Query 017845
Match_columns 365
No_of_seqs 257 out of 675
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 03:55:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017845.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017845hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2561 Adaptor protein NUB1, 100.0 1.7E-77 3.7E-82 592.1 25.8 344 1-353 214-567 (568)
2 KOG0944 Ubiquitin-specific pro 99.8 2.9E-19 6.2E-24 185.5 6.2 119 72-201 553-675 (763)
3 TIGR00601 rad23 UV excision re 99.8 2.7E-18 5.9E-23 172.2 12.3 167 91-263 157-378 (378)
4 KOG0011 Nucleotide excision re 99.7 2.2E-17 4.7E-22 160.3 9.0 169 89-262 134-338 (340)
5 KOG2561 Adaptor protein NUB1, 99.6 3E-15 6.6E-20 150.0 16.4 187 161-353 302-552 (568)
6 KOG0944 Ubiquitin-specific pro 99.6 1.3E-15 2.9E-20 158.4 7.8 101 161-263 570-676 (763)
7 COG5207 UBP14 Isopeptidase T [ 99.6 2.3E-15 5.1E-20 152.8 7.1 104 87-201 555-661 (749)
8 COG5207 UBP14 Isopeptidase T [ 99.2 1.2E-11 2.5E-16 126.2 5.8 101 161-263 557-662 (749)
9 PF00627 UBA: UBA/TS-N domain; 99.2 1.4E-11 3.1E-16 84.3 4.3 37 89-125 1-37 (37)
10 cd00194 UBA Ubiquitin Associat 99.0 4.7E-10 1E-14 76.7 5.2 38 90-127 1-38 (38)
11 smart00165 UBA Ubiquitin assoc 99.0 4.3E-10 9.3E-15 76.5 4.8 37 90-126 1-37 (37)
12 PF00627 UBA: UBA/TS-N domain; 99.0 8.4E-10 1.8E-14 75.5 4.7 36 222-257 2-37 (37)
13 cd00194 UBA Ubiquitin Associat 98.8 6.2E-09 1.3E-13 71.1 5.3 37 223-259 2-38 (38)
14 smart00165 UBA Ubiquitin assoc 98.8 7E-09 1.5E-13 70.5 5.1 36 223-258 2-37 (37)
15 TIGR00601 rad23 UV excision re 97.7 4.9E-05 1.1E-09 77.0 5.0 42 221-262 155-196 (378)
16 KOG0011 Nucleotide excision re 97.1 0.0011 2.3E-08 65.7 7.0 43 221-263 134-176 (340)
17 PF02845 CUE: CUE domain; Int 95.9 0.024 5.1E-07 39.6 5.3 38 91-128 2-41 (42)
18 PF02845 CUE: CUE domain; Int 95.6 0.026 5.7E-07 39.4 4.7 37 223-259 2-40 (42)
19 PF14555 UBA_4: UBA-like domai 95.4 0.038 8.3E-07 38.8 4.8 40 224-263 2-42 (43)
20 PF14555 UBA_4: UBA-like domai 95.3 0.036 7.9E-07 38.9 4.6 41 91-131 1-42 (43)
21 smart00546 CUE Domain that may 95.2 0.047 1E-06 38.2 4.9 39 90-128 2-42 (43)
22 smart00546 CUE Domain that may 95.1 0.062 1.3E-06 37.6 5.3 38 223-260 3-42 (43)
23 PRK09377 tsf elongation factor 94.5 0.061 1.3E-06 53.0 5.4 41 89-129 4-45 (290)
24 TIGR00116 tsf translation elon 94.5 0.06 1.3E-06 53.0 5.4 42 89-130 3-45 (290)
25 PRK12332 tsf elongation factor 94.4 0.073 1.6E-06 49.6 5.4 41 89-129 3-44 (198)
26 KOG2689 Predicted ubiquitin re 93.9 0.051 1.1E-06 52.8 3.2 40 94-133 4-45 (290)
27 PF09288 UBA_3: Fungal ubiquit 93.7 0.071 1.5E-06 39.9 3.0 27 221-247 8-34 (55)
28 CHL00098 tsf elongation factor 93.4 0.14 3E-06 47.9 5.2 38 92-129 3-41 (200)
29 PRK06369 nac nascent polypepti 93.3 0.18 3.9E-06 43.2 5.3 42 86-127 72-114 (115)
30 PRK12332 tsf elongation factor 92.8 0.16 3.5E-06 47.4 4.7 37 161-197 3-40 (198)
31 KOG0418 Ubiquitin-protein liga 92.7 0.14 3E-06 47.3 4.1 40 221-260 161-200 (200)
32 KOG0418 Ubiquitin-protein liga 92.7 0.32 6.9E-06 45.0 6.4 40 88-127 160-199 (200)
33 PRK09377 tsf elongation factor 92.7 0.16 3.4E-06 50.1 4.7 37 161-197 4-41 (290)
34 TIGR00264 alpha-NAC-related pr 92.5 0.21 4.6E-06 42.8 4.7 40 88-127 76-116 (116)
35 TIGR00116 tsf translation elon 92.5 0.17 3.7E-06 49.9 4.7 37 161-197 3-40 (290)
36 KOG2689 Predicted ubiquitin re 92.5 0.16 3.5E-06 49.4 4.5 39 227-265 5-45 (290)
37 CHL00098 tsf elongation factor 90.8 0.35 7.6E-06 45.2 4.6 34 164-197 3-37 (200)
38 PRK06369 nac nascent polypepti 89.9 0.68 1.5E-05 39.7 5.2 40 220-259 74-114 (115)
39 KOG0010 Ubiquitin-like protein 89.5 0.5 1.1E-05 49.4 4.9 37 223-259 455-492 (493)
40 TIGR00264 alpha-NAC-related pr 88.9 0.79 1.7E-05 39.4 4.9 38 221-258 77-115 (116)
41 PF09288 UBA_3: Fungal ubiquit 88.8 0.45 9.8E-06 35.6 2.9 27 89-115 8-34 (55)
42 PF07499 RuvA_C: RuvA, C-termi 85.3 1.2 2.5E-05 31.9 3.4 24 91-114 4-27 (47)
43 COG0264 Tsf Translation elonga 84.6 1.7 3.7E-05 42.9 5.3 39 91-129 6-45 (296)
44 COG0264 Tsf Translation elonga 83.3 1.7 3.7E-05 43.0 4.6 36 162-197 5-41 (296)
45 PF11626 Rap1_C: TRF2-interact 81.9 1.9 4.1E-05 34.8 3.7 35 226-260 1-35 (87)
46 KOG0010 Ubiquitin-like protein 81.8 2 4.4E-05 45.1 4.7 37 91-127 455-492 (493)
47 PF11626 Rap1_C: TRF2-interact 81.4 2.2 4.7E-05 34.4 3.9 36 95-130 2-37 (87)
48 PF07499 RuvA_C: RuvA, C-termi 81.1 2.2 4.9E-05 30.4 3.5 24 163-186 4-27 (47)
49 COG1308 EGD2 Transcription fac 80.1 3.5 7.6E-05 35.7 4.9 40 87-126 81-121 (122)
50 KOG3450 Huntingtin interacting 75.2 5.4 0.00012 33.9 4.5 47 81-127 71-118 (119)
51 COG1308 EGD2 Transcription fac 72.4 7.3 0.00016 33.8 4.8 38 160-197 82-120 (122)
52 PF02954 HTH_8: Bacterial regu 71.6 3.4 7.4E-05 28.6 2.2 24 234-257 5-28 (42)
53 PF11372 DUF3173: Domain of un 66.8 2.1 4.5E-05 32.6 0.3 30 95-124 7-37 (59)
54 PF03474 DMA: DMRTA motif; In 64.3 10 0.00022 26.6 3.2 25 234-258 15-39 (39)
55 PRK05441 murQ N-acetylmuramic 63.1 27 0.00058 34.4 7.4 24 233-256 274-297 (299)
56 PF08031 BBE: Berberine and be 62.0 3.6 7.7E-05 29.4 0.7 27 26-52 14-40 (47)
57 PF09986 DUF2225: Uncharacteri 60.9 19 0.00041 33.8 5.6 62 1-80 124-191 (214)
58 PF02536 mTERF: mTERF; InterP 60.3 11 0.00024 36.9 4.2 222 27-263 38-291 (345)
59 KOG1071 Mitochondrial translat 60.3 17 0.00038 36.4 5.4 41 91-131 47-88 (340)
60 TIGR00274 N-acetylmuramic acid 59.7 27 0.00058 34.4 6.6 50 173-255 242-291 (291)
61 PRK14602 ruvA Holliday junctio 59.4 17 0.00036 34.0 4.9 24 91-114 156-179 (203)
62 PF08938 HBS1_N: HBS1 N-termin 59.0 5.7 0.00012 31.5 1.5 35 97-131 38-73 (79)
63 COG4008 Predicted metal-bindin 58.8 32 0.0007 30.2 6.1 47 80-127 104-150 (153)
64 PRK14601 ruvA Holliday junctio 58.2 17 0.00036 33.6 4.6 24 91-114 143-166 (183)
65 PF02631 RecX: RecX family; I 57.7 28 0.00062 29.1 5.7 95 7-113 17-118 (121)
66 PRK14606 ruvA Holliday junctio 56.7 21 0.00046 33.0 5.1 24 91-114 144-167 (188)
67 TIGR02552 LcrH_SycD type III s 56.5 15 0.00033 30.2 3.8 20 61-80 58-77 (135)
68 PF11372 DUF3173: Domain of un 56.3 11 0.00024 28.7 2.5 33 167-199 7-40 (59)
69 PRK14600 ruvA Holliday junctio 55.4 17 0.00038 33.5 4.3 25 91-115 146-170 (186)
70 PF02631 RecX: RecX family; I 54.1 1.3E+02 0.0028 25.1 10.3 71 165-245 48-118 (121)
71 TIGR00084 ruvA Holliday juncti 53.9 21 0.00045 33.0 4.5 24 223-246 148-171 (191)
72 PF06972 DUF1296: Protein of u 53.7 48 0.001 25.4 5.5 27 102-128 19-45 (60)
73 PF13424 TPR_12: Tetratricopep 53.6 33 0.00072 25.6 5.0 68 53-128 4-72 (78)
74 KOG1071 Mitochondrial translat 52.9 26 0.00056 35.2 5.2 38 161-198 45-83 (340)
75 PF11547 E3_UbLigase_EDD: E3 u 51.3 24 0.00051 25.9 3.4 40 222-261 9-50 (53)
76 PRK12570 N-acetylmuramic acid- 51.2 50 0.0011 32.6 7.0 50 173-255 243-292 (296)
77 PRK14603 ruvA Holliday junctio 51.1 34 0.00074 31.8 5.5 24 91-114 153-176 (197)
78 PRK14604 ruvA Holliday junctio 50.7 27 0.00058 32.5 4.7 24 223-246 150-173 (195)
79 PRK14601 ruvA Holliday junctio 49.3 30 0.00065 31.9 4.8 24 223-246 143-166 (183)
80 TIGR00084 ruvA Holliday juncti 49.0 29 0.00063 32.1 4.7 74 26-114 96-171 (191)
81 PF07719 TPR_2: Tetratricopept 48.4 26 0.00057 21.7 3.1 28 57-84 4-31 (34)
82 PF13432 TPR_16: Tetratricopep 48.1 59 0.0013 23.3 5.4 50 20-84 12-61 (65)
83 PF07223 DUF1421: Protein of u 47.5 18 0.00039 36.9 3.3 24 221-244 320-343 (358)
84 PRK14604 ruvA Holliday junctio 47.0 45 0.00097 31.0 5.6 24 91-114 150-173 (195)
85 PF13371 TPR_9: Tetratricopept 46.9 26 0.00055 25.8 3.3 43 53-99 28-70 (73)
86 PLN03196 MOC1-like protein; Pr 46.3 3.9E+02 0.0084 28.3 17.2 40 223-262 341-387 (487)
87 PRK13901 ruvA Holliday junctio 45.5 23 0.0005 33.1 3.4 25 91-115 145-169 (196)
88 PF03474 DMA: DMRTA motif; In 45.0 32 0.00069 24.1 3.2 22 104-125 17-38 (39)
89 PF11547 E3_UbLigase_EDD: E3 u 43.7 86 0.0019 23.1 5.3 46 86-131 5-52 (53)
90 PRK14135 recX recombination re 43.5 2.9E+02 0.0064 26.2 12.9 155 8-187 98-260 (263)
91 PF06972 DUF1296: Protein of u 41.4 67 0.0014 24.6 4.7 27 234-260 19-45 (60)
92 PF00515 TPR_1: Tetratricopept 41.3 39 0.00085 21.2 3.1 29 55-83 2-30 (34)
93 PRK14603 ruvA Holliday junctio 41.2 53 0.0012 30.5 5.2 24 223-246 153-176 (197)
94 PRK14136 recX recombination re 40.1 4E+02 0.0087 26.8 14.4 73 165-248 231-304 (309)
95 PRK14605 ruvA Holliday junctio 40.1 66 0.0014 29.8 5.6 25 91-115 149-173 (194)
96 PF02954 HTH_8: Bacterial regu 39.9 22 0.00047 24.5 1.8 24 174-197 5-28 (42)
97 PRK14602 ruvA Holliday junctio 39.4 59 0.0013 30.4 5.2 24 223-246 156-179 (203)
98 COG4008 Predicted metal-bindin 38.5 71 0.0015 28.1 5.1 37 160-197 112-148 (153)
99 PF09050 SNN_linker: Stannin u 38.0 13 0.00028 23.3 0.4 14 4-17 1-14 (26)
100 PF08938 HBS1_N: HBS1 N-termin 37.7 13 0.00029 29.3 0.5 28 235-262 45-72 (79)
101 PRK14606 ruvA Holliday junctio 37.5 67 0.0015 29.7 5.2 24 223-246 144-167 (188)
102 KOG3450 Huntingtin interacting 37.3 97 0.0021 26.5 5.5 69 116-197 47-116 (119)
103 PF13424 TPR_12: Tetratricopep 36.2 88 0.0019 23.2 4.9 58 12-84 19-76 (78)
104 PF10579 Rapsyn_N: Rapsyn N-te 35.8 34 0.00074 27.6 2.5 55 56-110 8-66 (80)
105 COG2103 Predicted sugar phosph 35.8 1.3E+02 0.0029 29.8 7.0 36 92-127 117-154 (298)
106 PF02536 mTERF: mTERF; InterP 35.5 2.3E+02 0.0051 27.5 9.0 25 164-188 245-269 (345)
107 TIGR02521 type_IV_pilW type IV 35.1 1.8E+02 0.0038 24.9 7.3 61 55-129 66-126 (234)
108 PRK00117 recX recombination re 34.2 3.1E+02 0.0068 23.8 8.8 97 8-114 52-153 (157)
109 COG2137 OraA Uncharacterized p 34.2 3.7E+02 0.008 24.6 12.6 72 164-248 89-166 (174)
110 KOG1840 Kinesin light chain [C 34.1 3.5E+02 0.0076 29.0 10.5 104 3-128 246-351 (508)
111 PRK14600 ruvA Holliday junctio 33.6 47 0.001 30.7 3.5 25 223-247 146-170 (186)
112 PF13181 TPR_8: Tetratricopept 33.6 53 0.0011 20.4 2.8 29 55-83 2-30 (34)
113 PRK14136 recX recombination re 33.5 3.4E+02 0.0074 27.3 9.6 25 164-188 280-304 (309)
114 PRK13901 ruvA Holliday junctio 33.4 48 0.001 31.0 3.5 26 223-248 145-170 (196)
115 TIGR00274 N-acetylmuramic acid 32.6 1.2E+02 0.0025 30.0 6.2 30 166-195 261-291 (291)
116 PRK05441 murQ N-acetylmuramic 32.4 1.2E+02 0.0027 29.8 6.5 31 166-196 266-297 (299)
117 PF04695 Pex14_N: Peroxisomal 32.2 84 0.0018 27.4 4.7 46 190-250 6-51 (136)
118 PRK13342 recombination factor 31.2 5.3E+02 0.011 26.3 11.0 69 59-129 179-257 (413)
119 PRK14605 ruvA Holliday junctio 30.7 1E+02 0.0022 28.6 5.2 25 223-247 149-173 (194)
120 PF07223 DUF1421: Protein of u 30.7 47 0.001 33.9 3.2 23 163-185 322-344 (358)
121 TIGR00990 3a0801s09 mitochondr 29.7 82 0.0018 33.6 5.1 88 1-127 371-458 (615)
122 PLN03196 MOC1-like protein; Pr 29.7 4.2E+02 0.009 28.1 10.2 40 92-131 342-388 (487)
123 COG0632 RuvA Holliday junction 29.6 62 0.0013 30.4 3.6 24 92-115 158-181 (201)
124 PRK04028 glutamyl-tRNA(Gln) am 29.5 7E+02 0.015 27.6 12.0 99 76-195 443-561 (630)
125 PRK12370 invasion protein regu 29.4 1.1E+02 0.0023 32.5 5.8 28 57-84 341-368 (553)
126 KOG2239 Transcription factor c 28.0 76 0.0016 29.9 3.8 37 161-197 170-207 (209)
127 PF07721 TPR_4: Tetratricopept 28.0 65 0.0014 19.6 2.4 24 55-78 2-25 (26)
128 PRK00116 ruvA Holliday junctio 27.9 96 0.0021 28.5 4.5 26 223-248 150-175 (192)
129 TIGR02521 type_IV_pilW type IV 27.7 3.4E+02 0.0073 23.1 7.8 24 60-83 141-164 (234)
130 PF05861 PhnI: Bacterial phosp 27.6 73 0.0016 32.5 3.9 33 165-197 44-78 (358)
131 COG0632 RuvA Holliday junction 27.4 67 0.0015 30.2 3.4 23 164-186 158-180 (201)
132 PRK00117 recX recombination re 26.4 4.3E+02 0.0093 22.9 13.3 73 165-247 81-154 (157)
133 PF13414 TPR_11: TPR repeat; P 26.2 54 0.0012 23.7 2.1 57 56-126 5-62 (69)
134 PLN02751 glutamyl-tRNA(Gln) am 25.8 7.5E+02 0.016 26.8 11.3 102 75-195 353-474 (544)
135 PRK00116 ruvA Holliday junctio 25.1 1.1E+02 0.0024 28.1 4.4 25 91-115 150-174 (192)
136 smart00028 TPR Tetratricopepti 24.7 79 0.0017 17.5 2.3 27 56-82 3-29 (34)
137 PRK13754 conjugal transfer fer 24.6 67 0.0015 29.8 2.8 76 39-117 53-130 (186)
138 PF09280 XPC-binding: XPC-bind 24.5 78 0.0017 23.9 2.7 37 177-213 11-49 (59)
139 PF07219 HemY_N: HemY protein 23.9 1.3E+02 0.0028 24.9 4.2 39 55-98 60-98 (108)
140 cd00189 TPR Tetratricopeptide 23.3 2.5E+02 0.0055 19.2 6.3 30 55-84 35-64 (100)
141 PRK14700 recombination factor 23.1 6.5E+02 0.014 25.2 9.6 80 56-135 67-162 (300)
142 PRK14134 recX recombination re 23.1 7.1E+02 0.015 24.3 12.5 98 7-114 101-206 (283)
143 COG1918 FeoA Fe2+ transport sy 23.1 54 0.0012 26.0 1.7 22 86-107 16-37 (75)
144 PRK14135 recX recombination re 23.0 6.5E+02 0.014 23.8 13.9 79 165-248 181-261 (263)
145 PF13174 TPR_6: Tetratricopept 22.3 75 0.0016 19.3 2.0 28 59-86 5-32 (33)
146 PF14748 P5CR_dimer: Pyrroline 21.7 3E+02 0.0066 22.7 6.0 74 91-184 25-98 (107)
147 PRK01905 DNA-binding protein F 21.3 86 0.0019 24.5 2.5 24 234-257 37-60 (77)
148 PF01458 UPF0051: Uncharacteri 21.3 77 0.0017 29.6 2.6 25 88-112 202-226 (229)
149 PRK12570 N-acetylmuramic acid- 21.2 2.3E+02 0.0049 28.0 6.0 30 166-195 262-292 (296)
150 PRK00430 fis global DNA-bindin 21.1 84 0.0018 25.8 2.5 24 234-257 55-78 (95)
151 PF15187 Augurin: Oesophageal 20.8 1.2E+02 0.0026 25.8 3.3 38 70-107 25-67 (114)
No 1
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=1.7e-77 Score=592.13 Aligned_cols=344 Identities=41% Similarity=0.640 Sum_probs=282.8
Q ss_pred CeehhhhhCCCCChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHH
Q 017845 1 MVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 80 (365)
Q Consensus 1 ivWcy~~L~~~~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A 80 (365)
|||||||||||+|||||+.||.+|++||.+|||+|++||++|||++|||+|||||||||||||+||+|++++|+++|+.|
T Consensus 214 IVWCYfrLknitcL~DAe~RL~ra~kgf~~syGenl~Rl~~lKg~~spEraL~lRL~LLQGV~~yHqg~~deAye~le~a 293 (568)
T KOG2561|consen 214 IVWCYFRLKNITCLPDAEVRLVRARKGFERSYGENLSRLRSLKGGQSPERALILRLELLQGVVAYHQGQRDEAYEALESA 293 (568)
T ss_pred hhheehhhcccccCChHHHHHHHHHHhhhhhhhhhhHhhhhccCCCChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCCCCc
Q 017845 81 QAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKA 160 (365)
Q Consensus 81 ~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 160 (365)
.+++.++++|++.++.||+|||.+++||+|||.|+|+|+.|++||+++++...++|+++..+.+++.++++++.++++.|
T Consensus 294 ~~~l~elki~d~~lsllv~mGfeesdaRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~w 373 (568)
T KOG2561|consen 294 HAKLLELKINDETLSLLVGMGFEESDARLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKW 373 (568)
T ss_pred HHHHHHeeccchHHHHHHHcCCCchHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999777766666667788999999999
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHH
Q 017845 161 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVI 240 (365)
Q Consensus 161 vd~~~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~ 240 (365)
|++..|..|++|||.+..|..||+.++||+..|+++|++|.. +|.. .++.++.+++..+|.+|++|||++-.|+
T Consensus 374 vn~rs~~rL~~mGyer~la~eaL~r~~Ndi~~aldllq~esd--el~~----n~~~~p~~vd~~~la~Lv~mGF~e~~A~ 447 (568)
T KOG2561|consen 374 VNPRSLERLVSMGYERELAAEALRRNENDIQKALDLLQDESD--ELES----NKPKRPEQVDGISLAELVSMGFEEGKAR 447 (568)
T ss_pred cCHHHHHHHHhcchHhHHHHHHHHhccCcHHHHHHhcCCcch--hhhc----cCCCCCcccchhhHHHHHHhccccchHH
Confidence 999999999999999999999999999999999999987652 2332 2234444578999999999999999999
Q ss_pred HHHHHcCCCHHHHHHHHhcCCCCCCcc---ccCCCCCCCCCCCCCCCCC------CCCCCCCCCCCCCCCcccccccccc
Q 017845 241 EACRAGGDDIHQIMLQLLGEPGSNPTA---AANNNASTSISMPNNGEPS------SSINNENVEGDPDSSFEETSATEDV 311 (365)
Q Consensus 241 ~AL~~~~nnve~A~e~Ll~~~~~~~~~---~~~~s~s~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~ 311 (365)
.||+.++||++.|+++|..+....++. ....++|+...+|+.|... +.|-+++.+. -.-.++.+ ....
T Consensus 448 ~ALe~~gnn~~~a~~~L~~s~~n~~~~l~~~~~~t~s~en~gp~ssg~~tsastd~~m~~e~~~~--i~iletv~-~hae 524 (568)
T KOG2561|consen 448 SALEAGGNNEDTAQRLLSASVANEGELLTSVINATSSTENVGPESSGFGTSASTDSEMVDETTDD--IAILETVS-DHAE 524 (568)
T ss_pred HHHHhcCCcHHHHHHHHHHhCCCCccccccccccccCCCCCCCCcCCCCcccCCCchhhhcCCch--HHHHHhhh-hHHH
Confidence 999999999999999998776653322 1112222222222222111 1121221110 00111111 1233
Q ss_pred CCCChhHHHHHHhhhc-CCcccccccchhhHHHHHHHHHHHhh
Q 017845 312 NGRDVEMEDELANDLT-GDVFADYDIEVTKEGEAISEYLSLLD 353 (365)
Q Consensus 312 ~~rd~~me~el~~ei~-~d~~~dyD~~l~~E~~~i~eYlsll~ 353 (365)
..+|+..++|..+|++ -|+.++||+.|++|+++|+||+.+|+
T Consensus 525 ~eidS~~a~erfned~~~~~leyldl~ldqee~~l~ey~~ml~ 567 (568)
T KOG2561|consen 525 EEIDSYIADERFNEDLRVDALEYLDLPLDQEEEILNEYLAMLD 567 (568)
T ss_pred HHHHhhhHHhhhchhhhhhhHhhhcCccchHHHHHHHHHHHhc
Confidence 4566666777777777 56667779999999999999999986
No 2
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.77 E-value=2.9e-19 Score=185.46 Aligned_cols=119 Identities=23% Similarity=0.359 Sum_probs=97.1
Q ss_pred HHHHHhHHHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHh
Q 017845 72 KARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQK 150 (365)
Q Consensus 72 ~A~~~l~~A~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~-dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~ 150 (365)
+..+.|+.....-.++.+|...+.||++||||++.|+|||..|+| +.+.|+||||+||+|++...+ ..
T Consensus 553 p~ee~lpde~~~~~~~~~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p------~v----- 621 (763)
T KOG0944|consen 553 PGEEALPDEAPETSEFAADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDP------FV----- 621 (763)
T ss_pred CcccccCCcCcccCccchhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCc------ee-----
Confidence 344455444445556778999999999999999999999999955 699999999999999987632 11
Q ss_pred hcCCCCCCC--cCCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhc-CCCc
Q 017845 151 RYGLTPLKK--AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE 201 (365)
Q Consensus 151 ~~g~~~~~~--~vd~~~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L-~~p~ 201 (365)
.+|.++... .++++.|.++++|||++.+|++||+++||||++|++|+ +|++
T Consensus 622 vp~~~~~a~~~~~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 622 VPGNSPKADAREVDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred cCCCCCccccCCCChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 124433333 58999999999999999999999999999999999997 7777
No 3
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.76 E-value=2.7e-18 Score=172.25 Aligned_cols=167 Identities=18% Similarity=0.233 Sum_probs=119.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhhhHHHhhhhHHHH-HHHHHHHhhcCCCCCCCc---------
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQR-RKEIMEQKRYGLTPLKKA--------- 160 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~~d~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~--------- 160 (365)
++.|++||+|||++.++++|||+++||.++||+||+.++++.-. ...... ... . ....+..+....
T Consensus 157 e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~--~~~~~~~~~~-~-~~~~~~~~~~~~~lf~~a~~~ 232 (378)
T TIGR00601 157 ETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIPEDPE--QPEPVQQTAA-S-TAAATTETPQHGSVFEQAAQG 232 (378)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCCcccc--ccccCCCccc-c-cccccCCCCCCcchhhhhhcc
Confidence 67999999999999999999999999999999999999985310 000000 000 0 000000000000
Q ss_pred ----------CCHHHHHHHHhCC-CCHHHHHHHHHhcCCCHHHHHhhc--CCCcchHHHHHhHHHHhh-------h----
Q 017845 161 ----------VDIEKIKELVSIG-FEKELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIESRKR-------K---- 216 (365)
Q Consensus 161 ----------vd~~~l~~L~~MG-F~~~~Ar~ALr~t~ndve~Al~~L--~~p~~~~~L~~~~~~~~~-------~---- 216 (365)
.....|..|..+- | .+.|..+++++.-+..-++.| +||++.+.|+.+++.+.+ .
T Consensus 233 ~~~~~~~~~~~g~~~l~~Lr~~pqf--~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~~~~~~ 310 (378)
T TIGR00601 233 GTEQPATEAAQGGNPLEFLRNQPQF--QQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEPVGELAGE 310 (378)
T ss_pred cccccccccccCCchHHHhhcCHHH--HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcccccccc
Confidence 0011356666663 5 678999999999999999988 799999888887664421 1
Q ss_pred --------------------hh-ccccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 017845 217 --------------------RC-RQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGS 263 (365)
Q Consensus 217 --------------------~~-~~~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~~~ 263 (365)
.+ ...+.++|++|++|||++..|++||.+|++|.+.|++|||++.++
T Consensus 311 ~~~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~~~ 378 (378)
T TIGR00601 311 SDMEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQNFD 378 (378)
T ss_pred cccccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhcCC
Confidence 01 124789999999999999999999999999999999999988653
No 4
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.71 E-value=2.2e-17 Score=160.32 Aligned_cols=169 Identities=22% Similarity=0.293 Sum_probs=120.9
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHH-----hhcCCCCCCCcCC-
Q 017845 89 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQ-----KRYGLTPLKKAVD- 162 (365)
Q Consensus 89 vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~-----~~~g~~~~~~~vd- 162 (365)
..+..|.++|+|||.+++..+|||+..||.++||+||..++++-..... .+..-..... .+....+.+ .+.
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~--~~~~~~~~~~~p~~~~p~~~~~~~-~~~~ 210 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPE--PEKSTAAAAELPANAQPLDLFPQG-AVEA 210 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCc--ccCCcccCCCCCCCCChhhcCCcc-chhh
Confidence 5689999999999999999999999999999999999999987321110 0000000000 000000000 010
Q ss_pred --HHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc--CCCcchHHHHHhHHHHhh---------------------h
Q 017845 163 --IEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIESRKR---------------------K 216 (365)
Q Consensus 163 --~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L--~~p~~~~~L~~~~~~~~~---------------------~ 216 (365)
...++.|+++ -| .+.|.-+.+++-.+..-++.| .||.+.+.|+.+.+.+.+ .
T Consensus 211 ~~~~~l~fLr~~~qf--~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~~~~~~~~~~~~~~~~~ 288 (340)
T KOG0011|consen 211 SGGDPLEFLRNQPQF--QQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQENQEAFLQLLNEPVEGGDGGGTGAPAAEGP 288 (340)
T ss_pred hcCCchhhhhccHHH--HHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHhhcccccccccccccccccCC
Confidence 0236667766 35 567777888888888888888 799999888888655431 0
Q ss_pred -hh---ccccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 017845 217 -RC---RQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPG 262 (365)
Q Consensus 217 -~~---~~~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~~ 262 (365)
.+ .+.+.++|++|.+|||++..+++||.+|++|.+.|++|||+|..
T Consensus 289 ~~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~f 338 (340)
T KOG0011|consen 289 GHQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHSF 338 (340)
T ss_pred cceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhcc
Confidence 01 13578999999999999999999999999999999999999873
No 5
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.65 E-value=3e-15 Score=150.03 Aligned_cols=187 Identities=27% Similarity=0.290 Sum_probs=122.8
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhcCCC-cchHHHH-HhHHHHh----h------hhhccccHHHHHH
Q 017845 161 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNP-ESNSAIQ-LYIESRK----R------KRCRQAADAKIEQ 228 (365)
Q Consensus 161 vd~~~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L~~p-~~~~~L~-~~~~~~~----~------~~~~~~~~~~I~~ 228 (365)
++.+.++.|++|||.+..||.|||.|+|+|+.|+++|.+. +-....+ .+....+ + ....++++.+|..
T Consensus 302 i~d~~lsllv~mGfeesdaRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~r 381 (568)
T KOG2561|consen 302 INDETLSLLVGMGFEESDARLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLER 381 (568)
T ss_pred ccchHHHHHHHcCCCchHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHH
Confidence 4678899999999999999999999999999999998542 2111221 1111111 0 1134689999999
Q ss_pred HHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCCCCCCccccCCCCCCCC-------------------------------
Q 017845 229 LVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGSNPTAAANNNASTSI------------------------------- 277 (365)
Q Consensus 229 L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~~~~~~~~~~~s~s~~~------------------------------- 277 (365)
|++|||++..|.+||+.+.||+.+|++.|..+.+. +.+.-.++|+...
T Consensus 382 L~~mGyer~la~eaL~r~~Ndi~~aldllq~esde-l~~n~~~~p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a 460 (568)
T KOG2561|consen 382 LVSMGYERELAAEALRRNENDIQKALDLLQDESDE-LESNKPKRPEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTA 460 (568)
T ss_pred HHhcchHhHHHHHHHHhccCcHHHHHHhcCCcchh-hhccCCCCCcccchhhHHHHHHhccccchHHHHHHhcCCcHHHH
Confidence 99999999999999999999999999988777663 1111111121110
Q ss_pred ------CCCCCCCCCCCCCCC---CCCCCCCCCccccccccccCCCChhHHHHHHhh--hcCCcc---ccc-ccc-----
Q 017845 278 ------SMPNNGEPSSSINNE---NVEGDPDSSFEETSATEDVNGRDVEMEDELAND--LTGDVF---ADY-DIE----- 337 (365)
Q Consensus 278 ------~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~rd~~me~el~~e--i~~d~~---~dy-D~~----- 337 (365)
+-++-++--...++. .-+..+..+..++|+++ |++|.+|-+++ |+++.+ ++| |.+
T Consensus 461 ~~~L~~s~~n~~~~l~~~~~~t~s~en~gp~ssg~~tsast-----d~~m~~e~~~~i~iletv~~hae~eidS~~a~er 535 (568)
T KOG2561|consen 461 QRLLSASVANEGELLTSVINATSSTENVGPESSGFGTSAST-----DSEMVDETTDDIAILETVSDHAEEEIDSYIADER 535 (568)
T ss_pred HHHHHHhCCCCccccccccccccCCCCCCCCcCCCCcccCC-----CchhhhcCCchHHHHHhhhhHHHHHHHhhhHHhh
Confidence 000000000001111 01111445555666665 99999988884 445544 777 888
Q ss_pred -hhhHHHHHHHHHHHhh
Q 017845 338 -VTKEGEAISEYLSLLD 353 (365)
Q Consensus 338 -l~~E~~~i~eYlsll~ 353 (365)
.+.+...+.+|++|..
T Consensus 536 fned~~~~~leyldl~l 552 (568)
T KOG2561|consen 536 FNEDLRVDALEYLDLPL 552 (568)
T ss_pred hchhhhhhhHhhhcCcc
Confidence 8889999999999854
No 6
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=1.3e-15 Score=158.45 Aligned_cols=101 Identities=23% Similarity=0.371 Sum_probs=83.7
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcCC-CHHHHHhhc----CCCcchHHHHHhHHHHhhhh-hccccHHHHHHHHhCCC
Q 017845 161 VDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDL----TNPESNSAIQLYIESRKRKR-CRQAADAKIEQLVAMGF 234 (365)
Q Consensus 161 vd~~~l~~L~~MGF~~~~Ar~ALr~t~n-dve~Al~~L----~~p~~~~~L~~~~~~~~~~~-~~~~~~~~I~~L~~MGF 234 (365)
.|.-.|.+|++|||+.+.|++||..|+| +.+.|++|| .||++.+++.-+. ...+. ...++++.+..+++|||
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp~--~~~~a~~~~~~e~~v~si~smGf 647 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVPG--NSPKADAREVDEESVASIVSMGF 647 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCceecCC--CCCccccCCCChhHheeeeeecC
Confidence 5667999999999999999999999955 799999998 4677665543221 11111 12578999999999999
Q ss_pred CHHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 017845 235 ERPRVIEACRAGGDDIHQIMLQLLGEPGS 263 (365)
Q Consensus 235 ~~~~A~~AL~~~~nnve~A~e~Ll~~~~~ 263 (365)
++.+|++||++++|||++|++|+|+|++.
T Consensus 648 ~~~qa~~aL~~~n~nveravDWif~h~d~ 676 (763)
T KOG0944|consen 648 SRNQAIKALKATNNNVERAVDWIFSHMDI 676 (763)
T ss_pred cHHHHHHHHHhcCccHHHHHHHHHhcccc
Confidence 99999999999999999999999999994
No 7
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=2.3e-15 Score=152.76 Aligned_cols=104 Identities=25% Similarity=0.315 Sum_probs=87.5
Q ss_pred CCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCC-CCcCCHH
Q 017845 87 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPL-KKAVDIE 164 (365)
Q Consensus 87 l~vd~~~L~~LmeMGF~~~~arrALra~~~-dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~-~~~vd~~ 164 (365)
+..|...+.||++||||+++|.|||-+++| |.+.||||||+||+||+...+ .+ + ....|. .+.|++.
T Consensus 555 ~t~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP------~~---~--~~~vPKkDkeVdE~ 623 (749)
T COG5207 555 FTDNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDP------FV---P--PPNVPKKDKEVDES 623 (749)
T ss_pred cCchHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCC------CC---C--CCCCCcccccccHH
Confidence 678899999999999999999999999976 899999999999999986632 11 1 111222 2368999
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhc-CCCc
Q 017845 165 KIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE 201 (365)
Q Consensus 165 ~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L-~~p~ 201 (365)
.+..|.+|||+..+||+||--.+||+.++++|+ .|||
T Consensus 624 ~~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~N~~D 661 (749)
T COG5207 624 KARSLLENGLNPNLCRKALMDMNTDSKRRVVWCINDDD 661 (749)
T ss_pred HHHHHHHcCCCHHHHHHHHHHccCCchheEEEEEeCCC
Confidence 999999999999999999999999999999996 4443
No 8
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=1.2e-11 Score=126.23 Aligned_cols=101 Identities=21% Similarity=0.277 Sum_probs=84.6
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcCC-CHHHHHhhc----CCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCC
Q 017845 161 VDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDL----TNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFE 235 (365)
Q Consensus 161 vd~~~l~~L~~MGF~~~~Ar~ALr~t~n-dve~Al~~L----~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~ 235 (365)
.+.-.|.+|++|||+...|.+||-.|+| |.+.||+|| .||++++++..+ +...+....+++..+..|.+|||.
T Consensus 557 ~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~--~~vPKkDkeVdE~~~~Slle~Gln 634 (749)
T COG5207 557 DNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDPFVPP--PNVPKKDKEVDESKARSLLENGLN 634 (749)
T ss_pred chHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCCCCCC--CCCCcccccccHHHHHHHHHcCCC
Confidence 3566899999999999999999999988 899999998 468876554332 222233346799999999999999
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 017845 236 RPRVIEACRAGGDDIHQIMLQLLGEPGS 263 (365)
Q Consensus 236 ~~~A~~AL~~~~nnve~A~e~Ll~~~~~ 263 (365)
..+++.||.-.+||++++++|.|+|++.
T Consensus 635 ~n~~Rkal~~~n~d~~r~V~w~~N~~D~ 662 (749)
T COG5207 635 PNLCRKALMDMNTDSKRRVVWCINDDDG 662 (749)
T ss_pred HHHHHHHHHHccCCchheEEEEEeCCCC
Confidence 9999999999999999999999996554
No 9
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.21 E-value=1.4e-11 Score=84.30 Aligned_cols=37 Identities=38% Similarity=0.776 Sum_probs=34.7
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 017845 89 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 125 (365)
Q Consensus 89 vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L 125 (365)
||++.|.+|++|||++..|++||++|+||++.|++||
T Consensus 1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 1 IDEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp SHHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 5789999999999999999999999999999999997
No 10
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=99.02 E-value=4.7e-10 Score=76.69 Aligned_cols=38 Identities=34% Similarity=0.710 Sum_probs=35.7
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 90 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 90 d~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e 127 (365)
++++|++|++|||++.+|+.||+.|+||++.|++||++
T Consensus 1 ~~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 1 DEEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 46789999999999999999999999999999999974
No 11
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=99.02 E-value=4.3e-10 Score=76.53 Aligned_cols=37 Identities=30% Similarity=0.618 Sum_probs=35.0
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 017845 90 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 126 (365)
Q Consensus 90 d~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~ 126 (365)
++++|++|++|||++.+|++||+.|+||++.|++||+
T Consensus 1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 4688999999999999999999999999999999985
No 12
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=98.97 E-value=8.4e-10 Score=75.51 Aligned_cols=36 Identities=33% Similarity=0.516 Sum_probs=33.5
Q ss_pred cHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017845 222 ADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQL 257 (365)
Q Consensus 222 ~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~L 257 (365)
+++.|.+|++|||+++.|+.||+.|+||+++|++||
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 567899999999999999999999999999999998
No 13
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.84 E-value=6.2e-09 Score=71.13 Aligned_cols=37 Identities=35% Similarity=0.556 Sum_probs=34.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLG 259 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~ 259 (365)
++.|++|++|||+++.|+.||+.|+||++.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 4679999999999999999999999999999999984
No 14
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.82 E-value=7e-09 Score=70.51 Aligned_cols=36 Identities=36% Similarity=0.613 Sum_probs=34.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHh
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLL 258 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll 258 (365)
++.|++|++|||+++.|+.||+.|+||++.|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 467999999999999999999999999999999996
No 15
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.66 E-value=4.9e-05 Score=77.04 Aligned_cols=42 Identities=29% Similarity=0.374 Sum_probs=38.5
Q ss_pred ccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 017845 221 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPG 262 (365)
Q Consensus 221 ~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~~ 262 (365)
..+..|.+|++|||+|++++.|||+.-||-++|++||++.--
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP 196 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIP 196 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCC
Confidence 347899999999999999999999999999999999998743
No 16
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.14 E-value=0.0011 Score=65.66 Aligned_cols=43 Identities=23% Similarity=0.339 Sum_probs=39.1
Q ss_pred ccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 017845 221 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGS 263 (365)
Q Consensus 221 ~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~~~ 263 (365)
..+..|.+++.|||+++.++.|||+.=||-++|++||++.--.
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~ 176 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPE 176 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCcc
Confidence 5678899999999999999999999999999999999986444
No 17
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=95.86 E-value=0.024 Score=39.61 Aligned_cols=38 Identities=26% Similarity=0.350 Sum_probs=33.9
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 128 (365)
Q Consensus 91 ~~~L~~LmeM--GF~~~~arrALra~~~dve~Av~~L~e~ 128 (365)
++.|.+|.+| .++....+.+|..++||++.|++.|++.
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 5778999999 8889999999999999999999999875
No 18
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=95.60 E-value=0.026 Score=39.37 Aligned_cols=37 Identities=22% Similarity=0.354 Sum_probs=32.8
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHHHHhc
Q 017845 223 DAKIEQLVAM--GFERPRVIEACRAGGDDIHQIMLQLLG 259 (365)
Q Consensus 223 ~~~I~~L~~M--GF~~~~A~~AL~~~~nnve~A~e~Ll~ 259 (365)
++.|.+|.+| .+++...+.+|++++||++.|++.|+.
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 3568889999 899999999999999999999999985
No 19
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=95.36 E-value=0.038 Score=38.83 Aligned_cols=40 Identities=18% Similarity=0.261 Sum_probs=31.6
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 017845 224 AKIEQLVAM-GFERPRVIEACRAGGDDIHQIMLQLLGEPGS 263 (365)
Q Consensus 224 ~~I~~L~~M-GF~~~~A~~AL~~~~nnve~A~e~Ll~~~~~ 263 (365)
+.|.++++. |.+++.|+.-|+.+++|++.|++.-|.+++.
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~ 42 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA 42 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence 456676666 9999999999999999999999998876543
No 20
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=95.32 E-value=0.036 Score=38.93 Aligned_cols=41 Identities=24% Similarity=0.343 Sum_probs=32.5
Q ss_pred HHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhhhh
Q 017845 91 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEKAK 131 (365)
Q Consensus 91 ~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~~d 131 (365)
+++|.++|+. |.++..|+.-|..+++|++.|++..++..+.
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~ 42 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA 42 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence 3567777765 9999999999999999999999999887543
No 21
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.23 E-value=0.047 Score=38.19 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=33.8
Q ss_pred CHHHHHHHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHHh
Q 017845 90 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 128 (365)
Q Consensus 90 d~~~L~~LmeM--GF~~~~arrALra~~~dve~Av~~L~e~ 128 (365)
.++.+.+|.+| .++...++..|+.++||++.|++-|++.
T Consensus 2 ~~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46789999999 5667899999999999999999998764
No 22
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.13 E-value=0.062 Score=37.56 Aligned_cols=38 Identities=16% Similarity=0.287 Sum_probs=33.8
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 017845 223 DAKIEQLVAM--GFERPRVIEACRAGGDDIHQIMLQLLGE 260 (365)
Q Consensus 223 ~~~I~~L~~M--GF~~~~A~~AL~~~~nnve~A~e~Ll~~ 260 (365)
.+.+.+|.+| .++...++..|+.++||++.|++.|+..
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4568889999 7889999999999999999999999864
No 23
>PRK09377 tsf elongation factor Ts; Provisional
Probab=94.52 E-value=0.061 Score=52.98 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=36.8
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhh
Q 017845 89 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 129 (365)
Q Consensus 89 vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~ 129 (365)
|....|..|-++ |.+..+|++||..|+||++.|++||.++-
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 566778888887 99999999999999999999999998754
No 24
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=94.52 E-value=0.06 Score=53.03 Aligned_cols=42 Identities=24% Similarity=0.218 Sum_probs=37.3
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhhh
Q 017845 89 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEKA 130 (365)
Q Consensus 89 vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~~ 130 (365)
|....|..|-++ |.+..+||+||..|+||++.|++||.++--
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG~ 45 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESGI 45 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhch
Confidence 566778888887 999999999999999999999999987643
No 25
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=94.39 E-value=0.073 Score=49.65 Aligned_cols=41 Identities=24% Similarity=0.325 Sum_probs=36.5
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhh
Q 017845 89 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 129 (365)
Q Consensus 89 vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~ 129 (365)
|+...|..|-++ |.+..+|++||..++||++.|++||...-
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~g 44 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKG 44 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 566778888887 99999999999999999999999998764
No 26
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=93.85 E-value=0.051 Score=52.83 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=35.0
Q ss_pred HHHHHhCCCCHHHHHHHHHHhC-CCHHHHHHHH-HHhhhhHH
Q 017845 94 LSLVMSMGFKEQDAKRALRICS-QDVGSAIDFL-VEEKAKRV 133 (365)
Q Consensus 94 L~~LmeMGF~~~~arrALra~~-~dve~Av~~L-~e~~~d~~ 133 (365)
+++||+|||+...+-+||.-++ .+++.|+.|| +.|-.++.
T Consensus 4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~ 45 (290)
T KOG2689|consen 4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI 45 (290)
T ss_pred HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence 3789999999999999999884 4799999999 88877765
No 27
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.66 E-value=0.071 Score=39.89 Aligned_cols=27 Identities=37% Similarity=0.599 Sum_probs=21.1
Q ss_pred ccHHHHHHHHhCCCCHHHHHHHHHHcC
Q 017845 221 AADAKIEQLVAMGFERPRVIEACRAGG 247 (365)
Q Consensus 221 ~~~~~I~~L~~MGF~~~~A~~AL~~~~ 247 (365)
.+.+.|.++++|||+++.+++||+.-+
T Consensus 8 i~~~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 8 IDKDLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp -SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred CCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence 467889999999999999999998654
No 28
>CHL00098 tsf elongation factor Ts
Probab=93.38 E-value=0.14 Score=47.91 Aligned_cols=38 Identities=24% Similarity=0.262 Sum_probs=33.1
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhh
Q 017845 92 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 129 (365)
Q Consensus 92 ~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~ 129 (365)
+.|..|-++ |.+..+|++||-.++||++.|++||.++-
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~g 41 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQKG 41 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 456677766 99999999999999999999999998764
No 29
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=93.26 E-value=0.18 Score=43.25 Aligned_cols=42 Identities=31% Similarity=0.542 Sum_probs=37.7
Q ss_pred cCCCCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 86 QLQVPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 86 ~l~vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e 127 (365)
+..|+++.|..+|+- |-++.+|++||..|+||+-.|+-+|.+
T Consensus 72 ~~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 72 EVEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred cCCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 357899999998876 999999999999999999999999865
No 30
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=92.81 E-value=0.16 Score=47.41 Aligned_cols=37 Identities=27% Similarity=0.285 Sum_probs=33.7
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 161 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 161 vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
++...|..|.++ |.+.-.|++||..++||++.|++||
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~l 40 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWL 40 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 456778889888 8888999999999999999999998
No 31
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.73 E-value=0.14 Score=47.32 Aligned_cols=40 Identities=23% Similarity=0.300 Sum_probs=36.8
Q ss_pred ccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 017845 221 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGE 260 (365)
Q Consensus 221 ~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~ 260 (365)
.+...|..|.+|||++..++.+|...+-|++.|.+.||+.
T Consensus 161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 161 WDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred hhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 4688999999999999999999999999999999998863
No 32
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.73 E-value=0.32 Score=44.96 Aligned_cols=40 Identities=20% Similarity=0.285 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 88 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 88 ~vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e 127 (365)
-.+..++..|.+|||++.++..+|+..+-+++.|.+.+++
T Consensus 160 ~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s 199 (200)
T KOG0418|consen 160 PWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLS 199 (200)
T ss_pred chhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhcc
Confidence 3567899999999999999999999888899999988865
No 33
>PRK09377 tsf elongation factor Ts; Provisional
Probab=92.66 E-value=0.16 Score=50.09 Aligned_cols=37 Identities=27% Similarity=0.278 Sum_probs=34.2
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 161 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 161 vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
++...|..|.++ |..--.|++||..++||++.|++||
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~L 41 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWL 41 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 467789999998 8888999999999999999999999
No 34
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=92.54 E-value=0.21 Score=42.80 Aligned_cols=40 Identities=33% Similarity=0.572 Sum_probs=36.0
Q ss_pred CCCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 88 QVPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 88 ~vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e 127 (365)
.++++.+..+++- |-++.+|++||..|+||+-.|+-+|.+
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~~ 116 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLEE 116 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhhC
Confidence 5899999988875 999999999999999999999988853
No 35
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=92.53 E-value=0.17 Score=49.89 Aligned_cols=37 Identities=27% Similarity=0.315 Sum_probs=34.0
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 161 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 161 vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
++...|..|.++ |...-.|++||..++||++.|++||
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~L 40 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNL 40 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 456788999998 8888999999999999999999999
No 36
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=92.52 E-value=0.16 Score=49.38 Aligned_cols=39 Identities=23% Similarity=0.267 Sum_probs=33.6
Q ss_pred HHHHhCCCCHHHHHHHHHHc-CCCHHHHHHHH-hcCCCCCC
Q 017845 227 EQLVAMGFERPRVIEACRAG-GDDIHQIMLQL-LGEPGSNP 265 (365)
Q Consensus 227 ~~L~~MGF~~~~A~~AL~~~-~nnve~A~e~L-l~~~~~~~ 265 (365)
.+|+.|||++..+..||..+ +.++++|++|| .+|-+++.
T Consensus 5 ~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~ 45 (290)
T KOG2689|consen 5 QSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI 45 (290)
T ss_pred HHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence 78999999999999999988 55899999999 66666544
No 37
>CHL00098 tsf elongation factor Ts
Probab=90.77 E-value=0.35 Score=45.25 Aligned_cols=34 Identities=35% Similarity=0.378 Sum_probs=30.3
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 164 EKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 164 ~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
..|..|.++ |.+--.|++||..++||++.|++||
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~L 37 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANGDFEKALESL 37 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 457778777 8888999999999999999999998
No 38
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=89.90 E-value=0.68 Score=39.74 Aligned_cols=40 Identities=18% Similarity=0.315 Sum_probs=34.7
Q ss_pred cccHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHHHhc
Q 017845 220 QAADAKIEQLVAM-GFERPRVIEACRAGGDDIHQIMLQLLG 259 (365)
Q Consensus 220 ~~~~~~I~~L~~M-GF~~~~A~~AL~~~~nnve~A~e~Ll~ 259 (365)
.++++.|..+++- |-++..|++||+.|+||+-.|+-+|-+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 3577888887765 999999999999999999999988853
No 39
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=89.51 E-value=0.5 Score=49.43 Aligned_cols=37 Identities=43% Similarity=0.698 Sum_probs=32.9
Q ss_pred HHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHHHhc
Q 017845 223 DAKIEQLVAMGF-ERPRVIEACRAGGDDIHQIMLQLLG 259 (365)
Q Consensus 223 ~~~I~~L~~MGF-~~~~A~~AL~~~~nnve~A~e~Ll~ 259 (365)
+.-++||..||| ++++..+||++++||+++|++.|+.
T Consensus 455 q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 455 QTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 556799999997 5778999999999999999999974
No 40
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=88.87 E-value=0.79 Score=39.36 Aligned_cols=38 Identities=16% Similarity=0.297 Sum_probs=33.1
Q ss_pred ccHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHHHh
Q 017845 221 AADAKIEQLVAM-GFERPRVIEACRAGGDDIHQIMLQLL 258 (365)
Q Consensus 221 ~~~~~I~~L~~M-GF~~~~A~~AL~~~~nnve~A~e~Ll 258 (365)
++++.|..+++- |-++..|++||+.|+||+-.|+-+|-
T Consensus 77 i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 77 ITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 577778877755 99999999999999999999998773
No 41
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=88.76 E-value=0.45 Score=35.65 Aligned_cols=27 Identities=19% Similarity=0.350 Sum_probs=22.0
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 89 VPDESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 89 vd~~~L~~LmeMGF~~~~arrALra~~ 115 (365)
+|.+.|.++..|||+......|||.-+
T Consensus 8 i~~~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 8 IDKDLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp -SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred CCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence 689999999999999999999999875
No 42
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=85.32 E-value=1.2 Score=31.91 Aligned_cols=24 Identities=21% Similarity=0.574 Sum_probs=21.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
++++..|+.+||++.++.+|++..
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 678999999999999999999977
No 43
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=84.61 E-value=1.7 Score=42.92 Aligned_cols=39 Identities=26% Similarity=0.317 Sum_probs=33.2
Q ss_pred HHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhh
Q 017845 91 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 129 (365)
Q Consensus 91 ~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~ 129 (365)
...|..|-++ |=+..+|++||-.++||+|.|++||-+.-
T Consensus 6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 4556667766 88899999999999999999999998753
No 44
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=83.32 E-value=1.7 Score=42.97 Aligned_cols=36 Identities=28% Similarity=0.249 Sum_probs=30.1
Q ss_pred CHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 162 DIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 162 d~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
....|..|.+. |=..-.|++||..++||++.|++||
T Consensus 5 ta~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~L 41 (296)
T COG0264 5 TAALVKELREKTGAGMMDCKKALEEANGDIEKAIEWL 41 (296)
T ss_pred cHHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence 45567777776 5555889999999999999999998
No 45
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=81.90 E-value=1.9 Score=34.78 Aligned_cols=35 Identities=23% Similarity=0.194 Sum_probs=29.7
Q ss_pred HHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 017845 226 IEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGE 260 (365)
Q Consensus 226 I~~L~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~ 260 (365)
|..+.+.||+...+..||.+|.+|+..|..++++.
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 34567889999999999999999999999988776
No 46
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=81.76 E-value=2 Score=45.06 Aligned_cols=37 Identities=27% Similarity=0.442 Sum_probs=31.3
Q ss_pred HHHHHHHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 91 DESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 91 ~~~L~~LmeMGF~-~~~arrALra~~~dve~Av~~L~e 127 (365)
...|.||-+|||. +.+..+||++++|||.+||+-|+.
T Consensus 455 q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 455 QTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 4678999999996 555677999999999999998763
No 47
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=81.36 E-value=2.2 Score=34.42 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=31.2
Q ss_pred HHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhh
Q 017845 95 SLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA 130 (365)
Q Consensus 95 ~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~~ 130 (365)
..+-+.||+...+-.||++|.||+..|..|+.+...
T Consensus 2 ~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~l~ 37 (87)
T PF11626_consen 2 KHYEELGYSREFVTHALYATSGDPELARRFVLNFLQ 37 (87)
T ss_dssp HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHCHC
T ss_pred chHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 346788999999999999999999999999988854
No 48
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=81.06 E-value=2.2 Score=30.42 Aligned_cols=24 Identities=21% Similarity=0.457 Sum_probs=20.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHhc
Q 017845 163 IEKIKELVSIGFEKELVAEALRRN 186 (365)
Q Consensus 163 ~~~l~~L~~MGF~~~~Ar~ALr~t 186 (365)
.+.+..|+++||++..+.+|++..
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 467899999999999999998864
No 49
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=80.06 E-value=3.5 Score=35.71 Aligned_cols=40 Identities=30% Similarity=0.441 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHH
Q 017845 87 LQVPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLV 126 (365)
Q Consensus 87 l~vd~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~ 126 (365)
..++++-+...|+- |-++++|++||..++||+-.|+-.|.
T Consensus 81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 45788888877764 99999999999999999888876653
No 50
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=75.23 E-value=5.4 Score=33.86 Aligned_cols=47 Identities=26% Similarity=0.396 Sum_probs=40.2
Q ss_pred HhhhccCCCCHHHHHHHH-hCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 81 QAKFFQLQVPDESLSLVM-SMGFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 81 ~~~~~~l~vd~~~L~~Lm-eMGF~~~~arrALra~~~dve~Av~~L~e 127 (365)
+..+.+++|+.+-|..+| +|-.+...|.+-||.++|||-.|+.-|..
T Consensus 71 EKELakV~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s 118 (119)
T KOG3450|consen 71 EKELAKVTIKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS 118 (119)
T ss_pred HhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence 456788999999999666 68889999999999999999999887764
No 51
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=72.39 E-value=7.3 Score=33.79 Aligned_cols=38 Identities=26% Similarity=0.339 Sum_probs=32.3
Q ss_pred cCCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 160 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 160 ~vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
.++.+.|...++- |-+++.|++||..++||+-.|+--|
T Consensus 82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 3677888877766 9999999999999999998887654
No 52
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=71.60 E-value=3.4 Score=28.63 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=20.7
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHH
Q 017845 234 FERPRVIEACRAGGDDIHQIMLQL 257 (365)
Q Consensus 234 F~~~~A~~AL~~~~nnve~A~e~L 257 (365)
|++.....||+.|+||+..|+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 567788999999999999999987
No 53
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=66.81 E-value=2.1 Score=32.60 Aligned_cols=30 Identities=23% Similarity=0.428 Sum_probs=22.2
Q ss_pred HHHHhCCCCHHHHHHHHHHhCCC-HHHHHHH
Q 017845 95 SLVMSMGFKEQDAKRALRICSQD-VGSAIDF 124 (365)
Q Consensus 95 ~~LmeMGF~~~~arrALra~~~d-ve~Av~~ 124 (365)
..||+|||++..|+.-+|.+... |++-..|
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~~lV~~G~~~ 37 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKALLVQKGFSF 37 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence 36999999999999999986532 4443334
No 54
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=64.28 E-value=10 Score=26.60 Aligned_cols=25 Identities=20% Similarity=0.151 Sum_probs=20.2
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHHh
Q 017845 234 FERPRVIEACRAGGDDIHQIMLQLL 258 (365)
Q Consensus 234 F~~~~A~~AL~~~~nnve~A~e~Ll 258 (365)
-.++.-...|+.|+||+-+|++.++
T Consensus 15 ~kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 15 QKRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred CChHHHHHHHHHcCCcHHHHHHHhC
Confidence 3456677889999999999998763
No 55
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=63.10 E-value=27 Score=34.43 Aligned_cols=24 Identities=8% Similarity=0.192 Sum_probs=22.0
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHHH
Q 017845 233 GFERPRVIEACRAGGDDIHQIMLQ 256 (365)
Q Consensus 233 GF~~~~A~~AL~~~~nnve~A~e~ 256 (365)
|++...|+..|..++|++..|++-
T Consensus 274 ~~~~~~a~~~l~~~~g~~~~~~~~ 297 (299)
T PRK05441 274 GLDAAEAKALLARHGGFLRKALAE 297 (299)
T ss_pred CCCHHHHHHHHHHcCCCHHHHHhh
Confidence 799999999999999999999864
No 56
>PF08031 BBE: Berberine and berberine like ; InterPro: IPR012951 This domain is found in the berberine bridge and berberine bridge-like enzymes, which are involved in the biosynthesis of numerous isoquinoline alkaloids. They catalyse the transformation of the N-methyl group of (S)-reticuline into the C-8 berberine bridge carbon of (S)-scoulerine [].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 2IPI_A 2Y3S_A 2Y3R_D 2Y08_B 2Y4G_A 3D2H_A 3FW9_A 3FW8_A 3FWA_A 3D2J_A ....
Probab=61.95 E-value=3.6 Score=29.43 Aligned_cols=27 Identities=19% Similarity=0.305 Sum_probs=21.1
Q ss_pred HHHHHhcCCChHHHHHHHhCCCchhhH
Q 017845 26 EGIERAHGKDSSRVRLLQAGRHPELAL 52 (365)
Q Consensus 26 ~~f~~~yG~~~~Rl~~lkg~~~~E~~l 52 (365)
......||+|..||+.||...-|+-++
T Consensus 14 ~~~~~yyg~n~~rL~~iK~~yDP~n~F 40 (47)
T PF08031_consen 14 DWQEAYYGENYDRLRAIKRKYDPDNVF 40 (47)
T ss_dssp HHHHHHHGGGHHHHHHHHHHH-TT-TS
T ss_pred HHHHHHhchhHHHHHHHHHHhCcccee
Confidence 556789999999999999988776544
No 57
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=60.95 E-value=19 Score=33.82 Aligned_cols=62 Identities=26% Similarity=0.298 Sum_probs=46.7
Q ss_pred CeehhhhhCCCCChHHHHHHHHHHHHHHHHhcC------CChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHH
Q 017845 1 MVWCYFMLRDISWLSEAGIRLRKAREGIERAHG------KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKAR 74 (365)
Q Consensus 1 ivWcy~~L~~~~~L~dA~~rL~~~~~~f~~~yG------~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~ 74 (365)
|.|+|.-+++ -.....=|++|-+.|.++|= ..+.++ +|-.|=|-+.+.=|++++|.
T Consensus 124 lAWlyR~~~~---~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~---------------~l~YLigeL~rrlg~~~eA~ 185 (214)
T PF09986_consen 124 LAWLYRDLGD---EENEKRFLRKALEFYEEAYENEDFPIEGMDEA---------------TLLYLIGELNRRLGNYDEAK 185 (214)
T ss_pred HHHHhhccCC---HHHHHHHHHHHHHHHHHHHHhCcCCCCCchHH---------------HHHHHHHHHHHHhCCHHHHH
Confidence 5799988888 45555668999999999982 222222 25557899999999999999
Q ss_pred HHhHHH
Q 017845 75 NALTSA 80 (365)
Q Consensus 75 ~~l~~A 80 (365)
..|.+.
T Consensus 186 ~~fs~v 191 (214)
T PF09986_consen 186 RWFSRV 191 (214)
T ss_pred HHHHHH
Confidence 888765
No 58
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=60.34 E-value=11 Score=36.86 Aligned_cols=222 Identities=17% Similarity=0.156 Sum_probs=108.4
Q ss_pred HHHHhcCCChHHHHHHHh------CCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhcc-CCC-CHHHHHHHH
Q 017845 27 GIERAHGKDSSRVRLLQA------GRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ-LQV-PDESLSLVM 98 (365)
Q Consensus 27 ~f~~~yG~~~~Rl~~lkg------~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~-l~v-d~~~L~~Lm 98 (365)
.|.++-|-....+..|=- ...-+.-+.-+++.|+++..- ..+....+.+....+.. ... -...|.-|.
T Consensus 38 ~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~s----~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~ 113 (345)
T PF02536_consen 38 EFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGLS----DEDIVKVLKRYPRILSFSVEENLSPNVAFLR 113 (345)
T ss_dssp HHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-----HHHHHHHHHH-SHHHHS---HHHHHHHHHHH
T ss_pred HHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcCC----HHHHHHHHHhcchhhccchHhhhhhhhhHHh
Confidence 466888888665554432 123377888899999988542 24445555544333321 110 135678899
Q ss_pred hCCCCHHHHHHHHHHh-----C-CCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC
Q 017845 99 SMGFKEQDAKRALRIC-----S-QDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI 172 (365)
Q Consensus 99 eMGF~~~~arrALra~-----~-~dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~~vd~~~l~~L~~M 172 (365)
+.|.+...-..-|... + .++...++|+.+---++..... .-...+.-........ =...|.-|.++
T Consensus 114 ~lGv~~~~~~~~l~~~~~~~~~~~~~~~~v~~l~~lG~~~~~~~~------vi~~~P~~l~~~~~~~--~~~~v~~L~~~ 185 (345)
T PF02536_consen 114 SLGVPPSQIISLLISRPPLFLSSEKIKERVEFLKELGFDPEKIGR------VIAKNPRLLLSDSESE--LKPKVEFLRSL 185 (345)
T ss_dssp HTT--HHHHHHHHHH-CHHHHS-HHHHCHHHHHCCCTSSHHHHCC------CHHHHHHHHCGSCCCC--CHHHHHHHHHC
T ss_pred hcCCcHHHHHHHHHhcCccccchhHHHHHHHHHHHhCCCchhhcc------cccccchhhccccHHH--HHHHHHHHHhh
Confidence 9999987333333221 1 2477777777554333332211 0001110111111111 24578999999
Q ss_pred CCCHHHHHHHHHhcCCCH-------HHHHhh-cCC---CcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHH
Q 017845 173 GFEKELVAEALRRNENDS-------QKALDD-LTN---PESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIE 241 (365)
Q Consensus 173 GF~~~~Ar~ALr~t~ndv-------e~Al~~-L~~---p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~ 241 (365)
||+.+...+.+..++.-+ .+...+ +.. ++. ..+...+.-...+ ...-...++-|.++||+.+++..
T Consensus 186 G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~-~~i~~~p~il~~~--~~~l~~~i~~L~~lG~s~~ei~~ 262 (345)
T PF02536_consen 186 GFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE-RVIKKFPQILSLS--EEKLKPKIEFLQSLGFSEEEIAK 262 (345)
T ss_dssp TT-GHHHHHHHHHTTTGGGCGCHC----------------------------THH--HHHHHHHHHHHHTTT--HHHHHH
T ss_pred cccchhhhHHhhcccceeccccccccccccccccccccccc-ccccccccccccc--hHhHHHHHHHHHHhcCcHHHHHH
Confidence 999999999999876521 112222 211 000 1111111000000 01134578889999999999999
Q ss_pred HHHHcCC-------CHHHHHHHHhcCCCC
Q 017845 242 ACRAGGD-------DIHQIMLQLLGEPGS 263 (365)
Q Consensus 242 AL~~~~n-------nve~A~e~Ll~~~~~ 263 (365)
.++.+-. .+..-++||.+..+-
T Consensus 263 mv~~~P~iL~~s~e~l~~k~~fl~~~m~~ 291 (345)
T PF02536_consen 263 MVRRFPQILSYSIEKLKPKFEFLVKEMGL 291 (345)
T ss_dssp HHHHSGGGGGS-HHHHHHHHHHHHHCCT-
T ss_pred HHHhCcchhhcchhhhhHHHHHHHHHhCc
Confidence 9987643 255666888776544
No 59
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=60.33 E-value=17 Score=36.41 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=34.5
Q ss_pred HHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHHhhhh
Q 017845 91 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEKAK 131 (365)
Q Consensus 91 ~~~L~~LmeM-GF~~~~arrALra~~~dve~Av~~L~e~~~d 131 (365)
...|.+|-+- |++...||.||-.|+||+..|..||.+....
T Consensus 47 ~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~aqk 88 (340)
T KOG1071|consen 47 KALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKAQK 88 (340)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence 4556666553 9999999999999999999999999887654
No 60
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=59.71 E-value=27 Score=34.41 Aligned_cols=50 Identities=14% Similarity=0.114 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHhcCCCHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHH
Q 017845 173 GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQ 252 (365)
Q Consensus 173 GF~~~~Ar~ALr~t~ndve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~ 252 (365)
|.+...|+++|.++++.+-.|+=. ..-|++.+.|+..|..++|++-.
T Consensus 242 ~~~~~~a~~~l~~~~~~vk~Ai~~---------------------------------~~~~~~~~~a~~~l~~~~g~~~~ 288 (291)
T TIGR00274 242 DCNKELAEQTLLAADQNVKLAIVM---------------------------------ILSTLSASEAKVLLDRHGGFLRQ 288 (291)
T ss_pred CcCHHHHHHHHHHhCCCcHHHHHH---------------------------------HHhCCCHHHHHHHHHHcCCcHHH
Confidence 666667777777766655555431 11279999999999999999998
Q ss_pred HHH
Q 017845 253 IML 255 (365)
Q Consensus 253 A~e 255 (365)
|++
T Consensus 289 ~l~ 291 (291)
T TIGR00274 289 ALD 291 (291)
T ss_pred hhC
Confidence 874
No 61
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=59.45 E-value=17 Score=34.02 Aligned_cols=24 Identities=21% Similarity=0.499 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
++++..|+.+||++.+|++|+...
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 678999999999999999999987
No 62
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=58.97 E-value=5.7 Score=31.48 Aligned_cols=35 Identities=31% Similarity=0.333 Sum_probs=26.6
Q ss_pred HHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHHhhhh
Q 017845 97 VMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEKAK 131 (365)
Q Consensus 97 LmeMGF-~~~~arrALra~~~dve~Av~~L~e~~~d 131 (365)
.++=.. +..+.+.||.+++-||+.|++||.+....
T Consensus 38 ~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~~~~ 73 (79)
T PF08938_consen 38 VLGDYVPPEEQIKEALWHYYFDVEKALDYLLSKFKK 73 (79)
T ss_dssp HCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHCCHS
T ss_pred HHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence 333344 88899999999999999999999988544
No 63
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=58.82 E-value=32 Score=30.21 Aligned_cols=47 Identities=19% Similarity=0.226 Sum_probs=39.0
Q ss_pred HHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 80 AQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 80 A~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e 127 (365)
|+..+..-+++.+.+..|.+-|-++.+||+||..++ |+-.||..+..
T Consensus 104 ae~il~~s~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~~ 150 (153)
T COG4008 104 AEYILGHSEPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILRM 150 (153)
T ss_pred HHHHhccCCCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHHH
Confidence 344445567788999999999999999999999877 99999988754
No 64
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=58.19 E-value=17 Score=33.63 Aligned_cols=24 Identities=29% Similarity=0.718 Sum_probs=22.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
+++++.|+.+||++.+|++|++..
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhc
Confidence 689999999999999999999876
No 65
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=57.68 E-value=28 Score=29.14 Aligned_cols=95 Identities=19% Similarity=0.372 Sum_probs=57.6
Q ss_pred hhCCCCChHHHHHHHHHHHHHHH-HhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhc
Q 017845 7 MLRDISWLSEAGIRLRKAREGIE-RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF 85 (365)
Q Consensus 7 ~L~~~~~L~dA~~rL~~~~~~f~-~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~ 85 (365)
.|++...|+|..---..++..+. +.||...-+-...+-|..++. ...++. ..++....+.-++.++.
T Consensus 17 ~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~--------i~~~l~----~~~~~e~a~~~~~kk~~ 84 (121)
T PF02631_consen 17 RLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQKGIDREI--------IEEALE----EYDEEEEALELAEKKYR 84 (121)
T ss_dssp HHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHTT--HHH--------HHHHHT----CS-HHHHHHHHHHHHHH
T ss_pred HHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHHCCChHH--------HHHHHH----HhhHHHHHHHHHHHHHh
Confidence 35667788898888888999998 999999998888887777663 334444 12222234444444444
Q ss_pred cCC--CC----HHHHHHHHhCCCCHHHHHHHHHH
Q 017845 86 QLQ--VP----DESLSLVMSMGFKEQDAKRALRI 113 (365)
Q Consensus 86 ~l~--vd----~~~L~~LmeMGF~~~~arrALra 113 (365)
... .+ .-.+..||.-||+...+++++..
T Consensus 85 ~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 85 RYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred cccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 431 12 23455889999999999999875
No 66
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.67 E-value=21 Score=33.00 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
++++..|+.+||++.+|++|+...
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 678999999999999999999977
No 67
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=56.52 E-value=15 Score=30.16 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=9.3
Q ss_pred HhhhcccCChhHHHHHhHHH
Q 017845 61 GVAAYHSGQFDKARNALTSA 80 (365)
Q Consensus 61 gvv~~h~g~~~~A~~~l~~A 80 (365)
|.+.+..|+.++|...+..+
T Consensus 58 a~~~~~~~~~~~A~~~~~~~ 77 (135)
T TIGR02552 58 AACCQMLKEYEEAIDAYALA 77 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444445555444444
No 68
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=56.27 E-value=11 Score=28.71 Aligned_cols=33 Identities=24% Similarity=0.452 Sum_probs=24.2
Q ss_pred HHHHhCCCCHHHHHHHHHhcCCC-HHHHHhhcCC
Q 017845 167 KELVSIGFEKELVAEALRRNEND-SQKALDDLTN 199 (365)
Q Consensus 167 ~~L~~MGF~~~~Ar~ALr~t~nd-ve~Al~~L~~ 199 (365)
+.|++|||++.+|+.-+|+.... +++-..|..|
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~~lV~~G~~~Y~n 40 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKALLVQKGFSFYNN 40 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHcCCCcccC
Confidence 46899999999999999987653 4444444444
No 69
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=55.40 E-value=17 Score=33.51 Aligned_cols=25 Identities=24% Similarity=0.525 Sum_probs=22.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~ 115 (365)
++++..|+.+||++.++++|+....
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 6889999999999999999999764
No 70
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=54.07 E-value=1.3e+02 Score=25.10 Aligned_cols=71 Identities=18% Similarity=0.257 Sum_probs=35.0
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHHH
Q 017845 165 KIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACR 244 (365)
Q Consensus 165 ~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL~ 244 (365)
..+.|..-|++...+..+|. .....+.|..++. ..............-...+..|+.-||+.+.+..++.
T Consensus 48 I~~~L~~kGi~~~~i~~~l~-~~~~~e~a~~~~~---------kk~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~ 117 (121)
T PF02631_consen 48 IRQKLKQKGIDREIIEEALE-EYDEEEEALELAE---------KKYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVIS 117 (121)
T ss_dssp HHHHHHHTT--HHHHHHHHT-CS-HHHHHHHHHH---------HHHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCH
T ss_pred HHHHHHHHCCChHHHHHHHH-HhhHHHHHHHHHH---------HHHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHh
Confidence 34567777887777777776 1112233333220 0000000000011234567889999999999999987
Q ss_pred H
Q 017845 245 A 245 (365)
Q Consensus 245 ~ 245 (365)
.
T Consensus 118 ~ 118 (121)
T PF02631_consen 118 E 118 (121)
T ss_dssp H
T ss_pred h
Confidence 5
No 71
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=53.89 E-value=21 Score=33.05 Aligned_cols=24 Identities=25% Similarity=0.447 Sum_probs=21.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+..|.+|||++..|..|+...
T Consensus 148 ~e~~~aL~~LGy~~~e~~~ai~~~ 171 (191)
T TIGR00084 148 DELFEALVSLGYKPQEIQQALKKI 171 (191)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 567899999999999999999765
No 72
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=53.68 E-value=48 Score=25.36 Aligned_cols=27 Identities=22% Similarity=0.416 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHHh
Q 017845 102 FKEQDAKRALRICSQDVGSAIDFLVEE 128 (365)
Q Consensus 102 F~~~~arrALra~~~dve~Av~~L~e~ 128 (365)
+++.+.-..|+-||+|++.|++-|+..
T Consensus 19 hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 19 HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 799999999999999999999999986
No 73
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=53.62 E-value=33 Score=25.63 Aligned_cols=68 Identities=13% Similarity=0.021 Sum_probs=45.3
Q ss_pred HHHHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHH-HHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHh
Q 017845 53 HLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDE-SLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 128 (365)
Q Consensus 53 ~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~-~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~ 128 (365)
..+.+..=|.+.+..|++++|...+++|-.....+..+.. .+..+-.||. +....|+.+.|++|+..-
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~--------~~~~~g~~~~A~~~~~~a 72 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGE--------CYYRLGDYEEALEYYQKA 72 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH--------HHHHTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH--------HHHHcCCHHHHHHHHHHH
Confidence 3455666788999999999999999999777555543332 3334444432 333467899999997554
No 74
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=52.93 E-value=26 Score=35.22 Aligned_cols=38 Identities=21% Similarity=0.059 Sum_probs=34.3
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhcC
Q 017845 161 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT 198 (365)
Q Consensus 161 vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L~ 198 (365)
..+..|.+|.+- |++-..||+||-.++||+..|-.||.
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~ 83 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLH 83 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHH
Confidence 357789999877 99999999999999999999999984
No 75
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=51.27 E-value=24 Score=25.95 Aligned_cols=40 Identities=23% Similarity=0.249 Sum_probs=29.6
Q ss_pred cHHHHHHH--HhCCCCHHHHHHHHHHcCCCHHHHHHHHhcCC
Q 017845 222 ADAKIEQL--VAMGFERPRVIEACRAGGDDIHQIMLQLLGEP 261 (365)
Q Consensus 222 ~~~~I~~L--~~MGF~~~~A~~AL~~~~nnve~A~e~Ll~~~ 261 (365)
.++.|.+. +=-|=+++..+.-|+.|+=|++.|++-|++..
T Consensus 9 PedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRD 50 (53)
T PF11547_consen 9 PEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRD 50 (53)
T ss_dssp -HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhccc
Confidence 44455443 34499999999999999999999999998753
No 76
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=51.23 E-value=50 Score=32.57 Aligned_cols=50 Identities=16% Similarity=0.227 Sum_probs=37.3
Q ss_pred CCCHHHHHHHHHhcCCCHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHHHHcCCCHHH
Q 017845 173 GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQ 252 (365)
Q Consensus 173 GF~~~~Ar~ALr~t~ndve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL~~~~nnve~ 252 (365)
|.+...|.++|.++.+.+-.|+-. ...|++.+.|+..|..++|++..
T Consensus 243 ~~~~~~a~~~l~~~~~~vk~ai~~---------------------------------~~~~~~~~~a~~~l~~~~~~~~~ 289 (296)
T PRK12570 243 GCSEDEAKELLKESDNDVKLAILM---------------------------------ILTGMDVEQARAALSHADGFLRK 289 (296)
T ss_pred CcCHHHHHHHHHHhCCccHHHHHH---------------------------------HHhCCCHHHHHHHHHHcCChHHH
Confidence 667777777777777665555431 12279999999999999999999
Q ss_pred HHH
Q 017845 253 IML 255 (365)
Q Consensus 253 A~e 255 (365)
|++
T Consensus 290 ~l~ 292 (296)
T PRK12570 290 AIE 292 (296)
T ss_pred HHH
Confidence 986
No 77
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=51.10 E-value=34 Score=31.82 Aligned_cols=24 Identities=13% Similarity=0.470 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
++++..|+.+||+..++++|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 679999999999999999999976
No 78
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=50.66 E-value=27 Score=32.49 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=21.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+..|++|||++..|..|+...
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578899999999999999999765
No 79
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=49.32 E-value=30 Score=31.93 Aligned_cols=24 Identities=17% Similarity=0.498 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+.-|++|||++..|..|++..
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhc
Confidence 578899999999999999999865
No 80
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=48.98 E-value=29 Score=32.08 Aligned_cols=74 Identities=19% Similarity=0.218 Sum_probs=45.0
Q ss_pred HHHHHhcCCChHHHHHHHh--CCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHHhCCCC
Q 017845 26 EGIERAHGKDSSRVRLLQA--GRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFK 103 (365)
Q Consensus 26 ~~f~~~yG~~~~Rl~~lkg--~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~LmeMGF~ 103 (365)
+...-.--.|..+|..|+| ....|+-+ |+|-..+..... +... .....+-++.+..|..+||+
T Consensus 96 el~~aI~~~d~~~L~~ipGiGkKtAerIi---leLk~k~~~~~~---------~~~~---~~~~~~~~e~~~aL~~LGy~ 160 (191)
T TIGR00084 96 EFVYAIETEEVKALVKIPGVGKKTAERLL---LELKGKLKGNKN---------LEMF---TPTEAARDELFEALVSLGYK 160 (191)
T ss_pred HHHHHHHhCCHHHHHhCCCCCHHHHHHHH---HHHHhhhccccc---------cccc---ccccchHHHHHHHHHHcCCC
Confidence 3444444468888888886 34444444 777666532110 0000 00011226789999999999
Q ss_pred HHHHHHHHHHh
Q 017845 104 EQDAKRALRIC 114 (365)
Q Consensus 104 ~~~arrALra~ 114 (365)
..++++|+...
T Consensus 161 ~~e~~~ai~~~ 171 (191)
T TIGR00084 161 PQEIQQALKKI 171 (191)
T ss_pred HHHHHHHHHHH
Confidence 99999999876
No 81
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=48.38 E-value=26 Score=21.69 Aligned_cols=28 Identities=21% Similarity=0.196 Sum_probs=22.4
Q ss_pred HHHHHhhhcccCChhHHHHHhHHHHhhh
Q 017845 57 ELLEGVAAYHSGQFDKARNALTSAQAKF 84 (365)
Q Consensus 57 ~lLqgvv~~h~g~~~~A~~~l~~A~~~~ 84 (365)
....|.+.|..|++++|++.+.++-...
T Consensus 4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 4 WYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 4557999999999999999999886543
No 82
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=48.10 E-value=59 Score=23.31 Aligned_cols=50 Identities=24% Similarity=0.276 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhh
Q 017845 20 RLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 84 (365)
Q Consensus 20 rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~ 84 (365)
+...|.++|++.-..+ |. .....++.|.+.+++|+.++|...|..+-...
T Consensus 12 ~~~~A~~~~~~~l~~~------------P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~ 61 (65)
T PF13432_consen 12 DYDEAIAAFEQALKQD------------PD---NPEAWYLLGRILYQQGRYDEALAYYERALELD 61 (65)
T ss_dssp HHHHHHHHHHHHHCCS------------TT---HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHHHHC------------CC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 4556666666543333 22 55667788999999999999999888875543
No 83
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=47.52 E-value=18 Score=36.91 Aligned_cols=24 Identities=33% Similarity=0.585 Sum_probs=20.5
Q ss_pred ccHHHHHHHHhCCCCHHHHHHHHH
Q 017845 221 AADAKIEQLVAMGFERPRVIEACR 244 (365)
Q Consensus 221 ~~~~~I~~L~~MGF~~~~A~~AL~ 244 (365)
+-.+.|+.++.|||.++.++...+
T Consensus 320 p~ddvidKv~~MGf~rDqV~a~v~ 343 (358)
T PF07223_consen 320 PYDDVIDKVASMGFRRDQVRATVR 343 (358)
T ss_pred cHHHHHHHHHHcCCcHHHHHHHHH
Confidence 456899999999999999987654
No 84
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=47.05 E-value=45 Score=31.04 Aligned_cols=24 Identities=21% Similarity=0.409 Sum_probs=22.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 91 DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~ 114 (365)
++++..|+.+||++.++++|+...
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 688999999999999999999876
No 85
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=46.93 E-value=26 Score=25.76 Aligned_cols=43 Identities=14% Similarity=0.142 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHHh
Q 017845 53 HLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMS 99 (365)
Q Consensus 53 ~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~Lme 99 (365)
-..+++..|.+.|..|++.+|...|..+-..-+ ++....+++.
T Consensus 28 ~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p----~~~~~~~~~a 70 (73)
T PF13371_consen 28 DPELWLQRARCLFQLGRYEEALEDLERALELSP----DDPDARALRA 70 (73)
T ss_pred cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC----CcHHHHHHHH
Confidence 456677799999999999999999988764433 4555555444
No 86
>PLN03196 MOC1-like protein; Provisional
Probab=46.31 E-value=3.9e+02 Score=28.33 Aligned_cols=40 Identities=15% Similarity=0.061 Sum_probs=30.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC-------CCHHHHHHHHhcCCC
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGG-------DDIHQIMLQLLGEPG 262 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~-------nnve~A~e~Ll~~~~ 262 (365)
...++-|+.+||+.+.+..+++.+- .++...++||.+..+
T Consensus 341 ~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg 387 (487)
T PLN03196 341 LKHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMK 387 (487)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhC
Confidence 3467788999999999988887643 467888888887654
No 87
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=45.49 E-value=23 Score=33.13 Aligned_cols=25 Identities=20% Similarity=0.303 Sum_probs=22.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~ 115 (365)
++++..|+.+||++.+|++|++...
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~ 169 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIM 169 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 6889999999999999999998754
No 88
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=45.05 E-value=32 Score=24.11 Aligned_cols=22 Identities=27% Similarity=0.345 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhCCCHHHHHHHH
Q 017845 104 EQDAKRALRICSQDVGSAIDFL 125 (365)
Q Consensus 104 ~~~arrALra~~~dve~Av~~L 125 (365)
++.-...|+.|+|||-+||+.+
T Consensus 17 r~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 17 RSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred hHHHHHHHHHcCCcHHHHHHHh
Confidence 3445568999999999999975
No 89
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=43.67 E-value=86 Score=23.08 Aligned_cols=46 Identities=22% Similarity=0.288 Sum_probs=33.3
Q ss_pred cCCCCHHHHHHH--HhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhhh
Q 017845 86 QLQVPDESLSLV--MSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAK 131 (365)
Q Consensus 86 ~l~vd~~~L~~L--meMGF~~~~arrALra~~~dve~Av~~L~e~~~d 131 (365)
.-.|+++.+.+- +=-|=+++-..|-|+.|+=||..|+|-|..+-++
T Consensus 5 a~~vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDde 52 (53)
T PF11547_consen 5 ASQVPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDDE 52 (53)
T ss_dssp GGGS-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH--
T ss_pred cccCCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhccccC
Confidence 345677777643 3459999999999999999999999999987543
No 90
>PRK14135 recX recombination regulator RecX; Provisional
Probab=43.52 E-value=2.9e+02 Score=26.16 Aligned_cols=155 Identities=18% Similarity=0.235 Sum_probs=79.4
Q ss_pred hCCCCChHHHHHHHHHHHHHHHH-hcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhccc--CChhHHHHHhHHHHhhh
Q 017845 8 LRDISWLSEAGIRLRKAREGIER-AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS--GQFDKARNALTSAQAKF 84 (365)
Q Consensus 8 L~~~~~L~dA~~rL~~~~~~f~~-~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~--g~~~~A~~~l~~A~~~~ 84 (365)
|+....|+|..---..++..+.+ .||+..-|-...+.|..++.. +.++.... +-.+.|..+..+.-..+
T Consensus 98 l~~~~~ldD~~~a~~~~~~~~~~~~~g~~~I~~kL~~kGi~~~~I--------e~~l~~l~~~~~~d~a~~~~~k~~~~~ 169 (263)
T PRK14135 98 LKEEKYIDDKEYAESYVRTNINTGDKGPRVIKQKLLQKGIEDEII--------EEALSEYTEEDQIEVAQKLAEKLLKKY 169 (263)
T ss_pred HHHcCCCCHHHHHHHHHHHHHhccccchHHHHHHHHHcCCCHHHH--------HHHHHhCChhhHHHHHHHHHHHHHHHh
Confidence 45566677744444445555543 478887777777777776643 33333221 11233433333322222
Q ss_pred ccCCCC---HHHHHHHHhCCCCHHHHHHHHHHhCCC--HHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCCCC
Q 017845 85 FQLQVP---DESLSLVMSMGFKEQDAKRALRICSQD--VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKK 159 (365)
Q Consensus 85 ~~l~vd---~~~L~~LmeMGF~~~~arrALra~~~d--ve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 159 (365)
...... .-...-|+.-||+...+..+|....-+ -+.-.+-+...... ..++++.... .
T Consensus 170 ~~~~~~~~k~Ki~~~L~rkGf~~~~I~~~l~~~~~e~d~~~e~e~l~~~~~k----------------~~~k~~~~~~-~ 232 (263)
T PRK14135 170 QKLPFKALKQKIIQSLLTKGFSYEVIKAALEELDLEQDEEEEQELLQKELEK----------------AYRKYSKYDG-Y 232 (263)
T ss_pred cCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHcccCCChHHHHHHHHHHHHH----------------HHHHHhcCCH-H
Confidence 211100 123567999999999999999976422 21111111111100 0011110000 0
Q ss_pred cCCHHHHHHHHhCCCCHHHHHHHHHhcC
Q 017845 160 AVDIEKIKELVSIGFEKELVAEALRRNE 187 (365)
Q Consensus 160 ~vd~~~l~~L~~MGF~~~~Ar~ALr~t~ 187 (365)
......+..|+.=||+......+|....
T Consensus 233 k~k~K~~~~L~rrGF~~~~I~~~l~~~~ 260 (263)
T PRK14135 233 ELKQKLKQALYRKGFSYDDIDSFLREYG 260 (263)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHhc
Confidence 0012356789999999999999987643
No 91
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=41.38 E-value=67 Score=24.59 Aligned_cols=27 Identities=11% Similarity=0.181 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHHhcC
Q 017845 234 FERPRVIEACRAGGDDIHQIMLQLLGE 260 (365)
Q Consensus 234 F~~~~A~~AL~~~~nnve~A~e~Ll~~ 260 (365)
++....-++|+-|+.|.+.|++-|++.
T Consensus 19 hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 19 HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 699999999999999999999999873
No 92
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=41.30 E-value=39 Score=21.17 Aligned_cols=29 Identities=17% Similarity=0.162 Sum_probs=23.8
Q ss_pred HHHHHHHhhhcccCChhHHHHHhHHHHhh
Q 017845 55 RMELLEGVAAYHSGQFDKARNALTSAQAK 83 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~~A~~~ 83 (365)
+.+...|.+.++.|+.++|...+.+|-..
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 45677899999999999999999988553
No 93
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=41.16 E-value=53 Score=30.54 Aligned_cols=24 Identities=21% Similarity=0.357 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+..|++|||++..|..|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578899999999999999999865
No 94
>PRK14136 recX recombination regulator RecX; Provisional
Probab=40.13 E-value=4e+02 Score=26.78 Aligned_cols=73 Identities=15% Similarity=0.173 Sum_probs=43.5
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCC-CHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHH
Q 017845 165 KIKELVSIGFEKELVAEALRRNEN-DSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEAC 243 (365)
Q Consensus 165 ~l~~L~~MGF~~~~Ar~ALr~t~n-dve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL 243 (365)
....|..-|++......||..... .++.|..++. ....... .. ...-...+.-|+.=||+.+.+..+|
T Consensus 231 IrqELrQKGId~eLIEqALeeieEDE~E~A~~L~e---------KK~~~~~-~d-~kek~K~iRfL~rRGFS~D~I~~vL 299 (309)
T PRK14136 231 IVSELKRHAVGDALVESVGAQLRETEFERAQAVWR---------KKFGALP-QT-PAERAKQARFLAARGFSSATIVKLL 299 (309)
T ss_pred HHHHHHHcCCCHHHHHHHHHhccHhHHHHHHHHHH---------HHhcccC-cC-HHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 345688889999888888875422 2344444331 1000000 00 0011234677999999999999999
Q ss_pred HHcCC
Q 017845 244 RAGGD 248 (365)
Q Consensus 244 ~~~~n 248 (365)
+.+++
T Consensus 300 k~~~d 304 (309)
T PRK14136 300 KVGDD 304 (309)
T ss_pred Hhchh
Confidence 88766
No 95
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.11 E-value=66 Score=29.80 Aligned_cols=25 Identities=16% Similarity=0.428 Sum_probs=22.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~ 115 (365)
++++..|+.+||+..+|.+|+....
T Consensus 149 ~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 149 SDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 6789999999999999999999874
No 96
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=39.92 E-value=22 Score=24.55 Aligned_cols=24 Identities=42% Similarity=0.535 Sum_probs=19.6
Q ss_pred CCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 174 FEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 174 F~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
|.+.....||..++||+..|...|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 355678899999999999999987
No 97
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=39.40 E-value=59 Score=30.38 Aligned_cols=24 Identities=8% Similarity=0.194 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+..|++|||++..|..|+...
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578899999999999999999876
No 98
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=38.46 E-value=71 Score=28.13 Aligned_cols=37 Identities=24% Similarity=0.235 Sum_probs=32.7
Q ss_pred cCCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 160 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 160 ~vd~~~l~~L~~MGF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
.+..+.+..|.+-|.+++.|++||..++ |+-.|+.+|
T Consensus 112 ~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l 148 (153)
T COG4008 112 EPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKIL 148 (153)
T ss_pred CCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHH
Confidence 3567889999999999999999999887 999999875
No 99
>PF09050 SNN_linker: Stannin unstructured linker; InterPro: IPR015136 This entry represents an unstructured protein region which connects two adjacent stannin helical domains. It contains a conserved CXC metal-binding motif and a putative 14-3-3-zeta binding domain. Upon coordinating dimethytin, considerable structural or dynamic changes in the flexible loop region of SNN may take place, recruiting other binding partners such as 14-3-3-zeta, and thereby initiating the apoptotic cascade []. ; PDB: 1ZZA_A.
Probab=37.99 E-value=13 Score=23.28 Aligned_cols=14 Identities=36% Similarity=0.693 Sum_probs=8.0
Q ss_pred hhhhhCCCCChHHH
Q 017845 4 CYFMLRDISWLSEA 17 (365)
Q Consensus 4 cy~~L~~~~~L~dA 17 (365)
||++|+-|++-.|-
T Consensus 1 cylrlqr~sqsede 14 (26)
T PF09050_consen 1 CYLRLQRISQSEDE 14 (26)
T ss_dssp TTTSS-SS-SS---
T ss_pred Ceehhhhhccccch
Confidence 99999988887664
No 100
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=37.74 E-value=13 Score=29.33 Aligned_cols=28 Identities=18% Similarity=0.029 Sum_probs=23.3
Q ss_pred CHHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 017845 235 ERPRVIEACRAGGDDIHQIMLQLLGEPG 262 (365)
Q Consensus 235 ~~~~A~~AL~~~~nnve~A~e~Ll~~~~ 262 (365)
+....+.||..+.-|+++|++||++...
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~~~ 72 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSKFK 72 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHCCH
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHhcc
Confidence 7788999999999999999999997643
No 101
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=37.52 E-value=67 Score=29.70 Aligned_cols=24 Identities=25% Similarity=0.457 Sum_probs=21.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAG 246 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~ 246 (365)
.+.+..|++|||++.+|..|+...
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 567899999999999999999866
No 102
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=37.27 E-value=97 Score=26.46 Aligned_cols=69 Identities=17% Similarity=0.313 Sum_probs=45.2
Q ss_pred CCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHH-hCCCCHHHHHHHHHhcCCCHHHHH
Q 017845 116 QDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELV-SIGFEKELVAEALRRNENDSQKAL 194 (365)
Q Consensus 116 ~dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~~vd~~~l~~L~-~MGF~~~~Ar~ALr~t~ndve~Al 194 (365)
.|++.||.-|-+.+......+. .++ +.+.+ -.|..+.|..+| +|-.++..|.+-|+.++||+-.|+
T Consensus 47 s~l~sam~~ign~rnae~~ak~-~rE--------KELak----V~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Al 113 (119)
T KOG3450|consen 47 SNLESAMSVIGNRRNAEQKAKQ-ERE--------KELAK----VTIKKEDLELIMNELEISKAAAERSLREHMGDVVEAL 113 (119)
T ss_pred hHHHHHHHHHHHHhhhhhHHHH-HHH--------hhccc----cccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence 3588888888877755332211 111 11111 135666676554 567899999999999999999999
Q ss_pred hhc
Q 017845 195 DDL 197 (365)
Q Consensus 195 ~~L 197 (365)
.-|
T Consensus 114 ral 116 (119)
T KOG3450|consen 114 RAL 116 (119)
T ss_pred HHH
Confidence 865
No 103
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=36.20 E-value=88 Score=23.23 Aligned_cols=58 Identities=22% Similarity=0.140 Sum_probs=38.4
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhh
Q 017845 12 SWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 84 (365)
Q Consensus 12 ~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~ 84 (365)
.....|..=+++|-+. .+.+|.++. .+...+.-=|.+.+..|+.++|.+.+.+|-..+
T Consensus 19 ~~~~~A~~~~~~al~~-~~~~~~~~~--------------~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 19 GRYDEALDYYEKALDI-EEQLGDDHP--------------DTANTLNNLGECYYRLGDYEEALEYYQKALDIF 76 (78)
T ss_dssp T-HHHHHHHHHHHHHH-HHHTTTHHH--------------HHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHH-HHHHCCCCH--------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence 3455566666666655 555555432 334445556889999999999999999886543
No 104
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=35.82 E-value=34 Score=27.63 Aligned_cols=55 Identities=18% Similarity=0.181 Sum_probs=35.3
Q ss_pred HHHHHHhhhcccCChhHHHHHhHHHHhhhcc----CCCCHHHHHHHHhCCCCHHHHHHH
Q 017845 56 MELLEGVAAYHSGQFDKARNALTSAQAKFFQ----LQVPDESLSLVMSMGFKEQDAKRA 110 (365)
Q Consensus 56 L~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~----l~vd~~~L~~LmeMGF~~~~arrA 110 (365)
=++=+|+-.||+++..+|.....+|=.+... +.+=.-..+.+++||.=+.-..=|
T Consensus 8 ~~ie~GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA 66 (80)
T PF10579_consen 8 QQIEKGLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA 66 (80)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455899999999999999998888555544 222234455566666544433333
No 105
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=35.77 E-value=1.3e+02 Score=29.79 Aligned_cols=36 Identities=11% Similarity=0.203 Sum_probs=27.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHhCCC--HHHHHHHHHH
Q 017845 92 ESLSLVMSMGFKEQDAKRALRICSQD--VGSAIDFLVE 127 (365)
Q Consensus 92 ~~L~~LmeMGF~~~~arrALra~~~d--ve~Av~~L~e 127 (365)
.--+.|...|++..++.-++-+++-. |-.|++|--.
T Consensus 117 ~g~~dl~~~~lt~~DvvvgIaASGrTPYvigal~yAr~ 154 (298)
T COG2103 117 LGEADLKNIGLTAKDVVVGIAASGRTPYVIGALEYARQ 154 (298)
T ss_pred HHHHHHHHcCCCcCCEEEEEecCCCCchhhHHHHHHHh
Confidence 34557888999999999888877655 7778887443
No 106
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=35.50 E-value=2.3e+02 Score=27.54 Aligned_cols=25 Identities=40% Similarity=0.555 Sum_probs=20.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCC
Q 017845 164 EKIKELVSIGFEKELVAEALRRNEN 188 (365)
Q Consensus 164 ~~l~~L~~MGF~~~~Ar~ALr~t~n 188 (365)
..++.|.++||+.++.++.++..+.
T Consensus 245 ~~i~~L~~lG~s~~ei~~mv~~~P~ 269 (345)
T PF02536_consen 245 PKIEFLQSLGFSEEEIAKMVRRFPQ 269 (345)
T ss_dssp HHHHHHHTTT--HHHHHHHHHHSGG
T ss_pred HHHHHHHHhcCcHHHHHHHHHhCcc
Confidence 4788899999999999999998865
No 107
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=35.09 E-value=1.8e+02 Score=24.92 Aligned_cols=61 Identities=11% Similarity=0.017 Sum_probs=38.1
Q ss_pred HHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhh
Q 017845 55 RMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK 129 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~ 129 (365)
+.+...|.+.+..|+.++|...+.++-...+. +......+. .+....|+.+.|..++..-.
T Consensus 66 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~~~-----------~~~~~~g~~~~A~~~~~~~~ 126 (234)
T TIGR02521 66 LAYLALALYYQQLGELEKAEDSFRRALTLNPN---NGDVLNNYG-----------TFLCQQGKYEQAMQQFEQAI 126 (234)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC---CHHHHHHHH-----------HHHHHcccHHHHHHHHHHHH
Confidence 56666799999999999999999888654432 122221111 11223567777777765543
No 108
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=34.25 E-value=3.1e+02 Score=23.81 Aligned_cols=97 Identities=22% Similarity=0.204 Sum_probs=56.4
Q ss_pred hCCCCChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhccC
Q 017845 8 LRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL 87 (365)
Q Consensus 8 L~~~~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l 87 (365)
|+....|+|+.---..++....+.+|.+--+-...+-|..++.. +.++.-.. .++-..+..-++..+...
T Consensus 52 l~~~~~ldD~~~a~~~~~~~~~~~~g~~~I~~~L~~kGi~~~~I--------~~~l~~~~--~d~~e~a~~~~~k~~~~~ 121 (157)
T PRK00117 52 LKEEGLLDDERFAESFVRSRARKGYGPRRIRQELRQKGVDREII--------EEALAELD--IDWEELARELARKKFRRP 121 (157)
T ss_pred HHHcCCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHcCCCHHHH--------HHHHHHcC--ccHHHHHHHHHHHHcCCC
Confidence 34455677764444444444445677777776677777776643 33333211 122223333445555544
Q ss_pred CCC-----HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 88 QVP-----DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 88 ~vd-----~~~L~~LmeMGF~~~~arrALra~ 114 (365)
.-. .-.+..|+.-||+...++.+|...
T Consensus 122 ~~~~~~~k~Ki~~~L~rkGF~~~~I~~~l~~~ 153 (157)
T PRK00117 122 LPDDAKEKAKLVRFLARRGFSMDVIQRVLRNA 153 (157)
T ss_pred CCCCHHHHHHHHHHHHHCCCCHHHHHHHHHhh
Confidence 322 245668999999999999999764
No 109
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=34.15 E-value=3.7e+02 Score=24.62 Aligned_cols=72 Identities=21% Similarity=0.257 Sum_probs=43.4
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhc-CC-CHHHHHhhcC----CCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHH
Q 017845 164 EKIKELVSIGFEKELVAEALRRN-EN-DSQKALDDLT----NPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERP 237 (365)
Q Consensus 164 ~~l~~L~~MGF~~~~Ar~ALr~t-~n-dve~Al~~L~----~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~ 237 (365)
...+.|...|.+....-.||... .. ..+.|..++. .+... . ...........|+.=||+.+
T Consensus 89 rl~qeL~qkGi~~~~Ie~aL~~~~~~~~~~~a~~~~~kk~~~~~~~-------~------~~~~k~Ki~r~L~~rGFs~~ 155 (174)
T COG2137 89 RLKQELKQKGIDDEIIEEALELIDEEDEQERARKVLRKKFKRENKP-------P------DKKEKAKIQRFLLRRGFSYE 155 (174)
T ss_pred HHHHHHHHcCCCHHHHHHHHhccchHHHHHHHHHHHHHHhCccccC-------c------chhHHHHHHHHHHHcCCCHH
Confidence 34567888888888888887733 22 3455555431 11000 0 00112334567888999999
Q ss_pred HHHHHHHHcCC
Q 017845 238 RVIEACRAGGD 248 (365)
Q Consensus 238 ~A~~AL~~~~n 248 (365)
.+..||....-
T Consensus 156 ~i~~~l~~~~~ 166 (174)
T COG2137 156 VIKEALNEAEE 166 (174)
T ss_pred HHHHHHHHhhh
Confidence 99999876543
No 110
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=34.07 E-value=3.5e+02 Score=28.99 Aligned_cols=104 Identities=18% Similarity=0.165 Sum_probs=73.2
Q ss_pred ehhhhhCCCCChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHh
Q 017845 3 WCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 82 (365)
Q Consensus 3 Wcy~~L~~~~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~ 82 (365)
||=+.+.++..-..|.-=++.|=..++.+||+++.++.+. +.+| +++.|.+|++.+|+.+++.|-.
T Consensus 246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~----------l~nL----a~ly~~~GKf~EA~~~~e~Al~ 311 (508)
T KOG1840|consen 246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAAT----------LNNL----AVLYYKQGKFAEAEEYCERALE 311 (508)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHH----------HHHH----HHHHhccCChHHHHHHHHHHHH
Confidence 5667778888889999999999999999999999999653 4444 3445889999999999999855
Q ss_pred hhcc-CCCCHHHHHHHHhCCCCHHHHHHHHHHh-CCCHHHHHHHHHHh
Q 017845 83 KFFQ-LQVPDESLSLVMSMGFKEQDAKRALRIC-SQDVGSAIDFLVEE 128 (365)
Q Consensus 83 ~~~~-l~vd~~~L~~LmeMGF~~~~arrALra~-~~dve~Av~~L~e~ 128 (365)
-+.+ +-.+..-|...+ +. .++.-+ .|..+.|..++...
T Consensus 312 I~~~~~~~~~~~v~~~l----~~----~~~~~~~~~~~Eea~~l~q~a 351 (508)
T KOG1840|consen 312 IYEKLLGASHPEVAAQL----SE----LAAILQSMNEYEEAKKLLQKA 351 (508)
T ss_pred HHHHhhccChHHHHHHH----HH----HHHHHHHhcchhHHHHHHHHH
Confidence 4443 223333343222 11 233333 55688888887743
No 111
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.64 E-value=47 Score=30.67 Aligned_cols=25 Identities=20% Similarity=0.497 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGG 247 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~ 247 (365)
.+.+..|++|||++..|..|+..-.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5688999999999999999997653
No 112
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=33.61 E-value=53 Score=20.42 Aligned_cols=29 Identities=14% Similarity=0.067 Sum_probs=24.5
Q ss_pred HHHHHHHhhhcccCChhHHHHHhHHHHhh
Q 017845 55 RMELLEGVAAYHSGQFDKARNALTSAQAK 83 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~~A~~~ 83 (365)
+.+.+.|.+....|+.++|...|.++-+.
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 46778899999999999999999988553
No 113
>PRK14136 recX recombination regulator RecX; Provisional
Probab=33.46 E-value=3.4e+02 Score=27.27 Aligned_cols=25 Identities=16% Similarity=0.392 Sum_probs=20.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCC
Q 017845 164 EKIKELVSIGFEKELVAEALRRNEN 188 (365)
Q Consensus 164 ~~l~~L~~MGF~~~~Ar~ALr~t~n 188 (365)
..+..|+.-||+-..+..+|+....
T Consensus 280 K~iRfL~rRGFS~D~I~~vLk~~~d 304 (309)
T PRK14136 280 KQARFLAARGFSSATIVKLLKVGDD 304 (309)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhchh
Confidence 3567899999999999999987654
No 114
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.41 E-value=48 Score=31.00 Aligned_cols=26 Identities=27% Similarity=0.243 Sum_probs=22.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGGD 248 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~n 248 (365)
.+.+..|++|||++..|..|++..-.
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~ 170 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIML 170 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 57889999999999999999875433
No 115
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=32.55 E-value=1.2e+02 Score=29.96 Aligned_cols=30 Identities=17% Similarity=0.174 Sum_probs=24.7
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHh
Q 017845 166 IKELVSI-GFEKELVAEALRRNENDSQKALD 195 (365)
Q Consensus 166 l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~ 195 (365)
+..||-+ |++...|++.|.+++|++..|++
T Consensus 261 ~Ai~~~~~~~~~~~a~~~l~~~~g~~~~~l~ 291 (291)
T TIGR00274 261 LAIVMILSTLSASEAKVLLDRHGGFLRQALD 291 (291)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCcHHHhhC
Confidence 4445444 79999999999999999999875
No 116
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=32.43 E-value=1.2e+02 Score=29.77 Aligned_cols=31 Identities=19% Similarity=0.287 Sum_probs=25.1
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhh
Q 017845 166 IKELVSI-GFEKELVAEALRRNENDSQKALDD 196 (365)
Q Consensus 166 l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~ 196 (365)
+..||-+ |++...|++.|.+++|++..|++-
T Consensus 266 ~a~~~~~~~~~~~~a~~~l~~~~g~~~~~~~~ 297 (299)
T PRK05441 266 LAIVMILTGLDAAEAKALLARHGGFLRKALAE 297 (299)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCCHHHHHhh
Confidence 3445444 789999999999999999999864
No 117
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=32.17 E-value=84 Score=27.36 Aligned_cols=46 Identities=22% Similarity=0.264 Sum_probs=32.5
Q ss_pred HHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHHHHcCCCH
Q 017845 190 SQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDI 250 (365)
Q Consensus 190 ve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL~~~~nnv 250 (365)
++.|+.+|.||.+. + .+....|.=|.+=|.+.+...+||+..+++.
T Consensus 6 i~~A~~FL~~p~V~----~-----------sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 6 IEQAVKFLQDPKVR----N-----------SPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHCTTTCC----C-----------S-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHhCCcccc----c-----------CCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 67888999998743 1 2345567889999999999999999888744
No 118
>PRK13342 recombination factor protein RarA; Reviewed
Probab=31.24 E-value=5.3e+02 Score=26.28 Aligned_cols=69 Identities=23% Similarity=0.206 Sum_probs=42.9
Q ss_pred HHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHHhC--------CCCHHHHHHHHHHh--CCCHHHHHHHHHHh
Q 017845 59 LEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSM--------GFKEQDAKRALRIC--SQDVGSAIDFLVEE 128 (365)
Q Consensus 59 Lqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~LmeM--------GF~~~~arrALra~--~~dve~Av~~L~e~ 128 (365)
++-++.+..|+.-.+...|+.+-.. .-.|+.+.+..++.- |...-....|+..+ ++|++.|+.||..-
T Consensus 179 l~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~~~~~d~~~~~~~~~isa~~ks~rgsd~~aal~~l~~~ 256 (413)
T PRK13342 179 LDALARLANGDARRALNLLELAALG--VDSITLELLEEALQKRAARYDKDGDEHYDLISALHKSIRGSDPDAALYYLARM 256 (413)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhhhhccCCCccHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 4455666677777777777665433 334667777766652 23344555666654 56899999887665
Q ss_pred h
Q 017845 129 K 129 (365)
Q Consensus 129 ~ 129 (365)
.
T Consensus 257 l 257 (413)
T PRK13342 257 L 257 (413)
T ss_pred H
Confidence 4
No 119
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.74 E-value=1e+02 Score=28.57 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGG 247 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~ 247 (365)
.+.+..|.++||++..|..|+....
T Consensus 149 ~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 149 SDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5678999999999999999998774
No 120
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=30.70 E-value=47 Score=33.94 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=19.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHh
Q 017845 163 IEKIKELVSIGFEKELVAEALRR 185 (365)
Q Consensus 163 ~~~l~~L~~MGF~~~~Ar~ALr~ 185 (365)
.+.|+.++.|||.+++++..+++
T Consensus 322 ddvidKv~~MGf~rDqV~a~v~r 344 (358)
T PF07223_consen 322 DDVIDKVASMGFRRDQVRATVRR 344 (358)
T ss_pred HHHHHHHHHcCCcHHHHHHHHHH
Confidence 37999999999999999877654
No 121
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=29.75 E-value=82 Score=33.60 Aligned_cols=88 Identities=13% Similarity=0.163 Sum_probs=0.0
Q ss_pred CeehhhhhCCCCChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHH
Q 017845 1 MVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 80 (365)
Q Consensus 1 ivWcy~~L~~~~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A 80 (365)
+.|||+.++ ++..|...|.++.-.+.. +..++...|.+.|..|+.++|...|.++
T Consensus 371 la~~~~~~g----------~~~eA~~~~~~al~~~p~---------------~~~~~~~lg~~~~~~g~~~~A~~~~~ka 425 (615)
T TIGR00990 371 RASMNLELG----------DPDKAEEDFDKALKLNSE---------------DPDIYYHRAQLHFIKGEFAQAGKDYQKS 425 (615)
T ss_pred HHHHHHHCC----------CHHHHHHHHHHHHHhCCC---------------CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q ss_pred HhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHH
Q 017845 81 QAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 127 (365)
Q Consensus 81 ~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e 127 (365)
+.+++..+..+..+| .+....|+.+.|+.++..
T Consensus 426 ------l~l~P~~~~~~~~la--------~~~~~~g~~~eA~~~~~~ 458 (615)
T TIGR00990 426 ------IDLDPDFIFSHIQLG--------VTQYKEGSIASSMATFRR 458 (615)
T ss_pred ------HHcCccCHHHHHHHH--------HHHHHCCCHHHHHHHHHH
No 122
>PLN03196 MOC1-like protein; Provisional
Probab=29.65 E-value=4.2e+02 Score=28.07 Aligned_cols=40 Identities=20% Similarity=0.462 Sum_probs=31.6
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHhCC-------CHHHHHHHHHHhhhh
Q 017845 92 ESLSLVMSMGFKEQDAKRALRICSQ-------DVGSAIDFLVEEKAK 131 (365)
Q Consensus 92 ~~L~~LmeMGF~~~~arrALra~~~-------dve~Av~~L~e~~~d 131 (365)
.++.-|.+|||+.++..++++.+-. ++...++|+.+.|.-
T Consensus 342 ~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~ 388 (487)
T PLN03196 342 KHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMKR 388 (487)
T ss_pred HHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhCC
Confidence 4566788999999999998887632 488889999888753
No 123
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=29.58 E-value=62 Score=30.40 Aligned_cols=24 Identities=25% Similarity=0.602 Sum_probs=20.9
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 92 ESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 92 ~~L~~LmeMGF~~~~arrALra~~ 115 (365)
+.+..|+.+||++.++++|+....
T Consensus 158 ~~v~AL~~LGy~~~e~~~av~~v~ 181 (201)
T COG0632 158 EAVEALVALGYKEKEIKKAVKKVL 181 (201)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHH
Confidence 448999999999999999998764
No 124
>PRK04028 glutamyl-tRNA(Gln) amidotransferase subunit E; Validated
Probab=29.52 E-value=7e+02 Score=27.55 Aligned_cols=99 Identities=21% Similarity=0.295 Sum_probs=60.6
Q ss_pred HhHHHHhhhccCCCCHHHHHHHHh-CCCCHHHHHHH-----------HHHhCCCHHHHHHHHHHhhhhHHHhhhhHHHHH
Q 017845 76 ALTSAQAKFFQLQVPDESLSLVMS-MGFKEQDAKRA-----------LRICSQDVGSAIDFLVEEKAKRVKEREDNEQRR 143 (365)
Q Consensus 76 ~l~~A~~~~~~l~vd~~~L~~Lme-MGF~~~~arrA-----------Lra~~~dve~Av~~L~e~~~d~~~~~~~~~~~~ 143 (365)
.++.+...++++ +++.+..|+. +|.++..|..= +-...++...+.+||+.-.......
T Consensus 443 ~i~~i~~~~Pe~--p~~~~~r~~~~ygls~~~a~~L~~~~~~~~f~~~~~~~~~~~~~anwl~~~~~~l~~~-------- 512 (630)
T PRK04028 443 LLEKIKKNLPEL--PEEKVERLIKEYGLSEELAEQLAYSERLDLFEELVKKGVDPTLIASTLENTLKELRRE-------- 512 (630)
T ss_pred HHHHHHHhCCCC--HHHHHHHHHHHcCCCHHHHHHHHCCchHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhC--------
Confidence 345555556665 4778888886 89999888542 1122457888999998843221100
Q ss_pred HHHHHHhhcCCCCCCCcCCHHHHHHHHhC----CCCHHHHHHHHHh---c-CCCHHHHHh
Q 017845 144 KEIMEQKRYGLTPLKKAVDIEKIKELVSI----GFEKELVAEALRR---N-ENDSQKALD 195 (365)
Q Consensus 144 ~~~~~~~~~g~~~~~~~vd~~~l~~L~~M----GF~~~~Ar~ALr~---t-~ndve~Al~ 195 (365)
+.... .++++.|..|..| .++...|+..|.. + +.+++..++
T Consensus 513 ---------~~~~~--~i~~~~l~~l~~~~~~~~is~~~ak~v~~~~~~~~~~~~~~IIe 561 (630)
T PRK04028 513 ---------GVDVE--NITDEHIEEVFKLVSEGKIAKEAIEEILKELAENPGKSAEEAAE 561 (630)
T ss_pred ---------CCCcc--cCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 11111 2466666655555 6999999988774 3 456666665
No 125
>PRK12370 invasion protein regulator; Provisional
Probab=29.44 E-value=1.1e+02 Score=32.51 Aligned_cols=28 Identities=11% Similarity=-0.067 Sum_probs=21.3
Q ss_pred HHHHHhhhcccCChhHHHHHhHHHHhhh
Q 017845 57 ELLEGVAAYHSGQFDKARNALTSAQAKF 84 (365)
Q Consensus 57 ~lLqgvv~~h~g~~~~A~~~l~~A~~~~ 84 (365)
+..-|.+.+..|+.++|...+++|-...
T Consensus 341 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~ 368 (553)
T PRK12370 341 LGLLGLINTIHSEYIVGSLLFKQANLLS 368 (553)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence 3445778888899999999888886544
No 126
>KOG2239 consensus Transcription factor containing NAC and TS-N domains [Transcription]
Probab=27.99 E-value=76 Score=29.91 Aligned_cols=37 Identities=27% Similarity=0.405 Sum_probs=29.0
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 161 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 161 vd~~~l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
++...|..+|.. +-++..|.+||+.++||+--|+--|
T Consensus 170 ve~kDIeLVmsQanvSR~kAVkALk~~~~DiVnAIM~L 207 (209)
T KOG2239|consen 170 VEAKDIELVMSQANVSRAKAVKALKNNNNDIVNAIMEL 207 (209)
T ss_pred CchhhHHHHHHHhhhhHHHHHHHHHhccchHHHHHHHh
Confidence 455567666655 8999999999999999987777543
No 127
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=27.99 E-value=65 Score=19.63 Aligned_cols=24 Identities=29% Similarity=0.263 Sum_probs=19.1
Q ss_pred HHHHHHHhhhcccCChhHHHHHhH
Q 017845 55 RMELLEGVAAYHSGQFDKARNALT 78 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~ 78 (365)
+.++.-+.+.+..|+.++|+..+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 345667888999999999987764
No 128
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=27.93 E-value=96 Score=28.51 Aligned_cols=26 Identities=19% Similarity=0.287 Sum_probs=23.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 017845 223 DAKIEQLVAMGFERPRVIEACRAGGD 248 (365)
Q Consensus 223 ~~~I~~L~~MGF~~~~A~~AL~~~~n 248 (365)
.+.+..|+++||+...|..|+...+.
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 56889999999999999999988754
No 129
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=27.66 E-value=3.4e+02 Score=23.10 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=15.7
Q ss_pred HHhhhcccCChhHHHHHhHHHHhh
Q 017845 60 EGVAAYHSGQFDKARNALTSAQAK 83 (365)
Q Consensus 60 qgvv~~h~g~~~~A~~~l~~A~~~ 83 (365)
-|.+.+..|+.++|...+.++-..
T Consensus 141 l~~~~~~~g~~~~A~~~~~~~~~~ 164 (234)
T TIGR02521 141 AGLCALKAGDFDKAEKYLTRALQI 164 (234)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHh
Confidence 366666777777777777666543
No 130
>PF05861 PhnI: Bacterial phosphonate metabolism protein (PhnI); InterPro: IPR008773 This family consists of several proteobacterial phosphonate metabolism protein (PhnI) sequences. Bacteria that use phosphonates as a phosphorus source must be able to break the stable carbon-phosphorus bond. In Escherichia coli phosphonates are broken down by a C-P lyase that has a broad substrate specificity. The genes for phosphonate uptake and degradation in E. coli are organised in an operon of 14 genes, named phnC to phnP. Three gene products (PhnC, PhnD and PhnE) comprise a binding protein-dependent phosphonate transporter, which also transports phosphate, phosphite, and certain phosphate esters such as phosphoserine; two gene products (PhnF and PhnO) may have a role in gene regulation; and nine gene products (PhnG, PhnH, PhnI, PhnJ, PhnK, PhnL, PhnM, PhnN, and PhnP) probably comprise a membrane-associated C-P lyase enzyme complex [].; GO: 0015716 phosphonate transport
Probab=27.56 E-value=73 Score=32.46 Aligned_cols=33 Identities=27% Similarity=0.406 Sum_probs=29.0
Q ss_pred HHHHHHhCC--CCHHHHHHHHHhcCCCHHHHHhhc
Q 017845 165 KIKELVSIG--FEKELVAEALRRNENDSQKALDDL 197 (365)
Q Consensus 165 ~l~~L~~MG--F~~~~Ar~ALr~t~ndve~Al~~L 197 (365)
.|.+.|+=| |+++.|..||+|+.||+..|+=+|
T Consensus 44 avdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLL 78 (358)
T PF05861_consen 44 AVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLL 78 (358)
T ss_pred HHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHH
Confidence 566777777 999999999999999999998766
No 131
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=27.41 E-value=67 Score=30.18 Aligned_cols=23 Identities=22% Similarity=0.618 Sum_probs=19.9
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhc
Q 017845 164 EKIKELVSIGFEKELVAEALRRN 186 (365)
Q Consensus 164 ~~l~~L~~MGF~~~~Ar~ALr~t 186 (365)
+.+..|+.+||++.++++|+..-
T Consensus 158 ~~v~AL~~LGy~~~e~~~av~~v 180 (201)
T COG0632 158 EAVEALVALGYKEKEIKKAVKKV 180 (201)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHH
Confidence 34899999999999999998763
No 132
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=26.43 E-value=4.3e+02 Score=22.93 Aligned_cols=73 Identities=18% Similarity=0.179 Sum_probs=43.3
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCC-HHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHHH
Q 017845 165 KIKELVSIGFEKELVAEALRRNEND-SQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEAC 243 (365)
Q Consensus 165 ~l~~L~~MGF~~~~Ar~ALr~t~nd-ve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~AL 243 (365)
..+.|+.-||+...+..+|.....+ .+.|..++.. .......... ..-...+.-|+.=||+.+.+..++
T Consensus 81 I~~~L~~kGi~~~~I~~~l~~~~~d~~e~a~~~~~k---------~~~~~~~~~~-~~k~Ki~~~L~rkGF~~~~I~~~l 150 (157)
T PRK00117 81 IRQELRQKGVDREIIEEALAELDIDWEELARELARK---------KFRRPLPDDA-KEKAKLVRFLARRGFSMDVIQRVL 150 (157)
T ss_pred HHHHHHHcCCCHHHHHHHHHHcCccHHHHHHHHHHH---------HcCCCCCCCH-HHHHHHHHHHHHCCCCHHHHHHHH
Confidence 4567999999999999988865533 2333333210 0000000000 012345678999999999999998
Q ss_pred HHcC
Q 017845 244 RAGG 247 (365)
Q Consensus 244 ~~~~ 247 (365)
....
T Consensus 151 ~~~~ 154 (157)
T PRK00117 151 RNAL 154 (157)
T ss_pred Hhhh
Confidence 7543
No 133
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=26.20 E-value=54 Score=23.72 Aligned_cols=57 Identities=16% Similarity=0.151 Sum_probs=37.3
Q ss_pred HHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHH
Q 017845 56 MELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLV 126 (365)
Q Consensus 56 L~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~LmeMGF~~~~arrALra~~~-dve~Av~~L~ 126 (365)
.+...|.+.|..|+.++|...|.+|=... +.-...+..||. +. ...| +.+.|+.++.
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~------p~~~~~~~~~g~-------~~-~~~~~~~~~A~~~~~ 62 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIELD------PNNAEAYYNLGL-------AY-MKLGKDYEEAIEDFE 62 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHHS------TTHHHHHHHHHH-------HH-HHTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CCCHHHHHHHHH-------HH-HHhCccHHHHHHHHH
Confidence 45678999999999999999999886543 333334444432 11 1234 5777777654
No 134
>PLN02751 glutamyl-tRNA(Gln) amidotransferase
Probab=25.83 E-value=7.5e+02 Score=26.83 Aligned_cols=102 Identities=16% Similarity=0.174 Sum_probs=61.4
Q ss_pred HHhHHHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHH-------H-----HhCCCHHHHHHHHHHhhhh-HHHhhhhHHH
Q 017845 75 NALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRAL-------R-----ICSQDVGSAIDFLVEEKAK-RVKEREDNEQ 141 (365)
Q Consensus 75 ~~l~~A~~~~~~l~vd~~~L~~LmeMGF~~~~arrAL-------r-----a~~~dve~Av~~L~e~~~d-~~~~~~~~~~ 141 (365)
+.++.....++++ +++....|.++|.++..|..-+ + ..+.+...+.+||+...-. ..
T Consensus 353 e~i~~ir~~lPEl--P~~~~~Rl~~~gLs~~dA~~L~~~~~~a~ffe~~~~~~~~~k~~anwi~~el~~~l~-------- 422 (544)
T PLN02751 353 EYVDSIRASMPEL--PEAKRRRYENMGLSMQDVLFLANDKNVAEFFDATLAKGADAKLAANWIMGDIAAYLK-------- 422 (544)
T ss_pred HHHHHHHHhCCCC--HHHHHHHHHHcCCCHHHHHHHHcCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH--------
Confidence 4455666666666 4677888888999998885321 1 1134678888998876522 11
Q ss_pred HHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC---C-CCHHHHHHHHHh---cCCCHHHHHh
Q 017845 142 RRKEIMEQKRYGLTPLKKAVDIEKIKELVSI---G-FEKELVAEALRR---NENDSQKALD 195 (365)
Q Consensus 142 ~~~~~~~~~~~g~~~~~~~vd~~~l~~L~~M---G-F~~~~Ar~ALr~---t~ndve~Al~ 195 (365)
+.+.+-....+.++.|..|+.+ | .+-..||..|.. .+.+++..++
T Consensus 423 ---------~~~~~i~~~~l~p~~laeLi~li~~g~Is~~~AK~vl~~~~~~~~~p~~iie 474 (544)
T PLN02751 423 ---------NEKVSISEIKLTPKELAELIASIKDGTISGKIGKEILPELLAKGGTVKGLVE 474 (544)
T ss_pred ---------hCCCChhhcCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCCHHHHHH
Confidence 0122222224667777777666 3 557777777663 3456665555
No 135
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=25.10 E-value=1.1e+02 Score=28.09 Aligned_cols=25 Identities=24% Similarity=0.529 Sum_probs=23.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICS 115 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~ 115 (365)
.+.+..|..+||+..++++++....
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~ 174 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKIL 174 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 6789999999999999999999885
No 136
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=24.72 E-value=79 Score=17.45 Aligned_cols=27 Identities=22% Similarity=0.150 Sum_probs=21.0
Q ss_pred HHHHHHhhhcccCChhHHHHHhHHHHh
Q 017845 56 MELLEGVAAYHSGQFDKARNALTSAQA 82 (365)
Q Consensus 56 L~lLqgvv~~h~g~~~~A~~~l~~A~~ 82 (365)
.+...|.+.++.|++.+|...+..+-.
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 345678889999999999988876643
No 137
>PRK13754 conjugal transfer fertility inhibition protein FinO; Provisional
Probab=24.58 E-value=67 Score=29.82 Aligned_cols=76 Identities=12% Similarity=0.165 Sum_probs=58.6
Q ss_pred HHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHH--hCCCCHHHHHHHHHHhCC
Q 017845 39 VRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVM--SMGFKEQDAKRALRICSQ 116 (365)
Q Consensus 39 l~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~Lm--eMGF~~~~arrALra~~~ 116 (365)
+...|..-.+..+.|.+|-=++-+|+|....++..+ ...+...-++-|.++.++.|. +.+|+...-|.||+..-.
T Consensus 53 ~~~~~a~~~~~~~~y~Kl~~~keaI~~Lae~wP~lF---~~g~~kPLKIGI~eDL~qDi~~r~~~lSk~~LR~ALr~yT~ 129 (186)
T PRK13754 53 LAAKKAQARQALSIYLNLPPLDEAVNTLKPWWPGLF---DGDTPRLLACGIREVLLEDVAQRNIPLSHKKLRRALKAITR 129 (186)
T ss_pred hhHHhhhccCCchhhhhcCCHHHHHHHHHHhhHHhc---CCCCCCccccCcHHHHHHHHHhccCCCCHHHHHHHHHHHhC
Confidence 677788888999999999999999999876666544 222334445667788888776 678999999999998754
Q ss_pred C
Q 017845 117 D 117 (365)
Q Consensus 117 d 117 (365)
+
T Consensus 130 S 130 (186)
T PRK13754 130 S 130 (186)
T ss_pred C
Confidence 4
No 138
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=24.53 E-value=78 Score=23.92 Aligned_cols=37 Identities=22% Similarity=0.205 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCCCHHHHHhhc--CCCcchHHHHHhHHHH
Q 017845 177 ELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIESR 213 (365)
Q Consensus 177 ~~Ar~ALr~t~ndve~Al~~L--~~p~~~~~L~~~~~~~ 213 (365)
...|..+++++.-+..-++.| +||++.+.|+.+++.+
T Consensus 11 ~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~F 49 (59)
T PF09280_consen 11 QQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEEF 49 (59)
T ss_dssp HHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHHH
T ss_pred HHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHHH
Confidence 457888999999999999987 7899998888886544
No 139
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=23.85 E-value=1.3e+02 Score=24.90 Aligned_cols=39 Identities=21% Similarity=0.347 Sum_probs=30.0
Q ss_pred HHHHHHHhhhcccCChhHHHHHhHHHHhhhccCCCCHHHHHHHH
Q 017845 55 RMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVM 98 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~l~vd~~~L~~Lm 98 (365)
+-.|.+|++++-.|+...|+..+.++... .+...+..|+
T Consensus 60 ~~al~~Gl~al~~G~~~~A~k~~~~a~~~-----~~~~~l~~L~ 98 (108)
T PF07219_consen 60 QRALSRGLIALAEGDWQRAEKLLAKAAKL-----SDNPLLNYLL 98 (108)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----CCCHHHHHHH
Confidence 34578999999999999999999988554 3455566655
No 140
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=23.33 E-value=2.5e+02 Score=19.22 Aligned_cols=30 Identities=17% Similarity=0.110 Sum_probs=21.5
Q ss_pred HHHHHHHhhhcccCChhHHHHHhHHHHhhh
Q 017845 55 RMELLEGVAAYHSGQFDKARNALTSAQAKF 84 (365)
Q Consensus 55 RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~ 84 (365)
......|.+.++.|+.++|...+..+-...
T Consensus 35 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~ 64 (100)
T cd00189 35 DAYYNLAAAYYKLGKYEEALEDYEKALELD 64 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 345566777777888888888887775543
No 141
>PRK14700 recombination factor protein RarA; Provisional
Probab=23.15 E-value=6.5e+02 Score=25.17 Aligned_cols=80 Identities=16% Similarity=0.150 Sum_probs=53.2
Q ss_pred HHHHHHhhhcccCChhHHHHHhHHHHhhh---ccCCCCHHHHHHHHh---CCCCHH-----HHHHHHHHh--CCCHHHHH
Q 017845 56 MELLEGVAAYHSGQFDKARNALTSAQAKF---FQLQVPDESLSLVMS---MGFKEQ-----DAKRALRIC--SQDVGSAI 122 (365)
Q Consensus 56 L~lLqgvv~~h~g~~~~A~~~l~~A~~~~---~~l~vd~~~L~~Lme---MGF~~~-----~arrALra~--~~dve~Av 122 (365)
=+.|+-++.+..|+--.|...|+.|-... ....++.+.|...+. ..|+.. +..-|+..+ |.|+++|+
T Consensus 67 ~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAl 146 (300)
T PRK14700 67 DGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAI 146 (300)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHH
Confidence 34567788888888777877777743211 122377888887765 345433 566788877 56899999
Q ss_pred HHHHHh---hhhHHHh
Q 017845 123 DFLVEE---KAKRVKE 135 (365)
Q Consensus 123 ~~L~e~---~~d~~~~ 135 (365)
-||.-- -+||..+
T Consensus 147 YyLArml~~GEDp~~I 162 (300)
T PRK14700 147 FWLSVMLDNGVDPLVI 162 (300)
T ss_pred HHHHHHHHcCCCHHHH
Confidence 997543 3466655
No 142
>PRK14134 recX recombination regulator RecX; Provisional
Probab=23.13 E-value=7.1e+02 Score=24.31 Aligned_cols=98 Identities=16% Similarity=0.209 Sum_probs=56.9
Q ss_pred hhCCCCChHHHHHHHHHHHHHHHHhcCCChHHHHHHHhCCCchhhHHHHHHHHHHhhhcccCChhHHHHHhHHHHhhhcc
Q 017845 7 MLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ 86 (365)
Q Consensus 7 ~L~~~~~L~dA~~rL~~~~~~f~~~yG~~~~Rl~~lkg~~~~E~~l~~RL~lLqgvv~~h~g~~~~A~~~l~~A~~~~~~ 86 (365)
.|+....|+|..---.-++.... .||++.-|-...+-|..++..- .++.=... .++-.....-++.++..
T Consensus 101 ~L~e~~yldD~ryA~~yv~~~~~-~~G~~~I~~eL~qKGI~~~iIe--------~al~~~~~-e~e~e~a~~l~~Kk~~~ 170 (283)
T PRK14134 101 FLKEYNFIDDDKYCDMYIREKIN-SYGRNKIKYTLLNKGIKENIII--------EKINNIDE-EKEKKVAYKLAEKKYKI 170 (283)
T ss_pred HHHHCCCCCHHHHHHHHHHHHHH-hhhHHHHHHHHHHCCCCHHHHH--------HHHHhCCh-hhHHHHHHHHHHHhhcc
Confidence 35666777887655555554443 6888888777777777766432 22221110 12222233334445544
Q ss_pred CCCC--------HHHHHHHHhCCCCHHHHHHHHHHh
Q 017845 87 LQVP--------DESLSLVMSMGFKEQDAKRALRIC 114 (365)
Q Consensus 87 l~vd--------~~~L~~LmeMGF~~~~arrALra~ 114 (365)
.... .-...-|+.-||+...+..+|...
T Consensus 171 ~~~~~~~~~k~k~Kl~~~L~rrGFs~~~I~~vl~~~ 206 (283)
T PRK14134 171 LILSEKNKFKIYKKLGPYLISRGYSSNIAEWILNEL 206 (283)
T ss_pred cccccccHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence 3222 124468899999999999999875
No 143
>COG1918 FeoA Fe2+ transport system protein A [Inorganic ion transport and metabolism]
Probab=23.12 E-value=54 Score=25.95 Aligned_cols=22 Identities=14% Similarity=0.154 Sum_probs=17.2
Q ss_pred cCCCCHHHHHHHHhCCCCHHHH
Q 017845 86 QLQVPDESLSLVMSMGFKEQDA 107 (365)
Q Consensus 86 ~l~vd~~~L~~LmeMGF~~~~a 107 (365)
++.+.+.....|++|||.+...
T Consensus 16 ~i~~~~~~~~RL~~mG~~~G~~ 37 (75)
T COG1918 16 SIDGGNGLRRRLLSMGIVPGAS 37 (75)
T ss_pred EecCCHHHHHHHHHcCCCCCCE
Confidence 4566778889999999987543
No 144
>PRK14135 recX recombination regulator RecX; Provisional
Probab=23.00 E-value=6.5e+02 Score=23.79 Aligned_cols=79 Identities=18% Similarity=0.196 Sum_probs=42.5
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCC--CHHHHHhhcCCCcchHHHHHhHHHHhhhhhccccHHHHHHHHhCCCCHHHHHHH
Q 017845 165 KIKELVSIGFEKELVAEALRRNEN--DSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEA 242 (365)
Q Consensus 165 ~l~~L~~MGF~~~~Ar~ALr~t~n--dve~Al~~L~~p~~~~~L~~~~~~~~~~~~~~~~~~~I~~L~~MGF~~~~A~~A 242 (365)
....|+.-||+...+..||....- +-+.-.+.|.. .+..-............-...+.-|..=||+.+....+
T Consensus 181 i~~~L~rkGf~~~~I~~~l~~~~~e~d~~~e~e~l~~-----~~~k~~~k~~~~~~~k~k~K~~~~L~rrGF~~~~I~~~ 255 (263)
T PRK14135 181 IIQSLLTKGFSYEVIKAALEELDLEQDEEEEQELLQK-----ELEKAYRKYSKYDGYELKQKLKQALYRKGFSYDDIDSF 255 (263)
T ss_pred HHHHHHhCCCCHHHHHHHHHHcccCCChHHHHHHHHH-----HHHHHHHHHhcCCHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence 567899999999999999987531 11111110000 00000000000000011234556788999999999999
Q ss_pred HHHcCC
Q 017845 243 CRAGGD 248 (365)
Q Consensus 243 L~~~~n 248 (365)
|.....
T Consensus 256 l~~~~~ 261 (263)
T PRK14135 256 LREYGI 261 (263)
T ss_pred HHHhcc
Confidence 976543
No 145
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=22.34 E-value=75 Score=19.30 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=22.1
Q ss_pred HHHhhhcccCChhHHHHHhHHHHhhhcc
Q 017845 59 LEGVAAYHSGQFDKARNALTSAQAKFFQ 86 (365)
Q Consensus 59 Lqgvv~~h~g~~~~A~~~l~~A~~~~~~ 86 (365)
-.|.+.+..|+.++|...|...-..+|.
T Consensus 5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 5 RLARCYYKLGDYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence 3577777789999999999888777653
No 146
>PF14748 P5CR_dimer: Pyrroline-5-carboxylate reductase dimerisation; PDB: 2RCY_D 3TRI_A 2IZZ_B 2GR9_B 2GRA_B 2GER_C 1YQG_A 2AG8_A 3GT0_A 2AMF_E ....
Probab=21.72 E-value=3e+02 Score=22.71 Aligned_cols=74 Identities=19% Similarity=0.243 Sum_probs=44.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHH
Q 017845 91 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELV 170 (365)
Q Consensus 91 ~~~L~~LmeMGF~~~~arrALra~~~dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~~~~~~~vd~~~l~~L~ 170 (365)
+..+...+.+||++..|++....+ +..+...+.+....+...++ . -.+|+|. ..+.|..|.
T Consensus 25 eal~~a~v~~Gl~~~~A~~lv~~t---~~G~a~ll~~~~~~~~~l~~------~--------v~tPgG~--T~~gl~~L~ 85 (107)
T PF14748_consen 25 EALADAAVAQGLPREEARKLVAQT---FIGAAKLLEESGRSPAELRD------E--------VTTPGGT--TIAGLEVLE 85 (107)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHH---HHHHHHHHHHCSS-HHHHHH------H--------HS-TTSH--HHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH---HHHHHHHHHccCCCHHHHhh------h--------ccCCCCc--HHHHHHHHH
Confidence 445567788999999999988765 46677787766555554421 0 1244443 467888888
Q ss_pred hCCCCHHHHHHHHH
Q 017845 171 SIGFEKELVAEALR 184 (365)
Q Consensus 171 ~MGF~~~~Ar~ALr 184 (365)
..||..- ..+|+.
T Consensus 86 ~~~~~~~-~~~a~~ 98 (107)
T PF14748_consen 86 KGGLRAA-IMEALE 98 (107)
T ss_dssp HTTHHHH-HHHHHH
T ss_pred HCCHHHH-HHHHHH
Confidence 8887443 444443
No 147
>PRK01905 DNA-binding protein Fis; Provisional
Probab=21.35 E-value=86 Score=24.48 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=21.8
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHH
Q 017845 234 FERPRVIEACRAGGDDIHQIMLQL 257 (365)
Q Consensus 234 F~~~~A~~AL~~~~nnve~A~e~L 257 (365)
|++...+.+|..|++|+.+|+..|
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L 60 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL 60 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH
Confidence 678889999999999999999877
No 148
>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.
Probab=21.30 E-value=77 Score=29.59 Aligned_cols=25 Identities=32% Similarity=0.581 Sum_probs=19.7
Q ss_pred CCCHHHHHHHHhCCCCHHHHHHHHH
Q 017845 88 QVPDESLSLVMSMGFKEQDAKRALR 112 (365)
Q Consensus 88 ~vd~~~L~~LmeMGF~~~~arrALr 112 (365)
++|+++|=-||+.|+++++|++=|-
T Consensus 202 ~idee~LFYL~SRGl~~~eA~~Liv 226 (229)
T PF01458_consen 202 QIDEEQLFYLMSRGLSEEEARKLIV 226 (229)
T ss_dssp ES-HHHHHHHHCTT--HHHHHHHHH
T ss_pred cCCHHHHHHHHHcCCCHHHHHHHHH
Confidence 5799999999999999999998664
No 149
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=21.20 E-value=2.3e+02 Score=27.95 Aligned_cols=30 Identities=23% Similarity=0.364 Sum_probs=24.6
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHh
Q 017845 166 IKELVSI-GFEKELVAEALRRNENDSQKALD 195 (365)
Q Consensus 166 l~~L~~M-GF~~~~Ar~ALr~t~ndve~Al~ 195 (365)
+..||-+ |++...|++.|.+++|++..|++
T Consensus 262 ~ai~~~~~~~~~~~a~~~l~~~~~~~~~~l~ 292 (296)
T PRK12570 262 LAILMILTGMDVEQARAALSHADGFLRKAIE 292 (296)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCChHHHHHH
Confidence 3445444 79999999999999999999986
No 150
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=21.13 E-value=84 Score=25.83 Aligned_cols=24 Identities=17% Similarity=0.113 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHH
Q 017845 234 FERPRVIEACRAGGDDIHQIMLQL 257 (365)
Q Consensus 234 F~~~~A~~AL~~~~nnve~A~e~L 257 (365)
|++...+.||+.|+||..+|+.+|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 678889999999999999999987
No 151
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=20.84 E-value=1.2e+02 Score=25.77 Aligned_cols=38 Identities=21% Similarity=0.185 Sum_probs=25.7
Q ss_pred hhHHHHHhHHH----HhhhccCCCCH-HHHHHHHhCCCCHHHH
Q 017845 70 FDKARNALTSA----QAKFFQLQVPD-ESLSLVMSMGFKEQDA 107 (365)
Q Consensus 70 ~~~A~~~l~~A----~~~~~~l~vd~-~~L~~LmeMGF~~~~a 107 (365)
..+|.+.|.+- ...+..-++|- ..++|.|=|||.+..-
T Consensus 25 ~skAkeFL~~l~R~kR~lWDRsrPdVQQW~qQFlYmGFDEak~ 67 (114)
T PF15187_consen 25 ESKAKEFLASLKRQKRQLWDRSRPDVQQWYQQFLYMGFDEAKF 67 (114)
T ss_pred HHHHHHHHHHhhhHHHhhhccCCHHHHHHHHHHHHhcchHHHh
Confidence 35677777654 34444445443 6788999999998653
Done!