Query 014748
Match_columns 419
No_of_seqs 262 out of 640
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 08:08:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014748.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014748hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2561 Adaptor protein NUB1, 100.0 5E-100 1E-104 765.8 28.4 398 1-407 160-567 (568)
2 TIGR00601 rad23 UV excision re 99.8 8E-20 1.7E-24 186.9 12.4 169 145-317 157-378 (378)
3 KOG0011 Nucleotide excision re 99.8 1.4E-19 3E-24 178.8 8.3 171 143-317 134-339 (340)
4 KOG2561 Adaptor protein NUB1, 99.7 4.2E-17 9.1E-22 166.2 13.9 299 102-407 156-552 (568)
5 KOG0944 Ubiquitin-specific pro 99.7 1.5E-17 3.2E-22 176.0 6.6 117 128-255 555-675 (763)
6 KOG0944 Ubiquitin-specific pro 99.6 3.5E-15 7.5E-20 158.3 8.2 101 215-317 570-676 (763)
7 COG5207 UBP14 Isopeptidase T [ 99.4 1.1E-13 2.5E-18 143.1 7.3 104 141-255 555-661 (749)
8 COG5207 UBP14 Isopeptidase T [ 99.2 2.7E-11 5.8E-16 125.8 6.2 101 215-317 557-662 (749)
9 PF00627 UBA: UBA/TS-N domain; 99.1 7.8E-11 1.7E-15 82.2 4.2 37 143-179 1-37 (37)
10 PF00627 UBA: UBA/TS-N domain; 98.9 1.5E-09 3.2E-14 75.8 4.7 36 276-311 2-37 (37)
11 cd00194 UBA Ubiquitin Associat 98.9 2.3E-09 4.9E-14 74.8 5.3 38 144-181 1-38 (38)
12 smart00165 UBA Ubiquitin assoc 98.9 2.1E-09 4.5E-14 74.6 4.8 37 144-180 1-37 (37)
13 cd00194 UBA Ubiquitin Associat 98.8 1.1E-08 2.4E-13 71.3 5.3 37 277-313 2-38 (38)
14 smart00165 UBA Ubiquitin assoc 98.8 1.2E-08 2.6E-13 70.8 5.1 36 277-312 2-37 (37)
15 TIGR00601 rad23 UV excision re 97.6 5.3E-05 1.2E-09 78.4 4.9 43 275-317 155-197 (378)
16 KOG0011 Nucleotide excision re 97.3 0.0006 1.3E-08 68.7 7.0 44 275-318 134-177 (340)
17 PF13424 TPR_12: Tetratricopep 96.2 0.027 5.8E-07 44.0 7.8 75 3-84 4-78 (78)
18 PF02845 CUE: CUE domain; Int 95.1 0.044 9.6E-07 39.0 4.5 37 277-313 2-40 (42)
19 PF14555 UBA_4: UBA-like domai 94.9 0.054 1.2E-06 38.9 4.7 40 278-317 2-42 (43)
20 PF02845 CUE: CUE domain; Int 94.8 0.076 1.7E-06 37.8 5.0 38 145-182 2-41 (42)
21 smart00546 CUE Domain that may 94.5 0.099 2.1E-06 37.3 5.2 38 277-314 3-42 (43)
22 TIGR02552 LcrH_SycD type III s 94.4 0.36 7.7E-06 41.0 9.4 97 6-138 19-115 (135)
23 PF09288 UBA_3: Fungal ubiquit 93.9 0.056 1.2E-06 41.3 2.8 27 275-301 8-34 (55)
24 cd00189 TPR Tetratricopeptide 93.8 0.55 1.2E-05 34.5 8.3 94 7-136 3-96 (100)
25 smart00546 CUE Domain that may 93.8 0.16 3.5E-06 36.2 5.0 39 144-182 2-42 (43)
26 KOG0418 Ubiquitin-protein liga 92.7 0.14 3E-06 48.2 4.1 40 275-314 161-200 (200)
27 PRK09377 tsf elongation factor 92.4 0.21 4.7E-06 50.2 5.3 40 143-182 4-44 (290)
28 TIGR00116 tsf translation elon 92.4 0.21 4.6E-06 50.3 5.3 41 143-183 3-44 (290)
29 PF14555 UBA_4: UBA-like domai 92.1 0.34 7.3E-06 34.7 4.7 39 146-184 2-41 (43)
30 PRK02603 photosystem I assembl 92.0 3.1 6.7E-05 37.6 12.1 66 4-80 35-100 (172)
31 PRK12332 tsf elongation factor 92.0 0.27 5.8E-06 46.9 5.3 40 143-182 3-43 (198)
32 PRK12332 tsf elongation factor 92.0 0.23 5.1E-06 47.3 4.9 37 215-251 3-40 (198)
33 TIGR02795 tol_pal_ybgF tol-pal 92.0 1.7 3.6E-05 35.4 9.5 104 6-139 4-107 (119)
34 PRK09377 tsf elongation factor 92.0 0.22 4.8E-06 50.1 4.8 37 215-251 4-41 (290)
35 KOG2689 Predicted ubiquitin re 91.9 0.21 4.5E-06 49.6 4.5 41 281-321 5-47 (290)
36 TIGR00116 tsf translation elon 91.7 0.24 5.3E-06 49.8 4.9 37 215-251 3-40 (290)
37 PRK06369 nac nascent polypepti 91.3 0.44 9.4E-06 41.8 5.3 41 141-181 73-114 (115)
38 KOG0418 Ubiquitin-protein liga 90.7 0.25 5.4E-06 46.6 3.5 39 143-181 161-199 (200)
39 TIGR02521 type_IV_pilW type IV 90.7 11 0.00024 33.3 14.2 23 115-137 142-164 (234)
40 CHL00098 tsf elongation factor 90.3 0.44 9.6E-06 45.5 4.9 36 147-182 4-40 (200)
41 KOG2689 Predicted ubiquitin re 90.3 0.27 5.9E-06 48.9 3.5 40 148-187 4-45 (290)
42 TIGR00990 3a0801s09 mitochondr 90.1 2.2 4.7E-05 46.5 10.7 95 7-137 334-428 (615)
43 TIGR00264 alpha-NAC-related pr 90.1 0.52 1.1E-05 41.3 4.7 39 142-180 76-115 (116)
44 CHL00098 tsf elongation factor 89.9 0.46 1E-05 45.4 4.7 34 218-251 3-37 (200)
45 PF09986 DUF2225: Uncharacteri 89.3 2.3 4.9E-05 40.9 9.0 76 47-134 116-191 (214)
46 PLN03088 SGT1, suppressor of 88.8 2.2 4.8E-05 43.7 9.1 98 5-138 3-100 (356)
47 KOG0010 Ubiquitin-like protein 87.5 0.79 1.7E-05 49.0 4.9 37 277-313 455-492 (493)
48 TIGR02917 PEP_TPR_lipo putativ 87.2 3.8 8.1E-05 44.4 10.1 27 6-32 58-84 (899)
49 PRK02603 photosystem I assembl 87.1 2.9 6.4E-05 37.7 7.9 77 5-92 73-153 (172)
50 PF09288 UBA_3: Fungal ubiquit 85.3 0.86 1.9E-05 34.9 2.8 28 142-169 7-34 (55)
51 TIGR02521 type_IV_pilW type IV 85.3 13 0.00029 32.9 11.1 96 5-136 32-127 (234)
52 PRK06369 nac nascent polypepti 84.7 1.9 4E-05 37.9 5.0 39 214-252 74-113 (115)
53 TIGR00264 alpha-NAC-related pr 84.3 1.8 3.9E-05 38.0 4.7 38 275-312 77-115 (116)
54 TIGR00990 3a0801s09 mitochondr 84.1 12 0.00025 40.9 12.0 62 6-81 367-428 (615)
55 PF12895 Apc3: Anaphase-promot 83.9 3.8 8.2E-05 32.4 6.2 83 17-134 2-84 (84)
56 CHL00033 ycf3 photosystem I as 83.6 12 0.00026 33.5 10.0 110 4-139 35-144 (168)
57 KOG0010 Ubiquitin-like protein 82.6 1.8 4E-05 46.3 4.9 35 146-180 456-491 (493)
58 COG0264 Tsf Translation elonga 82.5 1.9 4.2E-05 43.4 4.7 36 216-251 5-41 (296)
59 PF07499 RuvA_C: RuvA, C-termi 82.2 1.9 4.1E-05 31.5 3.5 24 145-168 4-27 (47)
60 KOG1840 Kinesin light chain [C 81.8 28 0.00061 37.9 13.6 148 7-182 202-351 (508)
61 KOG1840 Kinesin light chain [C 81.4 14 0.00031 40.1 11.2 90 2-97 239-328 (508)
62 PRK04841 transcriptional regul 81.4 27 0.00059 39.4 14.0 146 5-181 492-637 (903)
63 TIGR02917 PEP_TPR_lipo putativ 81.3 45 0.00096 36.2 15.2 27 110-136 467-493 (899)
64 PF11626 Rap1_C: TRF2-interact 80.9 2.3 4.9E-05 35.1 3.9 36 149-184 2-37 (87)
65 CHL00033 ycf3 photosystem I as 80.6 10 0.00023 33.8 8.5 79 4-93 72-154 (168)
66 PRK11447 cellulose synthase su 80.3 1.3E+02 0.0027 35.9 19.4 28 111-138 464-491 (1157)
67 PF11626 Rap1_C: TRF2-interact 78.9 2.5 5.5E-05 34.8 3.6 35 280-314 1-35 (87)
68 KOG3450 Huntingtin interacting 78.3 4.1 8.9E-05 35.3 4.7 48 134-181 70-118 (119)
69 PRK12370 invasion protein regu 77.6 18 0.00038 39.3 10.6 104 7-137 261-367 (553)
70 PF07499 RuvA_C: RuvA, C-termi 77.2 3.4 7.4E-05 30.1 3.5 25 276-300 3-27 (47)
71 COG1308 EGD2 Transcription fac 76.2 5.1 0.00011 35.5 4.9 40 141-180 81-121 (122)
72 PRK11788 tetratricopeptide rep 75.8 57 0.0012 32.5 13.1 26 7-32 72-97 (389)
73 PF13414 TPR_11: TPR repeat; P 75.6 16 0.00034 27.3 7.0 62 4-78 3-64 (69)
74 TIGR03302 OM_YfiO outer membra 75.0 48 0.001 30.8 11.6 156 5-182 34-192 (235)
75 PF09976 TPR_21: Tetratricopep 73.9 39 0.00085 29.5 10.1 96 5-134 49-144 (145)
76 PF13374 TPR_10: Tetratricopep 73.1 4.2 9.1E-05 27.2 2.9 29 3-31 1-29 (42)
77 COG0264 Tsf Translation elonga 72.4 4.3 9.3E-05 41.0 3.9 37 146-182 7-44 (296)
78 KOG2300 Uncharacterized conser 72.4 7.3 0.00016 42.1 5.8 116 16-155 372-487 (629)
79 PF02954 HTH_8: Bacterial regu 72.3 3.1 6.8E-05 29.5 2.2 24 288-311 5-28 (42)
80 PF10602 RPN7: 26S proteasome 71.0 69 0.0015 29.6 11.4 110 3-139 35-144 (177)
81 PF07719 TPR_2: Tetratricopept 69.9 6.2 0.00013 25.3 3.1 26 6-31 3-28 (34)
82 PF13432 TPR_16: Tetratricopep 69.5 19 0.00041 26.6 6.1 56 9-78 2-57 (65)
83 PF00515 TPR_1: Tetratricopept 68.8 6.7 0.00014 25.5 3.1 26 5-30 2-27 (34)
84 PF13525 YfiO: Outer membrane 67.8 20 0.00043 33.5 7.2 67 6-87 7-73 (203)
85 PF13424 TPR_12: Tetratricopep 67.4 34 0.00073 26.2 7.4 69 51-137 7-75 (78)
86 PRK11447 cellulose synthase su 65.3 59 0.0013 38.6 11.9 107 9-137 274-380 (1157)
87 COG1308 EGD2 Transcription fac 65.0 13 0.00028 33.0 4.8 38 275-312 83-121 (122)
88 PRK11788 tetratricopeptide rep 64.4 1.2E+02 0.0025 30.3 12.4 26 7-32 144-169 (389)
89 TIGR03302 OM_YfiO outer membra 63.9 1.2E+02 0.0027 28.0 14.1 148 6-179 72-226 (235)
90 PF02536 mTERF: mTERF; InterP 62.8 9.3 0.0002 38.3 4.2 220 82-317 39-291 (345)
91 cd00189 TPR Tetratricopeptide 62.1 36 0.00077 24.5 6.4 48 6-64 36-83 (100)
92 PF14559 TPR_19: Tetratricopep 61.8 21 0.00046 26.4 5.1 51 14-78 1-51 (68)
93 KOG0543 FKBP-type peptidyl-pro 61.4 39 0.00085 35.6 8.4 106 6-138 210-321 (397)
94 PRK10370 formate-dependent nit 61.1 43 0.00093 31.4 8.1 99 6-138 75-174 (198)
95 PRK15359 type III secretion sy 60.6 41 0.00088 29.6 7.5 93 8-136 28-120 (144)
96 PF13374 TPR_10: Tetratricopep 59.9 17 0.00037 24.1 3.9 35 53-90 6-40 (42)
97 PF11372 DUF3173: Domain of un 59.8 9.9 0.00021 29.6 2.9 22 149-170 7-28 (59)
98 PF08631 SPO22: Meiosis protei 59.3 49 0.0011 32.5 8.5 126 3-168 34-165 (278)
99 PRK10866 outer membrane biogen 59.2 28 0.0006 33.8 6.6 67 6-87 34-100 (243)
100 cd05804 StaR_like StaR_like; a 58.6 1.8E+02 0.0039 28.5 12.5 31 106-136 305-335 (355)
101 PRK14602 ruvA Holliday junctio 56.2 21 0.00045 34.1 5.1 24 145-168 156-179 (203)
102 PF13181 TPR_8: Tetratricopept 55.8 16 0.00034 23.5 3.0 26 6-31 3-28 (34)
103 COG4008 Predicted metal-bindin 54.6 41 0.00088 30.2 6.2 42 138-180 108-149 (153)
104 KOG0553 TPR repeat-containing 54.6 56 0.0012 33.3 8.0 92 6-136 83-177 (304)
105 PRK04841 transcriptional regul 54.4 1.5E+02 0.0033 33.5 12.5 117 6-141 614-764 (903)
106 PRK10803 tol-pal system protei 54.1 55 0.0012 32.4 7.9 103 7-140 145-249 (263)
107 PRK14601 ruvA Holliday junctio 54.1 21 0.00045 33.7 4.6 24 145-168 143-166 (183)
108 PRK11189 lipoprotein NlpI; Pro 54.0 1.4E+02 0.0031 29.4 10.9 27 5-31 99-125 (296)
109 PRK05441 murQ N-acetylmuramic 53.3 50 0.0011 33.3 7.5 51 227-310 247-297 (299)
110 KOG1071 Mitochondrial translat 53.1 16 0.00035 37.4 3.9 41 145-185 47-88 (340)
111 PRK12370 invasion protein regu 52.7 1.3E+02 0.0028 32.7 11.0 60 7-80 341-400 (553)
112 PRK14600 ruvA Holliday junctio 52.4 21 0.00045 33.8 4.3 25 145-169 146-170 (186)
113 PF08938 HBS1_N: HBS1 N-termin 52.2 7.5 0.00016 31.5 1.2 38 148-185 35-73 (79)
114 PRK14606 ruvA Holliday junctio 51.9 28 0.00061 32.9 5.2 24 145-168 144-167 (188)
115 TIGR00274 N-acetylmuramic acid 50.6 46 0.001 33.5 6.8 55 222-309 236-291 (291)
116 PF11547 E3_UbLigase_EDD: E3 u 50.6 22 0.00049 26.6 3.3 41 276-316 9-51 (53)
117 KOG1071 Mitochondrial translat 50.6 30 0.00065 35.5 5.3 37 215-251 45-82 (340)
118 PF11372 DUF3173: Domain of un 50.0 17 0.00037 28.3 2.7 34 221-254 7-41 (59)
119 PRK14604 ruvA Holliday junctio 49.9 27 0.00059 33.2 4.8 24 145-168 150-173 (195)
120 PF03474 DMA: DMRTA motif; In 49.4 24 0.00052 25.3 3.2 24 289-312 16-39 (39)
121 TIGR00084 ruvA Holliday juncti 49.0 25 0.00054 33.3 4.3 76 78-168 94-171 (191)
122 PRK13342 recombination factor 49.0 1.9E+02 0.004 30.3 11.2 68 113-182 179-256 (413)
123 PF06743 FAST_1: FAST kinase-l 48.1 10 0.00022 30.0 1.3 38 29-66 17-55 (71)
124 PLN03196 MOC1-like protein; Pr 48.0 2.6E+02 0.0056 30.3 12.3 88 147-242 127-222 (487)
125 PRK14700 recombination factor 47.7 1.5E+02 0.0032 30.3 9.8 121 112-239 69-206 (300)
126 TIGR00084 ruvA Holliday juncti 47.5 29 0.00063 32.8 4.5 24 277-300 148-171 (191)
127 PF07223 DUF1421: Protein of u 47.3 17 0.00038 37.8 3.2 24 275-298 320-343 (358)
128 TIGR00540 hemY_coli hemY prote 47.3 3.4E+02 0.0074 28.0 13.2 128 8-180 267-394 (409)
129 PF02631 RecX: RecX family; I 46.3 1.9E+02 0.004 24.7 9.4 72 218-299 47-118 (121)
130 PF14938 SNAP: Soluble NSF att 45.4 3E+02 0.0066 26.9 12.0 141 8-181 39-180 (282)
131 PRK14604 ruvA Holliday junctio 45.0 36 0.00077 32.4 4.7 24 277-300 150-173 (195)
132 COG2909 MalT ATP-dependent tra 44.6 3.7E+02 0.0081 31.4 13.2 118 8-141 351-491 (894)
133 PRK10747 putative protoheme IX 44.4 1.4E+02 0.0031 30.8 9.5 89 9-136 268-356 (398)
134 PRK14601 ruvA Holliday junctio 44.0 39 0.00085 31.9 4.8 24 277-300 143-166 (183)
135 KOG0775 Transcription factor S 43.7 35 0.00077 34.3 4.5 54 73-134 65-125 (304)
136 PF10300 DUF3808: Protein of u 43.6 75 0.0016 34.0 7.4 104 4-138 267-370 (468)
137 KOG4340 Uncharacterized conser 43.2 4.1E+02 0.0089 27.7 12.8 277 12-317 18-339 (459)
138 PRK14603 ruvA Holliday junctio 43.1 52 0.0011 31.3 5.5 24 145-168 153-176 (197)
139 PRK12570 N-acetylmuramic acid- 41.8 85 0.0018 31.6 7.1 50 227-309 243-292 (296)
140 TIGR02795 tol_pal_ybgF tol-pal 40.7 1.2E+02 0.0026 24.2 6.7 65 6-81 41-105 (119)
141 PRK10153 DNA-binding transcrip 40.7 5.1E+02 0.011 28.2 13.3 133 4-179 339-476 (517)
142 PF13432 TPR_16: Tetratricopep 40.2 1E+02 0.0022 22.6 5.7 49 74-137 12-60 (65)
143 smart00028 TPR Tetratricopepti 40.0 42 0.00091 19.2 3.0 25 6-30 3-27 (34)
144 PF03474 DMA: DMRTA motif; In 39.8 46 0.001 23.8 3.4 22 158-179 17-38 (39)
145 PF12895 Apc3: Anaphase-promot 39.7 31 0.00068 27.0 3.0 22 9-30 63-84 (84)
146 PRK11189 lipoprotein NlpI; Pro 39.6 3.8E+02 0.0083 26.4 12.4 98 5-138 65-162 (296)
147 TIGR02508 type_III_yscG type I 39.5 48 0.001 28.9 4.1 47 12-77 47-93 (115)
148 PRK15174 Vi polysaccharide exp 39.4 5.4E+02 0.012 28.7 13.6 30 109-138 285-314 (656)
149 PLN03196 MOC1-like protein; Pr 38.7 5.4E+02 0.012 27.8 17.6 219 84-317 132-388 (487)
150 PF13174 TPR_6: Tetratricopept 38.4 43 0.00094 20.9 3.0 29 6-34 2-30 (33)
151 PRK05441 murQ N-acetylmuramic 38.0 99 0.0021 31.2 6.9 31 220-250 266-297 (299)
152 PRK13901 ruvA Holliday junctio 37.2 36 0.00079 32.5 3.5 25 145-169 145-169 (196)
153 PF06972 DUF1296: Protein of u 37.0 90 0.002 24.4 4.9 34 148-182 12-45 (60)
154 PF06972 DUF1296: Protein of u 36.7 83 0.0018 24.6 4.7 27 288-314 19-45 (60)
155 PRK14605 ruvA Holliday junctio 36.0 76 0.0016 30.1 5.4 25 145-169 149-173 (194)
156 PF08938 HBS1_N: HBS1 N-termin 35.3 16 0.00035 29.5 0.7 29 289-317 45-73 (79)
157 TIGR02552 LcrH_SycD type III s 34.7 1.8E+02 0.0039 24.2 7.1 61 6-80 53-113 (135)
158 PF04190 DUF410: Protein of un 34.3 2.3E+02 0.0049 27.9 8.7 152 15-179 1-164 (260)
159 PF02954 HTH_8: Bacterial regu 34.2 31 0.00068 24.3 1.9 24 228-251 5-28 (42)
160 cd05804 StaR_like StaR_like; a 33.6 2.4E+02 0.0051 27.7 8.8 28 107-134 185-212 (355)
161 PRK14603 ruvA Holliday junctio 33.4 80 0.0017 30.0 5.1 24 277-300 153-176 (197)
162 PF11547 E3_UbLigase_EDD: E3 u 33.1 1.4E+02 0.0031 22.5 5.2 43 142-184 7-51 (53)
163 PRK14602 ruvA Holliday junctio 33.0 82 0.0018 30.1 5.1 113 154-300 62-179 (203)
164 TIGR00274 N-acetylmuramic acid 32.8 1.1E+02 0.0024 30.8 6.3 30 220-249 261-291 (291)
165 PRK13901 ruvA Holliday junctio 32.0 51 0.0011 31.5 3.5 26 277-302 145-170 (196)
166 COG0632 RuvA Holliday junction 31.2 42 0.00091 32.2 2.8 24 146-169 158-181 (201)
167 PF04592 SelP_N: Selenoprotein 31.1 17 0.00036 35.8 0.1 29 46-77 29-57 (238)
168 PF12862 Apc5: Anaphase-promot 30.7 2.2E+02 0.0047 23.2 6.7 68 13-85 7-74 (94)
169 PRK14606 ruvA Holliday junctio 30.2 57 0.0012 30.8 3.5 24 277-300 144-167 (188)
170 PF07223 DUF1421: Protein of u 30.1 46 0.00099 34.8 3.1 22 218-239 323-344 (358)
171 PRK14600 ruvA Holliday junctio 29.1 61 0.0013 30.6 3.5 25 277-301 146-170 (186)
172 PF09280 XPC-binding: XPC-bind 28.9 52 0.0011 25.4 2.5 36 231-266 11-48 (59)
173 PRK14136 recX recombination re 28.9 6.6E+02 0.014 25.9 14.2 74 218-302 230-304 (309)
174 PF13176 TPR_7: Tetratricopept 28.8 68 0.0015 21.4 2.8 23 7-29 2-24 (36)
175 COG4008 Predicted metal-bindin 28.7 1.3E+02 0.0028 27.1 5.2 37 214-251 112-148 (153)
176 PRK12570 N-acetylmuramic acid- 28.7 1.4E+02 0.0031 30.0 6.3 30 220-249 262-292 (296)
177 PRK00117 recX recombination re 28.0 3.6E+02 0.0077 24.0 8.2 23 218-240 131-153 (157)
178 PF08031 BBE: Berberine and be 27.5 43 0.00094 24.3 1.7 26 80-105 14-39 (47)
179 PF13371 TPR_9: Tetratricopept 27.5 97 0.0021 23.1 3.8 41 108-152 29-69 (73)
180 COG2103 Predicted sugar phosph 27.3 2.2E+02 0.0048 28.8 7.1 33 147-179 118-152 (298)
181 PF02631 RecX: RecX family; I 27.3 3.7E+02 0.008 22.8 7.9 99 57-167 13-118 (121)
182 PF04695 Pex14_N: Peroxisomal 26.8 1.2E+02 0.0027 26.9 4.9 46 244-304 6-51 (136)
183 KOG2002 TPR-containing nuclear 26.5 7.2E+02 0.016 29.5 11.8 149 2-182 305-478 (1018)
184 PLN02751 glutamyl-tRNA(Gln) am 26.5 7.4E+02 0.016 27.5 11.6 101 131-249 355-474 (544)
185 PF07721 TPR_4: Tetratricopept 25.8 77 0.0017 19.8 2.5 22 6-27 3-24 (26)
186 COG0632 RuvA Holliday junction 25.2 77 0.0017 30.4 3.5 26 277-302 157-182 (201)
187 PRK10049 pgaA outer membrane p 25.0 4.3E+02 0.0094 29.9 9.9 30 109-138 360-389 (765)
188 PF10440 WIYLD: Ubiquitin-bind 24.0 1.1E+02 0.0023 24.4 3.4 27 277-303 12-42 (65)
189 PRK14605 ruvA Holliday junctio 23.5 1.6E+02 0.0034 27.9 5.2 26 276-301 148-173 (194)
190 PF02536 mTERF: mTERF; InterP 22.9 1.6E+02 0.0035 29.3 5.5 25 218-242 245-269 (345)
191 PF13414 TPR_11: TPR repeat; P 22.9 69 0.0015 23.7 2.2 56 110-179 5-61 (69)
192 KOG1920 IkappaB kinase complex 22.7 1.4E+03 0.03 28.0 13.3 36 277-313 1003-1038(1265)
193 KOG0548 Molecular co-chaperone 22.6 3.9E+02 0.0084 29.5 8.4 81 10-134 304-384 (539)
194 PRK09591 celC cellobiose phosp 22.5 74 0.0016 27.3 2.5 31 8-38 24-54 (104)
195 PRK00116 ruvA Holliday junctio 22.4 1.4E+02 0.0029 28.1 4.5 67 221-302 108-175 (192)
196 PF09613 HrpB1_HrpK: Bacterial 22.1 1.4E+02 0.0031 27.7 4.4 57 10-77 50-106 (160)
197 PF13428 TPR_14: Tetratricopep 22.1 1E+02 0.0022 21.4 2.8 26 7-32 4-29 (44)
198 PRK15359 type III secretion sy 22.0 3.3E+02 0.0072 23.8 6.7 60 6-79 60-119 (144)
199 KOG1156 N-terminal acetyltrans 22.0 4.6E+02 0.01 29.7 8.9 111 53-186 368-483 (700)
200 PRK08769 DNA polymerase III su 21.8 1.3E+02 0.0029 30.7 4.6 37 145-181 175-211 (319)
201 PF12569 NARP1: NMDA receptor- 21.8 2.7E+02 0.0058 30.5 7.2 30 109-138 229-258 (517)
202 KOG2002 TPR-containing nuclear 21.6 2.6E+02 0.0056 33.0 7.2 96 30-140 583-678 (1018)
203 COG2256 MGS1 ATPase related to 21.5 9.1E+02 0.02 26.0 10.7 117 116-239 198-329 (436)
204 PLN03088 SGT1, suppressor of 21.5 2.9E+02 0.0062 28.3 7.0 61 6-80 38-98 (356)
205 PF05861 PhnI: Bacterial phosp 21.2 1.2E+02 0.0025 31.7 4.0 33 219-251 44-78 (358)
206 PRK10454 PTS system N,N'-diace 21.1 83 0.0018 27.6 2.6 30 9-38 36-65 (115)
207 PRK00117 recX recombination re 21.0 5.9E+02 0.013 22.6 13.3 74 218-301 80-154 (157)
208 PF02255 PTS_IIA: PTS system, 21.0 83 0.0018 26.5 2.5 32 8-39 18-49 (96)
209 PRK10049 pgaA outer membrane p 21.0 4.1E+02 0.0088 30.1 8.7 97 7-139 362-458 (765)
210 TIGR02710 CRISPR-associated pr 20.9 7.6E+02 0.016 26.1 10.0 125 7-138 133-276 (380)
211 PRK01905 DNA-binding protein F 20.9 87 0.0019 25.0 2.5 24 288-311 37-60 (77)
212 PRK00430 fis global DNA-bindin 20.8 83 0.0018 26.4 2.5 24 288-311 55-78 (95)
213 PRK15174 Vi polysaccharide exp 20.8 1.2E+03 0.026 26.0 13.5 27 7-33 113-139 (656)
214 cd00215 PTS_IIA_lac PTS_IIA, P 20.8 85 0.0018 26.6 2.5 34 4-37 15-48 (97)
215 PHA01351 putative minor struct 20.7 3.6E+02 0.0078 31.0 7.7 75 219-293 487-564 (1070)
216 PRK09782 bacteriophage N4 rece 20.7 5.9E+02 0.013 30.2 10.1 54 13-81 585-638 (987)
217 PRK00116 ruvA Holliday junctio 20.6 1.9E+02 0.0042 27.1 5.1 25 145-169 150-174 (192)
218 PF14490 HHH_4: Helix-hairpin- 20.5 1.2E+02 0.0026 25.1 3.3 34 218-254 10-44 (94)
219 PF08587 UBA_2: Ubiquitin asso 20.3 41 0.00089 25.0 0.4 27 143-169 1-28 (46)
No 1
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=4.5e-100 Score=765.76 Aligned_cols=398 Identities=43% Similarity=0.675 Sum_probs=336.0
Q ss_pred CchhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 1 l~~~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
||||||||||||++|+|++|++||++||+|||+||+|+||||++|||||||||||||||||||||+|||||+.||.+|++
T Consensus 160 lmmglg~hekaRa~m~re~y~eAl~~LleADe~F~~Cd~klLe~VDNyallnLDIVWCYfrLknitcL~DAe~RL~ra~k 239 (568)
T KOG2561|consen 160 LMMGLGLHEKARAAMEREMYSEALLVLLEADESFSLCDSKLLELVDNYALLNLDIVWCYFRLKNITCLPDAEVRLVRARK 239 (568)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhHHHHHhhcchhhhhcchhheehhhcccccCChHHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHH
Q 014748 81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQD 160 (419)
Q Consensus 81 ~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ 160 (419)
||.+|||+|++||++|||++|||++||||||||||||+||+|++++|++.|+.|..++.+++++++.++.||+|||.+++
T Consensus 240 gf~~syGenl~Rl~~lKg~~spEraL~lRL~LLQGV~~yHqg~~deAye~le~a~~~l~elki~d~~lsllv~mGfeesd 319 (568)
T KOG2561|consen 240 GFERSYGENLSRLRSLKGGQSPERALILRLELLQGVVAYHQGQRDEAYEALESAHAKLLELKINDETLSLLVGMGFEESD 319 (568)
T ss_pred hhhhhhhhhhHhhhhccCCCChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHeeccchHHHHHHHcCCCchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHhc
Q 014748 161 AKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240 (419)
Q Consensus 161 ArrALrat~gdve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~~v~~~~l~~L~~MGF~~~~A~~ALr~t 240 (419)
||+|||.|+|+|++|++||+++++...+.|.++..+.++.-.+++|+.++++.||+|..|..|++|||.+..|..||+.|
T Consensus 320 aRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r~ 399 (568)
T KOG2561|consen 320 ARLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLERLVSMGYERELAAEALRRN 399 (568)
T ss_pred HHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHhc
Confidence 99999999999999999999999999888866665666666788999999999999999999999999999999999999
Q ss_pred CCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCCCCCc
Q 014748 241 ENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGSNPT 320 (419)
Q Consensus 241 ~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~~~~ 320 (419)
+||+..|+++|++|. ++|..+ +..++.+++...|.+|++|||++-.|+.||++++||++.|+++|..+...+++
T Consensus 400 ~Ndi~~aldllq~es--del~~n----~~~~p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~~s~~n~~~ 473 (568)
T KOG2561|consen 400 ENDIQKALDLLQDES--DELESN----KPKRPEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLSASVANEGE 473 (568)
T ss_pred cCcHHHHHHhcCCcc--hhhhcc----CCCCCcccchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHHHhCCCCcc
Confidence 999999999998775 234333 22344567899999999999999999999999999999999999876554332
Q ss_pred c---ccCCCCCCCCCCCC-----CCCC-CCCCCCCCCCCCCCCCccccccccccCCCChhHHHHHHhhhc-CCccccccc
Q 014748 321 A---AANNNASTSISMPN-----NGEP-SSSINNENVEGDPDSSFEETSATEDVNGRDVEMEDELANDLT-GDVFADYDI 390 (419)
Q Consensus 321 ~---~~~~s~s~~~~~~~-----~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~rd~~~e~el~~ei~-~d~~~dyD~ 390 (419)
. -...++|+...+|+ +++. ++.|-+++.+. -.-.++.+ ......+|+..++|..+|+. -++.++||+
T Consensus 474 ~l~~~~~~t~s~en~gp~ssg~~tsastd~~m~~e~~~~--i~iletv~-~hae~eidS~~a~erfned~~~~~leyldl 550 (568)
T KOG2561|consen 474 LLTSVINATSSTENVGPESSGFGTSASTDSEMVDETTDD--IAILETVS-DHAEEEIDSYIADERFNEDLRVDALEYLDL 550 (568)
T ss_pred ccccccccccCCCCCCCCcCCCCcccCCCchhhhcCCch--HHHHHhhh-hHHHHHHHhhhHHhhhchhhhhhhHhhhcC
Confidence 1 11112222211222 2211 11122221110 00111111 23345567777777778777 566677799
Q ss_pred chhhHHHHHHHHHHHhh
Q 014748 391 EVTKEGEAISEYLSLLD 407 (419)
Q Consensus 391 ~l~~E~~~i~eYlsll~ 407 (419)
.+++|.++|+||+.+|+
T Consensus 551 ~ldqee~~l~ey~~ml~ 567 (568)
T KOG2561|consen 551 PLDQEEEILNEYLAMLD 567 (568)
T ss_pred ccchHHHHHHHHHHHhc
Confidence 99999999999999986
No 2
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.81 E-value=8e-20 Score=186.87 Aligned_cols=169 Identities=21% Similarity=0.267 Sum_probs=121.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhchhhhhhhhhhh--HHHHH-----------HHHHHhhcCC---
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDN--EQRRK-----------EIMEQKRYGL--- 208 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~~~d~~~~~~~~--~~~~~-----------~~~~~~~~g~--- 208 (419)
+..|+.||+|||++.++++|||+++||+||||+||+.++++........ ..... ..-.+...+.
T Consensus 157 e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP~~~~~~~~~~~~~~~~~~~~~~~~~~~~lf~~a~~~~~~~ 236 (378)
T TIGR00601 157 ETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIPEDPEQPEPVQQTAASTAAATTETPQHGSVFEQAAQGGTEQ 236 (378)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCCccccccccCCCcccccccccCCCCCCcchhhhhhcccccc
Confidence 5799999999999999999999999999999999999998531100000 00000 0000000000
Q ss_pred --CCCCCcCCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh--cCCcchhHHhhhhhHHh--------h------
Q 014748 209 --TPLKKAVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIESRK--------R------ 269 (419)
Q Consensus 209 --t~~~~~v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L--~npd~~~~L~~~~~~~~--------~------ 269 (419)
++... ....+..|+.+ -| .+.|..+++++.-++.-++.| +||++.+.|+.|++.+- .
T Consensus 237 ~~~~~~~--g~~~l~~Lr~~pqf--~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~~~~~~~~~~ 312 (378)
T TIGR00601 237 PATEAAQ--GGNPLEFLRNQPQF--QQLRQVVQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEPVGELAGESD 312 (378)
T ss_pred ccccccc--CCchHHHhhcCHHH--HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCcccccccccc
Confidence 00000 01247888888 58 569999999999999999988 79999988888754321 0
Q ss_pred -----------------hhhcc-chHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 270 -----------------KRCRQ-AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 270 -----------------~~~~~-~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
..+.+ .+.++|++|++|||+|..|++||.+|++|++.|++|||++.++
T Consensus 313 ~~~~~~~~~~~~~~~~~~i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~~~ 378 (378)
T TIGR00601 313 MEGGVGAIAEAGLPQMNQIQVTPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQNFD 378 (378)
T ss_pred cccccccccccCcccccccccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhcCC
Confidence 01223 3899999999999999999999999999999999999988653
No 3
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.79 E-value=1.4e-19 Score=178.77 Aligned_cols=171 Identities=21% Similarity=0.272 Sum_probs=124.1
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCC--c--CC--
Q 014748 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKK--A--VD-- 216 (419)
Q Consensus 143 vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~--~--v~-- 216 (419)
..+..|.++|+|||.++++.+|||+++||+|+||+||..+++.-..... .+.........+....+... + +.
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~~~~~~~--~~~~~~~~~~~p~~~~p~~~~~~~~~~~~ 211 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPEDAEVPE--PEKSTAAAAELPANAQPLDLFPQGAVEAS 211 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCcccccCCc--ccCCcccCCCCCCCCChhhcCCccchhhh
Confidence 4578999999999999999999999999999999999999987321111 00000000000000000000 0 10
Q ss_pred -HHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh--cCCcchhHHhhhhhHHh------------------------
Q 014748 217 -IEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIESRK------------------------ 268 (419)
Q Consensus 217 -~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L--~npd~~~~L~~~~~~~~------------------------ 268 (419)
...+++|+++ .| .+.|.-+.+++-.+..-++.| .||.+++.|+.|+..+-
T Consensus 212 ~~~~l~fLr~~~qf--~~lR~~iqqNP~ll~~~Lqqlg~~nP~L~q~Iq~nqe~Fl~mlnep~~~~~~~~~~~~~~~~~~ 289 (340)
T KOG0011|consen 212 GGDPLEFLRNQPQF--QQLRQMIQQNPELLHPLLQQLGKQNPQLLQLIQENQEAFLQLLNEPVEGGDGGGTGAPAAEGPG 289 (340)
T ss_pred cCCchhhhhccHHH--HHHHHHHhhCHHHHHHHHHHHhhhCHHHHHHHHHHHHHHHHHhhcccccccccccccccccCCc
Confidence 0237888888 68 458888999999999999988 79999888888754321
Q ss_pred hhhhcc-chHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 269 RKRCRQ-AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 269 ~~~~~~-~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
..++.+ .+.++|++|.+|||+|..|++||.+|++|.+.|++|||+|..+
T Consensus 290 ~~I~vtpee~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~f~ 339 (340)
T KOG0011|consen 290 HQIQVTPEEKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHSFE 339 (340)
T ss_pred ceEecCHHHHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhccC
Confidence 011223 3889999999999999999999999999999999999999844
No 4
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.72 E-value=4.2e-17 Score=166.20 Aligned_cols=299 Identities=23% Similarity=0.216 Sum_probs=184.7
Q ss_pred chhhHHHHHHHHhH-hhhhccCChhHHHHHhHhHHhhhccC------CCCH---------------HHHHHHHhCCCCHH
Q 014748 102 PELALHLRMELLEG-VAAYHSGQFDKARNALTSAQAKFFQL------QVPD---------------ESLSLVMSMGFKEQ 159 (419)
Q Consensus 102 ~E~aL~lRL~LLqg-vv~~~~g~~~eA~~~L~~a~~~~~~l------~vde---------------e~l~~LmeMGF~~~ 159 (419)
.-++|.|.|.++++ ..+.|.-+|++|..+|-.|.+.|..+ .||+ ..|.+|-+-|-...
T Consensus 156 E~kAlmmglg~hekaRa~m~re~y~eAl~~LleADe~F~~Cd~klLe~VDNyallnLDIVWCYfrLknitcL~DAe~RL~ 235 (568)
T KOG2561|consen 156 EQKALMMGLGLHEKARAAMEREMYSEALLVLLEADESFSLCDSKLLELVDNYALLNLDIVWCYFRLKNITCLPDAEVRLV 235 (568)
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhHHHHHhhcchhhhhcchhheehhhcccccCChHHHHHH
Confidence 35799999999998 67778899999999999999999876 3444 35667777788888
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhchhhhh---hhhhhhHHH--------HHHHHHHhhcCCCCC-CCcCCHHHHHHHHhCC
Q 014748 160 DAKRALRICSQDVGSAIDFLVEEKAKRV---KEREDNEQR--------RKEIMEQKRYGLTPL-KKAVDIEKIKELVSIG 227 (419)
Q Consensus 160 ~ArrALrat~gdve~Av~~L~e~~~d~~---~~~~~~~~~--------~~~~~~~~~~g~t~~-~~~v~~~~l~~L~~MG 227 (419)
.|++++..|.|.--..+-.|..+ +.|. ..|..--+. +.+.-......++.- .-.++.+.+..|++||
T Consensus 236 ra~kgf~~syGenl~Rl~~lKg~-~spEraL~lRL~LLQGV~~yHqg~~deAye~le~a~~~l~elki~d~~lsllv~mG 314 (568)
T KOG2561|consen 236 RARKGFERSYGENLSRLRSLKGG-QSPERALILRLELLQGVVAYHQGQRDEAYEALESAHAKLLELKINDETLSLLVGMG 314 (568)
T ss_pred HHHHhhhhhhhhhhHhhhhccCC-CChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHeeccchHHHHHHHcC
Confidence 89999888876422222222211 1110 000000000 000000000000000 1135667899999999
Q ss_pred CCHHHHHHHHHhcCCCHHHHHHhhcCC-cchhHHh-hhhhHHh----------hhhhccchHHHHHHHHhCCCCHHHHHH
Q 014748 228 FEKELVAEALRRNENDSQKALDDLTNP-ESNSAIQ-LYIESRK----------RKRCRQAADAKIEQLVAMGFERPRVIE 295 (419)
Q Consensus 228 F~~~~A~~ALr~t~nnve~Al~~L~np-d~~~~L~-~~~~~~~----------~~~~~~~d~~~I~~L~~MGF~~~~A~~ 295 (419)
|.+..||.|||.++|+|+.|+++|.+. +-....+ .+....+ .....++++.+|.+|++|||++..|.+
T Consensus 315 feesdaRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~e 394 (568)
T KOG2561|consen 315 FEESDARLALRSCNGDVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWVNPRSLERLVSMGYERELAAE 394 (568)
T ss_pred CCchHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhcchHhHHHHH
Confidence 999999999999999999999988542 2111111 1111111 012347899999999999999999999
Q ss_pred HHHHcCCCHHHHHHHhhcCCCCCCccccCCCCCCCC-------------------------------------CCCCCCC
Q 014748 296 ACRAGGDDIHQIMLQLLGEPGSNPTAAANNNASTSI-------------------------------------SMPNNGE 338 (419)
Q Consensus 296 AL~~~~nN~e~A~d~Ll~~~~~~~~~~~~~s~s~~~-------------------------------------~~~~~~~ 338 (419)
||+.+.||+.+|++.|..+.++ +.+.-.++|+... +-++.++
T Consensus 395 aL~r~~Ndi~~aldllq~esde-l~~n~~~~p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~~s~~n~~~ 473 (568)
T KOG2561|consen 395 ALRRNENDIQKALDLLQDESDE-LESNKPKRPEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLSASVANEGE 473 (568)
T ss_pred HHHhccCcHHHHHHhcCCcchh-hhccCCCCCcccchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHHHhCCCCcc
Confidence 9999999999999999877664 2211112222110 0010000
Q ss_pred CCCCCCCC---CCCCCCCCCccccccccccCCCChhHHHHHHhh--hcCCcc---ccc-ccc------hhhHHHHHHHHH
Q 014748 339 PSSSINNE---NVEGDPDSSFEETSATEDVNGRDVEMEDELAND--LTGDVF---ADY-DIE------VTKEGEAISEYL 403 (419)
Q Consensus 339 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~rd~~~e~el~~e--i~~d~~---~dy-D~~------l~~E~~~i~eYl 403 (419)
--...++. .-+..+..+..++|+++ |++|++|-+++ |.++.+ ++| |.+ .+.+..-+.+|+
T Consensus 474 ~l~~~~~~t~s~en~gp~ssg~~tsast-----d~~m~~e~~~~i~iletv~~hae~eidS~~a~erfned~~~~~leyl 548 (568)
T KOG2561|consen 474 LLTSVINATSSTENVGPESSGFGTSAST-----DSEMVDETTDDIAILETVSDHAEEEIDSYIADERFNEDLRVDALEYL 548 (568)
T ss_pred ccccccccccCCCCCCCCcCCCCcccCC-----CchhhhcCCchHHHHHhhhhHHHHHHHhhhHHhhhchhhhhhhHhhh
Confidence 00001111 11112445556666666 99999988884 445554 677 888 888899999999
Q ss_pred HHhh
Q 014748 404 SLLD 407 (419)
Q Consensus 404 sll~ 407 (419)
+|..
T Consensus 549 dl~l 552 (568)
T KOG2561|consen 549 DLPL 552 (568)
T ss_pred cCcc
Confidence 9853
No 5
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=1.5e-17 Score=175.96 Aligned_cols=117 Identities=23% Similarity=0.369 Sum_probs=94.4
Q ss_pred HHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhc
Q 014748 128 RNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRY 206 (419)
Q Consensus 128 ~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrALrat~g-dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~ 206 (419)
.+.|..-..+-.++..|...|.+|++|||++++|+|||..++| +.+.|++||++||+|++...+- ..+
T Consensus 555 ee~lpde~~~~~~~~~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~-----------vvp 623 (763)
T KOG0944|consen 555 EEALPDEAPETSEFAADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPF-----------VVP 623 (763)
T ss_pred ccccCCcCcccCccchhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCce-----------ecC
Confidence 3334333334445668889999999999999999999999965 7999999999999999876431 112
Q ss_pred CCCCCC--CcCCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhh-cCCc
Q 014748 207 GLTPLK--KAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE 255 (419)
Q Consensus 207 g~t~~~--~~v~~~~l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L-~npd 255 (419)
|.++.. ..++++.|..+++|||++.+|++||+.+||||++|++|+ +|+|
T Consensus 624 ~~~~~a~~~~~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 624 GNSPKADAREVDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred CCCCccccCCCChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 333332 258999999999999999999999999999999999997 7887
No 6
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=3.5e-15 Score=158.25 Aligned_cols=101 Identities=22% Similarity=0.365 Sum_probs=83.2
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcC-CCHHHHHHhh----cCCcchhHHhhhhhHHhhhhh-ccchHHHHHHHHhCCC
Q 014748 215 VDIEKIKELVSIGFEKELVAEALRRNE-NDSQKALDDL----TNPESNSAIQLYIESRKRKRC-RQAADAKIEQLVAMGF 288 (419)
Q Consensus 215 v~~~~l~~L~~MGF~~~~A~~ALr~t~-nnve~Al~~L----~npd~~~~L~~~~~~~~~~~~-~~~d~~~I~~L~~MGF 288 (419)
.|.-+|.+|++|||+++.|++||..|+ .+.+.|++|| .|||+.+++.-+ +...+.. ..++++.+..+++|||
T Consensus 570 ~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp--~~~~~a~~~~~~e~~v~si~smGf 647 (763)
T KOG0944|consen 570 ADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVP--GNSPKADAREVDEESVASIVSMGF 647 (763)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCceecC--CCCCccccCCCChhHheeeeeecC
Confidence 466799999999999999999999995 4899999998 467765443322 1111111 2478999999999999
Q ss_pred CHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 289 ERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 289 ~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
++.+|++||++++||+++|+||+|+|++.
T Consensus 648 ~~~qa~~aL~~~n~nveravDWif~h~d~ 676 (763)
T KOG0944|consen 648 SRNQAIKALKATNNNVERAVDWIFSHMDI 676 (763)
T ss_pred cHHHHHHHHHhcCccHHHHHHHHHhcccc
Confidence 99999999999999999999999999995
No 7
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=1.1e-13 Score=143.10 Aligned_cols=104 Identities=25% Similarity=0.309 Sum_probs=86.0
Q ss_pred CCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCC-CCCcCCHH
Q 014748 141 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP-LKKAVDIE 218 (419)
Q Consensus 141 l~vdee~l~~LmeMGF~~~~ArrALrat~g-dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~-~~~~v~~~ 218 (419)
+..|...|.||++|||++.+|.|||-+++| |.+.||+||++||+||+.+.+..+ +..-| ....|+..
T Consensus 555 ~t~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~-----------~~~vPKkDkeVdE~ 623 (749)
T COG5207 555 FTDNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDPFVP-----------PPNVPKKDKEVDES 623 (749)
T ss_pred cCchHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCCCCC-----------CCCCCcccccccHH
Confidence 455667999999999999999999999977 899999999999999976643211 01111 12368999
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhh-cCCc
Q 014748 219 KIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNPE 255 (419)
Q Consensus 219 ~l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L-~npd 255 (419)
.+..|.+|||+..+||+||-.++||+.++++|. .|||
T Consensus 624 ~~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~N~~D 661 (749)
T COG5207 624 KARSLLENGLNPNLCRKALMDMNTDSKRRVVWCINDDD 661 (749)
T ss_pred HHHHHHHcCCCHHHHHHHHHHccCCchheEEEEEeCCC
Confidence 999999999999999999999999999999997 4444
No 8
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=2.7e-11 Score=125.79 Aligned_cols=101 Identities=21% Similarity=0.277 Sum_probs=84.8
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHhcCC-CHHHHHHhh----cCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCC
Q 014748 215 VDIEKIKELVSIGFEKELVAEALRRNEN-DSQKALDDL----TNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFE 289 (419)
Q Consensus 215 v~~~~l~~L~~MGF~~~~A~~ALr~t~n-nve~Al~~L----~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~ 289 (419)
.|+..|.||++|||+...|.+||-.|+| |.+.||+|| .+|++++++..+ +...+....+++..+..|.+|||.
T Consensus 557 ~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~--~~vPKkDkeVdE~~~~Slle~Gln 634 (749)
T COG5207 557 DNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDPFVPP--PNVPKKDKEVDESKARSLLENGLN 634 (749)
T ss_pred chHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCCCCCC--CCCCcccccccHHHHHHHHHcCCC
Confidence 3567999999999999999999999987 899999998 467766554332 112233346899999999999999
Q ss_pred HHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 290 RPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 290 ~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
..+++.||.-.++|++++++|.+++++.
T Consensus 635 ~n~~Rkal~~~n~d~~r~V~w~~N~~D~ 662 (749)
T COG5207 635 PNLCRKALMDMNTDSKRRVVWCINDDDG 662 (749)
T ss_pred HHHHHHHHHHccCCchheEEEEEeCCCC
Confidence 9999999999999999999999997665
No 9
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.11 E-value=7.8e-11 Score=82.24 Aligned_cols=37 Identities=38% Similarity=0.776 Sum_probs=34.6
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 014748 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 179 (419)
Q Consensus 143 vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L 179 (419)
||++.|++|++|||++..|++||++|+||+++|++||
T Consensus 1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 1 IDEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp SHHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 5789999999999999999999999999999999997
No 10
>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=98.92 E-value=1.5e-09 Score=75.78 Aligned_cols=36 Identities=33% Similarity=0.516 Sum_probs=33.6
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHh
Q 014748 276 ADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQL 311 (419)
Q Consensus 276 d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~L 311 (419)
+++.|.+|++|||+++.|+.||+.|+||+++|++||
T Consensus 2 ~~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 2 DEEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 567899999999999999999999999999999998
No 11
>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=98.91 E-value=2.3e-09 Score=74.79 Aligned_cols=38 Identities=34% Similarity=0.710 Sum_probs=35.6
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 014748 144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (419)
Q Consensus 144 dee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e 181 (419)
+++.|++|++|||++.+|++||+.|+||++.|++||++
T Consensus 1 ~~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 1 DEEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 36789999999999999999999999999999999974
No 12
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.90 E-value=2.1e-09 Score=74.63 Aligned_cols=37 Identities=30% Similarity=0.618 Sum_probs=34.9
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 014748 144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180 (419)
Q Consensus 144 dee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~ 180 (419)
+++.|++|++|||++.+|++||+.|+||+++|++||+
T Consensus 1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 4678999999999999999999999999999999985
No 13
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.78 E-value=1.1e-08 Score=71.27 Aligned_cols=37 Identities=35% Similarity=0.556 Sum_probs=34.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLG 313 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~ 313 (419)
++.|.+|++|||+++.|+.||+.|+||++.|++||++
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 4679999999999999999999999999999999984
No 14
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.77 E-value=1.2e-08 Score=70.77 Aligned_cols=36 Identities=36% Similarity=0.613 Sum_probs=34.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhh
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLL 312 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll 312 (419)
++.|.+|++|||+++.|+.||+.|+||+++|++|||
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 467999999999999999999999999999999996
No 15
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.64 E-value=5.3e-05 Score=78.35 Aligned_cols=43 Identities=28% Similarity=0.367 Sum_probs=39.0
Q ss_pred chHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 275 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 275 ~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
.-+..|.+|++|||+|++|+.|||+.-||-+||++||++.--+
T Consensus 155 ~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGIP~ 197 (378)
T TIGR00601 155 ERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGIPE 197 (378)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCCCc
Confidence 3578999999999999999999999999999999999987443
No 16
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.28 E-value=0.0006 Score=68.72 Aligned_cols=44 Identities=23% Similarity=0.348 Sum_probs=39.9
Q ss_pred chHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCCCC
Q 014748 275 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGEPGSN 318 (419)
Q Consensus 275 ~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~~ 318 (419)
.....|.+++.||++|+.++.|||+.=||-++|++||++.--.+
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GIP~~ 177 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGIPED 177 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCCccc
Confidence 56788999999999999999999999999999999999875554
No 17
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=96.22 E-value=0.027 Score=43.99 Aligned_cols=75 Identities=17% Similarity=0.117 Sum_probs=62.8
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 014748 3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI 82 (419)
Q Consensus 3 ~~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f 82 (419)
++..++..|..+.+.++|++|+.++..|=+.+..-++.-. .++..-..|.|||..+++ .++|...+++|-+.+
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~----~~a~~~~~lg~~~~~~g~---~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHP----DTANTLNNLGECYYRLGD---YEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHH----HHHHHHHHHHHHHHHTTH---HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCH----HHHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhhh
Confidence 5778899999999999999999999999988877776432 246777889999999887 789999999998888
Q ss_pred HH
Q 014748 83 ER 84 (419)
Q Consensus 83 ~r 84 (419)
++
T Consensus 77 ~k 78 (78)
T PF13424_consen 77 EK 78 (78)
T ss_dssp HH
T ss_pred cC
Confidence 74
No 18
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=95.09 E-value=0.044 Score=39.05 Aligned_cols=37 Identities=22% Similarity=0.354 Sum_probs=32.4
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHHHhhc
Q 014748 277 DAKIEQLVAM--GFERPRVIEACRAGGDDIHQIMLQLLG 313 (419)
Q Consensus 277 ~~~I~~L~~M--GF~~~~A~~AL~~~~nN~e~A~d~Ll~ 313 (419)
++.|.+|.+| .++++..+.+|++++||++.|++.|+.
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 3567888888 899999999999999999999999985
No 19
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=94.95 E-value=0.054 Score=38.87 Aligned_cols=40 Identities=18% Similarity=0.261 Sum_probs=30.9
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 278 AKIEQLVAM-GFERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 278 ~~I~~L~~M-GF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
+.|.+.++. |.+++.|+.-|+.+++|++.|++.-|.+++.
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~~ 42 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGEA 42 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-S
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCCC
Confidence 345565555 8999999999999999999999998877654
No 20
>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=94.75 E-value=0.076 Score=37.81 Aligned_cols=38 Identities=26% Similarity=0.350 Sum_probs=33.3
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 145 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 145 ee~l~~LmeM--GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
++.|.+|.+| .++....+.+|+.++||++.|++.|++.
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 7789999999999999999999999875
No 21
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=94.54 E-value=0.099 Score=37.33 Aligned_cols=38 Identities=16% Similarity=0.287 Sum_probs=33.1
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHHHhhcC
Q 014748 277 DAKIEQLVAM--GFERPRVIEACRAGGDDIHQIMLQLLGE 314 (419)
Q Consensus 277 ~~~I~~L~~M--GF~~~~A~~AL~~~~nN~e~A~d~Ll~~ 314 (419)
.+.+.+|.+| .+++..++..|+.++||++.|++.|+..
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4568888899 6778899999999999999999999864
No 22
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=94.42 E-value=0.36 Score=41.04 Aligned_cols=97 Identities=20% Similarity=0.196 Sum_probs=63.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (419)
.++..|..+++.++|.+|+..+-.+=+ .-.+++-...=+.|||+.+++. ++ |...|.++
T Consensus 19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~-----------~~p~~~~~~~~la~~~~~~~~~---~~-------A~~~~~~~ 77 (135)
T TIGR02552 19 QIYALAYNLYQQGRYDEALKLFQLLAA-----------YDPYNSRYWLGLAACCQMLKEY---EE-------AIDAYALA 77 (135)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHH-----------hCCCcHHHHHHHHHHHHHHHHH---HH-------HHHHHHHH
Confidence 356788999999999999988744322 2233445555668899888664 33 44444444
Q ss_pred hCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 86 yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
...++. ....+...|.+.+..|++++|...+..+-...
T Consensus 78 ~~~~p~---------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~ 115 (135)
T TIGR02552 78 AALDPD---------------DPRPYFHAAECLLALGEPESALKALDLAIEIC 115 (135)
T ss_pred HhcCCC---------------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence 332211 23344556778888999999999887775544
No 23
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.87 E-value=0.056 Score=41.30 Aligned_cols=27 Identities=37% Similarity=0.599 Sum_probs=21.3
Q ss_pred chHHHHHHHHhCCCCHHHHHHHHHHcC
Q 014748 275 AADAKIEQLVAMGFERPRVIEACRAGG 301 (419)
Q Consensus 275 ~d~~~I~~L~~MGF~~~~A~~AL~~~~ 301 (419)
.+.+.|.++++|||+++.+++||+.-|
T Consensus 8 i~~~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 8 IDKDLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp -SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred CCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence 577899999999999999999998765
No 24
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=93.78 E-value=0.55 Score=34.52 Aligned_cols=94 Identities=22% Similarity=0.236 Sum_probs=59.7
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (419)
++..|..+++.++|.+|+.++..+=+.. .+.......+.+||+..+ +...|.+.|.++.
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~----------~~~~a~~~~~~~~ 61 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD-----------PDNADAYYNLAAAYYKLG----------KYEEALEDYEKAL 61 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC-----------CccHHHHHHHHHHHHHHH----------HHHHHHHHHHHHH
Confidence 5678999999999999999987664332 222256778899998873 3445555555554
Q ss_pred CCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 87 G~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
-..+... ..+...+.+.+..|+.++|...+..+..
T Consensus 62 ~~~~~~~---------------~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 62 ELDPDNA---------------KAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred hCCCcch---------------hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 3221111 2233344556667888888888776543
No 25
>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=93.77 E-value=0.16 Score=36.21 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=33.1
Q ss_pred CHHHHHHHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 144 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 144 dee~l~~LmeM--GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
.++.+.+|.+| .++...++..|+.++||++.|++-|++.
T Consensus 2 ~~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 2 NDEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred hHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 46788999999 4457889999999999999999988764
No 26
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.66 E-value=0.14 Score=48.20 Aligned_cols=40 Identities=23% Similarity=0.300 Sum_probs=37.0
Q ss_pred chHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcC
Q 014748 275 AADAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGE 314 (419)
Q Consensus 275 ~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~ 314 (419)
.+...|+.|.+|||++..++.+|...+-|.+.|.+.||+.
T Consensus 161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s~ 200 (200)
T KOG0418|consen 161 WDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLSG 200 (200)
T ss_pred hhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhccC
Confidence 4788999999999999999999999999999999999863
No 27
>PRK09377 tsf elongation factor Ts; Provisional
Probab=92.38 E-value=0.21 Score=50.20 Aligned_cols=40 Identities=23% Similarity=0.314 Sum_probs=35.0
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 143 vdee~l~~LmeM-GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
+....|..|-++ |.+..+|++||..|+||++.|++||.+.
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~ 44 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKK 44 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 456677888776 9999999999999999999999999764
No 28
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=92.38 E-value=0.21 Score=50.26 Aligned_cols=41 Identities=24% Similarity=0.229 Sum_probs=35.3
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhch
Q 014748 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (419)
Q Consensus 143 vdee~l~~LmeM-GF~~~~ArrALrat~gdve~Av~~L~e~~ 183 (419)
+....|..|-++ |.+..+||+||..|+||++.|++||...-
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG 44 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESG 44 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 455677888776 99999999999999999999999996643
No 29
>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=92.09 E-value=0.34 Score=34.72 Aligned_cols=39 Identities=23% Similarity=0.297 Sum_probs=29.2
Q ss_pred HHHHHHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhchh
Q 014748 146 ESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (419)
Q Consensus 146 e~l~~Lme-MGF~~~~ArrALrat~gdve~Av~~L~e~~~ 184 (419)
++|.+.|+ .|-++..|+.-|..+++|++.|++..++..+
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 44555554 3889999999999999999999998876544
No 30
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=92.02 E-value=3.1 Score=37.58 Aligned_cols=66 Identities=15% Similarity=0.036 Sum_probs=45.8
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
+..++.+|..+++.++|++|+.++..|=+.-..+ .+.+.....+..||+.+++. +.|...+.+|-+
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~--------~~~~~~~~~la~~~~~~g~~---~~A~~~~~~al~ 100 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDP--------NDRSYILYNMGIIYASNGEH---DKALEYYHQALE 100 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc--------chHHHHHHHHHHHHHHcCCH---HHHHHHHHHHHH
Confidence 4567889999999999999999998875532211 12355677888899888764 455555544433
No 31
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=92.02 E-value=0.27 Score=46.88 Aligned_cols=40 Identities=25% Similarity=0.342 Sum_probs=34.4
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 143 vdee~l~~LmeM-GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
|+...|..|-++ |.+..+|+.||..++||++.|++||...
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~ 43 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREK 43 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 455667777765 9999999999999999999999999654
No 32
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=92.01 E-value=0.23 Score=47.29 Aligned_cols=37 Identities=27% Similarity=0.285 Sum_probs=33.9
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 215 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 215 v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
++...|..|+++ |.+--.|++||..++||++.|++||
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~l 40 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWL 40 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 466789999999 8888999999999999999999998
No 33
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=92.00 E-value=1.7 Score=35.38 Aligned_cols=104 Identities=13% Similarity=0.115 Sum_probs=65.5
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (419)
.++.+|..++++++|++|..++..+=+.+..+. +.+-..+-+..||+..++ ...|...+..+-..+
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~--- 69 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKST--------YAPNAHYWLGEAYYAQGK---YADAAKAFLAVVKKY--- 69 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcc--------ccHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHHC---
Confidence 467899999999999999999988877665432 223344557888887764 344544444433211
Q ss_pred hCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhc
Q 014748 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF 139 (419)
Q Consensus 86 yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~ 139 (419)
. ++.. .....+.-|.+.++.|+.++|..++..+-..++
T Consensus 70 -p----------~~~~-----~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 107 (119)
T TIGR02795 70 -P----------KSPK-----APDALLKLGMSLQELGDKEKAKATLQQVIKRYP 107 (119)
T ss_pred -C----------CCCc-----ccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence 1 1100 011122234445678999999999988766654
No 34
>PRK09377 tsf elongation factor Ts; Provisional
Probab=91.96 E-value=0.22 Score=50.14 Aligned_cols=37 Identities=27% Similarity=0.278 Sum_probs=34.2
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 215 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 215 v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
++...|..|+++ |.+--.|++||..++||++.|++||
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~L 41 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWL 41 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 467789999999 8888999999999999999999999
No 35
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=91.88 E-value=0.21 Score=49.63 Aligned_cols=41 Identities=24% Similarity=0.274 Sum_probs=34.6
Q ss_pred HHHHhCCCCHHHHHHHHHHc-CCCHHHHHHHh-hcCCCCCCcc
Q 014748 281 EQLVAMGFERPRVIEACRAG-GDDIHQIMLQL-LGEPGSNPTA 321 (419)
Q Consensus 281 ~~L~~MGF~~~~A~~AL~~~-~nN~e~A~d~L-l~~~~~~~~~ 321 (419)
.+|+.|||++..+..||-.+ +.++++|++|| .+|-+++..+
T Consensus 5 ~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~~a 47 (290)
T KOG2689|consen 5 QSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPIDA 47 (290)
T ss_pred HHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCccc
Confidence 78999999999999999877 55899999999 7776665533
No 36
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=91.72 E-value=0.24 Score=49.81 Aligned_cols=37 Identities=27% Similarity=0.315 Sum_probs=34.0
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 215 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 215 v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
++...|..|+++ |..--.|++||..++||++.|++||
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~L 40 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNL 40 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 466789999999 8888999999999999999999999
No 37
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=91.27 E-value=0.44 Score=41.77 Aligned_cols=41 Identities=32% Similarity=0.545 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 014748 141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVE 181 (419)
Q Consensus 141 l~vdee~l~~Lme-MGF~~~~ArrALrat~gdve~Av~~L~e 181 (419)
..++++.|..+++ -|-++.+|++||..|+||+-.|+-+|.+
T Consensus 73 ~~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 73 VEIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 5689999998886 5999999999999999999999998864
No 38
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.68 E-value=0.25 Score=46.59 Aligned_cols=39 Identities=21% Similarity=0.294 Sum_probs=34.9
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 014748 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (419)
Q Consensus 143 vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e 181 (419)
.+..+|..|.+|||++..+..+|+..+-|.+.|.+.+++
T Consensus 161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~~~s 199 (200)
T KOG0418|consen 161 WDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQLLS 199 (200)
T ss_pred hhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHhhcc
Confidence 345799999999999999999999999999999988765
No 39
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=90.66 E-value=11 Score=33.34 Aligned_cols=23 Identities=43% Similarity=0.603 Sum_probs=15.4
Q ss_pred HhhhhccCChhHHHHHhHhHHhh
Q 014748 115 GVAAYHSGQFDKARNALTSAQAK 137 (419)
Q Consensus 115 gvv~~~~g~~~eA~~~L~~a~~~ 137 (419)
|.+.+..|++++|...+..+-..
T Consensus 142 ~~~~~~~g~~~~A~~~~~~~~~~ 164 (234)
T TIGR02521 142 GLCALKAGDFDKAEKYLTRALQI 164 (234)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHh
Confidence 55566777777777777666443
No 40
>CHL00098 tsf elongation factor Ts
Probab=90.28 E-value=0.44 Score=45.51 Aligned_cols=36 Identities=22% Similarity=0.254 Sum_probs=30.7
Q ss_pred HHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 147 SLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 147 ~l~~LmeM-GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
.|..|-++ |.+..+|++||..++||++.|++||...
T Consensus 4 ~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~ 40 (200)
T CHL00098 4 LVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQK 40 (200)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 45556554 8999999999999999999999999664
No 41
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=90.27 E-value=0.27 Score=48.87 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=34.4
Q ss_pred HHHHHhCCCCHHHHHHHHHHhC-CCHHHHHHHH-Hhchhhhh
Q 014748 148 LSLVMSMGFKEQDAKRALRICS-QDVGSAIDFL-VEEKAKRV 187 (419)
Q Consensus 148 l~~LmeMGF~~~~ArrALrat~-gdve~Av~~L-~e~~~d~~ 187 (419)
+++||+|||+...+-+||.-++ -+++.|+.|| +.|-.++.
T Consensus 4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~ 45 (290)
T KOG2689|consen 4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI 45 (290)
T ss_pred HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc
Confidence 3789999999999999999884 4799999999 88866654
No 42
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=90.10 E-value=2.2 Score=46.53 Aligned_cols=95 Identities=16% Similarity=0.044 Sum_probs=52.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (419)
+.-.|...+.+++|++|+..+-.|=+. =.+++-..+-+.|||+.+++ ..+|..-+.++-+.
T Consensus 334 ~~~lg~~~~~~g~~~eA~~~~~kal~l-----------~P~~~~~~~~la~~~~~~g~---~~eA~~~~~~al~~----- 394 (615)
T TIGR00990 334 LNLRGTFKCLKGKHLEALADLSKSIEL-----------DPRVTQSYIKRASMNLELGD---PDKAEEDFDKALKL----- 394 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHc-----------CCCcHHHHHHHHHHHHHCCC---HHHHHHHHHHHHHh-----
Confidence 444555556666666666665444222 12334444566777766543 33444443333221
Q ss_pred CCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhh
Q 014748 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (419)
Q Consensus 87 G~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~ 137 (419)
++. . ...+...|.+.|..|++++|...+.++-..
T Consensus 395 --~p~---------~------~~~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 395 --NSE---------D------PDIYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred --CCC---------C------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 111 1 123445577888999999999998887543
No 43
>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=90.09 E-value=0.52 Score=41.32 Aligned_cols=39 Identities=31% Similarity=0.557 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 014748 142 QVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLV 180 (419)
Q Consensus 142 ~vdee~l~~Lme-MGF~~~~ArrALrat~gdve~Av~~L~ 180 (419)
.++++.|..+++ -|-++..|++||..|+||+-.|+-+|.
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 589999998876 599999999999999999999998885
No 44
>CHL00098 tsf elongation factor Ts
Probab=89.93 E-value=0.46 Score=45.40 Aligned_cols=34 Identities=35% Similarity=0.378 Sum_probs=30.8
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 218 EKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 218 ~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
..|..|+++ |.+--.|++||..++||++.|++||
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~L 37 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANGDFEKALESL 37 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 457888888 7788889999999999999999998
No 45
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=89.34 E-value=2.3 Score=40.88 Aligned_cols=76 Identities=24% Similarity=0.184 Sum_probs=56.8
Q ss_pred chhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhH
Q 014748 47 NGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDK 126 (419)
Q Consensus 47 N~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~e 126 (419)
..|.|.|=|.|+|.-+.+ -.....-|++|-+.|+++|= ......+--=-.+|..|=|-+.+.-|++++
T Consensus 116 ~~A~l~LrlAWlyR~~~~---~~~E~~fl~~Al~~y~~a~~---------~e~~~~~~~~~~~l~YLigeL~rrlg~~~e 183 (214)
T PF09986_consen 116 KKAGLCLRLAWLYRDLGD---EENEKRFLRKALEFYEEAYE---------NEDFPIEGMDEATLLYLIGELNRRLGNYDE 183 (214)
T ss_pred HHHHHHHHHHHHhhccCC---HHHHHHHHHHHHHHHHHHHH---------hCcCCCCCchHHHHHHHHHHHHHHhCCHHH
Confidence 569999999999988888 66677889999999999995 111111111112366677888889999999
Q ss_pred HHHHhHhH
Q 014748 127 ARNALTSA 134 (419)
Q Consensus 127 A~~~L~~a 134 (419)
|...|...
T Consensus 184 A~~~fs~v 191 (214)
T PF09986_consen 184 AKRWFSRV 191 (214)
T ss_pred HHHHHHHH
Confidence 99888665
No 46
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=88.82 E-value=2.2 Score=43.71 Aligned_cols=98 Identities=21% Similarity=0.166 Sum_probs=65.4
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
--|..+|..+++.++|.+|+.++-.|=+... +.+-+.+...-||+.+++ +.+|..-+.+|-+.
T Consensus 3 ~~l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P-----------~~~~a~~~~a~~~~~~g~---~~eAl~~~~~Al~l--- 65 (356)
T PLN03088 3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDP-----------NNAELYADRAQANIKLGN---FTEAVADANKAIEL--- 65 (356)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-----------CCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHh---
Confidence 3467899999999999999999977754332 223445677888888754 44555444444332
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
++ .. ...++.-|++.|+.|++++|...+..+-...
T Consensus 66 ----~P---------~~------~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~ 100 (356)
T PLN03088 66 ----DP---------SL------AKAYLRKGTACMKLEEYQTAKAALEKGASLA 100 (356)
T ss_pred ----Cc---------CC------HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence 11 11 1123345888899999999999998876533
No 47
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=87.48 E-value=0.79 Score=48.97 Aligned_cols=37 Identities=43% Similarity=0.698 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCC-CHHHHHHHHHHcCCCHHHHHHHhhc
Q 014748 277 DAKIEQLVAMGF-ERPRVIEACRAGGDDIHQIMLQLLG 313 (419)
Q Consensus 277 ~~~I~~L~~MGF-~~~~A~~AL~~~~nN~e~A~d~Ll~ 313 (419)
+.-+++|.+||| +++...+||++++||+++|++.|+.
T Consensus 455 q~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll~ 492 (493)
T KOG0010|consen 455 QTQLEQLNDMGFLDREANLQALRATGGDINAAVERLLG 492 (493)
T ss_pred HHHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 566899999997 5778899999999999999999974
No 48
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=87.21 E-value=3.8 Score=44.45 Aligned_cols=27 Identities=15% Similarity=-0.037 Sum_probs=21.5
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhh
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEE 32 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade 32 (419)
.++..|+.+++.++|++|+..|-.+-+
T Consensus 58 ~~~~l~~~~~~~g~~~~A~~~~~~~~~ 84 (899)
T TIGR02917 58 ARFLLGKIYLALGDYAAAEKELRKALS 84 (899)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 456788889999999999988877643
No 49
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=87.14 E-value=2.9 Score=37.71 Aligned_cols=77 Identities=17% Similarity=0.024 Sum_probs=61.6
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC----CCCHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD----ISWLSEAGIRLRKARE 80 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~----~~~l~dA~~rL~~ae~ 80 (419)
..++-.|..+.+.++|+.|+.++..|=+.. .+++.....+.|||+.+.+ ...+..|..++.+|.+
T Consensus 73 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~-----------p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~ 141 (172)
T PRK02603 73 YILYNMGIIYASNGEHDKALEYYHQALELN-----------PKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAE 141 (172)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------cccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHH
Confidence 467788999999999999999887654432 3345556688999999987 5789999999999999
Q ss_pred HHHHHhCCChHH
Q 014748 81 GIERAHGKDSSR 92 (419)
Q Consensus 81 ~f~r~yG~~~~R 92 (419)
+|++..+.++.-
T Consensus 142 ~~~~a~~~~p~~ 153 (172)
T PRK02603 142 YWKQAIRLAPNN 153 (172)
T ss_pred HHHHHHhhCchh
Confidence 999988877664
No 50
>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=85.35 E-value=0.86 Score=34.91 Aligned_cols=28 Identities=18% Similarity=0.325 Sum_probs=21.8
Q ss_pred CCCHHHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 142 QVPDESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 142 ~vdee~l~~LmeMGF~~~~ArrALrat~ 169 (419)
-+|.+.|.++..|||+......|||.-+
T Consensus 7 Gi~~~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 7 GIDKDLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp --SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred CCCHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence 3688999999999999999999999864
No 51
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=85.32 E-value=13 Score=32.85 Aligned_cols=96 Identities=16% Similarity=0.120 Sum_probs=60.4
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
-.+...|+..++.++|++|+..+..+=+. --+.+....-+..+|+..++. ..|...+.++-+.
T Consensus 32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~-----------~p~~~~~~~~la~~~~~~~~~---~~A~~~~~~al~~--- 94 (234)
T TIGR02521 32 KIRVQLALGYLEQGDLEVAKENLDKALEH-----------DPDDYLAYLALALYYQQLGEL---EKAEDSFRRALTL--- 94 (234)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CcccHHHHHHHHHHHHHcCCH---HHHHHHHHHHHhh---
Confidence 35667899999999999999998877332 123344555577778776643 4455544444332
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
.++.. ......|.+.+..|++++|...+..+-.
T Consensus 95 --~~~~~-----------------~~~~~~~~~~~~~g~~~~A~~~~~~~~~ 127 (234)
T TIGR02521 95 --NPNNG-----------------DVLNNYGTFLCQQGKYEQAMQQFEQAIE 127 (234)
T ss_pred --CCCCH-----------------HHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence 11111 1122235566788999999999988754
No 52
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=84.67 E-value=1.9 Score=37.88 Aligned_cols=39 Identities=23% Similarity=0.301 Sum_probs=35.2
Q ss_pred cCCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhhc
Q 014748 214 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT 252 (419)
Q Consensus 214 ~v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L~ 252 (419)
.++++.|..+++- |-++..|++||..++||+-.|+-+|+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~ 113 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLS 113 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHh
Confidence 4688899999988 99999999999999999999988774
No 53
>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=84.26 E-value=1.8 Score=37.98 Aligned_cols=38 Identities=16% Similarity=0.297 Sum_probs=32.8
Q ss_pred chHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHHhh
Q 014748 275 AADAKIEQLVAM-GFERPRVIEACRAGGDDIHQIMLQLL 312 (419)
Q Consensus 275 ~d~~~I~~L~~M-GF~~~~A~~AL~~~~nN~e~A~d~Ll 312 (419)
++++.|+.+++- |-+++.|+.||+.|+||+-.|+-+|.
T Consensus 77 i~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~L~ 115 (116)
T TIGR00264 77 ITEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMKLE 115 (116)
T ss_pred CCHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHHhh
Confidence 567778777654 99999999999999999999998873
No 54
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=84.06 E-value=12 Score=40.92 Aligned_cols=62 Identities=13% Similarity=0.031 Sum_probs=42.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~ 81 (419)
.+...|..++..++|++|+.++-.|=+.. .+++-+..-+.+||+.+++ ...|...+.++-..
T Consensus 367 ~~~~la~~~~~~g~~~eA~~~~~~al~~~-----------p~~~~~~~~lg~~~~~~g~---~~~A~~~~~kal~l 428 (615)
T TIGR00990 367 SYIKRASMNLELGDPDKAEEDFDKALKLN-----------SEDPDIYYHRAQLHFIKGE---FAQAGKDYQKSIDL 428 (615)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-----------CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHc
Confidence 45667888888889999998887764331 2344455557778887655 56777777776543
No 55
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=83.92 E-value=3.8 Score=32.40 Aligned_cols=83 Identities=19% Similarity=0.255 Sum_probs=45.7
Q ss_pred hhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHHH
Q 014748 17 RHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLL 96 (419)
Q Consensus 17 ~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~l 96 (419)
+++|+.|+.++-..=+.-.. +. |+-.++. +.+|||.+++- .+|-..|++ .. +
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~------~~-~~~~~~~--la~~~~~~~~y----------~~A~~~~~~-~~--------~ 53 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPT------NP-NSAYLYN--LAQCYFQQGKY----------EEAIELLQK-LK--------L 53 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCG------TH-HHHHHHH--HHHHHHHTTHH----------HHHHHHHHC-HT--------H
T ss_pred CccHHHHHHHHHHHHHHCCC------Ch-hHHHHHH--HHHHHHHCCCH----------HHHHHHHHH-hC--------C
Confidence 57888888876432111110 11 2223333 89999998864 344444443 11 1
Q ss_pred HcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhH
Q 014748 97 QAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (419)
Q Consensus 97 kg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a 134 (419)
.+.. ++.+.+-|-..|..|++++|..+|.++
T Consensus 54 ~~~~-------~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 54 DPSN-------PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHCH-------HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred CCCC-------HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 1111 233334487888999999999999865
No 56
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=83.57 E-value=12 Score=33.48 Aligned_cols=110 Identities=12% Similarity=-0.040 Sum_probs=66.6
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE 83 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~ 83 (419)
++.++-.|.....+++|++|+.++..|=..+... . ..+.....|..||..+++ ..+|..-+.+|-.. .
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~-------~-~~~~~~~~lg~~~~~~g~---~~eA~~~~~~Al~~-~ 102 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDP-------Y-DRSYILYNIGLIHTSNGE---HTKALEYYFQALER-N 102 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccc-------h-hhHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHh-C
Confidence 5677889999999999999999999987664311 1 123344556677777644 35555555554433 1
Q ss_pred HHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhc
Q 014748 84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF 139 (419)
Q Consensus 84 r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~ 139 (419)
..++. -....-.++..+|.+.+..|++++|...+..+..-+.
T Consensus 103 ~~~~~--------------~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~ 144 (168)
T CHL00033 103 PFLPQ--------------ALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWK 144 (168)
T ss_pred cCcHH--------------HHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHH
Confidence 11110 0112223444455555678888888888877755443
No 57
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=82.65 E-value=1.8 Score=46.28 Aligned_cols=35 Identities=29% Similarity=0.466 Sum_probs=30.7
Q ss_pred HHHHHHHhCCCC-HHHHHHHHHHhCCCHHHHHHHHH
Q 014748 146 ESLSLVMSMGFK-EQDAKRALRICSQDVGSAIDFLV 180 (419)
Q Consensus 146 e~l~~LmeMGF~-~~~ArrALrat~gdve~Av~~L~ 180 (419)
..+.||-+|||. +.+..+||++++|||.+||+.|+
T Consensus 456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll 491 (493)
T KOG0010|consen 456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERLL 491 (493)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHh
Confidence 578999999996 55667899999999999999875
No 58
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=82.47 E-value=1.9 Score=43.45 Aligned_cols=36 Identities=28% Similarity=0.249 Sum_probs=30.6
Q ss_pred CHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 216 DIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 216 ~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
....|..|++. |=.--.|++||-.++||++.|++||
T Consensus 5 ta~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~L 41 (296)
T COG0264 5 TAALVKELREKTGAGMMDCKKALEEANGDIEKAIEWL 41 (296)
T ss_pred cHHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence 45678888888 5555779999999999999999998
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=82.22 E-value=1.9 Score=31.53 Aligned_cols=24 Identities=21% Similarity=0.574 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++.+..|+.+||++.++.+|++..
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 578999999999999999999976
No 60
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=81.79 E-value=28 Score=37.87 Aligned_cols=148 Identities=16% Similarity=0.123 Sum_probs=100.1
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (419)
+|=-|.....+++|+.|.++.-.|=+. .|..+.+..-+=...++ ||=+.+.++..-.+|.--+++|=..++.+|
T Consensus 202 ~~~La~~y~~~g~~e~A~~l~k~Al~~--l~k~~G~~hl~va~~l~----~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~ 275 (508)
T KOG1840|consen 202 LRNLAEMYAVQGRLEKAEPLCKQALRI--LEKTSGLKHLVVASMLN----ILALVYRSLGKYDEAVNLYEEALTIREEVF 275 (508)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHH--HHHccCccCHHHHHHHH----HHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence 334577788899999998887766444 33333344444344444 888899999999999999999999999999
Q ss_pred CCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccC-CCCHHHHH-HHHhCCCCHHHHHHH
Q 014748 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL-QVPDESLS-LVMSMGFKEQDAKRA 164 (419)
Q Consensus 87 G~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l-~vdee~l~-~LmeMGF~~~~ArrA 164 (419)
|+++.++.+. +-+| ++..+.+|++++|..+++.|-.-+.++ -.+...|. +|.+ - -+
T Consensus 276 G~~h~~va~~----------l~nL----a~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~-----~---~~ 333 (508)
T KOG1840|consen 276 GEDHPAVAAT----------LNNL----AVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSE-----L---AA 333 (508)
T ss_pred CCCCHHHHHH----------HHHH----HHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHH-----H---HH
Confidence 9999999654 3332 233478899999999999986544432 12223332 2222 1 12
Q ss_pred HHHhCCCHHHHHHHHHhc
Q 014748 165 LRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 165 Lrat~gdve~Av~~L~e~ 182 (419)
+....|..+.|..+++..
T Consensus 334 ~~~~~~~~Eea~~l~q~a 351 (508)
T KOG1840|consen 334 ILQSMNEYEEAKKLLQKA 351 (508)
T ss_pred HHHHhcchhHHHHHHHHH
Confidence 233356689998887633
No 61
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=81.41 E-value=14 Score=40.10 Aligned_cols=90 Identities=14% Similarity=0.018 Sum_probs=68.6
Q ss_pred chhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 014748 2 MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (419)
Q Consensus 2 ~~~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~ 81 (419)
.|+.++--=|..++..+.|++|..++-.|=..+-.|--+-... +|+.-.|+.--|.. ..-..+|+....+|-..
T Consensus 239 ~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~---va~~l~nLa~ly~~---~GKf~EA~~~~e~Al~I 312 (508)
T KOG1840|consen 239 VVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPA---VAATLNNLAVLYYK---QGKFAEAEEYCERALEI 312 (508)
T ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHH---HHHHHHHHHHHHhc---cCChHHHHHHHHHHHHH
Confidence 3455555668999999999999999999866665554433333 36666777777744 45678999999999999
Q ss_pred HHHHhCCChHHHHHHH
Q 014748 82 IERAHGKDSSRVRLLQ 97 (419)
Q Consensus 82 f~r~yG~~~~Rl~~lk 97 (419)
+++.||.++.||....
T Consensus 313 ~~~~~~~~~~~v~~~l 328 (508)
T KOG1840|consen 313 YEKLLGASHPEVAAQL 328 (508)
T ss_pred HHHhhccChHHHHHHH
Confidence 9999999999986543
No 62
>PRK04841 transcriptional regulator MalT; Provisional
Probab=81.40 E-value=27 Score=39.45 Aligned_cols=146 Identities=16% Similarity=0.125 Sum_probs=86.8
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
+.++--|......++|++|+.++-.|-+.+..+++.... +.....+.+.|+.. ..++.|...+.++.....+
T Consensus 492 ~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~-----~~~~~~la~~~~~~---G~~~~A~~~~~~al~~~~~ 563 (903)
T PRK04841 492 VATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYA-----LWSLLQQSEILFAQ---GFLQAAYETQEKAFQLIEE 563 (903)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHH-----HHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHHHH
Confidence 344556677778888888888888888777766543322 22223445555554 4578888888888887766
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHH
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRA 164 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrA 164 (419)
.++... + ....++...+.+.|..|+.++|..++..+-....... +...+..+. ..+ .
T Consensus 564 ~~~~~~-----------~---~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~-~~~~~~~~~------~la--~ 620 (903)
T PRK04841 564 QHLEQL-----------P---MHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQ-PQQQLQCLA------MLA--K 620 (903)
T ss_pred hccccc-----------c---HHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccC-chHHHHHHH------HHH--H
Confidence 544211 0 0111133457778899999999999988766554332 111111111 111 1
Q ss_pred HHHhCCCHHHHHHHHHh
Q 014748 165 LRICSQDVGSAIDFLVE 181 (419)
Q Consensus 165 Lrat~gdve~Av~~L~e 181 (419)
+....|+.+.|..++..
T Consensus 621 ~~~~~G~~~~A~~~l~~ 637 (903)
T PRK04841 621 ISLARGDLDNARRYLNR 637 (903)
T ss_pred HHHHcCCHHHHHHHHHH
Confidence 33456788888776633
No 63
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=81.35 E-value=45 Score=36.21 Aligned_cols=27 Identities=30% Similarity=0.378 Sum_probs=19.7
Q ss_pred HHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 110 MELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 110 L~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
.+...|.+.+..|++++|...+.++-.
T Consensus 467 ~~~~l~~~~~~~~~~~~A~~~~~~a~~ 493 (899)
T TIGR02917 467 LHNLLGAIYLGKGDLAKAREAFEKALS 493 (899)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence 344557777788888888888877644
No 64
>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=80.89 E-value=2.3 Score=35.09 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=31.1
Q ss_pred HHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhchh
Q 014748 149 SLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (419)
Q Consensus 149 ~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~~~ 184 (419)
..+-+.||+...+..||++|.||+..|..|++++..
T Consensus 2 ~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~l~ 37 (87)
T PF11626_consen 2 KHYEELGYSREFVTHALYATSGDPELARRFVLNFLQ 37 (87)
T ss_dssp HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHCHC
T ss_pred chHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 456788999999999999999999999999988743
No 65
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=80.58 E-value=10 Score=33.84 Aligned_cols=79 Identities=14% Similarity=-0.078 Sum_probs=60.1
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhC----CCCCHHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLR----DISWLSEAGIRLRKAR 79 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~----~~~~l~dA~~rL~~ae 79 (419)
+..++..|..+.++++|++|+.++-.|=+. -..++--...+.++|.-+. .......|...+.++.
T Consensus 72 ~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~-----------~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~ 140 (168)
T CHL00033 72 SYILYNIGLIHTSNGEHTKALEYYFQALER-----------NPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAA 140 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----------CcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHH
Confidence 456788899999999999999988666543 2223333456678888555 5667889999999999
Q ss_pred HHHHHHhCCChHHH
Q 014748 80 EGIERAHGKDSSRV 93 (419)
Q Consensus 80 ~~f~r~yG~~~~Rl 93 (419)
..|++.+|.+|.+.
T Consensus 141 ~~~~~a~~~~p~~~ 154 (168)
T CHL00033 141 EYWKQAIALAPGNY 154 (168)
T ss_pred HHHHHHHHhCcccH
Confidence 99999999988543
No 66
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=80.26 E-value=1.3e+02 Score=35.86 Aligned_cols=28 Identities=14% Similarity=0.014 Sum_probs=21.6
Q ss_pred HHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 111 ELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 111 ~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
...++.+....|++++|...+..+-...
T Consensus 464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~ 491 (1157)
T PRK11447 464 LAQQAEALENQGKWAQAAELQRQRLALD 491 (1157)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 4456777778899999999998876544
No 67
>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=78.91 E-value=2.5 Score=34.78 Aligned_cols=35 Identities=23% Similarity=0.194 Sum_probs=29.6
Q ss_pred HHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhcC
Q 014748 280 IEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLGE 314 (419)
Q Consensus 280 I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~ 314 (419)
|..+.+.||+...+..||.+|.+|+..|..|++..
T Consensus 1 i~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~ 35 (87)
T PF11626_consen 1 IKHYEELGYSREFVTHALYATSGDPELARRFVLNF 35 (87)
T ss_dssp -HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHC
T ss_pred CchHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 34567789999999999999999999999988776
No 68
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=78.27 E-value=4.1 Score=35.26 Aligned_cols=48 Identities=25% Similarity=0.384 Sum_probs=41.4
Q ss_pred HHhhhccCCCCHHHHHHHH-hCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 014748 134 AQAKFFQLQVPDESLSLVM-SMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (419)
Q Consensus 134 a~~~~~~l~vdee~l~~Lm-eMGF~~~~ArrALrat~gdve~Av~~L~e 181 (419)
.+.++++++|..+.|..+| +|-.++..|.+-||-.+|||-.|+.-|++
T Consensus 70 rEKELakV~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s 118 (119)
T KOG3450|consen 70 REKELAKVTIKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS 118 (119)
T ss_pred HHhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence 3566788999999999665 68889999999999999999999987764
No 69
>PRK12370 invasion protein regulator; Provisional
Probab=77.55 E-value=18 Score=39.26 Aligned_cols=104 Identities=16% Similarity=0.180 Sum_probs=62.0
Q ss_pred hhHhHHHHHHh---hchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 014748 7 LHANAKSLIKR---HMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE 83 (419)
Q Consensus 7 lhek~r~~~~~---~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~ 83 (419)
++=+|+..+.+ +.+++|+.++-.| ++.=-||+....=+.|||+.+......+ ...++..|...++
T Consensus 261 ~~lrg~~~~~~~~~~~~~~A~~~~~~A-----------l~ldP~~a~a~~~La~~~~~~~~~g~~~-~~~~~~~A~~~~~ 328 (553)
T PRK12370 261 VYLRGKHELNQYTPYSLQQALKLLTQC-----------VNMSPNSIAPYCALAECYLSMAQMGIFD-KQNAMIKAKEHAI 328 (553)
T ss_pred HHHHhHHHHHccCHHHHHHHHHHHHHH-----------HhcCCccHHHHHHHHHHHHHHHHcCCcc-cchHHHHHHHHHH
Confidence 44456655543 4455666655444 3334456666667799999887765543 3345677777777
Q ss_pred HHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhh
Q 014748 84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (419)
Q Consensus 84 r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~ 137 (419)
+.---++. .++ .+..-|.+.+..|++++|..++..|-+.
T Consensus 329 ~Al~ldP~---------~~~------a~~~lg~~~~~~g~~~~A~~~~~~Al~l 367 (553)
T PRK12370 329 KATELDHN---------NPQ------ALGLLGLINTIHSEYIVGSLLFKQANLL 367 (553)
T ss_pred HHHhcCCC---------CHH------HHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence 65442221 111 1223366667788999999888877553
No 70
>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=77.20 E-value=3.4 Score=30.14 Aligned_cols=25 Identities=16% Similarity=0.403 Sum_probs=20.6
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 276 ADAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 276 d~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
-++.+.-|+++||++..+..|++..
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3567899999999999999998765
No 71
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=76.24 E-value=5.1 Score=35.47 Aligned_cols=40 Identities=30% Similarity=0.444 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 014748 141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLV 180 (419)
Q Consensus 141 l~vdee~l~~Lme-MGF~~~~ArrALrat~gdve~Av~~L~ 180 (419)
..++++.|...|+ -|-++++|++||..++||+-.|+--|.
T Consensus 81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 4578888887765 699999999999999999888876653
No 72
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=75.82 E-value=57 Score=32.54 Aligned_cols=26 Identities=12% Similarity=-0.060 Sum_probs=17.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade 32 (419)
+...|..+.++++|++|+.++-.+=+
T Consensus 72 ~~~la~~~~~~g~~~~A~~~~~~~l~ 97 (389)
T PRK11788 72 HLALGNLFRRRGEVDRAIRIHQNLLS 97 (389)
T ss_pred HHHHHHHHHHcCcHHHHHHHHHHHhc
Confidence 44567777777777777777655543
No 73
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=75.55 E-value=16 Score=27.32 Aligned_cols=62 Identities=18% Similarity=0.108 Sum_probs=42.2
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~a 78 (419)
+-.++..|..+++.++|++|+..+..|=+. --|.+.+-.=+.=||+.+++ +...|..-+.+|
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~-----------~p~~~~~~~~~g~~~~~~~~--~~~~A~~~~~~a 64 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL-----------DPNNAEAYYNLGLAYMKLGK--DYEEAIEDFEKA 64 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-----------STTHHHHHHHHHHHHHHTTT--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----------CCCCHHHHHHHHHHHHHhCc--cHHHHHHHHHHH
Confidence 446789999999999999999998776332 23444455556667888863 344555544444
No 74
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=75.02 E-value=48 Score=30.79 Aligned_cols=156 Identities=11% Similarity=0.032 Sum_probs=74.5
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
-.++.+|..++++++|++|+..+..+=+.+.... .+.--.+.+.=||+..+ ....|...++++-+.+-.
T Consensus 34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~--------~~~~a~~~la~~~~~~~---~~~~A~~~~~~~l~~~p~ 102 (235)
T TIGR03302 34 EELYEEAKEALDSGDYTEAIKYFEALESRYPFSP--------YAEQAQLDLAYAYYKSG---DYAEAIAAADRFIRLHPN 102 (235)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCch--------hHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHCcC
Confidence 3578999999999999999999887755554211 01111233445666654 345555555544432221
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHH--H
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDA--K 162 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~A--r 162 (419)
... ........|.+.-+. -+.+....|+.++|...+.++-..++.-..-...+..+..+.-..... .
T Consensus 103 ~~~--~~~a~~~~g~~~~~~---------~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~ 171 (235)
T TIGR03302 103 HPD--ADYAYYLRGLSNYNQ---------IDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELY 171 (235)
T ss_pred CCc--hHHHHHHHHHHHHHh---------cccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHH
Confidence 110 001111112111000 011122337778888888877555544321222333332221111111 1
Q ss_pred HH-HHHhCCCHHHHHHHHHhc
Q 014748 163 RA-LRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 163 rA-Lrat~gdve~Av~~L~e~ 182 (419)
.| ++...|+.+.|+.++..-
T Consensus 172 ~a~~~~~~g~~~~A~~~~~~a 192 (235)
T TIGR03302 172 VARFYLKRGAYVAAINRFETV 192 (235)
T ss_pred HHHHHHHcCChHHHHHHHHHH
Confidence 12 233457788888776443
No 75
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=73.91 E-value=39 Score=29.45 Aligned_cols=96 Identities=21% Similarity=0.188 Sum_probs=64.3
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
+.....|+.++..++|++|...|-.+=+ .....-+ .++..|-+++||+..++ .+.|...|..
T Consensus 49 ~A~l~lA~~~~~~g~~~~A~~~l~~~~~---~~~d~~l-----~~~a~l~LA~~~~~~~~---~d~Al~~L~~------- 110 (145)
T PF09976_consen 49 LAALQLAKAAYEQGDYDEAKAALEKALA---NAPDPEL-----KPLARLRLARILLQQGQ---YDEALATLQQ------- 110 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCHHH-----HHHHHHHHHHHHHHcCC---HHHHHHHHHh-------
Confidence 4566789999999999999999876433 1111111 25667788999987775 4667776643
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhH
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a 134 (419)
+.+... . -....+.|-|.+-.|++++|+..+..|
T Consensus 111 -----------~~~~~~--~---~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 111 -----------IPDEAF--K---ALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred -----------ccCcch--H---HHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 111111 1 113446898888999999999887664
No 76
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=73.11 E-value=4.2 Score=27.15 Aligned_cols=29 Identities=24% Similarity=0.255 Sum_probs=24.0
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhh
Q 014748 3 MGLMLHANAKSLIKRHMYKDALEVLTMGE 31 (419)
Q Consensus 3 ~~~~lhek~r~~~~~~~y~~aL~~ll~ad 31 (419)
++..++.-|..+..+++|++|+.++.+|=
T Consensus 1 ta~~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 1 TASALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp -HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 46788999999999999999999988763
No 77
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=72.41 E-value=4.3 Score=41.00 Aligned_cols=37 Identities=27% Similarity=0.346 Sum_probs=29.8
Q ss_pred HHHHHHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 146 ESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 146 e~l~~LmeM-GF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
..|..|-++ |=..-+|++||-.++||+|.|++||-+.
T Consensus 7 ~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~k 44 (296)
T COG0264 7 ALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREK 44 (296)
T ss_pred HHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 445555554 6677899999999999999999999654
No 78
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.40 E-value=7.3 Score=42.13 Aligned_cols=116 Identities=16% Similarity=0.183 Sum_probs=79.4
Q ss_pred HhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHH
Q 014748 16 KRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRL 95 (419)
Q Consensus 16 ~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~ 95 (419)
-.|.|.-..-+.-.|+-+|..|- ++++..|=-|.+|+...-.|+..++.+.+-.+-.++. .
T Consensus 372 LlGlys~sv~~~enAe~hf~~a~-k~t~~~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~------------------p 432 (629)
T KOG2300|consen 372 LLGLYSHSVNCYENAEFHFIEAT-KLTESIDLQAFCNLNLAISYLRIGDAEDLYKALDLIG------------------P 432 (629)
T ss_pred HHhhHhhhcchHHHHHHHHHHHH-HhhhHHHHHHHHHHhHHHHHHHhccHHHHHHHHHhcC------------------C
Confidence 35777777778888999999885 6789999999999999999999877666655544432 1
Q ss_pred HHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCC
Q 014748 96 LQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMG 155 (419)
Q Consensus 96 lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMG 155 (419)
.--++..=.+|.--..+++|..+|++|++.||+..+.+.=..- |.+.+.+|...|
T Consensus 433 ~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkma-----naed~~rL~a~~ 487 (629)
T KOG2300|consen 433 LNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMA-----NAEDLNRLTACS 487 (629)
T ss_pred CCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-----chhhHHHHHHHH
Confidence 1122222233334456678999999999999997775432111 345566666543
No 79
>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=72.29 E-value=3.1 Score=29.48 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=20.7
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHh
Q 014748 288 FERPRVIEACRAGGDDIHQIMLQL 311 (419)
Q Consensus 288 F~~~~A~~AL~~~~nN~e~A~d~L 311 (419)
|++....+||+.|+||+.+|+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH
Confidence 567788999999999999999987
No 80
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=70.96 E-value=69 Score=29.64 Aligned_cols=110 Identities=17% Similarity=0.239 Sum_probs=77.8
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 014748 3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI 82 (419)
Q Consensus 3 ~~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f 82 (419)
+-+++.++|.=+.+.|++..|+..+..+=++ +......++. .|=++=..+-++ ..+.+...+.+|+...
T Consensus 35 ir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~-------~l~~irv~i~~~---d~~~v~~~i~ka~~~~ 103 (177)
T PF10602_consen 35 IRMALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDM-------CLNVIRVAIFFG---DWSHVEKYIEKAESLI 103 (177)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHH-------HHHHHHHHHHhC---CHHHHHHHHHHHHHHH
Confidence 3578899999999999999999999886553 2222233332 222233333334 3456778899999888
Q ss_pred HHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhc
Q 014748 83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF 139 (419)
Q Consensus 83 ~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~ 139 (419)
.. |.+ ....-||..-+|+....++++.+|..+|-.....+.
T Consensus 104 ~~--~~d--------------~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~ 144 (177)
T PF10602_consen 104 EK--GGD--------------WERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFT 144 (177)
T ss_pred hc--cch--------------HHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCC
Confidence 87 435 334567889999999999999999999987766564
No 81
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=69.92 E-value=6.2 Score=25.32 Aligned_cols=26 Identities=12% Similarity=0.091 Sum_probs=22.0
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhh
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGE 31 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ad 31 (419)
.++..|..+++.++|++|+.++..|=
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al 28 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 57889999999999999999988763
No 82
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=69.51 E-value=19 Score=26.63 Aligned_cols=56 Identities=16% Similarity=0.121 Sum_probs=41.5
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 014748 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (419)
Q Consensus 9 ek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~a 78 (419)
.+|+.+++.|+|++|+.++-.+=+.+ -+.+-..+-..|||+..++ .++|..-+.++
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~-----------P~~~~a~~~lg~~~~~~g~---~~~A~~~~~~a 57 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQD-----------PDNPEAWYLLGRILYQQGR---YDEALAYYERA 57 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCS-----------TTHHHHHHHHHHHHHHTT----HHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHC-----------CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHH
Confidence 68999999999999999998776665 3355566778999997764 45666555554
No 83
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=68.78 E-value=6.7 Score=25.48 Aligned_cols=26 Identities=15% Similarity=0.114 Sum_probs=22.1
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhh
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMG 30 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~a 30 (419)
-++.-+|...+..++|++|+..+-.|
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~a 27 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRA 27 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHH
Confidence 46788999999999999999998776
No 84
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=67.81 E-value=20 Score=33.54 Aligned_cols=67 Identities=13% Similarity=0.165 Sum_probs=47.8
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (419)
.++.+|..++.+|+|.+|...|-.-...|.. |.+... -+|.|++||+..++ .++|..-++ .|.+.
T Consensus 7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~--s~~a~~------A~l~la~a~y~~~~---y~~A~~~~~----~fi~~ 71 (203)
T PF13525_consen 7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPN--SPYAPQ------AQLMLAYAYYKQGD---YEEAIAAYE----RFIKL 71 (203)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT--STTHHH------HHHHHHHHHHHTT----HHHHHHHHH----HHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC--ChHHHH------HHHHHHHHHHHcCC---HHHHHHHHH----HHHHH
Confidence 4789999999999999999999988888765 333332 47899999999976 555644443 35567
Q ss_pred hC
Q 014748 86 HG 87 (419)
Q Consensus 86 yG 87 (419)
|.
T Consensus 72 yP 73 (203)
T PF13525_consen 72 YP 73 (203)
T ss_dssp -T
T ss_pred CC
Confidence 76
No 85
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=67.38 E-value=34 Score=26.18 Aligned_cols=69 Identities=20% Similarity=0.118 Sum_probs=48.3
Q ss_pred hhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHH
Q 014748 51 LQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNA 130 (419)
Q Consensus 51 L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~ 130 (419)
....|..||+.++ ...+|..-+++|-+. .+.+|.++..+ ...+.-=|.+.+..|++++|.++
T Consensus 7 ~~~~la~~~~~~~---~~~~A~~~~~~al~~-~~~~~~~~~~~--------------a~~~~~lg~~~~~~g~~~~A~~~ 68 (78)
T PF13424_consen 7 AYNNLARVYRELG---RYDEALDYYEKALDI-EEQLGDDHPDT--------------ANTLNNLGECYYRLGDYEEALEY 68 (78)
T ss_dssp HHHHHHHHHHHTT----HHHHHHHHHHHHHH-HHHTTTHHHHH--------------HHHHHHHHHHHHHTTHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CHHHHHHHHHHHHHH-HHHHCCCCHHH--------------HHHHHHHHHHHHHcCCHHHHHHH
Confidence 3455677777554 578899999999999 88888543332 22233346677789999999999
Q ss_pred hHhHHhh
Q 014748 131 LTSAQAK 137 (419)
Q Consensus 131 L~~a~~~ 137 (419)
+.++-+-
T Consensus 69 ~~~al~i 75 (78)
T PF13424_consen 69 YQKALDI 75 (78)
T ss_dssp HHHHHHH
T ss_pred HHHHHhh
Confidence 9887553
No 86
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=65.34 E-value=59 Score=38.60 Aligned_cols=107 Identities=14% Similarity=0.029 Sum_probs=60.1
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCC
Q 014748 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGK 88 (419)
Q Consensus 9 ek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~ 88 (419)
.+|..++++++|++|+..|-.|=+.... .+-+..-+..||+..++ .+.|...+.++-+.......
T Consensus 274 ~~G~~~~~~g~~~~A~~~l~~aL~~~P~-----------~~~a~~~Lg~~~~~~g~---~~eA~~~l~~Al~~~p~~~~- 338 (1157)
T PRK11447 274 AQGLAAVDSGQGGKAIPELQQAVRANPK-----------DSEALGALGQAYSQQGD---RARAVAQFEKALALDPHSSN- 338 (1157)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCC-----------CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHhCCCccc-
Confidence 4588999999999999999777654322 23344567888888764 45666666665443221110
Q ss_pred ChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhh
Q 014748 89 DSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (419)
Q Consensus 89 ~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~ 137 (419)
..+...+- .....-+.+.+|.+.+..|++++|..++..+-..
T Consensus 339 -~~~~~~ll------~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~ 380 (1157)
T PRK11447 339 -RDKWESLL------KVNRYWLLIQQGDAALKANNLAQAERLYQQARQV 380 (1157)
T ss_pred -hhHHHHHH------HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 01110000 0001112233456666777777777777666543
No 87
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=64.99 E-value=13 Score=33.01 Aligned_cols=38 Identities=21% Similarity=0.457 Sum_probs=30.8
Q ss_pred chHHHHHHHH-hCCCCHHHHHHHHHHcCCCHHHHHHHhh
Q 014748 275 AADAKIEQLV-AMGFERPRVIEACRAGGDDIHQIMLQLL 312 (419)
Q Consensus 275 ~d~~~I~~L~-~MGF~~~~A~~AL~~~~nN~e~A~d~Ll 312 (419)
++++-|.-.+ +-|-+++.|+.||+.++||+-.|+--|.
T Consensus 83 i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 83 ISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHhc
Confidence 4556666554 4599999999999999999999997663
No 88
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=64.44 E-value=1.2e+02 Score=30.33 Aligned_cols=26 Identities=15% Similarity=0.164 Sum_probs=19.4
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade 32 (419)
+...|..+.+.++|++|+.++..+=+
T Consensus 144 ~~~la~~~~~~g~~~~A~~~~~~~~~ 169 (389)
T PRK11788 144 LQQLLEIYQQEKDWQKAIDVAERLEK 169 (389)
T ss_pred HHHHHHHHHHhchHHHHHHHHHHHHH
Confidence 45667778888888888888777654
No 89
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=63.95 E-value=1.2e+02 Score=28.02 Aligned_cols=148 Identities=11% Similarity=-0.063 Sum_probs=77.1
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHh-----CCCCCHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFML-----RDISWLSEAGIRLRKARE 80 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l-----~~~~~l~dA~~rL~~ae~ 80 (419)
.+...|..+++.++|++|+..+-.+=+.|.. ++.. .+++.+ +.|||+.+ ++......|.+.++++-.
T Consensus 72 a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~-----~~a~~~--~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~ 143 (235)
T TIGR03302 72 AQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDA-----DYAYYL--RGLSNYNQIDRVDRDQTAAREAFEAFQELIR 143 (235)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCch-----HHHHHH--HHHHHHHhcccccCCHHHHHHHHHHHHHHHH
Confidence 3456788999999999999999887766642 1111 234444 46778765 112233344444433322
Q ss_pred HHHHHhCCChHHHHHHH--cCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCH
Q 014748 81 GIERAHGKDSSRVRLLQ--AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKE 158 (419)
Q Consensus 81 ~f~r~yG~~~~Rl~~lk--g~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~ 158 (419)
.|..+......+. +.. .....+-++-.+-+.+.+|++.+|...+..+-..++.- +.....+..+|
T Consensus 144 ----~~p~~~~~~~a~~~~~~~---~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~a~~~l~--- 210 (235)
T TIGR03302 144 ----RYPNSEYAPDAKKRMDYL---RNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDT---PATEEALARLV--- 210 (235)
T ss_pred ----HCCCChhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCC---cchHHHHHHHH---
Confidence 1332211111110 000 00011112334556778899999999999887776542 11111111111
Q ss_pred HHHHHHHHHhCCCHHHHHHHH
Q 014748 159 QDAKRALRICSQDVGSAIDFL 179 (419)
Q Consensus 159 ~~ArrALrat~gdve~Av~~L 179 (419)
++.. .-|+.+.|+.++
T Consensus 211 ----~~~~-~lg~~~~A~~~~ 226 (235)
T TIGR03302 211 ----EAYL-KLGLKDLAQDAA 226 (235)
T ss_pred ----HHHH-HcCCHHHHHHHH
Confidence 2222 357788888865
No 90
>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=62.75 E-value=9.3 Score=38.26 Aligned_cols=220 Identities=18% Similarity=0.173 Sum_probs=98.9
Q ss_pred HHHHhCCChHHHHHHH------cCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCC---HHHHHHHH
Q 014748 82 IERAHGKDSSRVRLLQ------AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVP---DESLSLVM 152 (419)
Q Consensus 82 f~r~yG~~~~Rl~~lk------g~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vd---ee~l~~Lm 152 (419)
|.++-|-....+..|- -...-+..+.-+++.|+++.. . ..+....+.....-+. ..++ ...|.-|.
T Consensus 39 fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~-s---~~d~~~~l~r~p~~l~-~~~~~~l~~~v~~L~ 113 (345)
T PF02536_consen 39 FLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGL-S---DEDIVKVLKRYPRILS-FSVEENLSPNVAFLR 113 (345)
T ss_dssp HHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-----HHHHHHHHHH-SHHHH-S---HHHHHHHHHHH
T ss_pred HHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcC-C---HHHHHHHHHhcchhhc-cchHhhhhhhhhHHh
Confidence 4466666655554443 122336677777777777643 1 2333344433322221 1111 35677788
Q ss_pred hCCCCHHHHHHHHHHh------CCCHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC
Q 014748 153 SMGFKEQDAKRALRIC------SQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI 226 (419)
Q Consensus 153 eMGF~~~~ArrALrat------~gdve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~~v~~~~l~~L~~M 226 (419)
+.|.+...-..-|... ..++...++|+.+-.-++..... -.. ..+.-....... . =...|+.|.++
T Consensus 114 ~lGv~~~~~~~~l~~~~~~~~~~~~~~~~v~~l~~lG~~~~~~~~-----vi~-~~P~~l~~~~~~-~-~~~~v~~L~~~ 185 (345)
T PF02536_consen 114 SLGVPPSQIISLLISRPPLFLSSEKIKERVEFLKELGFDPEKIGR-----VIA-KNPRLLLSDSES-E-LKPKVEFLRSL 185 (345)
T ss_dssp HTT--HHHHHHHHHH-CHHHHS-HHHHCHHHHHCCCTSSHHHHCC-----CHH-HHHHHHCGSCCC-C-CHHHHHHHHHC
T ss_pred hcCCcHHHHHHHHHhcCccccchhHHHHHHHHHHHhCCCchhhcc-----ccc-ccchhhccccHH-H-HHHHHHHHHhh
Confidence 8888877332222211 12466666666443222221110 000 000001111111 1 13468999999
Q ss_pred CCCHHHHHHHHHhcCCCHH-------HHHHh-hcC---CcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHH
Q 014748 227 GFEKELVAEALRRNENDSQ-------KALDD-LTN---PESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIE 295 (419)
Q Consensus 227 GF~~~~A~~ALr~t~nnve-------~Al~~-L~n---pd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~ 295 (419)
||+.+...+.+..++.-+. +...+ +.. ++. ..+... +..-... ...-...++-|.++||+.+++..
T Consensus 186 G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~-~~i~~~-p~il~~~-~~~l~~~i~~L~~lG~s~~ei~~ 262 (345)
T PF02536_consen 186 GFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE-RVIKKF-PQILSLS-EEKLKPKIEFLQSLGFSEEEIAK 262 (345)
T ss_dssp TT-GHHHHHHHHHTTTGGGCGCHC-----------------------------THH-HHHHHHHHHHHHTTT--HHHHHH
T ss_pred cccchhhhHHhhcccceeccccccccccccccccccccccc-cccccc-ccccccc-hHhHHHHHHHHHHhcCcHHHHHH
Confidence 9999999999998765321 11111 110 000 011110 0000000 01123568889999999999999
Q ss_pred HHHHcCC-------CHHHHHHHhhcCCCC
Q 014748 296 ACRAGGD-------DIHQIMLQLLGEPGS 317 (419)
Q Consensus 296 AL~~~~n-------N~e~A~d~Ll~~~~~ 317 (419)
.+..+-. .+..-++||.+.++-
T Consensus 263 mv~~~P~iL~~s~e~l~~k~~fl~~~m~~ 291 (345)
T PF02536_consen 263 MVRRFPQILSYSIEKLKPKFEFLVKEMGL 291 (345)
T ss_dssp HHHHSGGGGGS-HHHHHHHHHHHHHCCT-
T ss_pred HHHhCcchhhcchhhhhHHHHHHHHHhCc
Confidence 9887643 356667888877665
No 91
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=62.08 E-value=36 Score=24.46 Aligned_cols=48 Identities=19% Similarity=0.088 Sum_probs=34.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD 64 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~ 64 (419)
.++..|..++..++|+.|+.++..+-..+.... -....+++||+..++
T Consensus 36 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~ 83 (100)
T cd00189 36 AYYNLAAAYYKLGKYEEALEDYEKALELDPDNA-----------KAYYNLGLAYYKLGK 83 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch-----------hHHHHHHHHHHHHHh
Confidence 456678888999999999999888766544332 334566777777655
No 92
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=61.76 E-value=21 Score=26.41 Aligned_cols=51 Identities=24% Similarity=0.386 Sum_probs=36.2
Q ss_pred HHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 014748 14 LIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (419)
Q Consensus 14 ~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~a 78 (419)
+|+.|+|++|+.+|-.+=..+. +.+-..+.++.||+..++ .++|...|.+.
T Consensus 1 ll~~~~~~~A~~~~~~~l~~~p-----------~~~~~~~~la~~~~~~g~---~~~A~~~l~~~ 51 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQRNP-----------DNPEARLLLAQCYLKQGQ---YDEAEELLERL 51 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHHTT-----------TSHHHHHHHHHHHHHTT----HHHHHHHHHCC
T ss_pred ChhccCHHHHHHHHHHHHHHCC-----------CCHHHHHHHHHHHHHcCC---HHHHHHHHHHH
Confidence 5899999999999977655443 345556689999999865 45565555543
No 93
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=61.40 E-value=39 Score=35.63 Aligned_cols=106 Identities=19% Similarity=0.221 Sum_probs=74.5
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh------hhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP------KVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR 79 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~------~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae 79 (419)
-.+|+|..+.|++.|..|..-.=.|=..+--|++ +....+=|-. .|++.-||++|+.-+ .-+..|.
T Consensus 210 ~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~--~lNlA~c~lKl~~~~------~Ai~~c~ 281 (397)
T KOG0543|consen 210 RKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLAC--HLNLAACYLKLKEYK------EAIESCN 281 (397)
T ss_pred HHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHH--hhHHHHHHHhhhhHH------HHHHHHH
Confidence 4689999999999999998876666666665554 4455554544 456788999998765 3344444
Q ss_pred HHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 80 ~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
+ +|.=...+.++||=| |-...-.|.++.|+..|.++.+..
T Consensus 282 k--------------vLe~~~~N~KALyRr-----G~A~l~~~e~~~A~~df~ka~k~~ 321 (397)
T KOG0543|consen 282 K--------------VLELDPNNVKALYRR-----GQALLALGEYDLARDDFQKALKLE 321 (397)
T ss_pred H--------------HHhcCCCchhHHHHH-----HHHHHhhccHHHHHHHHHHHHHhC
Confidence 3 244456788999988 544446688999999988887744
No 94
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=61.06 E-value=43 Score=31.37 Aligned_cols=99 Identities=13% Similarity=0.096 Sum_probs=61.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHH-HHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCY-FMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy-~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
+....|+.++..++|++|+..+-.|=+..- +.+-+...+.=|+ +...+. ..++|. +.|.+
T Consensus 75 ~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-----------~~~~~~~~lA~aL~~~~g~~-~~~~A~-------~~l~~ 135 (198)
T PRK10370 75 QWALLGEYYLWRNDYDNALLAYRQALQLRG-----------ENAELYAALATVLYYQAGQH-MTPQTR-------EMIDK 135 (198)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-----------CCHHHHHHHHHHHHHhcCCC-CcHHHH-------HHHHH
Confidence 456789999999999999999866655432 2333334444453 343332 124444 44444
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
..-.++.-. +.+.+-|..+|..|++++|..++.++-+..
T Consensus 136 al~~dP~~~---------------~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~ 174 (198)
T PRK10370 136 ALALDANEV---------------TALMLLASDAFMQADYAQAIELWQKVLDLN 174 (198)
T ss_pred HHHhCCCCh---------------hHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 333222221 344555888999999999999998875544
No 95
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=60.59 E-value=41 Score=29.65 Aligned_cols=93 Identities=19% Similarity=0.047 Sum_probs=57.9
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG 87 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG 87 (419)
+..|..+.++|+|++|+.++..| ...+|...+..=| +..+-....+...|..+|.++.-
T Consensus 28 ~~~g~~~~~~g~~~~A~~~~~~a----l~~~P~~~~a~~~-----------------lg~~~~~~g~~~~A~~~y~~Al~ 86 (144)
T PRK15359 28 YASGYASWQEGDYSRAVIDFSWL----VMAQPWSWRAHIA-----------------LAGTWMMLKEYTTAINFYGHALM 86 (144)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHH----HHcCCCcHHHHHH-----------------HHHHHHHHhhHHHHHHHHHHHHh
Confidence 45799999999999999888775 2333332222211 22333445667778888887766
Q ss_pred CChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 88 ~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
-++. .++. +.--|++.+..|+.++|...+..+-.
T Consensus 87 l~p~---------~~~a------~~~lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 87 LDAS---------HPEP------VYQTGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred cCCC---------CcHH------HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3322 2221 22235666678999999988877644
No 96
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=59.93 E-value=17 Score=24.06 Aligned_cols=35 Identities=29% Similarity=0.149 Sum_probs=22.2
Q ss_pred hhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCh
Q 014748 53 IDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDS 90 (419)
Q Consensus 53 lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~ 90 (419)
-.+.++|+.. ....+|..-+.+|-...++.||+++
T Consensus 6 ~~la~~~~~~---g~~~~A~~~~~~al~~~~~~~G~~H 40 (42)
T PF13374_consen 6 NNLANAYRAQ---GRYEEALELLEEALEIRERLLGPDH 40 (42)
T ss_dssp HHHHHHHHHC---T-HHHHHHHHHHHHHHH--------
T ss_pred HHHHHHHHhh---hhcchhhHHHHHHHHHHHHHhcccc
Confidence 4567888876 5689999999999999999999876
No 97
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=59.84 E-value=9.9 Score=29.60 Aligned_cols=22 Identities=23% Similarity=0.469 Sum_probs=19.0
Q ss_pred HHHHhCCCCHHHHHHHHHHhCC
Q 014748 149 SLVMSMGFKEQDAKRALRICSQ 170 (419)
Q Consensus 149 ~~LmeMGF~~~~ArrALrat~g 170 (419)
.-||+|||++..|++-+|.+.-
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~ 28 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKA 28 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHH
Confidence 4689999999999999998653
No 98
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=59.27 E-value=49 Score=32.54 Aligned_cols=126 Identities=17% Similarity=0.190 Sum_probs=77.9
Q ss_pred hhhhhhHhHHHHHHhh-chHHHHHHHHhhhhhhccCChhhhhhcc-----chhhhhhhHHHHHHHhCCCCCHHHHHHHHH
Q 014748 3 MGLMLHANAKSLIKRH-MYKDALEVLTMGEEAFSLCDPKVLEFVD-----NGPLLQIDMVWCYFMLRDISWLSEAGIRLR 76 (419)
Q Consensus 3 ~~~~lhek~r~~~~~~-~y~~aL~~ll~ade~F~~C~~~~l~~vD-----N~a~L~lDivWcy~~l~~~~~l~dA~~rL~ 76 (419)
++.+++.-|+.+++++ +|++|...|-+|=+.++.+ .+....=- .+.+|++ +|=||+-...-.....|..-|.
T Consensus 34 La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~-~~~~~~~~~~~elr~~iL~~-La~~~l~~~~~~~~~ka~~~l~ 111 (278)
T PF08631_consen 34 LARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKP-GKMDKLSPDGSELRLSILRL-LANAYLEWDTYESVEKALNALR 111 (278)
T ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhh-hhccccCCcHHHHHHHHHHH-HHHHHHcCCChHHHHHHHHHHH
Confidence 5778999999999999 9999999999999998774 22211111 2344443 6778877776655555555554
Q ss_pred HHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCC
Q 014748 77 KAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGF 156 (419)
Q Consensus 77 ~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF 156 (419)
.. ..-|| ++. -..+|+|+++.+ .++.+++. +.....++.|++
T Consensus 112 ~l----~~e~~-~~~------------~~~~L~l~il~~-----~~~~~~~~----------------~~L~~mi~~~~~ 153 (278)
T PF08631_consen 112 LL----ESEYG-NKP------------EVFLLKLEILLK-----SFDEEEYE----------------EILMRMIRSVDH 153 (278)
T ss_pred HH----HHhCC-CCc------------HHHHHHHHHHhc-----cCChhHHH----------------HHHHHHHHhccc
Confidence 44 33344 111 123478888888 34444443 233445666666
Q ss_pred CHHHHHHHHHHh
Q 014748 157 KEQDAKRALRIC 168 (419)
Q Consensus 157 ~~~~ArrALrat 168 (419)
++.-...++.+.
T Consensus 154 ~e~~~~~~l~~i 165 (278)
T PF08631_consen 154 SESNFDSILHHI 165 (278)
T ss_pred ccchHHHHHHHH
Confidence 666555554443
No 99
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=59.19 E-value=28 Score=33.84 Aligned_cols=67 Identities=18% Similarity=0.278 Sum_probs=46.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (419)
.++++|..++++|+|+.|...|-.....+. +|..... -++++.+||+.+++ .+.|....++ |-+.
T Consensus 34 ~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP--~s~~a~~------a~l~la~ayy~~~~---y~~A~~~~e~----fi~~ 98 (243)
T PRK10866 34 EIYATAQQKLQDGNWKQAITQLEALDNRYP--FGPYSQQ------VQLDLIYAYYKNAD---LPLAQAAIDR----FIRL 98 (243)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CChHHHH------HHHHHHHHHHhcCC---HHHHHHHHHH----HHHh
Confidence 367999999999999999999877666554 2222221 26899999999988 4444443332 4455
Q ss_pred hC
Q 014748 86 HG 87 (419)
Q Consensus 86 yG 87 (419)
|.
T Consensus 99 ~P 100 (243)
T PRK10866 99 NP 100 (243)
T ss_pred Cc
Confidence 55
No 100
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=58.62 E-value=1.8e+02 Score=28.54 Aligned_cols=31 Identities=19% Similarity=0.339 Sum_probs=24.0
Q ss_pred HHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 106 LHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 106 L~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
.-+++.++++++.|.+|++++|...|..+-.
T Consensus 305 ~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~ 335 (355)
T cd05804 305 RDVGLPLAEALYAFAEGNYATALELLGPVRD 335 (355)
T ss_pred HhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4577778888888888888888887766644
No 101
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.25 E-value=21 Score=34.15 Aligned_cols=24 Identities=21% Similarity=0.499 Sum_probs=22.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++++..|+.+||++.+|++|+...
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999986
No 102
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=55.76 E-value=16 Score=23.53 Aligned_cols=26 Identities=19% Similarity=0.088 Sum_probs=22.7
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhh
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGE 31 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ad 31 (419)
+++.+|+...+.++|++|+..+-.|=
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~ 28 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 57889999999999999999987664
No 103
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=54.64 E-value=41 Score=30.22 Aligned_cols=42 Identities=19% Similarity=0.270 Sum_probs=36.3
Q ss_pred hccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 014748 138 FFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180 (419)
Q Consensus 138 ~~~l~vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~ 180 (419)
+..-+++.+.|..+.+-|-+..+||+||.-++ |+-.|+..+.
T Consensus 108 l~~s~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 108 LGHSEPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred hccCCCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 33446788899999999999999999999987 9999999764
No 104
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=54.57 E-value=56 Score=33.31 Aligned_cols=92 Identities=22% Similarity=0.308 Sum_probs=54.0
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH---HHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA---REGI 82 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~a---e~~f 82 (419)
.|-..|-.+|+-++|.+|+..--+| |+.+++=||+-=-=.=.|..|..-. +|-+-...| ..-|
T Consensus 83 ~LK~eGN~~m~~~~Y~eAv~kY~~A-----------I~l~P~nAVyycNRAAAy~~Lg~~~---~AVkDce~Al~iDp~y 148 (304)
T KOG0553|consen 83 SLKNEGNKLMKNKDYQEAVDKYTEA-----------IELDPTNAVYYCNRAAAYSKLGEYE---DAVKDCESALSIDPHY 148 (304)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHH-----------HhcCCCcchHHHHHHHHHHHhcchH---HHHHHHHHHHhcChHH
Confidence 3556899999999999999887666 6667777764322223344433221 222211111 1223
Q ss_pred HHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 83 ~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
-|.|| || |+..+.+|++.+|.+.+.+|=+
T Consensus 149 skay~---------------------RL----G~A~~~~gk~~~A~~aykKaLe 177 (304)
T KOG0553|consen 149 SKAYG---------------------RL----GLAYLALGKYEEAIEAYKKALE 177 (304)
T ss_pred HHHHH---------------------HH----HHHHHccCcHHHHHHHHHhhhc
Confidence 44444 32 4456788999999887666543
No 105
>PRK04841 transcriptional regulator MalT; Provisional
Probab=54.39 E-value=1.5e+02 Score=33.46 Aligned_cols=117 Identities=19% Similarity=0.104 Sum_probs=67.7
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCC--hhhhhhccchhhh--------------------------------
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCD--PKVLEFVDNGPLL-------------------------------- 51 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~--~~~l~~vDN~a~L-------------------------------- 51 (419)
.+.-.|+..+.+++|.+|+..+-.+...+..-+ ...+...++..+.
T Consensus 614 ~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~ 693 (903)
T PRK04841 614 CLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQ 693 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHH
Confidence 344578888999999999999988877665422 1111111111100
Q ss_pred hhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHh
Q 014748 52 QIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNAL 131 (419)
Q Consensus 52 ~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L 131 (419)
.+-+..+|.... +.++|...|.+|...+ +.+|. .....|.+++.|+..+..|+.++|..+|
T Consensus 694 ~~~~a~~~~~~g---~~~~A~~~l~~al~~~-~~~g~---------------~~~~a~~~~~la~a~~~~G~~~~A~~~L 754 (903)
T PRK04841 694 WRNIARAQILLG---QFDEAEIILEELNENA-RSLRL---------------MSDLNRNLILLNQLYWQQGRKSEAQRVL 754 (903)
T ss_pred HHHHHHHHHHcC---CHHHHHHHHHHHHHHH-HHhCc---------------hHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 111222233222 2344444454444432 22221 1134567788899999999999999999
Q ss_pred HhHHhhhccC
Q 014748 132 TSAQAKFFQL 141 (419)
Q Consensus 132 ~~a~~~~~~l 141 (419)
..|-+.....
T Consensus 755 ~~Al~la~~~ 764 (903)
T PRK04841 755 LEALKLANRT 764 (903)
T ss_pred HHHHHHhCcc
Confidence 9987666443
No 106
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=54.10 E-value=55 Score=32.37 Aligned_cols=103 Identities=13% Similarity=0.053 Sum_probs=60.1
Q ss_pred hhHhHHHH-HHhhchHHHHHHHHhhhhhhccCChhhhhhccch-hhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 7 LHANAKSL-IKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNG-PLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 7 lhek~r~~-~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~-a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
.++.|..+ +++++|++|...|-..=+.|-.. .| +-.+.-+.+||+..++. .+|...+.+.-.
T Consensus 145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s---------~~a~~A~y~LG~~y~~~g~~---~~A~~~f~~vv~---- 208 (263)
T PRK10803 145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDS---------TYQPNANYWLGQLNYNKGKK---DDAAYYFASVVK---- 208 (263)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC---------cchHHHHHHHHHHHHHcCCH---HHHHHHHHHHHH----
Confidence 46677776 66789998888754443333321 11 23467889999987754 344444332222
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhcc
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ 140 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~ 140 (419)
.|-.++ ..++. ++. -|.+.+..|+.++|...+...-..++.
T Consensus 209 ~yP~s~---------~~~dA-l~k-----lg~~~~~~g~~~~A~~~~~~vi~~yP~ 249 (263)
T PRK10803 209 NYPKSP---------KAADA-MFK-----VGVIMQDKGDTAKAKAVYQQVIKKYPG 249 (263)
T ss_pred HCCCCc---------chhHH-HHH-----HHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 122111 12222 211 255666889999999999887776654
No 107
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=54.09 E-value=21 Score=33.70 Aligned_cols=24 Identities=29% Similarity=0.718 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++++..|+.+||++.+|++|++..
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhc
Confidence 678999999999999999999876
No 108
>PRK11189 lipoprotein NlpI; Provisional
Probab=54.01 E-value=1.4e+02 Score=29.42 Aligned_cols=27 Identities=11% Similarity=-0.066 Sum_probs=18.8
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhh
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGE 31 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ad 31 (419)
-.++..|..+.+.++|++|+..+-.|=
T Consensus 99 ~a~~~lg~~~~~~g~~~~A~~~~~~Al 125 (296)
T PRK11189 99 DAYNYLGIYLTQAGNFDAAYEAFDSVL 125 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 345667777777777777777765553
No 109
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=53.27 E-value=50 Score=33.27 Aligned_cols=51 Identities=14% Similarity=0.214 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHcCCCHHH
Q 014748 227 GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQ 306 (419)
Q Consensus 227 GF~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~ 306 (419)
|-+...|+++|.+++|++..|+-.+ ..|++.+.|+..|..++|++..
T Consensus 247 ~~~~~~a~~~l~~~~~~vk~a~~~~---------------------------------~~~~~~~~a~~~l~~~~g~~~~ 293 (299)
T PRK05441 247 GVSREEAEAALEAADGSVKLAIVMI---------------------------------LTGLDAAEAKALLARHGGFLRK 293 (299)
T ss_pred CcCHHHHHHHHHHhCCCcHHHHHHH---------------------------------HhCCCHHHHHHHHHHcCCCHHH
Confidence 6666667777777666666555321 1278999999999999999999
Q ss_pred HHHH
Q 014748 307 IMLQ 310 (419)
Q Consensus 307 A~d~ 310 (419)
|++-
T Consensus 294 ~~~~ 297 (299)
T PRK05441 294 ALAE 297 (299)
T ss_pred HHhh
Confidence 9864
No 110
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=53.08 E-value=16 Score=37.41 Aligned_cols=41 Identities=24% Similarity=0.316 Sum_probs=34.1
Q ss_pred HHHHHHHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhchhh
Q 014748 145 DESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEEKAK 185 (419)
Q Consensus 145 ee~l~~Lme-MGF~~~~ArrALrat~gdve~Av~~L~e~~~d 185 (419)
...|.+|-+ =||+...||.||..|+||+..|.+||.+....
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 456666654 59999999999999999999999999766443
No 111
>PRK12370 invasion protein regulator; Provisional
Probab=52.68 E-value=1.3e+02 Score=32.66 Aligned_cols=60 Identities=13% Similarity=0.052 Sum_probs=35.3
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
+...|..++..++|++|..++-.|=+ .--|++-...-+.|+|+..++ ..+|..-+.+|-+
T Consensus 341 ~~~lg~~~~~~g~~~~A~~~~~~Al~-----------l~P~~~~a~~~lg~~l~~~G~---~~eAi~~~~~Al~ 400 (553)
T PRK12370 341 LGLLGLINTIHSEYIVGSLLFKQANL-----------LSPISADIKYYYGWNLFMAGQ---LEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHH-----------hCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHh
Confidence 34556667777888888777755533 223334444556788877654 4556555555543
No 112
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=52.40 E-value=21 Score=33.76 Aligned_cols=25 Identities=24% Similarity=0.525 Sum_probs=22.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~ 169 (419)
++.+..|+.+||++.++++|+....
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5789999999999999999999764
No 113
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=52.18 E-value=7.5 Score=31.47 Aligned_cols=38 Identities=29% Similarity=0.296 Sum_probs=27.9
Q ss_pred HHHHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHHhchhh
Q 014748 148 LSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLVEEKAK 185 (419)
Q Consensus 148 l~~LmeMGF-~~~~ArrALrat~gdve~Av~~L~e~~~d 185 (419)
|...++=.. +..+-+.||.++..||++|++||++....
T Consensus 35 vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~~~~~ 73 (79)
T PF08938_consen 35 VREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLSKFKK 73 (79)
T ss_dssp HHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHHCCHS
T ss_pred HHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence 444444444 88899999999999999999999877433
No 114
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=51.92 E-value=28 Score=32.87 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=22.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++.+..|+.+||++.+|++|+...
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999986
No 115
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=50.62 E-value=46 Score=33.46 Aligned_cols=55 Identities=13% Similarity=0.081 Sum_probs=40.8
Q ss_pred HHHhC-CCCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 222 ELVSI-GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 222 ~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.++.. |-+.+.|+++|.+.++.+..|+=.+ .-|++.+.|+..|..+
T Consensus 236 i~~~~~~~~~~~a~~~l~~~~~~vk~Ai~~~---------------------------------~~~~~~~~a~~~l~~~ 282 (291)
T TIGR00274 236 IVRQATDCNKELAEQTLLAADQNVKLAIVMI---------------------------------LSTLSASEAKVLLDRH 282 (291)
T ss_pred HHHHHhCcCHHHHHHHHHHhCCCcHHHHHHH---------------------------------HhCCCHHHHHHHHHHc
Confidence 34443 7777888888888888766665321 1279999999999999
Q ss_pred CCCHHHHHH
Q 014748 301 GDDIHQIML 309 (419)
Q Consensus 301 ~nN~e~A~d 309 (419)
+|++..|++
T Consensus 283 ~g~~~~~l~ 291 (291)
T TIGR00274 283 GGFLRQALD 291 (291)
T ss_pred CCcHHHhhC
Confidence 999998874
No 116
>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=50.62 E-value=22 Score=26.64 Aligned_cols=41 Identities=22% Similarity=0.244 Sum_probs=29.8
Q ss_pred hHHHHHHH--HhCCCCHHHHHHHHHHcCCCHHHHHHHhhcCCC
Q 014748 276 ADAKIEQL--VAMGFERPRVIEACRAGGDDIHQIMLQLLGEPG 316 (419)
Q Consensus 276 d~~~I~~L--~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~~~~ 316 (419)
.++.|.+. +=-|=+|+..+.-|+.|+=|++.|++-|++..+
T Consensus 9 PedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDd 51 (53)
T PF11547_consen 9 PEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDD 51 (53)
T ss_dssp -HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH-
T ss_pred CHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcccc
Confidence 44455543 344999999999999999999999999987544
No 117
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=50.62 E-value=30 Score=35.52 Aligned_cols=37 Identities=22% Similarity=0.063 Sum_probs=34.4
Q ss_pred CCHHHHHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 215 VDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 215 v~~~~l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
..+..|.+|++- |++-..||+||-..+||+..|-.||
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L 82 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWL 82 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHH
Confidence 457889999988 9999999999999999999999998
No 118
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=49.95 E-value=17 Score=28.31 Aligned_cols=34 Identities=24% Similarity=0.432 Sum_probs=24.0
Q ss_pred HHHHhCCCCHHHHHHHHHhcCCC-HHHHHHhhcCC
Q 014748 221 KELVSIGFEKELVAEALRRNEND-SQKALDDLTNP 254 (419)
Q Consensus 221 ~~L~~MGF~~~~A~~ALr~t~nn-ve~Al~~L~np 254 (419)
+.|++|||++.+|+.-+|+.... +++-..|..|.
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~~lV~~G~~~Y~nk 41 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKALLVQKGFSFYNNK 41 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHcCCCcccCC
Confidence 57999999999999999986543 34333333443
No 119
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=49.94 E-value=27 Score=33.16 Aligned_cols=24 Identities=21% Similarity=0.409 Sum_probs=22.2
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++.+..|+.+||++.++++|+...
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999875
No 120
>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=49.44 E-value=24 Score=25.26 Aligned_cols=24 Identities=21% Similarity=0.194 Sum_probs=19.1
Q ss_pred CHHHHHHHHHHcCCCHHHHHHHhh
Q 014748 289 ERPRVIEACRAGGDDIHQIMLQLL 312 (419)
Q Consensus 289 ~~~~A~~AL~~~~nN~e~A~d~Ll 312 (419)
.++.-...|+.|+||+-+|++.++
T Consensus 16 kr~~Le~iL~~C~GDvv~AIE~~l 39 (39)
T PF03474_consen 16 KRSVLELILQRCNGDVVQAIEQFL 39 (39)
T ss_pred ChHHHHHHHHHcCCcHHHHHHHhC
Confidence 345566789999999999998763
No 121
>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=49.04 E-value=25 Score=33.25 Aligned_cols=76 Identities=18% Similarity=0.247 Sum_probs=46.0
Q ss_pred HHHHHHHHhCCChHHHHHHHcC--CcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCC
Q 014748 78 AREGIERAHGKDSSRVRLLQAG--RHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMG 155 (419)
Q Consensus 78 ae~~f~r~yG~~~~Rl~~lkg~--~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMG 155 (419)
.+++..-.--.|..+|..++|. ...|+-+ ++|...+..... ... . ..+ ...-++.+..|..+|
T Consensus 94 ~~el~~aI~~~d~~~L~~ipGiGkKtAerIi---leLk~k~~~~~~--~~~--~--~~~------~~~~~e~~~aL~~LG 158 (191)
T TIGR00084 94 PEEFVYAIETEEVKALVKIPGVGKKTAERLL---LELKGKLKGNKN--LEM--F--TPT------EAARDELFEALVSLG 158 (191)
T ss_pred HHHHHHHHHhCCHHHHHhCCCCCHHHHHHHH---HHHHhhhccccc--ccc--c--ccc------cchHHHHHHHHHHcC
Confidence 3455555554599999999974 3334333 666555422100 000 0 000 112267899999999
Q ss_pred CCHHHHHHHHHHh
Q 014748 156 FKEQDAKRALRIC 168 (419)
Q Consensus 156 F~~~~ArrALrat 168 (419)
|+..++++|+...
T Consensus 159 y~~~e~~~ai~~~ 171 (191)
T TIGR00084 159 YKPQEIQQALKKI 171 (191)
T ss_pred CCHHHHHHHHHHH
Confidence 9999999999975
No 122
>PRK13342 recombination factor protein RarA; Reviewed
Probab=48.96 E-value=1.9e+02 Score=30.26 Aligned_cols=68 Identities=24% Similarity=0.219 Sum_probs=44.4
Q ss_pred HhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhC--------CCCHHHHHHHHHHh--CCCHHHHHHHHHhc
Q 014748 113 LEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSM--------GFKEQDAKRALRIC--SQDVGSAIDFLVEE 182 (419)
Q Consensus 113 Lqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeM--------GF~~~~ArrALrat--~gdve~Av~~L~e~ 182 (419)
++.++.++.|+...+...|+.+-.. .-.++.+.|..++.- |...-+...|+..+ ++|++.|+.||..-
T Consensus 179 l~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~~~~~d~~~~~~~~~isa~~ks~rgsd~~aal~~l~~~ 256 (413)
T PRK13342 179 LDALARLANGDARRALNLLELAALG--VDSITLELLEEALQKRAARYDKDGDEHYDLISALHKSIRGSDPDAALYYLARM 256 (413)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhhhhccCCCccHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 3445567788888888888765432 234667777666542 33445566677764 56899999998554
No 123
>PF06743 FAST_1: FAST kinase-like protein, subdomain 1; InterPro: IPR010622 This entry represents a conserved region of eukaryotic Fas-activated serine/threonine (FAST) kinases that contains several conserved leucine residues. FAST kinase is rapidly activated during Fas-mediated apoptosis, when it phosphorylates TIA-1, a nuclear RNA-binding protein that has been implicated as an effector of apoptosis []. Note that many family members are hypothetical proteins.; GO: 0004672 protein kinase activity
Probab=48.07 E-value=10 Score=30.00 Aligned_cols=38 Identities=24% Similarity=0.418 Sum_probs=29.8
Q ss_pred hhhhhhccCChhhhhhccch-hhhhhhHHHHHHHhCCCC
Q 014748 29 MGEEAFSLCDPKVLEFVDNG-PLLQIDMVWCYFMLRDIS 66 (419)
Q Consensus 29 ~ade~F~~C~~~~l~~vDN~-a~L~lDivWcy~~l~~~~ 66 (419)
.+|+-|..|...+....+.+ +...+||||....|+...
T Consensus 17 ~~~~f~~~~~~~L~~~l~~~~p~~ll~~v~Sl~~l~~~p 55 (71)
T PF06743_consen 17 NAEEFFEKLIERLESYLDEFSPEDLLDLVWSLCLLQRFP 55 (71)
T ss_pred CHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHhhCC
Confidence 35677788888777776666 889999999999887653
No 124
>PLN03196 MOC1-like protein; Provisional
Probab=48.00 E-value=2.6e+02 Score=30.30 Aligned_cols=88 Identities=18% Similarity=0.197 Sum_probs=51.2
Q ss_pred HHHHHHhCCCCHHHHHHHHHHhC----CC----HHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHH
Q 014748 147 SLSLVMSMGFKEQDAKRALRICS----QD----VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIE 218 (419)
Q Consensus 147 ~l~~LmeMGF~~~~ArrALrat~----gd----ve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~~v~~~ 218 (419)
.+.-|.+.||+..+..+.+..+- .+ +-..++||.+.--...... +.-.+-+.-.+....+ .+ ..
T Consensus 127 vl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~------~~l~r~P~LL~~~~e~-~l-~p 198 (487)
T PLN03196 127 VLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIP------RVLERYPELLGFKLEG-TM-ST 198 (487)
T ss_pred HHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHH------HHHHhCchhhcCCHHH-HH-HH
Confidence 67889999999999999888762 33 4567788864322221111 0000000000100000 00 12
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCC
Q 014748 219 KIKELVSIGFEKELVAEALRRNEN 242 (419)
Q Consensus 219 ~l~~L~~MGF~~~~A~~ALr~t~n 242 (419)
.|..|.++||++....+.+..++.
T Consensus 199 ~v~fL~~lGvs~~~i~~il~~~P~ 222 (487)
T PLN03196 199 SVAYLVSIGVAPRDIGPMLTRFPE 222 (487)
T ss_pred HHHHHHHcCCCHHHHHHHHHhCcH
Confidence 578899999999999999888764
No 125
>PRK14700 recombination factor protein RarA; Provisional
Probab=47.65 E-value=1.5e+02 Score=30.30 Aligned_cols=121 Identities=16% Similarity=0.176 Sum_probs=68.5
Q ss_pred HHhHhhhhccCChhHHHHHhHhHHh-h--hccCCCCHHHHHHHHh---CCCCH-----HHHHHHHHHh--CCCHHHHHHH
Q 014748 112 LLEGVAAYHSGQFDKARNALTSAQA-K--FFQLQVPDESLSLVMS---MGFKE-----QDAKRALRIC--SQDVGSAIDF 178 (419)
Q Consensus 112 LLqgvv~~~~g~~~eA~~~L~~a~~-~--~~~l~vdee~l~~Lme---MGF~~-----~~ArrALrat--~gdve~Av~~ 178 (419)
.++-++.++.|+...|...|+.+-. . -....++.+.|...+. ..|.. =+..-|++.+ +.|+|+|+=|
T Consensus 69 al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYy 148 (300)
T PRK14700 69 LYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFW 148 (300)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHH
Confidence 3455667788988888888877432 1 1122367777776654 34544 3567788877 5689999999
Q ss_pred HH---hchhhhhhhhhhhHHHHHHHHHHhhcCCCCC-CCcCCHHHHHHHHhCCCCHHHHHHHHHh
Q 014748 179 LV---EEKAKRVKEREDNEQRRKEIMEQKRYGLTPL-KKAVDIEKIKELVSIGFEKELVAEALRR 239 (419)
Q Consensus 179 L~---e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~-~~~v~~~~l~~L~~MGF~~~~A~~ALr~ 239 (419)
|- +.-+|+..+ .||.-+-.....|-... ...+-...++...-.|+++ |+-+|-+
T Consensus 149 LArml~~GEDp~~I-----aRRLii~AsEDIGlAdP~al~~a~aa~~A~~~iG~PE--a~i~La~ 206 (300)
T PRK14700 149 LSVMLDNGVDPLVI-----ARRMLCIASEDIGNADPQALRVAMDAWNAYEKLGMPE--GRLVLAQ 206 (300)
T ss_pred HHHHHHcCCCHHHH-----HHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCChH--HHHHHHH
Confidence 74 344455444 33433323333332110 0011112344556669988 7777643
No 126
>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=47.53 E-value=29 Score=32.81 Aligned_cols=24 Identities=25% Similarity=0.447 Sum_probs=21.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.+.+..|.++||++..|..|+...
T Consensus 148 ~e~~~aL~~LGy~~~e~~~ai~~~ 171 (191)
T TIGR00084 148 DELFEALVSLGYKPQEIQQALKKI 171 (191)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 568899999999999999999765
No 127
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=47.34 E-value=17 Score=37.75 Aligned_cols=24 Identities=33% Similarity=0.585 Sum_probs=20.2
Q ss_pred chHHHHHHHHhCCCCHHHHHHHHH
Q 014748 275 AADAKIEQLVAMGFERPRVIEACR 298 (419)
Q Consensus 275 ~d~~~I~~L~~MGF~~~~A~~AL~ 298 (419)
+-++.|+.++.|||.++.|+...+
T Consensus 320 p~ddvidKv~~MGf~rDqV~a~v~ 343 (358)
T PF07223_consen 320 PYDDVIDKVASMGFRRDQVRATVR 343 (358)
T ss_pred cHHHHHHHHHHcCCcHHHHHHHHH
Confidence 356899999999999999987553
No 128
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=47.28 E-value=3.4e+02 Score=28.00 Aligned_cols=128 Identities=13% Similarity=0.028 Sum_probs=71.8
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG 87 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG 87 (419)
...|+.+++.|+|+.|+.++-.+=+.+-.-.... .|.+..+..+.. +++...+..+++..+ .+.
T Consensus 267 ~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~--------------~~~l~~~~~l~~-~~~~~~~~~~e~~lk-~~p 330 (409)
T TIGR00540 267 IALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAIS--------------LPLCLPIPRLKP-EDNEKLEKLIEKQAK-NVD 330 (409)
T ss_pred HHHHHHHHHCCChHHHHHHHHHHHhhCCCcccch--------------hHHHHHhhhcCC-CChHHHHHHHHHHHH-hCC
Confidence 3467899999999999999999888766432221 112222222221 333333444443332 233
Q ss_pred CChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHH
Q 014748 88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRI 167 (419)
Q Consensus 88 ~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrALra 167 (419)
.|+. ..+.+.-|-+.|..|++++|+++|+.+...- ..++++....|- .+..
T Consensus 331 ~~~~----------------~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~--~~p~~~~~~~La-----------~ll~ 381 (409)
T TIGR00540 331 DKPK----------------CCINRALGQLLMKHGEFIEAADAFKNVAACK--EQLDANDLAMAA-----------DAFD 381 (409)
T ss_pred CChh----------------HHHHHHHHHHHHHcccHHHHHHHHHHhHHhh--cCCCHHHHHHHH-----------HHHH
Confidence 2321 1233345677889999999999999654422 234454444441 2333
Q ss_pred hCCCHHHHHHHHH
Q 014748 168 CSQDVGSAIDFLV 180 (419)
Q Consensus 168 t~gdve~Av~~L~ 180 (419)
..|+.+.|.++..
T Consensus 382 ~~g~~~~A~~~~~ 394 (409)
T TIGR00540 382 QAGDKAEAAAMRQ 394 (409)
T ss_pred HcCCHHHHHHHHH
Confidence 4567777777654
No 129
>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=46.27 E-value=1.9e+02 Score=24.68 Aligned_cols=72 Identities=18% Similarity=0.268 Sum_probs=36.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHH
Q 014748 218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEAC 297 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL 297 (419)
...+.|..-|++...+..||. .....+.|..++.. .............-+..+..|+.-||+.+.+..++
T Consensus 47 ~I~~~L~~kGi~~~~i~~~l~-~~~~~e~a~~~~~k---------k~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi 116 (121)
T PF02631_consen 47 RIRQKLKQKGIDREIIEEALE-EYDEEEEALELAEK---------KYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVI 116 (121)
T ss_dssp HHHHHHHHTT--HHHHHHHHT-CS-HHHHHHHHHHH---------HHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHC
T ss_pred HHHHHHHHHCCChHHHHHHHH-HhhHHHHHHHHHHH---------HHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 345678888888888888776 12223333332210 00000000001123456788999999999999998
Q ss_pred HH
Q 014748 298 RA 299 (419)
Q Consensus 298 ~~ 299 (419)
..
T Consensus 117 ~~ 118 (121)
T PF02631_consen 117 SE 118 (121)
T ss_dssp HH
T ss_pred hh
Confidence 75
No 130
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=45.45 E-value=3e+02 Score=26.88 Aligned_cols=141 Identities=18% Similarity=0.074 Sum_probs=67.3
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG 87 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG 87 (419)
..-|..+-..++|++|..+++.|=+.+..+++.. +...+ -.+.+=||... ...+|..-+.+|-..|. ..|
T Consensus 39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~-~Aa~~----~~~Aa~~~k~~----~~~~Ai~~~~~A~~~y~-~~G 108 (282)
T PF14938_consen 39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKF-EAAKA----YEEAANCYKKG----DPDEAIECYEKAIEIYR-EAG 108 (282)
T ss_dssp HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HH-HHHHH----HHHHHHHHHHT----THHHHHHHHHHHHHHHH-HCT
T ss_pred HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHH-HHHHH----HHHHHHHHHhh----CHHHHHHHHHHHHHHHH-hcC
Confidence 3344445555555555555555544444444322 11122 23444455444 56666666666666663 344
Q ss_pred CChHHHHHHHcCCcchhhHHHHHHHHhHhhhhcc-CChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHH
Q 014748 88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS-GQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALR 166 (419)
Q Consensus 88 ~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~-g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrALr 166 (419)
++.+.. .+..+ =|.+.-.. |+.++|.++...|-+.+..-. .+......+ .+-| .|.
T Consensus 109 -~~~~aA----------~~~~~----lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~-----~~~A--~l~ 165 (282)
T PF14938_consen 109 -RFSQAA----------KCLKE----LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECL-----LKAA--DLY 165 (282)
T ss_dssp --HHHHH----------HHHHH----HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHH-----HHHH--HHH
T ss_pred -cHHHHH----------HHHHH----HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHH-----HHHH--HHH
Confidence 333331 12222 12223355 789999999999988776543 221111111 1111 233
Q ss_pred HhCCCHHHHHHHHHh
Q 014748 167 ICSQDVGSAIDFLVE 181 (419)
Q Consensus 167 at~gdve~Av~~L~e 181 (419)
.-.|+.+.|++.+.+
T Consensus 166 ~~l~~y~~A~~~~e~ 180 (282)
T PF14938_consen 166 ARLGRYEEAIEIYEE 180 (282)
T ss_dssp HHTT-HHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHH
Confidence 345789999997643
No 131
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=45.02 E-value=36 Score=32.39 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=21.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.+++..|++|||++..|..|+...
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578899999999999999999765
No 132
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=44.61 E-value=3.7e+02 Score=31.42 Aligned_cols=118 Identities=15% Similarity=0.177 Sum_probs=80.7
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhh--------------hhccCChhh-h--------hhccchhhhhhhHHHHHHHhCC
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEE--------------AFSLCDPKV-L--------EFVDNGPLLQIDMVWCYFMLRD 64 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade--------------~F~~C~~~~-l--------~~vDN~a~L~lDivWcy~~l~~ 64 (419)
|.-++.++..+.-++|..+.+-|++ -|..-+-.+ + +.+=++|.|+|=.+|-..--
T Consensus 351 ~~Aa~w~~~~g~~~eAI~hAlaA~d~~~aa~lle~~~~~L~~~~~lsll~~~~~~lP~~~l~~~P~Lvll~aW~~~s~-- 428 (894)
T COG2909 351 RAAAEWFAEHGLPSEAIDHALAAGDPEMAADLLEQLEWQLFNGSELSLLLAWLKALPAELLASTPRLVLLQAWLLASQ-- 428 (894)
T ss_pred HHHHHHHHhCCChHHHHHHHHhCCCHHHHHHHHHhhhhhhhcccchHHHHHHHHhCCHHHHhhCchHHHHHHHHHHHc--
Confidence 4556677777777777777776655 233323333 3 35668999999999975533
Q ss_pred CCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccC
Q 014748 65 ISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL 141 (419)
Q Consensus 65 ~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l 141 (419)
-++.+|+.-+.+++.-.+.. ..++...+..=..-|.++|+.++|+.++|..+...+-..+++-
T Consensus 429 -~r~~ea~~li~~l~~~l~~~-------------~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~ 491 (894)
T COG2909 429 -HRLAEAETLIARLEHFLKAP-------------MHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEA 491 (894)
T ss_pred -cChHHHHHHHHHHHHHhCcC-------------cccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccc
Confidence 35677777777776655443 3445555666667788999999999999998888776666543
No 133
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=44.45 E-value=1.4e+02 Score=30.80 Aligned_cols=89 Identities=20% Similarity=0.198 Sum_probs=60.8
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCC
Q 014748 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGK 88 (419)
Q Consensus 9 ek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~ 88 (419)
.-|+++++.|+++.|..+|..+-+ ... ++ +++.-|-.+.. ++..+.|..+++.. +.|..
T Consensus 268 ~~A~~l~~~g~~~~A~~~L~~~l~-~~~-~~--------------~l~~l~~~l~~----~~~~~al~~~e~~l-k~~P~ 326 (398)
T PRK10747 268 AMAEHLIECDDHDTAQQIILDGLK-RQY-DE--------------RLVLLIPRLKT----NNPEQLEKVLRQQI-KQHGD 326 (398)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHh-cCC-CH--------------HHHHHHhhccC----CChHHHHHHHHHHH-hhCCC
Confidence 458999999999999999966654 221 22 44445555544 45556677777655 44553
Q ss_pred ChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh
Q 014748 89 DSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (419)
Q Consensus 89 ~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~ 136 (419)
|+. +++..|.+++.+|++++|+++|+.+-+
T Consensus 327 ~~~------------------l~l~lgrl~~~~~~~~~A~~~le~al~ 356 (398)
T PRK10747 327 TPL------------------LWSTLGQLLMKHGEWQEASLAFRAALK 356 (398)
T ss_pred CHH------------------HHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 432 445667788899999999999987755
No 134
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=44.00 E-value=39 Score=31.85 Aligned_cols=24 Identities=17% Similarity=0.498 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.++++.|++|||++..|..|++..
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhc
Confidence 568999999999999999999865
No 135
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=43.65 E-value=35 Score=34.33 Aligned_cols=54 Identities=24% Similarity=0.250 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHhCCChHHHHHHHcC-------CcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhH
Q 014748 73 IRLRKAREGIERAHGKDSSRVRLLQAG-------RHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (419)
Q Consensus 73 ~rL~~ae~~f~r~yG~~~~Rl~~lkg~-------~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a 134 (419)
+--..||.++.- | |-+||....=. ...|.+|.-| .+|+||.|++.+=+.+|+.-
T Consensus 65 QvacvCe~L~q~--G-d~erL~rFlwsLp~~~~~~~nEsvLkAr-----A~vafH~gnf~eLY~iLE~h 125 (304)
T KOG0775|consen 65 QVACVCESLQQG--G-DIERLGRFLWSLPVCEELLKNESVLKAR-----AVVAFHSGNFRELYHILENH 125 (304)
T ss_pred HHHHHHHHHHhc--c-CHHHHHHHHHcCchHHHHhhhHHHHHHH-----HHHHHhcccHHHHHHHHHhc
Confidence 334578888776 6 88888765522 2234444433 69999999999988888654
No 136
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=43.62 E-value=75 Score=34.02 Aligned_cols=104 Identities=17% Similarity=0.224 Sum_probs=62.8
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE 83 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~ 83 (419)
++.+..+||-...+++.++|+..|-.|.+ +.++.- -+. .+..-++.|||+.+.|-. +|-.+|.
T Consensus 267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~----~q~~~~-Ql~--~l~~~El~w~~~~~~~w~----------~A~~~f~ 329 (468)
T PF10300_consen 267 ALFLFFEGRLERLKGNLEEAIESFERAIE----SQSEWK-QLH--HLCYFELAWCHMFQHDWE----------EAAEYFL 329 (468)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHhcc----chhhHH-hHH--HHHHHHHHHHHHHHchHH----------HHHHHHH
Confidence 46688999999999999999999987762 122221 222 366789999999987653 3444444
Q ss_pred HHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 84 RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 84 r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
++.-++. .+ +++ +.-++|+..+-.|+...+......|.+.+
T Consensus 330 ~L~~~s~--------WS---ka~---Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~ 370 (468)
T PF10300_consen 330 RLLKESK--------WS---KAF---YAYLAAACLLMLGREEEAKEHKKEAEELF 370 (468)
T ss_pred HHHhccc--------cH---HHH---HHHHHHHHHHhhccchhhhhhHHHHHHHH
Confidence 4443211 10 222 22345665656677744444444444444
No 137
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.17 E-value=4.1e+02 Score=27.74 Aligned_cols=277 Identities=19% Similarity=0.210 Sum_probs=156.1
Q ss_pred HHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCH------------HHHHHHHHHHH
Q 014748 12 KSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWL------------SEAGIRLRKAR 79 (419)
Q Consensus 12 r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l------------~dA~~rL~~ae 79 (419)
-.+||-+.|.+|..+|. .|-.-+++ |-|=|-+ +.+||+.+++..-- ..++-||=.|+
T Consensus 18 y~lI~d~ry~DaI~~l~----s~~Er~p~------~rAgLSl-LgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQ 86 (459)
T KOG4340|consen 18 YRLIRDARYADAIQLLG----SELERSPR------SRAGLSL-LGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQ 86 (459)
T ss_pred HHHHHHhhHHHHHHHHH----HHHhcCcc------chHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHH
Confidence 35789999999998885 33333332 3344433 57899887765332 24677888899
Q ss_pred HHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh-hhccCCCCH-----------HH
Q 014748 80 EGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA-KFFQLQVPD-----------ES 147 (419)
Q Consensus 80 ~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~-~~~~l~vde-----------e~ 147 (419)
.+|+-+--.|--||..+.|.. -.|.-|---||..|-|..|++.-++.+++..-. --....+|. ++
T Consensus 87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaA 163 (459)
T KOG4340|consen 87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAA 163 (459)
T ss_pred HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHH
Confidence 999999888999998888876 345555556789999999999999988866432 122222332 34
Q ss_pred HH----HHHhCCCCHHHHH-HHHHHh-CCCHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCC---cC-CH
Q 014748 148 LS----LVMSMGFKEQDAK-RALRIC-SQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKK---AV-DI 217 (419)
Q Consensus 148 l~----~LmeMGF~~~~Ar-rALrat-~gdve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~---~v-~~ 217 (419)
|+ .|---||..--|- .||-+. .++-+.|+.+|.+-++.- .+. .+....|.+..+- .| |+
T Consensus 164 vqkFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG--~r~---------HPElgIGm~tegiDvrsvgNt 232 (459)
T KOG4340|consen 164 VQKFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERG--IRQ---------HPELGIGMTTEGIDVRSVGNT 232 (459)
T ss_pred HHHHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhh--hhc---------CCccCccceeccCchhcccch
Confidence 43 3444578766554 366654 567888888875433221 000 0111223322221 11 22
Q ss_pred HH--HHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhhcC-C-c---chhHHhhhhhHHhhhhh-ccchHHHHHHHHhC-CC
Q 014748 218 EK--IKELVSIGFEKELVAEALRRNENDSQKALDDLTN-P-E---SNSAIQLYIESRKRKRC-RQAADAKIEQLVAM-GF 288 (419)
Q Consensus 218 ~~--l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L~n-p-d---~~~~L~~~~~~~~~~~~-~~~d~~~I~~L~~M-GF 288 (419)
.. .+.|++ .|+ .+.|+.--.+|.+.|-+-|.| | . ..+++.-+-...+.... .+..-..+.-|... -|
T Consensus 233 ~~lh~Sal~e-AfN---LKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~nPf 308 (459)
T KOG4340|consen 233 LVLHQSALVE-AFN---LKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQNPF 308 (459)
T ss_pred HHHHHHHHHH-Hhh---hhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcCCC
Confidence 21 111221 132 355666667888888886644 2 1 11111111001111111 12234445555554 48
Q ss_pred CHHHHHHHH-HHcCCC-HHHHHHHhhcCCCC
Q 014748 289 ERPRVIEAC-RAGGDD-IHQIMLQLLGEPGS 317 (419)
Q Consensus 289 ~~~~A~~AL-~~~~nN-~e~A~d~Ll~~~~~ 317 (419)
|.+.-.--| .-|.|+ .+.|+|.|..|++-
T Consensus 309 P~ETFANlLllyCKNeyf~lAADvLAEn~~l 339 (459)
T KOG4340|consen 309 PPETFANLLLLYCKNEYFDLAADVLAENAHL 339 (459)
T ss_pred ChHHHHHHHHHHhhhHHHhHHHHHHhhCcch
Confidence 877644444 455553 58999999888763
No 138
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=43.14 E-value=52 Score=31.31 Aligned_cols=24 Identities=13% Similarity=0.470 Sum_probs=22.2
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRIC 168 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat 168 (419)
++.+..|+.+||+..++++|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999975
No 139
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=41.83 E-value=85 Score=31.62 Aligned_cols=50 Identities=16% Similarity=0.227 Sum_probs=38.8
Q ss_pred CCCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHcCCCHHH
Q 014748 227 GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDIHQ 306 (419)
Q Consensus 227 GF~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~ 306 (419)
|.+...|.++|.+..+.+..|+=. ...|++.+.|+..|..++|++..
T Consensus 243 ~~~~~~a~~~l~~~~~~vk~ai~~---------------------------------~~~~~~~~~a~~~l~~~~~~~~~ 289 (296)
T PRK12570 243 GCSEDEAKELLKESDNDVKLAILM---------------------------------ILTGMDVEQARAALSHADGFLRK 289 (296)
T ss_pred CcCHHHHHHHHHHhCCccHHHHHH---------------------------------HHhCCCHHHHHHHHHHcCChHHH
Confidence 777777888888877766665532 12278999999999999999999
Q ss_pred HHH
Q 014748 307 IML 309 (419)
Q Consensus 307 A~d 309 (419)
|++
T Consensus 290 ~l~ 292 (296)
T PRK12570 290 AIE 292 (296)
T ss_pred HHH
Confidence 985
No 140
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=40.69 E-value=1.2e+02 Score=24.22 Aligned_cols=65 Identities=12% Similarity=0.066 Sum_probs=43.0
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~ 81 (419)
.....|+.+++.++|+.|+.++-.+=..+.. -..++...+=+.|||+.+++ ...|...+..+-+.
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--------~~~~~~~~~~~~~~~~~~~~---~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPK--------SPKAPDALLKLGMSLQELGD---KEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHCCC--------CCcccHHHHHHHHHHHHhCC---hHHHHHHHHHHHHH
Confidence 3556899999999999999998776544320 00124445667889987655 46666666655444
No 141
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=40.67 E-value=5.1e+02 Score=28.23 Aligned_cols=133 Identities=17% Similarity=0.054 Sum_probs=74.9
Q ss_pred hhhhhHhHHHHHHhh---chHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 4 GLMLHANAKSLIKRH---MYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 4 ~~~lhek~r~~~~~~---~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
|+.++=+|+..+.+. ++..|+.+|-.| ++.==|||...-=+.|||.......-++ +..+..+.+
T Consensus 339 Ay~~~lrg~~~~~~~~~~~~~~A~~lle~A-----------i~ldP~~a~a~A~la~~~~~~~~~~~~~--~~~l~~a~~ 405 (517)
T PRK10153 339 ALTLFYQAHHYLNSGDAKSLNKASDLLEEI-----------LKSEPDFTYAQAEKALADIVRHSQQPLD--EKQLAALST 405 (517)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-----------HHhCCCcHHHHHHHHHHHHHHHhcCCcc--HHHHHHHHH
Confidence 444555566555442 255555555444 2222255555555689998876665433 346666766
Q ss_pred HHHHHhCCChHHHHHHH-cCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHH
Q 014748 81 GIERAHGKDSSRVRLLQ-AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQ 159 (419)
Q Consensus 81 ~f~r~yG~~~~Rl~~lk-g~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~ 159 (419)
...+... +- ....+ |.|..-++++..+|++++|...+.+|-+.- +.. ..
T Consensus 406 ~~~~a~a--------l~~~~~~~------~~~~ala~~~~~~g~~~~A~~~l~rAl~L~------ps~----------~a 455 (517)
T PRK10153 406 ELDNIVA--------LPELNVLP------RIYEILAVQALVKGKTDEAYQAINKAIDLE------MSW----------LN 455 (517)
T ss_pred HHHHhhh--------cccCcCCh------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC------CCH----------HH
Confidence 6664222 11 11111 344444667778899999999999886633 111 12
Q ss_pred HHHHH-HHHhCCCHHHHHHHH
Q 014748 160 DAKRA-LRICSQDVGSAIDFL 179 (419)
Q Consensus 160 ~ArrA-Lrat~gdve~Av~~L 179 (419)
-..+| +....|+.+.|++++
T Consensus 456 ~~~lG~~~~~~G~~~eA~~~~ 476 (517)
T PRK10153 456 YVLLGKVYELKGDNRLAADAY 476 (517)
T ss_pred HHHHHHHHHHcCCHHHHHHHH
Confidence 22233 223478999999987
No 142
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=40.15 E-value=1e+02 Score=22.60 Aligned_cols=49 Identities=22% Similarity=0.248 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhh
Q 014748 74 RLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (419)
Q Consensus 74 rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~ 137 (419)
+...|...|++.-..++. ....++..|.+.+.+|++++|...+..+-+.
T Consensus 12 ~~~~A~~~~~~~l~~~P~---------------~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 12 DYDEAIAAFEQALKQDPD---------------NPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHHHCCSTT---------------HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHCCC---------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 456677777766554432 3344556688888999999999888877543
No 143
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=39.96 E-value=42 Score=19.18 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=20.8
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhh
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMG 30 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~a 30 (419)
.++-+|..++..++|+.|...+..+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~ 27 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKA 27 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4567889999999999999988655
No 144
>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=39.76 E-value=46 Score=23.84 Aligned_cols=22 Identities=27% Similarity=0.345 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhCCCHHHHHHHH
Q 014748 158 EQDAKRALRICSQDVGSAIDFL 179 (419)
Q Consensus 158 ~~~ArrALrat~gdve~Av~~L 179 (419)
++.-...|+.|+|||-+|++.+
T Consensus 17 r~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 17 RSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred hHHHHHHHHHcCCcHHHHHHHh
Confidence 4445567999999999999975
No 145
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=39.72 E-value=31 Score=27.04 Aligned_cols=22 Identities=27% Similarity=0.413 Sum_probs=15.2
Q ss_pred HhHHHHHHhhchHHHHHHHHhh
Q 014748 9 ANAKSLIKRHMYKDALEVLTMG 30 (419)
Q Consensus 9 ek~r~~~~~~~y~~aL~~ll~a 30 (419)
-.|+.+++.++|++|+.+|-.|
T Consensus 63 l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 63 LLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHhcC
Confidence 3477888888888888777654
No 146
>PRK11189 lipoprotein NlpI; Provisional
Probab=39.63 E-value=3.8e+02 Score=26.37 Aligned_cols=98 Identities=13% Similarity=0.016 Sum_probs=56.3
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 014748 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (419)
Q Consensus 5 ~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (419)
-.+++.|....+.+++++|+..+-.|=+. +| |.+....-+...|..++ ..+.|. ..|.+
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l----~P-------~~~~a~~~lg~~~~~~g---~~~~A~-------~~~~~ 123 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDFSQALAL----RP-------DMADAYNYLGIYLTQAG---NFDAAY-------EAFDS 123 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHc----CC-------CCHHHHHHHHHHHHHCC---CHHHHH-------HHHHH
Confidence 35778888888889999998877666332 11 12222223344444443 334444 34444
Q ss_pred HhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 85 ~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
..--++. ...+ ++..|++.|..|++++|...+..+-...
T Consensus 124 Al~l~P~----------~~~a-----~~~lg~~l~~~g~~~eA~~~~~~al~~~ 162 (296)
T PRK11189 124 VLELDPT----------YNYA-----YLNRGIALYYGGRYELAQDDLLAFYQDD 162 (296)
T ss_pred HHHhCCC----------CHHH-----HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 3221211 1222 2334788888999999999998876543
No 147
>TIGR02508 type_III_yscG type III secretion protein, YscG family. YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.
Probab=39.49 E-value=48 Score=28.93 Aligned_cols=47 Identities=28% Similarity=0.414 Sum_probs=32.5
Q ss_pred HHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 014748 12 KSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK 77 (419)
Q Consensus 12 r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ 77 (419)
-++|.||+|.+||.++-. .|-|.| |-|.-+|=--+...+.+..||.+
T Consensus 47 sSLmNrG~Yq~Al~l~~~------~~~pdl-------------epw~ALce~rlGl~s~l~~rl~r 93 (115)
T TIGR02508 47 SSLMNRGDYQSALQLGNK------LCYPDL-------------EPWLALCEWRLGLGSALESRLNR 93 (115)
T ss_pred HHHHccchHHHHHHhcCC------CCCchH-------------HHHHHHHHHhhccHHHHHHHHHH
Confidence 478999999999988653 376665 45776666555556656666543
No 148
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=39.45 E-value=5.4e+02 Score=28.68 Aligned_cols=30 Identities=30% Similarity=0.242 Sum_probs=21.7
Q ss_pred HHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 109 RMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 109 RL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
+.+...|.+.+.+|++++|...+..+-...
T Consensus 285 ~a~~~lg~~l~~~g~~~eA~~~l~~al~l~ 314 (656)
T PRK15174 285 RIVTLYADALIRTGQNEKAIPLLQQSLATH 314 (656)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 344455777778899999988888776543
No 149
>PLN03196 MOC1-like protein; Provisional
Probab=38.65 E-value=5.4e+02 Score=27.84 Aligned_cols=219 Identities=16% Similarity=0.171 Sum_probs=105.2
Q ss_pred HHhCCChHHHHHHHc------CCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCH---HHHHHHHhC
Q 014748 84 RAHGKDSSRVRLLQA------GRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPD---ESLSLVMSM 154 (419)
Q Consensus 84 r~yG~~~~Rl~~lkg------~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vde---e~l~~LmeM 154 (419)
+++|-...-+..+-- .+..|..|.-++..|+++.. .. ++-..++...- .+-.+.++. ..|.-|.++
T Consensus 132 ~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGv-s~---~~i~~~l~r~P-~LL~~~~e~~l~p~v~fL~~l 206 (487)
T PLN03196 132 EKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDV-KR---QDIPRVLERYP-ELLGFKLEGTMSTSVAYLVSI 206 (487)
T ss_pred HHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCC-CH---HHHHHHHHhCc-hhhcCCHHHHHHHHHHHHHHc
Confidence 455555555443331 23355566666777765422 21 22222222211 111122222 357778888
Q ss_pred CCCHHHHHHHHHHhC--------CCHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC
Q 014748 155 GFKEQDAKRALRICS--------QDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI 226 (419)
Q Consensus 155 GF~~~~ArrALrat~--------gdve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~~v~~~~l~~L~~M 226 (419)
|++..+..+.+..+- +++..-++||.+---....... -.. +.+.-++.+.. ..+ ...+..|+++
T Consensus 207 Gvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~-----il~-~~P~iL~~sle-~~l-kp~v~~L~el 278 (487)
T PLN03196 207 GVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVAR-----ILE-KRPYILGFDLE-ETV-KPNVECLLEF 278 (487)
T ss_pred CCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHH-----HHH-hCCceeEcCHH-HhH-HHHHHHHHHc
Confidence 888888887776542 3456677777542111111100 000 00000110000 001 1257788888
Q ss_pred CCCHHHHHHHHHhcCCC----HHH----HHHhhc-----CCcchh-HHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHH
Q 014748 227 GFEKELVAEALRRNEND----SQK----ALDDLT-----NPESNS-AIQLYIESRKRKRCRQAADAKIEQLVAMGFERPR 292 (419)
Q Consensus 227 GF~~~~A~~ALr~t~nn----ve~----Al~~L~-----npd~~~-~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~ 292 (419)
|+++......+...+.- ++. -+.+|. +|+... .+... |.--......=...++-|+.+||+.+.
T Consensus 279 Gv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~--P~il~lSe~kl~~kvefL~~~Gls~ed 356 (487)
T PLN03196 279 GVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKL--PQIVSLNRNVALKHVEFLRGRGFSAQD 356 (487)
T ss_pred CCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhc--chhhcccHHHHHHHHHHHHHcCCCHHH
Confidence 98888887777776542 222 222221 111000 00000 000000000113457788999999999
Q ss_pred HHHHHHHcC-------CCHHHHHHHhhcCCCC
Q 014748 293 VIEACRAGG-------DDIHQIMLQLLGEPGS 317 (419)
Q Consensus 293 A~~AL~~~~-------nN~e~A~d~Ll~~~~~ 317 (419)
+..+++.+- .++...++||.+.++-
T Consensus 357 I~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~ 388 (487)
T PLN03196 357 VAKMVVRCPQILALNLEIMKPSLEFFKKEMKR 388 (487)
T ss_pred HHHHHHhCCceeeccHHHHHHHHHHHHHHhCC
Confidence 988887643 4688888998887664
No 150
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=38.37 E-value=43 Score=20.93 Aligned_cols=29 Identities=21% Similarity=0.188 Sum_probs=23.0
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhh
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAF 34 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F 34 (419)
.++..|+...+.|+|++|...|-+.=+.|
T Consensus 2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~ 30 (33)
T PF13174_consen 2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY 30 (33)
T ss_dssp HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence 35678999999999999999887654443
No 151
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=37.97 E-value=99 Score=31.16 Aligned_cols=31 Identities=19% Similarity=0.287 Sum_probs=25.1
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHHh
Q 014748 220 IKELVSI-GFEKELVAEALRRNENDSQKALDD 250 (419)
Q Consensus 220 l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~ 250 (419)
+.-|+-. |++...|++.|..++|++..|++.
T Consensus 266 ~a~~~~~~~~~~~~a~~~l~~~~g~~~~~~~~ 297 (299)
T PRK05441 266 LAIVMILTGLDAAEAKALLARHGGFLRKALAE 297 (299)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCCHHHHHhh
Confidence 4455544 688999999999999999999864
No 152
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=37.24 E-value=36 Score=32.50 Aligned_cols=25 Identities=20% Similarity=0.303 Sum_probs=22.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~ 169 (419)
++++..|+.+||++.+|++|++...
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~ 169 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIM 169 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 5789999999999999999998653
No 153
>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=37.04 E-value=90 Score=24.42 Aligned_cols=34 Identities=18% Similarity=0.373 Sum_probs=27.9
Q ss_pred HHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 148 LSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 148 l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
|..++.- +++.+.--.|+-|+.|++.|++-|++.
T Consensus 12 iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 12 IKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 3344444 799999999999999999999999875
No 154
>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=36.74 E-value=83 Score=24.61 Aligned_cols=27 Identities=11% Similarity=0.181 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHhhcC
Q 014748 288 FERPRVIEACRAGGDDIHQIMLQLLGE 314 (419)
Q Consensus 288 F~~~~A~~AL~~~~nN~e~A~d~Ll~~ 314 (419)
++++..-..|+-|+.|.+.|++.|++.
T Consensus 19 hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 19 HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 699999999999999999999999974
No 155
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=35.96 E-value=76 Score=30.06 Aligned_cols=25 Identities=16% Similarity=0.428 Sum_probs=22.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~ 169 (419)
++.+..|+.+||+..+|++|+....
T Consensus 149 ~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 149 SDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5789999999999999999999874
No 156
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=35.30 E-value=16 Score=29.51 Aligned_cols=29 Identities=17% Similarity=0.029 Sum_probs=23.7
Q ss_pred CHHHHHHHHHHcCCCHHHHHHHhhcCCCC
Q 014748 289 ERPRVIEACRAGGDDIHQIMLQLLGEPGS 317 (419)
Q Consensus 289 ~~~~A~~AL~~~~nN~e~A~d~Ll~~~~~ 317 (419)
+..+.+.||..+.-|+++|++||++....
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~~~~ 73 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSKFKK 73 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHCCHS
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence 77889999999999999999999976443
No 157
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=34.75 E-value=1.8e+02 Score=24.17 Aligned_cols=61 Identities=16% Similarity=0.111 Sum_probs=40.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
.++..|..+++.++|++|+.++-.+=+.+.. | +-...-+.|||..+++ ...|...++++-+
T Consensus 53 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~----------~-~~~~~~la~~~~~~g~---~~~A~~~~~~al~ 113 (135)
T TIGR02552 53 YWLGLAACCQMLKEYEEAIDAYALAAALDPD----------D-PRPYFHAAECLLALGE---PESALKALDLAIE 113 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC----------C-hHHHHHHHHHHHHcCC---HHHHHHHHHHHHH
Confidence 3556788999999999999988777554321 2 3344558899998865 4555555544433
No 158
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=34.28 E-value=2.3e+02 Score=27.88 Aligned_cols=152 Identities=16% Similarity=0.120 Sum_probs=81.0
Q ss_pred HHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHH
Q 014748 15 IKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVR 94 (419)
Q Consensus 15 ~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~ 94 (419)
|++++|++|+++|..+=..|-+.+- .-..+| .+++-|| +|-. ...+.-...+.+--+++...--..++|..
T Consensus 1 v~~kky~eAidLL~~Ga~~ll~~~Q-~~sg~D-L~~llie---v~~~----~~~~~~~~~~~rl~~l~~~~~~~~p~r~~ 71 (260)
T PF04190_consen 1 VKQKKYDEAIDLLYSGALILLKHGQ-YGSGAD-LALLLIE---VYEK----SEDPVDEESIARLIELISLFPPEEPERKK 71 (260)
T ss_dssp HHTT-HHHHHHHHHHHHHHHHHTT--HHHHHH-HHHHHHH---HHHH----TT---SHHHHHHHHHHHHHS-TT-TTHHH
T ss_pred CccccHHHHHHHHHHHHHHHHHCCC-cchHHH-HHHHHHH---HHHH----cCCCCCHHHHHHHHHHHHhCCCCcchHHH
Confidence 6899999999999888777765542 222222 2344443 3333 33333344444445555555555667776
Q ss_pred HHHc---C--CcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHh--hhccCCCCHHHHHHHHhCCCCHHHHHHHHHH
Q 014748 95 LLQA---G--RHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA--KFFQLQVPDESLSLVMSMGFKEQDAKRALRI 167 (419)
Q Consensus 95 ~lkg---~--~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~--~~~~l~vdee~l~~LmeMGF~~~~ArrALra 167 (419)
-++. . .+....=.-.||.+=|.+.+..|++.+|+.||--... .+.. -..+..-...||+.+.-.=+.|+
T Consensus 72 fi~~ai~WS~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~----~~ll~~~~~~~~~~e~dlfi~Ra 147 (260)
T PF04190_consen 72 FIKAAIKWSKFGSYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAY----VMLLEEWSTKGYPSEADLFIARA 147 (260)
T ss_dssp HHHHHHHHHHTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHH----HHHHHHHHHHTSS--HHHHHHHH
T ss_pred HHHHHHHHHccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHH----HHHHHHHHHhcCCcchhHHHHHH
Confidence 6662 1 2233344568888889888999999999998854322 1111 01233344678887764444443
Q ss_pred -----hCCCHHHHHHHH
Q 014748 168 -----CSQDVGSAIDFL 179 (419)
Q Consensus 168 -----t~gdve~Av~~L 179 (419)
|-+|+..|...+
T Consensus 148 VL~yL~l~n~~~A~~~~ 164 (260)
T PF04190_consen 148 VLQYLCLGNLRDANELF 164 (260)
T ss_dssp HHHHHHTTBHHHHHHHH
T ss_pred HHHHHHhcCHHHHHHHH
Confidence 456666666543
No 159
>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=34.16 E-value=31 Score=24.27 Aligned_cols=24 Identities=42% Similarity=0.535 Sum_probs=19.9
Q ss_pred CCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 228 FEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 228 F~~~~A~~ALr~t~nnve~Al~~L 251 (419)
|++.....||..++||+..|...|
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 456778999999999999999977
No 160
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=33.64 E-value=2.4e+02 Score=27.73 Aligned_cols=28 Identities=7% Similarity=-0.026 Sum_probs=21.9
Q ss_pred HHHHHHHhHhhhhccCChhHHHHHhHhH
Q 014748 107 HLRMELLEGVAAYHSGQFDKARNALTSA 134 (419)
Q Consensus 107 ~lRL~LLqgvv~~~~g~~~eA~~~L~~a 134 (419)
....+.+-+.+...+|++++|...+..+
T Consensus 185 ~~~~~~~la~~~~~~G~~~~A~~~~~~~ 212 (355)
T cd05804 185 RGHNWWHLALFYLERGDYEAALAIYDTH 212 (355)
T ss_pred hHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3445566677777899999999999887
No 161
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.37 E-value=80 Score=30.03 Aligned_cols=24 Identities=21% Similarity=0.357 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.+++..|++|||++..|..|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999865
No 162
>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=33.12 E-value=1.4e+02 Score=22.46 Aligned_cols=43 Identities=26% Similarity=0.342 Sum_probs=31.9
Q ss_pred CCCHHHHHH--HHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhchh
Q 014748 142 QVPDESLSL--VMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (419)
Q Consensus 142 ~vdee~l~~--LmeMGF~~~~ArrALrat~gdve~Av~~L~e~~~ 184 (419)
.|+++.|.+ -+=-|=+++-.+|-|+.++=||..|++-|+++-+
T Consensus 7 ~vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDd 51 (53)
T PF11547_consen 7 QVPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDD 51 (53)
T ss_dssp GS-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH-
T ss_pred cCCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcccc
Confidence 466666663 3446999999999999999999999999987643
No 163
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=32.96 E-value=82 Score=30.08 Aligned_cols=113 Identities=13% Similarity=0.175 Sum_probs=61.2
Q ss_pred CCCCHHHHHHHHHH---hCC-CHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC-CC
Q 014748 154 MGFKEQDAKRALRI---CSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI-GF 228 (419)
Q Consensus 154 MGF~~~~ArrALra---t~g-dve~Av~~L~e~~~d~~~~~~~~~~~~~~~~~~~~~g~t~~~~~v~~~~l~~L~~M-GF 228 (419)
-||...+=|.-.+. -+| .+-.|+..|-....+ +... . +....+..|... |.
T Consensus 62 yGF~~~~Er~lF~~Li~V~GIGpK~Al~iLs~~~~~-~l~~--------a---------------I~~~D~~~L~~ipGI 117 (203)
T PRK14602 62 FGFATWDERQTFIVLISISKVGAKTALAILSQFRPD-DLRR--------L---------------VAEEDVAALTRVSGI 117 (203)
T ss_pred eCCCCHHHHHHHHHHhCCCCcCHHHHHHHHhhCCHH-HHHH--------H---------------HHhCCHHHHhcCCCc
Confidence 68888777776554 344 588888865432222 1110 0 001124566666 77
Q ss_pred CHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 229 EKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 229 ~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.+..|.+-+-.-.+-+.. .. +..+.. . .. ........-.+++..|++|||++.+|..|+...
T Consensus 118 GkKtAerIilELkdK~~~-~~-~~~~~~------~-~~-~~~~~~~~~~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 118 GKKTAQHIFLELKYKLKV-EG-LPAAAV------L-AG-TGAVPGSVFRDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred CHHHHHHHHHHHHHhhcc-cc-cccccc------c-cc-cccCCCchHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 787787776543333321 00 100000 0 00 000001123578899999999999999999876
No 164
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=32.78 E-value=1.1e+02 Score=30.76 Aligned_cols=30 Identities=17% Similarity=0.174 Sum_probs=24.7
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHH
Q 014748 220 IKELVSI-GFEKELVAEALRRNENDSQKALD 249 (419)
Q Consensus 220 l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~ 249 (419)
+.-||-+ |++...|++.|..++|++-.|++
T Consensus 261 ~Ai~~~~~~~~~~~a~~~l~~~~g~~~~~l~ 291 (291)
T TIGR00274 261 LAIVMILSTLSASEAKVLLDRHGGFLRQALD 291 (291)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCcHHHhhC
Confidence 4555555 79999999999999999998874
No 165
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=31.98 E-value=51 Score=31.52 Aligned_cols=26 Identities=27% Similarity=0.243 Sum_probs=22.2
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGGD 302 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~n 302 (419)
.+++..|++|||++..|..|++..-.
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~ 170 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIML 170 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 57899999999999999999975543
No 166
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=31.24 E-value=42 Score=32.20 Aligned_cols=24 Identities=25% Similarity=0.602 Sum_probs=20.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 146 ESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 146 e~l~~LmeMGF~~~~ArrALrat~ 169 (419)
+.|..|+.+||++.++++|+....
T Consensus 158 ~~v~AL~~LGy~~~e~~~av~~v~ 181 (201)
T COG0632 158 EAVEALVALGYKEKEIKKAVKKVL 181 (201)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHH
Confidence 348999999999999999998753
No 167
>PF04592 SelP_N: Selenoprotein P, N terminal region; InterPro: IPR007671 SelP is the only known eukaryotic selenoprotein that contains multiple selenocysteine (Sec) residues, and accounts for more than 50% of the selenium content of rat and human plasma []. It is thought to be glycosylated []. SelP may have antioxidant properties. It can attach to epithelial cells, and may protect vascular endothelial cells against peroxynitrite toxicity []. The high selenium content of SelP suggests that it may be involved in selenium intercellular transport or storage []. The promoter structure of bovine SelP suggests that it may be involved in countering heavy metal intoxication, and may also have a developmental function []. The N-terminal region of SelP can exist independently of the C-terminal region. Zebrafish selenoprotein Pb (Q98SV0 from SWISSPROT) lacks the C-terminal Sec-rich region, and a protein encoded by the rat SelP gene and lacking this region has also been reported []. The N-terminal region contains a conserved SecxxCys motif, which is similar to the CysxxCys found in thioredoxins. It is speculated that the N-terminal region may adopt a thioredoxin fold and catalyse redox reactions []. The N-terminal region also contains a His-rich region, which is thought to mediate heparin binding. Binding to heparan proteoglycans could account for the membrane binding properties of SelP []. The function of the bacterial members of this family is uncharacterised.; GO: 0008430 selenium binding
Probab=31.10 E-value=17 Score=35.77 Aligned_cols=29 Identities=34% Similarity=0.451 Sum_probs=22.6
Q ss_pred cchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 014748 46 DNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK 77 (419)
Q Consensus 46 DN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ 77 (419)
==.|||+. |||||+.++..|.+-+.+|.+
T Consensus 29 tvVALL~a---sc~~c~~qa~~le~Lr~kL~~ 57 (238)
T PF04592_consen 29 TVVALLQA---SCYFCLLQASRLEDLREKLEN 57 (238)
T ss_pred Eeeeehhh---hhHHHHHHHHHHHHHHHHHHH
Confidence 33567765 999999999988888777754
No 168
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=30.72 E-value=2.2e+02 Score=23.23 Aligned_cols=68 Identities=16% Similarity=0.050 Sum_probs=46.9
Q ss_pred HHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 014748 13 SLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (419)
Q Consensus 13 ~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (419)
..++.++|..|++.|...=..+...+..-...--.||+|++=.++-.| .+.+.|..-|..|-+.-+..
T Consensus 7 ~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~-----G~~~~A~~~l~eAi~~Are~ 74 (94)
T PF12862_consen 7 NALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRF-----GHYEEALQALEEAIRLAREN 74 (94)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHh-----CCHHHHHHHHHHHHHHHHHH
Confidence 368999999999999876555555554443445567877765555444 66788888888777766554
No 169
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.19 E-value=57 Score=30.85 Aligned_cols=24 Identities=25% Similarity=0.457 Sum_probs=21.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAG 300 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~ 300 (419)
.+++..|++|||++.+|..|++..
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 567899999999999999999766
No 170
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=30.12 E-value=46 Score=34.75 Aligned_cols=22 Identities=32% Similarity=0.693 Sum_probs=19.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHh
Q 014748 218 EKIKELVSIGFEKELVAEALRR 239 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~ 239 (419)
+.|+.++.|||.+++++..+|+
T Consensus 323 dvidKv~~MGf~rDqV~a~v~r 344 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVRATVRR 344 (358)
T ss_pred HHHHHHHHcCCcHHHHHHHHHH
Confidence 7899999999999999887664
No 171
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=29.08 E-value=61 Score=30.62 Aligned_cols=25 Identities=20% Similarity=0.497 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGG 301 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~ 301 (419)
.+++..|++|||++..|..|+..-.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5688999999999999999997653
No 172
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=28.87 E-value=52 Score=25.42 Aligned_cols=36 Identities=22% Similarity=0.240 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCCCHHHHHHhh--cCCcchhHHhhhhhH
Q 014748 231 ELVAEALRRNENDSQKALDDL--TNPESNSAIQLYIES 266 (419)
Q Consensus 231 ~~A~~ALr~t~nnve~Al~~L--~npd~~~~L~~~~~~ 266 (419)
...|..+++++.-+..-++.| +||++...|+.+.+.
T Consensus 11 ~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~~n~e~ 48 (59)
T PF09280_consen 11 QQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQQNPEE 48 (59)
T ss_dssp HHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHHHTHHH
T ss_pred HHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHHHCHHH
Confidence 458899999999999999988 799998888888554
No 173
>PRK14136 recX recombination regulator RecX; Provisional
Probab=28.87 E-value=6.6e+02 Score=25.86 Aligned_cols=74 Identities=15% Similarity=0.171 Sum_probs=44.5
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCC-CHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHH
Q 014748 218 EKIKELVSIGFEKELVAEALRRNEN-DSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEA 296 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t~n-nve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~A 296 (419)
.....|..-|++...+..||..... .++.|..++. ..+... ... ...-...+.-|+.=||+.+.+..+
T Consensus 230 rIrqELrQKGId~eLIEqALeeieEDE~E~A~~L~e---------KK~~~~-~~d-~kek~K~iRfL~rRGFS~D~I~~v 298 (309)
T PRK14136 230 RIVSELKRHAVGDALVESVGAQLRETEFERAQAVWR---------KKFGAL-PQT-PAERAKQARFLAARGFSSATIVKL 298 (309)
T ss_pred HHHHHHHHcCCCHHHHHHHHHhccHhHHHHHHHHHH---------HHhccc-CcC-HHHHHHHHHHHHHCCCCHHHHHHH
Confidence 3456788889999999988875422 2344444331 000000 000 001223467799999999999999
Q ss_pred HHHcCC
Q 014748 297 CRAGGD 302 (419)
Q Consensus 297 L~~~~n 302 (419)
|+.+.+
T Consensus 299 Lk~~~d 304 (309)
T PRK14136 299 LKVGDD 304 (309)
T ss_pred HHhchh
Confidence 988765
No 174
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=28.83 E-value=68 Score=21.40 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=19.1
Q ss_pred hhHhHHHHHHhhchHHHHHHHHh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTM 29 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ 29 (419)
|+.-|+...+.++|+.|..+.-.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~ 24 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQ 24 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHH
Confidence 56779999999999999998866
No 175
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=28.70 E-value=1.3e+02 Score=27.11 Aligned_cols=37 Identities=24% Similarity=0.235 Sum_probs=32.4
Q ss_pred cCCHHHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 214 ~v~~~~l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L 251 (419)
.+..+.+.-+.+-|.+++.|++||..++ |+-.|+.+|
T Consensus 112 ~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l 148 (153)
T COG4008 112 EPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKIL 148 (153)
T ss_pred CCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHH
Confidence 3466789999999999999999999877 999999875
No 176
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=28.65 E-value=1.4e+02 Score=30.01 Aligned_cols=30 Identities=23% Similarity=0.364 Sum_probs=24.1
Q ss_pred HHHHHhC-CCCHHHHHHHHHhcCCCHHHHHH
Q 014748 220 IKELVSI-GFEKELVAEALRRNENDSQKALD 249 (419)
Q Consensus 220 l~~L~~M-GF~~~~A~~ALr~t~nnve~Al~ 249 (419)
+.-|+-+ |++...|++.|.+++|++..|++
T Consensus 262 ~ai~~~~~~~~~~~a~~~l~~~~~~~~~~l~ 292 (296)
T PRK12570 262 LAILMILTGMDVEQARAALSHADGFLRKAIE 292 (296)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCChHHHHHH
Confidence 3445444 78889999999999999999886
No 177
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=28.02 E-value=3.6e+02 Score=24.01 Aligned_cols=23 Identities=22% Similarity=0.457 Sum_probs=19.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhc
Q 014748 218 EKIKELVSIGFEKELVAEALRRN 240 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t 240 (419)
..+..|+.=||+-+.+..+|...
T Consensus 131 Ki~~~L~rkGF~~~~I~~~l~~~ 153 (157)
T PRK00117 131 KLVRFLARRGFSMDVIQRVLRNA 153 (157)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhh
Confidence 46788999999999999998764
No 178
>PF08031 BBE: Berberine and berberine like ; InterPro: IPR012951 This domain is found in the berberine bridge and berberine bridge-like enzymes, which are involved in the biosynthesis of numerous isoquinoline alkaloids. They catalyse the transformation of the N-methyl group of (S)-reticuline into the C-8 berberine bridge carbon of (S)-scoulerine [].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 2IPI_A 2Y3S_A 2Y3R_D 2Y08_B 2Y4G_A 3D2H_A 3FW9_A 3FW8_A 3FWA_A 3D2J_A ....
Probab=27.52 E-value=43 Score=24.33 Aligned_cols=26 Identities=19% Similarity=0.291 Sum_probs=19.4
Q ss_pred HHHHHHhCCChHHHHHHHcCCcchhh
Q 014748 80 EGIERAHGKDSSRVRLLQAGRHPELA 105 (419)
Q Consensus 80 ~~f~r~yG~~~~Rl~~lkg~~~~E~a 105 (419)
......||+|..||+.||...-|+-.
T Consensus 14 ~~~~~yyg~n~~rL~~iK~~yDP~n~ 39 (47)
T PF08031_consen 14 DWQEAYYGENYDRLRAIKRKYDPDNV 39 (47)
T ss_dssp HHHHHHHGGGHHHHHHHHHHH-TT-T
T ss_pred HHHHHHhchhHHHHHHHHHHhCccce
Confidence 45678899999999999966555543
No 179
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=27.51 E-value=97 Score=23.09 Aligned_cols=41 Identities=15% Similarity=0.153 Sum_probs=28.1
Q ss_pred HHHHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHH
Q 014748 108 LRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVM 152 (419)
Q Consensus 108 lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~Lm 152 (419)
..+++..|.+.+..|++.+|...|..+-+.- +++.....++
T Consensus 29 ~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~----p~~~~~~~~~ 69 (73)
T PF13371_consen 29 PELWLQRARCLFQLGRYEEALEDLERALELS----PDDPDARALR 69 (73)
T ss_pred chhhHHHHHHHHHhccHHHHHHHHHHHHHHC----CCcHHHHHHH
Confidence 4555667888899999999999888775433 2444444444
No 180
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=27.27 E-value=2.2e+02 Score=28.84 Aligned_cols=33 Identities=12% Similarity=0.252 Sum_probs=24.9
Q ss_pred HHHHHHhCCCCHHHHHHHHHHhCCC--HHHHHHHH
Q 014748 147 SLSLVMSMGFKEQDAKRALRICSQD--VGSAIDFL 179 (419)
Q Consensus 147 ~l~~LmeMGF~~~~ArrALrat~gd--ve~Av~~L 179 (419)
--+-|...|++..++..++-+++-. |-.|++|-
T Consensus 118 g~~dl~~~~lt~~DvvvgIaASGrTPYvigal~yA 152 (298)
T COG2103 118 GEADLKNIGLTAKDVVVGIAASGRTPYVIGALEYA 152 (298)
T ss_pred HHHHHHHcCCCcCCEEEEEecCCCCchhhHHHHHH
Confidence 4557888899999988888776654 67777774
No 181
>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=27.26 E-value=3.7e+02 Score=22.82 Aligned_cols=99 Identities=18% Similarity=0.321 Sum_probs=53.9
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHH-HHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHH
Q 014748 57 WCYFMLRDISWLSEAGIRLRKAREGIE-RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQ 135 (419)
Q Consensus 57 Wcy~~l~~~~~l~dA~~rL~~ae~~f~-r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~ 135 (419)
+.-=.|++...|+|..---..++..+. +.||+.--+....+-+..++ +.+.++. .+++......-++
T Consensus 13 ~vi~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~--------~i~~~l~----~~~~~e~a~~~~~ 80 (121)
T PF02631_consen 13 EVIDRLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQKGIDRE--------IIEEALE----EYDEEEEALELAE 80 (121)
T ss_dssp HHHHHHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHTT--HH--------HHHHHHT----CS-HHHHHHHHHH
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHHCCChH--------HHHHHHH----HhhHHHHHHHHHH
Confidence 334456777888998888888888887 88885544444444333333 2222223 2232222333444
Q ss_pred hhhccCC--CCH----HHHHHHHhCCCCHHHHHHHHHH
Q 014748 136 AKFFQLQ--VPD----ESLSLVMSMGFKEQDAKRALRI 167 (419)
Q Consensus 136 ~~~~~l~--vde----e~l~~LmeMGF~~~~ArrALra 167 (419)
..+.... .+. -.+..|+.-||+...+++++..
T Consensus 81 kk~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 81 KKYRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred HHHhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 4444442 122 3677999999999999999875
No 182
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=26.79 E-value=1.2e+02 Score=26.91 Aligned_cols=46 Identities=22% Similarity=0.288 Sum_probs=32.7
Q ss_pred HHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHHcCCCH
Q 014748 244 SQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRAGGDDI 304 (419)
Q Consensus 244 ve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~~~nN~ 304 (419)
++.|+.+|.||... .++-...|+=|.+=|.+.+.+.+||+..++..
T Consensus 6 i~~A~~FL~~p~V~---------------~sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 6 IEQAVKFLQDPKVR---------------NSPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHCTTTCC---------------CS-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHhCCcccc---------------cCCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 68899999998742 12345568889999999999999999888844
No 183
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=26.53 E-value=7.2e+02 Score=29.54 Aligned_cols=149 Identities=13% Similarity=0.085 Sum_probs=84.7
Q ss_pred chhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 014748 2 MMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (419)
Q Consensus 2 ~~~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~ 81 (419)
+++=+++..||+.=.+|+|+.|.-...+| ..|++ |||-+=-.=|+=-|....++ ..+..|
T Consensus 305 ~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s----~k~~~------d~~~l~~~GlgQm~i~~~dl----------e~s~~~ 364 (1018)
T KOG2002|consen 305 IKAESFYQLGRSYHAQGDFEKAFKYYMES----LKADN------DNFVLPLVGLGQMYIKRGDL----------EESKFC 364 (1018)
T ss_pred HHHHHHHHHHHHHHhhccHHHHHHHHHHH----HccCC------CCccccccchhHHHHHhchH----------HHHHHH
Confidence 34557999999999999999999999987 45655 44433334455566666554 456677
Q ss_pred HHHHhCCChHHHHHHH--cCCcchh------hHHHHHHHHhHhh---------------hhccCChhHHHHHhHhHHhhh
Q 014748 82 IERAHGKDSSRVRLLQ--AGRHPEL------ALHLRMELLEGVA---------------AYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 82 f~r~yG~~~~Rl~~lk--g~~~~E~------aL~lRL~LLqgvv---------------~~~~g~~~eA~~~L~~a~~~~ 138 (419)
|++-|-.++.-..+++ |...... +=..+ .++.+++ .|.+++.-.+...+.+|-..+
T Consensus 365 fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~-~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L 443 (1018)
T KOG2002|consen 365 FEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKAS-NVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDIL 443 (1018)
T ss_pred HHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHH-HHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHH
Confidence 7777665554444443 5433332 21111 1122211 223444444455555554333
Q ss_pred cc--CCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Q 014748 139 FQ--LQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 182 (419)
Q Consensus 139 ~~--l~vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~ 182 (419)
.. -+|+++.++.+- +|+.-.|+++.|.+++-.-
T Consensus 444 ~~~~~~ip~E~LNNva-----------slhf~~g~~~~A~~~f~~A 478 (1018)
T KOG2002|consen 444 ESKGKQIPPEVLNNVA-----------SLHFRLGNIEKALEHFKSA 478 (1018)
T ss_pred HHcCCCCCHHHHHhHH-----------HHHHHhcChHHHHHHHHHH
Confidence 21 125555555443 5666777888877776433
No 184
>PLN02751 glutamyl-tRNA(Gln) amidotransferase
Probab=26.47 E-value=7.4e+02 Score=27.46 Aligned_cols=101 Identities=17% Similarity=0.193 Sum_probs=58.7
Q ss_pred hHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHH-------H-----HhCCCHHHHHHHHHhchhhhhhhhhhhHHHHH
Q 014748 131 LTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRAL-------R-----ICSQDVGSAIDFLVEEKAKRVKEREDNEQRRK 198 (419)
Q Consensus 131 L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrAL-------r-----at~gdve~Av~~L~e~~~d~~~~~~~~~~~~~ 198 (419)
+...+..++++ +++....|.++|.+...|..=+ . ....++..+.+||+...-.....
T Consensus 355 i~~ir~~lPEl--P~~~~~Rl~~~gLs~~dA~~L~~~~~~a~ffe~~~~~~~~~k~~anwi~~el~~~l~~--------- 423 (544)
T PLN02751 355 VDSIRASMPEL--PEAKRRRYENMGLSMQDVLFLANDKNVAEFFDATLAKGADAKLAANWIMGDIAAYLKN--------- 423 (544)
T ss_pred HHHHHHhCCCC--HHHHHHHHHHcCCCHHHHHHHHcCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHh---------
Confidence 33444444443 4567778888999988885321 1 12357888889987654221110
Q ss_pred HHHHHhhcCCCCCCCcCCHHHHHHHHhC---C-CCHHHHHHHHHhc---CCCHHHHHH
Q 014748 199 EIMEQKRYGLTPLKKAVDIEKIKELVSI---G-FEKELVAEALRRN---ENDSQKALD 249 (419)
Q Consensus 199 ~~~~~~~~g~t~~~~~v~~~~l~~L~~M---G-F~~~~A~~ALr~t---~nnve~Al~ 249 (419)
.+.+-....+.++.|..|+.+ | .+...||..|..- +.+++..++
T Consensus 424 -------~~~~i~~~~l~p~~laeLi~li~~g~Is~~~AK~vl~~~~~~~~~p~~iie 474 (544)
T PLN02751 424 -------EKVSISEIKLTPKELAELIASIKDGTISGKIGKEILPELLAKGGTVKGLVE 474 (544)
T ss_pred -------CCCChhhcCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCCHHHHHH
Confidence 012222234677878877776 4 6788888887632 445655555
No 185
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=25.81 E-value=77 Score=19.76 Aligned_cols=22 Identities=23% Similarity=0.156 Sum_probs=18.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVL 27 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~l 27 (419)
..+..|+++..+|++++|+.++
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l 24 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLL 24 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHH
Confidence 4567799999999999999876
No 186
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=25.20 E-value=77 Score=30.43 Aligned_cols=26 Identities=23% Similarity=0.440 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGGD 302 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~n 302 (419)
.+.+..|++|||++.++..|+..-..
T Consensus 157 ~~~v~AL~~LGy~~~e~~~av~~v~~ 182 (201)
T COG0632 157 EEAVEALVALGYKEKEIKKAVKKVLK 182 (201)
T ss_pred hHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence 34489999999999999999875443
No 187
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=25.03 E-value=4.3e+02 Score=29.91 Aligned_cols=30 Identities=13% Similarity=-0.043 Sum_probs=22.2
Q ss_pred HHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 109 RMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 109 RL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
...++.+.+....|+.++|...|..+-...
T Consensus 360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~ 389 (765)
T PRK10049 360 QGQSLLSQVAKYSNDLPQAEMRARELAYNA 389 (765)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 344556656668899999999998886654
No 188
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=24.03 E-value=1.1e+02 Score=24.38 Aligned_cols=27 Identities=19% Similarity=0.394 Sum_probs=21.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHH----HcCCC
Q 014748 277 DAKIEQLVAMGFERPRVIEACR----AGGDD 303 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~----~~~nN 303 (419)
..+++.+..|||+..+++..|+ ..++|
T Consensus 12 daA~dam~~lG~~~~~v~~vl~~LL~lY~~n 42 (65)
T PF10440_consen 12 DAALDAMRQLGFSKKQVRPVLKNLLKLYDGN 42 (65)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHcCC
Confidence 4678899999999999887764 56665
No 189
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.48 E-value=1.6e+02 Score=27.94 Aligned_cols=26 Identities=19% Similarity=0.350 Sum_probs=22.8
Q ss_pred hHHHHHHHHhCCCCHHHHHHHHHHcC
Q 014748 276 ADAKIEQLVAMGFERPRVIEACRAGG 301 (419)
Q Consensus 276 d~~~I~~L~~MGF~~~~A~~AL~~~~ 301 (419)
..+++..|.++||++..|..|+....
T Consensus 148 ~~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 148 NSDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 35688999999999999999998774
No 190
>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=22.94 E-value=1.6e+02 Score=29.33 Aligned_cols=25 Identities=40% Similarity=0.555 Sum_probs=20.4
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCC
Q 014748 218 EKIKELVSIGFEKELVAEALRRNEN 242 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t~n 242 (419)
..++.|.++||+++++.+.++..+.
T Consensus 245 ~~i~~L~~lG~s~~ei~~mv~~~P~ 269 (345)
T PF02536_consen 245 PKIEFLQSLGFSEEEIAKMVRRFPQ 269 (345)
T ss_dssp HHHHHHHTTT--HHHHHHHHHHSGG
T ss_pred HHHHHHHHhcCcHHHHHHHHHhCcc
Confidence 4688999999999999999998876
No 191
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=22.92 E-value=69 Score=23.68 Aligned_cols=56 Identities=14% Similarity=0.160 Sum_probs=37.0
Q ss_pred HHHHhHhhhhccCChhHHHHHhHhHHhhhccCCCCHHHHHHHHhCCCCHHHHHHHHHHhCC-CHHHHHHHH
Q 014748 110 MELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFL 179 (419)
Q Consensus 110 L~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~l~vdee~l~~LmeMGF~~~~ArrALrat~g-dve~Av~~L 179 (419)
.+...|.+.+..|++++|...+..+=.. |+.....+..||.- ....| +.+.|+.++
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~------~p~~~~~~~~~g~~--------~~~~~~~~~~A~~~~ 61 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIEL------DPNNAEAYYNLGLA--------YMKLGKDYEEAIEDF 61 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHH------STTHHHHHHHHHHH--------HHHTTTHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCHHHHHHHHHH--------HHHhCccHHHHHHHH
Confidence 3457899999999999999999888553 34444444444321 12234 577777766
No 192
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=22.74 E-value=1.4e+03 Score=27.98 Aligned_cols=36 Identities=11% Similarity=-0.040 Sum_probs=25.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHHhhc
Q 014748 277 DAKIEQLVAMGFERPRVIEACRAGGDDIHQIMLQLLG 313 (419)
Q Consensus 277 ~~~I~~L~~MGF~~~~A~~AL~~~~nN~e~A~d~Ll~ 313 (419)
...+..|++-|=+.+.|...+..+++ .++|+..|+.
T Consensus 1003 ~~L~s~L~e~~kh~eAa~il~e~~sd-~~~av~ll~k 1038 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD-PEEAVALLCK 1038 (1265)
T ss_pred HHHHHHHHHcccchhHHHHHHHHhcC-HHHHHHHHhh
Confidence 45677788888888877777666665 7777765543
No 193
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=22.57 E-value=3.9e+02 Score=29.48 Aligned_cols=81 Identities=23% Similarity=0.297 Sum_probs=49.8
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCC
Q 014748 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKD 89 (419)
Q Consensus 10 k~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~ 89 (419)
.|.+.-|++.|+.|...|-.|=+.+.. ||--.+|+.+|+..+..=
T Consensus 304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt--------------------------------~~~ls~lk~~Ek~~k~~e--- 348 (539)
T KOG0548|consen 304 LGNAYTKREDYEGAIKYYQKALTEHRT--------------------------------PDLLSKLKEAEKALKEAE--- 348 (539)
T ss_pred hhhhhhhHHhHHHHHHHHHHHhhhhcC--------------------------------HHHHHHHHHHHHHHHHHH---
Confidence 455666666666666666664443333 555555555555444321
Q ss_pred hHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhH
Q 014748 90 SSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (419)
Q Consensus 90 ~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a 134 (419)
|. .-..||.+.--| -+|.-+|+.|++.+|..+.+.|
T Consensus 349 --~~----a~~~pe~A~e~r---~kGne~Fk~gdy~~Av~~YteA 384 (539)
T KOG0548|consen 349 --RK----AYINPEKAEEER---EKGNEAFKKGDYPEAVKHYTEA 384 (539)
T ss_pred --HH----HhhChhHHHHHH---HHHHHHHhccCHHHHHHHHHHH
Confidence 11 223445555555 3499999999999999999885
No 194
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=22.50 E-value=74 Score=27.34 Aligned_cols=31 Identities=13% Similarity=0.074 Sum_probs=25.7
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade~F~~C~ 38 (419)
+-.+=...|.++|++|-.+|-+|++.|..+-
T Consensus 24 ~~eAl~~ak~gdf~~A~~~l~eA~~~l~~AH 54 (104)
T PRK09591 24 VHEAFAAMREGNFDLAEQKLNQSNEELLEAH 54 (104)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 3345567899999999999999999998653
No 195
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=22.42 E-value=1.4e+02 Score=28.15 Aligned_cols=67 Identities=15% Similarity=0.211 Sum_probs=40.2
Q ss_pred HHHHhC-CCCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHHHHH
Q 014748 221 KELVSI-GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEACRA 299 (419)
Q Consensus 221 ~~L~~M-GF~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~AL~~ 299 (419)
..|... |+.+..|.+-+..-.+.+.. +-..+.. . . .....-.+.+..|+++||++..|..|++.
T Consensus 108 ~~L~~v~Gig~k~A~~I~~~l~~~~~~---~~~~~~~--------~---~-~~~~~~~ev~~aL~~LG~~~~~a~~~~~~ 172 (192)
T PRK00116 108 KALTKVPGIGKKTAERIVLELKDKLAA---AASAAAA--------A---A-AASSALEEAVSALVALGYKPKEASKAVAK 172 (192)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHHhhc---ccccccc--------c---c-cccchHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 456666 88888887776554333321 0000100 0 0 00011357889999999999999999987
Q ss_pred cCC
Q 014748 300 GGD 302 (419)
Q Consensus 300 ~~n 302 (419)
.+.
T Consensus 173 ~~~ 175 (192)
T PRK00116 173 ILK 175 (192)
T ss_pred Hhc
Confidence 754
No 196
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=22.09 E-value=1.4e+02 Score=27.68 Aligned_cols=57 Identities=28% Similarity=0.305 Sum_probs=40.9
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 014748 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK 77 (419)
Q Consensus 10 k~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ 77 (419)
.|.-.|+|++|.+|+-+|=+.++. ..|.+ +-.==+.||++.++|-+|=--|.+-|..
T Consensus 50 ~~~l~i~r~~w~dA~rlLr~l~~~-~~~~p----------~~kALlA~CL~~~~D~~Wr~~A~evle~ 106 (160)
T PF09613_consen 50 DGWLHIVRGDWDDALRLLRELEER-APGFP----------YAKALLALCLYALGDPSWRRYADEVLES 106 (160)
T ss_pred HHHHHHHhCCHHHHHHHHHHHhcc-CCCCh----------HHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence 477889999999999999887664 23333 1111158999999999997776655543
No 197
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=22.07 E-value=1e+02 Score=21.35 Aligned_cols=26 Identities=15% Similarity=0.008 Sum_probs=21.6
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade 32 (419)
++.-|+..++.|+|++|..+|-.+=+
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 56779999999999999998876543
No 198
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=22.04 E-value=3.3e+02 Score=23.79 Aligned_cols=60 Identities=17% Similarity=0.049 Sum_probs=41.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR 79 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae 79 (419)
.++.+|..+.+.|+|++|+.++-.| +..-.+++-.-.-+..||+.++ ...+|..-+.+|-
T Consensus 60 a~~~lg~~~~~~g~~~~A~~~y~~A-----------l~l~p~~~~a~~~lg~~l~~~g---~~~eAi~~~~~Al 119 (144)
T PRK15359 60 AHIALAGTWMMLKEYTTAINFYGHA-----------LMLDASHPEPVYQTGVCLKMMG---EPGLAREAFQTAI 119 (144)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH-----------HhcCCCCcHHHHHHHHHHHHcC---CHHHHHHHHHHHH
Confidence 4678999999999999999887655 3333445555556666777764 4566666666653
No 199
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=22.04 E-value=4.6e+02 Score=29.72 Aligned_cols=111 Identities=14% Similarity=0.149 Sum_probs=69.0
Q ss_pred hhHHHHHHHhCC----CCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHH
Q 014748 53 IDMVWCYFMLRD----ISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKAR 128 (419)
Q Consensus 53 lDivWcy~~l~~----~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~ 128 (419)
+=|+|||++|-+ ++..+.|...|+.| .| +|. ..+=|+++.+.++-|.|..++|.
T Consensus 368 ttllWt~y~laqh~D~~g~~~~A~~yId~A-------Id-----------HTP----TliEly~~KaRI~kH~G~l~eAa 425 (700)
T KOG1156|consen 368 TTLLWTLYFLAQHYDKLGDYEVALEYIDLA-------ID-----------HTP----TLIELYLVKARIFKHAGLLDEAA 425 (700)
T ss_pred hHHHHHHHHHHHHHHHcccHHHHHHHHHHH-------hc-----------cCc----hHHHHHHHHHHHHHhcCChHHHH
Confidence 458999998743 34445554444433 33 221 34557788888888999999999
Q ss_pred HHhHhHHhhhcc-CCCCHHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhchhhh
Q 014748 129 NALTSAQAKFFQ-LQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR 186 (419)
Q Consensus 129 ~~L~~a~~~~~~-l~vdee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e~~~d~ 186 (419)
..++.|++.-.. --+|.....-++-|-=.....+.+-..|.+.. .|++.|-+-...|
T Consensus 426 ~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~-~~~~~L~~mqcmW 483 (700)
T KOG1156|consen 426 AWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF-GAVNNLAEMQCMW 483 (700)
T ss_pred HHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc-chhhhHHHhhhHH
Confidence 999988774422 22444445555556555666666666665444 6666665554444
No 200
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=21.81 E-value=1.3e+02 Score=30.67 Aligned_cols=37 Identities=30% Similarity=0.447 Sum_probs=32.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~gdve~Av~~L~e 181 (419)
++.++.|.+-|.+..+++.+++.++|++..|++|+.+
T Consensus 175 ~~~~~~L~~~~~~~~~a~~~~~l~~G~p~~A~~~~~~ 211 (319)
T PRK08769 175 HEALAWLLAQGVSERAAQEALDAARGHPGLAAQWLRE 211 (319)
T ss_pred HHHHHHHHHcCCChHHHHHHHHHcCCCHHHHHHHhcC
Confidence 4677788889999999999999999999999999854
No 201
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=21.76 E-value=2.7e+02 Score=30.47 Aligned_cols=30 Identities=17% Similarity=0.238 Sum_probs=25.8
Q ss_pred HHHHHhHhhhhccCChhHHHHHhHhHHhhh
Q 014748 109 RMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 109 RL~LLqgvv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
=||++.|.|.-|.|++.+|.+.+..|+..-
T Consensus 229 ely~~KarilKh~G~~~~Aa~~~~~Ar~LD 258 (517)
T PF12569_consen 229 ELYMTKARILKHAGDLKEAAEAMDEARELD 258 (517)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence 377788888889999999999999998754
No 202
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=21.62 E-value=2.6e+02 Score=32.98 Aligned_cols=96 Identities=14% Similarity=0.119 Sum_probs=68.8
Q ss_pred hhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCChHHHHHHHcCCcchhhHHHH
Q 014748 30 GEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLR 109 (419)
Q Consensus 30 ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~Rl~~lkg~~~~E~aL~lR 109 (419)
|-+-|..-+++.+..-|-|+++.|==||---..+....=..++....+|-++|.+.-=-++.-+++=.|-
T Consensus 583 a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGI---------- 652 (1018)
T KOG2002|consen 583 AKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGI---------- 652 (1018)
T ss_pred cccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccch----------
Confidence 4445555666677778999999999988766655555556777888889888876555555555554442
Q ss_pred HHHHhHhhhhccCChhHHHHHhHhHHhhhcc
Q 014748 110 MELLEGVAAYHSGQFDKARNALTSAQAKFFQ 140 (419)
Q Consensus 110 L~LLqgvv~~~~g~~~eA~~~L~~a~~~~~~ 140 (419)
|+|.=+.|++.+|+..|.+.++...+
T Consensus 653 -----giVLA~kg~~~~A~dIFsqVrEa~~~ 678 (1018)
T KOG2002|consen 653 -----GIVLAEKGRFSEARDIFSQVREATSD 678 (1018)
T ss_pred -----hhhhhhccCchHHHHHHHHHHHHHhh
Confidence 34444889999999999999888873
No 203
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=21.52 E-value=9.1e+02 Score=26.00 Aligned_cols=117 Identities=20% Similarity=0.169 Sum_probs=62.8
Q ss_pred hhhhccCChhHHHHHhHhHHhhhccC-CCCHHHHHHHHhC--------CCCHHHHHHHHHHh--CCCHHHHHHHHH---h
Q 014748 116 VAAYHSGQFDKARNALTSAQAKFFQL-QVPDESLSLVMSM--------GFKEQDAKRALRIC--SQDVGSAIDFLV---E 181 (419)
Q Consensus 116 vv~~~~g~~~eA~~~L~~a~~~~~~l-~vdee~l~~LmeM--------GF~~~~ArrALrat--~gdve~Av~~L~---e 181 (419)
++....|+...|...|+.+-.....= ..+.+.+..++.- |=.-=+..-||+.+ +.|+++|+-||- +
T Consensus 198 l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~ 277 (436)
T COG2256 198 LVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIE 277 (436)
T ss_pred HHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhhhhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHh
Confidence 34557777777777776653333221 2235555555543 22233567788887 558999999973 3
Q ss_pred chhhhhhhhhhhHHHHHHHHHHhhcCCCC-CCCcCCHHHHHHHHhCCCCHHHHHHHHHh
Q 014748 182 EKAKRVKEREDNEQRRKEIMEQKRYGLTP-LKKAVDIEKIKELVSIGFEKELVAEALRR 239 (419)
Q Consensus 182 ~~~d~~~~~~~~~~~~~~~~~~~~~g~t~-~~~~v~~~~l~~L~~MGF~~~~A~~ALr~ 239 (419)
.-+|+..+ .|+..+-.....|... ....+-....+...-.||++ ++.+|-+
T Consensus 278 ~GeDp~yi-----ARRlv~~AsEDIGlAdP~Al~~a~aa~da~~~lG~PE--~~i~LAq 329 (436)
T COG2256 278 AGEDPLYI-----ARRLVRIASEDIGLADPNALQVAVAALDAVERLGSPE--ARIALAQ 329 (436)
T ss_pred cCCCHHHH-----HHHHHHHHHhhccCCChhHHHHHHHHHHHHHHhCCch--HHHHHHH
Confidence 34444433 3333332222333211 11112223455667779998 7777654
No 204
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=21.46 E-value=2.9e+02 Score=28.29 Aligned_cols=61 Identities=18% Similarity=0.107 Sum_probs=40.5
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 014748 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (419)
Q Consensus 6 ~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~ 80 (419)
.++.+|.++++.++|++|+..+-.|=+. ++ +++...+-+..||+.++ ...+|...+.+|-+
T Consensus 38 a~~~~a~~~~~~g~~~eAl~~~~~Al~l----~P-------~~~~a~~~lg~~~~~lg---~~~eA~~~~~~al~ 98 (356)
T PLN03088 38 LYADRAQANIKLGNFTEAVADANKAIEL----DP-------SLAKAYLRKGTACMKLE---EYQTAKAALEKGAS 98 (356)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHh----Cc-------CCHHHHHHHHHHHHHhC---CHHHHHHHHHHHHH
Confidence 4678899999999999999987655332 12 33444556677777664 45566665555543
No 205
>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=21.22 E-value=1.2e+02 Score=31.71 Aligned_cols=33 Identities=27% Similarity=0.406 Sum_probs=29.4
Q ss_pred HHHHHHhCC--CCHHHHHHHHHhcCCCHHHHHHhh
Q 014748 219 KIKELVSIG--FEKELVAEALRRNENDSQKALDDL 251 (419)
Q Consensus 219 ~l~~L~~MG--F~~~~A~~ALr~t~nnve~Al~~L 251 (419)
.|++.|+=| |+++.|..||+|..||+-.|+=+|
T Consensus 44 avdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLL 78 (358)
T PF05861_consen 44 AVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLL 78 (358)
T ss_pred HHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHH
Confidence 477788887 999999999999999999998766
No 206
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=21.10 E-value=83 Score=27.61 Aligned_cols=30 Identities=13% Similarity=0.070 Sum_probs=25.2
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 014748 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (419)
Q Consensus 9 ek~r~~~~~~~y~~aL~~ll~ade~F~~C~ 38 (419)
=.+=...|+++|++|-.+|-+|++.|..+-
T Consensus 36 ~eAl~~Ak~gdfe~A~~~l~eA~e~l~~AH 65 (115)
T PRK10454 36 YAALKQAKQGDFAAAKAMMDQSRMALNEAH 65 (115)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Confidence 344567899999999999999999998764
No 207
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=21.02 E-value=5.9e+02 Score=22.57 Aligned_cols=74 Identities=18% Similarity=0.165 Sum_probs=44.5
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCC-HHHHHHhhcCCcchhHHhhhhhHHhhhhhccchHHHHHHHHhCCCCHHHHHHH
Q 014748 218 EKIKELVSIGFEKELVAEALRRNEND-SQKALDDLTNPESNSAIQLYIESRKRKRCRQAADAKIEQLVAMGFERPRVIEA 296 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t~nn-ve~Al~~L~npd~~~~L~~~~~~~~~~~~~~~d~~~I~~L~~MGF~~~~A~~A 296 (419)
.....|..-||+.+.+..+|.....+ .+.|..++... .... .......-...+.-|+.=||+-+.+..+
T Consensus 80 ~I~~~L~~kGi~~~~I~~~l~~~~~d~~e~a~~~~~k~---------~~~~-~~~~~~~k~Ki~~~L~rkGF~~~~I~~~ 149 (157)
T PRK00117 80 RIRQELRQKGVDREIIEEALAELDIDWEELARELARKK---------FRRP-LPDDAKEKAKLVRFLARRGFSMDVIQRV 149 (157)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHcCccHHHHHHHHHHHH---------cCCC-CCCCHHHHHHHHHHHHHCCCCHHHHHHH
Confidence 45568999999999999998865433 23333333100 0000 0000001245677899999999999999
Q ss_pred HHHcC
Q 014748 297 CRAGG 301 (419)
Q Consensus 297 L~~~~ 301 (419)
+....
T Consensus 150 l~~~~ 154 (157)
T PRK00117 150 LRNAL 154 (157)
T ss_pred HHhhh
Confidence 87543
No 208
>PF02255 PTS_IIA: PTS system, Lactose/Cellobiose specific IIA subunit; InterPro: IPR003188 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIA PTS system enzymes. This family of proteins normally function as a homotrimer, stabilised by a centrally located metal ion []. Separation into subunits is thought to occur after phosphorylation.; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3L8R_D 2E2A_B 1E2A_C 3K1S_C 2LRK_C 2LRL_A 2WY2_A 1WCR_A 2WWV_C.
Probab=20.98 E-value=83 Score=26.53 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=25.3
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCCh
Q 014748 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDP 39 (419)
Q Consensus 8 hek~r~~~~~~~y~~aL~~ll~ade~F~~C~~ 39 (419)
+-++=...|.++|++|-.+|-+|++.|.+|-.
T Consensus 18 ~~eAl~~a~~~~fe~A~~~l~~a~~~l~~AH~ 49 (96)
T PF02255_consen 18 AMEALKAAREGDFEEAEELLKEADEELLKAHK 49 (96)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH
Confidence 34455667999999999999999999987643
No 209
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=20.95 E-value=4.1e+02 Score=30.12 Aligned_cols=97 Identities=12% Similarity=-0.067 Sum_probs=63.0
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (419)
+.-+|..+++.+++++|+.+|-.+=+.. =|| +-|.+...-+|...++. ..|..-|.++...
T Consensus 362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~----------P~n-~~l~~~lA~l~~~~g~~---~~A~~~l~~al~l----- 422 (765)
T PRK10049 362 QSLLSQVAKYSNDLPQAEMRARELAYNA----------PGN-QGLRIDYASVLQARGWP---RAAENELKKAEVL----- 422 (765)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhC----------CCC-HHHHHHHHHHHHhcCCH---HHHHHHHHHHHhh-----
Confidence 3467888999999999999987764442 233 55777777777777663 4444444444333
Q ss_pred CCChHHHHHHHcCCcchhhHHHHHHHHhHhhhhccCChhHHHHHhHhHHhhhc
Q 014748 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFF 139 (419)
Q Consensus 87 G~~~~Rl~~lkg~~~~E~aL~lRL~LLqgvv~~~~g~~~eA~~~L~~a~~~~~ 139 (419)
+|... .|++.++.++...|++++|...+....+..+
T Consensus 423 --~Pd~~---------------~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P 458 (765)
T PRK10049 423 --EPRNI---------------NLEVEQAWTALDLQEWRQMDVLTDDVVAREP 458 (765)
T ss_pred --CCCCh---------------HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence 22211 2334556667778899999988888776553
No 210
>TIGR02710 CRISPR-associated protein, TIGR02710 family. Members of this family are found, exclusively in the vicinity of CRISPR repeats and other CRISPR-associated (cas) genes, in Methanothermobacter thermautotrophicus (Archaea), Thermus thermophilus (Deinococcus-Thermus), Chloroflexus aurantiacus (Chloroflexi), and Thermomicrobium roseum (Thermomicrobia).
Probab=20.89 E-value=7.6e+02 Score=26.09 Aligned_cols=125 Identities=18% Similarity=0.031 Sum_probs=68.1
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHH--HHHHHHHH
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLR--KAREGIER 84 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~--~ae~~f~r 84 (419)
--.++|.+.++.+|..|..+|.+...-... ....++--+--+++=||..- |.=.-..|..+|+ .++...-.
T Consensus 133 e~~~~r~l~n~~dy~aA~~~~~~L~~r~l~------~~~~~~~~~~~~l~~~y~~W-D~fd~~~A~~~L~~~~~~~~~~~ 205 (380)
T TIGR02710 133 EQGYARRAINAFDYLFAHARLETLLRRLLS------AVNHTFYEAMIKLTRAYLHW-DRFEHEEALDYLNDPLPERLALY 205 (380)
T ss_pred HHHHHHHHHHhcChHHHHHHHHHHHhcccC------hhhhhHHHHHHHHHHHHHHH-HccCHHHHHHHHhhccchhhhhh
Confidence 345788999999999999999887654322 22234444446777777665 3334566777776 43322222
Q ss_pred HhCCChHHHHHHH--cCCcch--------------hhHHHHHHHHhH-hhhhccCChhHHHHHhHhHHhhh
Q 014748 85 AHGKDSSRVRLLQ--AGRHPE--------------LALHLRMELLEG-VAAYHSGQFDKARNALTSAQAKF 138 (419)
Q Consensus 85 ~yG~~~~Rl~~lk--g~~~~E--------------~aL~lRL~LLqg-vv~~~~g~~~eA~~~L~~a~~~~ 138 (419)
.-.-+-++...++ +..-++ -.+.+=-.||.. ...+++|+++.|...+=.+.+.+
T Consensus 206 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~na~rr~~~~ry~da~~r~yR~~e~~ 276 (380)
T TIGR02710 206 QVTSHDELEDVIKRNASILPEIIGSRNGRREAKRRPFLPLLGDLLANAERRATQGRYDDAAARLYRALELI 276 (380)
T ss_pred hhhhhhHHHHHHHhHHhhcchhhhccchhhhhcccchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 1111222222222 111111 111121234444 45668899998887776666555
No 211
>PRK01905 DNA-binding protein Fis; Provisional
Probab=20.87 E-value=87 Score=25.03 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=21.8
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHh
Q 014748 288 FERPRVIEACRAGGDDIHQIMLQL 311 (419)
Q Consensus 288 F~~~~A~~AL~~~~nN~e~A~d~L 311 (419)
|++...+.+|+.|++|+.+|+..|
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L 60 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL 60 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH
Confidence 678889999999999999999887
No 212
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=20.84 E-value=83 Score=26.43 Aligned_cols=24 Identities=17% Similarity=0.113 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHHh
Q 014748 288 FERPRVIEACRAGGDDIHQIMLQL 311 (419)
Q Consensus 288 F~~~~A~~AL~~~~nN~e~A~d~L 311 (419)
|++...+.||+.|++|..+|+.+|
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L 78 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML 78 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh
Confidence 678889999999999999999988
No 213
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=20.81 E-value=1.2e+03 Score=25.99 Aligned_cols=27 Identities=19% Similarity=0.147 Sum_probs=19.7
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhh
Q 014748 7 LHANAKSLIKRHMYKDALEVLTMGEEA 33 (419)
Q Consensus 7 lhek~r~~~~~~~y~~aL~~ll~ade~ 33 (419)
+...|..++++++|++|+..|..|=+.
T Consensus 113 ~~~la~~l~~~g~~~~Ai~~l~~Al~l 139 (656)
T PRK15174 113 VLLVASVLLKSKQYATVADLAEQAWLA 139 (656)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 456677788888888888877776543
No 214
>cd00215 PTS_IIA_lac PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. This family of proteins normally function as a homotrimer, stabilized by a centrally located metal ion. Separation into subunits is thought to occur after phosphorylation.
Probab=20.76 E-value=85 Score=26.59 Aligned_cols=34 Identities=15% Similarity=0.114 Sum_probs=0.0
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccC
Q 014748 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLC 37 (419)
Q Consensus 4 ~~~lhek~r~~~~~~~y~~aL~~ll~ade~F~~C 37 (419)
|=+++=.+=...|+++|++|-.+|-+|++.|..+
T Consensus 15 Ars~~~eAl~~a~~g~fe~A~~~l~ea~~~l~~A 48 (97)
T cd00215 15 ARSKALEALKAAKEGDFAEAEELLEEANDSLNEA 48 (97)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
No 215
>PHA01351 putative minor structural protein
Probab=20.72 E-value=3.6e+02 Score=30.99 Aligned_cols=75 Identities=20% Similarity=0.331 Sum_probs=46.4
Q ss_pred HHHHHHhCC-CCHHHHHHHHHhcCCCHHHHHHhhcCCcchhHHhhhhhHHh-hhhhccc-hHHHHHHHHhCCCCHHHH
Q 014748 219 KIKELVSIG-FEKELVAEALRRNENDSQKALDDLTNPESNSAIQLYIESRK-RKRCRQA-ADAKIEQLVAMGFERPRV 293 (419)
Q Consensus 219 ~l~~L~~MG-F~~~~A~~ALr~t~nnve~Al~~L~npd~~~~L~~~~~~~~-~~~~~~~-d~~~I~~L~~MGF~~~~A 293 (419)
.+.+++.|| |+...+++-|+.++=|.+.+..++++-.-...++.-+.... .-+.+-. +.+....|+.+||+....
T Consensus 487 ~l~sl~skGi~DqkkIke~LKa~gfnks~~d~~L~~~~n~a~iesqIK~LQ~qL~nF~IS~QD~EkELKkLg~s~alI 564 (1070)
T PHA01351 487 QLQQIVSLGIFDQKKIKEELKANKFNEQVALQILESELQFAQLQNQLKEYQFKLNNFLISPQDLEKDLKHLGFDSAII 564 (1070)
T ss_pred HHHHHHHcccccHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHcCCCHHHH
Confidence 578899999 99999999999888788887777643211111222111111 1122233 455666788888887764
No 216
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=20.70 E-value=5.9e+02 Score=30.24 Aligned_cols=54 Identities=20% Similarity=-0.025 Sum_probs=31.8
Q ss_pred HHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 014748 13 SLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (419)
Q Consensus 13 ~~~~~~~y~~aL~~ll~ade~F~~C~~~~l~~vDN~a~L~lDivWcy~~l~~~~~l~dA~~rL~~ae~~ 81 (419)
...+.++|++|+.++..|=+ ++|. +-.-+.+..+|..+ ...++|..-+.++-..
T Consensus 585 ~l~~~Gr~~eAl~~~~~AL~----l~P~--------~~a~~~LA~~l~~l---G~~deA~~~l~~AL~l 638 (987)
T PRK09782 585 QRYIPGQPELALNDLTRSLN----IAPS--------ANAYVARATIYRQR---HNVPAAVSDLRAALEL 638 (987)
T ss_pred HHHhCCCHHHHHHHHHHHHH----hCCC--------HHHHHHHHHHHHHC---CCHHHHHHHHHHHHHh
Confidence 33445889999888877632 2331 12235556666665 4556777766666554
No 217
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=20.57 E-value=1.9e+02 Score=27.12 Aligned_cols=25 Identities=24% Similarity=0.529 Sum_probs=23.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhC
Q 014748 145 DESLSLVMSMGFKEQDAKRALRICS 169 (419)
Q Consensus 145 ee~l~~LmeMGF~~~~ArrALrat~ 169 (419)
.+.+..|..+||+...|++++....
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~ 174 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKIL 174 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 5789999999999999999999875
No 218
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=20.54 E-value=1.2e+02 Score=25.07 Aligned_cols=34 Identities=24% Similarity=0.391 Sum_probs=0.0
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCCHHHHHHhh-cCC
Q 014748 218 EKIKELVSIGFEKELVAEALRRNENDSQKALDDL-TNP 254 (419)
Q Consensus 218 ~~l~~L~~MGF~~~~A~~ALr~t~nnve~Al~~L-~np 254 (419)
+.+..|..+|++...|.+..+..+. .|++.| .||
T Consensus 10 ~~~~~L~~~gl~~~~a~kl~~~yg~---~ai~~l~~nP 44 (94)
T PF14490_consen 10 ELMAFLQEYGLSPKLAMKLYKKYGD---DAIEILKENP 44 (94)
T ss_dssp HHHHHHHHTT--HHHHHHHHHHH-T---THHHHHHH-S
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHhH---HHHHHHHHCh
No 219
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=20.34 E-value=41 Score=24.97 Aligned_cols=27 Identities=19% Similarity=0.430 Sum_probs=17.3
Q ss_pred CCHHHHHHHH-hCCCCHHHHHHHHHHhC
Q 014748 143 VPDESLSLVM-SMGFKEQDAKRALRICS 169 (419)
Q Consensus 143 vdee~l~~Lm-eMGF~~~~ArrALrat~ 169 (419)
||+..|..|- .|||.+.+..-||+...
T Consensus 1 ide~vv~~Ls~tMGY~kdeI~eaL~~~~ 28 (46)
T PF08587_consen 1 IDEDVVSKLSKTMGYDKDEIYEALESSE 28 (46)
T ss_dssp T-HCCHHHHHCTT---HHHHHHHCCSSS
T ss_pred CcHHHHHHHHHHhCCCHHHHHHHHHcCC
Confidence 4566677664 59999999999998744
Done!