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCC
Q ss_conf 36788815899996169756678889999987416983068899988714431466462444999998401141777279
Q gi|254780237|r 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 (340)
Q Consensus 20 ~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~EDV~eIiLNLK~I~~k~~~~ 99 (340)
.++.+++||||+++||+||||+|+||||||+||||++|+|||+|||+||.|||++||||+|||+||+||||+|+|++.++
T Consensus 13 ~~~~~~~Yg~F~i~Pl~~G~g~TlGnaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~Edv~eIllNLK~i~~k~~~~ 92 (315)
T 2a6h_A 13 VRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKELVVRFLNP 92 (315)
T ss_dssp EEEETTTEEEEEEEEECTTCHHHHHHHHHHHHHHTCEEEEEEEEEESSCCSTTCBCTTBSSBHHHHHHHHHTCCEEECST
T ss_pred EEECCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEECC
T ss_conf 88668856899996688972304678999999856985489999999954423458885105899998530446997148
Q ss_pred --CCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCCCCCCCCEECCCCCH
Q ss_conf --827999999447169963351389859988880899977896499999974687632034444655754302124311
Q gi|254780237|r 100 --SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 (340)
Q Consensus 100 --~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~~~~~~ig~i~iDa~F 177 (340)
++..++++++||++|||+||++|++++|+||||||||+++++.|+||++|++||||++++.++.. .++|+|++||+|
T Consensus 93 ~~~~~~~~l~~~Gp~~vtA~di~~p~~ieivNpdq~IaTl~~~~~l~~el~i~~G~Gy~~~e~~~~~-~~~g~i~iDa~F 171 (315)
T 2a6h_A 93 SLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGYVPAEKHGIK-DRINAIPVDAVF 171 (315)
T ss_dssp TCSBCCEEEEEESSCEEEGGGSCCCTTEEESCTTCEEEEBCSSCEEEEEEEEEEEESEECHHHHCCC-SSTTCEECCEEC
T ss_pred CCCEEEEEEECCCCEEEEEECCCCCCCEEEECCCEEEEEECCCCEEEEEEEEEECCCEEECCCCCCC-CCCCCCCCCCCC
T ss_conf 8615999996499848995414689858997898799997789669999999925754402335664-656751677652
Q ss_pred HEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH--CCCCHHHHH
Q ss_conf 114422357764116887762189999993896177799999999999988876224444322100000--000011233
Q gi|254780237|r 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPA 255 (340)
Q Consensus 178 sPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~~~~~~~~~~~~~~--~~~~~~~~~ 255 (340)
|||+||||.|+++|+||+++||+|+|||||||||+|++||++||+||++||.+|.++++.......... ......+..
T Consensus 172 sPV~kVny~V~~~rvg~~~~~ekL~lEIwTnGsi~P~~Al~~Aa~iL~~~f~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (315)
T 2a6h_A 172 SPVRRVAFQVEDTRLGQRTDLDKLTLRIWTDGSVTPLEALNQAVEILREHLTYFSNPQAAAVAAPEEAKEPEAPPEQEEE 251 (315)
T ss_dssp CCEEEEEEEEEECCBTTBCCCEEEEEEEEECSSSCHHHHHHHHHHHHHHHHHTTCSCC----------------------
T ss_pred CCEEEEEEEEEECCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf 35257899999711367777654699998289899899999999999999997528310022333323342222200354
Q ss_pred HHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf 311122101105888989883983718887449888861889886449999999998083126
Q gi|254780237|r 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 (340)
Q Consensus 256 L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg 318 (340)
++++|++|+||+|++||||+|||+|||||+++|++||+++||||+||++||+++|+++||+|.
T Consensus 252 l~~~Ie~L~LSvRs~NcLk~a~I~ti~dLv~~s~~eLl~i~N~G~KSl~EI~ekL~~~Gl~L~ 314 (315)
T 2a6h_A 252 LDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEALEKKGFTLK 314 (315)
T ss_dssp ---------------------------------------------------------------
T ss_pred HCCCHHHHCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHHHHCCCCCC
T ss_conf 368099822879888678785994899987399999847999851039999999998599889
No 3
>1bdf_A RNA polymerase alpha subunit; nucleotidyltransferase, assemble; 2.50A {Escherichia coli} SCOP: d.74.3.1 d.181.1.1
Probab=100.00 E-value=0 Score=589.06 Aligned_cols=230 Identities=43% Similarity=0.757 Sum_probs=220.3
Q ss_pred CCCHHHHCCCCCCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHH
Q ss_conf 52205751797420158636788815899996169756678889999987416983068899988714431466462444
Q gi|254780237|r 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 (340)
Q Consensus 2 ~~~~~~~~~~P~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~ED 81 (340)
|+.+|++|++|+.+++ ++.+++||||.++||+||||+||||||||+||||++|+|||+|||+|+.|||++||||+||
T Consensus 1 m~~~~~~~~~p~~i~~---~~~~~~~~~f~i~Ple~G~g~TlGnaLRRvLLs~i~G~ait~vkI~gv~hEfs~i~GV~Ed 77 (235)
T 1bdf_A 1 MQGSVTEFLKPRLVDI---EQVSSTHAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVTEVEIDGVLHEYSTKEGVQED 77 (235)
T ss_dssp -CCCSSCSCCCCEEEE---EESSSSEEEEEEEEEETTHHHHHHHHHHHHHTTSCCCEEEEEEEETTCCSTTCCCTTBSSC
T ss_pred CCCHHHHHCCCCEEEE---ECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCHHH
T ss_conf 9504666038857887---0378867899997788962525788999988865985499999957765465468880563
Q ss_pred HHHHHHHHCCCEEEECCCCCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEEEEECC-CCEEEEEEEEECCCCCEECCC
Q ss_conf 9999984011417772798279999994471699633513898599888808999778-964999999746876320344
Q gi|254780237|r 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKH 160 (340)
Q Consensus 82 V~eIiLNLK~I~~k~~~~~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~IaTl~~-~~~l~iel~ie~G~GY~~~e~ 160 (340)
|+||+||||+|+|+.+++++..++|+++|||+|||+||++|++++|+||||||||+++ ++.|+||++|++|+||++++.
T Consensus 78 v~eIilNLK~i~~~~~~~~~~~~~l~~~Gp~~vtA~di~~p~~ieivNpdq~IaTlt~~~~~l~ie~~ie~G~Gy~~~~~ 157 (235)
T 1bdf_A 78 ILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPAST 157 (235)
T ss_dssp HHHHHHHHHTCCEECSSCSEEEEEEEEESSEEEEGGGBCCCSSCEESCTTCEEEEECSTTCEEEEEEEEEECCSEECGGG
T ss_pred HHHHHHHCCCCEEEECCCCCEEEEEEEECCCCEEEECCCCCCCEEEECCCEEEEEECCCCCEEEEEEEEECCCCEECCCC
T ss_conf 99999726755367516884179999515743897156678987996899899997678957999999945786343533
Q ss_pred C---CCCCCCCCEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 4---4655754302124311114422357764116887762189999993896177799999999999988876224
Q gi|254780237|r 161 H---RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 (340)
Q Consensus 161 ~---~~~~~~ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~~ 234 (340)
+ +.+..++|+|++||+||||++|||.|+++|+|++++||+|+|||||||||+|++||++||++|++||++|+++
T Consensus 158 ~~~~~~~~~~~g~i~iDa~fsPV~~Vny~Ve~~rv~~~~~~e~L~leI~TdGsI~P~~Al~~Aa~iL~~~f~~f~~~ 234 (235)
T 1bdf_A 158 RIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDL 234 (235)
T ss_dssp TC-----CCCCSCCBCCEECCSEEEEEEECCBCCCSSCSSEEEEEEEEEECSSSCHHHHHHHHHHHHHHHGGGGC--
T ss_pred CCCCCCCCCCCCCEECCCCCCCEEEEEEEEEECCCCCCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 44554333567833336543555789999997124789860699999997998999999999999999999987537
No 4
>2pa8_D DNA-directed RNA polymerase subunit D; ferredoxin-like Fe-S binding motif, platform for RNA polymerase assembly, transferase; 1.76A {Sulfolobus solfataricus P2} PDB: 2pmz_D 3hkz_D 2waq_D 2wb1_D
Probab=100.00 E-value=1e-36 Score=256.56 Aligned_cols=208 Identities=17% Similarity=0.155 Sum_probs=177.6
Q ss_pred CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEE---------CCCCCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf 78881589999616975667888999998741698306889998---------871443146646244499999840114
Q gi|254780237|r 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGI 92 (340)
Q Consensus 22 ~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI---------~gv~HEfs~i~GV~EDV~eIiLNLK~I 92 (340)
+.++++.+|.+. |+|.|+||||||+|||++||+||++|+| +++.|+|+.||++.|++.++++|+|.+
T Consensus 7 ~~~~~~~~f~~~----g~~~si~NaLRR~lls~ip~~ai~~v~I~~Nts~~~dE~i~hrl~lIP~~~e~~~~~~~~~~~~ 82 (265)
T 2pa8_D 7 HKDDTRIDLVFE----GYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPEEC 82 (265)
T ss_dssp EECSSEEEEEEE----SSCHHHHHHHHHHHHHSCCEEEEEEEEEEEECSSSCHHHHHHHHTTSCBCCTTHHHHSCCGGGC
T ss_pred ECCCCEEEEEEE----CCCCHHHHHHHHHHHHCCCEEEEEEEEEEECCCCCCCCCCEEEEECCCCCCCCCHHHHCCCHHE
T ss_conf 737988999997----8882799999999997496367999999866654667750689851675013502321160210
Q ss_pred EEEECCCC--CEEEEEE---EECCEEEEEEEEECC-CCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCC---
Q ss_conf 17772798--2799999---944716996335138-98599888808999778964999999746876320344446---
Q gi|254780237|r 93 NLKMSGDS--HKRVTIF---KRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--- 163 (340)
Q Consensus 93 ~~k~~~~~--~~~~~l~---~~Gp~~vtA~Di~~p-~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~~--- 163 (340)
........ ....++. ..||+.++|+|++.+ +.+++++|+++||+|..+..|.+++++..|+|+..+..+..
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~di~~~~~~~~~~~~~i~I~~L~~~q~L~l~~~~~~g~Gk~hak~~~v~~~ 162 (265)
T 2pa8_D 83 IECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPSVVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSLS 162 (265)
T ss_dssp TTCCSSCTTTEEEEEEEEECCSSCEEEEGGGCEESSTTCCBSCSCCEEEEECTTCEEEEEEEEEEECTTTCGGGCCEEEE
T ss_pred EECCCCCCCEEEEEEEEEECCCCCCEEEHHHCCCCCCCCCCCCCCCEEEECCCCCEEEEEEEEEEEECCCCCCCCCCCCC
T ss_conf 22158898238999998882789837873332467997221148806999379976778999996364212212766543
Q ss_pred --------------------------CCCCCCEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHH
Q ss_conf --------------------------557543021243111144223577641168877621899999938961777999
Q gi|254780237|r 164 --------------------------ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 (340)
Q Consensus 164 --------------------------~~~~ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl 217 (340)
........+.|+.++|+.+++|...+..+....++++++|+|||+|+++|++|+
T Consensus 163 ~y~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~f~f~IET~G~i~p~~il 242 (265)
T 2pa8_D 163 VVRYYPKVEILANCEKAVNVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPERIL 242 (265)
T ss_dssp EEEEEEEEEECSCCTTHHHHCTTCCEEEETTEEEESCGGGCCCCCHHHHHHTTSEEEEEEEEEEEEEEEECSSSCHHHHH
T ss_pred CCCCCCCHHHHCCHHHHHHHCCCCCCCCCCCCEEECCCHHCCEEEEEEEECCCCEEECCCCCEEEEEEEECCCCCHHHHH
T ss_conf 31213404330004677664732430125675267452328714676542575200033676899999974761999999
Q ss_pred HHHHHHHHHHHHHHHC
Q ss_conf 9999999998887622
Q gi|254780237|r 218 ALASRILQDQLGMFIN 233 (340)
Q Consensus 218 ~~Aa~iL~~~l~~f~~ 233 (340)
.+|+++|+++|..|.+
T Consensus 243 ~~A~~iL~~kl~~l~~ 258 (265)
T 2pa8_D 243 LEAGKSIIRKIEELEK 258 (265)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 9999999999999999
No 5
>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=99.97 E-value=1.9e-32 Score=228.88 Aligned_cols=211 Identities=18% Similarity=0.227 Sum_probs=172.1
Q ss_pred ECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEE---------CCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 63678881589999616975667888999998741698306889998---------871443146646244499999840
Q gi|254780237|r 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNI 89 (340)
Q Consensus 19 ~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI---------~gv~HEfs~i~GV~EDV~eIiLNL 89 (340)
.+.+.+++..+|.++ |.+.|++|||||+|||++|++||+.|+| +++.|+|+.||++.|++.++.+|+
T Consensus 8 ~i~~~~~~~~~f~l~----~~~~s~aNaLRR~lls~ip~~ai~~v~I~~Nts~l~dE~i~hRl~lIPi~~~~~~~~~~~~ 83 (297)
T 3h0g_C 8 TIRNISKNSVDFVLT----NTSLAVANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHRLGMIPLDSSNIDEPPPVG 83 (297)
T ss_dssp CCCCBCSSEEEEEEC----SCCHHHHHHHHHHHHSSCCEEEEEEEEEEEECSSSCHHHHHHHHHHSCBCCTTCSSCSSSC
T ss_pred EEEECCCCEEEEEEE----CCCCHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCEEEEECCCCCEECCCCCCCHHH
T ss_conf 999845987999997----8880677899999987384207999999767864555312677314675202522022001
Q ss_pred CCCEEEECCCC-----CEEEEEEE----ECCEEEEEEEEECCCCEE--------EECCCEEEEEECCCCEEEEEEEEECC
Q ss_conf 11417772798-----27999999----447169963351389859--------98888089997789649999997468
Q gi|254780237|r 90 KGINLKMSGDS-----HKRVTIFK----RGPGVVTAGDIQTVNDIE--------VLNPDHVICNLDVDAVVRMELTVSKG 152 (340)
Q Consensus 90 K~I~~k~~~~~-----~~~~~l~~----~Gp~~vtA~Di~~p~~ve--------ivNpd~~IaTl~~~~~l~iel~ie~G 152 (340)
+...++..... ....++.+ .||+.|+|+|+++++.-+ .++|+++||+|..+..|+|++++..|
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~v~s~dl~~~~~~~~~~~~~~~~~~~~i~I~~L~~gq~L~le~~a~~G 163 (297)
T 3h0g_C 84 LEYTRNCDCDQYCPKCSVELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPLICKLRKEQEISLRCIAKKG 163 (297)
T ss_dssp CCCSSSCSSSSSCGGGSCEEEEEECCCCSSCEEEEGGGCBCCSCCSSCCBCCCSTTSCCSEEEEECSSCCEEEEEEEEEE
T ss_pred EEEEEECCCCCCCCCCEEEEEEEEECCCCCCEEEEECCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCEEEEEEEEEEC
T ss_conf 00111014456776525899998870567843676031687786430586433555689627980367369999999948
Q ss_pred CCCEECCCCC-------------CCCCCCCEECCCCCHHEEEEEEEEEEEECCCCCCCC----CEEEEEEEECCCCCHHH
Q ss_conf 7632034444-------------655754302124311114422357764116887762----18999999389617779
Q gi|254780237|r 153 HGYVPAKHHR-------------TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY----DKLSMTIDTDGSITGED 215 (340)
Q Consensus 153 ~GY~~~e~~~-------------~~~~~ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~----dkL~lEI~TnGsi~P~e 215 (340)
+|+..|..+. ......+....+..+.|..++.+..+..+.++..++ ++++|+|||+|+++|++
T Consensus 164 ~Gk~hak~spvs~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~F~IES~G~l~p~~ 243 (297)
T 3h0g_C 164 IAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFENDADAEWPKSKNADWEEPPREGEPFNFQEEPRRFYMDVESVGSIPPNE 243 (297)
T ss_dssp CGGGCTTSCCBCCCCCCSSSSCSSCCSCCCCSSCSTTTSCCCGGGTTCCCCSCCSCCCSSCCCCCEEEEEEBCSSSCTTT
T ss_pred CCCCCCCCCCCCEEEEEECCCHHHHCCCCCCCCCCHHHCCCCCCCEEEEECCCCCEEEEEECCCEEEEEEEECCCCCHHH
T ss_conf 72222524663025653145101102433321231121356532137860455530577605768999999516659999
Q ss_pred HHHHHHHHHHHHHHHHHC
Q ss_conf 999999999998887622
Q gi|254780237|r 216 SVALASRILQDQLGMFIN 233 (340)
Q Consensus 216 Al~~Aa~iL~~~l~~f~~ 233 (340)
||.+|+++|+++|..|..
T Consensus 244 il~~A~~iL~~kl~~~~~ 261 (297)
T 3h0g_C 244 IMVQGLRILQEKLAVLVR 261 (297)
T ss_dssp TTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999
No 6
>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1 d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C 1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C* 1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C 1y77_C* ...
Probab=99.97 E-value=3.8e-31 Score=220.53 Aligned_cols=211 Identities=17% Similarity=0.186 Sum_probs=161.2
Q ss_pred ECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEE---------CCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 63678881589999616975667888999998741698306889998---------871443146646244499999840
Q gi|254780237|r 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNI 89 (340)
Q Consensus 19 ~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI---------~gv~HEfs~i~GV~EDV~eIiLNL 89 (340)
++.+.++++.+|.++ |++.|+||||||+|||++|++||+.|+| +++.|+|+.||++.||+.++..|+
T Consensus 9 ~i~~~~~~~~~f~l~----g~~~siaNaLRR~lLseIp~~Ai~~V~I~~Nts~l~dE~i~HRlglIPi~~~d~~~~~~~~ 84 (318)
T 1twf_C 9 KIREASKDNVDFILS----NVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDIEQLEYSR 84 (318)
T ss_dssp CCSCCCSSEECCEEB----SSCHHHHHHHHHHHHHCCCEEEEEEEEEEEECSSSCHHHHHHHHHTSCEEETTGGGSCCTT
T ss_pred EEEECCCCEEEEEEE----CCCHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCEEEEEECCCCCCCCHHHHHHCC
T ss_conf 999867998999997----8881799999999987395127999999767764566623688632676335777832111
Q ss_pred CCCEEEECCCCCEEEEEEEEC----CEEEEEEEEECCCCE-----------EEECCCEEEEEECCCCEEEEEEEEECCCC
Q ss_conf 114177727982799999944----716996335138985-----------99888808999778964999999746876
Q gi|254780237|r 90 KGINLKMSGDSHKRVTIFKRG----PGVVTAGDIQTVNDI-----------EVLNPDHVICNLDVDAVVRMELTVSKGHG 154 (340)
Q Consensus 90 K~I~~k~~~~~~~~~~l~~~G----p~~vtA~Di~~p~~v-----------eivNpd~~IaTl~~~~~l~iel~ie~G~G 154 (340)
+.+.+...+.......|++++ |..|+|+|+..++.. .+.+++.+||+|..+..|+|++++..|+|
T Consensus 85 ~~~~~~~~~~~~v~~~L~v~~~~~~~~~Vts~Di~~~~~~~~~~~~~p~~~~~~~~~IlI~kL~~gq~l~l~~~~~~G~g 164 (318)
T 1twf_C 85 DCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKGIA 164 (318)
T ss_dssp TSSSSSCCTTTEEEEEEEEECCSSSCEEEEGGGEEECSCCTTCSEEEECCCSTTSCCSEEEEECTTCEEEEEEEEEEECT
T ss_pred CCCCCCCCCCCEEEEEEEEECCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEEEEEECCC
T ss_conf 34210368873599999964577765401135534567544467788655466789759999668957999999983873
Q ss_pred CEECCCC-------------CCCCCCCCEECCCCCHHEEEEEEE----EEEEECCCCCCCCCEEEEEEEECCCCCHHHHH
Q ss_conf 3203444-------------465575430212431111442235----77641168877621899999938961777999
Q gi|254780237|r 155 YVPAKHH-------------RTENDPIGLITIDALYSPIKKVSY----TVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 (340)
Q Consensus 155 Y~~~e~~-------------~~~~~~ig~i~iDa~FsPV~~Vny----~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl 217 (340)
+..|..+ +...........+..+.|..+... ..+..++......+++.|+|||+|+++|+++|
T Consensus 165 kehak~~pvs~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~F~IET~G~~~p~~il 244 (318)
T 1twf_C 165 KEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVV 244 (318)
T ss_dssp TTCGGGCCEEEEEEEECSSTTSCCSCCCCSSCHHHHSCCCGGGTTSCCCCSSSCCCTTCCCCCEEEEEEECSSSCHHHHH
T ss_pred CCCCEECCCCEEEEEECCCCCCCCCCCCEECCCHHHCCCCCCEEEECCCCCCCEEEEECCCCEEEEEEEECCCCCHHHHH
T ss_conf 33556555412676515543335553332204331088653036862344554058743664899999945877999999
Q ss_pred HHHHHHHHHHHHHHHC
Q ss_conf 9999999998887622
Q gi|254780237|r 218 ALASRILQDQLGMFIN 233 (340)
Q Consensus 218 ~~Aa~iL~~~l~~f~~ 233 (340)
.+|+++|++.|..|..
T Consensus 245 ~~A~~iL~~Kl~~l~~ 260 (318)
T 1twf_C 245 VRGIDTLQKKVASILL 260 (318)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 9999999999999999
No 7
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=99.93 E-value=2.9e-27 Score=195.40 Aligned_cols=85 Identities=54% Similarity=0.970 Sum_probs=79.1
Q ss_pred CCCCHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCH
Q ss_conf 00001123331112210110588898988398371888744988886188988644999999999808312676878986
Q gi|254780237|r 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 (340)
Q Consensus 247 ~~~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l~~~~~ 326 (340)
.+....++.|.++|++|+||+|++|||+++||+|||||+++|++||+++||||+||++||+++|+++||+|||++++|||
T Consensus 13 ee~~~~~~~L~~~I~eL~LSvRs~N~L~~~gI~tvgdLv~~se~dLl~~~n~G~KSl~EIk~~L~~~gL~lgm~l~~~~p 92 (98)
T 1coo_A 13 EEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPP 92 (98)
T ss_dssp -----CCHHHHSBGGGGTCCTTTHHHHHTTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHHHHTTCCTTCCCSSSSC
T ss_pred CCCHHHHHHHCCCHHHHCCCHHHHHHHHHHCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf 00034528860969882778999998738179389999857999997588976878999999999859777997899893
Q ss_pred HHHHH
Q ss_conf 77999
Q gi|254780237|r 327 ESIEE 331 (340)
Q Consensus 327 ~~~~~ 331 (340)
.++++
T Consensus 93 ~~~~~ 97 (98)
T 1coo_A 93 ASIAD 97 (98)
T ss_dssp STTCC
T ss_pred CCCCC
T ss_conf 13235
No 8
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} PDB: 1lb2_B* 1xs9_D
Probab=99.93 E-value=7.8e-27 Score=192.58 Aligned_cols=83 Identities=53% Similarity=0.938 Sum_probs=78.3
Q ss_pred CCHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf 00112333111221011058889898839837188874498888618898864499999999980831267687898677
Q gi|254780237|r 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 (340)
Q Consensus 249 ~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l~~~~~~~ 328 (340)
..+.++.|.++|++|+||+|++|||+++||+|||||+++|++||+++||||+||++||+++|+++||+|||++++|||.+
T Consensus 3 ~~e~~~~L~~~I~eL~LSvR~~N~Lk~~gI~tvgdLv~~se~dLl~i~NfG~kSl~EI~~~L~~~gL~lgm~l~~~~p~~ 82 (86)
T 3k4g_A 3 XPEFDPILLRPVDDLELTVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLASRGLSLGMRLENWPPAS 82 (86)
T ss_dssp CCCCCGGGGSBGGGGCCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHHTTTCCSSCCEESBSCCE
T ss_pred CCCCCHHHCCCHHHHCCCHHHHHHHCCCCCCCHHHHHHCCHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf 42108887196987278899998725543937999984899998178898772699999999985988899799989412
Q ss_pred HHH
Q ss_conf 999
Q gi|254780237|r 329 IEE 331 (340)
Q Consensus 329 ~~~ 331 (340)
+++
T Consensus 83 ~~~ 85 (86)
T 3k4g_A 83 IAD 85 (86)
T ss_dssp ECC
T ss_pred CCC
T ss_conf 133
No 9
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis}
Probab=99.85 E-value=6.4e-22 Score=160.79 Aligned_cols=74 Identities=41% Similarity=0.565 Sum_probs=69.7
Q ss_pred CCCCHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 00001123331112210110588898988398371888744988886188988644999999999808312676
Q gi|254780237|r 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 (340)
Q Consensus 247 ~~~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~ 320 (340)
.++.+.++.|.++|++|+||+|++|||+++||+||+||+++|++||++++|||+||++||+++|+++||+|||+
T Consensus 5 ~~~~~~~~~L~~~I~~L~LS~R~~n~L~~~gI~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~~gL~l~~~ 78 (79)
T 3gfk_B 5 KEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGLRKD 78 (79)
T ss_dssp CCCSSCCCGGGCBGGGSCCBHHHHHHHHHTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHHHHHHTTCCCC--
T ss_pred CCCCHHHHHHCCCHHHHCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCC
T ss_conf 42024678854959984798999999989289679999868899997578986737999999999858989999
No 10
>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=99.85 E-value=1.2e-21 Score=158.95 Aligned_cols=70 Identities=43% Similarity=0.616 Sum_probs=67.6
Q ss_pred HHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 1123331112210110588898988398371888744988886188988644999999999808312676
Q gi|254780237|r 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 (340)
Q Consensus 251 ~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~ 320 (340)
+.++.|+++|++|+||+|++|||+++||+|||||+++|++||+++||||+||++||+++|+++||+|||+
T Consensus 2 e~~~~L~~~I~~L~LS~R~~N~L~~~~I~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~~gl~l~~~ 71 (73)
T 1z3e_B 2 EKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGLRKD 71 (73)
T ss_dssp -CHHHHTCBGGGSCCBHHHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHHHTTCCCC--
T ss_pred CHHHHHCCCHHHHCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCC
T ss_conf 5067626889884698999999989489679999868999997478986605999999999849987999
No 11
>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=96.53 E-value=0.002 Score=41.02 Aligned_cols=56 Identities=5% Similarity=0.145 Sum_probs=51.8
Q ss_pred CCHHHC---CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 112210---11058889898839837188874498888618898864499999999980
Q gi|254780237|r 258 KKVEEL---ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 258 ~~IeeL---eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
.+|+.| .++....+-|+.|||+||.+|+..+..+|.++++||.+..+-|.+.-..+
T Consensus 23 ~~I~~L~~~Gvg~~~i~KL~~aG~~Tv~~Ia~~t~~eL~~i~Gi~e~~A~KIi~aark~ 81 (114)
T 1b22_A 23 QPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKL 81 (114)
T ss_dssp CCHHHHHHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHH
T ss_pred CCHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf 22899976899999999999969744999984899999766698899999999999987
No 12
>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=95.97 E-value=0.02 Score=34.51 Aligned_cols=58 Identities=10% Similarity=0.194 Sum_probs=49.7
Q ss_pred HHCCHHHCC---CCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 311122101---1058889898839837188874498888618898864499999999980
Q gi|254780237|r 256 LLKKVEELE---LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 256 L~~~IeeLe---LSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
...+|++|. .+....+-|+.|||+|+.+|+..+..+|.++++++..-++.|.+.-.++
T Consensus 79 ~~~~~~~l~~~gi~~~~i~kL~~aG~~t~~~i~~~~~~~L~~~~g~s~~~a~ki~~~a~k~ 139 (400)
T 3lda_A 79 SFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARL 139 (400)
T ss_dssp CSCBGGGGCCTTCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHCCCCHHHHHHHHHCCCCCHHHHHCCCHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf 8766999986699989999999869851999971799999872399999999999999986
No 13
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11
Probab=95.82 E-value=0.0097 Score=36.58 Aligned_cols=57 Identities=11% Similarity=0.196 Sum_probs=38.4
Q ss_pred HCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 1112210-11058889898839837188874498888618898864499999999980
Q gi|254780237|r 257 LKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 257 ~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
..++++| .++....+-|+.|||+|+.||+..+..+|.++.+++...+.+|.....+.
T Consensus 34 ~~~l~~l~gv~~~~~~kL~~aG~~t~~~l~~~~~~~L~~~~gis~~~a~kii~~a~~~ 91 (349)
T 1pzn_A 34 IRSIEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKA 91 (349)
T ss_dssp -CCSSCCTTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred CCCHHHCCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf 1576337996999999999869972999970899999986498999999999999975
No 14
>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=94.93 E-value=0.04 Score=32.57 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=38.9
Q ss_pred HHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 5888989883983718887449888861889886449999999998
Q gi|254780237|r 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 267 vRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
+|+..|+ ++|+.++.|++..++++|.+++++|.|..+.|.+.+..
T Consensus 657 ~~ar~L~-~~G~~s~~~i~~~~~~~l~~v~g~g~k~a~~i~~~~~~ 701 (720)
T 2zj8_A 657 RRARALY-NSGFRSIEDISQARPEELLKIEGIGVKTVEAIFKFLGK 701 (720)
T ss_dssp HHHHHHH-TTTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHHHHHC-
T ss_pred HHHHHHH-HCCCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHCH
T ss_conf 9999999-87999999997499889852769489999999974450
No 15
>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* 3ewa_A* 3ew9_A* 3etl_A* 2gdj_A*
Probab=94.30 E-value=0.098 Score=30.08 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=16.5
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 899999938961777999999999
Q gi|254780237|r 200 KLSMTIDTDGSITGEDSVALASRI 223 (340)
Q Consensus 200 kL~lEI~TnGsi~P~eAl~~Aa~i 223 (340)
.-.+-|+|+++.+|...-..|...
T Consensus 143 ~~~l~i~t~~~~~~~~~~~~~~~~ 166 (322)
T 2i1q_A 143 PKAVYIDTEGTFRPERIMQMAEHA 166 (322)
T ss_dssp EEEEEEESSSCCCHHHHHHHHHHH
T ss_pred CEEEEEECCCCCCHHHHHHHHHHC
T ss_conf 649999778888989999999764
No 16
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA 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=93.12 E-value=0.013 Score=35.65 Aligned_cols=18 Identities=17% Similarity=0.207 Sum_probs=7.5
Q ss_pred CHHHHHHHHHHHHHHCCC
Q ss_conf 864499999999980831
Q gi|254780237|r 299 GRKSLVEIKGVLGTMGLF 316 (340)
Q Consensus 299 G~KSl~EI~~~L~~~gl~ 316 (340)
|+|.=-.|.++=+++|+.
T Consensus 211 SsKtd~lIl~KA~eLGIk 228 (241)
T 1vq8_Y 211 GARKRERIEEEAEDAGIR 228 (241)
T ss_dssp CHHHHHHHHHHHHHTTCC
T ss_pred CCCCCHHHHHHHHHCCCC
T ss_conf 466779999999985994
No 17
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymerase assembly, transferase; 1.76A {Sulfolobus solfataricus P2} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L
Probab=93.02 E-value=0.24 Score=27.60 Aligned_cols=48 Identities=29% Similarity=0.317 Sum_probs=37.3
Q ss_pred EEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 442235776411688776218999999389617779999999999998887622
Q gi|254780237|r 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 (340)
Q Consensus 180 V~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~ 233 (340)
|.-+.|.+.. ...++..|-|.|+|+.+|.+||..|++-+++.+..|.+
T Consensus 38 V~fagY~~pH------Pl~~~i~i~i~t~~~~~p~~~l~~a~~~l~~~~~~~~~ 85 (92)
T 2pa8_L 38 VSFASYYQPH------PLSDKIIVKILTDGSITPKDALLKAIENIRGMTSHYID 85 (92)
T ss_dssp EEEEEEECSS------TTSCCEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEECCC------CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 1698875678------87781599999699999899999999999999999999
No 18
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular switch, RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus P2} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*
Probab=92.97 E-value=0.015 Score=35.42 Aligned_cols=20 Identities=30% Similarity=0.368 Sum_probs=12.3
Q ss_pred EEEEEEECCCCCHHHHHHHH
Q ss_conf 99999938961777999999
Q gi|254780237|r 201 LSMTIDTDGSITGEDSVALA 220 (340)
Q Consensus 201 L~lEI~TnGsi~P~eAl~~A 220 (340)
-++-|.|.|+.+|+.....+
T Consensus 143 ~vvyidtE~~f~~~rl~~~~ 162 (324)
T 2z43_A 143 KAVYIDTEGTFRWERIENMA 162 (324)
T ss_dssp EEEEEESSSCCCHHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHH
T ss_conf 49999743511799999999
No 19
>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=92.62 E-value=0.32 Score=26.78 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHCC-CCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 11058889898839-83718887449888861889886449999999998
Q gi|254780237|r 264 ELSVRSTNCLRGEN-IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 264 eLSvRs~NcLk~a~-I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
+|+.....-|-.+| |.++.||..++.++|+++.+||.||.+-+.+.++.
T Consensus 448 GlG~~~i~~L~e~g~I~~i~Diy~L~~~~l~~l~gfg~ksa~nll~sIe~ 497 (667)
T 1dgs_A 448 GLGEKLIERLLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQNLLRQIEE 497 (667)
T ss_dssp TCCHHHHHHHHHTTSCSSGGGGGGGCCHHHHTTSSCCSTTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHCCCCCCHHHHHCCCHHHHHCCCCCCCHHHHHHHHHHHH
T ss_conf 60899999998678727678841378877635776340237899999876
No 20
>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=91.21 E-value=0.032 Score=33.26 Aligned_cols=23 Identities=17% Similarity=0.206 Sum_probs=13.5
Q ss_pred CEEEEEEEECCCCCHHHHHHHHH
Q ss_conf 18999999389617779999999
Q gi|254780237|r 199 DKLSMTIDTDGSITGEDSVALAS 221 (340)
Q Consensus 199 dkL~lEI~TnGsi~P~eAl~~Aa 221 (340)
+..++-|-|.|+..|.-....+.
T Consensus 156 ~g~vvyIdTE~~f~~~Rl~~i~~ 178 (343)
T 1v5w_A 156 GGKIIFIDTENTFRPDRLRDIAD 178 (343)
T ss_dssp CCEEEEEESSSCCCHHHHHHHHH
T ss_pred CCCEEEEECCCCCCHHHHHHHHH
T ss_conf 88468997789888999999998
No 21
>1twf_K B13.6, DNA-directed RNA polymerase II 13.6 kDa polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.2 PDB: 1i3q_K 1i6h_K 1k83_K* 1nik_K 1nt9_K 1pqv_K 1r5u_K 1r9s_K* 1r9t_K* 1sfo_K* 1twa_K* 1twc_K* 1i50_K* 1twg_K* 1twh_K* 1wcm_K 1y1v_K 1y1w_K 1y1y_K 1y77_K* ...
Probab=90.48 E-value=0.84 Score=24.01 Aligned_cols=36 Identities=17% Similarity=0.355 Sum_probs=31.5
Q ss_pred CCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 218999999389617779999999999998887622
Q gi|254780237|r 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 (340)
Q Consensus 198 ~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~ 233 (340)
.++.+|-|.|+++.+|.+||..|++-|++.+..+..
T Consensus 68 ~~~i~lrI~t~~~~~p~~~l~~a~~~l~~~~~~i~~ 103 (120)
T 1twf_K 68 FARFKLRIQTTEGYDPKDALKNACNSIINKLGALKT 103 (120)
T ss_dssp SCEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 781279999699999999999999999999999999
No 22
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=90.14 E-value=0.38 Score=26.23 Aligned_cols=36 Identities=11% Similarity=0.100 Sum_probs=31.4
Q ss_pred CCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 218999999389617779999999999998887622
Q gi|254780237|r 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 (340)
Q Consensus 198 ~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~ 233 (340)
.++.++-|.|+|+.+|.+|+..|++-|+..+..+..
T Consensus 67 ~~~i~irI~t~~~~~p~~~l~~a~~~li~~~~~i~~ 102 (123)
T 3h0g_K 67 NHNFILRVQTVEDCSPKQVIVDAAKSLITHLEEIKV 102 (123)
T ss_dssp SCEEEEEEECCSSSCSHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 880389999699999999999999999999999999
No 23
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymerase assembly, transferase; 1.76A {Sulfolobus solfataricus P2} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L
Probab=89.94 E-value=0.32 Score=26.70 Aligned_cols=39 Identities=26% Similarity=0.295 Sum_probs=29.2
Q ss_pred CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEE
Q ss_conf 78881589999616975667888999998741698306889998
Q gi|254780237|r 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 (340)
Q Consensus 22 ~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI 65 (340)
+.+++...|.+ .|.+||+||+||..|+.. ++....+-++
T Consensus 7 ~~~~n~~~i~i----~~EdhTlgnlL~~~L~~~-~~V~fagY~~ 45 (92)
T 2pa8_L 7 KSESNYLELEI----EGEDHTLGNLIAGTLRRI-SGVSFASYYQ 45 (92)
T ss_dssp EEETTEEEEEE----ETCCHHHHHHHHHHHHTS-TTEEEEEEEC
T ss_pred ECCCCEEEEEE----ECCCCHHHHHHHHHHHCC-CCCEEEEEEC
T ss_conf 37998899999----489822999999999449-9916988756
No 24
>1xpp_A TA1416, DNA-directed RNA polymerase subunit L; structural genomics, protein structure initiative, MCSG; 1.60A {Thermoplasma acidophilum} SCOP: d.74.3.2
Probab=89.45 E-value=0.69 Score=24.57 Aligned_cols=47 Identities=11% Similarity=0.147 Sum_probs=33.7
Q ss_pred EEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 442235776411688776218999999389617779999999999998887622
Q gi|254780237|r 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 (340)
Q Consensus 180 V~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~ 233 (340)
|.-+.|.+.. .--++..|-|.|+|. +|.+||..|++-|.+.+.-|..
T Consensus 48 V~fAgY~ipH------Pl~~~~~lrIkt~~~-~p~e~l~~a~~~l~~~~~~l~~ 94 (115)
T 1xpp_A 48 VDEARYYIKH------PVIDNPQIYVRVKSG-KPQSAIKRAVRKLSKLYEDLGT 94 (115)
T ss_dssp EEEEEEECSS------TTTSCCEEEEEESSS-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEECCC------CCCCCEEEEEEECCC-CHHHHHHHHHHHHHHHHHHHHH
T ss_conf 1699867799------887852899996799-9799999999999999999999
No 25
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12}
Probab=89.05 E-value=0.86 Score=23.97 Aligned_cols=44 Identities=25% Similarity=0.416 Sum_probs=27.5
Q ss_pred CCEEEEEEEECCCCCC-----------CCCCCCC-HHHHHHHHHHHCCCEEEECCC
Q ss_conf 8306889998871443-----------1466462-444999998401141777279
Q gi|254780237|r 56 RGAAITAVQIDGVLHE-----------ISSIKGV-HEDLTDIILNIKGINLKMSGD 99 (340)
Q Consensus 56 ~G~ait~vkI~gv~HE-----------fs~i~GV-~EDV~eIiLNLK~I~~k~~~~ 99 (340)
.+.-+..-||||+.=. +|.=.|. =|||++-+..++.|..+....
T Consensus 107 ~~~~~~e~KiDGls~~L~Y~~G~l~~a~TRGdG~~GeDvT~n~~~i~~ip~~~~~~ 162 (671)
T 2owo_A 107 KVTWCCELKLDGLAVSILYENGVLVSAATRGDGTTGEDITSNVRTIRAIPLKLHGE 162 (671)
T ss_dssp CCCEEEEEEESSEEEEEEEETTEEEEEECCTTSSEEEBCHHHHHTCTTSCSBCCSS
T ss_pred CCEEEEEEECCEEEEEEEEECCEEEEEECCCCCCCCCCHHHHHHHHCCCCCCCCCC
T ss_conf 82289986135279999998999989764799964348476565531577642335
No 26
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=89.02 E-value=0.5 Score=25.47 Aligned_cols=41 Identities=24% Similarity=0.332 Sum_probs=30.9
Q ss_pred CCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEE
Q ss_conf 42015863678881589999616975667888999998741698306
Q gi|254780237|r 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 (340)
Q Consensus 13 ~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~a 59 (340)
.+|.+ ..+...+|.+.|.+ .|..|||||+||..|+.. ++..
T Consensus 16 ~ki~~-~~~tk~~N~~~~~i----~~EDHTLGNlL~~~L~~~-~~V~ 56 (123)
T 3h0g_K 16 PKVTY-ELDSKSPNAAVVTL----EKEDHTLANMLANQLLSD-ERVL 56 (123)
T ss_dssp CSCCE-EECSSSTTEEEEEE----ESCCSSHHHHHHHTGGGS-TTCS
T ss_pred CCEEE-EECCCCCCEEEEEE----ECCCCHHHHHHHHHHHCC-CCCE
T ss_conf 51698-64478885689999----589842999999999539-9834
No 27
>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=88.93 E-value=0.99 Score=23.57 Aligned_cols=59 Identities=10% Similarity=0.138 Sum_probs=52.4
Q ss_pred HHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 33111221011058889898839837188874498888618898864499999999980
Q gi|254780237|r 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 255 ~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
.+++-++.|++.--..+.|-..|+.+|.++.--+.++|+.|.+|...-.+|+++.=+++
T Consensus 4 ~~~~F~e~LdvDe~iA~lLv~EGF~siEeIAy~~~~eL~~IegfDee~a~eL~~RA~~~ 62 (70)
T 1u9l_A 4 AIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNA 62 (70)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf 89999998486399999999865597999875999999763155899999999999999
No 28
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=87.39 E-value=1.1 Score=23.29 Aligned_cols=44 Identities=18% Similarity=0.190 Sum_probs=36.7
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 8889898839837188874498888618898864499999999980
Q gi|254780237|r 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 268 Rs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
++.+-+++ ..++.+|.+-+.++|.+++++|.+..+.|.+.+.+-
T Consensus 31 ~a~~L~~~--Fgsl~~i~~As~eeL~~i~GiG~~~A~~I~~~f~~p 74 (89)
T 1z00_A 31 DSQTLLTT--FGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEP 74 (89)
T ss_dssp HHHHHHHH--TCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHSC
T ss_pred HHHHHHHH--HCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCH
T ss_conf 99999999--488899999878777268996999999999998084
No 29
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7
Probab=85.99 E-value=0.41 Score=26.06 Aligned_cols=40 Identities=10% Similarity=0.160 Sum_probs=34.5
Q ss_pred HHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHC
Q ss_conf 331112210-1105888989883983718887449888861
Q gi|254780237|r 255 ALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 (340)
Q Consensus 255 ~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ 294 (340)
+-.++|++| .+.-|..-.|++.||+|+|||.+++.++|.+
T Consensus 181 L~~lpl~~l~GiG~~~~~~L~~~Gi~ti~dl~~~~~~~L~r 221 (221)
T 1im4_A 181 LNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEK 221 (221)
T ss_dssp HHTCBGGGSTTCCHHHHHHHHHTTCCBTTC-----------
T ss_pred HHCCCHHHHCCCCHHHHHHHHHCCCCCHHHHHCCCHHHHCC
T ss_conf 85798754189479999999992992099985799998119
No 30
>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=84.84 E-value=1 Score=23.52 Aligned_cols=53 Identities=9% Similarity=0.142 Sum_probs=41.9
Q ss_pred HHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 331112210-1105888989883983718887449888861889886449999999
Q gi|254780237|r 255 ALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 (340)
Q Consensus 255 ~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~ 309 (340)
.-..+|++| .+.-|...-|++.||+|++||.+.+.++|.+ -||.+....+.+.
T Consensus 176 l~~lpv~~l~GiG~~~~~~L~~~Gi~t~~dl~~~~~~~l~~--~fG~~~g~~l~~~ 229 (354)
T 3bq0_A 176 LNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEK--ITGKAKALYLLKL 229 (354)
T ss_dssp HHHCBSTTSTTCCHHHHHHHTTTTCCBGGGGGGSCHHHHHH--HHCHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHCCCHHHHHH--HHCHHHHHHHHHH
T ss_conf 98610666159647899999981896999954589878998--8481788999998
No 31
>3gqc_A DNA repair protein REV1; protein-DNA complex, alternative splicing, DNA damage, DNA repair, DNA synthesis; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Probab=84.19 E-value=1.7 Score=22.09 Aligned_cols=54 Identities=22% Similarity=0.111 Sum_probs=42.9
Q ss_pred HHHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 3331112210-1105888989883983718887449888861889886449999999
Q gi|254780237|r 254 PALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 (340)
Q Consensus 254 ~~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~ 309 (340)
-+...+|.+| .+.-+...-|++.||+|++||...+.+.|.+. ||.+....+.+.
T Consensus 311 fL~~lpv~~lpGIG~~~~~kL~~lGI~Ti~DL~~l~~~~L~~~--fG~k~g~~L~~~ 365 (504)
T 3gqc_A 311 FIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKE--FGPKTGQMLYRF 365 (504)
T ss_dssp HHHHSBGGGSTTCCHHHHHHHHHTTCCBHHHHTTSCHHHHHHH--HCHHHHHHHHHH
T ss_pred HHHHHCCCCCCCCCHHHHHHHHHHCCCCHHHHHCCCHHHHHHH--HCCHHHHHHHHH
T ss_conf 8864133344787878999998616850999855999999988--471789999996
No 32
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase/DNA 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=83.87 E-value=0.96 Score=23.66 Aligned_cols=52 Identities=8% Similarity=0.012 Sum_probs=42.2
Q ss_pred HHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHH
Q ss_conf 331112210-110588898988398371888744988886188988644999999
Q gi|254780237|r 255 ALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 (340)
Q Consensus 255 ~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~ 308 (340)
+-..+|.+| .+.-++..-|++.||+|++||.+.+.+.|.+ -||.+....+.+
T Consensus 175 L~~lpv~~l~Gig~~~~~~L~~~Gi~ti~dl~~~~~~~L~~--~fG~~~~~~l~~ 227 (352)
T 1jx4_A 175 IRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKG--MIGEAKAKYLIS 227 (352)
T ss_dssp HHHSBGGGSTTCCHHHHHHHHTTTCCBGGGGGSSCHHHHHH--HHCHHHHHHHHH
T ss_pred CCCCCEEEECCCCCHHHHHHHHHCCCCHHHHHCCCHHHHHH--HHCHHHHHHHHH
T ss_conf 02676024148870468899984686825413279789997--858487999999
No 33
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA helicase, rnpase, RNA unwindase, molecular modeling; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A* 3hib_A
Probab=79.83 E-value=3 Score=20.41 Aligned_cols=94 Identities=5% Similarity=0.104 Sum_probs=62.3
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCHHHHHH-------HCCHHHC-CCCHHHHHHHHHCCCCCHHHHH
Q ss_conf 7999999999999888762244443221000000000112333-------1112210-1105888989883983718887
Q gi|254780237|r 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL-------LKKVEEL-ELSVRSTNCLRGENIVYMGDLI 285 (340)
Q Consensus 214 ~eAl~~Aa~iL~~~l~~f~~~~~~~~~~~~~~~~~~~~~~~~L-------~~~IeeL-eLSvRs~NcLk~a~I~tigdLv 285 (340)
...+..|.+++...+.......-.. .. ......+-+ ..++-+| .+..+...-|++.+|.++++|.
T Consensus 113 ~~I~~~~~Ril~al~ei~~~~~~~~-a~------~~l~l~q~i~q~~w~~~~~L~Qlp~i~~~~~~~l~~~~i~~l~~l~ 185 (328)
T 3im1_A 113 KDILEKVVPLINVVVDILSANGYLN-AT------TAMDLAQMLIQGVWDVDNPLRQIPHFNNKILEKCKEINVETVYDIM 185 (328)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTBTT-HH------HHHHHHHHHHHTSCTTSCGGGGSTTCCHHHHHHHHHTTCCSHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHH-HH------HHHHHHHHHHHHCCCCCCHHHHHHHCCHHHHHHHHHCCCCCHHHHH
T ss_conf 9999999999999999996168799-99------9999999988655899866676620799999999975999999998
Q ss_pred HCCHHHHHCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 44988886188988644999999999808
Q gi|254780237|r 286 QRTEADMLRMANFGRKSLVEIKGVLGTMG 314 (340)
Q Consensus 286 ~~s~~dLl~ikNfG~KSl~EI~~~L~~~g 314 (340)
..+++++..+-++...-.++|.+.+..+-
T Consensus 186 ~~~~~~~~~~l~~~~~~~~~i~~~~~~~P 214 (328)
T 3im1_A 186 ALEDEERDEILTLTDSQLAQVAAFVNNYP 214 (328)
T ss_dssp HSCHHHHHHHCCCCHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf 75176799997107789999999986489
No 34
>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=79.62 E-value=2.2 Score=21.29 Aligned_cols=42 Identities=12% Similarity=0.060 Sum_probs=35.1
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 88898988398371888744988886188988644999999999
Q gi|254780237|r 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 (340)
Q Consensus 268 Rs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~ 311 (340)
|+..-++. ..++.++..-+.+||.+++++|++..++|.+.|.
T Consensus 36 ~ak~Ll~~--F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~l~ 77 (78)
T 1kft_A 36 RRQMLLKY--MGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLK 77 (78)
T ss_dssp HHHHHHHH--HSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHHHT
T ss_pred HHHHHHHH--HCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf 99999999--2994999883799998079989999999999966
No 35
>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=78.66 E-value=3.3 Score=20.18 Aligned_cols=47 Identities=9% Similarity=0.067 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf 11058889898839837188874498888618898864499999999
Q gi|254780237|r 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 (340)
Q Consensus 264 eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L 310 (340)
.++....--|..+||+|+.||...+-++|+.+-++.......+.-+-
T Consensus 14 G~~~~~~~~L~e~gI~t~edLAdls~dEL~ei~~i~ee~A~~lIM~A 60 (70)
T 1wcn_A 14 GVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAA 60 (70)
T ss_dssp TCCHHHHHHHHTTTCCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHCCCCCHHHHHHHCHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 98999999999969974999987289999876168999999999999
No 36
>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* 3h4d_A* 3h4b_A* 2alz_A* 3h40_A* 1t3n_A* 1zet_A*
Probab=75.99 E-value=3.8 Score=19.78 Aligned_cols=49 Identities=16% Similarity=0.293 Sum_probs=39.0
Q ss_pred CHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 12210-1105888989883983718887449888861889886449999999
Q gi|254780237|r 259 KVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 (340)
Q Consensus 259 ~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~ 309 (340)
+|.+| .+.-+....|++.||+|++||...+..+|. +-||.+.-..+.+.
T Consensus 235 pv~~l~GiG~~~~~~L~~~Gi~ti~dl~~~~~~~L~--~~fG~~~g~~l~~~ 284 (420)
T 3osn_A 235 HIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILE--KELGISVAQRIQKL 284 (420)
T ss_dssp SGGGSTTCCHHHHHHHHHTTCCSHHHHHHSCHHHHH--HHHHHHHHHHHHHH
T ss_pred CHHHHCCCCHHHHHHHHHHCCCCHHHHHCCCHHHHH--HHHCCHHHHHHHHH
T ss_conf 688856888789999864256609987527553699--88593999999999
No 37
>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=75.68 E-value=4 Score=19.65 Aligned_cols=51 Identities=14% Similarity=0.223 Sum_probs=38.9
Q ss_pred CHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 122101105888989883983718887449888861889886449999999998
Q gi|254780237|r 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 259 ~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
.|..++- ...+.|-+. ..++.++..-|.++|++++++|.+..+.|.+.+..
T Consensus 18 ~IpgIG~--~~a~~L~~~-F~s~~~i~~As~eeL~~v~GIG~~~a~~i~~~~~~ 68 (75)
T 1x2i_A 18 GLPHVSA--TLARRLLKH-FGSVERVFTASVAELMKVEGIGEKIAKEIRRVITA 68 (75)
T ss_dssp TSTTCCH--HHHHHHHHH-HCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHHS
T ss_pred CCCCCCH--HHHHHHHHH-HCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCC
T ss_conf 8999429--999999999-68889899978999985589799999999999857
No 38
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=72.73 E-value=4.6 Score=19.26 Aligned_cols=41 Identities=17% Similarity=0.201 Sum_probs=34.5
Q ss_pred HHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 989883983718887449888861889886449999999998
Q gi|254780237|r 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 271 NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
..|-+. ..++.+|..-+.++|.+++++|.+-.+.|.+.+.+
T Consensus 46 ~~L~~~-F~Si~~l~~As~eeL~~i~GIG~~~A~~I~~~f~~ 86 (91)
T 2a1j_B 46 QTLLTT-FGSLEQLIAASREDLALCPGLGPQKARRLFDVLHE 86 (91)
T ss_dssp HHHHHH-HSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHHS
T ss_pred HHHHHH-HCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHC
T ss_conf 999999-58829899989997557799699999999999848
No 39
>1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S rRNA-protein complex, cadmium IONS, ribosome; 2.30A {Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T 2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z 2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z 2wrl_Z 2wro_Z ...
Probab=70.80 E-value=2.5 Score=20.98 Aligned_cols=34 Identities=12% Similarity=0.082 Sum_probs=17.4
Q ss_pred EEEEEEEECC-CCEEEECCCEEEEEECCCCEEEEEEEE
Q ss_conf 6996335138-985998888089997789649999997
Q gi|254780237|r 113 VVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTV 149 (340)
Q Consensus 113 ~vtA~Di~~p-~~veivNpd~~IaTl~~~~~l~iel~i 149 (340)
.+--+|+|.. -.=.++.=|.|.. + +..+.+++-|
T Consensus 68 ~vlikevQ~~pv~~~i~HvDF~~v--~-~~~i~v~VPv 102 (206)
T 1feu_A 68 PTLVRQVNLDKRRRRPEHVDFFVL--S-DEPVEMYVPL 102 (206)
T ss_dssp EEEEEEEEECSSSSCEEEEEEEEC--C-SSCEEEEEEE
T ss_pred EEEEEEEEECCCCCCCEEEEEEEC--C-CCEEEEEECE
T ss_conf 999999874122577379998815--8-9769999665
No 40
>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=69.64 E-value=5.5 Score=18.74 Aligned_cols=48 Identities=19% Similarity=0.297 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 1105888989883983718887449888861889886449999999998
Q gi|254780237|r 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 264 eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
+.|......|-+. ..++.+|.+.+.++|.+++++|.+-..+|.+.|..
T Consensus 169 gi~~~~A~~Ll~~-f~Sl~~l~~as~~eL~~v~giG~~~A~~I~~~l~~ 216 (219)
T 2bgw_A 169 GIGRRTAERILER-FGSLERFFTASKAEISKVEGIGEKRAEEIKKILMT 216 (219)
T ss_dssp TCCHHHHHHHHHH-HSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHHHS
T ss_pred CCCHHHHHHHHHH-CCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf 9899999999998-69999998688999960899799999999999638
No 41
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=68.96 E-value=4.1 Score=19.58 Aligned_cols=41 Identities=15% Similarity=0.135 Sum_probs=30.5
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 88898988398371888744988886188988644999999999808
Q gi|254780237|r 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 (340)
Q Consensus 268 Rs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~g 314 (340)
||.+.|++-- +--.+.+|+..++++|.+..+-|.++|+++-
T Consensus 42 kA~~sLk~~p------~~I~s~~~l~~l~GIG~~i~~ki~e~L~~yc 82 (87)
T 2kp7_A 42 KALRSLQRYP------LPLRSGKEAKILQHFGDRLCRMLDEKLKQHL 82 (87)
T ss_dssp HHHHHHHHCC------SCCCSHHHHHTCTTTCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCC------CCCCCHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf 9999999789------9888899997279977899999999999999
No 42
>3mr3_A DNA polymerase ETA; POL ETA, polymerase, thymine dimer, CPD, XPV, xeroderma PIGM variant, DNA damage; HET: DNA TTD DZ4; 1.75A {Homo sapiens} PDB: 3mr2_A* 3mr5_A* 3mr6_A*
Probab=63.86 E-value=7.1 Score=18.01 Aligned_cols=52 Identities=23% Similarity=0.306 Sum_probs=37.8
Q ss_pred HCCHHHC-CCCHHH-HHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf 1112210-110588-89898839837188874498888618898864499999999
Q gi|254780237|r 257 LKKVEEL-ELSVRS-TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 (340)
Q Consensus 257 ~~~IeeL-eLSvRs-~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L 310 (340)
..+|.+| ...-+. ..-|++.||+|++||...+..+|.+. ||.+.-..+.+..
T Consensus 252 ~lpi~~l~GiG~k~~~~~L~~~gi~ti~dl~~~~~~~L~~~--~G~~~g~~l~~~a 305 (435)
T 3mr3_A 252 QMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSH--FGEKNGSWLYAMC 305 (435)
T ss_dssp TCBGGGSTTCSSHHHHHHHHHHTCCBGGGGGGSCHHHHHHH--HCHHHHHHHHHHT
T ss_pred HCCCCEECCCCHHHHHHHHHHHCCCCHHHHHHCCHHHHHHH--HCHHHHHHHHHHH
T ss_conf 37677607767578999999958947899873999899999--7868899999996
No 43
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=60.03 E-value=6.1 Score=18.43 Aligned_cols=23 Identities=17% Similarity=0.177 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 49999999998083126768789
Q gi|254780237|r 302 SLVEIKGVLGTMGLFLGMNLPDW 324 (340)
Q Consensus 302 Sl~EI~~~L~~~gl~lg~~l~~~ 324 (340)
-+++|.+.+++.|..+=+|-..|
T Consensus 471 d~e~v~~~~~~~g~~lEINts~~ 493 (578)
T 2w9m_A 471 DLDAVLGACEANGTVVEINANAA 493 (578)
T ss_dssp CHHHHHHHHHHHTCEEEEECSTT
T ss_pred HHHHHHHHHHHHCCEEEEECCCC
T ss_conf 79999999998199999949999
No 44
>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=59.00 E-value=8.7 Score=17.47 Aligned_cols=96 Identities=6% Similarity=0.067 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCH---HHCCC-CHHHHHHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCH
Q ss_conf 999999999999888762244443221000---00000-01123331112210-11058889898839837188874498
Q gi|254780237|r 215 DSVALASRILQDQLGMFINFEEPKKEVKED---INVKS-LPFNPALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTE 289 (340)
Q Consensus 215 eAl~~Aa~iL~~~l~~f~~~~~~~~~~~~~---~~~~~-~~~~~~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~ 289 (340)
-.+..|.+++...+................ .-..+ .-.+ ..++-+| .++....+-|.+.+|.++.||...+.
T Consensus 117 ~I~~~~~Ril~al~ei~~~~~~~~~~~~~l~l~q~i~q~~w~~---~~pL~Qlp~i~~~~~~~l~~~~i~sl~~l~~~~~ 193 (339)
T 2q0z_X 117 EILSKAIRLIQACVDVLSSNGWLSPALAAMELAQMVTQAMWSK---DSYLKQLPHFTSEHIKRCTDKGVESVFDIMEMED 193 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHHHHHHTCCTT---SCGGGGSTTCCHHHHHHHHHTTCCSHHHHHHSCH
T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCC---CCHHHCCCCCCHHHHHHHHHCCCCCHHHHHHCCH
T ss_conf 9999899999999999986598999999999999988663899---7732324658999999998669998999972899
Q ss_pred HHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 888618898864499999999980
Q gi|254780237|r 290 ADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 290 ~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
+++..+-++......+|.+.+..+
T Consensus 194 ~~~~~~l~l~~~~~~~i~~~~~~~ 217 (339)
T 2q0z_X 194 EERNALLQLTDSQIADVARFCNRY 217 (339)
T ss_dssp HHHHHHHCCCHHHHHHHHHHHTTS
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf 999877523768999999988758
No 45
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T* 1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z 1pnu_T 1pny_T 1vor_W 1vou_W 1vow_W ...
Probab=58.09 E-value=2.7 Score=20.75 Aligned_cols=24 Identities=25% Similarity=0.536 Sum_probs=8.1
Q ss_pred EEEEEEECCCCEEEE-CCCEEEEEE
Q ss_conf 996335138985998-888089997
Q gi|254780237|r 114 VTAGDIQTVNDIEVL-NPDHVICNL 137 (340)
Q Consensus 114 vtA~Di~~p~~veiv-Npd~~IaTl 137 (340)
++++||.+|.+++++ +|+..||++
T Consensus 147 i~v~Dl~lp~gv~l~~d~d~~V~~V 171 (237)
T 2zjr_S 147 ITAGDIKLPEGCTLAADPELTVVSV 171 (237)
T ss_dssp EETTTSCCSTTCCCCSCTTCEEEEE
T ss_pred EEEEEECCCCCEEECCCCCCEEEEE
T ss_conf 9998442799808825999579999
No 46
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus aureus}
Probab=55.85 E-value=9.7 Score=17.13 Aligned_cols=77 Identities=13% Similarity=0.274 Sum_probs=53.9
Q ss_pred HHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCC--CC---------CHH
Q ss_conf 2210-11058889898839837188874498888618898864499999999980831267687--89---------867
Q gi|254780237|r 260 VEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP--DW---------PPE 327 (340)
Q Consensus 260 IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l~--~~---------~~~ 327 (340)
++.+ ++..++..+|++.++..+++|+..+...|.++ +.....++++.+...+.|- +|.++. +| +.+
T Consensus 207 ~~~i~~~~~~~~~al~~~d~~~lg~lm~~~~~~l~~l-~vs~p~l~~l~~~~~~~Ga-~gaklsGaG~Gg~~~al~~~~~ 284 (308)
T 2x7i_A 207 VKHIGKLVLRASDVIEHHKFEALADIFNECHADLKAL-TVSHDKIEQLMKIGKENGA-IAGKLTGAGRGGSMLLLAKDLP 284 (308)
T ss_dssp HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHTTC-SEEEESBTTTCSSEEEEESSHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHCCC-CEEEEECCCCCCEEEEEECCHH
T ss_conf 9997478999999998657789999999999999871-7898899999999997899-5899977785226999979878
Q ss_pred HHHHHHHHHHC
Q ss_conf 79999987750
Q gi|254780237|r 328 SIEELAKKYED 338 (340)
Q Consensus 328 ~~~~~~~~~~~ 338 (340)
..+.+.+++++
T Consensus 285 ~a~~i~~~l~~ 295 (308)
T 2x7i_A 285 TAKNIVKAVEK 295 (308)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
T ss_conf 99999999997
No 47
>1zco_A 2-dehydro-3-deoxyphosphoheptonate aldolase; arabino-heptulosonate, synthase, shikimate, DAHP, DAH7P, dahps, DAH7PS, lyase; HET: PEP; 2.25A {Pyrococcus furiosus}
Probab=52.30 E-value=7.9 Score=17.71 Aligned_cols=15 Identities=13% Similarity=0.085 Sum_probs=8.8
Q ss_pred CCHHHHHHHHHHHCC
Q ss_conf 624449999984011
Q gi|254780237|r 77 GVHEDLTDIILNIKG 91 (340)
Q Consensus 77 GV~EDV~eIiLNLK~ 91 (340)
|.-|.-++++...|+
T Consensus 70 g~g~~gl~~l~~ik~ 84 (262)
T 1zco_A 70 GYGEKALRWMREAAD 84 (262)
T ss_dssp CCTHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH
T ss_conf 761588999998776
No 48
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A*
Probab=52.13 E-value=11 Score=16.75 Aligned_cols=50 Identities=18% Similarity=0.131 Sum_probs=35.7
Q ss_pred HCCHHHC-CCCHHHHHHHHHC--CCCCHHHHHH-CCHHHHHCCCCCCHHHHHHHHH
Q ss_conf 1112210-1105888989883--9837188874-4988886188988644999999
Q gi|254780237|r 257 LKKVEEL-ELSVRSTNCLRGE--NIVYMGDLIQ-RTEADMLRMANFGRKSLVEIKG 308 (340)
Q Consensus 257 ~~~IeeL-eLSvRs~NcLk~a--~I~tigdLv~-~s~~dLl~ikNfG~KSl~EI~~ 308 (340)
..++.+| ...-++..-|++. ||+|++||.+ .+.+.|.+. ||.|.-..+.+
T Consensus 240 ~lpv~~LpGIG~~~~~kL~~~~~Gi~ti~DL~~~~~~~~L~~~--fG~~~g~~l~~ 293 (434)
T 2aq4_A 240 SFKLDDLPGVGHSTLSRLESTFDSPHSLNDLRKRYTLDALKAS--VGSKLGMKIHL 293 (434)
T ss_dssp TCCGGGSTTCCHHHHHHHHHHTTCCCSHHHHHHHCCHHHHHHH--HCSSHHHHHHH
T ss_pred CCCCCCCCCCCHHHHHHHHHHHCCCEEHHHHHHHCCHHHHHHH--HCCHHHHHHHH
T ss_conf 6672106686789999999876588079997632829899999--67489999999
No 49
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=51.27 E-value=6.1 Score=18.43 Aligned_cols=41 Identities=7% Similarity=0.126 Sum_probs=28.5
Q ss_pred HHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 5888989883983718887449888861889886449999999998083
Q gi|254780237|r 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 (340)
Q Consensus 267 vRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl 315 (340)
..|....+...+. +-+||++++++|.+.++-|+..|..+-.
T Consensus 44 ~~A~~Iv~~gpf~--------s~~dL~~V~Gig~~~~e~ik~yl~~~~~ 84 (104)
T 3bz1_U 44 TLAKLIVKNAPYE--------SVEDVLNIPGLTERQKQILRENLEHFTV 84 (104)
T ss_dssp HHHHHHHHSCCCS--------SGGGGGGCTTCCHHHHHHHHHHGGGEEC
T ss_pred HHHHHHHHCCCCC--------CHHHHHCCCCCCHHHHHHHHHHHCCCEE
T ss_conf 9999999749979--------8999963899899999999986545544
No 50
>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=46.18 E-value=8.8 Score=17.43 Aligned_cols=39 Identities=8% Similarity=0.127 Sum_probs=27.4
Q ss_pred HHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 58889898839837188874498888618898864499999999980
Q gi|254780237|r 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 267 vRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
.++....++..+. +-+||++++++|.|.++-+++.|..+
T Consensus 74 ~~A~~Iv~~gpf~--------svedl~~v~Gig~~~~e~l~~~l~~f 112 (134)
T 1s5l_U 74 TLAKLIVKNAPYE--------SVEDVLNIPGLTERQKQILRENLEHF 112 (134)
T ss_dssp HHHHHHHHTCCCS--------SGGGGGGCTTCCHHHHHHHHHHHTTE
T ss_pred HHHHHHHHCCCCC--------CHHHHHCCCCCCHHHHHHHHHHHCCC
T ss_conf 9999999827848--------79999617757999999999865353
No 51
>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=42.90 E-value=15 Score=15.84 Aligned_cols=47 Identities=6% Similarity=0.191 Sum_probs=37.2
Q ss_pred CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 1105888989883983718887449888861889886449999999998
Q gi|254780237|r 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 264 eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
+.+......|-+ ...++.+|.+.|.+||.++.+ |++....|.+.|..
T Consensus 11 GIg~~~~~~Ll~-~fgSi~~l~~as~eeL~~v~G-~~~~A~~i~~~l~~ 57 (63)
T 2a1j_A 11 GVNAKNCRSLMH-HVKNIAELAALSQDELTSILG-NAANAKQLYDFIHT 57 (63)
T ss_dssp TCCHHHHHHHHH-HCSSHHHHHTCCHHHHHHHHS-CHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHH-HCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCC
T ss_conf 988999999999-867999998799999987869-89999999999802
No 52
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=42.41 E-value=16 Score=15.79 Aligned_cols=77 Identities=17% Similarity=0.123 Sum_probs=46.9
Q ss_pred CHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHH-HCCCCCCHH-HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 12210-11058889898839837188874498888-618898864-4999999999808312676878986779999987
Q gi|254780237|r 259 KVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADM-LRMANFGRK-SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 (340)
Q Consensus 259 ~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dL-l~ikNfG~K-Sl~EI~~~L~~~gl~lg~~l~~~~~~~~~~~~~~ 335 (340)
.+.+| +++..+..-|.+.||+++.||......++ .+++-.|.. ++.- -..--|.--|..-...+.+.-++|++.
T Consensus 5 ~L~~LPNig~~~e~~L~~iGI~~~~~L~~~ga~~~y~rLk~~~~~~~~~~---L~aL~gAl~g~~w~~l~~e~K~~L~~~ 81 (93)
T 3bqs_A 5 NLSELPNIGKVLEQDLIKAGIKTPVELKDVGSKEAFLRIWENDSSVCMSE---LYALEGAVQGIRWHGLDEAKKIELKKF 81 (93)
T ss_dssp CGGGSTTCCHHHHHHHHHTTCCSHHHHHHHHHHHHHHHHHTTCTTCCHHH---HHHHHHHHHTSCGGGSCHHHHHHHHHH
T ss_pred HHHHCCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHCCCCCHHH---HHHHHHHHCCCCHHHCCHHHHHHHHHH
T ss_conf 77248999999999999939998999986799999999998689960999---999999994998676999999999999
Q ss_pred HHC
Q ss_conf 750
Q gi|254780237|r 336 YED 338 (340)
Q Consensus 336 ~~~ 338 (340)
|..
T Consensus 82 ~~~ 84 (93)
T 3bqs_A 82 HQS 84 (93)
T ss_dssp HHH
T ss_pred HHH
T ss_conf 998
No 53
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=40.96 E-value=10 Score=16.96 Aligned_cols=53 Identities=19% Similarity=0.326 Sum_probs=36.7
Q ss_pred HHCCHHHCCCC-HHHHHHHHHCCCC--CHHHHHHCCHHHHHCCCCCCHHHHHHHHH
Q ss_conf 31112210110-5888989883983--71888744988886188988644999999
Q gi|254780237|r 256 LLKKVEELELS-VRSTNCLRGENIV--YMGDLIQRTEADMLRMANFGRKSLVEIKG 308 (340)
Q Consensus 256 L~~~IeeLeLS-vRs~NcLk~a~I~--tigdLv~~s~~dLl~ikNfG~KSl~EI~~ 308 (340)
+..-|..++|. .||.+..+-+.+- .-+.-+..+.++|+++|+.|+|+..-|-.
T Consensus 78 l~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g~vp~~~~eL~~LPGVG~ktA~~vl~ 133 (221)
T 1kea_A 78 IAKDIKEIGLSNQRAEQLKELARVVINDYGGRVPRNRKAILDLPGVGKYTCAAVMC 133 (221)
T ss_dssp HHHHTGGGSCHHHHHHHHHHHHHHHHHHHTTSCCSCHHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHH
T ss_conf 99999987899999999999999998860587301288874489876567999999
No 54
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Probab=36.03 E-value=20 Score=15.15 Aligned_cols=50 Identities=14% Similarity=0.252 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHH-------------CCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 110588898988-------------39837188874498888618898864499999999980
Q gi|254780237|r 264 ELSVRSTNCLRG-------------ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 264 eLSvRs~NcLk~-------------a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~ 313 (340)
-+|.|-|-.|.+ ....++..|+.-|.+||.++.+.|++-..-|++-|..+
T Consensus 308 ~v~pRGyRiLskiprlp~~vienLV~~FgsLq~Ll~AS~EeL~eVeGIGe~RAr~IreGL~Rl 370 (377)
T 3c1y_A 308 LVSARGYRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLKKVEGIGEKRARAISESISSL 370 (377)
T ss_dssp BCCCCSHHHHHHTSCCCHHHHHHHHHHHCSHHHHTTCCHHHHTTSTTCCHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf 657417888723899978899999998468999985899889645885899999999999998
No 55
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=35.92 E-value=12 Score=16.49 Aligned_cols=51 Identities=18% Similarity=0.183 Sum_probs=34.8
Q ss_pred CCHHHCCCCHHHHHHHHHCCCC--CHHHHHHCCHHHHHCCCCCCHHHHHHHHH
Q ss_conf 1122101105888989883983--71888744988886188988644999999
Q gi|254780237|r 258 KKVEELELSVRSTNCLRGENIV--YMGDLIQRTEADMLRMANFGRKSLVEIKG 308 (340)
Q Consensus 258 ~~IeeLeLSvRs~NcLk~a~I~--tigdLv~~s~~dLl~ikNfG~KSl~EI~~ 308 (340)
.-|..+.+..|+.|-.+.+.+- .-+.-+..+.++|+++|+.|+|+.+-|-.
T Consensus 75 ~~i~~~gy~~ka~~l~~~a~~i~~~~~g~~p~~~~~L~~LpGVG~kTA~~il~ 127 (225)
T 1kg2_A 75 HLWTGLGYYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILS 127 (225)
T ss_dssp HHHTTSCCTHHHHHHHHHHHHHHHHSTTSCCCSHHHHHTSTTCCHHHHHHHHH
T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCHHHHHHHHH
T ss_conf 99861673277999999999999870799974299997589874789999999
No 56
>2e1f_A Werner syndrome ATP-dependent helicase; HRDC domain, hydrolase; 2.00A {Homo sapiens} SCOP: a.60.8.1 PDB: 2e1e_A
Probab=35.58 E-value=13 Score=16.24 Aligned_cols=47 Identities=15% Similarity=0.089 Sum_probs=29.5
Q ss_pred HHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHH-------HHHHHHHHHCCC
Q ss_conf 89898839837188874498888618898864499-------999999980831
Q gi|254780237|r 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV-------EIKGVLGTMGLF 316 (340)
Q Consensus 270 ~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~-------EI~~~L~~~gl~ 316 (340)
+..+.+.-+.-+....-.|.++|..+++||.+-++ -|.+...+.++.
T Consensus 37 ~~I~~d~~L~~ia~~~P~t~~eL~~I~G~g~~k~~ryG~~l~~I~~~~~~~~~~ 90 (103)
T 2e1f_A 37 AILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAPLLEVIKHFCQTNSVQ 90 (103)
T ss_dssp HHHCCHHHHHHHHHHCCCSHHHHTTSTTCCHHHHHHTHHHHHHHHHHHHHTTCC
T ss_pred EEEECHHHHHHHHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 044789999999987899999993789989999999989999999999984998
No 57
>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=34.27 E-value=13 Score=16.29 Aligned_cols=22 Identities=18% Similarity=0.270 Sum_probs=15.2
Q ss_pred CCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 1443146646244499999840
Q gi|254780237|r 68 VLHEISSIKGVHEDLTDIILNI 89 (340)
Q Consensus 68 v~HEfs~i~GV~EDV~eIiLNL 89 (340)
....-+.++||=.-..+.+-.|
T Consensus 113 l~~~i~~lkGVGpk~a~~L~kl 134 (780)
T 1gm5_A 113 LSTDIQYAKGVGPNRKKKLKKL 134 (780)
T ss_dssp SCCCSSSSSSCCHHHHHHHHTT
T ss_pred CCCCCCCCCCCCHHHHHHHHHC
T ss_conf 9998601788159999999976
No 58
>1x40_A ARAP2; ASAP-related protein2, GTPase activity, signal transduction, SAM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.1.2
Probab=34.23 E-value=21 Score=14.97 Aligned_cols=40 Identities=8% Similarity=0.100 Sum_probs=31.3
Q ss_pred CHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCC--CCCC
Q ss_conf 1221011058889898839837188874498888618--8988
Q gi|254780237|r 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM--ANFG 299 (340)
Q Consensus 259 ~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~i--kNfG 299 (340)
=++.+.|+ +=...+++.+|.++.+|...++++|.++ .++|
T Consensus 21 WL~~igL~-~Y~~~F~~~~~~~~~~l~~l~~~dL~~lGI~~~g 62 (91)
T 1x40_A 21 FLMSINLE-QYLLHFHESGFTTVKDCAAINDSLLQKIGISPTG 62 (91)
T ss_dssp HHHTTTCG-GGHHHHHHHTCCBSGGGGGCCHHHHHHHTCCCHH
T ss_pred HHHHCCCH-HHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHH
T ss_conf 99888559-9999999949982899987999999786999899
No 59
>1vr6_A Phospho-2-dehydro-3-deoxyheptonate aldolase; TM0343, structural genomics, joint center for structural genomics, JCSG; 1.92A {Thermotoga maritima} SCOP: c.1.10.4 PDB: 1rzm_A*
Probab=33.46 E-value=22 Score=14.89 Aligned_cols=17 Identities=18% Similarity=-0.097 Sum_probs=7.4
Q ss_pred EEEECCCCCHHHHHHHH
Q ss_conf 99938961777999999
Q gi|254780237|r 204 TIDTDGSITGEDSVALA 220 (340)
Q Consensus 204 EI~TnGsi~P~eAl~~A 220 (340)
.+.-.-..+|++-+.-|
T Consensus 217 ~lKkG~~~s~~e~l~aa 233 (350)
T 1vr6_A 217 LLKRGFMNTIEEFLLSA 233 (350)
T ss_dssp EEECCTTCCHHHHHHHH
T ss_pred EECCCCCCCHHHHHHHH
T ss_conf 94175548999987789
No 60
>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=33.06 E-value=22 Score=14.85 Aligned_cols=49 Identities=14% Similarity=0.108 Sum_probs=36.3
Q ss_pred HHHCCHHHC-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHH
Q ss_conf 331112210-1105888989883983718887449888861889886449999
Q gi|254780237|r 255 ALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 (340)
Q Consensus 255 ~L~~~IeeL-eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI 306 (340)
+-..+|.+| +..-+...-|++.||.|++||.+.. ..|. +-||++...-+
T Consensus 279 L~~lpv~~l~GIG~~~~~~L~~~gI~ti~dL~~~~-~~l~--~~~g~~~~~~~ 328 (459)
T 1t94_A 279 IKDLPIRKVSGIGKVTEKMLKALGIITCTELYQQR-ALLS--LLFSETSWHYF 328 (459)
T ss_dssp HTTCBGGGCTTSCHHHHHHHHHTTCCBHHHHHHTH-HHHH--HHSCHHHHHHH
T ss_pred HHHCCCCEECCCCCHHHHHHHHHCCCCHHHHHHHH-HHHH--HHHCCHHHHHH
T ss_conf 86298353368884137889870784999999858-8899--98451366646
No 61
>2cz9_A Probable galactokinase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.50A {Pyrococcus horikoshii} PDB: 2dei_A* 2dej_A* 1s4e_A*
Probab=31.66 E-value=23 Score=14.70 Aligned_cols=62 Identities=18% Similarity=0.193 Sum_probs=48.0
Q ss_pred CHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 122101105888989883983718887449888861889886449999999998083126768
Q gi|254780237|r 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 (340)
Q Consensus 259 ~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l 321 (340)
-+.+-+........|++.++..+|+|+..+-..|++.-+..-..++++.+...+.|. +|-++
T Consensus 239 v~~e~~~~~~~~~~~~~~d~~~~g~lm~~~~~~L~~~~~vs~~~ld~lv~~a~~~Ga-~GaKl 300 (350)
T 2cz9_A 239 IVRENARVLEVRDALKEGNVEEVGKILTTAHWDLAKNYEVSCKELDFFVERALKLGA-YGARL 300 (350)
T ss_dssp HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHTTC-SEEEE
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCC-CEEEE
T ss_conf 999999999999875027899999999999999987208996899999999997799-38998
No 62
>2rrd_A BLM HRDC domain, HRDC domain from bloom syndrome protein; DNA helicase, RECQ family, HRDC DOMA binding protein; NMR {Homo sapiens}
Probab=30.85 E-value=15 Score=15.91 Aligned_cols=45 Identities=13% Similarity=0.187 Sum_probs=31.3
Q ss_pred HHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHH----HHHHHHHHH
Q ss_conf 889898839837188874498888618898864499----999999980
Q gi|254780237|r 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV----EIKGVLGTM 313 (340)
Q Consensus 269 s~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~----EI~~~L~~~ 313 (340)
.+..+.+..+.-+....-.|.++|++|++||.+.++ +|.+.+.++
T Consensus 43 ~~~I~~d~~L~eia~~~P~t~~eL~~I~Gv~~~k~~~yG~~il~~I~~~ 91 (101)
T 2rrd_A 43 YFNIFNTVTLKKLAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQKY 91 (101)
T ss_dssp HHHHCCHHHHHHHHHHCCCCHHHHHTSTTCCHHHHHHTHHHHHHHHHHH
T ss_pred CEEEECHHHHHHHHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 5455779999999986859999982677879999999999999999999
No 63
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=30.05 E-value=18 Score=15.38 Aligned_cols=17 Identities=12% Similarity=0.307 Sum_probs=6.4
Q ss_pred CCHHHHHCCCCCCHHHH
Q ss_conf 49888861889886449
Q gi|254780237|r 287 RTEADMLRMANFGRKSL 303 (340)
Q Consensus 287 ~s~~dLl~ikNfG~KSl 303 (340)
.+.++|+++++.|+++.
T Consensus 115 ~~~~~L~~LpGVG~~TA 131 (369)
T 3fsp_A 115 DDPDEFSRLKGVGPYTV 131 (369)
T ss_dssp CSHHHHHTSTTCCHHHH
T ss_pred CCHHHHHHCCCHHHHHH
T ss_conf 87999852422588999
No 64
>1vs1_A 3-deoxy-7-phosphoheptulonate synthase; (beta/alpha)8 barrel, transferase; HET: PEP; 2.30A {Aeropyrum pernix}
Probab=29.03 E-value=26 Score=14.42 Aligned_cols=11 Identities=18% Similarity=0.338 Sum_probs=4.4
Q ss_pred HHHHHHHHCCC
Q ss_conf 99999840114
Q gi|254780237|r 82 LTDIILNIKGI 92 (340)
Q Consensus 82 V~eIiLNLK~I 92 (340)
..++..-+|++
T Consensus 54 ~~~~a~~~k~~ 64 (276)
T 1vs1_A 54 VREAALAVKEA 64 (276)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
T ss_conf 99999999984
No 65
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=28.02 E-value=13 Score=16.33 Aligned_cols=24 Identities=21% Similarity=0.421 Sum_probs=16.3
Q ss_pred CCHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf 498888618898864499999999
Q gi|254780237|r 287 RTEADMLRMANFGRKSLVEIKGVL 310 (340)
Q Consensus 287 ~s~~dLl~ikNfG~KSl~EI~~~L 310 (340)
.|-+||.+++++|.+.++.|+..|
T Consensus 50 ~s~~dL~~v~gi~~~~~~~i~~~l 73 (75)
T 2duy_A 50 ARVEDLLKVKGIGPATLERLRPYL 73 (75)
T ss_dssp SSGGGGGGSTTCCHHHHHHHGGGE
T ss_pred CCHHHHHHCCCCCHHHHHHHHHHC
T ss_conf 989999757898999999999772
No 66
>1wuu_A Galactokinase; galactosemia, GHMP superfamily, transferase; HET: GLA ANP; 2.50A {Homo sapiens} SCOP: d.14.1.5 d.58.26.7
Probab=27.93 E-value=27 Score=14.29 Aligned_cols=63 Identities=13% Similarity=0.149 Sum_probs=48.8
Q ss_pred HHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 221011058889898839837188874498888618898864499999999980831267687
Q gi|254780237|r 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 (340)
Q Consensus 260 IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l~ 322 (340)
+.+.....++..+|+..+...+|+|+..+-+.|+..-+..--+|+.|.+...+.+=.+|-++-
T Consensus 289 ~~e~~~~~~~~~al~~~d~~~lG~Lm~~~h~~L~~~lgVS~p~Ld~lv~~a~~~~Ga~gaKlt 351 (399)
T 1wuu_A 289 VGEIRRTAQAAAALRRGDYRAFGRLMVESHRSLRDDYEVSCPELDQLVEAALAVPGVYGSRMT 351 (399)
T ss_dssp HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTSCCCCHHHHHHHHHHHTSTTEEEEEEC
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEC
T ss_conf 778888888998775389999999999999999986479979999999999874997398973
No 67
>1ow5_A Serine/threonine-protein kinase STE11; MAP kinase, MAPKKK, SAM domain, pointed domain, SCM domain, STE50 regulator, transferase; NMR {Saccharomyces cerevisiae} SCOP: a.60.1.2 PDB: 1x9x_A
Probab=26.86 E-value=28 Score=14.17 Aligned_cols=53 Identities=11% Similarity=0.154 Sum_probs=36.8
Q ss_pred CCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCC--CCCCHHHHHHHHHHHHHH
Q ss_conf 11221011058889898839837188874498888618--898864499999999980
Q gi|254780237|r 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM--ANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 258 ~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~i--kNfG~KSl~EI~~~L~~~ 313 (340)
.=++++.|+ +-..++.++|+.+...|+..+++||..+ .++|.+ .-|...+..+
T Consensus 20 ~WL~~igL~-~Y~~~F~~~g~i~~~~L~~L~~~dL~~lGI~~~ghR--~rIl~ai~~L 74 (85)
T 1ow5_A 20 LFLEEIGCT-QYLDSFIQCNLVTEEEIKYLDKDILIALGVNKIGDR--LKILRKSKSF 74 (85)
T ss_dssp HHHHHHSCT-HHHHHHHHHTCCCHHHHHHCCHHHHHHHTCCCHHHH--HHHHHHHHHT
T ss_pred HHHHHCCCH-HHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHH--HHHHHHHHHH
T ss_conf 999998449-999999984887399967389999978599988999--9999999999
No 68
>3cqj_A L-ribulose-5-phosphate 3-epimerase ULAE; TIM-barrel, isomerase, phosphate-binding motif, structural genomics; 2.04A {Escherichia coli} PDB: 3cqi_A 3cqh_A 3cqk_A
Probab=26.69 E-value=11 Score=16.92 Aligned_cols=49 Identities=12% Similarity=0.259 Sum_probs=29.1
Q ss_pred CEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 3021243111144223577641168877621899999938961777999999999999888
Q gi|254780237|r 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 (340)
Q Consensus 169 g~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~ 229 (340)
|.|+.+..|.-++..+|.. -+++|+|+.+.-.|.+++..|...|.+.+.
T Consensus 239 G~id~~~~~~~L~~~gy~G------------~~~~E~~~~~~~~~~~~~~~~~~~l~~~l~ 287 (295)
T 3cqj_A 239 GVVDFERCFETLKQSGYCG------------PYLIEMWSETAEDPAAEVAKARDWVKARMA 287 (295)
T ss_dssp SSCCHHHHHHHHHHTTCCS------------CEEECCCGGGSSCHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHCCCE------------EEEEEECCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 4619999999999969971------------799972687677999999999999999999
No 69
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 2.00A {Methanocaldococcus jannaschii} PDB: 3knt_A*
Probab=25.51 E-value=30 Score=14.01 Aligned_cols=41 Identities=12% Similarity=0.130 Sum_probs=28.8
Q ss_pred HHHHHHHHHCCCCCHHHHH-------HCCHHHHHCCCCCCHHHHHHHH
Q ss_conf 5888989883983718887-------4498888618898864499999
Q gi|254780237|r 267 VRSTNCLRGENIVYMGDLI-------QRTEADMLRMANFGRKSLVEIK 307 (340)
Q Consensus 267 vRs~NcLk~a~I~tigdLv-------~~s~~dLl~ikNfG~KSl~EI~ 307 (340)
.||.+....+.+....++. ..++++|+++|+.|+|+.+-+-
T Consensus 95 ~KAk~I~~~a~~~~~~~l~~~~~~~~~~~~~~L~~l~GIG~ktA~~~L 142 (214)
T 3fhf_A 95 KRAEYIVLARRFKNIKDIVESFENEKVAREFLVRNIKGIGYKEASHFL 142 (214)
T ss_dssp HHHHHHHHHGGGCCHHHHHHHSSSHHHHHHHHHHHSTTCCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCHHHHHHHH
T ss_conf 999999999999999888897399898739999748887699999999
No 70
>2kg5_A ARF-GAP, RHO-GAP domain, ANK repeat and PH domain-containing protein 3; SAM domain, helix bundle, cell membrane, cell projection, cytoplasm; NMR {Homo sapiens}
Probab=24.10 E-value=31 Score=13.84 Aligned_cols=49 Identities=12% Similarity=0.178 Sum_probs=33.6
Q ss_pred HHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 22101105888989883983718887449888861889886449999999998
Q gi|254780237|r 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 260 IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
++.++|+--+ ..+.+.+|.++.+|...+++||.+ +|-++.-..+..|..
T Consensus 33 L~~igL~~Y~-~~F~~~gi~~~~~l~~lt~~DL~~---lGI~~~ghrkkil~a 81 (100)
T 2kg5_A 33 LATVHLEQYA-DTFRRHGLATAGAARGLGHEELKQ---LGISATGHRKRILRL 81 (100)
T ss_dssp HGGGTCGGGH-HHHHHTTCCBHHHHTTCCHHHHHH---HTCCCHHHHHHHHHH
T ss_pred HHHCCCHHHH-HHHHHCCCCCHHHHHHCCHHHHHH---CCCCCHHHHHHHHHH
T ss_conf 9988429999-999996998399997777978998---599988999999999
No 71
>1npy_A Hypothetical shikimate 5-dehydrogenase-like protein HI0607; structural genomics, PSI, protein structure initiative; 1.75A {Haemophilus influenzae} SCOP: c.2.1.7 c.58.1.5
Probab=23.59 E-value=6.4 Score=18.30 Aligned_cols=15 Identities=33% Similarity=0.363 Sum_probs=9.2
Q ss_pred CCHHHHHHHHHHHHH
Q ss_conf 756678889999987
Q gi|254780237|r 37 RGFAHTLGNALRRVL 51 (340)
Q Consensus 37 ~G~g~TlGNaLRRvL 51 (340)
..++-|+=|+.=+-|
T Consensus 17 ~s~sp~iHn~~f~~l 31 (271)
T 1npy_A 17 SNFGTTFHNYLYDKL 31 (271)
T ss_dssp CSHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHC
T ss_conf 656999999999987
No 72
>1dxs_A P53-like transcription factor; P73 SAM-like domain, gene regulation, P53 P63 homologue, sterIle alpha motif, tumour supressor; 2.54A {Homo sapiens} SCOP: a.60.1.2 PDB: 1cok_A
Probab=22.62 E-value=33 Score=13.66 Aligned_cols=50 Identities=12% Similarity=0.043 Sum_probs=34.1
Q ss_pred HHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHC--CCCCCHHHHHHHHHHHHHH
Q ss_conf 22101105888989883983718887449888861--8898864499999999980
Q gi|254780237|r 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR--MANFGRKSLVEIKGVLGTM 313 (340)
Q Consensus 260 IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~--ikNfG~KSl~EI~~~L~~~ 313 (340)
++.|.|+ .=..++..+|+.++.+|...+++||.. |+ .|- -.-|-..+..+
T Consensus 13 L~~igL~-qY~~~F~~~g~~~~~~l~~lt~~dL~~lgI~-~gH--r~kIl~~i~~l 64 (80)
T 1dxs_A 13 LTGLGCP-NCIEYFTSQGLQSIYHLQNLTIEDLGALKIP-EQY--RMTIWRGLQDL 64 (80)
T ss_dssp HHHTTCT-TSHHHHHTTTCCCHHHHHTCCHHHHHHTTCC-TTT--HHHHHHHHHHC
T ss_pred HHHCCHH-HHHHHHHHCCCCCHHHHHCCCHHHHHHCCCC-HHH--HHHHHHHHHHH
T ss_conf 9888739-9999999848865688870599999771999-999--99999999999
No 73
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans}
Probab=22.59 E-value=34 Score=13.66 Aligned_cols=48 Identities=10% Similarity=0.151 Sum_probs=34.8
Q ss_pred CHHHCCCCHHHHHHHHH------CCCCCHHHHHHCCHHH----HHCCCCCCHHHHHHH
Q ss_conf 12210110588898988------3983718887449888----861889886449999
Q gi|254780237|r 259 KVEELELSVRSTNCLRG------ENIVYMGDLIQRTEAD----MLRMANFGRKSLVEI 306 (340)
Q Consensus 259 ~IeeLeLSvRs~NcLk~------a~I~tigdLv~~s~~d----Ll~ikNfG~KSl~EI 306 (340)
.+-++.||-|...+++. .|...+..+...+.++ |+++|++|.++.+-+
T Consensus 97 ~Lr~~Gls~~K~~~i~~la~~~~~g~~~~~~l~~~~~~e~~~~L~~ikGIGpWTA~~i 154 (233)
T 2h56_A 97 ALRQAGVSKRKIEYIRHVCEHVESGRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMF 154 (233)
T ss_dssp HHHHTTCCHHHHHHHHHHHHHHHTTSSCHHHHTTSCHHHHHHHHHTSTTCCHHHHHHH
T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 9977799787899999999999817752001012688899999880688487899999
No 74
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=21.60 E-value=35 Score=13.53 Aligned_cols=53 Identities=13% Similarity=0.219 Sum_probs=32.6
Q ss_pred HHCCHHHCCCC-HHHHHHHHHCCCC--CHHHHHHCCHHHHHCCCCCCHHHHHHHHH
Q ss_conf 31112210110-5888989883983--71888744988886188988644999999
Q gi|254780237|r 256 LLKKVEELELS-VRSTNCLRGENIV--YMGDLIQRTEADMLRMANFGRKSLVEIKG 308 (340)
Q Consensus 256 L~~~IeeLeLS-vRs~NcLk~a~I~--tigdLv~~s~~dLl~ikNfG~KSl~EI~~ 308 (340)
+..-|.-+++. .|+.+-...+.+- .-+.-+..+.++|+++|+.|+|+..-|--
T Consensus 72 l~~~i~~~G~y~~Ka~~l~~~a~~i~~~~~g~~p~~~~~L~~LpGVG~kTA~~il~ 127 (211)
T 2abk_A 72 VKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLN 127 (211)
T ss_dssp HHHHHTTSTTHHHHHHHHHHHHHHHHHHTTTSCCSCHHHHHHSTTCCHHHHHHHHH
T ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCHHHHHHHHH
T ss_conf 99999862179999999999999999984899983299987178873699999999
No 75
>1ucv_A Ephrin type-A receptor 8; receptor oligomerization, developmental regulation, tyrosine kinase, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: a.60.1.2
Probab=21.38 E-value=35 Score=13.50 Aligned_cols=35 Identities=9% Similarity=0.286 Sum_probs=27.9
Q ss_pred HHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCC
Q ss_conf 221011058889898839837188874498888618
Q gi|254780237|r 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 (340)
Q Consensus 260 IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~i 295 (340)
++.|.|+ +-..++.+.+|.+...|...+++||..+
T Consensus 14 L~~igL~-qY~~~F~~~g~~~~~~l~~lt~~dL~~l 48 (81)
T 1ucv_A 14 LDSIRMG-RYRDHFAAGGYSSLGMVLRMNAQDVRAL 48 (81)
T ss_dssp HHHTTCG-GGHHHHHHTTCCBHHHHTTCCHHHHHHH
T ss_pred HHHCCCH-HHHHHHHHCCCCCHHHHHHCCHHHHHHC
T ss_conf 9888689-9999999969998999976789999886
No 76
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=21.37 E-value=35 Score=13.50 Aligned_cols=47 Identities=6% Similarity=0.191 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 1105888989883983718887449888861889886449999999998
Q gi|254780237|r 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 (340)
Q Consensus 264 eLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~ 312 (340)
+.+...+-.|-+ .+.++.+|...|.+||..+.+ |.+....|.+.|..
T Consensus 25 GIg~k~~~~Ll~-~f~sl~~i~~AS~eeL~~v~G-~~~~Ak~i~~~lh~ 71 (84)
T 1z00_B 25 GVNAKNCRSLMH-HVKNIAELAALSQDELTSILG-NAANAKQLYDFIHT 71 (84)
T ss_dssp SCCHHHHHHHHH-HSSCHHHHHHSCHHHHHHHHS-CHHHHHHHHHHHTS
T ss_pred CCCHHHHHHHHH-HCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCC
T ss_conf 999999999999-966999998599999988759-79999999999855
No 77
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=21.25 E-value=33 Score=13.73 Aligned_cols=52 Identities=13% Similarity=0.245 Sum_probs=34.9
Q ss_pred HHCCHHHCCCC-HHHHHHHHHCCC--CCHHHHHHCCHHHHHCCCCCCHHHHHHHH
Q ss_conf 31112210110-588898988398--37188874498888618898864499999
Q gi|254780237|r 256 LLKKVEELELS-VRSTNCLRGENI--VYMGDLIQRTEADMLRMANFGRKSLVEIK 307 (340)
Q Consensus 256 L~~~IeeLeLS-vRs~NcLk~a~I--~tigdLv~~s~~dLl~ikNfG~KSl~EI~ 307 (340)
+...|..+.+. .|+.|-.+.+.+ ..-+.-+..+.++|+++|+.|.|+..-|-
T Consensus 76 l~~~i~~~g~y~~ka~~i~~~a~~i~~~~~g~vP~~~~~L~~LpGVG~kTA~~il 130 (226)
T 1orn_A 76 LEQDIRSIGLYRNKARNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVV 130 (226)
T ss_dssp HHHHTGGGSSHHHHHHHHHHHHHHHHHHSTTSCCSCHHHHTTSTTCCHHHHHHHH
T ss_pred HHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCHHHHHHHH
T ss_conf 9898874221999999999999999999299798789999748775367999999
No 78
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite, transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Probab=21.00 E-value=36 Score=13.45 Aligned_cols=114 Identities=16% Similarity=0.216 Sum_probs=66.7
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCHHHHHHHCCHHHCCCCHHHHHHHHHCCCC
Q ss_conf 89999993896177799999999999988876224444322100000000011233311122101105888989883983
Q gi|254780237|r 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 (340)
Q Consensus 200 kL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~~~~~~~~~~~~~~~~~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~ 279 (340)
.-++=+||+.+.+-.+.+..-..........+.. +...+. +++.++..+|+...+.
T Consensus 188 ~~l~l~~tg~~~~T~~~~~~~~~~~~~~~~~~~~----------------------~~~~i~--~i~~~~~~al~~~~~~ 243 (332)
T 2hfs_A 188 LYLVVVGTGINASTAKVVNDVHKMKQQQPVQFKR----------------------LYDNYT--HIVSQAREALQKGDLQ 243 (332)
T ss_dssp EEEEEEECSCCCCHHHHHHHHHHHHHHCHHHHHH----------------------HHHHHH--HHHHHHHHHHHHTCHH
T ss_pred EEEEEEECCCCCCHHHHHHHHHHHHHHCHHHHHH----------------------HHHHHH--HHHHHHHHHHHHHHHH
T ss_conf 4799981897622499997644555534277776----------------------666789--9999999877500045
Q ss_pred CHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCC--C---------CHHHHHHHHHHHHCC
Q ss_conf 71888744988886188988644999999999808312676878--9---------867799999877503
Q gi|254780237|r 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD--W---------PPESIEELAKKYEDK 339 (340)
Q Consensus 280 tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l~~--~---------~~~~~~~~~~~~~~~ 339 (340)
.+++|+..+.+-|.++ +..-..++++.+...+.|- +|.++.+ | .++..+.+.+.++++
T Consensus 244 ~lg~lm~~~~~~l~~l-~vs~p~l~~l~~~a~~~Ga-lgaklsGaG~Gg~~ial~~~~~~~~~i~~~l~~~ 312 (332)
T 2hfs_A 244 RLGQLMNANHDLCRQI-DVSCRELESIVQTCRTYGA-LGAKLSGTGRGGIAVALAASSDQRDAIVKGLKAK 312 (332)
T ss_dssp HHHHHHHHHHHHHHHT-TCCCHHHHHHHHHHHHTTC-SEEEEESSCSSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHCCC-CEEEECCCCCCCEEEEEECCHHHHHHHHHHHHHH
T ss_conf 6789999999999853-8998899999999997899-4899927898664999987878899999999998
No 79
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1}
Probab=20.99 E-value=21 Score=14.92 Aligned_cols=37 Identities=14% Similarity=0.214 Sum_probs=26.6
Q ss_pred HHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHH
Q ss_conf 8898988398371888744988886188988644999
Q gi|254780237|r 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 (340)
Q Consensus 269 s~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~E 305 (340)
.|..+.+.-+.-+....-.|.++|+.|+++|.+-++.
T Consensus 26 ~~~I~~d~~L~~ia~~~P~t~~eL~~I~Gig~~k~~~ 62 (77)
T 2rhf_A 26 AFVVFTNATLEALAARQPRTLAELAEVPGLGEKRIEA 62 (77)
T ss_dssp HHHHCCHHHHHHHHHHCCCSHHHHTTSTTTCHHHHHH
T ss_pred CEEEECHHHHHHHHHHCCCCHHHHHCCCCCCHHHHHH
T ss_conf 6565789999999983978999980799979999999
No 80
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA; 2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Probab=20.36 E-value=37 Score=13.36 Aligned_cols=61 Identities=13% Similarity=0.134 Sum_probs=46.5
Q ss_pred HHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 2101105888989883983718887449888861889886449999999998083126768
Q gi|254780237|r 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 (340)
Q Consensus 261 eeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~~l 321 (340)
.+-....+...+|++.++..+|+|+..+...|...-+..-..|+++.+.....+=.+|-++
T Consensus 305 ~e~~rv~~~~~al~~~d~~~lG~Lm~esh~sL~~~~~vS~peLd~lv~~a~~~~Ga~GaKl 365 (419)
T 1pie_A 305 YENNRTKIAQKAFVAGNLTKFGELLNASHASLKDDYEVTGLELDTLAETAQKQAGVLGARM 365 (419)
T ss_dssp HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTSCCCCHHHHHHHHHHHHSTTEEEEEE
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEEEE
T ss_conf 6889999999875327788899999999999999757997999999999998489579897
No 81
>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=20.28 E-value=37 Score=13.35 Aligned_cols=54 Identities=19% Similarity=0.166 Sum_probs=39.0
Q ss_pred HHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCC----CCCCCCCHHHHHHHHHHH
Q ss_conf 887449888861889886449999999998083126----768789867799999877
Q gi|254780237|r 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG----MNLPDWPPESIEELAKKY 336 (340)
Q Consensus 283 dLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg----~~l~~~~~~~~~~~~~~~ 336 (340)
+|=.-+.++|+.++++|.+-...|.+.-...|-.-. ++++++.+..++.+.+.+
T Consensus 33 ~iNtAs~~eL~~lpgIg~~~A~~Iv~~R~~~G~f~sledL~~v~Gi~~k~~eki~k~~ 90 (98)
T 2edu_A 33 LLNEGSARDLRSLQRIGPKKAQLIVGWRELHGPFSQVEDLERVEGITGKQMESFLKAN 90 (98)
T ss_dssp HHHHSCHHHHHHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHCC
T ss_conf 0437899999647998999999999999985992889998448998999999999838
No 82
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=20.23 E-value=37 Score=13.35 Aligned_cols=11 Identities=9% Similarity=0.156 Sum_probs=4.0
Q ss_pred CHHHHHHHHHH
Q ss_conf 56678889999
Q gi|254780237|r 38 GFAHTLGNALR 48 (340)
Q Consensus 38 G~g~TlGNaLR 48 (340)
|.|-.+..-+.
T Consensus 68 gIG~~i~~kI~ 78 (360)
T 2ihm_A 68 YFGEHSTRVIQ 78 (360)
T ss_dssp TCCHHHHHHHH
T ss_pred CCCHHHHHHHH
T ss_conf 98789999999
Done!