Query 045823
Match_columns 233
No_of_seqs 113 out of 195
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 09:53:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045823.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/045823hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2a1i_A DNA excision repair pro 100.0 3.8E-40 1.3E-44 273.7 6.9 91 1-94 27-145 (146)
2 2bgw_A XPF endonuclease; hydro 99.8 6.2E-20 2.1E-24 155.6 7.7 144 1-147 18-218 (219)
3 1z00_A DNA excision repair pro 98.6 1.1E-08 3.7E-13 75.9 2.3 63 88-150 2-78 (89)
4 2a1j_B DNA excision repair pro 98.6 8.1E-09 2.8E-13 77.2 1.5 66 83-148 10-89 (91)
5 1x2i_A HEF helicase/nuclease; 98.2 2E-06 7E-11 60.5 4.8 59 93-151 2-74 (75)
6 1kft_A UVRC, excinuclease ABC 96.6 0.00073 2.5E-08 48.6 1.8 39 101-139 20-68 (78)
7 2a1j_A DNA repair endonuclease 95.8 0.0028 9.5E-08 44.8 1.4 45 104-150 3-62 (63)
8 2duy_A Competence protein come 92.6 0.099 3.4E-06 37.0 3.4 36 104-139 26-65 (75)
9 1ixr_A Holliday junction DNA h 91.1 0.16 5.4E-06 43.0 3.7 37 103-139 70-119 (191)
10 1cuk_A RUVA protein; DNA repai 90.3 0.18 6.2E-06 43.0 3.3 37 103-139 71-120 (203)
11 2ztd_A Holliday junction ATP-d 89.6 0.23 7.8E-06 42.9 3.5 39 101-139 84-135 (212)
12 2edu_A Kinesin-like protein KI 88.4 0.39 1.3E-05 35.8 3.6 36 104-139 39-82 (98)
13 2owo_A DNA ligase; protein-DNA 87.5 0.35 1.2E-05 48.2 3.6 46 100-146 508-567 (671)
14 1z00_B DNA repair endonuclease 87.2 0.15 5.2E-06 38.0 0.7 48 98-147 11-73 (84)
15 3c65_A Uvrabc system protein C 86.1 0.14 4.9E-06 44.7 0.0 36 103-139 171-216 (226)
16 3c1y_A DNA integrity scanning 85.7 0.43 1.5E-05 44.7 3.0 36 104-139 314-359 (377)
17 3arc_U Photosystem II 12 kDa e 84.5 0.69 2.4E-05 35.4 3.2 35 104-139 25-64 (97)
18 1dgs_A DNA ligase; AMP complex 81.9 0.17 5.7E-06 50.4 -1.6 61 77-139 477-551 (667)
19 1s5l_U Photosystem II 12 kDa e 74.5 1.9 6.5E-05 35.2 2.9 36 104-139 62-101 (134)
20 3sgi_A DNA ligase; HET: DNA AM 74.1 0.65 2.2E-05 45.9 0.0 47 100-147 525-585 (615)
21 4glx_A DNA ligase; inhibitor, 70.7 2.3 7.8E-05 41.7 2.9 39 100-139 508-556 (586)
22 2ziu_A MUS81 protein; helix-ha 67.6 9.9 0.00034 33.2 6.1 32 51-83 146-177 (311)
23 1vq8_Y 50S ribosomal protein L 67.3 1.1 3.9E-05 39.1 0.0 35 105-139 15-60 (241)
24 4gfj_A Topoisomerase V; helix- 63.9 3.4 0.00011 40.4 2.5 35 104-139 467-511 (685)
25 2nrt_A Uvrabc system protein C 63.5 3.1 0.00011 36.1 2.1 35 103-139 166-211 (220)
26 1b22_A DNA repair protein RAD5 58.3 7.6 0.00026 30.3 3.3 35 104-139 25-70 (114)
27 1s5l_U Photosystem II 12 kDa e 53.2 5.1 0.00017 32.7 1.5 22 127-148 63-86 (134)
28 4e9f_A Methyl-CPG-binding doma 51.8 27 0.00091 28.4 5.7 66 68-139 44-116 (161)
29 2w9m_A Polymerase X; SAXS, DNA 37.1 13 0.00043 35.7 1.7 19 127-145 97-116 (578)
30 2o97_B NS1, HU-1, DNA-binding 37.0 24 0.00081 25.5 2.8 39 101-139 4-51 (90)
31 2fmp_A DNA polymerase beta; nu 36.1 14 0.0005 33.1 1.9 41 107-147 59-119 (335)
32 2np2_A HBB; protein-DNA comple 34.5 30 0.001 26.0 3.1 39 101-139 12-64 (108)
33 2bcq_A DNA polymerase lambda; 33.8 22 0.00074 32.0 2.6 40 107-146 59-116 (335)
34 1mul_A NS2, HU-2, DNA binding 32.2 26 0.00088 25.2 2.3 39 101-139 4-51 (90)
35 3b0x_A DNA polymerase beta fam 31.5 34 0.0012 32.6 3.7 37 103-139 91-140 (575)
36 1owf_B IHF-beta, integration H 30.8 28 0.00095 25.2 2.4 39 101-139 4-52 (94)
37 1b8z_A Protein (histonelike pr 30.3 23 0.00077 25.5 1.8 38 102-139 5-51 (90)
38 1owf_A IHF-alpha, integration 28.4 27 0.00092 25.7 1.9 39 101-139 6-53 (99)
39 1orn_A Endonuclease III; DNA r 28.1 32 0.0011 29.0 2.6 77 67-149 45-140 (226)
40 1p71_A DNA-binding protein HU; 28.1 26 0.00088 25.5 1.8 38 102-139 5-51 (94)
41 1kea_A Possible G-T mismatches 27.9 36 0.0012 28.5 2.9 75 67-147 47-140 (221)
42 1kg2_A A/G-specific adenine gl 26.8 24 0.00082 29.6 1.5 21 127-147 109-134 (225)
43 1wcn_A Transcription elongatio 26.4 39 0.0013 23.9 2.4 35 104-139 6-52 (70)
44 2i5h_A Hypothetical protein AF 26.2 24 0.0008 30.6 1.4 13 127-139 132-144 (205)
45 3c4i_A DNA-binding protein HU 26.0 29 0.001 25.5 1.8 38 102-139 5-51 (99)
46 2w9m_A Polymerase X; SAXS, DNA 25.4 53 0.0018 31.4 3.8 35 104-139 96-143 (578)
47 2zix_A Crossover junction endo 25.0 35 0.0012 29.8 2.3 33 52-85 144-176 (307)
48 3fsp_A A/G-specific adenine gl 24.8 38 0.0013 30.2 2.6 29 120-148 104-144 (369)
49 1exe_A Transcription factor 1; 24.8 30 0.001 25.6 1.6 37 103-139 6-51 (99)
50 3rhi_A DNA-binding protein HU; 23.7 28 0.00096 25.4 1.2 37 103-139 9-54 (93)
51 2abk_A Endonuclease III; DNA-r 23.0 28 0.00095 28.8 1.2 22 127-148 109-135 (211)
52 1fi6_A EH domain protein REPS1 22.4 1.9E+02 0.0064 19.9 5.4 52 67-126 2-53 (92)
53 3bzc_A TEX; helix-turn-helix, 22.2 64 0.0022 32.7 3.9 35 105-139 508-550 (785)
54 2rhf_A DNA helicase RECQ; HRDC 20.8 28 0.00095 24.4 0.7 13 127-139 47-59 (77)
55 3vdp_A Recombination protein R 20.1 26 0.00088 30.5 0.4 13 127-139 26-38 (212)
No 1
>2a1i_A DNA excision repair protein ERCC-1; XPF, central domain, DNA repair, endonuclease, DNA binding protein; HET: DNA; 1.90A {Homo sapiens} SCOP: c.52.1.20 PDB: 2jnw_A* 2jpd_A*
Probab=100.00 E-value=3.8e-40 Score=273.73 Aligned_cols=91 Identities=47% Similarity=0.784 Sum_probs=86.4
Q ss_pred CCCccccccccCceeecccccceeecCceeEEEEeehhHHH---------hhhhHHH-----------------HHHHHH
Q 045823 1 KGNPLLKHITYVRWAFADVVCDYLLGQNSCALYLRLCIYFL---------NLLFDNV-----------------LLWVFS 54 (233)
Q Consensus 1 kGNPLLk~IrnVpwEy~dIvpDYviG~t~cvLFLSLKYH~L---------q~L~k~y-----------------L~ELt~ 54 (233)
||||||++||||||||+||+|||++|+++||||||||||+| +.|+++| |+|||+
T Consensus 27 kGNPlL~~irnv~we~~dI~~Dyvvg~~tcvLFLSLkYH~L~PeYI~~Ri~~L~~~y~lrVLL~~VDv~d~~~~L~eL~~ 106 (146)
T 2a1i_A 27 RGNPVLKFVRNVPWEFGDVIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAK 106 (146)
T ss_dssp TTCGGGGGCCSSCEEECCCSSSEEEETTEEEEEEEHHHHHHSTTHHHHHHHHHTTSSSEEEEEEECCSSSCHHHHHHHHH
T ss_pred cCChHHHHHhcCCeEecCcCCCEEecCeeEEEEEecHHhccCHHHHHHHHHHhccccceEEEEEEEeCCChHHHHHHHHH
Confidence 79999999999999999999999999999999999999999 4555666 999999
Q ss_pred HHhhccc--ccccCCCCHHHHHHHHHHHHhhcCCCcccccCC
Q 045823 55 TFGTSSC--LESWSNFSQEECGRYLETIKVYENKPADLTQGQ 94 (233)
Q Consensus 55 ~c~~~~~--IlAW~~~S~EEAArYLEt~K~yEnk~~d~Ik~k 94 (233)
+|+.+|| |||| |+||||||||+||+||++|+|.|+++
T Consensus 107 ~c~~~~~TLiLaw---S~eEaa~Yle~~k~~e~k~~d~i~~~ 145 (146)
T 2a1i_A 107 MCILADCTLILAW---SPEEAGRYLETYKAYEQKPADLLMEK 145 (146)
T ss_dssp HHHHHTCEEEEES---SHHHHHHHHHHHHTCCSSCCCHHHHH
T ss_pred HHHHcCCEEEEEC---CHHHHHHHHHHHHHhccCChhHhhcC
Confidence 9999999 9999 99999999999999999999999875
No 2
>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=99.80 E-value=6.2e-20 Score=155.65 Aligned_cols=144 Identities=14% Similarity=0.171 Sum_probs=120.4
Q ss_pred CCCcccccccc--Cceeeccc-ccceeecCceeE------EEE-eehhHHH----hhhhHHH------------------
Q 045823 1 KGNPLLKHITY--VRWAFADV-VCDYLLGQNSCA------LYL-RLCIYFL----NLLFDNV------------------ 48 (233)
Q Consensus 1 kGNPLLk~Irn--VpwEy~dI-vpDYviG~t~cv------LFL-SLKYH~L----q~L~k~y------------------ 48 (233)
+|||++++|++ |+|++..+ ++||++|...|| .|+ ||++++| ++|.+.|
T Consensus 18 ~~s~~~~~l~~~gv~~~~~~L~vgDy~~~~~~~VERKs~~Dl~~Si~~~Rl~~Q~~~l~~~~~~~~lliE~d~~~~~~~~ 97 (219)
T 2bgw_A 18 ERSPVPSILESLGVQVIPKQLPMGDYLVSDSIIVERKTSSDFAKSLFDGRLFEQASRLAEHYETVFIIVEGPPVPRRYRG 97 (219)
T ss_dssp TTSSHHHHHHHTTCEEEEECCSSSSEEEETTEEEEEEEHHHHHHHHHHSHHHHHHHHHHHHCSEEEEEEESCSSCGGGTT
T ss_pred cccHhHHHHHhCCCEEEEEEcCcCCEEeeCCeEEEeCCHHHHHHHhhcCcHHHHHHHHHHhcCCcEEEEEecCccccccC
Confidence 48999998887 99999886 899999996554 678 9999999 3454322
Q ss_pred -----HHHHHHHHhhccc--ccccCCCCHHHHHHHHHHHHhhcCCCcc----cccCCCCCchHHHHHHHhhcCCCccHhh
Q 045823 49 -----LLWVFSTFGTSSC--LESWSNFSQEECGRYLETIKVYENKPAD----LTQGQMDTDYLSRLTHALTSVRSVNKTD 117 (233)
Q Consensus 49 -----L~ELt~~c~~~~~--IlAW~~~S~EEAArYLEt~K~yEnk~~d----~Ik~k~~~dy~s~v~~~LTsIrsVNKTD 117 (233)
+..|+.+|+..++ +.+| |++|+|+||+.++.+++++.+ ..+++...++.+.+...|++|+||+...
T Consensus 98 ~~~~i~~~l~~~~~~~~~~vi~t~---s~~eta~~l~~l~~~~~~~~~~ai~~~~~~~~~~~~~~~~~~L~~i~gVg~~~ 174 (219)
T 2bgw_A 98 RERSLYAAMAALQLDYGIRLMNTM---DPKGTALVIESLARLSTREGGQRIVIHKKPRLSDVREWQLYILQSFPGIGRRT 174 (219)
T ss_dssp THHHHHHHHHHHHHHSCCEEEEES---SHHHHHHHHHHHHHHHSCBCCTTCCCCCCCCCCHHHHHHHHHHHTSTTCCHHH
T ss_pred CHHHHHHHHHHHHHHCCceEEEcC---CHHHHHHHHHHHHHhcccccccccccccccccccHHHHHHHHHhcCCCCCHHH
Confidence 6789999998888 9999 999999999999999966533 2344556667778888999999999999
Q ss_pred HHHHHHhhh----------hhccCCCCCcchh----hhhcCCCC
Q 045823 118 VVNLGSTFG----------EDLSHCPGIGERK----HVVSSHPP 147 (233)
Q Consensus 118 a~tLls~FG----------EeLs~cPGiG~kK----~~v~~~PF 147 (233)
|..|+..|| ++|..+||||+++ ...|+.||
T Consensus 175 a~~Ll~~fgs~~~l~~a~~e~L~~v~GiG~~~a~~i~~~~~~~~ 218 (219)
T 2bgw_A 175 AERILERFGSLERFFTASKAEISKVEGIGEKRAEEIKKILMTPY 218 (219)
T ss_dssp HHHHHHHHSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHHHSCC
T ss_pred HHHHHHHcCCHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHhccc
Confidence 999999999 8899999999999 56777776
No 3
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=98.62 E-value=1.1e-08 Score=75.95 Aligned_cols=63 Identities=48% Similarity=0.747 Sum_probs=58.3
Q ss_pred cccccCCCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh----hhhcCCCCCCC
Q 045823 88 ADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK----HVVSSHPPIPE 150 (233)
Q Consensus 88 ~d~Ik~k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK----~~v~~~PFi~~ 150 (233)
+|.|+++...+|.+++...|+.|+||....|..|+..|| ++|..+||||+++ ...|+.||...
T Consensus 2 ~~~i~~~~~~~~~~~~~~~L~~IpgIG~~~A~~Ll~~fgsl~~l~~a~~~eL~~i~GIG~~~a~~I~~~l~~~~~~~ 78 (89)
T 1z00_A 2 ADLLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEPFLKV 78 (89)
T ss_dssp CTTCHHHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHSCSSSC
T ss_pred chHhhhcccccHHHHHHHHHHcCCCCCHHHHHHHHHHCCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhccc
Confidence 688999999999999999999999999999999999999 8899999999999 67788888854
No 4
>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=98.61 E-value=8.1e-09 Score=77.17 Aligned_cols=66 Identities=47% Similarity=0.760 Sum_probs=59.1
Q ss_pred hcCCCcccccCCCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh----hhhcCCCCC
Q 045823 83 YENKPADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK----HVVSSHPPI 148 (233)
Q Consensus 83 yEnk~~d~Ik~k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK----~~v~~~PFi 148 (233)
..++|+|.|+++...++.+++..+|+.|+||....|..|+..|| ++|..+||||+++ ...|+.||.
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~L~~IpgIG~~~A~~Ll~~fgs~~~l~~as~~eL~~i~GIG~~~a~~I~~~l~~~~~ 89 (91)
T 2a1j_B 10 HSQDPADLLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEPFL 89 (91)
T ss_dssp ---CCSHHHHHHHHHHHHHHHHHHHTTSTTCCHHHHHHHHHHHSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHHSCSC
T ss_pred cccCCHHHHhhhccCCHHHHHHHHHHcCCCCCHHHHHHHHHHCCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHhhhhc
Confidence 35689999999999999999999999999999999999999999 8899999999999 567788876
No 5
>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=98.16 E-value=2e-06 Score=60.48 Aligned_cols=59 Identities=24% Similarity=0.294 Sum_probs=47.8
Q ss_pred CCCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh----hhhcCCCCCCCC
Q 045823 93 GQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK----HVVSSHPPIPET 151 (233)
Q Consensus 93 ~k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK----~~v~~~PFi~~~ 151 (233)
++...+....+...|+.|+||....|..|+..|| ++|..+||||+++ ...++.||...+
T Consensus 2 ~~~~~~~~~~~~~~L~~i~giG~~~a~~Ll~~fgs~~~l~~a~~~~L~~i~Gig~~~a~~i~~~~~~~~~~~~ 74 (75)
T 1x2i_A 2 EKKALTLAERQRLIVEGLPHVSATLARRLLKHFGSVERVFTASVAELMKVEGIGEKIAKEIRRVITAPYIEDE 74 (75)
T ss_dssp ---CCCHHHHHHHHHTTSTTCCHHHHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHHSCCCC--
T ss_pred CCCcccHHHHHHHHHcCCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHhcCCCCCHHHHHHHHHHHhCcccccc
Confidence 3445566778888999999999999999999999 8899999999999 677888876543
No 6
>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=96.59 E-value=0.00073 Score=48.64 Aligned_cols=39 Identities=23% Similarity=0.336 Sum_probs=34.1
Q ss_pred HHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 101 SRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
..+...|+.|++|....|..|+..|| ++|..+||||+++
T Consensus 20 ~~~~~~L~~I~gIG~~~A~~Ll~~fgsl~~l~~a~~eeL~~i~GIG~~~ 68 (78)
T 1kft_A 20 HMNTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGL 68 (78)
T ss_dssp ---CCGGGGCTTCSSSHHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHH
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHcCCHHHHHHCCHHHHHHCCCCCHHH
Confidence 34567799999999999999999999 8899999999998
No 7
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=95.82 E-value=0.0028 Score=44.75 Aligned_cols=45 Identities=13% Similarity=0.106 Sum_probs=37.7
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh-----hhhcCCCCCCC
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK-----HVVSSHPPIPE 150 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK-----~~v~~~PFi~~ 150 (233)
++.|..|+||+......||..|| |+|..+ ||+.+ ...|+.||...
T Consensus 3 ~s~L~~IpGIG~kr~~~LL~~Fgs~~~i~~As~eeL~~v--ig~~~~A~~I~~~l~~~~~~~ 62 (63)
T 2a1j_A 3 QDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSI--LGNAANAKQLYDFIHTSFAEV 62 (63)
T ss_dssp CHHHHTSTTCCHHHHHHHHHHCSSHHHHHTCCHHHHHHH--HSCHHHHHHHHHHHHCCCCCC
T ss_pred HhHHHcCCCCCHHHHHHHHHHcCCHHHHHHCCHHHHHHH--cCchHHHHHHHHHHhcccccc
Confidence 46789999999999999999999 999999 77655 56777877653
No 8
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=92.55 E-value=0.099 Score=37.03 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=33.0
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh----hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG----EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG----EeLs~cPGiG~kK 139 (233)
.+.|..|+||...-|..|+..|+ ++|..+||||+++
T Consensus 26 ~~~L~~ipGIG~~~A~~Il~~r~~~s~~eL~~v~Gig~k~ 65 (75)
T 2duy_A 26 LEELMALPGIGPVLARRIVEGRPYARVEDLLKVKGIGPAT 65 (75)
T ss_dssp HHHHTTSTTCCHHHHHHHHHTCCCSSGGGGGGSTTCCHHH
T ss_pred HHHHHhCCCCCHHHHHHHHHHcccCCHHHHHhCCCCCHHH
Confidence 45688999999999999999888 9999999999988
No 9
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=91.14 E-value=0.16 Score=43.03 Aligned_cols=37 Identities=30% Similarity=0.328 Sum_probs=34.0
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh-------------hhccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG-------------EDLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG-------------EeLs~cPGiG~kK 139 (233)
+...|.+|+||=..=|..||+.|| ++|..+||||+++
T Consensus 70 ~f~~L~~v~GIGpk~A~~iL~~f~~~~l~~aI~~~d~~~L~~vpGIG~K~ 119 (191)
T 1ixr_A 70 LFELLLSVSGVGPKVALALLSALPPRLLARALLEGDARLLTSASGVGRRL 119 (191)
T ss_dssp HHHHHHSSSCCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHH
T ss_pred HHHHHhcCCCcCHHHHHHHHHhCChHHHHHHHHhCCHHHHHhCCCCCHHH
Confidence 445789999999999999999999 7899999999999
No 10
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=90.25 E-value=0.18 Score=42.95 Aligned_cols=37 Identities=24% Similarity=0.351 Sum_probs=33.8
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh-------------hhccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG-------------EDLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG-------------EeLs~cPGiG~kK 139 (233)
+...|.+|+||-..=|..||+.|| ++|..+||||+++
T Consensus 71 ~f~~L~~V~GIGpk~A~~iL~~f~~~~l~~aI~~~d~~~L~~vpGIG~K~ 120 (203)
T 1cuk_A 71 LFKELIKTNGVGPKLALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKT 120 (203)
T ss_dssp HHHHHHHSSSCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHH
T ss_pred HHHHHhcCCCcCHHHHHHHHhhCChHHHHHHHHhCCHHHHhhCCCCCHHH
Confidence 445788999999999999999999 7899999999998
No 11
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=89.64 E-value=0.23 Score=42.89 Aligned_cols=39 Identities=28% Similarity=0.342 Sum_probs=35.0
Q ss_pred HHHHHHhhcCCCccHhhHHHHHHhhh-------------hhccCCCCCcchh
Q 045823 101 SRLTHALTSVRSVNKTDVVNLGSTFG-------------EDLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsIrsVNKTDa~tLls~FG-------------EeLs~cPGiG~kK 139 (233)
..+...|.+|+||-..=|..+++.|| +.|..+||||+++
T Consensus 84 r~lf~~L~sv~GIGpk~A~~Ils~~~~~~l~~aI~~~d~~~L~~vpGIG~Kt 135 (212)
T 2ztd_A 84 RDLFLTLLSVSGVGPRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRG 135 (212)
T ss_dssp HHHHHHHHTSTTCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHH
T ss_pred HHHHHHhcCcCCcCHHHHHHHHHhCCHHHHHHHHHhCCHHHHhhCCCCCHHH
Confidence 34566788999999999999999999 6689999999999
No 12
>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=88.42 E-value=0.39 Score=35.75 Aligned_cols=36 Identities=22% Similarity=0.320 Sum_probs=32.2
Q ss_pred HHHhhcCCCccHhhHHHHHHhh---h-----hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTF---G-----EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~F---G-----EeLs~cPGiG~kK 139 (233)
...|+.|+||...-|..|+..| | ++|..+||||+++
T Consensus 39 ~~~L~~ipGIG~~~A~~Il~~r~~~g~f~s~edL~~v~Gig~k~ 82 (98)
T 2edu_A 39 ARDLRSLQRIGPKKAQLIVGWRELHGPFSQVEDLERVEGITGKQ 82 (98)
T ss_dssp HHHHHHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHH
T ss_pred HHHHHHCCCCCHHHHHHHHHHHHhcCCcCCHHHHHhCCCCCHHH
Confidence 3458899999999999999988 4 8999999999998
No 13
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=87.46 E-value=0.35 Score=48.16 Aligned_cols=46 Identities=28% Similarity=0.499 Sum_probs=37.8
Q ss_pred HHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh----hhhcCCC
Q 045823 100 LSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK----HVVSSHP 146 (233)
Q Consensus 100 ~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK----~~v~~~P 146 (233)
+.++.-+| .|++|-.+.|..|+..|| ++|..+||||++. ...|+.|
T Consensus 508 l~R~L~al-gi~~VG~~~Ak~La~~Fgsl~~l~~As~eeL~~i~GIG~~~A~sI~~ff~~~ 567 (671)
T 2owo_A 508 FARFLYAL-GIREVGEATAAGLAAYFGTLEALEAASIEELQKVPDVGIVVASHVHNFFAEE 567 (671)
T ss_dssp HHHHHHHT-TCTTCCHHHHHHHHHHHCSHHHHHTCCHHHHTTSTTCCHHHHHHHHHHHTCH
T ss_pred hhheehhh-cccCccHHHHHHHHHHcCCHHHHHhCCHHHHhhcCCCCHHHHHHHHHHHHhH
Confidence 45555555 799999999999999999 8999999999999 4455443
No 14
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=87.25 E-value=0.15 Score=38.03 Aligned_cols=48 Identities=15% Similarity=0.138 Sum_probs=39.8
Q ss_pred chHHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh-----hhhcCCCC
Q 045823 98 DYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK-----HVVSSHPP 147 (233)
Q Consensus 98 dy~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK-----~~v~~~PF 147 (233)
.|.......|..|+||..-....||..|| ++|..+ ||... ...|+.++
T Consensus 11 ~~N~~~~s~L~~IpGIG~kr~~~LL~~FgSl~~i~~AS~eEL~~v--ig~~~~A~~I~~~l~~~~ 73 (84)
T 1z00_B 11 KYNPGPQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSI--LGNAANAKQLYDFIHTSF 73 (84)
T ss_dssp TSCHHHHHHHHTCSSCCHHHHHHHHHHSSCHHHHHHSCHHHHHHH--HSCHHHHHHHHHHHTSBH
T ss_pred cccccHHHHHHhCCCCCHHHHHHHHHHcCCHHHHHHCCHHHHHHH--hCchHHHHHHHHHHHhhh
Confidence 46777899999999999999999999999 889888 77654 45665554
No 15
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=86.13 E-value=0.14 Score=44.70 Aligned_cols=36 Identities=22% Similarity=0.321 Sum_probs=0.0
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
....|+.|+||-..-+..|+..|| |+|..+ |||++.
T Consensus 171 ~~s~L~~IpGIG~k~ak~Ll~~FGSl~~i~~As~eeL~~V-GIG~~~ 216 (226)
T 3c65_A 171 FHSVLDDIPGVGEKRKKALLNYFGSVKKMKEATVEELQRA-NIPRAV 216 (226)
T ss_dssp -----------------------------------------------
T ss_pred ccccccccCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHc-CCCHHH
Confidence 467899999999999999999999 889999 999988
No 16
>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=85.74 E-value=0.43 Score=44.73 Aligned_cols=36 Identities=31% Similarity=0.420 Sum_probs=34.0
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
...|.+|+.|-...|.+|+..|| ++|..+.|||+++
T Consensus 314 yRiLs~IPrl~~~iae~Lv~~FGsLq~Il~AS~eEL~~VeGIGe~r 359 (377)
T 3c1y_A 314 YRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLKKVEGIGEKR 359 (377)
T ss_dssp HHHHHHTSCCCHHHHHHHHHHHCSHHHHTTCCHHHHTTSTTCCHHH
T ss_pred HHHHhhCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHhccCccHHH
Confidence 34899999999999999999999 9999999999999
No 17
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U*
Probab=84.54 E-value=0.69 Score=35.44 Aligned_cols=35 Identities=26% Similarity=0.298 Sum_probs=31.7
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh-----hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG-----EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG-----EeLs~cPGiG~kK 139 (233)
.+.|..++||...=|..++. .| ++|..++|||+++
T Consensus 25 ~~eL~~lpGIG~~~A~~IV~-~GpF~s~edL~~V~Gig~~~ 64 (97)
T 3arc_U 25 IAAFIQYRGLYPTLAKLIVK-NAPYESVEDVLNIPGLTERQ 64 (97)
T ss_dssp GGGGGGSTTCTTHHHHHHHH-HCCCSSGGGGGGCTTCCHHH
T ss_pred HHHHhHCCCCCHHHHHHHHH-cCCCCCHHHHHhccCCCHHH
Confidence 45788999999999999999 45 9999999999998
No 18
>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=81.90 E-value=0.17 Score=50.42 Aligned_cols=61 Identities=28% Similarity=0.318 Sum_probs=43.7
Q ss_pred HHHHHhhcCCCcccccC----CCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 77 LETIKVYENKPADLTQG----QMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 77 LEt~K~yEnk~~d~Ik~----k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
|..++.+..|+++.|.+ ....+ +.++.-+| .|++|-.+.|..|+..|| ++|..+||||++.
T Consensus 477 L~~l~g~G~Ksa~nLl~aIe~sk~~~-l~R~L~al-GI~~VG~~~Ak~La~~Fgsl~~l~~As~eeL~~I~GIG~~~ 551 (667)
T 1dgs_A 477 LLGLERMGEKSAQNLLRQIEESKHRG-LERLLYAL-GLPGVGEVLARNLARRFGTMDRLLEASLEELIEVEEVGELT 551 (667)
T ss_dssp HHTTSSCCSTTHHHHHHHHHHGGGCC-HHHHHHHT-TCSSCCHHHHHHHHHTTSBHHHHTTCCHHHHHTSTTCCHHH
T ss_pred HhcccccchhhHHHHHHHHHHHhcCc-HHHhhHhh-ccCCccHHHHHHHHHHcCCHHHHHhCCHHHHHhccCcCHHH
Confidence 44455566666654322 22222 34445444 899999999999999999 8999999999998
No 19
>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=74.50 E-value=1.9 Score=35.20 Aligned_cols=36 Identities=25% Similarity=0.358 Sum_probs=30.6
Q ss_pred HHHhhcCCCccHhhHHHHHHh--hh--hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGST--FG--EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~--FG--EeLs~cPGiG~kK 139 (233)
.+.|..++||-.+=|..++.+ |. |||..+||||+++
T Consensus 62 ~~eL~~LpGiGp~~A~~II~~GpF~svedL~~V~GIg~k~ 101 (134)
T 1s5l_U 62 IAAFIQYRGLYPTLAKLIVKNAPYESVEDVLNIPGLTERQ 101 (134)
T ss_dssp GGGGGGSTTCTHHHHHHHHHTCCCSSGGGGGGCTTCCHHH
T ss_pred HHHHHHCCCCCHHHHHHHHHcCCCCCHHHHHhCCCCCHHH
Confidence 456888999999999999964 33 9999999999975
No 20
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Probab=74.15 E-value=0.65 Score=45.90 Aligned_cols=47 Identities=30% Similarity=0.352 Sum_probs=0.0
Q ss_pred HHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh----hhhcCCCC
Q 045823 100 LSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK----HVVSSHPP 147 (233)
Q Consensus 100 ~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK----~~v~~~PF 147 (233)
+.+++-+| .|++|=..-+..|+..|| ++|..+||||++. ...|+.|-
T Consensus 525 l~r~L~aL-GIp~VG~~~ak~La~~Fgsle~L~~As~eeL~~I~GIG~~~A~sI~~ff~~~~ 585 (615)
T 3sgi_A 525 LWRVLVAL-SIRHVGPTAARALATEFGSLDAIAAASTDQLAAVEGVGPTIAAAVTEWFAVDW 585 (615)
T ss_dssp --------------------------------------------------------------
T ss_pred HHHHHHHc-CCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHcCHH
Confidence 45565555 599999999999999999 8999999999999 45555553
No 21
>4glx_A DNA ligase; inhibitor, ligase-ligase inhibitor-DNA complex; HET: DNA 0XS; 1.90A {Escherichia coli}
Probab=70.69 E-value=2.3 Score=41.68 Aligned_cols=39 Identities=31% Similarity=0.571 Sum_probs=34.8
Q ss_pred HHHHHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 100 LSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 100 ~s~v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
+.+++-+| .||.|=.+-|..|+..|| ++|..+||||++.
T Consensus 508 l~r~l~aL-GI~~vG~~~a~~La~~f~sl~~l~~a~~e~l~~i~giG~~~ 556 (586)
T 4glx_A 508 FARFLYAL-GIREVGEATAAGLAAYFGTLEALEAASIEELQKVPDVGIVV 556 (586)
T ss_dssp HHHHHHHT-TCTTCCHHHHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHH
T ss_pred HHHHHHHc-CCCchhHHHHHHHHHHcCCHHHHHccCHHHHhcCCCccHHH
Confidence 56677666 489999999999999999 8999999999998
No 22
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=67.60 E-value=9.9 Score=33.20 Aligned_cols=32 Identities=16% Similarity=0.165 Sum_probs=21.0
Q ss_pred HHHHHHhhcccccccCCCCHHHHHHHHHHHHhh
Q 045823 51 WVFSTFGTSSCLESWSNFSQEECGRYLETIKVY 83 (233)
Q Consensus 51 ELt~~c~~~~~IlAW~~~S~EEAArYLEt~K~y 83 (233)
-|..+.+..++-+-| .-|++|.|+||..++..
T Consensus 146 aL~~l~v~~g~~Vi~-t~s~~eTa~~l~~lt~~ 177 (311)
T 2ziu_A 146 AIVNTQVVDGFFVKR-VQDAKESAAYLTIMTRY 177 (311)
T ss_dssp HHHHHHHTTCCEEEE-CSSHHHHHHHHHHHHHH
T ss_pred HHHHHhhhcCeEEEE-eCCHHHHHHHHHHHHHH
Confidence 344444555772234 22899999999999863
No 23
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=67.30 E-value=1.1 Score=39.13 Aligned_cols=35 Identities=26% Similarity=0.434 Sum_probs=0.0
Q ss_pred HHhhcCCCccHhhHHHHHHh-hh----------hhccCCCCCcchh
Q 045823 105 HALTSVRSVNKTDVVNLGST-FG----------EDLSHCPGIGERK 139 (233)
Q Consensus 105 ~~LTsIrsVNKTDa~tLls~-FG----------EeLs~cPGiG~kK 139 (233)
..|..|+||-...+..|+.. |+ ++|..+||||+++
T Consensus 15 ~~L~~IpGIGpk~a~~Ll~~gf~sve~L~~a~~~eL~~v~GIG~kt 60 (241)
T 1vq8_Y 15 TELTDISGVGPSKAESLREAGFESVEDVRGADQSALADVSGIGNAL 60 (241)
T ss_dssp ----------------------------------------------
T ss_pred hHHhcCCCCCHHHHHHHHHcCCCCHHHHHhCCHHHHHhccCCCHHH
Confidence 35888999999999999998 77 7788999999999
No 24
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=63.88 E-value=3.4 Score=40.43 Aligned_cols=35 Identities=23% Similarity=0.491 Sum_probs=32.3
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~kK 139 (233)
.-.|++|.||----|.+||..|| ++|.. .|||++|
T Consensus 467 eamLtAIaGIGp~tAeRLLEkFGSVe~Vm~AteDELRe-dGIGekq 511 (685)
T 4gfj_A 467 YASLISIRGIDRERAERLLKKYGGYSKVREAGVEELRE-DGLTDAQ 511 (685)
T ss_dssp HHHHHTSTTCCHHHHHHHHHHHTSHHHHHHSCHHHHHH-TTCCHHH
T ss_pred eeeeeccCCCCHHHHHHHHHHhcCHHHHHhCCHHHHHH-ccccHHH
Confidence 56799999999999999999999 78855 9999999
No 25
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=63.51 E-value=3.1 Score=36.13 Aligned_cols=35 Identities=26% Similarity=0.418 Sum_probs=31.1
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh----------hhccCCCCCcc-hh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGE-RK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG----------EeLs~cPGiG~-kK 139 (233)
....|..|++|-..-+..|+..|| |+|..+ ||+ +.
T Consensus 166 ~~s~LdgIpGIG~k~ak~Ll~~FgSl~~i~~As~EeL~~V--IG~~~~ 211 (220)
T 2nrt_A 166 LRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIARV--IGSTEI 211 (220)
T ss_dssp HHHHHTTSTTCCHHHHHHHHHHHCSHHHHHTSCHHHHHHH--HTCHHH
T ss_pred ccccccCCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHHHH--hChHHH
Confidence 467789999999999999999999 888888 898 65
No 26
>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=58.25 E-value=7.6 Score=30.29 Aligned_cols=35 Identities=31% Similarity=0.433 Sum_probs=28.4
Q ss_pred HHHhhcCCCccHhhHHHHHH----hhh-------hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGS----TFG-------EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls----~FG-------EeLs~cPGiG~kK 139 (233)
++-|..+ ||+..|+..|.. +.. ++|..++|||+.|
T Consensus 25 I~~L~~~-GIg~~~i~kL~eAG~~Tve~va~a~~~eL~~i~GIse~k 70 (114)
T 1b22_A 25 ISRLEQC-GINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAK 70 (114)
T ss_dssp HHHHHHT-TCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTH
T ss_pred HHHHHhc-CCCHHHHHHHHHcCcCcHHHHHhCCHHHHHHccCCCHHH
Confidence 4555555 999999999985 332 8999999999999
No 27
>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=53.15 E-value=5.1 Score=32.68 Aligned_cols=22 Identities=9% Similarity=0.134 Sum_probs=15.9
Q ss_pred hhccCCCCCcchh-hhhc-CCCCC
Q 045823 127 EDLSHCPGIGERK-HVVS-SHPPI 148 (233)
Q Consensus 127 EeLs~cPGiG~kK-~~v~-~~PFi 148 (233)
++|..+|||||+| .++. +-||.
T Consensus 63 ~eL~~LpGiGp~~A~~II~~GpF~ 86 (134)
T 1s5l_U 63 AAFIQYRGLYPTLAKLIVKNAPYE 86 (134)
T ss_dssp GGGGGSTTCTHHHHHHHHHTCCCS
T ss_pred HHHHHCCCCCHHHHHHHHHcCCCC
Confidence 7889999999999 3333 44553
No 28
>4e9f_A Methyl-CPG-binding domain protein 4; HHH DNA glycosylase family, hydrolase-DNA complex; HET: DNA 3DR; 1.79A {Homo sapiens} PDB: 4e9e_A* 4e9g_A* 4e9h_A* 4ea5_A* 4dk9_A* 1ngn_A 4ea4_A* 4ew4_A* 4evv_A* 4ew0_A* 3iho_A
Probab=51.80 E-value=27 Score=28.43 Aligned_cols=66 Identities=12% Similarity=0.026 Sum_probs=39.1
Q ss_pred CCHHHHHHHHHHHHhhcCCCcccccCCCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh-------hhccCCCCCcchh
Q 045823 68 FSQEECGRYLETIKVYENKPADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG-------EDLSHCPGIGERK 139 (233)
Q Consensus 68 ~S~EEAArYLEt~K~yEnk~~d~Ik~k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG-------EeLs~cPGiG~kK 139 (233)
++.+-+..|.+.|..--- .++.+-.- + .+.|.+.+..+ |.-++=|.+|...++ ++|..+||+|+.=
T Consensus 44 T~~~~v~~~~~~l~~~~p-t~~~la~a---~-~~el~~~i~~l-G~y~~KAk~i~~~a~~~vp~~~~~L~~LpGVG~yT 116 (161)
T 4e9f_A 44 TSGKMAIPVLWKFLEKYP-SAEVARTA---D-WRDVSELLKPL-GLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYG 116 (161)
T ss_dssp SCHHHHHHHHHHHHHHSC-SHHHHTTS---C-HHHHHHHHGGG-SCHHHHHHHHHHHHHHHHHSCCSSGGGSTTCCHHH
T ss_pred CcHHHHHHHHHHHHHHCC-CHHHHhcc---C-hHhHHhHhhhc-CCHHHHHHHHHHHhCCcCCCChhhhhcCCCchHHH
Confidence 345555666665543211 22222221 2 23355555544 555667888888777 9999999999876
No 29
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=37.06 E-value=13 Score=35.71 Aligned_cols=19 Identities=26% Similarity=0.319 Sum_probs=15.6
Q ss_pred hhccCCCCCcchh-hhhcCC
Q 045823 127 EDLSHCPGIGERK-HVVSSH 145 (233)
Q Consensus 127 EeLs~cPGiG~kK-~~v~~~ 145 (233)
.+|..+||+||++ ++.++.
T Consensus 97 ~~L~~v~GVGpk~A~~i~~~ 116 (578)
T 2w9m_A 97 LDLLGVRGLGPKKIRSLWLA 116 (578)
T ss_dssp HHHTTSTTCCHHHHHHHHHT
T ss_pred HHHhCCCCcCHHHHHHHHHc
Confidence 6789999999999 666654
No 30
>2o97_B NS1, HU-1, DNA-binding protein HU-beta; heterodimer, DNA structure, DNA supercoiling, E DNA binding protein; 2.45A {Escherichia coli} SCOP: a.55.1.1
Probab=37.04 E-value=24 Score=25.49 Aligned_cols=39 Identities=15% Similarity=0.090 Sum_probs=29.1
Q ss_pred HHHHHHhhcCCCccHhhHHHHHHhhh----hh-----ccCCCCCcchh
Q 045823 101 SRLTHALTSVRSVNKTDVVNLGSTFG----ED-----LSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsIrsVNKTDa~tLls~FG----Ee-----Ls~cPGiG~kK 139 (233)
+.+++.+..--++++.||..++..|- +. --.++|||-=.
T Consensus 4 ~eli~~ia~~~~ls~~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 51 (90)
T 2o97_B 4 SQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFA 51 (90)
T ss_dssp HHHHHHHHHTTC-CHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHCCCeEEECCCEEEE
Confidence 45667777677899999999999998 22 34788999755
No 31
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=36.15 E-value=14 Score=33.13 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=27.2
Q ss_pred hhcCCCccHhhHHHHHHh--hh-----------------hhccCCCCCcchh-hhhcCCCC
Q 045823 107 LTSVRSVNKTDVVNLGST--FG-----------------EDLSHCPGIGERK-HVVSSHPP 147 (233)
Q Consensus 107 LTsIrsVNKTDa~tLls~--FG-----------------EeLs~cPGiG~kK-~~v~~~PF 147 (233)
|+.++||-+.=|..+..- -| .+|..+||+||++ ++..++-+
T Consensus 59 l~~LpGIG~~~A~kI~E~l~tG~~~~le~l~~~~~~~~l~~l~~V~GiGpk~a~~l~~~Gi 119 (335)
T 2fmp_A 59 AKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGI 119 (335)
T ss_dssp HHTSTTCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHTTSTTCCHHHHHHHHHTTC
T ss_pred HhcCCCCcHHHHHHHHHHHHhCCcHHHHHHHcccchhHHHHHhCCCCCCHHHHHHHHHcCC
Confidence 677888877655443321 12 6799999999999 55555533
No 32
>2np2_A HBB; protein-DNA complex, DNA-binding protein, DNA-bending protein, dnabii family, HU/IHF family, DNA binding protein/DNA complex; 3.02A {Borrelia burgdorferi}
Probab=34.54 E-value=30 Score=25.98 Aligned_cols=39 Identities=10% Similarity=0.117 Sum_probs=30.7
Q ss_pred HHHHHHhh-----cCCCccHhhHHHHHHhhh----h-----hccCCCCCcchh
Q 045823 101 SRLTHALT-----SVRSVNKTDVVNLGSTFG----E-----DLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LT-----sIrsVNKTDa~tLls~FG----E-----eLs~cPGiG~kK 139 (233)
+.+++.|. .-.++++.||..++..|- + +--.++|||-=.
T Consensus 12 ~eLi~~ia~~~~~~~~~lsk~~~~~vl~~~~~~i~~~L~~G~~V~l~gfGtF~ 64 (108)
T 2np2_A 12 SDIVDQIALNIKNNNLKLEKKYIRLVIDAFFEELKSNLCSNNVIEFRSFGTFE 64 (108)
T ss_dssp HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHHHTTCEEEETTTEEEE
T ss_pred HHHHHHHHhhhhhhhcCCCHHHHHHHHHHHHHHHHHHHHCCCeEEecCcEEEE
Confidence 45677777 777999999999999998 2 234789999765
No 33
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=33.75 E-value=22 Score=32.03 Aligned_cols=40 Identities=15% Similarity=0.199 Sum_probs=27.5
Q ss_pred hhcCCCccHhhHHHHHHh--hh-----hhc----------cCCCCCcchh-hhhcCCC
Q 045823 107 LTSVRSVNKTDVVNLGST--FG-----EDL----------SHCPGIGERK-HVVSSHP 146 (233)
Q Consensus 107 LTsIrsVNKTDa~tLls~--FG-----EeL----------s~cPGiG~kK-~~v~~~P 146 (233)
|+.++||-+.=|..+..- -| |+| ..+||+||++ ++..++-
T Consensus 59 l~~lpGIG~~~A~kI~E~l~tG~~~~le~l~~~~p~l~ll~~v~GiG~k~a~~l~~~G 116 (335)
T 2bcq_A 59 ACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTAQMWYQQG 116 (335)
T ss_dssp HHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHHHHHHHHTSTTCCHHHHHHHHHTT
T ss_pred HhcCCCccHHHHHHHHHHHHcCCchHHHHHhhhhHHHHHHhcCCCcCHHHHHHHHHcC
Confidence 889999988765554321 24 665 6999999999 4454443
No 34
>1mul_A NS2, HU-2, DNA binding protein HU-alpha; histone-like; HET: DNA; 2.30A {Escherichia coli} SCOP: a.55.1.1 PDB: 2o97_A
Probab=32.25 E-value=26 Score=25.23 Aligned_cols=39 Identities=21% Similarity=0.202 Sum_probs=29.1
Q ss_pred HHHHHHhhcCCCccHhhHHHHHHhhh----h-----hccCCCCCcchh
Q 045823 101 SRLTHALTSVRSVNKTDVVNLGSTFG----E-----DLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsIrsVNKTDa~tLls~FG----E-----eLs~cPGiG~kK 139 (233)
+.+++.+..--++++.||..++..|- + +--.++|||-=.
T Consensus 4 ~eli~~ia~~~~ls~~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 51 (90)
T 1mul_A 4 TQLIDVIAEKAELSKTQAKAALESTLAAITESLKEGDAVQLVGFGTFK 51 (90)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEcCCeEEE
Confidence 34566666556899999999999998 2 234788999765
No 35
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*
Probab=31.55 E-value=34 Score=32.57 Aligned_cols=37 Identities=22% Similarity=0.282 Sum_probs=28.0
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh-------------hhccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG-------------EDLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG-------------EeLs~cPGiG~kK 139 (233)
....|++|.||=-.=|..|++..| ++|..+||||++.
T Consensus 91 ~~~~l~~v~GvGpk~A~~~~~~lg~~~~~~l~~a~~~~~l~~~~GiG~k~ 140 (575)
T 3b0x_A 91 GVLEVMEVPGVGPKTARLLYEGLGIDSLEKLKAALDRGDLTRLKGFGPKR 140 (575)
T ss_dssp HHHHHHTSTTTCHHHHHHHHHTSCCCSHHHHHHHHHHTGGGGSTTCCHHH
T ss_pred HHHHHhcCCCcCHHHHHHHHHhcCCCCHHHHHHHHHcCCcccCCCCCccH
Confidence 345577888888888888887755 5677888888776
No 36
>1owf_B IHF-beta, integration HOST factor beta-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} SCOP: a.55.1.1 PDB: 1ouz_B 2ht0_B 1ihf_B 1owg_B
Probab=30.80 E-value=28 Score=25.23 Aligned_cols=39 Identities=15% Similarity=0.128 Sum_probs=28.9
Q ss_pred HHHHHHhhcC-CCccHhhHHHHHHhhh---------hhccCCCCCcchh
Q 045823 101 SRLTHALTSV-RSVNKTDVVNLGSTFG---------EDLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsI-rsVNKTDa~tLls~FG---------EeLs~cPGiG~kK 139 (233)
+.+++.+..- .++++.||..++..|- .+--.++|||-=.
T Consensus 4 ~eli~~ia~~~~~ls~~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 52 (94)
T 1owf_B 4 SELIERLATQQSHIPAKTVEDAVKEMLEHMASTLAQGERIAIRGFGSFS 52 (94)
T ss_dssp HHHHHHHHHHCTTSCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEcCcEEEE
Confidence 3456666654 4899999999999998 2234788999765
No 37
>1b8z_A Protein (histonelike protein HU); thermostable DNA binding protein; 1.60A {Thermotoga maritima} SCOP: a.55.1.1 PDB: 1riy_A
Probab=30.33 E-value=23 Score=25.47 Aligned_cols=38 Identities=21% Similarity=0.184 Sum_probs=27.9
Q ss_pred HHHHHhhcCCCccHhhHHHHHHhhh----hh-----ccCCCCCcchh
Q 045823 102 RLTHALTSVRSVNKTDVVNLGSTFG----ED-----LSHCPGIGERK 139 (233)
Q Consensus 102 ~v~~~LTsIrsVNKTDa~tLls~FG----Ee-----Ls~cPGiG~kK 139 (233)
.+++.+..--++++.||..++..|- +. --.++|||-=.
T Consensus 5 eli~~ia~~~~ls~~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 51 (90)
T 1b8z_A 5 ELIDRVAKKAGAKKKDVKLILDTILETITEALAKGEKVQIVGFGSFE 51 (90)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHhCCCEEEECCCEEEE
Confidence 4555555555899999999999998 22 34788999655
No 38
>1owf_A IHF-alpha, integration HOST factor alpha-subunit; protein-DNA recognition, indirect readout, DNA bending, minor groove; 1.95A {Escherichia coli} SCOP: a.55.1.1 PDB: 1ihf_A 1ouz_A 1owg_A 2ht0_A
Probab=28.45 E-value=27 Score=25.69 Aligned_cols=39 Identities=18% Similarity=0.227 Sum_probs=28.9
Q ss_pred HHHHHHhhcCCCccHhhHHHHHHhhh----h-----hccCCCCCcchh
Q 045823 101 SRLTHALTSVRSVNKTDVVNLGSTFG----E-----DLSHCPGIGERK 139 (233)
Q Consensus 101 s~v~~~LTsIrsVNKTDa~tLls~FG----E-----eLs~cPGiG~kK 139 (233)
+.+++.+..--++++.||..++..|- + +--.++|||-=.
T Consensus 6 ~eli~~ia~~~~ls~~~~~~vl~~~~~~i~~~L~~G~~V~l~gfG~F~ 53 (99)
T 1owf_A 6 AEMSEYLFDKLGLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFD 53 (99)
T ss_dssp HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCCeEEecCCEEEE
Confidence 34556665555899999999999998 2 234788999765
No 39
>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=28.13 E-value=32 Score=28.98 Aligned_cols=77 Identities=16% Similarity=0.255 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHHhhcCCCcccccCCCCCchHHHHHHHhhcCCCcc--Hhh-----HHHHHHhhh-------hhccCC
Q 045823 67 NFSQEECGRYLETIKVYENKPADLTQGQMDTDYLSRLTHALTSVRSVN--KTD-----VVNLGSTFG-------EDLSHC 132 (233)
Q Consensus 67 ~~S~EEAArYLEt~K~yEnk~~d~Ik~k~~~dy~s~v~~~LTsIrsVN--KTD-----a~tLls~FG-------EeLs~c 132 (233)
.+|.+-+.++.+.|..-= -.++.|..- + .+.|.+.|..+ |.- |.. |..+...|| ++|..+
T Consensus 45 qts~~~v~~~~~~l~~~f-pt~~~la~a---~-~~~l~~~i~~~-G~~~~KA~~l~~~a~~i~~~~~g~~p~~~~~L~~l 118 (226)
T 1orn_A 45 QCTDALVNKVTKRLFEKY-RTPHDYIAV---P-LEELEQDIRSI-GLYRNKARNIQKLCAMLIDKYNGEVPRDRDELMKL 118 (226)
T ss_dssp TSCHHHHHHHHHHHHHHC-CSHHHHHSS---C-HHHHHHHTGGG-SSHHHHHHHHHHHHHHHHHHSTTSCCSCHHHHTTS
T ss_pred CCcHHHHHHHHHHHHHHC-CCHHHHHcC---C-HHHHHHHHHHc-CChHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHC
Confidence 345666777776654321 123333222 1 23345555444 443 222 223345565 889999
Q ss_pred CCCcchh-----hhhcCCCCCC
Q 045823 133 PGIGERK-----HVVSSHPPIP 149 (233)
Q Consensus 133 PGiG~kK-----~~v~~~PFi~ 149 (233)
||||+.= ...|..|.++
T Consensus 119 pGIG~~TA~~il~~a~g~~~~~ 140 (226)
T 1orn_A 119 PGVGRKTANVVVSVAFGVPAIA 140 (226)
T ss_dssp TTCCHHHHHHHHHHHHCCCCCC
T ss_pred CCccHHHHHHHHHHHCCCceee
Confidence 9999988 3456666443
No 40
>1p71_A DNA-binding protein HU; protein-DNA complex, DNA bending, DNA binding protein-DN; 1.90A {Anabaena SP} SCOP: a.55.1.1 PDB: 1p51_A 1p78_A
Probab=28.09 E-value=26 Score=25.48 Aligned_cols=38 Identities=21% Similarity=0.147 Sum_probs=28.2
Q ss_pred HHHHHhhcCCCccHhhHHHHHHhhh----hh-----ccCCCCCcchh
Q 045823 102 RLTHALTSVRSVNKTDVVNLGSTFG----ED-----LSHCPGIGERK 139 (233)
Q Consensus 102 ~v~~~LTsIrsVNKTDa~tLls~FG----Ee-----Ls~cPGiG~kK 139 (233)
.+++.+..--++++.||..++..|- +. --.++|||-=.
T Consensus 5 eli~~ia~~~~ls~~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 51 (94)
T 1p71_A 5 ELVDAVAEKASVTKKQADAVLTAALETIIEAVSSGDKVTLVGFGSFE 51 (94)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCCeEEecCCEEEE
Confidence 4555555555899999999999998 22 34788999765
No 41
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation; 2.00A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.96.1.2
Probab=27.92 E-value=36 Score=28.45 Aligned_cols=75 Identities=9% Similarity=0.152 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHHHHhhcCCCcccccCCCCCchHHHHHHHhhcCCCccHhhHH-------HHHHhhh-------hhccCC
Q 045823 67 NFSQEECGRYLETIKVYENKPADLTQGQMDTDYLSRLTHALTSVRSVNKTDVV-------NLGSTFG-------EDLSHC 132 (233)
Q Consensus 67 ~~S~EEAArYLEt~K~yEnk~~d~Ik~k~~~dy~s~v~~~LTsIrsVNKTDa~-------tLls~FG-------EeLs~c 132 (233)
.+|.+-+.++++.+..-- -.++.|..- + .+.|.+.+..+ |..+.=|. .++..|| ++|..+
T Consensus 47 qts~~~~~~~~~~l~~~f-ptp~~la~a---~-~e~l~~~i~~~-G~~~~KA~~l~~~a~~i~~~~~g~~p~~~~~L~~l 120 (221)
T 1kea_A 47 RTTAGHVKKIYDKFFVKY-KCFEDILKT---P-KSEIAKDIKEI-GLSNQRAEQLKELARVVINDYGGRVPRNRKAILDL 120 (221)
T ss_dssp TSCHHHHHHHHHHHHHHC-CSHHHHHHS---C-HHHHHHHTGGG-SCHHHHHHHHHHHHHHHHHHHTTSCCSCHHHHHTS
T ss_pred cCCHHHHHHHHHHHHHHC-CCHHHHHCC---C-HHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHhCCCchHHHHHHHhC
Confidence 346666777777664321 112333221 1 23344444443 44432222 3344555 789999
Q ss_pred CCCcchh-----hhhcCCCC
Q 045823 133 PGIGERK-----HVVSSHPP 147 (233)
Q Consensus 133 PGiG~kK-----~~v~~~PF 147 (233)
||||++= ...+..|.
T Consensus 121 pGIG~~TA~~il~~~~~~~~ 140 (221)
T 1kea_A 121 PGVGKYTCAAVMCLAFGKKA 140 (221)
T ss_dssp TTCCHHHHHHHHHHTTCCCC
T ss_pred CCCcHHHHHHHHHHhcCCCc
Confidence 9999988 34566664
No 42
>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=26.79 E-value=24 Score=29.58 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=16.4
Q ss_pred hhccCCCCCcchh-----hhhcCCCC
Q 045823 127 EDLSHCPGIGERK-----HVVSSHPP 147 (233)
Q Consensus 127 EeLs~cPGiG~kK-----~~v~~~PF 147 (233)
++|..+||||++= ...|..|.
T Consensus 109 ~~L~~lpGIG~~TA~~il~~a~~~~~ 134 (225)
T 1kg2_A 109 EEVAALPGVGRSTAGAILSLSLGKHF 134 (225)
T ss_dssp HHHHTSTTCCHHHHHHHHHHHHCCSC
T ss_pred HHHhcCCCCcHHHHHHHHHHhCCCCc
Confidence 7899999999988 34566663
No 43
>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=26.36 E-value=39 Score=23.88 Aligned_cols=35 Identities=23% Similarity=0.450 Sum_probs=28.6
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh------------hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG------------EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG------------EeLs~cPGiG~kK 139 (233)
.+-|..+.||+..|+..|.. -| ++|..++||++.|
T Consensus 6 ~~~l~~L~Gi~~~~~~kL~e-~Gi~TvedlA~~~~~eL~~i~gise~k 52 (70)
T 1wcn_A 6 ADDLLNLEGVDRDLAFKLAA-RGVCTLEDLAEQGIDDLADIEGLTDEK 52 (70)
T ss_dssp CHHHHSSTTCCHHHHHHHHT-TTCCSHHHHHTSCHHHHHTSSSCCHHH
T ss_pred hhHHHHcCCCCHHHHHHHHH-cCCCcHHHHHcCCHHHHHHccCCCHHH
Confidence 34567788999999988864 34 8899999999998
No 44
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=26.17 E-value=24 Score=30.64 Aligned_cols=13 Identities=31% Similarity=0.731 Sum_probs=9.1
Q ss_pred hhccCCCCCcchh
Q 045823 127 EDLSHCPGIGERK 139 (233)
Q Consensus 127 EeLs~cPGiG~kK 139 (233)
++|..+||||++|
T Consensus 132 ~eL~~LpGIG~k~ 144 (205)
T 2i5h_A 132 HQLELLPGVGKKM 144 (205)
T ss_dssp BGGGGSTTCCHHH
T ss_pred HHHhcCCCcCHHH
Confidence 5666777777777
No 45
>3c4i_A DNA-binding protein HU homolog; dimerization by four helix bundle interaction, DNA condensat binding; 2.04A {Mycobacterium tuberculosis}
Probab=26.01 E-value=29 Score=25.53 Aligned_cols=38 Identities=16% Similarity=0.131 Sum_probs=27.9
Q ss_pred HHHHHhhcCCCccHhhHHHHHHhhh---------hhccCCCCCcchh
Q 045823 102 RLTHALTSVRSVNKTDVVNLGSTFG---------EDLSHCPGIGERK 139 (233)
Q Consensus 102 ~v~~~LTsIrsVNKTDa~tLls~FG---------EeLs~cPGiG~kK 139 (233)
.+++.+..--++++.||..++..|- .+--.++|||-=.
T Consensus 5 eLi~~ia~~~~lsk~~~~~~l~~~~~~i~~~L~~g~~V~l~gfG~F~ 51 (99)
T 3c4i_A 5 ELIDVLTQKLGSDRRQATAAVENVVDTIVRAVHKGDSVTITGFGVFE 51 (99)
T ss_dssp HHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCCEEEECCCEEEE
Confidence 3455555445899999999999998 2234788999765
No 46
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=25.36 E-value=53 Score=31.37 Aligned_cols=35 Identities=23% Similarity=0.362 Sum_probs=29.6
Q ss_pred HHHhhcCCCccHhhHHHHHHhhh-------------hhccCCCCCcchh
Q 045823 104 THALTSVRSVNKTDVVNLGSTFG-------------EDLSHCPGIGERK 139 (233)
Q Consensus 104 ~~~LTsIrsVNKTDa~tLls~FG-------------EeLs~cPGiG~kK 139 (233)
..-|++|.||=-.=|..|++. | ..|..+||||++-
T Consensus 96 ~~~L~~v~GVGpk~A~~i~~~-G~~s~edL~~a~~~~~L~~~~GiG~Kt 143 (578)
T 2w9m_A 96 LLDLLGVRGLGPKKIRSLWLA-GIDSLERLREAAESGELAGLKGFGAKS 143 (578)
T ss_dssp HHHHTTSTTCCHHHHHHHHHT-TCCSHHHHHHHHHHTTTTTSTTCCHHH
T ss_pred HHHHhCCCCcCHHHHHHHHHc-CCCCHHHHHHHHhhCccccCCCCCHHH
Confidence 445889999999999999998 7 3566699999887
No 47
>2zix_A Crossover junction endonuclease MUS81; helix-hairpin-helix, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium, metal-binding, nucleus; 3.50A {Homo sapiens}
Probab=25.02 E-value=35 Score=29.79 Aligned_cols=33 Identities=15% Similarity=0.040 Sum_probs=21.6
Q ss_pred HHHHHhhcccccccCCCCHHHHHHHHHHHHhhcC
Q 045823 52 VFSTFGTSSCLESWSNFSQEECGRYLETIKVYEN 85 (233)
Q Consensus 52 Lt~~c~~~~~IlAW~~~S~EEAArYLEt~K~yEn 85 (233)
|..+-+..++-+-| .-|++|.|+||..++....
T Consensus 144 l~~l~~~~~~~i~~-t~~~~~Ta~~l~~lt~~l~ 176 (307)
T 2zix_A 144 VTNTQVIDGFFVKR-TADIKESAAYLALLTRGLQ 176 (307)
T ss_dssp HHHHHHSSCCCCCB-CCSHHHHTHHHHHHHTTTT
T ss_pred HHHHhhhcCeEEEE-eCCHHHHHHHHHHHHHHHH
Confidence 33333445663446 2279999999999988654
No 48
>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=24.85 E-value=38 Score=30.23 Aligned_cols=29 Identities=17% Similarity=0.455 Sum_probs=20.9
Q ss_pred HHHHhhh-------hhccCCCCCcchh-----hhhcCCCCC
Q 045823 120 NLGSTFG-------EDLSHCPGIGERK-----HVVSSHPPI 148 (233)
Q Consensus 120 tLls~FG-------EeLs~cPGiG~kK-----~~v~~~PFi 148 (233)
.++..|| ++|..+||||++= ...|..|.+
T Consensus 104 ~~~~~~~g~~p~~~~~L~~l~GIG~~tA~~il~~~~~~~~~ 144 (369)
T 3fsp_A 104 EVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEP 144 (369)
T ss_dssp HHHHHHTTCCCCSHHHHHTSTTCCHHHHHHHHHHHHCCCCC
T ss_pred HHHHHcCCCChhHHHHHhcCCCcCHHHHHHHHHHHCCCCcc
Confidence 3455676 8899999999866 345677754
No 49
>1exe_A Transcription factor 1; beta ribbon ARMS, DNA-binding, DNA-bending protein; NMR {Bacillus phage SPO1} SCOP: a.55.1.1 PDB: 1wtu_A
Probab=24.81 E-value=30 Score=25.57 Aligned_cols=37 Identities=19% Similarity=0.249 Sum_probs=27.2
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh---------hhccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG---------EDLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG---------EeLs~cPGiG~kK 139 (233)
+++.+..--++++.||..++..|- .+--.++|||-=.
T Consensus 6 Li~~ia~~~~lsk~~~~~~l~~~~~~i~~~L~~G~~V~l~gfG~F~ 51 (99)
T 1exe_A 6 LIKAIAQDTGLTQVSVSKMLASFEKIITETVAKGDKVQLTGFLNIK 51 (99)
T ss_dssp HHHHHHHHHCSCCTTHHHHHHHHHHHHHHHHHHTCCCCBTTTBCCC
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHCCCeEEECCceEEE
Confidence 445555445789999999999998 2335789999755
No 50
>3rhi_A DNA-binding protein HU; structural genomics, center for structural genom infectious diseases, csgid; 2.48A {Bacillus anthracis} SCOP: a.55.1.1 PDB: 1hue_A 1huu_A
Probab=23.69 E-value=28 Score=25.36 Aligned_cols=37 Identities=11% Similarity=0.161 Sum_probs=27.3
Q ss_pred HHHHhhcCCCccHhhHHHHHHhhh----h-----hccCCCCCcchh
Q 045823 103 LTHALTSVRSVNKTDVVNLGSTFG----E-----DLSHCPGIGERK 139 (233)
Q Consensus 103 v~~~LTsIrsVNKTDa~tLls~FG----E-----eLs~cPGiG~kK 139 (233)
+++.+..--+++|.||..++..|- + +--.++|||-=+
T Consensus 9 Li~~ia~~~~lsk~~~~~~v~~~~~~i~~~L~~g~~V~l~gfG~F~ 54 (93)
T 3rhi_A 9 LIKNVAQNAEISQKEATVVVQTVVESITNTLAAGEKVQLIGFGTFE 54 (93)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHTTCCEEETTTEEEE
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHhCCCEEEEcCCEEEE
Confidence 455555445899999999999998 2 234789999765
No 51
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=22.96 E-value=28 Score=28.82 Aligned_cols=22 Identities=27% Similarity=0.584 Sum_probs=16.8
Q ss_pred hhccCCCCCcchh-----hhhcCCCCC
Q 045823 127 EDLSHCPGIGERK-----HVVSSHPPI 148 (233)
Q Consensus 127 EeLs~cPGiG~kK-----~~v~~~PFi 148 (233)
++|..+||||++= ...+..|.+
T Consensus 109 ~~L~~l~GIG~~tA~~il~~~~~~~~~ 135 (211)
T 2abk_A 109 AALEALPGVGRKTANVVLNTAFGWPTI 135 (211)
T ss_dssp HHHHHSTTCCHHHHHHHHHHHHCCCCC
T ss_pred HHHHhCCCCChHHHHHHHHHHCCCCcC
Confidence 7799999999988 345677633
No 52
>1fi6_A EH domain protein REPS1; EPS15 homology domain, EF hand, calcium, RAS signal transduction, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: a.39.1.6
Probab=22.44 E-value=1.9e+02 Score=19.89 Aligned_cols=52 Identities=10% Similarity=0.089 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHhhcCCCcccccCCCCCchHHHHHHHhhcCCCccHhhHHHHHHhhh
Q 045823 67 NFSQEECGRYLETIKVYENKPADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG 126 (233)
Q Consensus 67 ~~S~EEAArYLEt~K~yEnk~~d~Ik~k~~~dy~s~v~~~LTsIrsVNKTDa~tLls~FG 126 (233)
..|.+|-.+|.+.|+.|.....-.|. .+.+..+|... +++..++..++..+.
T Consensus 2 ~ls~~~~~~~~~~F~~~D~d~dG~I~-------~~el~~~l~~~-g~~~~~~~~i~~~~D 53 (92)
T 1fi6_A 2 KITDEQRQYYVNQFKTIQPDLNGFIP-------GSAAKEFFTKS-KLPILELSHIWELSD 53 (92)
T ss_dssp CCCHHHHHHHHHHHTTTCCSTTCEEE-------HHHHHHHHHHH-SSCHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCcCc-------HHHHHHHHHHc-CCCHHHHHHHHHHHC
Confidence 45889999999999999764432221 23355556554 577888888877654
No 53
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=22.21 E-value=64 Score=32.65 Aligned_cols=35 Identities=23% Similarity=0.395 Sum_probs=29.6
Q ss_pred HHhhcCCCccHhhHHHHHHhh---h-----hhccCCCCCcchh
Q 045823 105 HALTSVRSVNKTDVVNLGSTF---G-----EDLSHCPGIGERK 139 (233)
Q Consensus 105 ~~LTsIrsVNKTDa~tLls~F---G-----EeLs~cPGiG~kK 139 (233)
+.|..|.||+.+-|..|+.-- | ++|..++|||+++
T Consensus 508 ~~L~~v~GiG~~~A~~Iv~yR~~~G~f~sr~~L~~V~giG~k~ 550 (785)
T 3bzc_A 508 ALLARISGLNSTLAQNIVAHRDANGAFRTRDELKKVSRLGEKT 550 (785)
T ss_dssp HHHHTSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHH
T ss_pred HHHhhcCCCCHHHHHHHHHHHHhcCCCCCHHHHHhcCCCCHHH
Confidence 457789999999999988532 3 9999999999998
No 54
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans}
Probab=20.83 E-value=28 Score=24.37 Aligned_cols=13 Identities=38% Similarity=1.045 Sum_probs=12.4
Q ss_pred hhccCCCCCcchh
Q 045823 127 EDLSHCPGIGERK 139 (233)
Q Consensus 127 EeLs~cPGiG~kK 139 (233)
++|..++|||+.|
T Consensus 47 ~eL~~i~Gvg~~k 59 (77)
T 2rhf_A 47 AELAEVPGLGEKR 59 (77)
T ss_dssp HHHTTSTTTCHHH
T ss_pred HHHhhCCCCCHHH
Confidence 8899999999999
No 55
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=20.15 E-value=26 Score=30.46 Aligned_cols=13 Identities=54% Similarity=0.991 Sum_probs=11.5
Q ss_pred hhccCCCCCcchh
Q 045823 127 EDLSHCPGIGERK 139 (233)
Q Consensus 127 EeLs~cPGiG~kK 139 (233)
+.|+.+||||+|=
T Consensus 26 ~~l~~LPGIG~Ks 38 (212)
T 3vdp_A 26 EELSKLPGIGPKT 38 (212)
T ss_dssp HHHHTSTTCCHHH
T ss_pred HHHHHCCCCCHHH
Confidence 6789999999987
Done!