Query 006751
Match_columns 632
No_of_seqs 110 out of 122
Neff 2.8
Searched_HMMs 46136
Date Thu Mar 28 13:57:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006751.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006751hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0944 Ubiquitin-specific pro 99.9 2.7E-25 5.9E-30 242.1 10.6 109 159-271 570-682 (763)
2 COG5207 UBP14 Isopeptidase T [ 99.9 3.6E-23 7.7E-28 221.4 8.1 110 159-273 557-670 (749)
3 PF00627 UBA: UBA/TS-N domain; 99.0 6.5E-10 1.4E-14 81.4 4.9 36 160-195 2-37 (37)
4 smart00165 UBA Ubiquitin assoc 98.9 1.4E-09 3E-14 78.5 4.9 37 160-196 1-37 (37)
5 cd00194 UBA Ubiquitin Associat 98.9 2.4E-09 5.1E-14 77.6 5.1 37 161-197 2-38 (38)
6 PF00627 UBA: UBA/TS-N domain; 98.7 1.7E-08 3.8E-13 73.9 5.3 36 220-259 1-37 (37)
7 smart00165 UBA Ubiquitin assoc 98.5 1.1E-07 2.5E-12 68.6 4.7 33 224-260 5-37 (37)
8 cd00194 UBA Ubiquitin Associat 98.5 1.3E-07 2.9E-12 68.5 4.9 34 224-261 5-38 (38)
9 TIGR00601 rad23 UV excision re 98.4 1.6E-06 3.5E-11 91.8 11.7 47 154-200 150-196 (378)
10 KOG2561 Adaptor protein NUB1, 98.3 3.4E-06 7.3E-11 91.5 10.9 125 122-262 339-467 (568)
11 KOG0944 Ubiquitin-specific pro 98.1 1.8E-06 3.9E-11 96.7 4.1 49 159-207 634-682 (763)
12 KOG2561 Adaptor protein NUB1, 98.0 1.4E-05 3E-10 86.9 8.2 174 111-289 249-440 (568)
13 KOG0011 Nucleotide excision re 97.3 0.0016 3.5E-08 68.9 10.2 46 156-201 131-176 (340)
14 COG5207 UBP14 Isopeptidase T [ 97.0 0.00084 1.8E-08 74.6 5.0 41 224-268 562-603 (749)
15 TIGR00601 rad23 UV excision re 96.9 0.0011 2.3E-08 70.8 4.9 35 224-262 160-194 (378)
16 KOG2689 Predicted ubiquitin re 96.8 0.0013 2.8E-08 68.3 4.4 44 164-208 4-49 (290)
17 PF14555 UBA_4: UBA-like domai 96.3 0.01 2.3E-07 45.1 5.7 40 224-266 4-43 (43)
18 PRK06369 nac nascent polypepti 96.0 0.014 3E-07 54.0 5.7 41 218-261 73-114 (115)
19 PRK12332 tsf elongation factor 95.9 0.013 2.8E-07 57.9 5.6 41 220-263 3-44 (198)
20 TIGR00116 tsf translation elon 95.8 0.013 2.7E-07 61.0 5.4 42 220-264 3-45 (290)
21 KOG0011 Nucleotide excision re 95.8 0.012 2.6E-07 62.5 4.9 42 158-199 296-337 (340)
22 PRK09377 tsf elongation factor 95.8 0.015 3.3E-07 60.4 5.6 41 220-263 4-45 (290)
23 TIGR00264 alpha-NAC-related pr 95.7 0.02 4.2E-07 53.2 5.4 39 219-260 76-115 (116)
24 CHL00098 tsf elongation factor 95.4 0.024 5.3E-07 56.2 5.2 37 224-263 5-41 (200)
25 PF02845 CUE: CUE domain; Int 95.3 0.047 1E-06 41.1 5.4 36 223-261 4-40 (42)
26 COG0264 Tsf Translation elonga 94.5 0.059 1.3E-06 56.7 5.5 38 224-264 9-46 (296)
27 COG1308 EGD2 Transcription fac 94.3 0.082 1.8E-06 49.6 5.4 38 219-259 82-120 (122)
28 smart00546 CUE Domain that may 94.0 0.093 2E-06 39.6 4.3 38 160-198 2-42 (43)
29 PRK09377 tsf elongation factor 93.9 0.076 1.6E-06 55.4 4.8 38 162-199 7-45 (290)
30 smart00546 CUE Domain that may 93.8 0.18 3.9E-06 38.1 5.5 37 223-261 5-41 (43)
31 TIGR00116 tsf translation elon 93.7 0.087 1.9E-06 55.0 4.8 38 162-199 6-44 (290)
32 CHL00098 tsf elongation factor 93.6 0.093 2E-06 52.2 4.6 38 162-199 3-41 (200)
33 PRK12332 tsf elongation factor 93.5 0.098 2.1E-06 51.9 4.6 38 162-199 6-44 (198)
34 PF14555 UBA_4: UBA-like domai 93.3 0.19 4.2E-06 38.2 5.0 41 162-202 2-43 (43)
35 PF02845 CUE: CUE domain; Int 92.8 0.25 5.4E-06 37.3 4.9 38 161-198 2-41 (42)
36 KOG0010 Ubiquitin-like protein 88.3 0.63 1.4E-05 52.0 4.9 37 161-197 455-492 (493)
37 KOG1071 Mitochondrial translat 85.0 1.5 3.1E-05 47.3 5.2 42 224-265 47-88 (340)
38 KOG0010 Ubiquitin-like protein 83.7 1.4 3E-05 49.4 4.6 34 224-261 458-492 (493)
39 KOG2689 Predicted ubiquitin re 82.8 1.8 3.8E-05 45.8 4.7 40 224-267 4-45 (290)
40 COG0264 Tsf Translation elonga 81.5 1.5 3.2E-05 46.5 3.7 29 171-199 17-45 (296)
41 COG4008 Predicted metal-bindin 79.7 3.7 8.1E-05 39.6 5.3 36 222-262 116-151 (153)
42 PF09288 UBA_3: Fungal ubiquit 77.6 2.4 5.1E-05 35.4 2.9 25 159-183 8-32 (55)
43 PRK12570 N-acetylmuramic acid- 77.5 12 0.00026 39.0 8.7 23 235-257 270-292 (296)
44 KOG0418 Ubiquitin-protein liga 77.4 5.4 0.00012 40.4 5.9 61 138-198 130-200 (200)
45 PF12244 DUF3606: Protein of u 75.0 8.5 0.00018 31.5 5.5 41 217-260 14-56 (57)
46 PF11626 Rap1_C: TRF2-interact 70.3 6.1 0.00013 34.2 3.8 37 165-201 2-38 (87)
47 PRK05441 murQ N-acetylmuramic 69.5 25 0.00054 36.7 8.8 25 235-259 274-298 (299)
48 PF02536 mTERF: mTERF; InterP 69.4 13 0.00027 37.9 6.5 114 152-265 131-291 (345)
49 TIGR00985 3a0801s04tom mitocho 67.1 31 0.00067 33.6 8.2 69 121-196 34-115 (148)
50 COG3461 Uncharacterized conser 65.2 12 0.00025 34.5 4.7 54 145-200 10-75 (103)
51 TIGR00274 N-acetylmuramic acid 63.6 27 0.00058 36.5 7.6 23 235-257 269-291 (291)
52 PF03474 DMA: DMRTA motif; In 61.5 10 0.00022 29.8 3.1 22 238-259 17-38 (39)
53 PF07499 RuvA_C: RuvA, C-termi 61.0 12 0.00027 29.1 3.6 24 160-183 3-26 (47)
54 KOG1071 Mitochondrial translat 60.6 13 0.00028 40.3 4.8 38 162-199 48-86 (340)
55 COG2137 OraA Uncharacterized p 60.4 59 0.0013 32.2 8.9 89 152-253 74-169 (174)
56 PF11626 Rap1_C: TRF2-interact 59.0 18 0.00039 31.4 4.6 31 232-262 5-35 (87)
57 PF06972 DUF1296: Protein of u 58.7 23 0.00049 30.3 4.9 36 224-262 9-45 (60)
58 smart00804 TAP_C C-terminal do 58.5 34 0.00074 28.9 6.0 38 224-261 13-50 (63)
59 PF07499 RuvA_C: RuvA, C-termi 58.4 9.7 0.00021 29.7 2.6 21 229-249 8-28 (47)
60 PRK06369 nac nascent polypepti 57.0 13 0.00028 34.9 3.7 29 169-197 86-114 (115)
61 PF02954 HTH_8: Bacterial regu 57.0 9 0.0002 29.0 2.2 24 236-259 5-28 (42)
62 TIGR00264 alpha-NAC-related pr 55.2 14 0.00031 34.8 3.6 28 169-196 88-115 (116)
63 KOG4571 Activating transcripti 54.5 41 0.00088 36.2 7.2 81 89-170 179-274 (294)
64 PF08938 HBS1_N: HBS1 N-termin 54.1 5 0.00011 34.3 0.4 27 237-263 45-71 (79)
65 PF01988 VIT1: VIT family; In 51.8 41 0.00089 33.2 6.4 82 161-264 39-121 (213)
66 PLN03086 PRLI-interacting fact 51.2 33 0.00071 39.6 6.3 44 123-168 18-61 (567)
67 COG2137 OraA Uncharacterized p 50.6 42 0.00092 33.2 6.2 105 139-262 14-127 (174)
68 KOG0418 Ubiquitin-protein liga 50.1 18 0.00039 36.9 3.6 34 224-261 166-199 (200)
69 PRK15115 response regulator Gl 47.7 1.3E+02 0.0028 31.9 9.6 24 236-259 398-421 (444)
70 KOG3450 Huntingtin interacting 46.1 29 0.00062 32.9 4.0 42 216-261 75-118 (119)
71 KOG4460 Nuclear pore complex, 43.9 27 0.00059 40.5 4.2 18 144-161 631-648 (741)
72 TIGR00115 tig trigger factor. 43.2 2.5E+02 0.0054 30.0 11.0 82 156-248 300-388 (408)
73 PF13243 Prenyltrans_1: Prenyl 42.8 25 0.00054 29.8 2.9 30 172-201 27-61 (109)
74 PF01988 VIT1: VIT family; In 42.6 74 0.0016 31.4 6.5 27 158-184 80-106 (213)
75 PF10607 CLTH: CTLH/CRA C-term 42.3 63 0.0014 29.1 5.6 53 184-263 13-67 (145)
76 PRK00116 ruvA Holliday junctio 41.9 1.6E+02 0.0036 28.9 8.7 25 160-184 149-173 (192)
77 cd02432 Nodulin-21_like_1 Nodu 41.9 95 0.002 31.4 7.3 23 161-183 89-111 (218)
78 PRK14600 ruvA Holliday junctio 41.6 84 0.0018 31.2 6.7 36 159-194 144-181 (186)
79 PLN03077 Protein ECB2; Provisi 41.5 1.6E+02 0.0036 34.1 10.0 109 152-263 532-652 (857)
80 PF03634 TCP: TCP family trans 41.0 12 0.00027 34.5 0.9 32 217-264 25-56 (138)
81 PRK14137 recX recombination re 40.3 92 0.002 31.2 6.8 100 145-263 40-145 (195)
82 PRK00430 fis global DNA-bindin 39.9 57 0.0012 29.2 4.8 24 236-259 55-78 (95)
83 cd02433 Nodulin-21_like_2 Nodu 39.9 73 0.0016 32.6 6.2 35 159-193 99-133 (234)
84 PRK14603 ruvA Holliday junctio 39.1 1.1E+02 0.0023 30.7 7.0 25 159-183 151-175 (197)
85 PF03943 TAP_C: TAP C-terminal 38.5 37 0.00079 27.3 3.1 38 226-263 3-40 (51)
86 PRK01490 tig trigger factor; P 38.5 5.5E+02 0.012 27.8 13.2 37 227-264 377-422 (435)
87 PTZ00217 flap endonuclease-1; 38.2 1.2E+02 0.0026 33.2 7.9 70 122-199 99-172 (393)
88 PF11547 E3_UbLigase_EDD: E3 u 37.5 60 0.0013 27.1 4.2 46 218-265 6-52 (53)
89 PRK10365 transcriptional regul 37.1 2.4E+02 0.0051 29.7 9.6 23 237-259 406-428 (441)
90 PRK06476 pyrroline-5-carboxyla 36.4 79 0.0017 31.3 5.7 39 151-190 164-203 (258)
91 TIGR00084 ruvA Holliday juncti 35.5 61 0.0013 32.1 4.7 25 159-183 146-170 (191)
92 PF14490 HHH_4: Helix-hairpin- 34.3 72 0.0016 27.8 4.5 42 224-268 8-49 (94)
93 PF07223 DUF1421: Protein of u 34.2 35 0.00075 37.4 3.1 31 153-183 314-344 (358)
94 PF02631 RecX: RecX family; I 33.7 1.8E+02 0.0039 26.0 7.0 73 161-247 46-118 (121)
95 PRK03980 flap endonuclease-1; 33.4 1.9E+02 0.0041 30.5 8.1 35 229-263 167-210 (292)
96 PRK14605 ruvA Holliday junctio 32.7 3.7E+02 0.0081 26.8 9.6 36 159-194 147-186 (194)
97 PF10607 CLTH: CTLH/CRA C-term 32.4 46 0.00099 30.0 3.1 26 239-266 6-31 (145)
98 PRK11788 tetratricopeptide rep 32.3 5.2E+02 0.011 26.1 10.7 51 150-200 41-97 (389)
99 PF03154 Atrophin-1: Atrophin- 31.8 41 0.00088 41.1 3.3 29 119-150 713-741 (982)
100 COG3122 Uncharacterized protei 31.3 1.3E+02 0.0028 31.0 6.2 50 121-171 71-120 (215)
101 PF05861 PhnI: Bacterial phosp 31.1 1.1E+02 0.0024 33.8 6.1 59 220-278 37-98 (358)
102 TIGR00084 ruvA Holliday juncti 30.6 71 0.0015 31.6 4.3 21 229-249 152-172 (191)
103 PRK14604 ruvA Holliday junctio 29.8 86 0.0019 31.3 4.7 20 229-248 154-173 (195)
104 cd02889 SQCY Squalene cyclase 29.7 2.5E+02 0.0055 28.4 8.1 25 175-199 29-59 (348)
105 PF11547 E3_UbLigase_EDD: E3 u 28.8 96 0.0021 26.0 4.0 40 161-200 10-51 (53)
106 cd07429 Cby_like Chibby, a nuc 28.7 2.5E+02 0.0054 26.4 7.2 83 60-169 22-104 (108)
107 PRK07993 DNA polymerase III su 28.3 86 0.0019 33.3 4.7 48 148-195 156-205 (334)
108 smart00311 PWI PWI, domain in 28.1 1.5E+02 0.0032 25.1 5.2 50 125-174 6-56 (74)
109 PRK14606 ruvA Holliday junctio 28.1 1.4E+02 0.003 29.8 5.8 25 160-184 143-167 (188)
110 COG2103 Predicted sugar phosph 28.1 2.3E+02 0.005 30.7 7.7 61 175-258 234-295 (298)
111 PLN03196 MOC1-like protein; Pr 28.0 1E+02 0.0022 34.5 5.5 36 229-264 345-387 (487)
112 PF08938 HBS1_N: HBS1 N-termin 27.9 31 0.00067 29.6 1.2 27 173-199 45-71 (79)
113 COG1308 EGD2 Transcription fac 27.8 69 0.0015 30.7 3.5 27 169-195 94-120 (122)
114 PRK08769 DNA polymerase III su 27.7 1E+02 0.0022 32.9 5.1 70 189-260 127-210 (319)
115 smart00668 CTLH C-terminal to 27.5 82 0.0018 24.0 3.3 25 239-265 6-30 (58)
116 PF03801 Ndc80_HEC: HEC/Ndc80p 27.4 39 0.00084 32.5 1.8 86 161-260 43-136 (157)
117 KOG2239 Transcription factor c 27.3 82 0.0018 32.5 4.2 32 224-258 175-206 (209)
118 PF02731 SKIP_SNW: SKIP/SNW do 27.3 89 0.0019 31.0 4.3 31 120-150 117-150 (158)
119 PRK07993 DNA polymerase III su 27.2 1.4E+02 0.0031 31.7 6.1 69 189-260 122-206 (334)
120 KOG2775 Metallopeptidase [Gene 26.7 86 0.0019 34.5 4.4 66 128-200 75-152 (397)
121 PRK14601 ruvA Holliday junctio 26.5 1.1E+02 0.0023 30.5 4.7 25 160-184 142-166 (183)
122 PRK08769 DNA polymerase III su 26.3 83 0.0018 33.5 4.2 49 148-196 161-210 (319)
123 KOG1029 Endocytic adaptor prot 26.1 70 0.0015 38.8 3.9 23 24-46 132-154 (1118)
124 cd02434 Nodulin-21_like_3 Nodu 25.6 1.4E+02 0.0029 30.3 5.4 23 161-183 84-106 (225)
125 KOG0687 26S proteasome regulat 25.6 1.9E+02 0.0041 32.3 6.7 106 119-254 67-179 (393)
126 KOG1796 Vacuolar protein sorti 25.3 25 0.00054 40.4 0.2 35 166-200 382-416 (609)
127 KOG1996 mRNA splicing factor [ 24.9 76 0.0017 34.7 3.6 24 124-147 111-134 (378)
128 PF02536 mTERF: mTERF; InterP 24.1 1.1E+02 0.0024 31.2 4.4 104 144-248 86-199 (345)
129 PRK14601 ruvA Holliday junctio 24.1 1.3E+02 0.0028 29.9 4.8 21 229-249 147-167 (183)
130 PLN03081 pentatricopeptide (PP 23.6 3.2E+02 0.0069 31.1 8.3 40 162-202 346-389 (697)
131 PRK14602 ruvA Holliday junctio 23.5 1.5E+02 0.0032 29.8 5.1 25 159-183 154-178 (203)
132 PRK14603 ruvA Holliday junctio 23.3 1.4E+02 0.003 29.9 4.9 20 229-248 157-176 (197)
133 PF14772 NYD-SP28: Sperm tail 23.3 3.1E+02 0.0067 24.3 6.6 14 122-135 4-17 (104)
134 PRK07940 DNA polymerase III su 22.9 1.3E+02 0.0028 32.9 4.9 28 233-260 188-215 (394)
135 KOG3910 Helix loop helix trans 22.7 4.2E+02 0.0091 31.1 8.9 18 145-162 546-563 (632)
136 PF13331 DUF4093: Domain of un 22.1 1.1E+02 0.0023 27.3 3.4 40 139-181 47-86 (87)
137 PRK10947 global DNA-binding tr 22.0 2.6E+02 0.0056 26.9 6.2 23 155-177 53-75 (135)
138 cd02891 A2M_like Proteins simi 21.9 2.4E+02 0.0051 27.7 6.1 15 187-201 159-173 (282)
139 PF10827 DUF2552: Protein of u 21.9 53 0.0011 29.3 1.5 15 187-201 60-74 (79)
140 PRK14605 ruvA Holliday junctio 21.6 1.7E+02 0.0037 29.1 5.1 23 227-249 151-173 (194)
141 PF12796 Ank_2: Ankyrin repeat 21.3 1E+02 0.0022 24.9 2.9 75 157-238 6-85 (89)
142 PF12796 Ank_2: Ankyrin repeat 21.3 1.1E+02 0.0024 24.6 3.2 20 157-176 35-54 (89)
143 PRK14136 recX recombination re 21.2 5.9E+02 0.013 27.9 9.2 103 133-259 154-264 (309)
144 KOG0837 Transcriptional activa 21.1 1.3E+02 0.0029 32.2 4.4 40 114-158 189-228 (279)
145 PF05698 Trigger_C: Bacterial 21.1 6.1E+02 0.013 22.8 8.4 35 226-260 119-161 (162)
146 PRK13901 ruvA Holliday junctio 21.0 98 0.0021 31.3 3.3 25 159-183 143-167 (196)
147 COG5175 MOT2 Transcriptional r 21.0 43 0.00093 37.1 0.9 22 128-150 82-103 (480)
148 PF00610 DEP: Domain found in 21.0 1.4E+02 0.003 24.3 3.6 12 189-200 21-32 (74)
149 PRK14700 recombination factor 20.8 65 0.0014 34.6 2.1 32 173-204 125-161 (300)
150 PRK14606 ruvA Holliday junctio 20.7 1.6E+02 0.0035 29.3 4.7 21 229-249 148-168 (188)
151 PF14490 HHH_4: Helix-hairpin- 20.7 1.9E+02 0.0041 25.2 4.7 34 156-189 4-37 (94)
152 PRK05441 murQ N-acetylmuramic 20.7 1.7E+02 0.0036 30.7 5.1 31 234-264 246-276 (299)
153 PF04361 DUF494: Protein of un 20.7 1.3E+02 0.0029 29.2 4.0 50 191-265 4-53 (155)
154 KOG3390 General control of ami 20.7 2.6E+02 0.0057 26.6 5.7 42 133-191 6-49 (120)
155 PLN03196 MOC1-like protein; Pr 20.4 3.2E+02 0.0069 30.8 7.4 49 150-198 111-170 (487)
156 TIGR01446 DnaD_dom DnaD and ph 20.3 1.4E+02 0.0031 24.3 3.6 27 222-248 16-42 (73)
157 PF07882 Fucose_iso_N2: L-fuco 20.1 53 0.0012 33.2 1.3 61 131-191 70-143 (181)
158 PRK14604 ruvA Holliday junctio 20.1 1.9E+02 0.0042 28.9 5.1 24 160-183 149-172 (195)
159 PF13249 Prenyltrans_2: Prenyl 20.0 1.2E+02 0.0026 25.5 3.2 25 176-200 28-56 (113)
No 1
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=2.7e-25 Score=242.12 Aligned_cols=109 Identities=22% Similarity=0.303 Sum_probs=94.5
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCC--CchHH-HHHHHHHHHhc
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLN-EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKI--DISEE-LARISEIELRY 234 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiat-NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~i--DIseE-La~L~eMevsy 234 (632)
.++.+|.||+.||||++.|+|||+.| |+++|+||||||+||||||||+|+.+.+....+. .+++| ++.|.+|
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp~~~~~a~~~~~~e~~v~si~sm---- 645 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVPGNSPKADAREVDEESVASIVSM---- 645 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCceecCCCCCccccCCCChhHheeeeee----
Confidence 58899999999999999999999999 9999999999999999999999997744333222 35666 7777666
Q ss_pred CCCHHHHHHHHHHccCCHHHHHHHHhhcCCCCCCCCC
Q 006751 235 KCSKQEVERAVVASEGDLDKAEDTIKVQKQELPATPP 271 (632)
Q Consensus 235 GFs~~qAeKALkeTdGDVERAVEWLFSHpDD~~s~~~ 271 (632)
||+..||++||++++|||||||||+|+|+|+..--++
T Consensus 646 Gf~~~qa~~aL~~~n~nveravDWif~h~d~~~ed~~ 682 (763)
T KOG0944|consen 646 GFSRNQAIKALKATNNNVERAVDWIFSHMDIPVEDAA 682 (763)
T ss_pred cCcHHHHHHHHHhcCccHHHHHHHHHhcccccccccC
Confidence 9999999999999999999999999999996554443
No 2
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.88 E-value=3.6e-23 Score=221.37 Aligned_cols=110 Identities=22% Similarity=0.262 Sum_probs=94.2
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCC--CchHH-HHHHHHHHHhc
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLN-EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKI--DISEE-LARISEIELRY 234 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiat-NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~i--DIseE-La~L~eMevsy 234 (632)
.++.+|.||++||||+++|.|||.+| |.|+|.||||||+||||||+|+|++. +..-++. .++++ +..|.+|
T Consensus 557 ~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~-~~~vPKkDkeVdE~~~~Slle~---- 631 (749)
T COG5207 557 DNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDPFVP-PPNVPKKDKEVDESKARSLLEN---- 631 (749)
T ss_pred chHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCCCCC-CCCCCcccccccHHHHHHHHHc----
Confidence 56889999999999999999999998 88999999999999999999999865 3333333 45666 6666666
Q ss_pred CCCHHHHHHHHHHccCCHHHHHHHHhhcCCCCCCCCCCC
Q 006751 235 KCSKQEVERAVVASEGDLDKAEDTIKVQKQELPATPPRP 273 (632)
Q Consensus 235 GFs~~qAeKALkeTdGDVERAVEWLFSHpDD~~s~~~kp 273 (632)
||++.++||||.+.+||++|+|+|+|+|+|...-.|+-|
T Consensus 632 Gln~n~~Rkal~~~n~d~~r~V~w~~N~~D~tF~EP~v~ 670 (749)
T COG5207 632 GLNPNLCRKALMDMNTDSKRRVVWCINDDDGTFPEPEVP 670 (749)
T ss_pred CCCHHHHHHHHHHccCCchheEEEEEeCCCCCCCCCCCC
Confidence 999999999999999999999999999999877655544
No 3
>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=98.98 E-value=6.5e-10 Score=81.36 Aligned_cols=36 Identities=50% Similarity=0.683 Sum_probs=33.6
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHh
Q 006751 160 LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWL 195 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWL 195 (632)
+++.|++|++|||+..+|++||..+++|+|.|++||
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 578999999999999999999999999999999998
No 4
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.93 E-value=1.4e-09 Score=78.52 Aligned_cols=37 Identities=41% Similarity=0.529 Sum_probs=35.2
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhh
Q 006751 160 LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLF 196 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLF 196 (632)
+++.|++|++|||++.+|..||..+++|+|.|++|||
T Consensus 1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 3678999999999999999999999999999999997
No 5
>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=98.90 E-value=2.4e-09 Score=77.59 Aligned_cols=37 Identities=46% Similarity=0.683 Sum_probs=35.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhh
Q 006751 161 EALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFE 197 (632)
Q Consensus 161 E~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFE 197 (632)
++.|++|++|||++.+|..||.++++|+|.|++|||+
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 6789999999999999999999999999999999985
No 6
>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=98.74 E-value=1.7e-08 Score=73.86 Aligned_cols=36 Identities=28% Similarity=0.517 Sum_probs=32.3
Q ss_pred chHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHH
Q 006751 220 ISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 220 IseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWL 259 (632)
|+++ |.+|.+| ||+.++|++||+.|+||+|+|++||
T Consensus 1 i~~~~v~~L~~m----Gf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 1 IDEEKVQQLMEM----GFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp SHHHHHHHHHHH----TS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CCHHHHHHHHHc----CCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 4566 8999888 9999999999999999999999998
No 7
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.54 E-value=1.1e-07 Score=68.63 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=31.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHh
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIK 260 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLF 260 (632)
|++|.+| ||+.++|++||+.|+||+++|++|||
T Consensus 5 v~~L~~m----Gf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 5 IDQLLEM----GFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHc----CCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 7888888 99999999999999999999999997
No 8
>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=98.54 E-value=1.3e-07 Score=68.47 Aligned_cols=34 Identities=21% Similarity=0.385 Sum_probs=31.8
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
|.+|.+| ||+.++|++||+.|+||+++|++|||+
T Consensus 5 v~~L~~m----Gf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 5 LEQLLEM----GFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHc----CCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 7788777 999999999999999999999999985
No 9
>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=98.43 E-value=1.6e-06 Score=91.75 Aligned_cols=47 Identities=17% Similarity=0.288 Sum_probs=41.6
Q ss_pred HHhhhhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCC
Q 006751 154 YLMSRKLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVSE 200 (632)
Q Consensus 154 yLmsRKlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHME 200 (632)
.++.-.+|..|++|++|||.+.++.+||.+.=+|.|.||+||+.++-
T Consensus 150 l~~g~~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP 196 (378)
T TIGR00601 150 LVVGSERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIP 196 (378)
T ss_pred cccchHHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCC
Confidence 34445678899999999999999999999988889999999998875
No 10
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.31 E-value=3.4e-06 Score=91.51 Aligned_cols=125 Identities=24% Similarity=0.253 Sum_probs=91.7
Q ss_pred hhHHHHHHhhhhhHHHHHHHHHHHHHHH---HHHHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhc
Q 006751 122 NDRREKIRLKNEKKHQRQREKRAQELHE---RCCGYLMSRKLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEV 198 (632)
Q Consensus 122 ndkreKiR~KNEkKHqRqkErraqElhE---RC~~yLmsRKlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEH 198 (632)
-.+|||+-||-||--+||||.-.+--.+ -|.-+ +...+.-|++|||...-|.-||..+++|+..|++-|-.|
T Consensus 339 ~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wv-----n~rs~~rL~~mGyer~la~eaL~r~~Ndi~~aldllq~e 413 (568)
T KOG2561|consen 339 IERREKLAQKREKDLAREREILERKKYGNTPMKKWV-----NPRSLERLVSMGYERELAAEALRRNENDIQKALDLLQDE 413 (568)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccccc-----CHHHHHHHHhcchHhHHHHHHHHhccCcHHHHHHhcCCc
Confidence 3689999999999888888772221111 12222 334677899999999999999999999999999988776
Q ss_pred CCcccCCCCCcccCCCCCCCCchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhc
Q 006751 199 SEEEARNTDPKLESSGSLKIDISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQ 262 (632)
Q Consensus 199 MEDpDiD~P~~l~s~~~~~iDIseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSH 262 (632)
-|+-.-..|- -...++.+ |+.|..| ||+.-.|+-||..++|+++.|...|.-.
T Consensus 414 sdel~~n~~~-------~p~~vd~~~la~Lv~m----GF~e~~A~~ALe~~gnn~~~a~~~L~~s 467 (568)
T KOG2561|consen 414 SDELESNKPK-------RPEQVDGISLAELVSM----GFEEGKARSALEAGGNNEDTAQRLLSAS 467 (568)
T ss_pred chhhhccCCC-------CCcccchhhHHHHHHh----ccccchHHHHHHhcCCcHHHHHHHHHHh
Confidence 6542122220 01124445 7888777 9999999999999999999999999543
No 11
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.8e-06 Score=96.72 Aligned_cols=49 Identities=29% Similarity=0.460 Sum_probs=44.5
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCCcccCCCC
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVSEEEARNTD 207 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHMEDpDiD~P 207 (632)
..|+.|+.|++|||...+|.+||.++|++||.|++|||.|||++-+|.+
T Consensus 634 ~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~h~d~~~ed~~ 682 (763)
T KOG0944|consen 634 VDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFSHMDIPVEDAA 682 (763)
T ss_pred CChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHhcccccccccC
Confidence 5789999999999999999999999999999999999999996655543
No 12
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.02 E-value=1.4e-05 Score=86.94 Aligned_cols=174 Identities=26% Similarity=0.348 Sum_probs=121.0
Q ss_pred CCCCCCCCCCC-hhHHHHHHhh----hhhHHHHHHHHHHHHHHHHHHHHHhhhhh-HHHHHHHHhcCCCHHHHHHHHHHh
Q 006751 111 SSRQDPIPGSD-NDRREKIRLK----NEKKHQRQREKRAQELHERCCGYLMSRKL-EALSQQLVAMGFSSERATLALMLN 184 (632)
Q Consensus 111 ~~~~~~ipg~d-ndkreKiR~K----NEkKHqRqkErraqElhERC~~yLmsRKl-E~LVqQLvAMGFpe~RCkKALiat 184 (632)
..|.-.|-|-+ ..|-.-+|++ .=--||-|+-+ |=|-.|+-..-|.+-|. .+-+.-|+.|||-+-.+++||..+
T Consensus 249 l~Rl~~lKg~~spEraL~lRL~LLQGV~~yHqg~~de-Aye~le~a~~~l~elki~d~~lsllv~mGfeesdaRlaLRsc 327 (568)
T KOG2561|consen 249 LSRLRSLKGGQSPERALILRLELLQGVVAYHQGQRDE-AYEALESAHAKLLELKINDETLSLLVGMGFEESDARLALRSC 327 (568)
T ss_pred hHhhhhccCCCChhHHHHHHHHHHHHHHHHHcCCcHH-HHHHHHHHHHHHHHeeccchHHHHHHHcCCCchHHHHHHHhc
Confidence 34555666555 3443334443 44568877776 78888888887777665 467889999999999999999999
Q ss_pred CCCHHHHHHHhhhcCCcccCC--CCC----cc-----cCCCCCCCCchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCH
Q 006751 185 EGRVEESVNWLFEVSEEEARN--TDP----KL-----ESSGSLKIDISEE-LARISEIELRYKCSKQEVERAVVASEGDL 252 (632)
Q Consensus 185 NgDVEAAMnWLFEHMEDpDiD--~P~----~l-----~s~~~~~iDIseE-La~L~eMevsyGFs~~qAeKALkeTdGDV 252 (632)
+|+|+.|+.||.|.-+.-... +.. .+ -+....+.-++.- |..|.+| ||....|-.||+.+++|+
T Consensus 328 ~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~m----Gyer~la~eaL~r~~Ndi 403 (568)
T KOG2561|consen 328 NGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLERLVSM----GYERELAAEALRRNENDI 403 (568)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhc----chHhHHHHHHHHhccCcH
Confidence 999999999998765431000 000 00 0111111223333 6777777 999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCCcccCCCcccccccc
Q 006751 253 DKAEDTIKVQKQELPATPPRPDDTADTKSMVRPQEKL 289 (632)
Q Consensus 253 ERAVEWLFSHpDD~~s~~~kpe~~~d~~~~~r~~~~~ 289 (632)
.+|+|-|-.|.|+..+.-|+-.++-|..+..+-+..+
T Consensus 404 ~~aldllq~esdel~~n~~~~p~~vd~~~la~Lv~mG 440 (568)
T KOG2561|consen 404 QKALDLLQDESDELESNKPKRPEQVDGISLAELVSMG 440 (568)
T ss_pred HHHHHhcCCcchhhhccCCCCCcccchhhHHHHHHhc
Confidence 9999999999999988887766666654444444333
No 13
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.27 E-value=0.0016 Score=68.88 Aligned_cols=46 Identities=26% Similarity=0.354 Sum_probs=40.5
Q ss_pred hhhhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCCc
Q 006751 156 MSRKLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVSEE 201 (632)
Q Consensus 156 msRKlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHMED 201 (632)
+--..|..|.+|+.||+.+++-.+||.+-=++-|.||+||+.+.-+
T Consensus 131 ~G~~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~ 176 (340)
T KOG0011|consen 131 VGSEYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPE 176 (340)
T ss_pred ccchhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCcc
Confidence 3455688999999999999999999999877889999999988855
No 14
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00084 Score=74.57 Aligned_cols=41 Identities=10% Similarity=0.192 Sum_probs=38.2
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccC-CHHHHHHHHhhcCCCCCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEG-DLDKAEDTIKVQKQELPA 268 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdG-DVERAVEWLFSHpDD~~s 268 (632)
|.+|.+| ||+...+.|||-.|++ |.|.|+.|||.|+||++-
T Consensus 562 I~qL~~m----Gfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdl 603 (749)
T COG5207 562 IRQLVDM----GFPEEDAARALGITGNQDAESAMNWLFQHMDDPDL 603 (749)
T ss_pred HHHHHHc----CCCHHHHHHHHhhccCcchHHHHHHHHhhccCccc
Confidence 8888888 9999999999999998 999999999999999754
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=96.90 E-value=0.0011 Score=70.84 Aligned_cols=35 Identities=29% Similarity=0.389 Sum_probs=32.8
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhc
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQ 262 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSH 262 (632)
|..|++| ||.+++|++||++.=+|.|||||||.+-
T Consensus 160 I~~i~eM----Gf~R~qV~~ALRAafNNPdRAVEYL~tG 194 (378)
T TIGR00601 160 IEEIMEM----GYEREEVERALRAAFNNPDRAVEYLLTG 194 (378)
T ss_pred HHHHHHh----CCCHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence 7888888 9999999999999999999999999876
No 16
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.0013 Score=68.26 Aligned_cols=44 Identities=27% Similarity=0.525 Sum_probs=39.1
Q ss_pred HHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHHh-hhcCCcccCCCCC
Q 006751 164 SQQLVAMGFSSERATLALMLN-EGRVEESVNWL-FEVSEEEARNTDP 208 (632)
Q Consensus 164 VqQLvAMGFpe~RCkKALiat-NgDVEAAMnWL-FEHMEDpDiD~P~ 208 (632)
+++|+.||||..++.+||..+ |-++|.||.|| .+|.+||+ |.|.
T Consensus 4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~-~ap~ 49 (290)
T KOG2689|consen 4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI-DAPL 49 (290)
T ss_pred HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc-cccc
Confidence 499999999999999999987 88999999999 99999876 4443
No 17
>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=96.35 E-value=0.01 Score=45.06 Aligned_cols=40 Identities=15% Similarity=0.118 Sum_probs=32.1
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCCCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQEL 266 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpDD~ 266 (632)
|.+.+++- |++.++|+.-|..+++|||+||+-.|..++++
T Consensus 4 i~~F~~iT---g~~~~~A~~~L~~~~wdle~Av~~y~~~~~~~ 43 (43)
T PF14555_consen 4 IAQFMSIT---GADEDVAIQYLEANNWDLEAAVNAYFDDGEAP 43 (43)
T ss_dssp HHHHHHHH----SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S-
T ss_pred HHHHHHHH---CcCHHHHHHHHHHcCCCHHHHHHHHHhCCCCC
Confidence 66666663 99999999999999999999999999988763
No 18
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=95.99 E-value=0.014 Score=54.05 Aligned_cols=41 Identities=27% Similarity=0.416 Sum_probs=35.3
Q ss_pred CCchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 218 IDISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 218 iDIseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
..|++| |..|.+- .|++.++|++||++|+|||-.|+-+|-+
T Consensus 73 ~~i~~edI~lv~~q---~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 73 VEIPEEDIELVAEQ---TGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCCHHHHHHHHHH---HCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 357777 8888655 4999999999999999999999999864
No 19
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=95.92 E-value=0.013 Score=57.89 Aligned_cols=41 Identities=17% Similarity=0.342 Sum_probs=34.0
Q ss_pred chHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcC
Q 006751 220 ISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 220 IseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHp 263 (632)
|+.+ |-.|.++ -|.+.-++++||.+|+||+|+|++||+..-
T Consensus 3 i~a~~ik~LR~~---tga~~~~ck~AL~~~~gd~~~A~~~lr~~g 44 (198)
T PRK12332 3 ITAKLVKELREK---TGAGMMDCKKALEEANGDMEKAIEWLREKG 44 (198)
T ss_pred CCHHHHHHHHHH---HCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 3444 6666555 599999999999999999999999999853
No 20
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=95.85 E-value=0.013 Score=61.00 Aligned_cols=42 Identities=17% Similarity=0.333 Sum_probs=35.0
Q ss_pred chHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCC
Q 006751 220 ISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 220 IseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpD 264 (632)
|+.+ |-.|.++ -|...-.+++||.+|+||+|+|++||+..-.
T Consensus 3 isa~~IK~LRe~---Tgagm~dCKkAL~e~~gDiekAi~~LRkkG~ 45 (290)
T TIGR00116 3 ITAQLVKELRER---TGAGMMDCKKALTEANGDFEKAIKNLRESGI 45 (290)
T ss_pred CCHHHHHHHHHH---HCCCHHHHHHHHHHcCCCHHHHHHHHHHhch
Confidence 3444 6667666 4999999999999999999999999998653
No 21
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=95.78 E-value=0.012 Score=62.54 Aligned_cols=42 Identities=21% Similarity=0.264 Sum_probs=39.2
Q ss_pred hhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 158 RKLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 158 RKlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
+-..+.|.-|.+|||++....-|-++|+.|=|.|.||||+|+
T Consensus 296 pee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~ 337 (340)
T KOG0011|consen 296 PEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHS 337 (340)
T ss_pred HHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhc
Confidence 445688999999999999999999999999999999999999
No 22
>PRK09377 tsf elongation factor Ts; Provisional
Probab=95.76 E-value=0.015 Score=60.44 Aligned_cols=41 Identities=17% Similarity=0.362 Sum_probs=34.4
Q ss_pred chHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcC
Q 006751 220 ISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 220 IseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHp 263 (632)
|+.+ |-.|.++ -|...-++++||.+|+||+|+|++||+..-
T Consensus 4 is~~~IK~LR~~---Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 4 ITAALVKELRER---TGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred cCHHHHHHHHHH---HCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 4444 6666666 499999999999999999999999999854
No 23
>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=95.68 E-value=0.02 Score=53.21 Aligned_cols=39 Identities=28% Similarity=0.436 Sum_probs=33.9
Q ss_pred CchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHh
Q 006751 219 DISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIK 260 (632)
Q Consensus 219 DIseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLF 260 (632)
+|++| |+.|.+- .|++.++|++||++|+|||-.|+-+|-
T Consensus 76 ~i~~eDI~lV~eq---~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 76 EITEDDIELVMKQ---CNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCCHHHHHHHHHH---hCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 47777 8888555 599999999999999999999998873
No 24
>CHL00098 tsf elongation factor Ts
Probab=95.36 E-value=0.024 Score=56.20 Aligned_cols=37 Identities=14% Similarity=0.355 Sum_probs=32.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHp 263 (632)
|-.|.++ -|...-++++||.+|+||+|+|++||+..-
T Consensus 5 ik~LR~~---Tgag~~dck~AL~e~~gd~~~A~~~Lr~~g 41 (200)
T CHL00098 5 VKELRDK---TGAGMMDCKKALQEANGDFEKALESLRQKG 41 (200)
T ss_pred HHHHHHH---HCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5555555 499999999999999999999999999864
No 25
>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=95.31 E-value=0.047 Score=41.15 Aligned_cols=36 Identities=19% Similarity=0.428 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhcC-CCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 223 ELARISEIELRYK-CSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 223 ELa~L~eMevsyG-Fs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
.|.+|.+| |- ++.+.++.+|++++||+|+|++-|.+
T Consensus 4 ~v~~L~~m---FP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 4 MVQQLQEM---FPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHH---SSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHH---CCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 48889898 33 67999999999999999999999975
No 26
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=94.52 E-value=0.059 Score=56.65 Aligned_cols=38 Identities=16% Similarity=0.294 Sum_probs=31.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpD 264 (632)
|-.|.+. -|-..-.++|||.+|+||+|+|+|||+..--
T Consensus 9 VKeLRe~---TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG~ 46 (296)
T COG0264 9 VKELREK---TGAGMMDCKKALEEANGDIEKAIEWLREKGI 46 (296)
T ss_pred HHHHHHH---hCCcHHHHHHHHHHcCCCHHHHHHHHHHhch
Confidence 4445444 5888999999999999999999999998543
No 27
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=94.30 E-value=0.082 Score=49.63 Aligned_cols=38 Identities=34% Similarity=0.434 Sum_probs=33.1
Q ss_pred CchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHH
Q 006751 219 DISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 219 DIseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWL 259 (632)
+|++| |..+.+-- |.+.++|++||++++||+-.|+--|
T Consensus 82 ~i~eeDIkLV~eQa---~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 82 DISEEDIKLVMEQA---GVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CCCHHHHHHHHHHh---CCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 57888 88886654 9999999999999999999998755
No 28
>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=94.01 E-value=0.093 Score=39.57 Aligned_cols=38 Identities=32% Similarity=0.382 Sum_probs=31.8
Q ss_pred hHHHHHHHHhcCCCH---HHHHHHHHHhCCCHHHHHHHhhhc
Q 006751 160 LEALSQQLVAMGFSS---ERATLALMLNEGRVEESVNWLFEV 198 (632)
Q Consensus 160 lE~LVqQLvAMGFpe---~RCkKALiatNgDVEAAMnWLFEH 198 (632)
.++.+.+|..| ||. ...++.|..++||+|.|++-|++.
T Consensus 2 ~~~~v~~L~~m-FP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDM-FPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 35789999999 886 567777888999999999999864
No 29
>PRK09377 tsf elongation factor Ts; Provisional
Probab=93.87 E-value=0.076 Score=55.39 Aligned_cols=38 Identities=26% Similarity=0.422 Sum_probs=33.4
Q ss_pred HHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 162 ALSQQLVAM-GFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 162 ~LVqQLvAM-GFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
.+|.+|..+ |.+--.|++||..+|||+|.|++||-+.+
T Consensus 7 ~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 7 ALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 456677654 99999999999999999999999999987
No 30
>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=93.82 E-value=0.18 Score=38.06 Aligned_cols=37 Identities=8% Similarity=0.227 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 223 ELARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 223 ELa~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
.+..|.+|. =.++..+++++|++++||+|+|++-|.+
T Consensus 5 ~v~~L~~mF--P~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 5 ALHDLKDMF--PNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHC--CCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 388898981 2267899999999999999999999875
No 31
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=93.68 E-value=0.087 Score=54.99 Aligned_cols=38 Identities=24% Similarity=0.228 Sum_probs=33.4
Q ss_pred HHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 162 ALSQQLVAM-GFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 162 ~LVqQLvAM-GFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
++|.+|..+ |.+--.|++||..+|||+|.|++||-+.+
T Consensus 6 ~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG 44 (290)
T TIGR00116 6 QLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESG 44 (290)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 456677654 99999999999999999999999999987
No 32
>CHL00098 tsf elongation factor Ts
Probab=93.57 E-value=0.093 Score=52.21 Aligned_cols=38 Identities=21% Similarity=0.196 Sum_probs=32.5
Q ss_pred HHHHHHHhc-CCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 162 ALSQQLVAM-GFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 162 ~LVqQLvAM-GFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
++|.+|..+ |.+--.|++||..+|||+|.|++||-+.+
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 356666544 88999999999999999999999999876
No 33
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=93.50 E-value=0.098 Score=51.86 Aligned_cols=38 Identities=26% Similarity=0.387 Sum_probs=32.9
Q ss_pred HHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 162 ALSQQLVA-MGFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 162 ~LVqQLvA-MGFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
++|.+|.. -|.+--.|++||..++||+|.|++||-+.+
T Consensus 6 ~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~g 44 (198)
T PRK12332 6 KLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKG 44 (198)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 45666655 489999999999999999999999999876
No 34
>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=93.34 E-value=0.19 Score=38.21 Aligned_cols=41 Identities=24% Similarity=0.229 Sum_probs=31.2
Q ss_pred HHHHHHHh-cCCCHHHHHHHHHHhCCCHHHHHHHhhhcCCcc
Q 006751 162 ALSQQLVA-MGFSSERATLALMLNEGRVEESVNWLFEVSEEE 202 (632)
Q Consensus 162 ~LVqQLvA-MGFpe~RCkKALiatNgDVEAAMnWLFEHMEDp 202 (632)
++|.|+++ .|.++..|+.-|-++|.|+|.||+-.|+..++|
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~~ 43 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEAP 43 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S-
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCCC
Confidence 45555544 589999999999999999999999999988764
No 35
>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=92.80 E-value=0.25 Score=37.27 Aligned_cols=38 Identities=34% Similarity=0.469 Sum_probs=31.9
Q ss_pred HHHHHHHHhc--CCCHHHHHHHHHHhCCCHHHHHHHhhhc
Q 006751 161 EALSQQLVAM--GFSSERATLALMLNEGRVEESVNWLFEV 198 (632)
Q Consensus 161 E~LVqQLvAM--GFpe~RCkKALiatNgDVEAAMnWLFEH 198 (632)
++.|++|.+| .++...-+.+|.++++|+|+|++-|++.
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 5678999999 5667788888989999999999999873
No 36
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=88.29 E-value=0.63 Score=52.02 Aligned_cols=37 Identities=30% Similarity=0.383 Sum_probs=32.6
Q ss_pred HHHHHHHHhcCCC-HHHHHHHHHHhCCCHHHHHHHhhh
Q 006751 161 EALSQQLVAMGFS-SERATLALMLNEGRVEESVNWLFE 197 (632)
Q Consensus 161 E~LVqQLvAMGFp-e~RCkKALiatNgDVEAAMnWLFE 197 (632)
+.-++||.+|||- +++...||++++|||.+||+=||.
T Consensus 455 q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 455 QTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 4678999999995 678899999999999999998873
No 37
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=84.99 E-value=1.5 Score=47.26 Aligned_cols=42 Identities=21% Similarity=0.245 Sum_probs=33.6
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQE 265 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpDD 265 (632)
.+.|..+-.+-|.+...+++||.+|+||++.|.+||...-+.
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 344444455569999999999999999999999999876543
No 38
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=83.70 E-value=1.4 Score=49.44 Aligned_cols=34 Identities=18% Similarity=0.349 Sum_probs=30.3
Q ss_pred HHHHHHHHHhcCC-CHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 224 LARISEIELRYKC-SKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 224 La~L~eMevsyGF-s~~qAeKALkeTdGDVERAVEWLFS 261 (632)
|++|.+| || +.++..+||.+|+|||.+|||-|+.
T Consensus 458 LeQL~~M----GF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 458 LEQLNDM----GFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHhc----CCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 8888888 85 6888899999999999999998874
No 39
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=82.81 E-value=1.8 Score=45.80 Aligned_cols=40 Identities=13% Similarity=0.161 Sum_probs=34.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc-cCCHHHHHHHH-hhcCCCCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVAS-EGDLDKAEDTI-KVQKQELP 267 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeT-dGDVERAVEWL-FSHpDD~~ 267 (632)
+.+|.+| ||+...+++||..+ +-++|-|++|| ..|-+|+.
T Consensus 4 ~~~l~~m----gfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~ 45 (290)
T KOG2689|consen 4 AQSLEEM----GFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI 45 (290)
T ss_pred HHHHHHh----cCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence 4556566 99999999999988 88999999999 77777766
No 40
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=81.55 E-value=1.5 Score=46.55 Aligned_cols=29 Identities=28% Similarity=0.441 Sum_probs=26.1
Q ss_pred CCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 171 GFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 171 GFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
|-..-.|||||..+|||+|.|++||-+.+
T Consensus 17 gAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 17 GAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred CCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 56667899999999999999999998876
No 41
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=79.67 E-value=3.7 Score=39.62 Aligned_cols=36 Identities=19% Similarity=0.340 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhc
Q 006751 222 EELARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQ 262 (632)
Q Consensus 222 eELa~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSH 262 (632)
+++..|++- ++++++||+||.+++ |+-+|++-|+..
T Consensus 116 e~v~v~a~a----~v~~eeAr~aleeag-Dl~~A~k~l~~~ 151 (153)
T COG4008 116 EEVEVLADA----FVTPEEAREALEEAG-DLRTAMKILRMK 151 (153)
T ss_pred HHHHHHHHh----cCCHHHHHHHHHHcC-CHHHHHHHHHHh
Confidence 347888777 799999999999998 999999998754
No 42
>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=77.57 E-value=2.4 Score=35.38 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=20.3
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALia 183 (632)
-+.++|+|+++|||+......||..
T Consensus 8 i~~~lVd~F~~mGF~~dkVvevlrr 32 (55)
T PF09288_consen 8 IDKDLVDQFENMGFERDKVVEVLRR 32 (55)
T ss_dssp -SHHHHHHHHHHT--HHHHHHHHHH
T ss_pred CCHHHHHHHHHcCCcHHHHHHHHHH
Confidence 3578999999999999999999987
No 43
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=77.50 E-value=12 Score=39.01 Aligned_cols=23 Identities=22% Similarity=0.258 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHHHccCCHHHHHH
Q 006751 235 KCSKQEVERAVVASEGDLDKAED 257 (632)
Q Consensus 235 GFs~~qAeKALkeTdGDVERAVE 257 (632)
||+.++|++.|.+++|++.+|++
T Consensus 270 ~~~~~~a~~~l~~~~~~~~~~l~ 292 (296)
T PRK12570 270 GMDVEQARAALSHADGFLRKAIE 292 (296)
T ss_pred CCCHHHHHHHHHHcCChHHHHHH
Confidence 89999999999999999999997
No 44
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.38 E-value=5.4 Score=40.42 Aligned_cols=61 Identities=18% Similarity=0.203 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhh----------hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhc
Q 006751 138 RQREKRAQELHERCCGYLMSRK----------LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEV 198 (632)
Q Consensus 138 RqkErraqElhERC~~yLmsRK----------lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEH 198 (632)
++.+.+.-|++.+-..|--.+. ...+|+.|.+|||.++.+..+|-..+=++++|.+-||+.
T Consensus 130 a~qy~~n~~~F~~TAr~WT~~fA~~~~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 130 AEQYVDNYEMFYKTARYWTTEFAGGRLPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHhCCCCCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 3344444555555544443332 357999999999999999999988888999999988863
No 45
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=74.98 E-value=8.5 Score=31.53 Aligned_cols=41 Identities=20% Similarity=0.320 Sum_probs=31.9
Q ss_pred CCCchHH--HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHh
Q 006751 217 KIDISEE--LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIK 260 (632)
Q Consensus 217 ~iDIseE--La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLF 260 (632)
-++++++ +.-.+. +|||+.++++.|+++-|.++++-..||-
T Consensus 14 ~I~~~e~~ev~ywa~---~~gvt~~~L~~AV~~vG~~~~~V~~~L~ 56 (57)
T PF12244_consen 14 RIDLSEPYEVRYWAK---RFGVTEEQLREAVRAVGNSRAAVRAYLG 56 (57)
T ss_pred hcCCCCHHHHHHHHH---HHCcCHHHHHHHHHHHCcCHHHHHHHHc
Confidence 3455444 666644 4699999999999999999998888873
No 46
>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=70.29 E-value=6.1 Score=34.22 Aligned_cols=37 Identities=22% Similarity=0.333 Sum_probs=32.5
Q ss_pred HHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCCc
Q 006751 165 QQLVAMGFSSERATLALMLNEGRVEESVNWLFEVSEE 201 (632)
Q Consensus 165 qQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHMED 201 (632)
+.+.+.||+...+..||++|.+|++.|..+|+.+...
T Consensus 2 ~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~l~~ 38 (87)
T PF11626_consen 2 KHYEELGYSREFVTHALYATSGDPELARRFVLNFLQA 38 (87)
T ss_dssp HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHCHCH
T ss_pred chHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 4578999999999999999999999999999888654
No 47
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=69.50 E-value=25 Score=36.66 Aligned_cols=25 Identities=20% Similarity=0.158 Sum_probs=23.1
Q ss_pred CCCHHHHHHHHHHccCCHHHHHHHH
Q 006751 235 KCSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 235 GFs~~qAeKALkeTdGDVERAVEWL 259 (632)
||+.++|++.|.+++|+|-+|++-+
T Consensus 274 ~~~~~~a~~~l~~~~g~~~~~~~~~ 298 (299)
T PRK05441 274 GLDAAEAKALLARHGGFLRKALAEL 298 (299)
T ss_pred CCCHHHHHHHHHHcCCCHHHHHhhc
Confidence 8999999999999999999998743
No 48
>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=69.41 E-value=13 Score=37.85 Aligned_cols=114 Identities=19% Similarity=0.170 Sum_probs=65.4
Q ss_pred HHHHhhhhhHHHHHHHHhcCCCHHHHHHHHH-------Hh-CCCHHHHHHHhhhcCCc-ccCCC-----CCcccCC----
Q 006751 152 CGYLMSRKLEALSQQLVAMGFSSERATLALM-------LN-EGRVEESVNWLFEVSEE-EARNT-----DPKLESS---- 213 (632)
Q Consensus 152 ~~yLmsRKlE~LVqQLvAMGFpe~RCkKALi-------at-NgDVEAAMnWLFEHMED-pDiD~-----P~~l~s~---- 213 (632)
...+.....+..|+.|..|||+...-.+.+. .. ..+++..++||-+.+=+ .++-. |..+...
T Consensus 131 ~~~~~~~~~~~~v~~l~~lG~~~~~~~~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~ 210 (345)
T PF02536_consen 131 PLFLSSEKIKERVEFLKELGFDPEKIGRVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKI 210 (345)
T ss_dssp HHHHS-HHHHCHHHHHCCCTSSHHHHCCCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC-
T ss_pred ccccchhHHHHHHHHHHHhCCCchhhcccccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceeccccccc
Confidence 3344446788888888888888776543322 22 66788888888766511 11110 1000000
Q ss_pred ---------------------CCCCCCchHH-HHHHHHHHHhcCCCHHHHHHHHHHcc-------CCHHHHHHHHhhcCC
Q 006751 214 ---------------------GSLKIDISEE-LARISEIELRYKCSKQEVERAVVASE-------GDLDKAEDTIKVQKQ 264 (632)
Q Consensus 214 ---------------------~~~~iDIseE-La~L~eMevsyGFs~~qAeKALkeTd-------GDVERAVEWLFSHpD 264 (632)
...-...+.+ +..-.+++.++||+.+++.+.|+.+= ..+.+-+|||...+.
T Consensus 211 l~~~~~l~~~~~~~~~~~i~~~p~il~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~~s~e~l~~k~~fl~~~m~ 290 (345)
T PF02536_consen 211 LEPVLYLLSSGGVEEERVIKKFPQILSLSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILSYSIEKLKPKFEFLVKEMG 290 (345)
T ss_dssp --------------------------THHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGGS-HHHHHHHHHHHHHCCT
T ss_pred ccccccccccccccccccccccccccccchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhhcchhhhhHHHHHHHHHhC
Confidence 0000122444 66666888899999999999998762 237888899988764
Q ss_pred C
Q 006751 265 E 265 (632)
Q Consensus 265 D 265 (632)
-
T Consensus 291 ~ 291 (345)
T PF02536_consen 291 L 291 (345)
T ss_dssp -
T ss_pred c
Confidence 3
No 49
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=67.13 E-value=31 Score=33.60 Aligned_cols=69 Identities=22% Similarity=0.310 Sum_probs=36.9
Q ss_pred ChhHHHHHHhhhhhHHHHHHHHHHHHH-HHHHHHHHhhhhhHHHHHHHHhcCCCHHHHHH------------HHHHhCCC
Q 006751 121 DNDRREKIRLKNEKKHQRQREKRAQEL-HERCCGYLMSRKLEALSQQLVAMGFSSERATL------------ALMLNEGR 187 (632)
Q Consensus 121 dndkreKiR~KNEkKHqRqkErraqEl-hERC~~yLmsRKlE~LVqQLvAMGFpe~RCkK------------ALiatNgD 187 (632)
|.|=|.|+|.++. |.++. |+.+.|+ .+.+. ...+.++..+..++|+.....+ .|+..+++
T Consensus 34 dPdFRkkLr~rr~-k~~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~~~p~p~d~~e~E~~Fl~eV~~GE~L~~~g~~ 106 (148)
T TIGR00985 34 DPDFRKKLRRRRK-KQAGA-EKQYGGLAKEKQR-----QRIRPAAAGLAKAPDPTDPSEKEAFFLQEVQLGEELMAQGTN 106 (148)
T ss_pred CHHHHHHHHHHHH-HHHHH-HHHHHHHHHHHHH-----HHHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 7888999998774 22222 2222222 22222 2234566778888987655432 34444446
Q ss_pred HHHHHHHhh
Q 006751 188 VEESVNWLF 196 (632)
Q Consensus 188 VEAAMnWLF 196 (632)
.++|+.-|.
T Consensus 107 ~~ega~hf~ 115 (148)
T TIGR00985 107 VDEGAVHFY 115 (148)
T ss_pred hHHHHHHHH
Confidence 666655553
No 50
>COG3461 Uncharacterized conserved protein [Function unknown]
Probab=65.21 E-value=12 Score=34.52 Aligned_cols=54 Identities=28% Similarity=0.421 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHhcCCCHHHH-------HHHHHHhCCCHH---HH--HHHhhhcCC
Q 006751 145 QELHERCCGYLMSRKLEALSQQLVAMGFSSERA-------TLALMLNEGRVE---ES--VNWLFEVSE 200 (632)
Q Consensus 145 qElhERC~~yLmsRKlE~LVqQLvAMGFpe~RC-------kKALiatNgDVE---AA--MnWLFEHME 200 (632)
.||.+|...+ +|+.++|+....+|+|=+.|+ .||++.+|-|-| +| ++||..|+.
T Consensus 10 eeLs~kirdf--~Ra~~SLiEEiEA~~wY~qR~~~tKD~~~r~ImehnrdeE~eHa~mlLEwlrR~~p 75 (103)
T COG3461 10 EELSEKIRDF--SRARQSLIEEIEAMMWYDQRADATKDEDLRAIMEHNRDEEKEHAAMLLEWLRRHDP 75 (103)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhhccccHhHHHHHHHcccHHHHHHHHHHHHHHHcCc
Confidence 3566666654 788899999999999999987 478888877654 23 589999964
No 51
>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=63.60 E-value=27 Score=36.51 Aligned_cols=23 Identities=26% Similarity=0.164 Sum_probs=22.0
Q ss_pred CCCHHHHHHHHHHccCCHHHHHH
Q 006751 235 KCSKQEVERAVVASEGDLDKAED 257 (632)
Q Consensus 235 GFs~~qAeKALkeTdGDVERAVE 257 (632)
||+.++|++.|..++|++-+|+|
T Consensus 269 ~~~~~~a~~~l~~~~g~~~~~l~ 291 (291)
T TIGR00274 269 TLSASEAKVLLDRHGGFLRQALD 291 (291)
T ss_pred CCCHHHHHHHHHHcCCcHHHhhC
Confidence 89999999999999999999985
No 52
>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=61.53 E-value=10 Score=29.84 Aligned_cols=22 Identities=18% Similarity=0.292 Sum_probs=19.4
Q ss_pred HHHHHHHHHHccCCHHHHHHHH
Q 006751 238 KQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 238 ~~qAeKALkeTdGDVERAVEWL 259 (632)
....+..|..|+|||-+|+|-+
T Consensus 17 r~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 17 RSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred hHHHHHHHHHcCCcHHHHHHHh
Confidence 5678899999999999999965
No 53
>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=61.00 E-value=12 Score=29.06 Aligned_cols=24 Identities=29% Similarity=0.444 Sum_probs=21.1
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 160 LEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALia 183 (632)
.++++.-|+++||.+..+.+|+..
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~ 26 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSK 26 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 578999999999999999999976
No 54
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=60.60 E-value=13 Score=40.34 Aligned_cols=38 Identities=26% Similarity=0.278 Sum_probs=32.4
Q ss_pred HHHHHHH-hcCCCHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 162 ALSQQLV-AMGFSSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 162 ~LVqQLv-AMGFpe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
++|.||. .-|.+-.-||+||..+|||++.|..||-+..
T Consensus 48 allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~a 86 (340)
T KOG1071|consen 48 ALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKA 86 (340)
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence 5666664 4699999999999999999999999997654
No 55
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=60.36 E-value=59 Score=32.19 Aligned_cols=89 Identities=28% Similarity=0.281 Sum_probs=59.8
Q ss_pred HHHHhhhhhH-----HHHHHHHhcCCCHHHHHHHHHHh--CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHH
Q 006751 152 CGYLMSRKLE-----ALSQQLVAMGFSSERATLALMLN--EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEEL 224 (632)
Q Consensus 152 ~~yLmsRKlE-----~LVqQLvAMGFpe~RCkKALiat--NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseEL 224 (632)
-.|+.+|..- .|.+.|..+|..+.....||-.. ....+.|..+|+.-.-.+.+ | . +- .+=
T Consensus 74 e~~i~~r~~~g~G~~rl~qeL~qkGi~~~~Ie~aL~~~~~~~~~~~a~~~~~kk~~~~~~--~----~------~~-~~k 140 (174)
T COG2137 74 EAYIRSRSRKGKGPARLKQELKQKGIDDEIIEEALELIDEEDEQERARKVLRKKFKRENK--P----P------DK-KEK 140 (174)
T ss_pred HHHHHHHHhcccChHHHHHHHHHcCCCHHHHHHHHhccchHHHHHHHHHHHHHHhCcccc--C----c------ch-hHH
Confidence 4556555443 67788888888888888888753 66778888888776543211 1 0 00 112
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHccCCHH
Q 006751 225 ARISEIELRYKCSKQEVERAVVASEGDLD 253 (632)
Q Consensus 225 a~L~eMevsyGFs~~qAeKALkeTdGDVE 253 (632)
+.+..-+++=||+...+..||.+...+.+
T Consensus 141 ~Ki~r~L~~rGFs~~~i~~~l~~~~~~~~ 169 (174)
T COG2137 141 AKIQRFLLRRGFSYEVIKEALNEAEEEED 169 (174)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhhccc
Confidence 44555566889999999999998766543
No 56
>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=59.01 E-value=18 Score=31.38 Aligned_cols=31 Identities=23% Similarity=0.173 Sum_probs=27.0
Q ss_pred HhcCCCHHHHHHHHHHccCCHHHHHHHHhhc
Q 006751 232 LRYKCSKQEVERAVVASEGDLDKAEDTIKVQ 262 (632)
Q Consensus 232 vsyGFs~~qAeKALkeTdGDVERAVEWLFSH 262 (632)
..+|++...+-.||..|.||+..|..+|..+
T Consensus 5 ~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 5 EELGYSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp HHHTB-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred HHhCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 3559999999999999999999999988766
No 57
>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=58.66 E-value=23 Score=30.30 Aligned_cols=36 Identities=25% Similarity=0.338 Sum_probs=31.3
Q ss_pred HHHHHHHHHhcCC-CHHHHHHHHHHccCCHHHHHHHHhhc
Q 006751 224 LARISEIELRYKC-SKQEVERAVVASEGDLDKAEDTIKVQ 262 (632)
Q Consensus 224 La~L~eMevsyGF-s~~qAeKALkeTdGDVERAVEWLFSH 262 (632)
|..|.+.. |+ +.+++-..|++|+.|.+.|+.=|.++
T Consensus 9 VQ~iKEiv---~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 9 VQSIKEIV---GCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHh---cCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 66677775 76 99999999999999999999998774
No 58
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=58.52 E-value=34 Score=28.86 Aligned_cols=38 Identities=5% Similarity=0.037 Sum_probs=32.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
.++|..|...=|.+.+=++++|.+++.|+++|+.-.-+
T Consensus 13 ~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~ 50 (63)
T smart00804 13 QEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE 50 (63)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 66676777777999999999999999999999976544
No 59
>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=58.35 E-value=9.7 Score=29.68 Aligned_cols=21 Identities=29% Similarity=0.221 Sum_probs=16.1
Q ss_pred HHHHhcCCCHHHHHHHHHHcc
Q 006751 229 EIELRYKCSKQEVERAVVASE 249 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeTd 249 (632)
+-++.+||++.+|++||....
T Consensus 8 ~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 8 EALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHcCCCHHHHHHHHHHhh
Confidence 445566999999999999873
No 60
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=57.04 E-value=13 Score=34.87 Aligned_cols=29 Identities=31% Similarity=0.294 Sum_probs=26.0
Q ss_pred hcCCCHHHHHHHHHHhCCCHHHHHHHhhh
Q 006751 169 AMGFSSERATLALMLNEGRVEESVNWLFE 197 (632)
Q Consensus 169 AMGFpe~RCkKALiatNgDVEAAMnWLFE 197 (632)
--|-++..|++||..+|||+-+|+-+|-+
T Consensus 86 q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 86 QTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred HHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 35899999999999999999999998854
No 61
>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=56.99 E-value=9 Score=28.98 Aligned_cols=24 Identities=25% Similarity=0.368 Sum_probs=19.9
Q ss_pred CCHHHHHHHHHHccCCHHHHHHHH
Q 006751 236 CSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 236 Fs~~qAeKALkeTdGDVERAVEWL 259 (632)
|..+.++.||..|+||+.+|++.|
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 346778999999999999999877
No 62
>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=55.20 E-value=14 Score=34.82 Aligned_cols=28 Identities=29% Similarity=0.181 Sum_probs=25.5
Q ss_pred hcCCCHHHHHHHHHHhCCCHHHHHHHhh
Q 006751 169 AMGFSSERATLALMLNEGRVEESVNWLF 196 (632)
Q Consensus 169 AMGFpe~RCkKALiatNgDVEAAMnWLF 196 (632)
.-|-++..|++||..+|||+-+|+-+|-
T Consensus 88 q~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 88 QCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred HhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 4589999999999999999999999884
No 63
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=54.51 E-value=41 Score=36.16 Aligned_cols=81 Identities=20% Similarity=0.232 Sum_probs=47.7
Q ss_pred ccccCCCCCcCCCCC----cccc---ccCC---CCCCCCCCCChhHHHHHHhhhhhHHH-----HHHHHHHHHHHHHHHH
Q 006751 89 DSVSNNGSCSGESED----PKEK---FANS---SRQDPIPGSDNDRREKIRLKNEKKHQ-----RQREKRAQELHERCCG 153 (632)
Q Consensus 89 dsvsnngs~sgesed----~kek---~~n~---~~~~~ipg~dndkreKiR~KNEkKHq-----RqkErraqElhERC~~ 153 (632)
||-|-|-.|-+|++. .+.- +... ++.+--++--+++-++.|.|.++.-. |||.|+++|--+-|+.
T Consensus 179 ~s~~d~~~~~~e~~~~~~~~~q~~~~~~s~p~ps~ie~s~~~~~~~~~~~~rkr~qnk~AAtRYRqKkRae~E~l~ge~~ 258 (294)
T KOG4571|consen 179 DSPSDNERGQSEHSNSALASPQSNDLVSSDPQPSQIEKSAHPYKTPEKKLRRKRQQNKAAATRYRQKKRAEKEALLGELE 258 (294)
T ss_pred cCcccchhhhhcccccccCCccccCCCCCCCCcccccccCCCCCCchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 366667777777661 1111 1111 22222233334444455555555444 9999999999999999
Q ss_pred HHhhhhhHHHHHHHHhc
Q 006751 154 YLMSRKLEALSQQLVAM 170 (632)
Q Consensus 154 yLmsRKlE~LVqQLvAM 170 (632)
.|- +.+++|=.|+..|
T Consensus 259 ~Le-~rN~~LK~qa~~l 274 (294)
T KOG4571|consen 259 GLE-KRNEELKDQASEL 274 (294)
T ss_pred HHH-HHHHHHHHHHHHH
Confidence 884 5567777766655
No 64
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=54.15 E-value=5 Score=34.30 Aligned_cols=27 Identities=19% Similarity=0.167 Sum_probs=23.4
Q ss_pred CHHHHHHHHHHccCCHHHHHHHHhhcC
Q 006751 237 SKQEVERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 237 s~~qAeKALkeTdGDVERAVEWLFSHp 263 (632)
+..+++.||..+.=||++||+||++.-
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~~ 71 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSKF 71 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHhc
Confidence 889999999999999999999999864
No 65
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=51.80 E-value=41 Score=33.16 Aligned_cols=82 Identities=18% Similarity=0.135 Sum_probs=61.1
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHH
Q 006751 161 EALSQQLVAMGFSSERATLALMLN-EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSKQ 239 (632)
Q Consensus 161 E~LVqQLvAMGFpe~RCkKALiat-NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~ 239 (632)
=.+++--.+||+.+..+.|+=... ....+. ..|.+++.. .+|.+.|.+++..+|++.+
T Consensus 39 a~~iAga~SMa~G~yls~~se~~~~~~e~~r-e~~e~~~~p--------------------e~e~~el~~iy~~~Gl~~~ 97 (213)
T PF01988_consen 39 AGLIAGAISMAVGEYLSVKSERDLYEAERER-EEWELENNP--------------------EEEKEELVEIYRAKGLSEE 97 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHHHHHhHH-HHHHHHhCh--------------------HhHHHHHHHHHHHCCCCHH
Confidence 356677789999999999998776 444444 788766632 2345667788888899999
Q ss_pred HHHHHHHHccCCHHHHHHHHhhcCC
Q 006751 240 EVERAVVASEGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 240 qAeKALkeTdGDVERAVEWLFSHpD 264 (632)
.+++.+...--|-|. ++.+.....
T Consensus 98 ~a~~i~~~l~~~~~~-~~~m~~ee~ 121 (213)
T PF01988_consen 98 DAEEIAEELSKDKDA-LDFMMREEL 121 (213)
T ss_pred HHHHHHHHHHhCchH-HHHHHhhhc
Confidence 999999998888887 776654433
No 66
>PLN03086 PRLI-interacting factor K; Provisional
Probab=51.17 E-value=33 Score=39.59 Aligned_cols=44 Identities=27% Similarity=0.458 Sum_probs=26.1
Q ss_pred hHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 006751 123 DRREKIRLKNEKKHQRQREKRAQELHERCCGYLMSRKLEALSQQLV 168 (632)
Q Consensus 123 dkreKiR~KNEkKHqRqkErraqElhERC~~yLmsRKlE~LVqQLv 168 (632)
+|++|.|+|-||.- +.||. |+--+|-.-+.=|+|+++++-+|+.
T Consensus 18 ~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (567)
T PLN03086 18 ERKQRAKLKLERER-KAKEE-AAKQREAIEAAQRSRRLDAIEAQIK 61 (567)
T ss_pred HHHHHHHHHHHHHH-HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555554321 12221 2222455667889999999999988
No 67
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=50.65 E-value=42 Score=33.18 Aligned_cols=105 Identities=18% Similarity=0.215 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhh--hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcC--CcccCCCCCc---cc
Q 006751 139 QREKRAQELHERCCGYLMSRK--LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVS--EEEARNTDPK---LE 211 (632)
Q Consensus 139 qkErraqElhERC~~yLmsRK--lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHM--EDpDiD~P~~---l~ 211 (632)
+++.+......+|..||-.|. -.+|-..|..-||++.. ||..++||-++. ||....+-.. ..
T Consensus 14 ~~~~~~~~~~~~Al~~Ls~R~rse~ELr~kL~k~~~~~~~-----------Ie~Vi~~l~~~~~ldD~~fAe~~i~~r~~ 82 (174)
T COG2137 14 SRSDQYAKGLNRALRLLSRRDRSEKELRRKLAKKEFSEEI-----------IEEVIDRLAEEGYLDDTRFAEAYIRSRSR 82 (174)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHH-----------HHHHHHHHHHcCcccHHHHHHHHHHHHHh
Confidence 445556667888998886554 45899999999999988 555555555544 3322222110 00
Q ss_pred CCCCCCCCchHHHHHHHHHHHhcCCCHHHHHHHHH-Hc-cCCHHHHHHHHhhc
Q 006751 212 SSGSLKIDISEELARISEIELRYKCSKQEVERAVV-AS-EGDLDKAEDTIKVQ 262 (632)
Q Consensus 212 s~~~~~iDIseELa~L~eMevsyGFs~~qAeKALk-eT-dGDVERAVEWLFSH 262 (632)
.+.+ . ..|..-|...|++.+.++.||. .+ .-..++|..+|+..
T Consensus 83 ~g~G-~-------~rl~qeL~qkGi~~~~Ie~aL~~~~~~~~~~~a~~~~~kk 127 (174)
T COG2137 83 KGKG-P-------ARLKQELKQKGIDDEIIEEALELIDEEDEQERARKVLRKK 127 (174)
T ss_pred cccC-h-------HHHHHHHHHcCCCHHHHHHHHhccchHHHHHHHHHHHHHH
Confidence 1111 1 2222333444999999999998 33 34567888888763
No 68
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.12 E-value=18 Score=36.86 Aligned_cols=34 Identities=18% Similarity=0.203 Sum_probs=31.5
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
+..|.+| ||++.++..+|...+-|+++|.+.||+
T Consensus 166 v~~l~~m----Gf~~~~~i~~L~~~~w~~~~a~~~~~s 199 (200)
T KOG0418|consen 166 VDSLIEM----GFSELEAILVLSGSDWNLADATEQLLS 199 (200)
T ss_pred HHHHHHh----cccHHHHHHHhhccccchhhhhHhhcc
Confidence 7778777 999999999999999999999999986
No 69
>PRK15115 response regulator GlrR; Provisional
Probab=47.65 E-value=1.3e+02 Score=31.87 Aligned_cols=24 Identities=8% Similarity=0.184 Sum_probs=21.4
Q ss_pred CCHHHHHHHHHHccCCHHHHHHHH
Q 006751 236 CSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 236 Fs~~qAeKALkeTdGDVERAVEWL 259 (632)
|..+..++||.+|+||+.+|++.|
T Consensus 398 ~E~~~i~~al~~~~gn~~~aA~~L 421 (444)
T PRK15115 398 FELNYLRKLLQITKGNVTHAARMA 421 (444)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHh
Confidence 457789999999999999999976
No 70
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=46.08 E-value=29 Score=32.85 Aligned_cols=42 Identities=33% Similarity=0.438 Sum_probs=33.4
Q ss_pred CCCCchHH-HHHH-HHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 216 LKIDISEE-LARI-SEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 216 ~~iDIseE-La~L-~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
+++.|..| |+.| .+|+ +++..|++-|+++.||+-.|+.-|-+
T Consensus 75 akV~IkkeDlelImnELe----i~k~~aer~LrE~~Gdvv~Alral~s 118 (119)
T KOG3450|consen 75 AKVTIKKEDLELIMNELE----ISKAAAERSLREHMGDVVEALRALTS 118 (119)
T ss_pred cccccCHHHHHHHHHHHH----HHHHHHHHHHHHhcccHHHHHHHHhc
Confidence 35567666 6664 3564 89999999999999999999988865
No 71
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.88 E-value=27 Score=40.54 Aligned_cols=18 Identities=17% Similarity=-0.119 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHhhhhhH
Q 006751 144 AQELHERCCGYLMSRKLE 161 (632)
Q Consensus 144 aqElhERC~~yLmsRKlE 161 (632)
.||+-+||++.||++..-
T Consensus 631 ~qe~L~~~~~~L~~~~~~ 648 (741)
T KOG4460|consen 631 KQEDLMNRMKKLLHSFHS 648 (741)
T ss_pred hHHHHHHHHHHHHhcccc
Confidence 367788999999988653
No 72
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=43.21 E-value=2.5e+02 Score=30.01 Aligned_cols=82 Identities=27% Similarity=0.289 Sum_probs=42.0
Q ss_pred hhhhhHHHHHHHHhcCCCHHHH----HHHHHHh-CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHH--HHHHH
Q 006751 156 MSRKLEALSQQLVAMGFSSERA----TLALMLN-EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEE--LARIS 228 (632)
Q Consensus 156 msRKlE~LVqQLvAMGFpe~RC----kKALiat-NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseE--La~L~ 228 (632)
+.+-++.+..||..+|.+...- ...+... ...++.-+-|-|--. . | . ...++.+++| -+.+.
T Consensus 300 ~~~~~~~~~~~~~~~g~~~~~~~~~~~e~~~~~~~~~a~~~~k~~lil~---~------i-a-~~e~I~vt~eei~~~~~ 368 (408)
T TIGR00115 300 IDRLLEQALQQLQQQGIDLEEYLKDTEEELREEFREEAERRVKLGLILE---E------I-A-KKEKIEVSEEEVEAEIE 368 (408)
T ss_pred HHHHHHHHHHHHHHcCCCHHHhhccCHHHHHHHHHHHHHHHHHHHHHHH---H------H-H-HHhCCCCCHHHHHHHHH
Confidence 4455566778888888774431 1122221 233333344422110 0 1 0 0113344444 34455
Q ss_pred HHHHhcCCCHHHHHHHHHHc
Q 006751 229 EIELRYKCSKQEVERAVVAS 248 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeT 248 (632)
.|...||.+.+++++-+...
T Consensus 369 ~~a~~~g~~~~~~~~~~~~~ 388 (408)
T TIGR00115 369 ELAQQYGEDPEEVKKYYKKN 388 (408)
T ss_pred HHHHHcCCCHHHHHHHHHhh
Confidence 55667899999988888765
No 73
>PF13243 Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A 3SAE_A 3SDV_A 3SDT_A 3SDQ_A 3SDU_A.
Probab=42.78 E-value=25 Score=29.78 Aligned_cols=30 Identities=20% Similarity=0.506 Sum_probs=11.5
Q ss_pred CCHHHHHHHHHHh-----CCCHHHHHHHhhhcCCc
Q 006751 172 FSSERATLALMLN-----EGRVEESVNWLFEVSEE 201 (632)
Q Consensus 172 Fpe~RCkKALiat-----NgDVEAAMnWLFEHMED 201 (632)
|...-|-.||... ..-++.|++||..|..+
T Consensus 27 ~~t~~~~~al~~~~~~~~~~ai~ka~~~l~~~Q~~ 61 (109)
T PF13243_consen 27 FVTAALILALAAAGDAAVDEAIKKAIDWLLSHQNP 61 (109)
T ss_dssp --------------TS-SSBSSHHHHHHHHH---T
T ss_pred cccccccccccccCCCCcHHHHHHHHHHHHHhcCC
Confidence 3333444455443 44678999999999754
No 74
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=42.60 E-value=74 Score=31.41 Aligned_cols=27 Identities=26% Similarity=0.112 Sum_probs=22.2
Q ss_pred hhhHHHHHHHHhcCCCHHHHHHHHHHh
Q 006751 158 RKLEALSQQLVAMGFSSERATLALMLN 184 (632)
Q Consensus 158 RKlE~LVqQLvAMGFpe~RCkKALiat 184 (632)
...+++++-|+..||+++.+++....-
T Consensus 80 ~e~~el~~iy~~~Gl~~~~a~~i~~~l 106 (213)
T PF01988_consen 80 EEKEELVEIYRAKGLSEEDAEEIAEEL 106 (213)
T ss_pred hHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence 344588999999999999999888763
No 75
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=42.32 E-value=63 Score=29.06 Aligned_cols=53 Identities=25% Similarity=0.358 Sum_probs=33.1
Q ss_pred hCCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHH--HHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhh
Q 006751 184 NEGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEEL--ARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKV 261 (632)
Q Consensus 184 tNgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseEL--a~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFS 261 (632)
-+||++.|+.|+-+|-.. + . ..+ .++--+| -+..+|+ + +||+++|++|.+.
T Consensus 13 ~~g~i~~Ai~w~~~~~~~--l-----~-~~~---~~L~f~L~~q~fiell--------------~--~~~~~~Ai~y~r~ 65 (145)
T PF10607_consen 13 LNGDIDPAIEWLNENFPE--L-----L-KRN---SSLEFELRCQQFIELL--------------R--EGDIMEAIEYARK 65 (145)
T ss_pred HcCCHHHHHHHHHHcCHH--H-----H-hcC---CchhHHHHHHHHHHHH--------------H--HHhHHHHHHHHHH
Confidence 589999999999888642 1 0 000 1122232 2333442 1 4899999999998
Q ss_pred cC
Q 006751 262 QK 263 (632)
Q Consensus 262 Hp 263 (632)
|-
T Consensus 66 ~l 67 (145)
T PF10607_consen 66 HL 67 (145)
T ss_pred Hh
Confidence 65
No 76
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=41.88 E-value=1.6e+02 Score=28.89 Aligned_cols=25 Identities=32% Similarity=0.430 Sum_probs=23.0
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHh
Q 006751 160 LEALSQQLVAMGFSSERATLALMLN 184 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALiat 184 (632)
.++++..|+++||....+.+|+-.-
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 5899999999999999999999774
No 77
>cd02432 Nodulin-21_like_1 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_1: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=41.87 E-value=95 Score=31.44 Aligned_cols=23 Identities=26% Similarity=0.153 Sum_probs=19.5
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHH
Q 006751 161 EALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 161 E~LVqQLvAMGFpe~RCkKALia 183 (632)
+++.+.+...||++..+++....
T Consensus 89 ~el~~~~~~~G~~~~~a~~~a~~ 111 (218)
T cd02432 89 EELADIYEERGLSPELARQVADE 111 (218)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHH
Confidence 56677888999999999998877
No 78
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=41.62 E-value=84 Score=31.22 Aligned_cols=36 Identities=11% Similarity=0.136 Sum_probs=27.3
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHh--CCCHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLN--EGRVEESVNW 194 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiat--NgDVEAAMnW 194 (632)
..++++..|+++||....+.+||..- +-++|+.+-.
T Consensus 144 ~~~e~~~aL~~LGy~~~ea~~al~~v~~~~~~eelir~ 181 (186)
T PRK14600 144 INDDALAALISLGYEKTKAFNAIQKIKPNLSTQDIIRK 181 (186)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHHhhcCCCHHHHHHH
Confidence 35788999999999999999999762 3355554433
No 79
>PLN03077 Protein ECB2; Provisional
Probab=41.55 E-value=1.6e+02 Score=34.07 Aligned_cols=109 Identities=16% Similarity=0.103 Sum_probs=64.9
Q ss_pred HHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHH---hCCCHHHHHHHhhhcCCcccCCCCCcc----cCCCCCCCCchHHH
Q 006751 152 CGYLMSRKLEALSQQLVAMGFSSERATLALML---NEGRVEESVNWLFEVSEEEARNTDPKL----ESSGSLKIDISEEL 224 (632)
Q Consensus 152 ~~yLmsRKlE~LVqQLvAMGFpe~RCkKALia---tNgDVEAAMnWLFEHMEDpDiD~P~~l----~s~~~~~iDIseEL 224 (632)
..|......++....+..| -+...+--+|+. ..|+.++|+.. |+.|.+..+..+... -.+=.....+.+-+
T Consensus 532 ~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~l-f~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~ 609 (857)
T PLN03077 532 DLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVEL-FNRMVESGVNPDEVTFISLLCACSRSGMVTQGL 609 (857)
T ss_pred HHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHH-HHHHHHcCCCCCcccHHHHHHHHhhcChHHHHH
Confidence 3455556677777777777 566666667776 38999999885 566765333221100 00000011233337
Q ss_pred HHHHHHHHhcCCCHHHH-----HHHHHHccCCHHHHHHHHhhcC
Q 006751 225 ARISEIELRYKCSKQEV-----ERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 225 a~L~eMevsyGFs~~qA-----eKALkeTdGDVERAVEWLFSHp 263 (632)
..+.+|...||+.++.. -.+| .-.|+++.|.+++..=|
T Consensus 610 ~~f~~M~~~~gi~P~~~~y~~lv~~l-~r~G~~~eA~~~~~~m~ 652 (857)
T PLN03077 610 EYFHSMEEKYSITPNLKHYACVVDLL-GRAGKLTEAYNFINKMP 652 (857)
T ss_pred HHHHHHHHHhCCCCchHHHHHHHHHH-HhCCCHHHHHHHHHHCC
Confidence 77888877899877532 1233 34689999999887643
No 80
>PF03634 TCP: TCP family transcription factor; InterPro: IPR005333 The TCP transcription factor family was named after: teosinte branched 1 (tb1, Zea mays (Maize)) [], cycloidea (cyc) (Antirrhinum majus) (Garden snapdragon) [] and PCF in rice (Oryza sativa) [, ]. The TCP proteins code for structurally related proteins implicated in the evolution of key morphological traits []. However, the biochemical function of CYC and TB1 proteins remains to be demonstrated. One of the conserved regions is predicted to form a non-canonical basic-Helix-Loop-Helix (bHLP) structure. This domain is also found in two rice DNA-binding proteins, PCF1 and PCF2, where it has been shown to be involved in DNA-binding and dimerization. This family of transcription factors are exclusive to higher plants. They can be divided into two groups, TCP-C and TCP-P, that appear to have separated following an early gene duplication event []. This duplication event may have led to functional divergence and it has been proposed that that the TCP-P subfamily are transcriptional repressors, while the TPC-C subfamily are transcription activators [].
Probab=40.98 E-value=12 Score=34.51 Aligned_cols=32 Identities=9% Similarity=0.253 Sum_probs=21.7
Q ss_pred CCCchHHHHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCC
Q 006751 217 KIDISEELARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 217 ~iDIseELa~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpD 264 (632)
.++|...+=.|+||| ||+.+ -+.|||||.+-.
T Consensus 25 s~~~Ar~FFdLQDmL---GfDKa-------------SKTveWLL~kSk 56 (138)
T PF03634_consen 25 SLEIARKFFDLQDML---GFDKA-------------SKTVEWLLTKSK 56 (138)
T ss_pred CHHHHHHHHHHHHHh---cCCCC-------------CchHHHHHHhCH
Confidence 334555566689997 99875 367888887643
No 81
>PRK14137 recX recombination regulator RecX; Provisional
Probab=40.27 E-value=92 Score=31.16 Aligned_cols=100 Identities=14% Similarity=0.126 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHhhhh--hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcC--CcccCCCCCcccCCCCCCCCc
Q 006751 145 QELHERCCGYLMSRK--LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVS--EEEARNTDPKLESSGSLKIDI 220 (632)
Q Consensus 145 qElhERC~~yLmsRK--lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHM--EDpDiD~P~~l~s~~~~~iDI 220 (632)
+.+..+|..||-.|. -.+|-+.|..-||+...+..+| ++|.++. +|.....-... ..+-.
T Consensus 40 ~~~~~~Al~~Ls~R~rS~~ELr~KL~~kg~~~e~Ie~vI-----------~rL~e~gyLDD~rfAe~~~~-~k~~G---- 103 (195)
T PRK14137 40 EALLAYAFRALAARAMTAAELRAKLERRSEDEALVTEVL-----------ERVQELGYQDDAQVARAENS-RRGVG---- 103 (195)
T ss_pred HHHHHHHHHHHhcchhhHHHHHHHHHhcCCCHHHHHHHH-----------HHHHHcCCCCHHHHHHHHHH-hcCch----
Confidence 356677777765443 3477788888888887665444 4443333 22211110000 00000
Q ss_pred hHHHHHHHHHHHhcCCCHHHHHHHHHHccC--CHHHHHHHHhhcC
Q 006751 221 SEELARISEIELRYKCSKQEVERAVVASEG--DLDKAEDTIKVQK 263 (632)
Q Consensus 221 seELa~L~eMevsyGFs~~qAeKALkeTdG--DVERAVEWLFSHp 263 (632)
...|..-|..-|++.+.++.||.+.+. .++.|.+.|...-
T Consensus 104 ---p~rI~~eL~qKGI~~~lI~~al~~~d~ede~e~a~~l~~KK~ 145 (195)
T PRK14137 104 ---ALRVRQTLRRRGVEETLIEETLAARDPQEEQQEARNLLERRW 145 (195)
T ss_pred ---HHHHHHHHHHcCCCHHHHHHHHHhcCchhHHHHHHHHHHHhc
Confidence 123334445569999999999998765 3678888886553
No 82
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=39.92 E-value=57 Score=29.15 Aligned_cols=24 Identities=8% Similarity=0.141 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHccCCHHHHHHHH
Q 006751 236 CSKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 236 Fs~~qAeKALkeTdGDVERAVEWL 259 (632)
|....++.||..|+||+.+|++.|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 456779999999999999999987
No 83
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=39.88 E-value=73 Score=32.57 Aligned_cols=35 Identities=17% Similarity=0.134 Sum_probs=24.6
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLNEGRVEESVN 193 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMn 193 (632)
..+++++.++..||+++.|+...-.--.+-|..++
T Consensus 99 e~~el~~iy~~~G~~~~~a~~~~~~l~~~~~~~~~ 133 (234)
T cd02433 99 EAAELALIYRAKGLDEEEAKRVASQLMNDPEQALD 133 (234)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHhCcchhHH
Confidence 34678888999999999999887664333333333
No 84
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=39.11 E-value=1.1e+02 Score=30.69 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=22.7
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALia 183 (632)
..++++..|+++||....+.+||-.
T Consensus 151 ~~~ea~~AL~~LGy~~~ea~~al~~ 175 (197)
T PRK14603 151 AAEDAVLALLALGFREAQVRSVVAE 175 (197)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 5578999999999999999999975
No 85
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=38.46 E-value=37 Score=27.34 Aligned_cols=38 Identities=8% Similarity=0.101 Sum_probs=28.6
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcC
Q 006751 226 RISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQK 263 (632)
Q Consensus 226 ~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHp 263 (632)
+|..+-..-|...+-++++|.+++.|+++|+.-...-.
T Consensus 3 mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~l~ 40 (51)
T PF03943_consen 3 MVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFEELK 40 (51)
T ss_dssp HHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred HHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 44555566799999999999999999999998665443
No 86
>PRK01490 tig trigger factor; Provisional
Probab=38.46 E-value=5.5e+02 Score=27.83 Aligned_cols=37 Identities=19% Similarity=0.204 Sum_probs=26.5
Q ss_pred HHHHHHhcCCCHHHHHHHHHHccCCH---------HHHHHHHhhcCC
Q 006751 227 ISEIELRYKCSKQEVERAVVASEGDL---------DKAEDTIKVQKQ 264 (632)
Q Consensus 227 L~eMevsyGFs~~qAeKALkeTdGDV---------ERAVEWLFSHpD 264 (632)
+..|...||.+.+++++-+. ..+.+ +++++||.++-.
T Consensus 377 ~~~~a~~~~~~~~~~~~~~~-~~~~~~~i~~~l~~~Kv~~~l~~~a~ 422 (435)
T PRK01490 377 IEEMASQYGQPPEVIEFYLK-NPQLLAALRADVLEEKVVDFLLEKAK 422 (435)
T ss_pred HHHHHHHcCCCHHHHHHHHh-ChhhHHHHHHHHHHHHHHHHHHHhCE
Confidence 44555678999999888776 33334 789999998644
No 87
>PTZ00217 flap endonuclease-1; Provisional
Probab=38.23 E-value=1.2e+02 Score=33.24 Aligned_cols=70 Identities=17% Similarity=0.188 Sum_probs=36.2
Q ss_pred hhHHHHHHhhhhhHHHHHHHHH----HHHHHHHHHHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhh
Q 006751 122 NDRREKIRLKNEKKHQRQREKR----AQELHERCCGYLMSRKLEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFE 197 (632)
Q Consensus 122 ndkreKiR~KNEkKHqRqkErr----aqElhERC~~yLmsRKlE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFE 197 (632)
..+|.+.|.+...+-...+|.- +.+...||+. +-..-.+.+...|..|||+...| -+-+|+=+.+|-.
T Consensus 99 ~~~Rk~~R~~a~~~l~~a~~~g~~~~a~k~~~r~~~-vt~~~~~~~~~lL~~~Gip~i~A-------P~EAdaq~A~L~~ 170 (393)
T PTZ00217 99 LEKRRERREEAEEELEKAIEEGDDEEIKKQSKRTVR-VTKEQNEDAKKLLRLMGIPVIEA-------PCEAEAQCAELVK 170 (393)
T ss_pred HHHHHHHHHHhHHHHHHHHhcCCHHHHHHHHhhccc-CCHHHHHHHHHHHHHcCCceEEC-------CcCHHHHHHHHHH
Confidence 3456666666655443332222 1222333322 11223567888899999996543 2355555566654
Q ss_pred cC
Q 006751 198 VS 199 (632)
Q Consensus 198 HM 199 (632)
++
T Consensus 171 ~g 172 (393)
T PTZ00217 171 KG 172 (393)
T ss_pred CC
Confidence 43
No 88
>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=37.46 E-value=60 Score=27.10 Aligned_cols=46 Identities=13% Similarity=0.202 Sum_probs=34.1
Q ss_pred CCchHH-HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCCC
Q 006751 218 IDISEE-LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQE 265 (632)
Q Consensus 218 iDIseE-La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpDD 265 (632)
..+.+| |.+....+ -|-+.+.+.|-|.-|+=|+..||.-|.++-|+
T Consensus 6 ~~vPedlI~q~q~VL--qgksR~vIirELqrTnLdVN~AvNNlLsRDde 52 (53)
T PF11547_consen 6 SQVPEDLINQAQVVL--QGKSRNVIIRELQRTNLDVNLAVNNLLSRDDE 52 (53)
T ss_dssp GGS-HHHHHHHHHHS--TTS-HHHHHHHHHHTTT-HHHHHHHHHHHH--
T ss_pred ccCCHHHHHHHHHHH--cCCcHHHHHHHHHHhcccHHHHHHHHhccccC
Confidence 346677 77765543 58999999999999999999999999988665
No 89
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=37.08 E-value=2.4e+02 Score=29.67 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=20.5
Q ss_pred CHHHHHHHHHHccCCHHHHHHHH
Q 006751 237 SKQEVERAVVASEGDLDKAEDTI 259 (632)
Q Consensus 237 s~~qAeKALkeTdGDVERAVEWL 259 (632)
.++..++||+.++||+.+|++-|
T Consensus 406 e~~~i~~~l~~~~gn~~~aa~~L 428 (441)
T PRK10365 406 EKEVILAALEKTGGNKTEAARQL 428 (441)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHh
Confidence 46789999999999999999876
No 90
>PRK06476 pyrroline-5-carboxylate reductase; Reviewed
Probab=36.44 E-value=79 Score=31.34 Aligned_cols=39 Identities=15% Similarity=0.113 Sum_probs=31.4
Q ss_pred HHHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHH
Q 006751 151 CCGYLMSRKLEALSQQLVAMGFSSERATLALMLN-EGRVEE 190 (632)
Q Consensus 151 C~~yLmsRKlE~LVqQLvAMGFpe~RCkKALiat-NgDVEA 190 (632)
+.+|++ .-++++++-++.+||+...+.+.+..+ .|-++-
T Consensus 164 ~~a~~~-~~~~~~~~~~~~~Gl~~~~a~~~~~~~~~G~~~l 203 (258)
T PRK06476 164 LMATYF-GILETATGWLEEQGLKRQKARAYLAPLFASLAQD 203 (258)
T ss_pred cHHHHH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 356666 478999999999999999999999887 655544
No 91
>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=35.54 E-value=61 Score=32.09 Aligned_cols=25 Identities=24% Similarity=0.387 Sum_probs=22.4
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALia 183 (632)
..+++++.|.++||....+.+|+..
T Consensus 146 ~~~e~~~aL~~LGy~~~e~~~ai~~ 170 (191)
T TIGR00084 146 ARDELFEALVSLGYKPQEIQQALKK 170 (191)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3578999999999999999999976
No 92
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=34.35 E-value=72 Score=27.79 Aligned_cols=42 Identities=14% Similarity=0.067 Sum_probs=31.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCCCCCC
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQELPA 268 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpDD~~s 268 (632)
+..|...+..|||+...|+|..+..+. .|++-|..+|..+-.
T Consensus 8 ~~~~~~~L~~~gl~~~~a~kl~~~yg~---~ai~~l~~nPY~L~~ 49 (94)
T PF14490_consen 8 LRELMAFLQEYGLSPKLAMKLYKKYGD---DAIEILKENPYRLIE 49 (94)
T ss_dssp -HHHHHHHHHTT--HHHHHHHHHHH-T---THHHHHHH-STCCCB
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhH---HHHHHHHHChHHHHH
Confidence 566667777889999999999999885 788999999988753
No 93
>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=34.18 E-value=35 Score=37.35 Aligned_cols=31 Identities=10% Similarity=0.185 Sum_probs=24.2
Q ss_pred HHHhhhhhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 153 GYLMSRKLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 153 ~yLmsRKlE~LVqQLvAMGFpe~RCkKALia 183 (632)
+....+...++|+.++.|||+.++.+--+.+
T Consensus 314 ~~~~~~p~ddvidKv~~MGf~rDqV~a~v~r 344 (358)
T PF07223_consen 314 QSGNRHPYDDVIDKVASMGFRRDQVRATVRR 344 (358)
T ss_pred cccccCcHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 3555677899999999999999998544333
No 94
>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=33.75 E-value=1.8e+02 Score=25.96 Aligned_cols=73 Identities=16% Similarity=0.126 Sum_probs=40.9
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHHH
Q 006751 161 EALSQQLVAMGFSSERATLALMLNEGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSKQE 240 (632)
Q Consensus 161 E~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~q 240 (632)
-.|.+.|..-|++......||- .....|.|...+..-..-. . ..+-......|...+++-||+.+.
T Consensus 46 ~~I~~~L~~kGi~~~~i~~~l~-~~~~~e~a~~~~~kk~~~~--~-----------~~~~~~~~~K~~~~L~rrGF~~~~ 111 (121)
T PF02631_consen 46 RRIRQKLKQKGIDREIIEEALE-EYDEEEEALELAEKKYRRY--R-----------KPSDRKRKQKLIRFLMRRGFSYDV 111 (121)
T ss_dssp HHHHHHHHHTT--HHHHHHHHT-CS-HHHHHHHHHHHHHHHT--T-----------TS-CHHHHHHHHHHHHHTT--HHH
T ss_pred HHHHHHHHHHCCChHHHHHHHH-HhhHHHHHHHHHHHHHhcc--c-----------CCCCHHHHHHHHHHHHHCCCCHHH
Confidence 3677778888888877777775 2222333333332211100 0 001123377888889999999999
Q ss_pred HHHHHHH
Q 006751 241 VERAVVA 247 (632)
Q Consensus 241 AeKALke 247 (632)
++++|.+
T Consensus 112 i~~vi~~ 118 (121)
T PF02631_consen 112 IRRVISE 118 (121)
T ss_dssp HHHHCHH
T ss_pred HHHHHhh
Confidence 9999987
No 95
>PRK03980 flap endonuclease-1; Provisional
Probab=33.39 E-value=1.9e+02 Score=30.50 Aligned_cols=35 Identities=14% Similarity=0.117 Sum_probs=21.4
Q ss_pred HHHHhcCCCHHHHHHHHHHccCC---------HHHHHHHHhhcC
Q 006751 229 EIELRYKCSKQEVERAVVASEGD---------LDKAEDTIKVQK 263 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeTdGD---------VERAVEWLFSHp 263 (632)
+++..+|++.+|.-....-++.| +.+|++.|..|+
T Consensus 167 ~vl~~lgl~~~q~id~~iL~G~Dy~~GI~GIG~ktA~kLi~~~~ 210 (292)
T PRK03980 167 EVLKELGITREQLIDIAILVGTDYNPGIKGIGPKTALKLIKKHG 210 (292)
T ss_pred HHHHHhCCCHHHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHCC
Confidence 44455677777776655555554 456666666665
No 96
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=32.69 E-value=3.7e+02 Score=26.76 Aligned_cols=36 Identities=25% Similarity=0.297 Sum_probs=27.1
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHHh----CCCHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALMLN----EGRVEESVNW 194 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALiat----NgDVEAAMnW 194 (632)
..++++..|+++||+...+.+|+..- +.++|+.+-+
T Consensus 147 ~~~e~~~aL~~LGy~~~~a~~ai~~~~~~~~~~~~~~ir~ 186 (194)
T PRK14605 147 ANSDILATLTALGYSSSEAAKAISSLGDNGDLPLEERIKL 186 (194)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHHhhccCCCCHHHHHHH
Confidence 35788999999999999999999763 2245554443
No 97
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=32.35 E-value=46 Score=29.97 Aligned_cols=26 Identities=27% Similarity=0.457 Sum_probs=21.2
Q ss_pred HHHHHHHHHccCCHHHHHHHHhhcCCCC
Q 006751 239 QEVERAVVASEGDLDKAEDTIKVQKQEL 266 (632)
Q Consensus 239 ~qAeKALkeTdGDVERAVEWLFSHpDD~ 266 (632)
.+++++| .+||++.|++|+..|-...
T Consensus 6 ~~I~~~I--~~g~i~~Ai~w~~~~~~~l 31 (145)
T PF10607_consen 6 KKIRQAI--LNGDIDPAIEWLNENFPEL 31 (145)
T ss_pred HHHHHHH--HcCCHHHHHHHHHHcCHHH
Confidence 4667788 6899999999999886543
No 98
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=32.28 E-value=5.2e+02 Score=26.14 Aligned_cols=51 Identities=8% Similarity=0.213 Sum_probs=26.8
Q ss_pred HHHHHHhhhhhHHHHHHHH---hcCCCHHHH--HHHHHH-hCCCHHHHHHHhhhcCC
Q 006751 150 RCCGYLMSRKLEALSQQLV---AMGFSSERA--TLALML-NEGRVEESVNWLFEVSE 200 (632)
Q Consensus 150 RC~~yLmsRKlE~LVqQLv---AMGFpe~RC--kKALia-tNgDVEAAMnWLFEHME 200 (632)
+...++..++.+..+..+. ...-....+ ..|.+. ..++.+.|+..+-.-..
T Consensus 41 ~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~ 97 (389)
T PRK11788 41 KGLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLS 97 (389)
T ss_pred HHHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhc
Confidence 3445556555554444443 333323323 333333 48899999987644443
No 99
>PF03154 Atrophin-1: Atrophin-1 family; InterPro: IPR002951 Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA (OMIM:125370) is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins [, ]. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteristic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity [].. This entry includes Atrophin-1 and related proteins.
Probab=31.80 E-value=41 Score=41.06 Aligned_cols=29 Identities=41% Similarity=0.608 Sum_probs=0.0
Q ss_pred CCChhHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 006751 119 GSDNDRREKIRLKNEKKHQRQREKRAQELHER 150 (632)
Q Consensus 119 g~dndkreKiR~KNEkKHqRqkErraqElhER 150 (632)
++|...|| |.+.||. +|+||-|+.||+||
T Consensus 713 ~~~~~~rE--relrERE-~Rere~reReLrdR 741 (982)
T PF03154_consen 713 SADPAARE--RELRERE-IRERELRERELRDR 741 (982)
T ss_pred ccCHHhhh--hhhhhhh-hhhHHHHHHHHHHh
No 100
>COG3122 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.29 E-value=1.3e+02 Score=31.02 Aligned_cols=50 Identities=26% Similarity=0.373 Sum_probs=31.5
Q ss_pred ChhHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhcC
Q 006751 121 DNDRREKIRLKNEKKHQRQREKRAQELHERCCGYLMSRKLEALSQQLVAMG 171 (632)
Q Consensus 121 dndkreKiR~KNEkKHqRqkErraqElhERC~~yLmsRKlE~LVqQLvAMG 171 (632)
+.|.||--|+..|+..-.|-|| .++|.|.--+.-.....-+.+.||+.|-
T Consensus 71 ~vd~~eayr~aae~~Kaeqler-dk~l~~qQk~~a~~ke~kAqvkqLIe~~ 120 (215)
T COG3122 71 RVDAREAYRIAAEENKAEQLER-DKQLSEQQKQAALAKEYKAQVKQLIEMN 120 (215)
T ss_pred hhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5677877666555544444444 5566666656555566667788888873
No 101
>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=31.09 E-value=1.1e+02 Score=33.82 Aligned_cols=59 Identities=24% Similarity=0.236 Sum_probs=43.4
Q ss_pred chHHHHHHHHHHHhcC--CCHHHHHHHHHHccCCHHHHHHHHhhcCCCCCCC-CCCCCCccc
Q 006751 220 ISEELARISEIELRYK--CSKQEVERAVVASEGDLDKAEDTIKVQKQELPAT-PPRPDDTAD 278 (632)
Q Consensus 220 IseELa~L~eMevsyG--Fs~~qAeKALkeTdGDVERAVEWLFSHpDD~~s~-~~kpe~~~d 278 (632)
|.+.+..+.+=.++-| +.++.|-.|||...||+..|+=-|+.+.--+|-- -..|-++++
T Consensus 37 I~~ql~lavdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLLRAyRtTlPR~~~s~pvdt~~ 98 (358)
T PF05861_consen 37 IEEQLRLAVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLLRAYRTTLPRFGYSLPVDTGD 98 (358)
T ss_pred HHHHHHHHHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHHHHHHhhcccccccCccCccc
Confidence 4333666666666777 9999999999999999999999999887665533 333444443
No 102
>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=30.61 E-value=71 Score=31.63 Aligned_cols=21 Identities=19% Similarity=0.218 Sum_probs=16.8
Q ss_pred HHHHhcCCCHHHHHHHHHHcc
Q 006751 229 EIELRYKCSKQEVERAVVASE 249 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeTd 249 (632)
+-+..+||++.+|++||.+..
T Consensus 152 ~aL~~LGy~~~e~~~ai~~~~ 172 (191)
T TIGR00084 152 EALVSLGYKPQEIQQALKKIK 172 (191)
T ss_pred HHHHHcCCCHHHHHHHHHHHh
Confidence 444566999999999999863
No 103
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=29.78 E-value=86 Score=31.32 Aligned_cols=20 Identities=30% Similarity=0.275 Sum_probs=16.4
Q ss_pred HHHHhcCCCHHHHHHHHHHc
Q 006751 229 EIELRYKCSKQEVERAVVAS 248 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeT 248 (632)
+-++.+||.+.+|++||.+.
T Consensus 154 ~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 154 EILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 44456699999999999887
No 104
>cd02889 SQCY Squalene cyclase (SQCY) domain; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. Bacterial SQCY catalyzes the convertion of squalene to hopene or diplopterol. Eukaryotic OSQCY transforms the 2,3-epoxide of squalene to compounds such as, lanosterol (a metabolic precursor of cholesterol and steroid hormones) in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain. This group also contains SQCY-like archael sequences and some bacterial SQCY's which lack this minor domain.
Probab=29.69 E-value=2.5e+02 Score=28.45 Aligned_cols=25 Identities=20% Similarity=0.351 Sum_probs=18.7
Q ss_pred HHHHHHHHHhCC------CHHHHHHHhhhcC
Q 006751 175 ERATLALMLNEG------RVEESVNWLFEVS 199 (632)
Q Consensus 175 ~RCkKALiatNg------DVEAAMnWLFEHM 199 (632)
-.|.+||+.++. .++.|++||.++.
T Consensus 29 a~~~~al~~~g~~~~~~~~~~ka~~~l~~~q 59 (348)
T cd02889 29 ALALQALLEAGLAPEFDPALKKALEWLLKSQ 59 (348)
T ss_pred HHHHHHHHHcCCCCccCHHHHHHHHHHHhcC
Confidence 356667766544 5799999999987
No 105
>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=28.76 E-value=96 Score=25.97 Aligned_cols=40 Identities=28% Similarity=0.174 Sum_probs=29.2
Q ss_pred HHHHHHH--HhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCC
Q 006751 161 EALSQQL--VAMGFSSERATLALMLNEGRVEESVNWLFEVSE 200 (632)
Q Consensus 161 E~LVqQL--vAMGFpe~RCkKALiatNgDVEAAMnWLFEHME 200 (632)
|+|+.|. +--|=+++...+-|..||=||..|+|=|+..-|
T Consensus 10 edlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDd 51 (53)
T PF11547_consen 10 EDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDD 51 (53)
T ss_dssp HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcccc
Confidence 4444433 345888888999999999999999999998743
No 106
>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins. Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.
Probab=28.75 E-value=2.5e+02 Score=26.42 Aligned_cols=83 Identities=22% Similarity=0.194 Sum_probs=50.5
Q ss_pred CCCCCCCCcCCCCCCCCCCCCCCCcccccccccCCCCCcCCCCCccccccCCCCCCCCCCCChhHHHHHHhhhhhHHHHH
Q 006751 60 PPYHDNGRFRNIDDTDEHSSRPHGTVSEYDSVSNNGSCSGESEDPKEKFANSSRQDPIPGSDNDRREKIRLKNEKKHQRQ 139 (632)
Q Consensus 60 s~~~~n~rFr~id~~dehs~s~~~~~~e~dsvsnngs~sgesed~kek~~n~~~~~~ipg~dndkreKiR~KNEkKHqRq 139 (632)
+.++-+.|....+|-+..-+.+...-..-.=|--+|.|--|+.-- + -.+-||++|+|- |.+|=|
T Consensus 22 s~~~~~d~~t~~~El~l~yg~i~l~Lg~~~l~F~dG~W~~e~~~~-------------~--~~~~~e~~rlkk-k~~~Le 85 (108)
T cd07429 22 SNLRLLDRSTRQAELGLDYGPIRLKLGGQELVFEDGRWISESGGS-------------S--GVSGREVLRLKK-KNQQLE 85 (108)
T ss_pred ccccccCCCccccccccccCCceeeeCCceEEeeCCEEecCCCCC-------------C--CCchhHHHHHHH-HHHHHH
Confidence 445556666666666666666655554544555689998776532 2 344678888775 223333
Q ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHh
Q 006751 140 REKRAQELHERCCGYLMSRKLEALSQQLVA 169 (632)
Q Consensus 140 kErraqElhERC~~yLmsRKlE~LVqQLvA 169 (632)
.|. -|..-|.|.|+++|..
T Consensus 86 EEN-----------NlLklKievLLDMLte 104 (108)
T cd07429 86 EEN-----------NLLKLKIEVLLDMLAE 104 (108)
T ss_pred HHH-----------HHHHHHHHHHHHHHHH
Confidence 332 3456688888888853
No 107
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=28.32 E-value=86 Score=33.31 Aligned_cols=48 Identities=21% Similarity=0.215 Sum_probs=38.9
Q ss_pred HHHHHHHHhhhhhHHHH-HHHHhc-CCCHHHHHHHHHHhCCCHHHHHHHh
Q 006751 148 HERCCGYLMSRKLEALS-QQLVAM-GFSSERATLALMLNEGRVEESVNWL 195 (632)
Q Consensus 148 hERC~~yLmsRKlE~LV-qQLvAM-GFpe~RCkKALiatNgDVEAAMnWL 195 (632)
+.||..+-+....++.+ +-|+.- |++...+..++...+|++..|++||
T Consensus 156 rSRCq~~~~~~~~~~~~~~~L~~~~~~~~~~a~~~~~la~G~~~~Al~l~ 205 (334)
T PRK07993 156 RSRCRLHYLAPPPEQYALTWLSREVTMSQDALLAALRLSAGAPGAALALL 205 (334)
T ss_pred HhccccccCCCCCHHHHHHHHHHccCCCHHHHHHHHHHcCCCHHHHHHHh
Confidence 88999888888755544 457554 9999998888888899999999997
No 108
>smart00311 PWI PWI, domain in splicing factors.
Probab=28.14 E-value=1.5e+02 Score=25.11 Aligned_cols=50 Identities=18% Similarity=0.042 Sum_probs=34.6
Q ss_pred HHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhh-hhHHHHHHHHhcCCCH
Q 006751 125 REKIRLKNEKKHQRQREKRAQELHERCCGYLMSR-KLEALSQQLVAMGFSS 174 (632)
Q Consensus 125 reKiR~KNEkKHqRqkErraqElhERC~~yLmsR-KlE~LVqQLvAMGFpe 174 (632)
.+++|...++|=..-==-....+-+-|+..|..+ ..+.++.||...||.+
T Consensus 6 ~~~lk~WI~~kv~e~LG~~d~~vvd~i~~~l~~~~~~~~l~~~L~~~~f~d 56 (74)
T smart00311 6 LDEIKPWITKKVIEFLGFEEDTLVEFILSQIRQHKGPQAKLLQINLTGFED 56 (74)
T ss_pred HHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCChHHHHHHHHhhcchh
Confidence 4555555555433222112446788999999876 7889999999999995
No 109
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=28.13 E-value=1.4e+02 Score=29.75 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=22.2
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHh
Q 006751 160 LEALSQQLVAMGFSSERATLALMLN 184 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALiat 184 (632)
.+++++.|+++||....+.+||-.-
T Consensus 143 ~~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 143 YHESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4788999999999999999999663
No 110
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=28.09 E-value=2.3e+02 Score=30.73 Aligned_cols=61 Identities=25% Similarity=0.202 Sum_probs=40.5
Q ss_pred HHHHHHHHH-hCCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHHHHHHHHHHccCCHH
Q 006751 175 ERATLALML-NEGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSKQEVERAVVASEGDLD 253 (632)
Q Consensus 175 ~RCkKALia-tNgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~qAeKALkeTdGDVE 253 (632)
.|+.+=++. |+=+.|+|..-|.+-..+ .-++-|.-+ -|++.++|++.|...+|.+-
T Consensus 234 dRa~RIv~~aT~~~~~~A~~~L~~~~~~--------------------vK~AIvm~~---~~~~a~~A~~~L~~~~g~lr 290 (298)
T COG2103 234 DRAVRIVMEATGCSAEEAEALLEEAGGN--------------------VKLAIVMLL---TGLSAEEAKRLLERAGGFLR 290 (298)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCc--------------------cHhHHHHHH---hCCCHHHHHHHHHHccChHH
Confidence 355555544 577777777776544221 012333223 48999999999999999999
Q ss_pred HHHHH
Q 006751 254 KAEDT 258 (632)
Q Consensus 254 RAVEW 258 (632)
+|++-
T Consensus 291 ~Al~~ 295 (298)
T COG2103 291 QALSE 295 (298)
T ss_pred HHHhh
Confidence 99863
No 111
>PLN03196 MOC1-like protein; Provisional
Probab=28.00 E-value=1e+02 Score=34.53 Aligned_cols=36 Identities=19% Similarity=0.115 Sum_probs=28.6
Q ss_pred HHHHhcCCCHHHHHHHHHHc-------cCCHHHHHHHHhhcCC
Q 006751 229 EIELRYKCSKQEVERAVVAS-------EGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeT-------dGDVERAVEWLFSHpD 264 (632)
+.+.++||+.+++.++++.+ ..+|.+.+|+|.+.+.
T Consensus 345 efL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg 387 (487)
T PLN03196 345 EFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMK 387 (487)
T ss_pred HHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhC
Confidence 66677899999998888763 5788888999888764
No 112
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=27.86 E-value=31 Score=29.55 Aligned_cols=27 Identities=22% Similarity=0.190 Sum_probs=23.3
Q ss_pred CHHHHHHHHHHhCCCHHHHHHHhhhcC
Q 006751 173 SSERATLALMLNEGRVEESVNWLFEVS 199 (632)
Q Consensus 173 pe~RCkKALiatNgDVEAAMnWLFEHM 199 (632)
++.+-+.||+.++=||+.||+||+..-
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~~ 71 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSKF 71 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHhc
Confidence 889999999999999999999999874
No 113
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=27.76 E-value=69 Score=30.69 Aligned_cols=27 Identities=33% Similarity=0.325 Sum_probs=23.6
Q ss_pred hcCCCHHHHHHHHHHhCCCHHHHHHHh
Q 006751 169 AMGFSSERATLALMLNEGRVEESVNWL 195 (632)
Q Consensus 169 AMGFpe~RCkKALiatNgDVEAAMnWL 195 (632)
--|-+++.|.|||..+|||+-+|+-=|
T Consensus 94 Qa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 94 QAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred HhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 458999999999999999998887655
No 114
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=27.70 E-value=1e+02 Score=32.86 Aligned_cols=70 Identities=17% Similarity=0.105 Sum_probs=43.6
Q ss_pred HHHHHHhhhcCCcccCCCCCcccCCCCCCC--------------CchHHHHHHHHHHHhcCCCHHHHHHHHHHccCCHHH
Q 006751 189 EESVNWLFEVSEEEARNTDPKLESSGSLKI--------------DISEELARISEIELRYKCSKQEVERAVVASEGDLDK 254 (632)
Q Consensus 189 EAAMnWLFEHMEDpDiD~P~~l~s~~~~~i--------------DIseELa~L~eMevsyGFs~~qAeKALkeTdGDVER 254 (632)
++|.|=|+.-+|+|..+.-+.+.......+ -+++| .+.+-+...|++..+|+.++..++|.+.+
T Consensus 127 ~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~--~~~~~L~~~~~~~~~a~~~~~l~~G~p~~ 204 (319)
T PRK08769 127 RAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAH--EALAWLLAQGVSERAAQEALDAARGHPGL 204 (319)
T ss_pred HHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHH--HHHHHHHHcCCChHHHHHHHHHcCCCHHH
Confidence 567777777777775554333311111011 11232 22233344599999999999999999999
Q ss_pred HHHHHh
Q 006751 255 AEDTIK 260 (632)
Q Consensus 255 AVEWLF 260 (632)
|++|+-
T Consensus 205 A~~~~~ 210 (319)
T PRK08769 205 AAQWLR 210 (319)
T ss_pred HHHHhc
Confidence 999984
No 115
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=27.51 E-value=82 Score=24.00 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=19.1
Q ss_pred HHHHHHHHHccCCHHHHHHHHhhcCCC
Q 006751 239 QEVERAVVASEGDLDKAEDTIKVQKQE 265 (632)
Q Consensus 239 ~qAeKALkeTdGDVERAVEWLFSHpDD 265 (632)
.+.+.+|. .||++.|++|+-.+...
T Consensus 6 ~~i~~~i~--~g~~~~a~~~~~~~~~~ 30 (58)
T smart00668 6 KRIRELIL--KGDWDEALEWLSSLKPP 30 (58)
T ss_pred HHHHHHHH--cCCHHHHHHHHHHcCHH
Confidence 45556665 89999999999877654
No 116
>PF03801 Ndc80_HEC: HEC/Ndc80p family; InterPro: IPR005550 Members of this family are components of the mitotic spindle. It has been shown that Ndc80 from yeast is part of a complex called the Ndc80p complex []. This complex is thought to bind to the microtubules of the spindle.; PDB: 3IZ0_E 2VE7_B 2IGP_A.
Probab=27.40 E-value=39 Score=32.49 Aligned_cols=86 Identities=17% Similarity=0.125 Sum_probs=51.3
Q ss_pred HHHHHHHHhcCC-CHHHHHHHHHH-hCCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCH
Q 006751 161 EALSQQLVAMGF-SSERATLALML-NEGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSK 238 (632)
Q Consensus 161 E~LVqQLvAMGF-pe~RCkKALia-tNgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~ 238 (632)
+.|++-|...|| +.....+.|.. +..|.-+-++|||.+.| |+. .+ . .-+.+||-.+ +..+|++-
T Consensus 43 ~~I~~fL~~~~~~~~~is~k~l~~Pt~kdf~~I~~fL~~~id-p~~----~~-~-----~k~eeev~~~---lK~L~YP~ 108 (157)
T PF03801_consen 43 RKIYEFLSEHGFESHPISPKTLKSPTQKDFVEIFNFLFRQID-PNF----KF-G-----KKFEEEVPFL---LKALGYPF 108 (157)
T ss_dssp HHHHHHHHHTT--SS---TTTTSS--HHHHHHHHHHHHHTTS-TT--------S-----STHHHHHHHH---HHHTT-SS
T ss_pred HHHHHHHHHcCCCCccccccccCCCCHHHHHHHHHHHHHHhC-CCC----Cc-C-----cCHHHHHHHH---HHHhCCCc
Confidence 356677888899 77777777766 57799999999999965 333 12 1 1244564433 33448888
Q ss_pred -HHHHHHHHHccC-----CHHHHHHHHh
Q 006751 239 -QEVERAVVASEG-----DLDKAEDTIK 260 (632)
Q Consensus 239 -~qAeKALkeTdG-----DVERAVEWLF 260 (632)
..-+-+|.+-+. .+=.|+.||-
T Consensus 109 ~~isKS~L~a~gs~hsWP~lL~~L~WLv 136 (157)
T PF03801_consen 109 ATISKSSLQAPGSPHSWPHLLGALHWLV 136 (157)
T ss_dssp ----HHHHHSTTSTTTHHHHHHHHHHHH
T ss_pred cccCHHHccCCCCcccHHHHHHHHHHHH
Confidence 888888887664 4568888884
No 117
>KOG2239 consensus Transcription factor containing NAC and TS-N domains [Transcription]
Probab=27.33 E-value=82 Score=32.51 Aligned_cols=32 Identities=13% Similarity=0.131 Sum_probs=25.9
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHH
Q 006751 224 LARISEIELRYKCSKQEVERAVVASEGDLDKAEDT 258 (632)
Q Consensus 224 La~L~eMevsyGFs~~qAeKALkeTdGDVERAVEW 258 (632)
|+.+... -++++..|-|||++.+|||--|+=-
T Consensus 175 IeLVmsQ---anvSR~kAVkALk~~~~DiVnAIM~ 206 (209)
T KOG2239|consen 175 IELVMSQ---ANVSRAKAVKALKNNNNDIVNAIME 206 (209)
T ss_pred HHHHHHH---hhhhHHHHHHHHHhccchHHHHHHH
Confidence 6666443 3899999999999999999888643
No 118
>PF02731 SKIP_SNW: SKIP/SNW domain; InterPro: IPR004015 SKIP (SKI-interacting protein) is an essential spliceosomal component and transcriptional coregulator, which may provide regulatory coupling of transcription initiation and splicing []. SKIP was identified in a yeast 2-hybrid screen, where it was shown to interact with both the cellular and viral forms of SKI through the highly conserved region on SKIP known as the SNW domain []. SKIP is now known to interact with a number of other proteins as well. SKIP potentiates the activity of important transcription factors, such as vitamin D receptor, CBF1 (RBP-Jkappa), Smad2/3, and MyoD. It works with Ski in overcoming pRb-mediated cell cycle arrest, and it is targeted by the viral transactivators EBNA2 and E7 []. This entry represents the SNW domain.; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=27.26 E-value=89 Score=31.00 Aligned_cols=31 Identities=26% Similarity=0.577 Sum_probs=19.5
Q ss_pred CChhHHHHHHhhhhhHHH---HHHHHHHHHHHHH
Q 006751 120 SDNDRREKIRLKNEKKHQ---RQREKRAQELHER 150 (632)
Q Consensus 120 ~dndkreKiR~KNEkKHq---RqkErraqElhER 150 (632)
+|..-||-|+++||-+-+ +++|+++++|++.
T Consensus 117 Ad~~aReev~~R~~~~~~~a~ke~~~kEe~lr~l 150 (158)
T PF02731_consen 117 ADRKAREEVRQRAEMQKELAEKEKEEKEEKLREL 150 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466779999999986543 4444444444443
No 119
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=27.15 E-value=1.4e+02 Score=31.75 Aligned_cols=69 Identities=20% Similarity=0.155 Sum_probs=43.1
Q ss_pred HHHHHHhhhcCCcccCCCCCcccCCCCCCC--------------CchHH-HHH-HHHHHHhcCCCHHHHHHHHHHccCCH
Q 006751 189 EESVNWLFEVSEEEARNTDPKLESSGSLKI--------------DISEE-LAR-ISEIELRYKCSKQEVERAVVASEGDL 252 (632)
Q Consensus 189 EAAMnWLFEHMEDpDiD~P~~l~s~~~~~i--------------DIseE-La~-L~eMevsyGFs~~qAeKALkeTdGDV 252 (632)
++|-|=|+.-+|+|....=+.+.......+ -+++| +.. |. ..+|++.++|+.++.-++|++
T Consensus 122 ~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~---~~~~~~~~~a~~~~~la~G~~ 198 (334)
T PRK07993 122 DAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLS---REVTMSQDALLAALRLSAGAP 198 (334)
T ss_pred HHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHH---HccCCCHHHHHHHHHHcCCCH
Confidence 567777888888775544222211110000 12333 332 32 246999999999999999999
Q ss_pred HHHHHHHh
Q 006751 253 DKAEDTIK 260 (632)
Q Consensus 253 ERAVEWLF 260 (632)
.+|++++-
T Consensus 199 ~~Al~l~~ 206 (334)
T PRK07993 199 GAALALLQ 206 (334)
T ss_pred HHHHHHhc
Confidence 99999874
No 120
>KOG2775 consensus Metallopeptidase [General function prediction only]
Probab=26.68 E-value=86 Score=34.51 Aligned_cols=66 Identities=21% Similarity=0.216 Sum_probs=44.6
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHHHHhhhh-----hHHHHHHHHhcCCCHHHHHHHHHHhCCC-------HHHHHHHh
Q 006751 128 IRLKNEKKHQRQREKRAQELHERCCGYLMSRK-----LEALSQQLVAMGFSSERATLALMLNEGR-------VEESVNWL 195 (632)
Q Consensus 128 iR~KNEkKHqRqkErraqElhERC~~yLmsRK-----lE~LVqQLvAMGFpe~RCkKALiatNgD-------VEAAMnWL 195 (632)
.-+++..+-+.|--|||+|.|++-..|.++.- +-+|+..|+ -+.+.|+.-|+- .--+|||.
T Consensus 75 r~ler~~~~i~~d~rraAE~HRqvR~yv~s~ikPGmtm~ei~e~iE-------nttR~li~e~gl~aGi~FPtG~SlN~c 147 (397)
T KOG2775|consen 75 RELERTESDIYQDLRRAAEAHRQVRKYVQSIIKPGMTMIEICETIE-------NTTRKLILENGLNAGIGFPTGCSLNHC 147 (397)
T ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhccCcccHHHHHHHHH-------HHHHHHHHhccccccccCCCcccccch
Confidence 33455778889999999999999999998863 345555553 456666653221 11257777
Q ss_pred hhcCC
Q 006751 196 FEVSE 200 (632)
Q Consensus 196 FEHME 200 (632)
-+|-.
T Consensus 148 AAHyT 152 (397)
T KOG2775|consen 148 AAHYT 152 (397)
T ss_pred hhhcC
Confidence 77764
No 121
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=26.49 E-value=1.1e+02 Score=30.53 Aligned_cols=25 Identities=20% Similarity=0.266 Sum_probs=22.4
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHHh
Q 006751 160 LEALSQQLVAMGFSSERATLALMLN 184 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALiat 184 (632)
.+++++.|+++||....+.+||-.-
T Consensus 142 ~~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 142 KSEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 4789999999999999999999653
No 122
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=26.27 E-value=83 Score=33.48 Aligned_cols=49 Identities=24% Similarity=0.270 Sum_probs=41.2
Q ss_pred HHHHHHHHhhhh-hHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHhh
Q 006751 148 HERCCGYLMSRK-LEALSQQLVAMGFSSERATLALMLNEGRVEESVNWLF 196 (632)
Q Consensus 148 hERC~~yLmsRK-lE~LVqQLvAMGFpe~RCkKALiatNgDVEAAMnWLF 196 (632)
+.||..+-+... .+++++-|..-|.+...++.++...+|....|+.|+-
T Consensus 161 rSRCq~i~~~~~~~~~~~~~L~~~~~~~~~a~~~~~l~~G~p~~A~~~~~ 210 (319)
T PRK08769 161 RSRCQRLEFKLPPAHEALAWLLAQGVSERAAQEALDAARGHPGLAAQWLR 210 (319)
T ss_pred HhhheEeeCCCcCHHHHHHHHHHcCCChHHHHHHHHHcCCCHHHHHHHhc
Confidence 788887766654 5688888988999999999998888999999999973
No 123
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.11 E-value=70 Score=38.76 Aligned_cols=23 Identities=22% Similarity=0.228 Sum_probs=15.2
Q ss_pred CCCCCCCCCCCCccccccCCCCc
Q 006751 24 IKPSGSANAGNGVPASAYNPISG 46 (632)
Q Consensus 24 ~K~s~s~n~~sg~~asaynpl~g 46 (632)
+-..|++-..++||.+..|+|.-
T Consensus 132 s~v~~~Pv~vatvpS~~~~sl~n 154 (1118)
T KOG1029|consen 132 SPVVGPPVSVATVPSSRHNSLPN 154 (1118)
T ss_pred CccCCCCcccccCCCCCCCCCCC
Confidence 33445666777788888887753
No 124
>cd02434 Nodulin-21_like_3 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_3: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=25.61 E-value=1.4e+02 Score=30.32 Aligned_cols=23 Identities=22% Similarity=0.226 Sum_probs=18.4
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHH
Q 006751 161 EALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 161 E~LVqQLvAMGFpe~RCkKALia 183 (632)
+++.+.+..-||+.+.+++....
T Consensus 84 ~el~~iy~~kG~~~~~a~~v~~~ 106 (225)
T cd02434 84 SEMVEIYSLKGLSEEVADQVVEL 106 (225)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHH
Confidence 45666778889999999987766
No 125
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=25.60 E-value=1.9e+02 Score=32.30 Aligned_cols=106 Identities=19% Similarity=0.159 Sum_probs=58.9
Q ss_pred CCChhHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHHHHHhhh
Q 006751 119 GSDNDRREKIRLKNEKKHQRQREKRAQELHERCCGYLMSRKLEALSQQLVAMGFSSERATLALMLN-EGRVEESVNWLFE 197 (632)
Q Consensus 119 g~dndkreKiR~KNEkKHqRqkErraqElhERC~~yLmsRKlE~LVqQLvAMGFpe~RCkKALiat-NgDVEAAMnWLFE 197 (632)
-.|-+.-..++++||.|--+--|+++ .+...|-++=-.+.--+||.+-+ =+|-|.|+.|+-.
T Consensus 67 ~~D~~~l~~m~~~neeki~eld~~ie-----------------daeenlGE~ev~ea~~~kaeYycqigDkena~~~~~~ 129 (393)
T KOG0687|consen 67 KLDQDLLNSMKKANEEKIKELDEKIE-----------------DAEENLGESEVREAMLRKAEYYCQIGDKENALEALRK 129 (393)
T ss_pred eccHHHHHHHHHhhHHHHHHHHHHHH-----------------HHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 35777778888888876543333322 22222222222233346777776 8999999999988
Q ss_pred cCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHHH------HHHHHHHccCCHHH
Q 006751 198 VSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSKQE------VERAVVASEGDLDK 254 (632)
Q Consensus 198 HMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~q------AeKALkeTdGDVER 254 (632)
-+++. + + -+.++||---+.+|.=.. .+... +-+-|.+-+||.||
T Consensus 130 t~~kt-------v-s-~g~kiDVvf~~iRlglfy----~D~~lV~~~iekak~liE~GgDWeR 179 (393)
T KOG0687|consen 130 TYEKT-------V-S-LGHKIDVVFYKIRLGLFY----LDHDLVTESIEKAKSLIEEGGDWER 179 (393)
T ss_pred HHHHH-------h-h-cccchhhHHHHHHHHHhh----ccHHHHHHHHHHHHHHHHhCCChhh
Confidence 88751 1 1 123666643333331111 12222 22347778888887
No 126
>KOG1796 consensus Vacuolar protein sorting-associated protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.26 E-value=25 Score=40.42 Aligned_cols=35 Identities=31% Similarity=0.674 Sum_probs=32.0
Q ss_pred HHHhcCCCHHHHHHHHHHhCCCHHHHHHHhhhcCC
Q 006751 166 QLVAMGFSSERATLALMLNEGRVEESVNWLFEVSE 200 (632)
Q Consensus 166 QLvAMGFpe~RCkKALiatNgDVEAAMnWLFEHME 200 (632)
-|+.-||....|++||++.++.+-.+..|||...|
T Consensus 382 ~~Q~w~f~~d~c~~~l~~~~~q~k~~~s~lfd~aE 416 (609)
T KOG1796|consen 382 RLQEWGFSMDDCRKALLACQGQLKKAASWLFDNAE 416 (609)
T ss_pred ccccccccccchhHHHHhhhhhhccchhhhhcchh
Confidence 57788999999999999999999999999998865
No 127
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=24.90 E-value=76 Score=34.71 Aligned_cols=24 Identities=21% Similarity=0.462 Sum_probs=12.1
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHH
Q 006751 124 RREKIRLKNEKKHQRQREKRAQEL 147 (632)
Q Consensus 124 kreKiR~KNEkKHqRqkErraqEl 147 (632)
+|++-|+.-|||.+|.-+|+.||.
T Consensus 111 e~v~Kr~~~er~~~re~~r~~~e~ 134 (378)
T KOG1996|consen 111 EKVVKRQRDERKQRRETAREVAEI 134 (378)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHH
Confidence 455555555565554444433333
No 128
>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=24.07 E-value=1.1e+02 Score=31.24 Aligned_cols=104 Identities=16% Similarity=0.132 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHhhh---hhHHHHHHHHhcCCCHHHHHHHHHH------hCCCHHHHHHHhhhcCCcc-cCCCCCcccCC
Q 006751 144 AQELHERCCGYLMSR---KLEALSQQLVAMGFSSERATLALML------NEGRVEESVNWLFEVSEEE-ARNTDPKLESS 213 (632)
Q Consensus 144 aqElhERC~~yLmsR---KlE~LVqQLvAMGFpe~RCkKALia------tNgDVEAAMnWLFEHMEDp-DiD~P~~l~s~ 213 (632)
...+-.|+...|..+ .++.-+.-|.+.|.+...--+-|+. ...+++..+++|-+-+-|+ ++..-+....
T Consensus 86 ~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~~~~~~~v~~l~~lG~~~~~~~~vi~~~P- 164 (345)
T PF02536_consen 86 IVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSSEKIKERVEFLKELGFDPEKIGRVIAKNP- 164 (345)
T ss_dssp HHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS-HHHHCHHHHHCCCTSSHHHHCCCHHHHH-
T ss_pred HHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccchhHHHHHHHHHHHhCCCchhhcccccccc-
Confidence 344456666666553 4567888999999998733222222 1358889999987765443 3332111000
Q ss_pred CCCCCCchHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 006751 214 GSLKIDISEELARISEIELRYKCSKQEVERAVVAS 248 (632)
Q Consensus 214 ~~~~iDIseELa~L~eMevsyGFs~~qAeKALkeT 248 (632)
.-...+...++....+.+.++||+.+++.+.+..+
T Consensus 165 ~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~ 199 (345)
T PF02536_consen 165 RLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKC 199 (345)
T ss_dssp HHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHT
T ss_pred hhhccccHHHHHHHHHHHHhhcccchhhhHHhhcc
Confidence 00011111223333355566799999999999874
No 129
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=24.06 E-value=1.3e+02 Score=29.93 Aligned_cols=21 Identities=5% Similarity=0.173 Sum_probs=16.9
Q ss_pred HHHHhcCCCHHHHHHHHHHcc
Q 006751 229 EIELRYKCSKQEVERAVVASE 249 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeTd 249 (632)
+-++.+||++.+|++||.+..
T Consensus 147 ~AL~~LGy~~~ea~~a~~~~~ 167 (183)
T PRK14601 147 AALLTLGFKQEKIIKVLASCQ 167 (183)
T ss_pred HHHHHcCCCHHHHHHHHHhcc
Confidence 444566999999999999874
No 130
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=23.57 E-value=3.2e+02 Score=31.06 Aligned_cols=40 Identities=28% Similarity=0.410 Sum_probs=19.2
Q ss_pred HHHHHHHhcCCCHH-HHHHHHHH---hCCCHHHHHHHhhhcCCcc
Q 006751 162 ALSQQLVAMGFSSE-RATLALML---NEGRVEESVNWLFEVSEEE 202 (632)
Q Consensus 162 ~LVqQLvAMGFpe~-RCkKALia---tNgDVEAAMnWLFEHMEDp 202 (632)
.+...++..||..+ ..-.+|+. ..|++|+|.. ||+.|.++
T Consensus 346 ~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~-vf~~m~~~ 389 (697)
T PLN03081 346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARN-VFDRMPRK 389 (697)
T ss_pred HHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHH-HHHhCCCC
Confidence 45555566665433 22333333 1556655553 35555443
No 131
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.50 E-value=1.5e+02 Score=29.82 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=22.2
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALia 183 (632)
..++++..|+++||....+.+||-.
T Consensus 154 ~~~ea~~AL~~LGy~~~ea~~av~~ 178 (203)
T PRK14602 154 VFRDALAGLANLGYGEEEARPVLKE 178 (203)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3578899999999999999999965
No 132
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.34 E-value=1.4e+02 Score=29.86 Aligned_cols=20 Identities=15% Similarity=0.047 Sum_probs=16.7
Q ss_pred HHHHhcCCCHHHHHHHHHHc
Q 006751 229 EIELRYKCSKQEVERAVVAS 248 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeT 248 (632)
+-++.+||++++|++||.+.
T Consensus 157 ~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 157 LALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 44456699999999999986
No 133
>PF14772 NYD-SP28: Sperm tail
Probab=23.31 E-value=3.1e+02 Score=24.30 Aligned_cols=14 Identities=36% Similarity=0.541 Sum_probs=8.7
Q ss_pred hhHHHHHHhhhhhH
Q 006751 122 NDRREKIRLKNEKK 135 (632)
Q Consensus 122 ndkreKiR~KNEkK 135 (632)
+|.||..|.+-|..
T Consensus 4 ad~~E~~RR~~e~~ 17 (104)
T PF14772_consen 4 ADAREEERRREEEE 17 (104)
T ss_pred hHHHHHHHHHHHHH
Confidence 57777777654443
No 134
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=22.93 E-value=1.3e+02 Score=32.94 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=24.9
Q ss_pred hcCCCHHHHHHHHHHccCCHHHHHHHHh
Q 006751 233 RYKCSKQEVERAVVASEGDLDKAEDTIK 260 (632)
Q Consensus 233 syGFs~~qAeKALkeTdGDVERAVEWLF 260 (632)
.+|++.+.++.++..++|++.+|++|+.
T Consensus 188 ~~~~~~~~a~~la~~s~G~~~~A~~l~~ 215 (394)
T PRK07940 188 RDGVDPETARRAARASQGHIGRARRLAT 215 (394)
T ss_pred hcCCCHHHHHHHHHHcCCCHHHHHHHhc
Confidence 4589999999999999999999988863
No 135
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=22.73 E-value=4.2e+02 Score=31.08 Aligned_cols=18 Identities=33% Similarity=0.322 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhhhhhHH
Q 006751 145 QELHERCCGYLMSRKLEA 162 (632)
Q Consensus 145 qElhERC~~yLmsRKlE~ 162 (632)
+||-+-|..-|-+-|-+.
T Consensus 546 KELGRMCqlHlkSeKpQT 563 (632)
T KOG3910|consen 546 KELGRMCQLHLKSEKPQT 563 (632)
T ss_pred HHHHHHHHHhhcccCcch
Confidence 456666777666665553
No 136
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=22.12 E-value=1.1e+02 Score=27.30 Aligned_cols=40 Identities=25% Similarity=0.282 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCCCHHHHHHHH
Q 006751 139 QREKRAQELHERCCGYLMSRKLEALSQQLVAMGFSSERATLAL 181 (632)
Q Consensus 139 qkErraqElhERC~~yLmsRKlE~LVqQLvAMGFpe~RCkKAL 181 (632)
.++||+.-....+++|.=+. .++..|-.|||+.+..++||
T Consensus 47 s~~rR~~l~~~L~iGy~N~K---qllkrLN~f~it~~e~~~al 86 (87)
T PF13331_consen 47 SKERREKLGEYLGIGYGNAK---QLLKRLNMFGITREEFEEAL 86 (87)
T ss_pred HHHHHHHHHHHHCCCCCCHH---HHHHHHHHcCCCHHHHHHHh
Confidence 35788888888889888664 57889999999999999987
No 137
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=22.00 E-value=2.6e+02 Score=26.92 Aligned_cols=23 Identities=26% Similarity=0.378 Sum_probs=19.6
Q ss_pred HhhhhhHHHHHHHHhcCCCHHHH
Q 006751 155 LMSRKLEALSQQLVAMGFSSERA 177 (632)
Q Consensus 155 LmsRKlE~LVqQLvAMGFpe~RC 177 (632)
...++++.+.++|...||..+..
T Consensus 53 er~~kl~~~r~~m~~~Gis~~eL 75 (135)
T PRK10947 53 ERTRKLQQYREMLIADGIDPNEL 75 (135)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHH
Confidence 34569999999999999998876
No 138
>cd02891 A2M_like Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. This group contains another broadly specific proteinase inhibitor: pregnancy zone protein (PZP). PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. This group also contains C3, C4 and C5 of vertebrate complement. The vertebrate complement is an effector of both the acquired and innate immune systems The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propaga
Probab=21.94 E-value=2.4e+02 Score=27.70 Aligned_cols=15 Identities=13% Similarity=0.284 Sum_probs=13.0
Q ss_pred CHHHHHHHhhhcCCc
Q 006751 187 RVEESVNWLFEVSEE 201 (632)
Q Consensus 187 DVEAAMnWLFEHMED 201 (632)
.++.|++||.+++++
T Consensus 159 ~~~~a~~~L~~~~~~ 173 (282)
T cd02891 159 SIEKALAYLETQLDG 173 (282)
T ss_pred HHHHHHHHHHHhccc
Confidence 689999999999864
No 139
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=21.87 E-value=53 Score=29.26 Aligned_cols=15 Identities=13% Similarity=0.386 Sum_probs=13.4
Q ss_pred CHHHHHHHhhhcCCc
Q 006751 187 RVEESVNWLFEVSEE 201 (632)
Q Consensus 187 DVEAAMnWLFEHMED 201 (632)
-++.||+||-+||++
T Consensus 60 tld~Ai~Wi~e~M~~ 74 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPH 74 (79)
T ss_pred cHHHHHHHHHhcccc
Confidence 579999999999985
No 140
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=21.64 E-value=1.7e+02 Score=29.10 Aligned_cols=23 Identities=17% Similarity=0.098 Sum_probs=18.5
Q ss_pred HHHHHHhcCCCHHHHHHHHHHcc
Q 006751 227 ISEIELRYKCSKQEVERAVVASE 249 (632)
Q Consensus 227 L~eMevsyGFs~~qAeKALkeTd 249 (632)
+.+.+..+||+..+|++|+.+..
T Consensus 151 ~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 151 ILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHcCCCHHHHHHHHHHhh
Confidence 33555677999999999999884
No 141
>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain. These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....
Probab=21.33 E-value=1e+02 Score=24.92 Aligned_cols=75 Identities=17% Similarity=0.190 Sum_probs=43.4
Q ss_pred hhhhHHHHHHHHhcCCCHHHHHHHHHHh--CCCHHHHHHHhhhcCCcccCCCCCcccCCCCCCCCchHH---HHHHHHHH
Q 006751 157 SRKLEALSQQLVAMGFSSERATLALMLN--EGRVEESVNWLFEVSEEEARNTDPKLESSGSLKIDISEE---LARISEIE 231 (632)
Q Consensus 157 sRKlE~LVqQLvAMGFpe~RCkKALiat--NgDVEAAMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseE---La~L~eMe 231 (632)
.+..-++++.|+..|..-..-..||+.. +++ .+.+.||+++.-|..... ..+......... ++.+ +++
T Consensus 6 ~~~~~~~~~~ll~~~~~~~~~~~~l~~A~~~~~-~~~~~~Ll~~g~~~~~~~-----~~g~t~L~~A~~~~~~~~~-~~L 78 (89)
T PF12796_consen 6 QNGNLEILKFLLEKGADINLGNTALHYAAENGN-LEIVKLLLENGADINSQD-----KNGNTALHYAAENGNLEIV-KLL 78 (89)
T ss_dssp HTTTHHHHHHHHHTTSTTTSSSBHHHHHHHTTT-HHHHHHHHHTTTCTT-BS-----TTSSBHHHHHHHTTHHHHH-HHH
T ss_pred HcCCHHHHHHHHHCcCCCCCCCCHHHHHHHcCC-HHHHHHHHHhcccccccC-----CCCCCHHHHHHHcCCHHHH-HHH
Confidence 4566777888888887666433466652 666 589999999987654321 111112222111 4434 777
Q ss_pred HhcCCCH
Q 006751 232 LRYKCSK 238 (632)
Q Consensus 232 vsyGFs~ 238 (632)
+.+|+..
T Consensus 79 l~~g~~~ 85 (89)
T PF12796_consen 79 LEHGADV 85 (89)
T ss_dssp HHTTT-T
T ss_pred HHcCCCC
Confidence 7888764
No 142
>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain. These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....
Probab=21.32 E-value=1.1e+02 Score=24.63 Aligned_cols=20 Identities=10% Similarity=0.046 Sum_probs=8.5
Q ss_pred hhhhHHHHHHHHhcCCCHHH
Q 006751 157 SRKLEALSQQLVAMGFSSER 176 (632)
Q Consensus 157 sRKlE~LVqQLvAMGFpe~R 176 (632)
.....++++.|+..|+.-+.
T Consensus 35 ~~~~~~~~~~Ll~~g~~~~~ 54 (89)
T PF12796_consen 35 ENGNLEIVKLLLENGADINS 54 (89)
T ss_dssp HTTTHHHHHHHHHTTTCTT-
T ss_pred HcCCHHHHHHHHHhcccccc
Confidence 33344444444444444433
No 143
>PRK14136 recX recombination regulator RecX; Provisional
Probab=21.15 E-value=5.9e+02 Score=27.88 Aligned_cols=103 Identities=19% Similarity=0.212 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhhH--HHHHHHHhcCCCHHHHHHHHHH----h-CCCHHHHHHHhhhcCCcccCC
Q 006751 133 EKKHQRQREKRAQELHERCCGYLMSRKLE--ALSQQLVAMGFSSERATLALML----N-EGRVEESVNWLFEVSEEEARN 205 (632)
Q Consensus 133 EkKHqRqkErraqElhERC~~yLmsRKlE--~LVqQLvAMGFpe~RCkKALia----t-NgDVEAAMnWLFEHMEDpDiD 205 (632)
|+|-+++..+ |.+++..||-.|.=- +|.+.|...||++..+..+|-. + =+|..=|=.|+-....
T Consensus 154 ~~~~~~~~~~----lk~kAL~lLSrReRSe~ELr~KL~kkG~~ee~IE~VIerLke~gYLDDeRFAesyVr~R~~----- 224 (309)
T PRK14136 154 SRASSRPARS----LKGRALGYLSRREYSRAELARKLAPYADESDSVEPLLDALEREGWLSDARFAESLVHRRAS----- 224 (309)
T ss_pred cccccccHHH----HHHHHHHHhhcccccHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhh-----
Q ss_pred CCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHHHHHHHHHHcc-CCHHHHHHHH
Q 006751 206 TDPKLESSGSLKIDISEELARISEIELRYKCSKQEVERAVVASE-GDLDKAEDTI 259 (632)
Q Consensus 206 ~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~qAeKALkeTd-GDVERAVEWL 259 (632)
..+. ..|...|..-|++.+.++.||.+.+ -.++.|.+.|
T Consensus 225 ------kkGp---------~rIrqELrQKGId~eLIEqALeeieEDE~E~A~~L~ 264 (309)
T PRK14136 225 ------RVGS---------ARIVSELKRHAVGDALVESVGAQLRETEFERAQAVW 264 (309)
T ss_pred ------chhH---------HHHHHHHHHcCCCHHHHHHHHHhccHhHHHHHHHHH
No 144
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=21.09 E-value=1.3e+02 Score=32.22 Aligned_cols=40 Identities=28% Similarity=0.360 Sum_probs=24.6
Q ss_pred CCCCCCCChhHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 006751 114 QDPIPGSDNDRREKIRLKNEKKHQRQREKRAQELHERCCGYLMSR 158 (632)
Q Consensus 114 ~~~ipg~dndkreKiR~KNEkKHqRqkErraqElhERC~~yLmsR 158 (632)
+..+|=.|.|--..+|.|-||||+|-||. -.+|-.-+|.|
T Consensus 189 ~~~~pispid~e~qe~~kleRkrlrnrea-----a~Kcr~rkLdr 228 (279)
T KOG0837|consen 189 ELKEPISPIDMEDQEKIKLERKRLRNREA-----ASKCRKRKLDR 228 (279)
T ss_pred ccCCCCCcccchhHHHHHHHHHHhhhHHH-----HHHHHHHHHHH
Confidence 33344444555555666779999998876 35776544433
No 145
>PF05698 Trigger_C: Bacterial trigger factor protein (TF) C-terminus; InterPro: IPR008880 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This entry represents the C-terminal domain of bacterial trigger factor proteins, which has a multi-helical structure consisting of an irregular array of long and short helices. This domain is structurally similar to the peptide-binding domain of the bacterial porin chaperone SurA.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 1T11_A 3GU0_A 3GTY_X 2NSA_A 1ZXJ_A 1W26_A.
Probab=21.07 E-value=6.1e+02 Score=22.80 Aligned_cols=35 Identities=17% Similarity=0.216 Sum_probs=21.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHccC--------CHHHHHHHHh
Q 006751 226 RISEIELRYKCSKQEVERAVVASEG--------DLDKAEDTIK 260 (632)
Q Consensus 226 ~L~eMevsyGFs~~qAeKALkeTdG--------DVERAVEWLF 260 (632)
.+..+...||.+.++.++.+...+. =-++|+|||.
T Consensus 119 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Kv~~~l~ 161 (162)
T PF05698_consen 119 EIEKLAQQYGMNPEELKEQYEKNKQLEQLRDDLLEDKVIDFLL 161 (162)
T ss_dssp HHHHHHHCSTS-HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHcCCCHHHHHHHHHhChhHHHHHHHHHHHHHHHHHh
Confidence 3444555789999998888854332 1245666764
No 146
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=21.05 E-value=98 Score=31.32 Aligned_cols=25 Identities=32% Similarity=0.482 Sum_probs=22.0
Q ss_pred hhHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 159 KLEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 159 KlE~LVqQLvAMGFpe~RCkKALia 183 (632)
..+++++.|+++||....+.+|+-.
T Consensus 143 ~~~ea~~AL~~LGy~~~ea~~al~~ 167 (196)
T PRK13901 143 KFKELEQSIVNMGFDRKLVNSAIKE 167 (196)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3578999999999999999999953
No 147
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=20.97 E-value=43 Score=37.14 Aligned_cols=22 Identities=32% Similarity=0.549 Sum_probs=17.4
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHH
Q 006751 128 IRLKNEKKHQRQREKRAQELHER 150 (632)
Q Consensus 128 iR~KNEkKHqRqkErraqElhER 150 (632)
+-.|||||| |+|||.+.|+..|
T Consensus 82 l~rk~erk~-rekerke~e~~nr 103 (480)
T COG5175 82 LARKEERKM-REKERKEAEGQNR 103 (480)
T ss_pred HHhhhhhhc-cHHHHhhhhcccc
Confidence 556889998 7899988888544
No 148
>PF00610 DEP: Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP); InterPro: IPR000591 This entry represents the DEP (Dishevelled, Egl-10 and Pleckstrin) domain, a globular domain of about 80 residues that is found in over 50 proteins involved in G-protein signalling pathways. It was named after the three proteins it was initially found in: Dishevelled (Dsh and Dvl), which play a key role in the transduction of the Wg/Wnt signal from the cell surface to the nucleus; it is a segment polarity protein required to establish coherent arrays of polarized cells and segments in embryos, and plays a role in wingless signalling. Egl-10, which regulates G-protein signalling in the central nervous system. Pleckstrin, the major substrate of protein kinase C in platelets; Pleckstrin contains two PH domains flanking the DEP domain. Mammalian regulators of G-protein signalling also contain these domains, and regulate signal transduction by increasing the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form. It has been proposed that the DEP domain could play a selective role in targeting DEP domain-containing proteins to specific subcellular membranous sites, perhaps even to specific G protein-coupled signaling pathways [, ]. Nuclear magnetic resonance spectroscopy has revealed that the DEP domain comprises a three-helix bundle, a beta-hairpin 'arm' composed of two beta-strands and two short beta-strands in the C-terminal region [].; GO: 0035556 intracellular signal transduction; PDB: 1UHW_A 1V3F_A 2YSR_A 2CSO_A 1W4M_A 2PBI_C 1O7F_A 2BYV_E 1FSH_A 3ML6_D ....
Probab=20.95 E-value=1.4e+02 Score=24.29 Aligned_cols=12 Identities=42% Similarity=0.877 Sum_probs=10.0
Q ss_pred HHHHHHhhhcCC
Q 006751 189 EESVNWLFEVSE 200 (632)
Q Consensus 189 EAAMnWLFEHME 200 (632)
.++|+||.++++
T Consensus 21 ~e~v~WL~~~~~ 32 (74)
T PF00610_consen 21 SEAVDWLMDNFE 32 (74)
T ss_dssp HHHHHHHHHTSC
T ss_pred HHHHHHHHHhcc
Confidence 689999997765
No 149
>PRK14700 recombination factor protein RarA; Provisional
Probab=20.80 E-value=65 Score=34.63 Aligned_cols=32 Identities=9% Similarity=0.121 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHh--CCCHHHHHHHh---hhcCCcccC
Q 006751 173 SSERATLALMLN--EGRVEESVNWL---FEVSEEEAR 204 (632)
Q Consensus 173 pe~RCkKALiat--NgDVEAAMnWL---FEHMEDpDi 204 (632)
.+.-..-|+|+. ++|.+|||=|| ++.+|||..
T Consensus 125 ~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~ 161 (300)
T PRK14700 125 EFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLV 161 (300)
T ss_pred hhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHH
Confidence 356677899996 99999999998 788888743
No 150
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.75 E-value=1.6e+02 Score=29.27 Aligned_cols=21 Identities=14% Similarity=0.086 Sum_probs=17.1
Q ss_pred HHHHhcCCCHHHHHHHHHHcc
Q 006751 229 EIELRYKCSKQEVERAVVASE 249 (632)
Q Consensus 229 eMevsyGFs~~qAeKALkeTd 249 (632)
+-++.+||++.+|++||.+..
T Consensus 148 ~AL~~LGy~~~ea~~av~~~~ 168 (188)
T PRK14606 148 EALVSLGYPEKQAREAVKHVY 168 (188)
T ss_pred HHHHHcCCCHHHHHHHHHHHh
Confidence 444566999999999999873
No 151
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=20.74 E-value=1.9e+02 Score=25.22 Aligned_cols=34 Identities=21% Similarity=0.092 Sum_probs=22.4
Q ss_pred hhhhhHHHHHHHHhcCCCHHHHHHHHHHhCCCHH
Q 006751 156 MSRKLEALSQQLVAMGFSSERATLALMLNEGRVE 189 (632)
Q Consensus 156 msRKlE~LVqQLvAMGFpe~RCkKALiatNgDVE 189 (632)
-.+.++.++..|..+||+...+.|..-..+.++-
T Consensus 4 ~~~~~~~~~~~L~~~gl~~~~a~kl~~~yg~~ai 37 (94)
T PF14490_consen 4 ENRGLRELMAFLQEYGLSPKLAMKLYKKYGDDAI 37 (94)
T ss_dssp -----HHHHHHHHHTT--HHHHHHHHHHH-TTHH
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHhHHHH
Confidence 3566788999999999999999998877776543
No 152
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=20.68 E-value=1.7e+02 Score=30.74 Aligned_cols=31 Identities=26% Similarity=0.238 Sum_probs=27.0
Q ss_pred cCCCHHHHHHHHHHccCCHHHHHHHHhhcCC
Q 006751 234 YKCSKQEVERAVVASEGDLDKAEDTIKVQKQ 264 (632)
Q Consensus 234 yGFs~~qAeKALkeTdGDVERAVEWLFSHpD 264 (632)
.|++.++|+++|.+++|+|-.|+--+..+-+
T Consensus 246 ~~~~~~~a~~~l~~~~~~vk~a~~~~~~~~~ 276 (299)
T PRK05441 246 TGVSREEAEAALEAADGSVKLAIVMILTGLD 276 (299)
T ss_pred HCcCHHHHHHHHHHhCCCcHHHHHHHHhCCC
Confidence 4999999999999999999999987766543
No 153
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=20.66 E-value=1.3e+02 Score=29.16 Aligned_cols=50 Identities=14% Similarity=0.082 Sum_probs=29.6
Q ss_pred HHHHhhhcCCcccCCCCCcccCCCCCCCCchHHHHHHHHHHHhcCCCHHHHHHHHHHccCCHHHHHHHHhhcCCC
Q 006751 191 SVNWLFEVSEEEARNTDPKLESSGSLKIDISEELARISEIELRYKCSKQEVERAVVASEGDLDKAEDTIKVQKQE 265 (632)
Q Consensus 191 AMnWLFEHMEDpDiD~P~~l~s~~~~~iDIseELa~L~eMevsyGFs~~qAeKALkeTdGDVERAVEWLFSHpDD 265 (632)
-+-|||||--|.+.+.. + +-..|.+.+..-||...++ .+|++||-+-..-
T Consensus 4 VL~yLfE~y~~~~~~~~------------~--d~~~L~~~L~~aGF~~~eI-----------~~Al~WL~~L~~~ 53 (155)
T PF04361_consen 4 VLMYLFENYIDFESDAC------------P--DQDDLTRELSAAGFEDEEI-----------NKALDWLEGLAEL 53 (155)
T ss_pred HHHHHHHHHcCCccccC------------C--CHHHHHHHHHHcCCCHHHH-----------HHHHHHHHHHHhc
Confidence 36799999766533321 1 1234444555559988765 5566788755443
No 154
>KOG3390 consensus General control of amino-acid synthesis 5-like 1 [Transcription]
Probab=20.66 E-value=2.6e+02 Score=26.62 Aligned_cols=42 Identities=36% Similarity=0.520 Sum_probs=0.0
Q ss_pred hhHHH-HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCCCHHHHHHHHHHh-CCCHHHH
Q 006751 133 EKKHQ-RQREKRAQELHERCCGYLMSRKLEALSQQLVAMGFSSERATLALMLN-EGRVEES 191 (632)
Q Consensus 133 EkKHq-RqkErraqElhERC~~yLmsRKlE~LVqQLvAMGFpe~RCkKALiat-NgDVEAA 191 (632)
+|.|+ .|-||| ||.|.- +.|+|... .+-.-||..+ |+.|++|
T Consensus 6 lKEhs~kq~eRr--elqEK~-------r~EAI~aA--------~~l~~alVdhlN~gVaqa 49 (120)
T KOG3390|consen 6 LKEHSEKQSERR--ELQEKT-------RKEAIRAA--------ARLADALVDHLNGGVAQA 49 (120)
T ss_pred HHHHHHHHHHHH--HHHHHH-------HHHHHHHH--------HHHHHHHHHHHhhhHHHH
No 155
>PLN03196 MOC1-like protein; Provisional
Probab=20.44 E-value=3.2e+02 Score=30.83 Aligned_cols=49 Identities=14% Similarity=0.066 Sum_probs=27.5
Q ss_pred HHHHHHhhh---hhHHHHHHHHhcCCCHHHHHHHHHHh----CCCHH----HHHHHhhhc
Q 006751 150 RCCGYLMSR---KLEALSQQLVAMGFSSERATLALMLN----EGRVE----ESVNWLFEV 198 (632)
Q Consensus 150 RC~~yLmsR---KlE~LVqQLvAMGFpe~RCkKALiat----NgDVE----AAMnWLFEH 198 (632)
+|-..|... .+.-.++-|.++||+...-.+++..+ ..++| ..+++|-..
T Consensus 111 ~~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~l 170 (487)
T PLN03196 111 EYPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGL 170 (487)
T ss_pred cCcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHc
Confidence 455555543 33345677777777777666666553 34443 456666443
No 156
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=20.28 E-value=1.4e+02 Score=24.27 Aligned_cols=27 Identities=11% Similarity=0.067 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 006751 222 EELARISEIELRYKCSKQEVERAVVAS 248 (632)
Q Consensus 222 eELa~L~eMevsyGFs~~qAeKALkeT 248 (632)
-|+..|.++...|||+.+.+..|+..|
T Consensus 16 ~e~~~i~~~~~~~~~~~evI~~ai~~a 42 (73)
T TIGR01446 16 FEMEDLKYWLDEFGNSPELIKEALKEA 42 (73)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 468888899999999999999999876
No 157
>PF07882 Fucose_iso_N2: L-fucose isomerase, second N-terminal domain; InterPro: IPR012889 Proteins containing this domain are similar to L-fucose isomerase expressed by Escherichia coli (P11552 from SWISSPROT, 5.3.1.3 from EC). This enzyme corresponds to glucose-6-phosphate isomerase in glycolysis, and converts an aldo-hexose to a ketose to prepare it for aldol cleavage. The enzyme is a hexamer, with each subunit being wedge-shaped and composed of three domains. Both domains 1 and 2 contain central parallel beta- sheets with surrounding alpha helices. The active centre is shared between pairs of subunits related along the molecular three-fold axis, with domains 2 and 3 from one subunit providing most of the substrate-contacting residues []. ; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 3A9R_A 3A9T_C 3A9S_C 1FUI_E.
Probab=20.14 E-value=53 Score=33.19 Aligned_cols=61 Identities=28% Similarity=0.380 Sum_probs=36.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhcCCCHH-----------HHHHHHHHh--CCCHHHH
Q 006751 131 KNEKKHQRQREKRAQELHERCCGYLMSRKLEALSQQLVAMGFSSE-----------RATLALMLN--EGRVEES 191 (632)
Q Consensus 131 KNEkKHqRqkErraqElhERC~~yLmsRKlE~LVqQLvAMGFpe~-----------RCkKALiat--NgDVEAA 191 (632)
||-.+.+|++|.+.+.+..-..-||.-|.+=.==-.|..|||.++ +|++-+..+ |+|+-+|
T Consensus 70 ~npe~~~~~~~~~~~~w~~~vkm~li~rDlm~gn~~l~~~g~~eea~g~naia~GfQgQr~wTd~~pngDf~EA 143 (181)
T PF07882_consen 70 KNPEKLQRSREQKDEQWEFVVKMYLIIRDLMVGNPKLAELGFEEEALGHNAIAAGFQGQRQWTDHYPNGDFAEA 143 (181)
T ss_dssp TSTGGGS-TCCHHHHHHHHHHHHHHHHHHHHH--CHHHHTT-HHHHC---EEEEEE--TTTTTTTS--SHHHHH
T ss_pred CCchHhhcCHHHHHHHHHHHHHHHHHHHHHHhcChhhhhcCcchhhccccceeeeccCcccccccCCCcchHHH
Confidence 343455677777677777777778888876555557999999984 455555443 6666554
No 158
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=20.07 E-value=1.9e+02 Score=28.88 Aligned_cols=24 Identities=29% Similarity=0.472 Sum_probs=21.9
Q ss_pred hHHHHHHHHhcCCCHHHHHHHHHH
Q 006751 160 LEALSQQLVAMGFSSERATLALML 183 (632)
Q Consensus 160 lE~LVqQLvAMGFpe~RCkKALia 183 (632)
.++++.-|+++||....+++|+-.
T Consensus 149 ~~e~~~aL~~LGy~~~ea~~ai~~ 172 (195)
T PRK14604 149 DRELSEILISLGYSAAEAAAAIAA 172 (195)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 478999999999999999999965
No 159
>PF13249 Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B 1O6Q_B 1H35_C 1H3A_C 1SQC_A 1UMP_A 1O6H_C 1O79_B 1GSZ_C 1H37_C ....
Probab=20.02 E-value=1.2e+02 Score=25.49 Aligned_cols=25 Identities=32% Similarity=0.422 Sum_probs=16.5
Q ss_pred HHHHHHHHh--CCCHHHH--HHHhhhcCC
Q 006751 176 RATLALMLN--EGRVEES--VNWLFEVSE 200 (632)
Q Consensus 176 RCkKALiat--NgDVEAA--MnWLFEHME 200 (632)
.|..||... ..+.+++ ++||..+-.
T Consensus 28 ~al~aL~~~g~~~~~~~~~~~~~L~~~q~ 56 (113)
T PF13249_consen 28 FALLALAALGEEPDRDRAAAVEWLLSQQN 56 (113)
T ss_dssp HHHHHHHHHTSHHCHHHHHHHHHHHHHB-
T ss_pred HHHHHHHHhCCcccHHHHHHHHHHHHhCC
Confidence 455666663 3357777 999998765
Done!