Query 024447
Match_columns 267
No_of_seqs 219 out of 544
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 04:41:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024447.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024447hhsearch_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 3.3E-88 7.2E-93 642.5 21.9 256 1-256 160-415 (568)
2 KOG0944 Ubiquitin-specific pro 99.8 1.1E-19 2.5E-24 180.8 6.8 110 137-255 564-675 (763)
3 KOG2561 Adaptor protein NUB1, 99.6 1.3E-15 2.9E-20 146.6 11.3 159 67-253 282-466 (568)
4 COG5207 UBP14 Isopeptidase T [ 99.6 4.2E-15 9.1E-20 145.1 7.0 103 141-253 555-658 (749)
5 PF00627 UBA: UBA/TS-N domain; 99.2 8.7E-12 1.9E-16 81.8 4.0 37 143-179 1-37 (37)
6 PF00627 UBA: UBA/TS-N domain; 99.1 8E-11 1.7E-15 77.2 4.0 37 215-251 1-37 (37)
7 cd00194 UBA Ubiquitin Associat 99.1 1.6E-10 3.5E-15 75.6 5.0 38 144-181 1-38 (38)
8 smart00165 UBA Ubiquitin assoc 99.1 1.6E-10 3.5E-15 75.2 4.6 37 144-180 1-37 (37)
9 KOG0944 Ubiquitin-specific pro 99.0 1.5E-10 3.2E-15 116.3 4.9 83 96-186 594-677 (763)
10 cd00194 UBA Ubiquitin Associat 98.9 4.5E-09 9.9E-14 68.7 5.1 36 217-252 2-37 (38)
11 smart00165 UBA Ubiquitin assoc 98.8 5.4E-09 1.2E-13 68.0 5.1 35 217-251 2-36 (37)
12 TIGR00601 rad23 UV excision re 98.7 2.2E-07 4.7E-12 89.7 11.6 39 145-183 157-195 (378)
13 COG5207 UBP14 Isopeptidase T [ 98.3 1.9E-07 4.1E-12 92.2 0.6 86 92-185 577-662 (749)
14 KOG0011 Nucleotide excision re 98.0 3.8E-05 8.3E-10 72.5 9.1 41 143-183 134-174 (340)
15 TIGR00601 rad23 UV excision re 97.6 5.8E-05 1.2E-09 73.1 4.3 37 216-252 156-192 (378)
16 PF13424 TPR_12: Tetratricopep 96.5 0.023 4.9E-07 41.4 8.0 75 3-84 4-78 (78)
17 KOG0011 Nucleotide excision re 96.4 0.0034 7.4E-08 59.6 4.1 42 215-256 134-177 (340)
18 PF02845 CUE: CUE domain; Int 96.1 0.018 3.8E-07 38.5 5.1 38 145-182 2-41 (42)
19 PF02845 CUE: CUE domain; Int 96.0 0.015 3.2E-07 38.8 4.4 34 218-251 3-39 (42)
20 PF14555 UBA_4: UBA-like domai 95.7 0.021 4.6E-07 38.4 4.4 37 219-255 3-41 (43)
21 smart00546 CUE Domain that may 95.7 0.032 6.9E-07 37.3 5.1 36 217-252 3-41 (43)
22 PF14555 UBA_4: UBA-like domai 95.6 0.022 4.7E-07 38.3 4.2 40 146-185 2-42 (43)
23 PF09288 UBA_3: Fungal ubiquit 95.4 0.016 3.4E-07 41.6 3.0 27 215-241 8-34 (55)
24 smart00546 CUE Domain that may 95.3 0.045 9.7E-07 36.6 4.8 39 144-182 2-42 (43)
25 PRK09377 tsf elongation factor 94.6 0.057 1.2E-06 50.7 5.2 41 143-183 4-45 (290)
26 TIGR02552 LcrH_SycD type III s 94.5 0.36 7.7E-06 38.1 8.9 95 6-136 19-113 (135)
27 TIGR00116 tsf translation elon 94.5 0.063 1.4E-06 50.5 5.1 41 143-183 3-44 (290)
28 PRK06369 nac nascent polypepti 94.3 0.085 1.8E-06 43.3 5.0 41 141-181 73-114 (115)
29 PRK12332 tsf elongation factor 94.3 0.081 1.8E-06 47.1 5.3 41 143-183 3-44 (198)
30 KOG2689 Predicted ubiquitin re 94.1 0.042 9.1E-07 51.2 3.1 40 148-187 4-45 (290)
31 KOG0418 Ubiquitin-protein liga 94.0 0.086 1.9E-06 46.6 4.6 41 210-250 156-196 (200)
32 TIGR00264 alpha-NAC-related pr 93.7 0.11 2.4E-06 42.7 4.6 39 142-180 76-115 (116)
33 cd00189 TPR Tetratricopeptide 93.6 0.73 1.6E-05 31.3 8.2 92 7-134 3-94 (100)
34 CHL00098 tsf elongation factor 93.3 0.14 3.1E-06 45.7 5.0 37 147-183 4-41 (200)
35 KOG0418 Ubiquitin-protein liga 93.2 0.08 1.7E-06 46.8 3.2 39 143-181 161-199 (200)
36 PRK06369 nac nascent polypepti 93.1 0.19 4E-06 41.3 5.0 40 214-253 74-114 (115)
37 PF08631 SPO22: Meiosis protei 92.1 6.1 0.00013 36.2 14.3 74 3-78 34-113 (278)
38 TIGR02795 tol_pal_ybgF tol-pal 92.0 2.5 5.4E-05 31.8 9.8 103 6-138 4-106 (119)
39 TIGR00264 alpha-NAC-related pr 91.9 0.32 6.8E-06 40.0 4.8 39 214-252 76-115 (116)
40 KOG0010 Ubiquitin-like protein 90.0 0.37 8E-06 48.2 4.2 34 218-251 456-490 (493)
41 PRK02603 photosystem I assembl 90.0 7.5 0.00016 32.5 11.8 65 4-79 35-99 (172)
42 TIGR02521 type_IV_pilW type IV 89.9 9.4 0.0002 31.3 12.1 61 6-80 67-127 (234)
43 PF09288 UBA_3: Fungal ubiquit 89.8 0.32 6.9E-06 34.9 2.6 27 143-169 8-34 (55)
44 PRK02603 photosystem I assembl 89.8 2 4.4E-05 36.0 8.1 77 5-92 73-153 (172)
45 PF09986 DUF2225: Uncharacteri 89.4 2.8 6E-05 37.5 9.1 76 47-134 116-191 (214)
46 TIGR00990 3a0801s09 mitochondr 89.3 5.6 0.00012 40.3 12.2 94 7-136 334-427 (615)
47 PF07499 RuvA_C: RuvA, C-termi 88.7 0.54 1.2E-05 32.1 3.1 24 145-168 4-27 (47)
48 PLN03088 SGT1, suppressor of 88.2 3.1 6.7E-05 39.7 9.1 96 5-136 3-98 (356)
49 KOG0010 Ubiquitin-like protein 87.9 0.75 1.6E-05 46.1 4.7 35 146-180 456-491 (493)
50 TIGR02917 PEP_TPR_lipo putativ 87.8 5.4 0.00012 39.9 10.8 27 6-32 58-84 (899)
51 COG1308 EGD2 Transcription fac 87.5 1.1 2.4E-05 37.1 4.7 39 141-179 81-120 (122)
52 KOG3450 Huntingtin interacting 86.8 1.1 2.4E-05 36.4 4.3 47 135-181 71-118 (119)
53 TIGR02521 type_IV_pilW type IV 86.6 16 0.00035 29.8 13.0 63 4-80 31-93 (234)
54 PF07499 RuvA_C: RuvA, C-termi 86.4 1 2.3E-05 30.7 3.4 23 218-240 5-27 (47)
55 CHL00033 ycf3 photosystem I as 86.1 5.9 0.00013 32.9 8.6 90 4-93 35-154 (168)
56 KOG1840 Kinesin light chain [C 86.0 4.1 8.9E-05 41.3 8.8 114 3-136 282-395 (508)
57 PF11626 Rap1_C: TRF2-interact 85.6 1.2 2.5E-05 34.4 3.7 35 149-183 2-36 (87)
58 COG0264 Tsf Translation elonga 85.4 1.5 3.2E-05 41.4 5.0 39 145-183 6-45 (296)
59 TIGR02917 PEP_TPR_lipo putativ 83.7 16 0.00035 36.6 11.9 26 111-136 196-221 (899)
60 COG1308 EGD2 Transcription fac 83.3 3 6.4E-05 34.6 5.4 38 214-251 82-120 (122)
61 PRK11447 cellulose synthase su 82.1 86 0.0019 34.6 19.3 26 112-137 465-490 (1157)
62 TIGR00990 3a0801s09 mitochondr 82.0 26 0.00057 35.4 12.8 96 6-137 367-462 (615)
63 PRK12370 invasion protein regu 82.0 9.8 0.00021 38.3 9.7 71 7-89 261-334 (553)
64 TIGR03302 OM_YfiO outer membra 81.1 9.8 0.00021 32.9 8.3 31 5-35 34-64 (235)
65 KOG1840 Kinesin light chain [C 80.5 6.9 0.00015 39.7 7.9 110 7-136 202-311 (508)
66 COG4008 Predicted metal-bindin 79.6 11 0.00025 31.6 7.5 38 142-180 112-149 (153)
67 PF13374 TPR_10: Tetratricopep 79.6 2.4 5.3E-05 26.3 3.0 29 3-31 1-29 (42)
68 PF02954 HTH_8: Bacterial regu 79.3 1.5 3.2E-05 29.1 1.9 25 228-252 5-29 (42)
69 PF13414 TPR_11: TPR repeat; P 79.1 15 0.00032 25.4 7.3 62 4-78 3-64 (69)
70 PF11626 Rap1_C: TRF2-interact 78.4 2 4.4E-05 33.0 2.7 34 220-253 1-35 (87)
71 PRK11788 tetratricopeptide rep 77.0 45 0.00098 30.8 11.8 26 7-32 110-135 (389)
72 PF07719 TPR_2: Tetratricopept 76.8 3.8 8.2E-05 24.5 3.1 26 6-31 3-28 (34)
73 PF13432 TPR_16: Tetratricopep 74.9 12 0.00026 25.8 5.7 56 9-78 2-57 (65)
74 PRK05441 murQ N-acetylmuramic 74.9 11 0.00023 35.4 7.0 24 227-250 274-297 (299)
75 PF00515 TPR_1: Tetratricopept 74.8 4.5 9.8E-05 24.5 3.1 26 5-30 2-27 (34)
76 PF09976 TPR_21: Tetratricopep 74.6 34 0.00074 27.7 9.3 96 5-134 49-144 (145)
77 PF11372 DUF3173: Domain of un 73.9 3.4 7.4E-05 30.1 2.7 21 149-169 7-27 (59)
78 TIGR00274 N-acetylmuramic acid 73.6 9.3 0.0002 35.8 6.3 24 226-249 268-291 (291)
79 PF13424 TPR_12: Tetratricopep 73.6 9.6 0.00021 27.2 5.1 68 51-136 7-74 (78)
80 PF13525 YfiO: Outer membrane 72.6 17 0.00036 31.6 7.3 66 6-86 7-72 (203)
81 PRK15359 type III secretion sy 72.4 31 0.00067 28.2 8.5 93 8-136 28-120 (144)
82 CHL00033 ycf3 photosystem I as 72.2 50 0.0011 27.3 9.8 19 118-136 123-141 (168)
83 PRK04841 transcriptional regul 71.7 91 0.002 32.7 13.7 112 5-138 492-603 (903)
84 PRK14601 ruvA Holliday junctio 70.4 6.9 0.00015 34.4 4.3 24 145-168 143-166 (183)
85 KOG2300 Uncharacterized conser 69.5 8.4 0.00018 39.2 5.1 116 16-155 372-487 (629)
86 PRK11447 cellulose synthase su 68.2 99 0.0022 34.1 13.5 91 7-133 464-554 (1157)
87 TIGR00084 ruvA Holliday juncti 67.2 7.7 0.00017 34.2 4.0 75 79-168 95-171 (191)
88 PF14559 TPR_19: Tetratricopep 67.1 17 0.00038 25.0 5.1 51 14-78 1-51 (68)
89 PRK14603 ruvA Holliday junctio 66.7 13 0.00028 33.0 5.3 24 145-168 153-176 (197)
90 PRK10866 outer membrane biogen 66.5 21 0.00045 32.3 6.8 79 6-109 34-112 (243)
91 PRK14602 ruvA Holliday junctio 66.3 14 0.0003 33.0 5.4 24 145-168 156-179 (203)
92 PF11547 E3_UbLigase_EDD: E3 u 66.0 24 0.00051 24.9 5.3 43 142-184 7-51 (53)
93 COG4008 Predicted metal-bindin 65.7 15 0.00032 30.9 5.1 38 214-252 112-149 (153)
94 KOG0543 FKBP-type peptidyl-pro 65.6 53 0.0011 32.5 9.7 106 5-137 209-320 (397)
95 PF06972 DUF1296: Protein of u 65.6 17 0.00036 26.6 4.7 34 218-252 10-44 (60)
96 KOG1071 Mitochondrial translat 65.5 7.9 0.00017 37.1 3.9 40 145-184 47-87 (340)
97 cd00189 TPR Tetratricopeptide 65.4 37 0.0008 22.5 6.5 48 6-64 36-83 (100)
98 PF13181 TPR_8: Tetratricopept 65.2 9.5 0.00021 22.8 3.1 26 6-31 3-28 (34)
99 PRK11788 tetratricopeptide rep 65.0 1.2E+02 0.0025 28.0 11.8 26 7-32 144-169 (389)
100 PRK14606 ruvA Holliday junctio 65.0 14 0.0003 32.6 5.1 24 145-168 144-167 (188)
101 PF11547 E3_UbLigase_EDD: E3 u 64.3 9.4 0.0002 26.9 3.1 40 215-254 8-50 (53)
102 PRK14600 ruvA Holliday junctio 64.3 14 0.00031 32.5 5.1 25 145-169 146-170 (186)
103 PRK14604 ruvA Holliday junctio 64.1 16 0.00035 32.4 5.4 24 145-168 150-173 (195)
104 TIGR00540 hemY_coli hemY prote 63.9 1.3E+02 0.0027 28.9 12.0 97 8-136 267-363 (409)
105 PF13374 TPR_10: Tetratricopep 63.4 15 0.00033 22.6 3.9 35 53-90 6-40 (42)
106 KOG4340 Uncharacterized conser 63.2 1.5E+02 0.0033 28.9 13.9 155 13-181 19-203 (459)
107 PRK12570 N-acetylmuramic acid- 62.7 22 0.00049 33.3 6.4 23 227-249 270-292 (296)
108 PRK10803 tol-pal system protei 62.2 57 0.0012 30.0 8.9 103 7-140 145-249 (263)
109 COG0632 RuvA Holliday junction 61.8 7.5 0.00016 34.8 2.9 23 146-168 158-180 (201)
110 PF02536 mTERF: mTERF; InterP 61.7 64 0.0014 29.9 9.3 85 145-240 176-267 (345)
111 PRK14601 ruvA Holliday junctio 60.4 17 0.00037 32.0 4.9 25 217-241 143-167 (183)
112 PRK14605 ruvA Holliday junctio 59.6 21 0.00045 31.5 5.3 25 145-169 149-173 (194)
113 PF05861 PhnI: Bacterial phosp 58.1 13 0.00029 36.0 4.0 33 219-251 44-78 (358)
114 PRK14604 ruvA Holliday junctio 57.4 18 0.00038 32.1 4.5 24 217-240 150-173 (195)
115 TIGR03302 OM_YfiO outer membra 56.8 1.3E+02 0.0028 25.9 13.4 147 7-179 73-226 (235)
116 PF10300 DUF3808: Protein of u 56.7 51 0.0011 32.8 8.1 57 4-67 267-323 (468)
117 PRK14603 ruvA Holliday junctio 56.4 20 0.00042 31.8 4.6 24 217-240 153-176 (197)
118 PF08938 HBS1_N: HBS1 N-termin 55.8 6.7 0.00014 29.6 1.3 27 157-183 45-71 (79)
119 PF11372 DUF3173: Domain of un 55.6 12 0.00027 27.2 2.6 22 221-242 7-28 (59)
120 PF06743 FAST_1: FAST kinase-l 55.2 7.2 0.00016 28.7 1.4 38 29-66 17-55 (71)
121 PF06972 DUF1296: Protein of u 55.2 32 0.0007 25.1 4.7 32 150-182 14-45 (60)
122 PRK14606 ruvA Holliday junctio 55.2 20 0.00044 31.6 4.4 24 217-240 144-167 (188)
123 PRK13901 ruvA Holliday junctio 54.4 13 0.00028 33.1 3.2 24 145-168 145-168 (196)
124 PF03474 DMA: DMRTA motif; In 54.0 20 0.00044 24.0 3.2 22 158-179 17-38 (39)
125 PF12895 Apc3: Anaphase-promot 52.6 14 0.00031 26.9 2.7 22 9-30 63-84 (84)
126 PF07223 DUF1421: Protein of u 52.0 14 0.00029 36.0 3.1 25 218-242 323-348 (358)
127 KOG0553 TPR repeat-containing 51.5 90 0.002 29.8 8.3 47 6-63 83-129 (304)
128 PRK04841 transcriptional regul 51.4 2E+02 0.0044 30.1 11.9 114 6-138 614-761 (903)
129 TIGR00084 ruvA Holliday juncti 51.0 26 0.00055 30.9 4.4 24 217-240 148-171 (191)
130 PRK14602 ruvA Holliday junctio 49.9 30 0.00066 30.8 4.8 24 217-240 156-179 (203)
131 PF13174 TPR_6: Tetratricopept 49.6 25 0.00054 20.5 3.0 29 6-34 2-30 (33)
132 PRK00117 recX recombination re 49.2 1.2E+02 0.0026 25.2 8.1 25 218-242 131-155 (157)
133 smart00028 TPR Tetratricopepti 48.9 28 0.00061 18.5 3.0 25 6-30 3-27 (34)
134 PLN02751 glutamyl-tRNA(Gln) am 48.8 2.4E+02 0.0053 29.0 11.5 99 133-249 357-474 (544)
135 TIGR02508 type_III_yscG type I 47.0 34 0.00074 28.0 4.1 46 12-76 47-92 (115)
136 COG2909 MalT ATP-dependent tra 46.9 3.8E+02 0.0082 29.4 12.9 118 8-141 351-491 (894)
137 COG2103 Predicted sugar phosph 46.9 61 0.0013 30.7 6.3 31 220-250 264-295 (298)
138 PRK14600 ruvA Holliday junctio 46.7 22 0.00047 31.3 3.3 25 217-241 146-170 (186)
139 PF10602 RPN7: 26S proteasome 46.6 1.9E+02 0.0041 24.8 11.2 107 3-138 35-143 (177)
140 PRK13901 ruvA Holliday junctio 46.6 23 0.0005 31.6 3.5 26 217-242 145-170 (196)
141 COG0632 RuvA Holliday junction 46.2 23 0.0005 31.7 3.4 24 218-241 158-181 (201)
142 PRK10370 formate-dependent nit 46.1 1.3E+02 0.0029 26.1 8.2 97 6-136 75-172 (198)
143 PF12895 Apc3: Anaphase-promot 45.0 1.1E+02 0.0024 22.1 6.5 24 6-29 27-50 (84)
144 PRK11189 lipoprotein NlpI; Pro 44.2 2.5E+02 0.0055 25.6 10.7 25 6-30 100-124 (296)
145 KOG1071 Mitochondrial translat 42.9 49 0.0011 31.9 5.2 38 215-252 45-83 (340)
146 PF02631 RecX: RecX family; I 42.1 1.6E+02 0.0034 23.4 7.4 97 59-167 15-118 (121)
147 PF05861 PhnI: Bacterial phosp 42.0 43 0.00093 32.6 4.7 41 146-186 43-85 (358)
148 PRK00116 ruvA Holliday junctio 40.9 52 0.0011 28.8 4.8 26 145-170 150-175 (192)
149 KOG2002 TPR-containing nuclear 40.2 82 0.0018 34.6 6.8 140 30-185 583-745 (1018)
150 PF08587 UBA_2: Ubiquitin asso 40.1 9.3 0.0002 26.5 -0.0 24 219-242 5-29 (46)
151 PF07223 DUF1421: Protein of u 39.9 26 0.00056 34.1 2.9 22 145-166 322-343 (358)
152 PF03943 TAP_C: TAP C-terminal 39.7 15 0.00032 25.7 0.9 39 227-265 12-50 (51)
153 PRK12370 invasion protein regu 39.7 2.2E+02 0.0047 28.6 9.6 60 7-80 341-400 (553)
154 KOG2239 Transcription factor c 39.6 37 0.00081 30.5 3.6 35 215-249 170-205 (209)
155 PRK11189 lipoprotein NlpI; Pro 39.0 3.1E+02 0.0066 25.1 12.4 96 5-136 65-160 (296)
156 PF13432 TPR_16: Tetratricopep 38.7 39 0.00084 23.1 3.0 25 6-30 33-57 (65)
157 PF02631 RecX: RecX family; I 38.7 1.3E+02 0.0028 23.8 6.5 23 217-239 96-118 (121)
158 PF12862 Apc5: Anaphase-promot 38.1 1.8E+02 0.0038 22.0 6.9 69 13-86 7-75 (94)
159 PRK15174 Vi polysaccharide exp 38.1 4.7E+02 0.01 27.0 13.0 27 110-136 286-312 (656)
160 KOG0994 Extracellular matrix g 38.1 3.8E+02 0.0082 30.7 11.3 68 111-179 1475-1548(1758)
161 PRK00116 ruvA Holliday junctio 37.9 57 0.0012 28.5 4.6 26 217-242 150-175 (192)
162 PRK14605 ruvA Holliday junctio 37.8 59 0.0013 28.7 4.7 25 217-241 149-173 (194)
163 TIGR02552 LcrH_SycD type III s 37.5 1.9E+02 0.0041 22.2 7.3 59 6-78 53-111 (135)
164 KOG3450 Huntingtin interacting 37.4 1.2E+02 0.0026 24.8 5.9 37 215-251 79-116 (119)
165 PF13176 TPR_7: Tetratricopept 37.2 45 0.00098 20.7 2.9 23 7-29 2-24 (36)
166 TIGR02795 tol_pal_ybgF tol-pal 36.9 1.7E+02 0.0037 21.5 6.8 65 6-81 41-105 (119)
167 PRK13342 recombination factor 36.7 3.7E+02 0.008 26.0 10.4 68 114-183 180-257 (413)
168 PF13512 TPR_18: Tetratricopep 36.6 1.1E+02 0.0023 26.0 5.8 86 6-121 12-97 (142)
169 PLN03196 MOC1-like protein; Pr 36.6 4.6E+02 0.0099 26.4 11.7 93 84-181 132-241 (487)
170 PRK05477 gatB aspartyl/glutamy 35.9 4E+02 0.0087 27.0 10.7 90 144-249 298-407 (474)
171 PRK10747 putative protoheme IX 35.2 2.5E+02 0.0053 26.9 8.9 89 9-136 268-356 (398)
172 PF13414 TPR_11: TPR repeat; P 34.6 35 0.00075 23.5 2.2 55 111-179 6-61 (69)
173 PF08811 DUF1800: Protein of u 34.5 70 0.0015 31.8 5.1 65 172-259 253-318 (462)
174 PRK04028 glutamyl-tRNA(Gln) am 34.5 5.7E+02 0.012 26.9 12.4 87 144-249 455-561 (630)
175 smart00804 TAP_C C-terminal do 34.1 82 0.0018 23.0 4.2 37 226-262 23-59 (63)
176 PF07721 TPR_4: Tetratricopept 33.8 51 0.0011 19.2 2.5 22 6-27 3-24 (26)
177 PF13429 TPR_15: Tetratricopep 33.2 1.8E+02 0.0039 25.9 7.2 20 115-134 221-240 (280)
178 PF14490 HHH_4: Helix-hairpin- 32.3 73 0.0016 24.5 3.9 39 145-186 9-47 (94)
179 PRK01905 DNA-binding protein F 32.2 40 0.00086 25.1 2.3 25 228-252 37-61 (77)
180 PRK09591 celC cellobiose phosp 32.0 42 0.00092 26.9 2.5 30 9-38 25-54 (104)
181 PF04190 DUF410: Protein of un 31.8 2.7E+02 0.0058 25.4 8.1 154 15-179 1-164 (260)
182 PF08031 BBE: Berberine and be 31.5 36 0.00077 23.1 1.8 27 80-106 14-40 (47)
183 PRK07993 DNA polymerase III su 30.6 1.1E+02 0.0024 29.1 5.6 40 215-254 167-208 (334)
184 PF02255 PTS_IIA: PTS system, 30.4 46 0.001 26.1 2.5 32 8-39 18-49 (96)
185 PRK10454 PTS system N,N'-diace 30.1 48 0.001 27.1 2.6 29 10-38 37-65 (115)
186 cd00215 PTS_IIA_lac PTS_IIA, P 30.1 48 0.001 26.2 2.5 29 10-38 21-49 (97)
187 cd05804 StaR_like StaR_like; a 29.5 4.3E+02 0.0093 23.9 12.4 28 107-134 306-333 (355)
188 PRK06476 pyrroline-5-carboxyla 29.5 2.4E+02 0.0053 25.1 7.4 67 146-231 174-241 (258)
189 PF13428 TPR_14: Tetratricopep 28.9 69 0.0015 20.6 2.8 26 7-32 4-29 (44)
190 PRK10049 pgaA outer membrane p 28.5 4E+02 0.0088 28.0 9.8 28 110-137 361-388 (765)
191 PF04592 SelP_N: Selenoprotein 28.3 20 0.00043 33.0 0.1 28 47-77 30-57 (238)
192 PF12297 EVC2_like: Ellis van 27.6 2E+02 0.0042 28.8 6.7 91 72-183 257-352 (429)
193 PF14561 TPR_20: Tetratricopep 27.0 70 0.0015 24.6 2.9 24 7-30 25-48 (90)
194 PRK00430 fis global DNA-bindin 26.6 56 0.0012 25.6 2.3 25 228-252 55-79 (95)
195 cd04752 Commd4 COMM_Domain con 26.4 3.2E+02 0.0069 23.5 7.3 60 143-237 22-83 (174)
196 PF09613 HrpB1_HrpK: Bacterial 26.2 1.2E+02 0.0026 26.2 4.5 57 10-77 50-106 (160)
197 PRK14137 recX recombination re 26.0 3.4E+02 0.0075 24.0 7.5 22 218-239 157-178 (195)
198 PF04695 Pex14_N: Peroxisomal 25.8 1.6E+02 0.0034 24.4 5.1 30 215-244 22-51 (136)
199 PF13371 TPR_9: Tetratricopept 25.7 79 0.0017 21.8 2.9 27 110-136 31-57 (73)
200 KOG1173 Anaphase-promoting com 25.2 1.4E+02 0.0029 31.1 5.3 90 75-179 396-512 (611)
201 PF09675 Chlamy_scaf: Chlamydi 25.2 77 0.0017 26.0 2.9 36 19-54 32-67 (114)
202 TIGR00823 EIIA-LAC phosphotran 25.2 65 0.0014 25.5 2.5 29 10-38 23-51 (99)
203 PF07553 Lipoprotein_Ltp: Host 24.6 1.7E+02 0.0037 20.2 4.2 22 145-166 22-46 (48)
204 PF09477 Type_III_YscG: Bacter 24.4 52 0.0011 27.1 1.8 47 11-76 47-93 (116)
205 PF10440 WIYLD: Ubiquitin-bind 24.4 98 0.0021 23.0 3.1 22 218-239 13-34 (65)
206 TIGR00134 gatE_arch glutamyl-t 24.1 7.5E+02 0.016 26.0 10.6 87 144-249 448-554 (620)
207 KOG4648 Uncharacterized conser 23.3 1.5E+02 0.0032 29.5 4.9 51 7-68 100-150 (536)
208 PRK10747 putative protoheme IX 23.3 3.1E+02 0.0067 26.2 7.3 58 111-182 87-144 (398)
209 PRK14134 recX recombination re 23.2 4.7E+02 0.01 24.3 8.2 72 149-239 132-205 (283)
210 PF11817 Foie-gras_1: Foie gra 22.8 1.4E+02 0.0031 26.7 4.6 53 6-67 180-236 (247)
211 PF01458 UPF0051: Uncharacteri 22.7 67 0.0015 28.5 2.4 25 142-166 202-226 (229)
212 COG3626 PhnI Uncharacterized e 22.7 93 0.002 29.6 3.4 32 220-251 45-78 (367)
213 cd04773 HTH_TioE_rpt2 Second H 22.6 2.7E+02 0.0058 21.9 5.6 41 146-186 48-90 (108)
214 PRK05441 murQ N-acetylmuramic 22.0 1.4E+02 0.0031 27.9 4.6 31 154-184 246-276 (299)
215 PRK08769 DNA polymerase III su 21.9 1.3E+02 0.0029 28.5 4.3 37 145-181 175-211 (319)
216 PF04781 DUF627: Protein of un 21.8 60 0.0013 26.5 1.7 20 9-28 1-20 (111)
217 PRK14136 recX recombination re 21.8 4.7E+02 0.01 25.1 7.9 26 218-243 280-305 (309)
218 TIGR00133 gatB glutamyl-tRNA(G 21.8 8.5E+02 0.018 24.7 10.6 90 144-249 301-410 (478)
219 PF12793 SgrR_N: Sugar transpo 21.4 99 0.0021 25.0 2.9 30 6-35 72-101 (115)
220 PRK14135 recX recombination re 21.2 6E+02 0.013 22.8 12.9 79 147-242 181-261 (263)
221 PRK10923 glnG nitrogen regulat 21.1 68 0.0015 31.2 2.3 36 228-263 429-466 (469)
222 PLN03088 SGT1, suppressor of 21.0 3.7E+02 0.0079 25.5 7.2 60 6-79 38-97 (356)
223 PF10607 CLTH: CTLH/CRA C-term 20.9 1.2E+02 0.0027 24.4 3.5 25 160-186 7-31 (145)
224 PF14748 P5CR_dimer: Pyrroline 20.8 3E+02 0.0066 21.6 5.6 67 146-231 26-92 (107)
225 TIGR00274 N-acetylmuramic acid 20.8 1.3E+02 0.0027 28.3 3.9 32 154-185 241-272 (291)
226 PF04010 DUF357: Protein of un 20.6 1.3E+02 0.0028 22.6 3.3 28 3-30 34-61 (75)
227 PRK15359 type III secretion sy 20.2 2.1E+02 0.0046 23.2 4.8 60 6-79 60-119 (144)
228 cd05804 StaR_like StaR_like; a 20.1 6.5E+02 0.014 22.7 8.5 25 110-134 188-212 (355)
No 1
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=3.3e-88 Score=642.51 Aligned_cols=256 Identities=53% Similarity=0.869 Sum_probs=248.5
Q ss_pred CchhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447 1 MMMGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (267)
Q Consensus 1 l~~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~ 80 (267)
||||||||||||++|+|++|++||++|++|||+||+|+||||++|||||+||||||||||+||||+|||||+.||.+|++
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 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHH
Q 024447 81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQD 160 (267)
Q Consensus 81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~ 160 (267)
+|.+|||+|++||++|||+++||++||||||||||||+||+|++++|.+.|+.|.+.+.+++++++.++.+++|||.++.
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 HHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 161 AKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 161 Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
||+|||.|+|||+.|++||.++++...++|+++..+.+++.++++++.|++++||+|++|+.|++|||+++.|.+||+++
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 99999999999999999999999999998877776666666788999999999999999999999999999999999999
Q ss_pred CCCHHHHHHhccCCCc
Q 024447 241 ENDSQKALDDLTNPES 256 (267)
Q Consensus 241 ~ndve~AldlL~~pd~ 256 (267)
+||+++|+++|++|.+
T Consensus 400 ~Ndi~~aldllq~esd 415 (568)
T KOG2561|consen 400 ENDIQKALDLLQDESD 415 (568)
T ss_pred cCcHHHHHHhcCCcch
Confidence 9999999999987644
No 2
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.79 E-value=1.1e-19 Score=180.83 Aligned_cols=110 Identities=21% Similarity=0.325 Sum_probs=90.4
Q ss_pred hhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcC
Q 024447 137 KFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAV 215 (267)
Q Consensus 137 ~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~v 215 (267)
+..++..|+..|.+|++|||+++.|+|||..|+| +.|.|++||++||+|++.+.+ .. .......++...|
T Consensus 564 ~~~~~~~d~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p------~v---vp~~~~~a~~~~~ 634 (763)
T KOG0944|consen 564 ETSEFAADRSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEHMDDPDIDDP------FV---VPGNSPKADAREV 634 (763)
T ss_pred ccCccchhHHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHhccCcccCCc------ee---cCCCCCccccCCC
Confidence 3344567899999999999999999999999965 799999999999999986531 11 1111122223369
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccCCC
Q 024447 216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALD-DLTNPE 255 (267)
Q Consensus 216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~pd 255 (267)
+++.|.++++|||++.+|++||+.++|||++|+| +|+|||
T Consensus 635 ~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~h~d 675 (763)
T KOG0944|consen 635 DEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFSHMD 675 (763)
T ss_pred ChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHhccc
Confidence 9999999999999999999999999999999999 577988
No 3
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.63 E-value=1.3e-15 Score=146.62 Aligned_cols=159 Identities=27% Similarity=0.308 Sum_probs=133.3
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH--cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC---
Q 024447 67 WLSEAGIRLRKAREGIERAHGKDSSRVRLLQ--AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL--- 141 (267)
Q Consensus 67 ~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lk--g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l--- 141 (267)
+=..|-+.|..|-..|...- ++.+.+..+. |+-..++++.|| + |.|+++.|..++...++++++.
T Consensus 282 ~~deAye~le~a~~~l~elk-i~d~~lsllv~mGfeesdaRlaLR--------s-c~g~Vd~AvqfI~erre~laq~R~k 351 (568)
T KOG2561|consen 282 QRDEAYEALESAHAKLLELK-INDETLSLLVGMGFEESDARLALR--------S-CNGDVDSAVQFIIERREKLAQKREK 351 (568)
T ss_pred CcHHHHHHHHHHHHHHHHee-ccchHHHHHHHcCCCchHHHHHHH--------h-ccccHHHHHHHHHHHHHHHHHHHHh
Confidence 34688999999999988766 9999999998 899999999999 6 9999999999886654443322
Q ss_pred ---------------------CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHH
Q 024447 142 ---------------------QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEI 200 (267)
Q Consensus 142 ---------------------~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~ 200 (267)
+||+..|..|++|||+...|..||+.++||+..|++.+..+.++...+++
T Consensus 352 ~~a~Ere~~~r~k~~n~~~~~wvn~rs~~rL~~mGyer~la~eaL~r~~Ndi~~aldllq~esdel~~n~~--------- 422 (568)
T KOG2561|consen 352 DLAREREILERKKYGNTPMKKWVNPRSLERLVSMGYERELAAEALRRNENDIQKALDLLQDESDELESNKP--------- 422 (568)
T ss_pred hHHHHHHHHHHHHhcCCCcccccCHHHHHHHHhcchHhHHHHHHHHhccCcHHHHHHhcCCcchhhhccCC---------
Confidence 56899999999999999999999999999999999988777665432211
Q ss_pred HHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447 201 MEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLTN 253 (267)
Q Consensus 201 ~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~~ 253 (267)
+....||..+|.+|++|||++-.|+.||+.++||++.|.++|++
T Consensus 423 ---------~~p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~~ 466 (568)
T KOG2561|consen 423 ---------KRPEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLSA 466 (568)
T ss_pred ---------CCCcccchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHHH
Confidence 11134788999999999999999999999999999999997764
No 4
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=4.2e-15 Score=145.13 Aligned_cols=103 Identities=25% Similarity=0.308 Sum_probs=86.1
Q ss_pred CCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHH
Q 024447 141 LQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEK 219 (267)
Q Consensus 141 l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~ 219 (267)
+..|...|.+|++||||..+|.|||-.|+| |.|.||+|||+||+||+.+.+ .. +++. -....+.||..+
T Consensus 555 ~t~Nqs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqHMdDPdlndP------~~---~~~~-vPKkDkeVdE~~ 624 (749)
T COG5207 555 FTDNQSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQHMDDPDLNDP------FV---PPPN-VPKKDKEVDESK 624 (749)
T ss_pred cCchHHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhhccCcccCCC------CC---CCCC-CCcccccccHHH
Confidence 556788999999999999999999999987 899999999999999986532 11 1111 112234799999
Q ss_pred HHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447 220 IKELVSIGFEKELVAEALRRNENDSQKALDDLTN 253 (267)
Q Consensus 220 v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~~ 253 (267)
+..|.+|||...+|++||-.++||++++++|..|
T Consensus 625 ~~Slle~Gln~n~~Rkal~~~n~d~~r~V~w~~N 658 (749)
T COG5207 625 ARSLLENGLNPNLCRKALMDMNTDSKRRVVWCIN 658 (749)
T ss_pred HHHHHHcCCCHHHHHHHHHHccCCchheEEEEEe
Confidence 9999999999999999999999999999997554
No 5
>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=99.23 E-value=8.7e-12 Score=81.81 Aligned_cols=37 Identities=38% Similarity=0.776 Sum_probs=34.5
Q ss_pred CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL 179 (267)
Q Consensus 143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL 179 (267)
+|++.|.+|++|||++..|++||++|+||++.|++||
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 4788999999999999999999999999999999997
No 6
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=99.11 E-value=8e-11 Score=77.21 Aligned_cols=37 Identities=38% Similarity=0.644 Sum_probs=33.6
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL 251 (267)
++++.|.+|++|||+++.|++||+.++||+++|+++|
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 3568899999999999999999999999999999986
No 7
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=99.09 E-value=1.6e-10 Score=75.64 Aligned_cols=38 Identities=34% Similarity=0.710 Sum_probs=35.6
Q ss_pred ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447 144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (267)
Q Consensus 144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~ 181 (267)
+++.|++|++|||+++.|+.||+.|+||++.|++||++
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 8
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=99.08 E-value=1.6e-10 Score=75.25 Aligned_cols=37 Identities=30% Similarity=0.618 Sum_probs=34.9
Q ss_pred ChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447 144 PDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180 (267)
Q Consensus 144 d~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~ 180 (267)
++++|++|++|||+++.|+.||+.|+||+++|++||+
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 9
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.04 E-value=1.5e-10 Score=116.34 Aligned_cols=83 Identities=22% Similarity=0.254 Sum_probs=69.5
Q ss_pred HHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhH-hhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHH
Q 024447 96 LQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALT-SAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGS 174 (267)
Q Consensus 96 lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~-~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~ 174 (267)
..|+++.|.|+ .|+.-|+.|.|.+.+... .---....-.++++.|.++++|||++.+|+.||+++||||++
T Consensus 594 ~tgN~~aEaA~--------NWl~~HMdDpd~~~p~vvp~~~~~a~~~~~~e~~v~si~smGf~~~qa~~aL~~~n~nver 665 (763)
T KOG0944|consen 594 YTGNSGAEAAS--------NWLMEHMDDPDIDDPFVVPGNSPKADAREVDEESVASIVSMGFSRNQAIKALKATNNNVER 665 (763)
T ss_pred hhcCccHHHHH--------HHHHHhccCcccCCceecCCCCCccccCCCChhHheeeeeecCcHHHHHHHHHhcCccHHH
Confidence 56999999999 999999999999887532 110011111679999999999999999999999999999999
Q ss_pred HHHHHHhhhhhh
Q 024447 175 AIDFLVEEKAKR 186 (267)
Q Consensus 175 A~~wL~~~~~d~ 186 (267)
|++|||+|++++
T Consensus 666 avDWif~h~d~~ 677 (763)
T KOG0944|consen 666 AVDWIFSHMDIP 677 (763)
T ss_pred HHHHHHhccccc
Confidence 999999999944
No 10
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.86 E-value=4.5e-09 Score=68.69 Aligned_cols=36 Identities=33% Similarity=0.575 Sum_probs=33.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
++.|++|++|||+++.|+.||+.++||+++|+++|.
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 467999999999999999999999999999999764
No 11
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.85 E-value=5.4e-09 Score=68.01 Aligned_cols=35 Identities=34% Similarity=0.557 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL 251 (267)
++.|++|++|||+++.|+.||+.++||+++|+++|
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence 46799999999999999999999999999999976
No 12
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.65 E-value=2.2e-07 Score=89.70 Aligned_cols=39 Identities=23% Similarity=0.556 Sum_probs=36.7
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
++.|+.||+|||+++++++|||++-||.|+||+||++..
T Consensus 157 e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~tGI 195 (378)
T TIGR00601 157 ETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLLTGI 195 (378)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHHhCC
Confidence 579999999999999999999999999999999998763
No 13
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=1.9e-07 Score=92.22 Aligned_cols=86 Identities=12% Similarity=0.110 Sum_probs=69.7
Q ss_pred HHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCC
Q 024447 92 RVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQD 171 (267)
Q Consensus 92 rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gd 171 (267)
|-.-+.|++..|-|| +|++-|+.|+|-..+..+...--...-.||+.++..|.+|||+++.||+||-..+||
T Consensus 577 rAL~~tgNqDaEsAM--------NWLFqHMdDPdlndP~~~~~~vPKkDkeVdE~~~~Slle~Gln~n~~Rkal~~~n~d 648 (749)
T COG5207 577 RALGITGNQDAESAM--------NWLFQHMDDPDLNDPFVPPPNVPKKDKEVDESKARSLLENGLNPNLCRKALMDMNTD 648 (749)
T ss_pred HHHhhccCcchHHHH--------HHHHhhccCcccCCCCCCCCCCCcccccccHHHHHHHHHcCCCHHHHHHHHHHccCC
Confidence 344456999999999 999999999988777543211111112689999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhh
Q 024447 172 VGSAIDFLVEEKAK 185 (267)
Q Consensus 172 ve~A~~wL~~~~~d 185 (267)
++++|.|+++|++.
T Consensus 649 ~~r~V~w~~N~~D~ 662 (749)
T COG5207 649 SKRRVVWCINDDDG 662 (749)
T ss_pred chheEEEEEeCCCC
Confidence 99999999997654
No 14
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.96 E-value=3.8e-05 Score=72.51 Aligned_cols=41 Identities=22% Similarity=0.500 Sum_probs=37.6
Q ss_pred CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
..+..|.++|+|||.+++..+|||+.=||.|+||+||.+..
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl~GI 174 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLLNGI 174 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHhcCC
Confidence 46688999999999999999999999999999999998754
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=97.60 E-value=5.8e-05 Score=73.06 Aligned_cols=37 Identities=32% Similarity=0.529 Sum_probs=34.3
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 216 DIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 216 d~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
....|++|++|||+|+++.+|||.+-||-+||+++|.
T Consensus 156 ~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~ 192 (378)
T TIGR00601 156 RETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLL 192 (378)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHH
Confidence 3678999999999999999999999999999999655
No 16
>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=96.45 E-value=0.023 Score=41.36 Aligned_cols=75 Identities=17% Similarity=0.117 Sum_probs=62.2
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447 3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI 82 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f 82 (267)
++..+...|....+.++|++|+.++-.|-+.+..-+++-. .+|..-..|.|||..+++ .++|...+++|-+.+
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 789999999998887
Q ss_pred HH
Q 024447 83 ER 84 (267)
Q Consensus 83 ~r 84 (267)
++
T Consensus 77 ~k 78 (78)
T PF13424_consen 77 EK 78 (78)
T ss_dssp HH
T ss_pred cC
Confidence 64
No 17
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=96.40 E-value=0.0034 Score=59.56 Aligned_cols=42 Identities=26% Similarity=0.495 Sum_probs=36.7
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc--CCCc
Q 024447 215 VDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT--NPES 256 (267)
Q Consensus 215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~--~pd~ 256 (267)
...+.|.++++|||+++.+..|||..=||-+||+++|- .|++
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 35578999999999999999999999999999999554 4664
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=96.05 E-value=0.018 Score=38.46 Aligned_cols=38 Identities=26% Similarity=0.350 Sum_probs=33.5
Q ss_pred hhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447 145 DESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (267)
Q Consensus 145 ~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~ 182 (267)
++.|.+|.+| .+++...+.+|.+++||++.|++.|++.
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 4678899999 7999999999999999999999999874
No 19
>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=95.95 E-value=0.015 Score=38.83 Aligned_cols=34 Identities=26% Similarity=0.537 Sum_probs=30.0
Q ss_pred HHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hc
Q 024447 218 EKIKELVSI--GFEKELVAEALRRNENDSQKALD-DL 251 (267)
Q Consensus 218 e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL 251 (267)
+.|.+|.+| .++++..+.+|+.++||++.|++ +|
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL 39 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALL 39 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 568899999 89999999999999999999999 44
No 20
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=95.71 E-value=0.021 Score=38.36 Aligned_cols=37 Identities=27% Similarity=0.437 Sum_probs=27.7
Q ss_pred HHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHH-hccCCC
Q 024447 219 KIKELVSI-GFEKELVAEALRRNENDSQKALD-DLTNPE 255 (267)
Q Consensus 219 ~v~~L~~M-GF~~~~A~~ALr~t~ndve~Ald-lL~~pd 255 (267)
+|.+.++. |.+++.|+.-|+.+++|++.|++ .+.+++
T Consensus 3 ~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 3 KIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred HHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 45555544 88999999999999999999999 566654
No 21
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.66 E-value=0.032 Score=37.30 Aligned_cols=36 Identities=17% Similarity=0.392 Sum_probs=31.1
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447 217 IEKIKELVSI--GFEKELVAEALRRNENDSQKALD-DLT 252 (267)
Q Consensus 217 ~e~v~~L~~M--GF~~~~A~~ALr~t~ndve~Ald-lL~ 252 (267)
.+.+.+|.+| .+++..++..|+.++||++.|++ +|.
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4668899999 67788999999999999999999 544
No 22
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=95.65 E-value=0.022 Score=38.31 Aligned_cols=40 Identities=23% Similarity=0.287 Sum_probs=30.3
Q ss_pred hhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447 146 ESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEEKAK 185 (267)
Q Consensus 146 ~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d 185 (267)
++|.+.++ .|.++..|+.-|..+++|++.|++-.++..+.
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 45555554 38899999999999999999999988887644
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=95.44 E-value=0.016 Score=41.60 Aligned_cols=27 Identities=33% Similarity=0.647 Sum_probs=21.8
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447 215 VDIEKIKELVSIGFEKELVAEALRRNE 241 (267)
Q Consensus 215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ 241 (267)
.|++.|+++++|||+++.+.+|||+-+
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 688999999999999999999999753
No 24
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=95.28 E-value=0.045 Score=36.56 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=33.5
Q ss_pred ChhhHhhHHhC--CCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447 144 PDESLSLVMSM--GFKEQDAKRALRICSQDVGSAIDFLVEE 182 (267)
Q Consensus 144 d~~~l~~L~~M--GF~~~~Ar~ALr~~~gdve~A~~wL~~~ 182 (267)
.++.+.+|.+| .++...++..|+.++||++.|++-|++.
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 45678899999 5668999999999999999999988753
No 25
>PRK09377 tsf elongation factor Ts; Provisional
Probab=94.59 E-value=0.057 Score=50.74 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=35.9
Q ss_pred CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
+....|..|-++ |.+.-+|++||..++||++.|++||..+.
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 566778888776 89999999999999999999999997654
No 26
>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=94.48 E-value=0.36 Score=38.11 Aligned_cols=95 Identities=19% Similarity=0.203 Sum_probs=61.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
.++..|..+++.++|++|+..+-.+=+ .-.+++-...=+.+||+.+++. ..|...|.++
T Consensus 19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~-----------~~p~~~~~~~~la~~~~~~~~~----------~~A~~~~~~~ 77 (135)
T TIGR02552 19 QIYALAYNLYQQGRYDEALKLFQLLAA-----------YDPYNSRYWLGLAACCQMLKEY----------EEAIDAYALA 77 (135)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHH-----------hCCCcHHHHHHHHHHHHHHHHH----------HHHHHHHHHH
Confidence 356788999999999999988744322 2233444455568888888654 3444445444
Q ss_pred hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
...++. ....+...|++.+..|+.+.|...+..+-.
T Consensus 78 ~~~~p~---------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~ 113 (135)
T TIGR02552 78 AALDPD---------------DPRPYFHAAECLLALGEPESALKALDLAIE 113 (135)
T ss_pred HhcCCC---------------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 432221 122334458888999999999988875544
No 27
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=94.46 E-value=0.063 Score=50.47 Aligned_cols=41 Identities=24% Similarity=0.229 Sum_probs=35.8
Q ss_pred CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
+..+.|..|-++ |.+.-+|++||..++||+++|++||..+.
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG 44 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESG 44 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 456678888776 89999999999999999999999997754
No 28
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=94.34 E-value=0.085 Score=43.27 Aligned_cols=41 Identities=32% Similarity=0.545 Sum_probs=36.4
Q ss_pred CCCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447 141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVE 181 (267)
Q Consensus 141 l~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~ 181 (267)
..++++.|..+++ -|-|+..|+.||..|+||+-.|+-+|.+
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 5689999998876 4899999999999999999999988854
No 29
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=94.31 E-value=0.081 Score=47.12 Aligned_cols=41 Identities=24% Similarity=0.325 Sum_probs=35.3
Q ss_pred CChhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 143 VPDESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 143 vd~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
++.+.|..|-++ |.+.-+|++||..++||++.|++||....
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~g 44 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKG 44 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 455677777765 89999999999999999999999997754
No 30
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.042 Score=51.16 Aligned_cols=40 Identities=23% Similarity=0.478 Sum_probs=35.0
Q ss_pred HhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHH-Hhhhhhhh
Q 024447 148 LSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFL-VEEKAKRV 187 (267)
Q Consensus 148 l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL-~~~~~d~~ 187 (267)
+++|++|||+...+-+||.-++| +++.|+.|| ..|-+++.
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 37899999999999999998854 899999999 88877765
No 31
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.99 E-value=0.086 Score=46.61 Aligned_cols=41 Identities=17% Similarity=0.234 Sum_probs=35.5
Q ss_pred CCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHh
Q 024447 210 PLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDD 250 (267)
Q Consensus 210 ~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Aldl 250 (267)
......+..+|+.|.+|||++..+..+|+..+-|++.|...
T Consensus 156 ~~~~~~~~~~v~~l~~mGf~~~~~i~~L~~~~w~~~~a~~~ 196 (200)
T KOG0418|consen 156 LPDDPWDKKKVDSLIEMGFSELEAILVLSGSDWNLADATEQ 196 (200)
T ss_pred CCCCchhHHHHHHHHHhcccHHHHHHHhhccccchhhhhHh
Confidence 33344577999999999999999999999999999999883
No 32
>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=93.75 E-value=0.11 Score=42.66 Aligned_cols=39 Identities=31% Similarity=0.557 Sum_probs=34.9
Q ss_pred CCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447 142 QVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLV 180 (267)
Q Consensus 142 ~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~ 180 (267)
.++++.|..+++ -|-|+..|++||..|+||+-.|+-+|.
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 589999999999999999999998874
No 33
>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=93.61 E-value=0.73 Score=31.32 Aligned_cols=92 Identities=23% Similarity=0.247 Sum_probs=58.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (267)
++..|..++..++|++|+.++..+=+.. ++.......+.+||...+ +...|.+.|.++.
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~----------~~~~a~~~~~~~~ 61 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD-----------PDNADAYYNLAAAYYKLG----------KYEEALEDYEKAL 61 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC-----------CccHHHHHHHHHHHHHHH----------HHHHHHHHHHHHH
Confidence 5678999999999999999987664332 122256678888988863 4455566666655
Q ss_pred CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhh
Q 024447 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (267)
Q Consensus 87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a 134 (267)
-..+... ......+.+.+..|+.+.|...+..+
T Consensus 62 ~~~~~~~---------------~~~~~~~~~~~~~~~~~~a~~~~~~~ 94 (100)
T cd00189 62 ELDPDNA---------------KAYYNLGLAYYKLGKYEEALEAYEKA 94 (100)
T ss_pred hCCCcch---------------hHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 3222111 12223355566677788887776644
No 34
>CHL00098 tsf elongation factor Ts
Probab=93.34 E-value=0.14 Score=45.65 Aligned_cols=37 Identities=22% Similarity=0.237 Sum_probs=31.4
Q ss_pred hHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 147 SLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 147 ~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
.|..|-++ |.+..+|++||..++||++.|++||..+.
T Consensus 4 ~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~g 41 (200)
T CHL00098 4 LVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQKG 41 (200)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 45556554 89999999999999999999999997754
No 35
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.24 E-value=0.08 Score=46.81 Aligned_cols=39 Identities=21% Similarity=0.294 Sum_probs=34.9
Q ss_pred CChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447 143 VPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (267)
Q Consensus 143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~ 181 (267)
.+..+|..|.+|||++.++..+|...+-|++.|.+.+++
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 356899999999999999999999989999999988765
No 36
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=93.13 E-value=0.19 Score=41.27 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=35.5
Q ss_pred cCCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhccC
Q 024447 214 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLTN 253 (267)
Q Consensus 214 ~vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~~ 253 (267)
.++.+.|+.+++- |-+++.|++||+.++||+-.|+-.|+.
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHHhc
Confidence 4788999998875 999999999999999999999986653
No 37
>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=92.14 E-value=6.1 Score=36.19 Aligned_cols=74 Identities=18% Similarity=0.164 Sum_probs=50.3
Q ss_pred hhhhhhHhHHHHHHhh-chHHHHHHHHhhhhhhccCChhhhhh-cc----chhhhhhhHHHHHHHhCCCCCHHHHHHHHH
Q 024447 3 MGLMLHANAKSLIKRH-MYKDALEVLTMGEEAFSLCDPKVLEF-VD----NGPLLQIDMVWCYFMLRDISWLSEAGIRLR 76 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~-~y~~al~~ll~ad~~f~~c~~~~l~~-vD----n~a~l~ldivwcy~~l~~~~~l~dA~~rL~ 76 (267)
++.++++-|+++++++ +|++|...|-+|=+.++.+ .+.... .| .+.+|. =+|=||+-...-.....|..-|.
T Consensus 34 La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~-~~~~~~~~~~~elr~~iL~-~La~~~l~~~~~~~~~ka~~~l~ 111 (278)
T PF08631_consen 34 LARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKP-GKMDKLSPDGSELRLSILR-LLANAYLEWDTYESVEKALNALR 111 (278)
T ss_pred HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhh-hhccccCCcHHHHHHHHHH-HHHHHHHcCCChHHHHHHHHHHH
Confidence 5678999999999999 9999999999999888774 222121 11 234443 36777777666655555555444
Q ss_pred HH
Q 024447 77 KA 78 (267)
Q Consensus 77 ~a 78 (267)
..
T Consensus 112 ~l 113 (278)
T PF08631_consen 112 LL 113 (278)
T ss_pred HH
Confidence 44
No 38
>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=92.01 E-value=2.5 Score=31.83 Aligned_cols=103 Identities=15% Similarity=0.138 Sum_probs=63.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
.+..+|..+++.++|++|...+..+-+.+..+. +.+-..+-+..||+..++ ...|...+..+-..
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~---- 68 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKST--------YAPNAHYWLGEAYYAQGK---YADAAKAFLAVVKK---- 68 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcc--------ccHHHHHHHHHHHHhhcc---HHHHHHHHHHHHHH----
Confidence 467899999999999999999998877665432 223344557777777664 33444444333321
Q ss_pred hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (267)
Q Consensus 86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~ 138 (267)
++ ++.....+++ .-+.+.++.|+.++|...+..+-...
T Consensus 69 ---~p-------~~~~~~~~~~-----~~~~~~~~~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 69 ---YP-------KSPKAPDALL-----KLGMSLQELGDKEKAKATLQQVIKRY 106 (119)
T ss_pred ---CC-------CCCcccHHHH-----HHHHHHHHhCChHHHHHHHHHHHHHC
Confidence 11 1111122222 23666778899999998887665543
No 39
>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=91.87 E-value=0.32 Score=39.99 Aligned_cols=39 Identities=21% Similarity=0.236 Sum_probs=33.9
Q ss_pred cCCHHHHHHHHhC-CCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 214 AVDIEKIKELVSI-GFEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 214 ~vd~e~v~~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
.++.+.|+.+++- |-+++.|++||+.++||+-.|+-.|+
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 3788889888765 99999999999999999999987554
No 40
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=90.03 E-value=0.37 Score=48.19 Aligned_cols=34 Identities=29% Similarity=0.496 Sum_probs=29.7
Q ss_pred HHHHHHHhCCCC-HHHHHHHHHHcCCCHHHHHHhc
Q 024447 218 EKIKELVSIGFE-KELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 218 e~v~~L~~MGF~-~~~A~~ALr~t~ndve~AldlL 251 (267)
..+++|-+|||. ++...+||+.|+|||++|++.|
T Consensus 456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverl 490 (493)
T KOG0010|consen 456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERL 490 (493)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHH
Confidence 568999999985 5589999999999999999943
No 41
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=90.00 E-value=7.5 Score=32.53 Aligned_cols=65 Identities=14% Similarity=0.018 Sum_probs=44.6
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR 79 (267)
Q Consensus 4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae 79 (267)
+..++.+|....+.++|++|+.++.+|=+.-... .+.+.....+..||+.+++. +.|...+.+|-
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~--------~~~~~~~~~la~~~~~~g~~---~~A~~~~~~al 99 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDP--------NDRSYILYNMGIIYASNGEH---DKALEYYHQAL 99 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc--------chHHHHHHHHHHHHHHcCCH---HHHHHHHHHHH
Confidence 4567889999999999999999998875532111 12355667888888887654 44544444433
No 42
>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=89.88 E-value=9.4 Score=31.26 Aligned_cols=61 Identities=11% Similarity=-0.126 Sum_probs=40.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~ 80 (267)
.+...|...++.++|++|+..+-.|-+... +.+....-++|+|+..+ ..++|...+.++-.
T Consensus 67 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-----------~~~~~~~~~~~~~~~~g---~~~~A~~~~~~~~~ 127 (234)
T TIGR02521 67 AYLALALYYQQLGELEKAEDSFRRALTLNP-----------NNGDVLNNYGTFLCQQG---KYEQAMQQFEQAIE 127 (234)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-----------CCHHHHHHHHHHHHHcc---cHHHHHHHHHHHHh
Confidence 345578888999999999999888765432 22234455688888765 45566665555543
No 43
>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=89.80 E-value=0.32 Score=34.94 Aligned_cols=27 Identities=19% Similarity=0.350 Sum_probs=21.8
Q ss_pred CChhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447 143 VPDESLSLVMSMGFKEQDAKRALRICS 169 (267)
Q Consensus 143 vd~~~l~~L~~MGF~~~~Ar~ALr~~~ 169 (267)
+|.+.|.+..+|||+......||+.-|
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 588999999999999999999999865
No 44
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=89.77 E-value=2 Score=36.00 Aligned_cols=77 Identities=17% Similarity=0.024 Sum_probs=61.2
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC----CCCHHHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD----ISWLSEAGIRLRKARE 80 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~----~~~l~dA~~rL~~ae~ 80 (267)
..++-.|....+.++|++|+..+..|=+.. .+++.....+.+||+.+.+ ......|..++.+|.+
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 2345555688999999887 5778999999999999
Q ss_pred HHHHHhCCCHHH
Q 024447 81 GIERAHGKDSSR 92 (267)
Q Consensus 81 ~f~r~yG~~~~r 92 (267)
.+++..+.++.-
T Consensus 142 ~~~~a~~~~p~~ 153 (172)
T PRK02603 142 YWKQAIRLAPNN 153 (172)
T ss_pred HHHHHHhhCchh
Confidence 999988777764
No 45
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=89.43 E-value=2.8 Score=37.55 Aligned_cols=76 Identities=24% Similarity=0.200 Sum_probs=55.7
Q ss_pred chhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchh
Q 024447 47 NGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDK 126 (267)
Q Consensus 47 n~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~ 126 (267)
..|.+.|=|.|+|.-+.| -.....-|++|-+.|+++| ++. ..+.+.-=-.++-.|=|-+.+.-|+.++
T Consensus 116 ~~A~l~LrlAWlyR~~~~---~~~E~~fl~~Al~~y~~a~-~~e--------~~~~~~~~~~~l~YLigeL~rrlg~~~e 183 (214)
T PF09986_consen 116 KKAGLCLRLAWLYRDLGD---EENEKRFLRKALEFYEEAY-ENE--------DFPIEGMDEATLLYLIGELNRRLGNYDE 183 (214)
T ss_pred HHHHHHHHHHHHhhccCC---HHHHHHHHHHHHHHHHHHH-HhC--------cCCCCCchHHHHHHHHHHHHHHhCCHHH
Confidence 569999999999988888 6677788999999999999 222 1111111112244566888999999999
Q ss_pred HhhhhHhh
Q 024447 127 ARNALTSA 134 (267)
Q Consensus 127 A~~~l~~a 134 (267)
|...+...
T Consensus 184 A~~~fs~v 191 (214)
T PF09986_consen 184 AKRWFSRV 191 (214)
T ss_pred HHHHHHHH
Confidence 99887654
No 46
>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=89.35 E-value=5.6 Score=40.27 Aligned_cols=94 Identities=16% Similarity=0.027 Sum_probs=50.9
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (267)
+.-.|...+.+++|++|+..+-.|=+.. .+++-..+-+.|||+.+++ .++|..-+.++ .
T Consensus 334 ~~~lg~~~~~~g~~~eA~~~~~kal~l~-----------P~~~~~~~~la~~~~~~g~---~~eA~~~~~~a-------l 392 (615)
T TIGR00990 334 LNLRGTFKCLKGKHLEALADLSKSIELD-----------PRVTQSYIKRASMNLELGD---PDKAEEDFDKA-------L 392 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------CCcHHHHHHHHHHHHHCCC---HHHHHHHHHHH-------H
Confidence 4445666666677777776665443221 2334445566777776543 33444443333 2
Q ss_pred CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
-.++ ....+++ ..|.+.+..|+.++|...+.++-.
T Consensus 393 ~~~p----------~~~~~~~-----~lg~~~~~~g~~~~A~~~~~kal~ 427 (615)
T TIGR00990 393 KLNS----------EDPDIYY-----HRAQLHFIKGEFAQAGKDYQKSID 427 (615)
T ss_pred HhCC----------CCHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHH
Confidence 1111 1112222 337778888888888888776543
No 47
>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=88.73 E-value=0.54 Score=32.13 Aligned_cols=24 Identities=21% Similarity=0.574 Sum_probs=20.7
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.++.+|++..
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 478899999999999999999876
No 48
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=88.25 E-value=3.1 Score=39.68 Aligned_cols=96 Identities=22% Similarity=0.168 Sum_probs=62.8
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
--|..+|..+++.++|++|+.++-.|=+.... .+-......-||+.+++ ..+|..-+.+|-+
T Consensus 3 ~~l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~-----------~~~a~~~~a~~~~~~g~---~~eAl~~~~~Al~---- 64 (356)
T PLN03088 3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDPN-----------NAELYADRAQANIKLGN---FTEAVADANKAIE---- 64 (356)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-----------CHHHHHHHHHHHHHcCC---HHHHHHHHHHHHH----
Confidence 34678999999999999999999777543322 23344677788888754 4444444433322
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
.++ ..+ .+ ++..|.+.++.|++++|...+..+-.
T Consensus 65 ---l~P---------~~~-~a-----~~~lg~~~~~lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 65 ---LDP---------SLA-KA-----YLRKGTACMKLEEYQTAKAALEKGAS 98 (356)
T ss_pred ---hCc---------CCH-HH-----HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 222 111 12 22348899999999999998876544
No 49
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=87.94 E-value=0.75 Score=46.09 Aligned_cols=35 Identities=29% Similarity=0.490 Sum_probs=30.7
Q ss_pred hhHhhHHhCCC-CHHHHHHHHHHhCCCHHHHHHHHH
Q 024447 146 ESLSLVMSMGF-KEQDAKRALRICSQDVGSAIDFLV 180 (267)
Q Consensus 146 ~~l~~L~~MGF-~~~~Ar~ALr~~~gdve~A~~wL~ 180 (267)
.-+++|-+||| ++.+..+||++|+|||.+||+-|+
T Consensus 456 ~QLeQL~~MGF~nre~nlqAL~atgGdi~aAverll 491 (493)
T KOG0010|consen 456 TQLEQLNDMGFLDREANLQALRATGGDINAAVERLL 491 (493)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHhcCcHHHHHHHHh
Confidence 56889999996 567778999999999999999875
No 50
>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=87.76 E-value=5.4 Score=39.93 Aligned_cols=27 Identities=15% Similarity=-0.037 Sum_probs=21.4
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEE 32 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~ 32 (267)
..+..|+..++.++|++|+..+-.+-+
T Consensus 58 ~~~~l~~~~~~~g~~~~A~~~~~~~~~ 84 (899)
T TIGR02917 58 ARFLLGKIYLALGDYAAAEKELRKALS 84 (899)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 456788889999999999988877644
No 51
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=87.46 E-value=1.1 Score=37.15 Aligned_cols=39 Identities=31% Similarity=0.455 Sum_probs=33.1
Q ss_pred CCCChhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHH
Q 024447 141 LQVPDESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFL 179 (267)
Q Consensus 141 l~vd~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL 179 (267)
..++++.|...++ -|-|+++|++||..+|||+-.|+-.|
T Consensus 81 ~~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 81 SDISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 4578888887665 69999999999999999988888665
No 52
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=86.82 E-value=1.1 Score=36.36 Aligned_cols=47 Identities=26% Similarity=0.396 Sum_probs=40.8
Q ss_pred HhhhccCCCChhhHhhHH-hCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447 135 QAKFFQLQVPDESLSLVM-SMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (267)
Q Consensus 135 ~~~~~~l~vd~~~l~~L~-~MGF~~~~Ar~ALr~~~gdve~A~~wL~~ 181 (267)
+.++++++|..+.|..+| +|-.++..|.+.||.++|||-.|+.-|.+
T Consensus 71 EKELakV~IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral~s 118 (119)
T KOG3450|consen 71 EKELAKVTIKKEDLELIMNELEISKAAAERSLREHMGDVVEALRALTS 118 (119)
T ss_pred HhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhc
Confidence 557889999999999554 78899999999999999999999987764
No 53
>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=86.63 E-value=16 Score=29.84 Aligned_cols=63 Identities=19% Similarity=0.117 Sum_probs=44.4
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (267)
Q Consensus 4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~ 80 (267)
+-.+...|...++.++|++|+..+..+=+. -.+.+....-+..+|+..++ ...|...+.++-+
T Consensus 31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~-----------~p~~~~~~~~la~~~~~~~~---~~~A~~~~~~al~ 93 (234)
T TIGR02521 31 AKIRVQLALGYLEQGDLEVAKENLDKALEH-----------DPDDYLAYLALALYYQQLGE---LEKAEDSFRRALT 93 (234)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CcccHHHHHHHHHHHHHcCC---HHHHHHHHHHHHh
Confidence 345677899999999999999999877332 12334455567788887764 4677777776654
No 54
>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=86.38 E-value=1 Score=30.70 Aligned_cols=23 Identities=22% Similarity=0.515 Sum_probs=20.1
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHc
Q 024447 218 EKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
+.+..|+++||++..|..|++..
T Consensus 5 d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 5 DALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 67899999999999999999876
No 55
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=86.10 E-value=5.9 Score=32.93 Aligned_cols=90 Identities=13% Similarity=-0.073 Sum_probs=54.7
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh--------------------------hhhhhccchhhhhhhHHH
Q 024447 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP--------------------------KVLEFVDNGPLLQIDMVW 57 (267)
Q Consensus 4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~--------------------------~~l~~vDn~a~l~ldivw 57 (267)
+..++-.|.....+++|++|+..+-.|=+.+..... +.++.-..++--...+..
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~ 114 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV 114 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence 345566677777777777777776666444321100 001112222333445667
Q ss_pred HHHHhC----CCCCHHHHHHHHHHHHHHHHHHhCCCHHHH
Q 024447 58 CYFMLR----DISWLSEAGIRLRKAREGIERAHGKDSSRV 93 (267)
Q Consensus 58 cy~~l~----~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl 93 (267)
+|.-+. .......|...+.++...|++.+|.+|.+.
T Consensus 115 i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~ 154 (168)
T CHL00033 115 ICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY 154 (168)
T ss_pred HHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence 777444 556678888889999999999999988543
No 56
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=85.97 E-value=4.1 Score=41.28 Aligned_cols=114 Identities=18% Similarity=0.145 Sum_probs=85.9
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 024447 3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGI 82 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f 82 (267)
+|..|+--|...-+++.|+||..+.-.|=+-+.. .+ ..|.+-+.==+-=-+.-....+..+.|...++++-+.+
T Consensus 282 va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~---~~---~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~ 355 (508)
T KOG1840|consen 282 VAATLNNLAVLYYKQGKFAEAEEYCERALEIYEK---LL---GASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIY 355 (508)
T ss_pred HHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHH---hh---ccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 5777888899999999999999999999887777 22 23333222222222344556788999999999999999
Q ss_pred HHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 83 ERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 83 ~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
....|++..=+.-++++ | |++.+++|++++|.+++.+|=+
T Consensus 356 ~~~~g~~~~~~a~~~~n------l--------~~l~~~~gk~~ea~~~~k~ai~ 395 (508)
T KOG1840|consen 356 LDAPGEDNVNLAKIYAN------L--------AELYLKMGKYKEAEELYKKAIQ 395 (508)
T ss_pred HhhccccchHHHHHHHH------H--------HHHHHHhcchhHHHHHHHHHHH
Confidence 99999988767666554 3 6778999999999999887643
No 57
>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=85.60 E-value=1.2 Score=34.36 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=30.4
Q ss_pred hhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 149 SLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 149 ~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
..+.+.||+......||++|.||+..|..++.+.-
T Consensus 2 ~~~~~~g~~~~~v~~aL~~tSgd~~~a~~~vl~~l 36 (87)
T PF11626_consen 2 KHYEELGYSREFVTHALYATSGDPELARRFVLNFL 36 (87)
T ss_dssp HHHHHHTB-HHHHHHHHHHTTTBHHHHHHHHHHCH
T ss_pred chHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 34678999999999999999999999999888774
No 58
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=85.36 E-value=1.5 Score=41.43 Aligned_cols=39 Identities=26% Similarity=0.317 Sum_probs=31.2
Q ss_pred hhhHhhHHhC-CCCHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 145 DESLSLVMSM-GFKEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 145 ~~~l~~L~~M-GF~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
...|..|-++ |=..-+|++||..|+||+|.|++||-+.-
T Consensus 6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 3445555554 67788999999999999999999997654
No 59
>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=83.73 E-value=16 Score=36.56 Aligned_cols=26 Identities=31% Similarity=0.250 Sum_probs=17.9
Q ss_pred HHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 111 ELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 111 ~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
..+.|.+.++.|+.++|...+..+-.
T Consensus 196 ~~~~~~~~~~~g~~~~A~~~~~~a~~ 221 (899)
T TIGR02917 196 LLLKGDLLLSLGNIELALAAYRKAIA 221 (899)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence 34447777788888888877776533
No 60
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=83.34 E-value=3 Score=34.61 Aligned_cols=38 Identities=26% Similarity=0.349 Sum_probs=32.2
Q ss_pred cCCHHHHHHHHh-CCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 214 AVDIEKIKELVS-IGFEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 214 ~vd~e~v~~L~~-MGF~~~~A~~ALr~t~ndve~AldlL 251 (267)
.++.+.|.-.++ -|-+++.|++||+.++||+-.|+-=|
T Consensus 82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L 120 (122)
T COG1308 82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKL 120 (122)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHh
Confidence 367788887765 49999999999999999999998643
No 61
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=82.12 E-value=86 Score=34.58 Aligned_cols=26 Identities=15% Similarity=0.109 Sum_probs=18.9
Q ss_pred HHHHhhhhccCCchhHhhhhHhhHhh
Q 024447 112 LLEGVAAYHSGQFDKARNALTSAQAK 137 (267)
Q Consensus 112 lLqg~v~~h~g~~d~A~~~l~~a~~~ 137 (267)
..++.+....|+.++|...+..+-..
T Consensus 465 ~~~a~~~~~~g~~~eA~~~~~~Al~~ 490 (1157)
T PRK11447 465 AQQAEALENQGKWAQAAELQRQRLAL 490 (1157)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 34566677789999999888766443
No 62
>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=81.99 E-value=26 Score=35.44 Aligned_cols=96 Identities=11% Similarity=0.131 Sum_probs=64.1
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
.+...|..++..++|++|+..+-.|=+. -.+++-...-+.+||+.+++ ...|...|++.
T Consensus 367 ~~~~la~~~~~~g~~~eA~~~~~~al~~-----------~p~~~~~~~~lg~~~~~~g~----------~~~A~~~~~ka 425 (615)
T TIGR00990 367 SYIKRASMNLELGDPDKAEEDFDKALKL-----------NSEDPDIYYHRAQLHFIKGE----------FAQAGKDYQKS 425 (615)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHH
Confidence 3456788888999999999998877443 22344455567888887765 34556666665
Q ss_pred hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (267)
Q Consensus 86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~ 137 (267)
...++.-. .+ +..-|.+.+..|+.++|...+..+-..
T Consensus 426 l~l~P~~~----------~~-----~~~la~~~~~~g~~~eA~~~~~~al~~ 462 (615)
T TIGR00990 426 IDLDPDFI----------FS-----HIQLGVTQYKEGSIASSMATFRRCKKN 462 (615)
T ss_pred HHcCccCH----------HH-----HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 54443221 11 223478888999999999998876543
No 63
>PRK12370 invasion protein regulator; Provisional
Probab=81.98 E-value=9.8 Score=38.27 Aligned_cols=71 Identities=18% Similarity=0.228 Sum_probs=40.4
Q ss_pred hhHhHHHHHHh---hchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Q 024447 7 LHANAKSLIKR---HMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIE 83 (267)
Q Consensus 7 l~ek~r~~~~~---~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~ 83 (267)
++=+|+..+.+ +.+++|+.++-.| ++.=-||+....=+.|||+.+......+ ...+...|...++
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 44456555533 4455666555444 3333456666666789999887655432 2345666666666
Q ss_pred HHhCCC
Q 024447 84 RAHGKD 89 (267)
Q Consensus 84 r~yG~~ 89 (267)
+.--.+
T Consensus 329 ~Al~ld 334 (553)
T PRK12370 329 KATELD 334 (553)
T ss_pred HHHhcC
Confidence 655333
No 64
>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=81.12 E-value=9.8 Score=32.92 Aligned_cols=31 Identities=19% Similarity=0.245 Sum_probs=25.9
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhc
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFS 35 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~ 35 (267)
-.++.+|.+++++++|++|...+-.+=+.+.
T Consensus 34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p 64 (235)
T TIGR03302 34 EELYEEAKEALDSGDYTEAIKYFEALESRYP 64 (235)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence 3578999999999999999999887755554
No 65
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=80.46 E-value=6.9 Score=39.66 Aligned_cols=110 Identities=18% Similarity=0.138 Sum_probs=80.8
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (267)
+|--|.....+++|+.|.++.-.|=+. .|..+.+..-+=...++ ||=+.+.++..-.+|.--+++|=..++.+|
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 334577788899999998887766443 23333333333333443 888888899999999999999999999999
Q ss_pred CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
|+++.++.+.-- +| +++.+-+|++++|.++.+.|-.
T Consensus 276 G~~h~~va~~l~----------nL----a~ly~~~GKf~EA~~~~e~Al~ 311 (508)
T KOG1840|consen 276 GEDHPAVAATLN----------NL----AVLYYKQGKFAEAEEYCERALE 311 (508)
T ss_pred CCCCHHHHHHHH----------HH----HHHHhccCChHHHHHHHHHHHH
Confidence 999999966542 21 3345778999999999987744
No 66
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=79.62 E-value=11 Score=31.63 Aligned_cols=38 Identities=21% Similarity=0.334 Sum_probs=33.0
Q ss_pred CCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHH
Q 024447 142 QVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLV 180 (267)
Q Consensus 142 ~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~ 180 (267)
+++.+.+..+.+-|.++++||+||..+| |+-.|+..+.
T Consensus 112 ~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 112 EPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred CCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 3466788889999999999999999987 9999998663
No 67
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=79.61 E-value=2.4 Score=26.33 Aligned_cols=29 Identities=24% Similarity=0.255 Sum_probs=24.0
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhh
Q 024447 3 MGLMLHANAKSLIKRHMYKDALEVLTMGE 31 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad 31 (267)
++..++.-|.....+++|++|+.++.+|=
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 46788899999999999999999988763
No 68
>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=79.30 E-value=1.5 Score=29.10 Aligned_cols=25 Identities=40% Similarity=0.500 Sum_probs=21.1
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 228 FEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 228 F~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
|++.....||+.++||+.+|+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lg 29 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLG 29 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHC
Confidence 5678889999999999999999764
No 69
>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=79.09 E-value=15 Score=25.44 Aligned_cols=62 Identities=18% Similarity=0.108 Sum_probs=41.7
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (267)
Q Consensus 4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a 78 (267)
+-.++..|..+++.++|++|+..+-.|=+. --|.+..-.=+.=||+.+++ ...+|..-+.+|
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 446789999999999999999998776432 23344455556667887763 344555444444
No 70
>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=78.36 E-value=2 Score=32.98 Aligned_cols=34 Identities=29% Similarity=0.408 Sum_probs=27.8
Q ss_pred HHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hccC
Q 024447 220 IKELVSIGFEKELVAEALRRNENDSQKALD-DLTN 253 (267)
Q Consensus 220 v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~ 253 (267)
|+.+.+.||+...+..||..|.||+..|.. ++..
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 345778999999999999999999999999 4443
No 71
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=77.00 E-value=45 Score=30.78 Aligned_cols=26 Identities=15% Similarity=0.166 Sum_probs=17.5
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~ 32 (267)
+...|..+++.|+|+.|+.++..+-+
T Consensus 110 ~~~La~~~~~~g~~~~A~~~~~~~l~ 135 (389)
T PRK11788 110 LQELGQDYLKAGLLDRAEELFLQLVD 135 (389)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHc
Confidence 34457777777777777777766644
No 72
>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=76.78 E-value=3.8 Score=24.50 Aligned_cols=26 Identities=12% Similarity=0.091 Sum_probs=21.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGE 31 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad 31 (267)
.++..|..+++.++|++|+..+..|=
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 56789999999999999999987763
No 73
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=74.88 E-value=12 Score=25.78 Aligned_cols=56 Identities=16% Similarity=0.121 Sum_probs=40.8
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (267)
Q Consensus 9 ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a 78 (267)
.+|+.+++.|+|++|+.++-.+=+.+ -+.+-...-..|||+..++ .++|..-+.++
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 2345556778899997764 45555555444
No 74
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=74.87 E-value=11 Score=35.45 Aligned_cols=24 Identities=25% Similarity=0.313 Sum_probs=21.8
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHHh
Q 024447 227 GFEKELVAEALRRNENDSQKALDD 250 (267)
Q Consensus 227 GF~~~~A~~ALr~t~ndve~Aldl 250 (267)
|++...|++.|..++|++.+|++.
T Consensus 274 ~~~~~~a~~~l~~~~g~~~~~~~~ 297 (299)
T PRK05441 274 GLDAAEAKALLARHGGFLRKALAE 297 (299)
T ss_pred CCCHHHHHHHHHHcCCCHHHHHhh
Confidence 689999999999999999999874
No 75
>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=74.84 E-value=4.5 Score=24.47 Aligned_cols=26 Identities=15% Similarity=0.114 Sum_probs=22.0
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhh
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
-++..+|...+..++|++|+..+-.|
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 45778999999999999999998776
No 76
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=74.61 E-value=34 Score=27.69 Aligned_cols=96 Identities=22% Similarity=0.228 Sum_probs=63.7
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
+.....|+.++..++|++|...|-.+=+. ....-+ .++..|-+++||+..++ .++|...|..
T Consensus 49 ~A~l~lA~~~~~~g~~~~A~~~l~~~~~~---~~d~~l-----~~~a~l~LA~~~~~~~~---~d~Al~~L~~------- 110 (145)
T PF09976_consen 49 LAALQLAKAAYEQGDYDEAKAALEKALAN---APDPEL-----KPLARLRLARILLQQGQ---YDEALATLQQ------- 110 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCHHH-----HHHHHHHHHHHHHHcCC---HHHHHHHHHh-------
Confidence 45567899999999999999998765431 111111 25667788999987765 4567766643
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhh
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSA 134 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a 134 (267)
+.+....-. ...++|-|.+-.|+.++|+....+|
T Consensus 111 -----------~~~~~~~~~-----~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 111 -----------IPDEAFKAL-----AAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred -----------ccCcchHHH-----HHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 111111111 2345699999999999999877643
No 77
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=73.94 E-value=3.4 Score=30.08 Aligned_cols=21 Identities=24% Similarity=0.495 Sum_probs=18.1
Q ss_pred hhHHhCCCCHHHHHHHHHHhC
Q 024447 149 SLVMSMGFKEQDAKRALRICS 169 (267)
Q Consensus 149 ~~L~~MGF~~~~Ar~ALr~~~ 169 (267)
..|++|||++..|+.-+|.+.
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK 27 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAK 27 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHH
Confidence 358999999999999988754
No 78
>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=73.62 E-value=9.3 Score=35.80 Aligned_cols=24 Identities=21% Similarity=0.135 Sum_probs=21.9
Q ss_pred CCCCHHHHHHHHHHcCCCHHHHHH
Q 024447 226 IGFEKELVAEALRRNENDSQKALD 249 (267)
Q Consensus 226 MGF~~~~A~~ALr~t~ndve~Ald 249 (267)
-|++...|++.|.+++|++-+|+|
T Consensus 268 ~~~~~~~a~~~l~~~~g~~~~~l~ 291 (291)
T TIGR00274 268 STLSASEAKVLLDRHGGFLRQALD 291 (291)
T ss_pred hCCCHHHHHHHHHHcCCcHHHhhC
Confidence 379999999999999999999985
No 79
>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=73.56 E-value=9.6 Score=27.22 Aligned_cols=68 Identities=21% Similarity=0.119 Sum_probs=46.9
Q ss_pred hhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhh
Q 024447 51 LQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNA 130 (267)
Q Consensus 51 l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~ 130 (267)
..-.|..||+.++ ...+|..-+++|-+. .+.+|.+...+.... .-=|.+.+..|+.++|.++
T Consensus 7 ~~~~la~~~~~~~---~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~--------------~~lg~~~~~~g~~~~A~~~ 68 (78)
T PF13424_consen 7 AYNNLARVYRELG---RYDEALDYYEKALDI-EEQLGDDHPDTANTL--------------NNLGECYYRLGDYEEALEY 68 (78)
T ss_dssp HHHHHHHHHHHTT----HHHHHHHHHHHHHH-HHHTTTHHHHHHHHH--------------HHHHHHHHHTTHHHHHHHH
T ss_pred HHHHHHHHHHHcC---CHHHHHHHHHHHHHH-HHHHCCCCHHHHHHH--------------HHHHHHHHHcCCHHHHHHH
Confidence 3455677777554 577888888888888 778877554432222 1227778899999999999
Q ss_pred hHhhHh
Q 024447 131 LTSAQA 136 (267)
Q Consensus 131 l~~a~~ 136 (267)
+.++-+
T Consensus 69 ~~~al~ 74 (78)
T PF13424_consen 69 YQKALD 74 (78)
T ss_dssp HHHHHH
T ss_pred HHHHHh
Confidence 886643
No 80
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=72.59 E-value=17 Score=31.59 Aligned_cols=66 Identities=14% Similarity=0.176 Sum_probs=46.6
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
.++++|...+.+|+|.+|...|-.....|.. |.+... -++.|+++|+..++ .++|..-++ .|.+.
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 4789999999999999999999998888765 333332 47899999999976 455544333 34556
Q ss_pred h
Q 024447 86 H 86 (267)
Q Consensus 86 y 86 (267)
|
T Consensus 72 y 72 (203)
T PF13525_consen 72 Y 72 (203)
T ss_dssp -
T ss_pred C
Confidence 6
No 81
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=72.41 E-value=31 Score=28.25 Aligned_cols=93 Identities=15% Similarity=-0.024 Sum_probs=59.2
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 024447 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG 87 (267)
Q Consensus 8 ~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG 87 (267)
+..|.++.++|+|++|+..+..| ...+|.-.+..=| +..+-.+..+...|...|.++.-
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 45699999999999999887775 2333333222222 23333455677778888888874
Q ss_pred CCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 88 ~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
.++ ..-.+++-+ |++.+..|+.++|...+..+-.
T Consensus 87 l~p----------~~~~a~~~l-----g~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 87 LDA----------SHPEPVYQT-----GVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred cCC----------CCcHHHHHH-----HHHHHHcCCHHHHHHHHHHHHH
Confidence 332 223333333 7777788999999888875533
No 82
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=72.23 E-value=50 Score=27.26 Aligned_cols=19 Identities=21% Similarity=0.193 Sum_probs=11.5
Q ss_pred hhccCCchhHhhhhHhhHh
Q 024447 118 AYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 118 ~~h~g~~d~A~~~l~~a~~ 136 (267)
..-.|+.+.|...+..+..
T Consensus 123 ~~~~g~~~~A~~~~~~a~~ 141 (168)
T CHL00033 123 AIEQGDSEIAEAWFDQAAE 141 (168)
T ss_pred HHHcccHHHHHHHHHHHHH
Confidence 3466777777666655433
No 83
>PRK04841 transcriptional regulator MalT; Provisional
Probab=71.73 E-value=91 Score=32.71 Aligned_cols=112 Identities=13% Similarity=0.041 Sum_probs=70.4
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
+.++--|......++|++|+..+-.|-+.+...++.... +.....+.+.|+.. ..++.|...+.++.....+
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 344556667778888888888888888777766543322 12223445555554 5578888888888877666
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~ 138 (267)
..+... +-.+ .++...+.+.+..|+.++|...+..+-...
T Consensus 564 ~~~~~~-----------~~~~---~~~~~la~~~~~~G~~~~A~~~~~~al~~~ 603 (903)
T PRK04841 564 QHLEQL-----------PMHE---FLLRIRAQLLWEWARLDEAEQCARKGLEVL 603 (903)
T ss_pred hccccc-----------cHHH---HHHHHHHHHHHHhcCHHHHHHHHHHhHHhh
Confidence 443211 0001 112334778889999999998887665443
No 84
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=70.42 E-value=6.9 Score=34.43 Aligned_cols=24 Identities=29% Similarity=0.718 Sum_probs=22.2
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|++|++..
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhc
Confidence 578999999999999999999876
No 85
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.48 E-value=8.4 Score=39.20 Aligned_cols=116 Identities=16% Similarity=0.218 Sum_probs=76.5
Q ss_pred HhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Q 024447 16 KRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRL 95 (267)
Q Consensus 16 ~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~ 95 (267)
-.|.|.-..-+.-.|+-+|..|- ++++..|=-|.+|+...=.|+..++.+.+..+-+++.--- .+-...+|+
T Consensus 372 LlGlys~sv~~~enAe~hf~~a~-k~t~~~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~n-----t~s~ssq~l-- 443 (629)
T KOG2300|consen 372 LLGLYSHSVNCYENAEFHFIEAT-KLTESIDLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLN-----TNSLSSQRL-- 443 (629)
T ss_pred HHhhHhhhcchHHHHHHHHHHHH-HhhhHHHHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCC-----CCcchHHHH--
Confidence 35677777777788899998885 5789999999999999999999877766665554442110 111112222
Q ss_pred HHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCC
Q 024447 96 LQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMG 155 (267)
Q Consensus 96 lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MG 155 (267)
++ .. ..++|..+|++|+..+|+..+.+.= +.. |.+.+.+|+..|
T Consensus 444 -~a-----~~-----~~v~glfaf~qn~lnEaK~~l~e~L----kma-naed~~rL~a~~ 487 (629)
T KOG2300|consen 444 -EA-----SI-----LYVYGLFAFKQNDLNEAKRFLRETL----KMA-NAEDLNRLTACS 487 (629)
T ss_pred -HH-----HH-----HHHHHHHHHHhccHHHHHHHHHHHH----hhc-chhhHHHHHHHH
Confidence 11 12 3455999999999999998775321 111 455566666654
No 86
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=68.18 E-value=99 Score=34.12 Aligned_cols=91 Identities=15% Similarity=0.048 Sum_probs=55.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (267)
+...|..++.+++|++|+..+-.|=+.+.. .+-+.+.+..+|+.+++ ...|...|++..
T Consensus 464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-----------~~~~~~~LA~~~~~~G~----------~~~A~~~l~~al 522 (1157)
T PRK11447 464 LAQQAEALENQGKWAQAAELQRQRLALDPG-----------SVWLTYRLAQDLRQAGQ----------RSQADALMRRLA 522 (1157)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-----------CHHHHHHHHHHHHHcCC----------HHHHHHHHHHHH
Confidence 445788889999999999999877654422 23356788889988876 344444444433
Q ss_pred CCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHh
Q 024447 87 GKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTS 133 (267)
Q Consensus 87 G~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~ 133 (267)
-.++ ..++. .+.+ ++.....|+.++|..++..
T Consensus 523 ~~~P---------~~~~~-~~a~-----al~l~~~~~~~~Al~~l~~ 554 (1157)
T PRK11447 523 QQKP---------NDPEQ-VYAY-----GLYLSGSDRDRAALAHLNT 554 (1157)
T ss_pred HcCC---------CCHHH-HHHH-----HHHHHhCCCHHHHHHHHHh
Confidence 1111 11111 1111 3444567788888777664
No 87
>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=67.17 E-value=7.7 Score=34.18 Aligned_cols=75 Identities=19% Similarity=0.212 Sum_probs=43.1
Q ss_pred HHHHHHHhCCCHHHHHHHHcC--CcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCC
Q 024447 79 REGIERAHGKDSSRVRLLQAG--RHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGF 156 (267)
Q Consensus 79 e~~f~r~yG~~~~rl~~lkg~--~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF 156 (267)
++...-.--.|..+|..++|. ...|+-+ ++|-..+.... . +.. . ......-++.++.|.++||
T Consensus 95 ~el~~aI~~~d~~~L~~ipGiGkKtAerIi---leLk~k~~~~~----~-----~~~-~--~~~~~~~~e~~~aL~~LGy 159 (191)
T TIGR00084 95 EEFVYAIETEEVKALVKIPGVGKKTAERLL---LELKGKLKGNK----N-----LEM-F--TPTEAARDELFEALVSLGY 159 (191)
T ss_pred HHHHHHHHhCCHHHHHhCCCCCHHHHHHHH---HHHHhhhcccc----c-----ccc-c--ccccchHHHHHHHHHHcCC
Confidence 344444444688888888863 3333333 55544442110 0 000 0 0001123578899999999
Q ss_pred CHHHHHHHHHHh
Q 024447 157 KEQDAKRALRIC 168 (267)
Q Consensus 157 ~~~~Ar~ALr~~ 168 (267)
++.+|++|+...
T Consensus 160 ~~~e~~~ai~~~ 171 (191)
T TIGR00084 160 KPQEIQQALKKI 171 (191)
T ss_pred CHHHHHHHHHHH
Confidence 999999999875
No 88
>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=67.11 E-value=17 Score=24.96 Aligned_cols=51 Identities=24% Similarity=0.386 Sum_probs=36.2
Q ss_pred HHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447 14 LIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (267)
Q Consensus 14 ~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a 78 (267)
+|+.|+|++|+.++-.+=+.+. +.+-..+.++.||+..++ .++|...|.+.
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 5889999999999977655543 344556689999999865 45566555544
No 89
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=66.67 E-value=13 Score=33.01 Aligned_cols=24 Identities=13% Similarity=0.470 Sum_probs=22.0
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|.+|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999875
No 90
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=66.50 E-value=21 Score=32.29 Aligned_cols=79 Identities=18% Similarity=0.274 Sum_probs=52.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
.++++|..++++|+|++|...+-.....+. +|..... -++++.++|+.+++ .+.|....++ |-+.
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 367999999999999999999877766554 2232222 26899999999988 3344433322 3344
Q ss_pred hCCCHHHHHHHHcCCcchhhHHHH
Q 024447 86 HGKDSSRVRLLQAGRHPELALHLR 109 (267)
Q Consensus 86 yG~~~~rl~~lkg~~~~E~al~lR 109 (267)
|. ++...+-++|++
T Consensus 99 ~P----------~~~~~~~a~Y~~ 112 (243)
T PRK10866 99 NP----------THPNIDYVLYMR 112 (243)
T ss_pred Cc----------CCCchHHHHHHH
Confidence 42 233446677777
No 91
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=66.26 E-value=14 Score=32.96 Aligned_cols=24 Identities=21% Similarity=0.499 Sum_probs=22.0
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|++|+...
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578899999999999999999876
No 92
>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=66.01 E-value=24 Score=24.89 Aligned_cols=43 Identities=26% Similarity=0.342 Sum_probs=32.3
Q ss_pred CCChhhHhh--HHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447 142 QVPDESLSL--VMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (267)
Q Consensus 142 ~vd~~~l~~--L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~ 184 (267)
.|+++.|++ -+=-|=|++-..+-|+.||=||..|++-|+++.+
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 456666663 4456999999999999999999999999988754
No 93
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=65.71 E-value=15 Score=30.93 Aligned_cols=38 Identities=24% Similarity=0.227 Sum_probs=34.2
Q ss_pred cCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 214 AVDIEKIKELVSIGFEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 214 ~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
.++.+.|.-+.+-|.+++.|++||..++ |+-+|+.+|-
T Consensus 112 ~~~~e~v~v~a~a~v~~eeAr~aleeag-Dl~~A~k~l~ 149 (153)
T COG4008 112 EPPVEEVEVLADAFVTPEEAREALEEAG-DLRTAMKILR 149 (153)
T ss_pred CCcHHHHHHHHHhcCCHHHHHHHHHHcC-CHHHHHHHHH
Confidence 4677899999999999999999999988 9999998763
No 94
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=65.63 E-value=53 Score=32.47 Aligned_cols=106 Identities=19% Similarity=0.221 Sum_probs=75.0
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh------hhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP------KVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~------~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a 78 (267)
=-.+|+|-.+.|++.|..|..-.=.|=..+.-|++ +....+=|-. .|++.-||++|+.-+ .-+..|
T Consensus 209 ~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~--~lNlA~c~lKl~~~~------~Ai~~c 280 (397)
T KOG0543|consen 209 DRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLAC--HLNLAACYLKLKEYK------EAIESC 280 (397)
T ss_pred HHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHH--hhHHHHHHHhhhhHH------HHHHHH
Confidence 34688999999999999998876666555555554 4455555544 456778999998765 233333
Q ss_pred HHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447 79 REGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (267)
Q Consensus 79 e~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~ 137 (267)
.+ +|.=...+.++||=| |=..--.|+.+.|+..|.++...
T Consensus 281 ~k--------------vLe~~~~N~KALyRr-----G~A~l~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 281 NK--------------VLELDPNNVKALYRR-----GQALLALGEYDLARDDFQKALKL 320 (397)
T ss_pred HH--------------HHhcCCCchhHHHHH-----HHHHHhhccHHHHHHHHHHHHHh
Confidence 32 344567788999998 76666789999999998877664
No 95
>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=65.55 E-value=17 Score=26.62 Aligned_cols=34 Identities=26% Similarity=0.374 Sum_probs=27.4
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-hcc
Q 024447 218 EKIKELVSIGFEKELVAEALRRNENDSQKALD-DLT 252 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-lL~ 252 (267)
++|...+.- +++...-..|+.++.|.+.|++ +|+
T Consensus 10 Q~iKEiv~~-hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 10 QSIKEIVGC-HSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 345555554 7999999999999999999999 554
No 96
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=65.50 E-value=7.9 Score=37.13 Aligned_cols=40 Identities=23% Similarity=0.297 Sum_probs=33.7
Q ss_pred hhhHhhHHh-CCCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447 145 DESLSLVMS-MGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (267)
Q Consensus 145 ~~~l~~L~~-MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~ 184 (267)
.+.|.+|-+ =|++...||.||..||||+..|-.||.+.-.
T Consensus 47 ~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~aq 87 (340)
T KOG1071|consen 47 KALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKAQ 87 (340)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence 466666664 4999999999999999999999999976643
No 97
>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=65.36 E-value=37 Score=22.50 Aligned_cols=48 Identities=19% Similarity=0.088 Sum_probs=33.6
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCC
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRD 64 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~ 64 (267)
.+...|...+..++|++|..++..+-....... -....++.||+..++
T Consensus 36 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~ 83 (100)
T cd00189 36 AYYNLAAAYYKLGKYEEALEDYEKALELDPDNA-----------KAYYNLGLAYYKLGK 83 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch-----------hHHHHHHHHHHHHHh
Confidence 456678888999999999999888766543332 334566677776655
No 98
>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=65.20 E-value=9.5 Score=22.85 Aligned_cols=26 Identities=19% Similarity=0.088 Sum_probs=22.6
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGE 31 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad 31 (267)
+++..|+...+.++|++|+..+-.|=
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 46789999999999999999887664
No 99
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=64.98 E-value=1.2e+02 Score=28.04 Aligned_cols=26 Identities=15% Similarity=0.164 Sum_probs=17.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~ 32 (267)
+...|..+.+.++|++|+.++..+-+
T Consensus 144 ~~~la~~~~~~g~~~~A~~~~~~~~~ 169 (389)
T PRK11788 144 LQQLLEIYQQEKDWQKAIDVAERLEK 169 (389)
T ss_pred HHHHHHHHHHhchHHHHHHHHHHHHH
Confidence 44556677777777777777766544
No 100
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=64.97 E-value=14 Score=32.61 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=22.0
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|++|+...
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999876
No 101
>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=64.30 E-value=9.4 Score=26.87 Aligned_cols=40 Identities=23% Similarity=0.296 Sum_probs=29.6
Q ss_pred CCHHHHHHH--HhCCCCHHHHHHHHHHcCCCHHHHHH-hccCC
Q 024447 215 VDIEKIKEL--VSIGFEKELVAEALRRNENDSQKALD-DLTNP 254 (267)
Q Consensus 215 vd~e~v~~L--~~MGF~~~~A~~ALr~t~ndve~Ald-lL~~p 254 (267)
|+.+.|.+- +=-|=+++...+-|++|+=||+.|+. +|+..
T Consensus 8 vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRD 50 (53)
T PF11547_consen 8 VPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRD 50 (53)
T ss_dssp S-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhccc
Confidence 455666554 44599999999999999999999999 77743
No 102
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=64.29 E-value=14 Score=32.51 Aligned_cols=25 Identities=24% Similarity=0.525 Sum_probs=22.4
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICS 169 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~ 169 (267)
++.+..|+++||++.+|++|+..-.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5789999999999999999998753
No 103
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=64.09 E-value=16 Score=32.38 Aligned_cols=24 Identities=21% Similarity=0.409 Sum_probs=21.9
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|++|+...
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999765
No 104
>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=63.88 E-value=1.3e+02 Score=28.93 Aligned_cols=97 Identities=14% Similarity=0.085 Sum_probs=55.3
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhC
Q 024447 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHG 87 (267)
Q Consensus 8 ~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG 87 (267)
...|+.+++.|+|++|+.++-.+=+.+-.-.... +..+--|..+.. +++...+..+|+.. +.+.
T Consensus 267 ~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~-----------~~~l~~~~~l~~----~~~~~~~~~~e~~l-k~~p 330 (409)
T TIGR00540 267 IALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAIS-----------LPLCLPIPRLKP----EDNEKLEKLIEKQA-KNVD 330 (409)
T ss_pred HHHHHHHHHCCChHHHHHHHHHHHhhCCCcccch-----------hHHHHHhhhcCC----CChHHHHHHHHHHH-HhCC
Confidence 3467899999999999999999988766432221 111111222221 22332333333322 2221
Q ss_pred CCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 88 KDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 88 ~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
.|+ + ..+.+--|||.|.+|+.++|.++|+++.+
T Consensus 331 ~~~------------~----~~ll~sLg~l~~~~~~~~~A~~~le~a~a 363 (409)
T TIGR00540 331 DKP------------K----CCINRALGQLLMKHGEFIEAADAFKNVAA 363 (409)
T ss_pred CCh------------h----HHHHHHHHHHHHHcccHHHHHHHHHHhHH
Confidence 221 1 11223349999999999999999995443
No 105
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=63.39 E-value=15 Score=22.55 Aligned_cols=35 Identities=29% Similarity=0.149 Sum_probs=21.8
Q ss_pred hhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCH
Q 024447 53 IDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDS 90 (267)
Q Consensus 53 ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~ 90 (267)
-.+.++|... ....+|..-+.+|-...++.+|.++
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 3567778776 5689999999999999999999886
No 106
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.17 E-value=1.5e+02 Score=28.86 Aligned_cols=155 Identities=23% Similarity=0.292 Sum_probs=102.6
Q ss_pred HHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCH------------HHHHHHHHHHHH
Q 024447 13 SLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWL------------SEAGIRLRKARE 80 (267)
Q Consensus 13 ~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l------------~dA~~rL~~ae~ 80 (267)
.+||-+.|.+|..+|.- |-.-+++ |-|=|-+ ..+||+.+++...- ..++-||=.|+.
T Consensus 19 ~lI~d~ry~DaI~~l~s----~~Er~p~------~rAgLSl-LgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQS 87 (459)
T KOG4340|consen 19 RLIRDARYADAIQLLGS----ELERSPR------SRAGLSL-LGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQS 87 (459)
T ss_pred HHHHHhhHHHHHHHHHH----HHhcCcc------chHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHH
Confidence 57888999999988752 3333332 3343333 57899887765433 246778888999
Q ss_pred HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh-hhccCCCCh-----------hhH
Q 024447 81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA-KFFQLQVPD-----------ESL 148 (267)
Q Consensus 81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~-~~~~l~vd~-----------~~l 148 (267)
.|+-+-=.|.-||..+.|.. ..|.=|---||..|.|.+||..-++.+++.... .-....+|. ++|
T Consensus 88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAv 164 (459)
T KOG4340|consen 88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAV 164 (459)
T ss_pred HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHH
Confidence 99988778888888888765 334444456899999999999999988775442 222233332 333
Q ss_pred h----hHHhCCCCHHHHH-HHHHHh-CCCHHHHHHHHHh
Q 024447 149 S----LVMSMGFKEQDAK-RALRIC-SQDVGSAIDFLVE 181 (267)
Q Consensus 149 ~----~L~~MGF~~~~Ar-~ALr~~-~gdve~A~~wL~~ 181 (267)
+ .|---||.+--|- .||-+. .++.+.|+++|-+
T Consensus 165 qkFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSE 203 (459)
T KOG4340|consen 165 QKFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISE 203 (459)
T ss_pred HHHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHH
Confidence 3 2334578776663 466544 5688888888744
No 107
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=62.66 E-value=22 Score=33.30 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=21.1
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHH
Q 024447 227 GFEKELVAEALRRNENDSQKALD 249 (267)
Q Consensus 227 GF~~~~A~~ALr~t~ndve~Ald 249 (267)
|++...|...|.+++|++.+|++
T Consensus 270 ~~~~~~a~~~l~~~~~~~~~~l~ 292 (296)
T PRK12570 270 GMDVEQARAALSHADGFLRKAIE 292 (296)
T ss_pred CCCHHHHHHHHHHcCChHHHHHH
Confidence 68899999999999999999986
No 108
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=62.21 E-value=57 Score=30.03 Aligned_cols=103 Identities=13% Similarity=0.022 Sum_probs=60.0
Q ss_pred hhHhHHHH-HHhhchHHHHHHHHhhhhhhccCChhhhhhccch-hhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 7 LHANAKSL-IKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNG-PLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 7 l~ek~r~~-~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~-a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
.++.|..+ +++++|++|...|-..=+.|-.. .| +-...-+..+|+..++. .+|...+.+.-.
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 66789998888764444333321 11 23457888999987754 344443322221
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhcc
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQ 140 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~ 140 (267)
.|- ++.-...+++.- |.+.+..|+.+.|...+...-..++.
T Consensus 209 ~yP----------~s~~~~dAl~kl-----g~~~~~~g~~~~A~~~~~~vi~~yP~ 249 (263)
T PRK10803 209 NYP----------KSPKAADAMFKV-----GVIMQDKGDTAKAKAVYQQVIKKYPG 249 (263)
T ss_pred HCC----------CCcchhHHHHHH-----HHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 121 222233334222 66777889999999988766555443
No 109
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=61.85 E-value=7.5 Score=34.80 Aligned_cols=23 Identities=26% Similarity=0.658 Sum_probs=20.2
Q ss_pred hhHhhHHhCCCCHHHHHHHHHHh
Q 024447 146 ESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 146 ~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
+.+..|+.+||++.++++|+...
T Consensus 158 ~~v~AL~~LGy~~~e~~~av~~v 180 (201)
T COG0632 158 EAVEALVALGYKEKEIKKAVKKV 180 (201)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHH
Confidence 44899999999999999998764
No 110
>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=61.66 E-value=64 Score=29.91 Aligned_cols=85 Identities=22% Similarity=0.353 Sum_probs=39.2
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhCC----C---HHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCH
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICSQ----D---VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDI 217 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~g----d---ve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~ 217 (267)
...|.-|.++||+.++....+..+-. + +.+.+.|+.+.--.... ..-.+-+.-. +.+...+ .
T Consensus 176 ~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~--------~~i~~~p~il--~~~~~~l-~ 244 (345)
T PF02536_consen 176 KPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE--------RVIKKFPQIL--SLSEEKL-K 244 (345)
T ss_dssp HHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC-------------------------------------THHHHHH-H
T ss_pred HHHHHHHHhhcccchhhhHHhhcccceeccccccccccccccccccccccc--------cccccccccc--ccchHhH-H
Confidence 47788888999999888888877543 2 22233333322111000 0000000000 0000011 2
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHc
Q 024447 218 EKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
..++-|.++||+++++...++..
T Consensus 245 ~~i~~L~~lG~s~~ei~~mv~~~ 267 (345)
T PF02536_consen 245 PKIEFLQSLGFSEEEIAKMVRRF 267 (345)
T ss_dssp HHHHHHHTTT--HHHHHHHHHHS
T ss_pred HHHHHHHHhcCcHHHHHHHHHhC
Confidence 56889999999999999998876
No 111
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=60.41 E-value=17 Score=31.95 Aligned_cols=25 Identities=24% Similarity=0.513 Sum_probs=22.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNE 241 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~ 241 (267)
.+.+..|+++||++..|.+|++.-.
T Consensus 143 ~ea~~AL~~LGy~~~ea~~a~~~~~ 167 (183)
T PRK14601 143 SEALAALLTLGFKQEKIIKVLASCQ 167 (183)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhcc
Confidence 5789999999999999999998763
No 112
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=59.62 E-value=21 Score=31.53 Aligned_cols=25 Identities=16% Similarity=0.428 Sum_probs=22.6
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhC
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICS 169 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~ 169 (267)
++.+..|+++||+..+|.+|+....
T Consensus 149 ~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 149 SDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5788999999999999999998874
No 113
>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=58.05 E-value=13 Score=36.00 Aligned_cols=33 Identities=27% Similarity=0.406 Sum_probs=29.0
Q ss_pred HHHHHHhCC--CCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 219 KIKELVSIG--FEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 219 ~v~~L~~MG--F~~~~A~~ALr~t~ndve~AldlL 251 (267)
.|+++|+=| |+++.|+.|||++.||+..|+=+|
T Consensus 44 avdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLL 78 (358)
T PF05861_consen 44 AVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLL 78 (358)
T ss_pred HHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHH
Confidence 477788877 999999999999999999998654
No 114
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=57.39 E-value=18 Score=32.10 Aligned_cols=24 Identities=25% Similarity=0.281 Sum_probs=22.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
.+.+..|+.+||++..|.+|++.-
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 478999999999999999999876
No 115
>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=56.78 E-value=1.3e+02 Score=25.85 Aligned_cols=147 Identities=12% Similarity=-0.044 Sum_probs=74.4
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHh-----CCCCCHHHHHHHHHHHHHH
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFML-----RDISWLSEAGIRLRKAREG 81 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l-----~~~~~l~dA~~rL~~ae~~ 81 (267)
+...|...++.++|++|+..+-.+=+.+.. ++.. .+++.. +.|||+.. ++......|.+.++++-.
T Consensus 73 ~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~-----~~a~~~--~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~- 143 (235)
T TIGR03302 73 QLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDA-----DYAYYL--RGLSNYNQIDRVDRDQTAAREAFEAFQELIR- 143 (235)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCch-----HHHHHH--HHHHHHHhcccccCCHHHHHHHHHHHHHHHH-
Confidence 456788999999999999999887766652 1111 234444 46677765 122233444444443322
Q ss_pred HHHHhCCCHHHHHHHH--cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHH
Q 024447 82 IERAHGKDSSRVRLLQ--AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQ 159 (267)
Q Consensus 82 f~r~yG~~~~rl~~lk--g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~ 159 (267)
.|..+.....++. +... ....+-++-.+-+.+.+|+..+|...+..+-...+.- +.....+..+|
T Consensus 144 ---~~p~~~~~~~a~~~~~~~~---~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~a~~~l~---- 210 (235)
T TIGR03302 144 ---RYPNSEYAPDAKKRMDYLR---NRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDT---PATEEALARLV---- 210 (235)
T ss_pred ---HCCCChhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCC---cchHHHHHHHH----
Confidence 1211111111110 0000 0001112233556778899999998888766554431 11111122222
Q ss_pred HHHHHHHHhCCCHHHHHHHH
Q 024447 160 DAKRALRICSQDVGSAIDFL 179 (267)
Q Consensus 160 ~Ar~ALr~~~gdve~A~~wL 179 (267)
.+. ..-|+.+.|+.++
T Consensus 211 ---~~~-~~lg~~~~A~~~~ 226 (235)
T TIGR03302 211 ---EAY-LKLGLKDLAQDAA 226 (235)
T ss_pred ---HHH-HHcCCHHHHHHHH
Confidence 222 2367788888865
No 116
>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=56.66 E-value=51 Score=32.81 Aligned_cols=57 Identities=16% Similarity=0.273 Sum_probs=42.3
Q ss_pred hhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCC
Q 024447 4 GLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISW 67 (267)
Q Consensus 4 ~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~ 67 (267)
++.+..+||-...+++.++|+..+-.|.+ +.++. .-+. .+..-|+.|||+.+.|-..
T Consensus 267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~----~q~~~-~Ql~--~l~~~El~w~~~~~~~w~~ 323 (468)
T PF10300_consen 267 ALFLFFEGRLERLKGNLEEAIESFERAIE----SQSEW-KQLH--HLCYFELAWCHMFQHDWEE 323 (468)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHhcc----chhhH-HhHH--HHHHHHHHHHHHHHchHHH
Confidence 46688999999999999999999997772 12222 1222 3667899999999887543
No 117
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.37 E-value=20 Score=31.85 Aligned_cols=24 Identities=17% Similarity=0.357 Sum_probs=22.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
.+.+..|+.+||++..|.+|++..
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999875
No 118
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=55.79 E-value=6.7 Score=29.62 Aligned_cols=27 Identities=33% Similarity=0.400 Sum_probs=23.1
Q ss_pred CHHHHHHHHHHhCCCHHHHHHHHHhhh
Q 024447 157 KEQDAKRALRICSQDVGSAIDFLVEEK 183 (267)
Q Consensus 157 ~~~~Ar~ALr~~~gdve~A~~wL~~~~ 183 (267)
|..+-+.||.++.-||++|++||++..
T Consensus 45 ~e~~i~eal~~~~fDvekAl~~Ll~~~ 71 (79)
T PF08938_consen 45 PEEQIKEALWHYYFDVEKALDYLLSKF 71 (79)
T ss_dssp -CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHHcCCHHHHHHHHHHhc
Confidence 889999999999999999999998864
No 119
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=55.60 E-value=12 Score=27.21 Aligned_cols=22 Identities=23% Similarity=0.620 Sum_probs=19.0
Q ss_pred HHHHhCCCCHHHHHHHHHHcCC
Q 024447 221 KELVSIGFEKELVAEALRRNEN 242 (267)
Q Consensus 221 ~~L~~MGF~~~~A~~ALr~t~n 242 (267)
+-|++|||++.+|+.=+|++.-
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~ 28 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKA 28 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHH
Confidence 5689999999999999987754
No 120
>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=55.25 E-value=7.2 Score=28.75 Aligned_cols=38 Identities=24% Similarity=0.418 Sum_probs=29.7
Q ss_pred hhhhhhccCChhhhhhccch-hhhhhhHHHHHHHhCCCC
Q 024447 29 MGEEAFSLCDPKVLEFVDNG-PLLQIDMVWCYFMLRDIS 66 (267)
Q Consensus 29 ~ad~~f~~c~~~~l~~vDn~-a~l~ldivwcy~~l~~~~ 66 (267)
.+|+-|..|...+-...+.+ +...+||||....|+...
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 888999999998887653
No 121
>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=55.20 E-value=32 Score=25.12 Aligned_cols=32 Identities=19% Similarity=0.366 Sum_probs=26.9
Q ss_pred hHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447 150 LVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 182 (267)
Q Consensus 150 ~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~ 182 (267)
..+.- +|+.+---.|+.||.|.+.|++-|++.
T Consensus 14 Eiv~~-hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 14 EIVGC-HSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHhcC-CCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 34443 799999999999999999999999875
No 122
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=55.18 E-value=20 Score=31.57 Aligned_cols=24 Identities=29% Similarity=0.533 Sum_probs=22.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
.+.+..|+++||++.+|.+|++..
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999877
No 123
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=54.43 E-value=13 Score=33.13 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=21.6
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRIC 168 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~ 168 (267)
++.++.|+++||++.+|++|++..
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v 168 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEI 168 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999764
No 124
>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=54.01 E-value=20 Score=23.99 Aligned_cols=22 Identities=27% Similarity=0.345 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHH
Q 024447 158 EQDAKRALRICSQDVGSAIDFL 179 (267)
Q Consensus 158 ~~~Ar~ALr~~~gdve~A~~wL 179 (267)
++.-...|+.|+|||-+|++.+
T Consensus 17 r~~Le~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 17 RSVLELILQRCNGDVVQAIEQF 38 (39)
T ss_pred hHHHHHHHHHcCCcHHHHHHHh
Confidence 3444567899999999999865
No 125
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=52.62 E-value=14 Score=26.92 Aligned_cols=22 Identities=27% Similarity=0.413 Sum_probs=15.6
Q ss_pred HhHHHHHHhhchHHHHHHHHhh
Q 024447 9 ANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 9 ek~r~~~~~~~y~~al~~ll~a 30 (267)
-.|+.+++-++|++|+.+|-.|
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 4578888888888888877654
No 126
>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=51.99 E-value=14 Score=36.03 Aligned_cols=25 Identities=32% Similarity=0.623 Sum_probs=19.5
Q ss_pred HHHHHHHhCCCCHHHHHHHH-HHcCC
Q 024447 218 EKIKELVSIGFEKELVAEAL-RRNEN 242 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~AL-r~t~n 242 (267)
+.|+.++.|||.++.++.-. |.+.|
T Consensus 323 dvidKv~~MGf~rDqV~a~v~rl~E~ 348 (358)
T PF07223_consen 323 DVIDKVASMGFRRDQVRATVRRLTEN 348 (358)
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHHhc
Confidence 88999999999999887643 44433
No 127
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=51.48 E-value=90 Score=29.80 Aligned_cols=47 Identities=19% Similarity=0.286 Sum_probs=32.1
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhC
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLR 63 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~ 63 (267)
.|-..|-.+|+.++|.+|+..--+| |+.+++=||+-=-=.=.|..|.
T Consensus 83 ~LK~eGN~~m~~~~Y~eAv~kY~~A-----------I~l~P~nAVyycNRAAAy~~Lg 129 (304)
T KOG0553|consen 83 SLKNEGNKLMKNKDYQEAVDKYTEA-----------IELDPTNAVYYCNRAAAYSKLG 129 (304)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHH-----------HhcCCCcchHHHHHHHHHHHhc
Confidence 3556899999999999999887766 6666677764333333344443
No 128
>PRK04841 transcriptional regulator MalT; Provisional
Probab=51.37 E-value=2e+02 Score=30.10 Aligned_cols=114 Identities=20% Similarity=0.101 Sum_probs=64.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCC--hhhhhhccchhhh--------------------------------
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCD--PKVLEFVDNGPLL-------------------------------- 51 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~--~~~l~~vDn~a~l-------------------------------- 51 (267)
.+...|+..+.+++|++|+..+-.+.+.+..-+ ...+...++....
T Consensus 614 ~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~ 693 (903)
T PRK04841 614 CLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQ 693 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHH
Confidence 344578888899999999999988877665422 1111111211100
Q ss_pred hhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhh
Q 024447 52 QIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNAL 131 (267)
Q Consensus 52 ~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l 131 (267)
.+.+..+|.... ..++|...|.+|.... +.+|... ...|.+++.+...+..|+.++|...+
T Consensus 694 ~~~~a~~~~~~g---~~~~A~~~l~~al~~~-~~~g~~~---------------~~a~~~~~la~a~~~~G~~~~A~~~L 754 (903)
T PRK04841 694 WRNIARAQILLG---QFDEAEIILEELNENA-RSLRLMS---------------DLNRNLILLNQLYWQQGRKSEAQRVL 754 (903)
T ss_pred HHHHHHHHHHcC---CHHHHHHHHHHHHHHH-HHhCchH---------------HHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 112222333332 2345555555554442 2222221 23456677899999999999999999
Q ss_pred HhhHhhh
Q 024447 132 TSAQAKF 138 (267)
Q Consensus 132 ~~a~~~~ 138 (267)
..|-+..
T Consensus 755 ~~Al~la 761 (903)
T PRK04841 755 LEALKLA 761 (903)
T ss_pred HHHHHHh
Confidence 8775543
No 129
>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=51.03 E-value=26 Score=30.90 Aligned_cols=24 Identities=29% Similarity=0.516 Sum_probs=21.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
.+.+..|+.+||++..|..|++..
T Consensus 148 ~e~~~aL~~LGy~~~e~~~ai~~~ 171 (191)
T TIGR00084 148 DELFEALVSLGYKPQEIQQALKKI 171 (191)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999876
No 130
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=49.88 E-value=30 Score=30.76 Aligned_cols=24 Identities=17% Similarity=0.365 Sum_probs=22.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHc
Q 024447 217 IEKIKELVSIGFEKELVAEALRRN 240 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t 240 (267)
.+.+..|+++||++..|.+|++..
T Consensus 156 ~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 156 RDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999876
No 131
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=49.65 E-value=25 Score=20.50 Aligned_cols=29 Identities=21% Similarity=0.188 Sum_probs=23.1
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAF 34 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f 34 (267)
+++..|+...+.|++++|...+-+.=+.|
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 35678999999999999999887654444
No 132
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=49.16 E-value=1.2e+02 Score=25.16 Aligned_cols=25 Identities=20% Similarity=0.413 Sum_probs=20.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHcCC
Q 024447 218 EKIKELVSIGFEKELVAEALRRNEN 242 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t~n 242 (267)
..+..|+.=||+-+.+..||...-.
T Consensus 131 Ki~~~L~rkGF~~~~I~~~l~~~~~ 155 (157)
T PRK00117 131 KLVRFLARRGFSMDVIQRVLRNALD 155 (157)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhhhc
Confidence 5578899999999999999976543
No 133
>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=48.92 E-value=28 Score=18.46 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=20.6
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
.+.-.|-.++..++|+.|...+..+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~ 27 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKA 27 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 3567888999999999999988655
No 134
>PLN02751 glutamyl-tRNA(Gln) amidotransferase
Probab=48.82 E-value=2.4e+02 Score=29.05 Aligned_cols=99 Identities=16% Similarity=0.155 Sum_probs=56.9
Q ss_pred hhHhhhccCCCChhhHhhHHhCCCCHHHHHHHH------------HHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHH
Q 024447 133 SAQAKFFQLQVPDESLSLVMSMGFKEQDAKRAL------------RICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEI 200 (267)
Q Consensus 133 ~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~AL------------r~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~ 200 (267)
..+..++++ +++....+.++|.++..|..=+ -..+.+...+.+||+..--..-
T Consensus 357 ~ir~~lPEl--P~~~~~Rl~~~gLs~~dA~~L~~~~~~a~ffe~~~~~~~~~k~~anwi~~el~~~l------------- 421 (544)
T PLN02751 357 SIRASMPEL--PEAKRRRYENMGLSMQDVLFLANDKNVAEFFDATLAKGADAKLAANWIMGDIAAYL------------- 421 (544)
T ss_pred HHHHhCCCC--HHHHHHHHHHcCCCHHHHHHHHcCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH-------------
Confidence 334444444 6677888888999998886421 1124577888888866531110
Q ss_pred HHHhhcCCCCCCCcCCHHHHHHHHhCC----CCHHHHHHHHHHc---CCCHHHHHH
Q 024447 201 MEQKRYGLTPLKKAVDIEKIKELVSIG----FEKELVAEALRRN---ENDSQKALD 249 (267)
Q Consensus 201 ~~~~~~~~~~~~~~vd~e~v~~L~~MG----F~~~~A~~ALr~t---~ndve~Ald 249 (267)
.+.+.+.....+.++.+..|+.+= .+...|+..|... +.+++..++
T Consensus 422 ---~~~~~~i~~~~l~p~~laeLi~li~~g~Is~~~AK~vl~~~~~~~~~p~~iie 474 (544)
T PLN02751 422 ---KNEKVSISEIKLTPKELAELIASIKDGTISGKIGKEILPELLAKGGTVKGLVE 474 (544)
T ss_pred ---HhCCCChhhcCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCCHHHHHH
Confidence 011222223346777777776663 3366777666633 556666665
No 135
>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=46.99 E-value=34 Score=27.96 Aligned_cols=46 Identities=28% Similarity=0.403 Sum_probs=30.6
Q ss_pred HHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHH
Q 024447 12 KSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLR 76 (267)
Q Consensus 12 r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~ 76 (267)
-++|.||+|.+||.++-. .|-|+| |-|--+|=--+...+.+..||.
T Consensus 47 sSLmNrG~Yq~Al~l~~~------~~~pdl-------------epw~ALce~rlGl~s~l~~rl~ 92 (115)
T TIGR02508 47 SSLMNRGDYQSALQLGNK------LCYPDL-------------EPWLALCEWRLGLGSALESRLN 92 (115)
T ss_pred HHHHccchHHHHHHhcCC------CCCchH-------------HHHHHHHHHhhccHHHHHHHHH
Confidence 478999999999987643 276665 3566666555555555555553
No 136
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=46.91 E-value=3.8e+02 Score=29.38 Aligned_cols=118 Identities=15% Similarity=0.177 Sum_probs=77.6
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhh--------------hhccCChhh-h--------hhccchhhhhhhHHHHHHHhCC
Q 024447 8 HANAKSLIKRHMYKDALEVLTMGEE--------------AFSLCDPKV-L--------EFVDNGPLLQIDMVWCYFMLRD 64 (267)
Q Consensus 8 ~ek~r~~~~~~~y~~al~~ll~ad~--------------~f~~c~~~~-l--------~~vDn~a~l~ldivwcy~~l~~ 64 (267)
|.-++.++..+.-++|..+.+-|++ -|..=+-.+ + +.+=++|.|+|=.+|-..--
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 4556667777777777777776654 333323333 3 35668999999999975433
Q ss_pred CCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC
Q 024447 65 ISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL 141 (267)
Q Consensus 65 ~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l 141 (267)
-++.+|+.-+.+++.-.+.. +.++...+..=..-|.++|+-+.|+++.|..+...+-..+++-
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 35677777777776655543 3333444444455667999999999999988877665555543
No 137
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=46.90 E-value=61 Score=30.67 Aligned_cols=31 Identities=19% Similarity=0.248 Sum_probs=24.5
Q ss_pred HHHHHh-CCCCHHHHHHHHHHcCCCHHHHHHh
Q 024447 220 IKELVS-IGFEKELVAEALRRNENDSQKALDD 250 (267)
Q Consensus 220 v~~L~~-MGF~~~~A~~ALr~t~ndve~Aldl 250 (267)
+..+|- -|.+.++|+..|.+++|.+-+|+..
T Consensus 264 ~AIvm~~~~~~a~~A~~~L~~~~g~lr~Al~~ 295 (298)
T COG2103 264 LAIVMLLTGLSAEEAKRLLERAGGFLRQALSE 295 (298)
T ss_pred hHHHHHHhCCCHHHHHHHHHHccChHHHHHhh
Confidence 333433 3789999999999999999999863
No 138
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=46.73 E-value=22 Score=31.33 Aligned_cols=25 Identities=24% Similarity=0.478 Sum_probs=22.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNE 241 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~ 241 (267)
.+.+..|+++||++..|..|++.-.
T Consensus 146 ~e~~~aL~~LGy~~~ea~~al~~v~ 170 (186)
T PRK14600 146 DDALAALISLGYEKTKAFNAIQKIK 170 (186)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 5789999999999999999998753
No 139
>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=46.64 E-value=1.9e+02 Score=24.84 Aligned_cols=107 Identities=19% Similarity=0.300 Sum_probs=75.0
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCCh--hhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447 3 MGLMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDP--KVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~--~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~ 80 (267)
+-+++.++|.=+.+.|++++|+..+..+=+. |.+ ..++. .|=++=..+-.+ ..+.+...+.+|+.
T Consensus 35 ir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~---~~~~~~~id~-------~l~~irv~i~~~---d~~~v~~~i~ka~~ 101 (177)
T PF10602_consen 35 IRMALEDLADHYCKIGDLEEALKAYSRARDY---CTSPGHKIDM-------CLNVIRVAIFFG---DWSHVEKYIEKAES 101 (177)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh---cCCHHHHHHH-------HHHHHHHHHHhC---CHHHHHHHHHHHHH
Confidence 3578899999999999999999999886553 433 33332 122222333334 34567788889888
Q ss_pred HHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhh
Q 024447 81 GIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKF 138 (267)
Q Consensus 81 ~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~ 138 (267)
.... |.+ ....-||..-+|+.....+++..|..+|-+....+
T Consensus 102 ~~~~--~~d--------------~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~ 143 (177)
T PF10602_consen 102 LIEK--GGD--------------WERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTF 143 (177)
T ss_pred HHhc--cch--------------HHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCC
Confidence 8877 444 33445788889999999999999999887654444
No 140
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=46.63 E-value=23 Score=31.58 Aligned_cols=26 Identities=27% Similarity=0.463 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNEN 242 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~n 242 (267)
.+.+..|+++||++..|..|++.-.+
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v~~ 170 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEIML 170 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 57899999999999999999975433
No 141
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=46.22 E-value=23 Score=31.70 Aligned_cols=24 Identities=21% Similarity=0.553 Sum_probs=20.6
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHcC
Q 024447 218 EKIKELVSIGFEKELVAEALRRNE 241 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t~ 241 (267)
+.|..|+.|||++.++++|++...
T Consensus 158 ~~v~AL~~LGy~~~e~~~av~~v~ 181 (201)
T COG0632 158 EAVEALVALGYKEKEIKKAVKKVL 181 (201)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHH
Confidence 338999999999999999987654
No 142
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=46.11 E-value=1.3e+02 Score=26.06 Aligned_cols=97 Identities=16% Similarity=0.160 Sum_probs=58.7
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHH-HHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCY-FMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy-~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
+....|+.++..++|++|+..+-.|=+..- +.+-+...+.=|+ +...+. . ...|.+.|.+
T Consensus 75 ~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-----------~~~~~~~~lA~aL~~~~g~~-~-------~~~A~~~l~~ 135 (198)
T PRK10370 75 QWALLGEYYLWRNDYDNALLAYRQALQLRG-----------ENAELYAALATVLYYQAGQH-M-------TPQTREMIDK 135 (198)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-----------CCHHHHHHHHHHHHHhcCCC-C-------cHHHHHHHHH
Confidence 456779999999999999999876655432 2233334444442 333322 1 2344444544
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
..-.++.-. .++ .+-|..+|..|+.++|...+.++-+
T Consensus 136 al~~dP~~~----------~al-----~~LA~~~~~~g~~~~Ai~~~~~aL~ 172 (198)
T PRK10370 136 ALALDANEV----------TAL-----MLLASDAFMQADYAQAIELWQKVLD 172 (198)
T ss_pred HHHhCCCCh----------hHH-----HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 443333222 223 3448889999999999998886644
No 143
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=44.98 E-value=1.1e+02 Score=22.10 Aligned_cols=24 Identities=25% Similarity=0.395 Sum_probs=18.4
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTM 29 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ 29 (267)
.++-.|+..++.++|++|+.++-.
T Consensus 27 ~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 27 YLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHH
Confidence 345578888888888888888854
No 144
>PRK11189 lipoprotein NlpI; Provisional
Probab=44.21 E-value=2.5e+02 Score=25.63 Aligned_cols=25 Identities=12% Similarity=0.018 Sum_probs=17.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
.++..|..+.+.++|++|+..+-.|
T Consensus 100 a~~~lg~~~~~~g~~~~A~~~~~~A 124 (296)
T PRK11189 100 AYNYLGIYLTQAGNFDAAYEAFDSV 124 (296)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 4566777777777777777766555
No 145
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=42.92 E-value=49 Score=31.85 Aligned_cols=38 Identities=21% Similarity=0.072 Sum_probs=33.7
Q ss_pred CCHHHHHHHHh-CCCCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 215 VDIEKIKELVS-IGFEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 215 vd~e~v~~L~~-MGF~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
..+..|.+|.+ -|++-..+++||..++||+..|-.||.
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~ 83 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLH 83 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHHHH
Confidence 35788889865 599999999999999999999999875
No 146
>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=42.07 E-value=1.6e+02 Score=23.36 Aligned_cols=97 Identities=18% Similarity=0.313 Sum_probs=52.1
Q ss_pred HHHhCCCCCHHHHHHHHHHHHHHHH-HHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447 59 YFMLRDISWLSEAGIRLRKAREGIE-RAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAK 137 (267)
Q Consensus 59 y~~l~~~~~l~dA~~rL~~ae~~f~-r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~ 137 (267)
--.|++...|+|..---..++..+. +.||..--+-..-+-+-.++..- .++. ..+.......-++..
T Consensus 15 i~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~i~--------~~l~----~~~~~e~a~~~~~kk 82 (121)
T PF02631_consen 15 IDRLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQKGIDREIIE--------EALE----EYDEEEEALELAEKK 82 (121)
T ss_dssp HHHHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHTT--HHHHH--------HHHT----CS-HHHHHHHHHHHH
T ss_pred HHHHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHHCCChHHHH--------HHHH----HhhHHHHHHHHHHHH
Confidence 3456677788888887788888887 77776666655555454444322 3334 122222222223333
Q ss_pred hccCC--CC----hhhHhhHHhCCCCHHHHHHHHHH
Q 024447 138 FFQLQ--VP----DESLSLVMSMGFKEQDAKRALRI 167 (267)
Q Consensus 138 ~~~l~--vd----~~~l~~L~~MGF~~~~Ar~ALr~ 167 (267)
+.... .+ .-.+..|+.-||+...++.++..
T Consensus 83 ~~~~~~~~~~~~~~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 83 YRRYRKPSDRKRKQKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHTTTS-CHHHHHHHHHHHHHTT--HHHHHHHCHH
T ss_pred HhcccCCCCHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 33331 11 24455899999999999999876
No 147
>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=41.98 E-value=43 Score=32.59 Aligned_cols=41 Identities=24% Similarity=0.225 Sum_probs=34.1
Q ss_pred hhHhhHHhCC--CCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447 146 ESLSLVMSMG--FKEQDAKRALRICSQDVGSAIDFLVEEKAKR 186 (267)
Q Consensus 146 ~~l~~L~~MG--F~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~ 186 (267)
-.|++.|+=| |+++-|.+|++++.||+.+|+=.|-..+.-.
T Consensus 43 lavdrVMsEgsLYdp~LAAlAiKQa~GD~~EAiFLLRAyRtTl 85 (358)
T PF05861_consen 43 LAVDRVMSEGSLYDPELAALAIKQARGDLIEAIFLLRAYRTTL 85 (358)
T ss_pred HHHHHHhccccccCHHHHHHHHHHhcCCHHHHHHHHHHHHhhc
Confidence 3466778777 9999999999999999999998887776543
No 148
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=40.89 E-value=52 Score=28.78 Aligned_cols=26 Identities=23% Similarity=0.528 Sum_probs=23.2
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhCC
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICSQ 170 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~g 170 (267)
++.+..|.++||+..+|++++...+.
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 57889999999999999999998753
No 149
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=40.21 E-value=82 Score=34.58 Aligned_cols=140 Identities=13% Similarity=0.118 Sum_probs=92.9
Q ss_pred hhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHH
Q 024447 30 GEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLR 109 (267)
Q Consensus 30 ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lR 109 (267)
|-+-|..=.++.+..-|-|+++.|==||---..+....=..++....+|-++|.+.---+|.=+++=.| +
T Consensus 583 a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANG-------I--- 652 (1018)
T KOG2002|consen 583 AKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANG-------I--- 652 (1018)
T ss_pred cccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccc-------h---
Confidence 444555566666666899999999998876666655555678888899999998776566666665555 2
Q ss_pred HHHHHHhhhhccCCchhHhhhhHhhHhhhc---cCCCChhhH--------------hhHHhCCCCHHH------HHHHHH
Q 024447 110 MELLEGVAAYHSGQFDKARNALTSAQAKFF---QLQVPDESL--------------SLVMSMGFKEQD------AKRALR 166 (267)
Q Consensus 110 L~lLqg~v~~h~g~~d~A~~~l~~a~~~~~---~l~vd~~~l--------------~~L~~MGF~~~~------Ar~ALr 166 (267)
|+|.-+.|++.+|...|.++++... ..++|-..+ +.-+.|=|..+. =-+|+.
T Consensus 653 -----giVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y 727 (1018)
T KOG2002|consen 653 -----GIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWY 727 (1018)
T ss_pred -----hhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHH
Confidence 6666699999999999998877666 455664222 222333331111 124555
Q ss_pred HhCCCHHHHHHHHHhhhhh
Q 024447 167 ICSQDVGSAIDFLVEEKAK 185 (267)
Q Consensus 167 ~~~gdve~A~~wL~~~~~d 185 (267)
.++ ....|++|+.--+..
T Consensus 728 ~~~-~~~eak~~ll~a~~~ 745 (1018)
T KOG2002|consen 728 EAG-KLQEAKEALLKARHL 745 (1018)
T ss_pred Hhh-hHHHHHHHHHHHHHh
Confidence 544 488888887665544
No 150
>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=40.06 E-value=9.3 Score=26.51 Aligned_cols=24 Identities=29% Similarity=0.573 Sum_probs=15.0
Q ss_pred HHHHH-HhCCCCHHHHHHHHHHcCC
Q 024447 219 KIKEL-VSIGFEKELVAEALRRNEN 242 (267)
Q Consensus 219 ~v~~L-~~MGF~~~~A~~ALr~t~n 242 (267)
.|..| .-|||+++....||+....
T Consensus 5 vv~~Ls~tMGY~kdeI~eaL~~~~~ 29 (46)
T PF08587_consen 5 VVSKLSKTMGYDKDEIYEALESSEP 29 (46)
T ss_dssp CHHHHHCTT---HHHHHHHCCSSS-
T ss_pred HHHHHHHHhCCCHHHHHHHHHcCCC
Confidence 35555 3699999999999987554
No 151
>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=39.88 E-value=26 Score=34.11 Aligned_cols=22 Identities=32% Similarity=0.676 Sum_probs=18.6
Q ss_pred hhhHhhHHhCCCCHHHHHHHHH
Q 024447 145 DESLSLVMSMGFKEQDAKRALR 166 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr 166 (267)
++.|+.++.|||+++++|-..+
T Consensus 322 ddvidKv~~MGf~rDqV~a~v~ 343 (358)
T PF07223_consen 322 DDVIDKVASMGFRRDQVRATVR 343 (358)
T ss_pred HHHHHHHHHcCCcHHHHHHHHH
Confidence 4889999999999999976553
No 152
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=39.67 E-value=15 Score=25.67 Aligned_cols=39 Identities=23% Similarity=0.387 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHHhccCCCcchhhhhccC
Q 024447 227 GFEKELVAEALRRNENDSQKALDDLTNPESNSAIQVTNF 265 (267)
Q Consensus 227 GF~~~~A~~ALr~t~ndve~AldlL~~pd~~~~l~~~~~ 265 (267)
|-..+-+.+.|..++-|.++|+..|........|+..-|
T Consensus 12 gmn~~~s~~CL~~n~Wd~~~A~~~F~~l~~~~~IP~eAF 50 (51)
T PF03943_consen 12 GMNLEWSQKCLEENNWDYERALQNFEELKAQGKIPPEAF 50 (51)
T ss_dssp SS-CCHHHHHHHHTTT-CCHHHHHHHHCCCTT-S-CCCC
T ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCChHhc
Confidence 666778999999999999999998776555555554433
No 153
>PRK12370 invasion protein regulator; Provisional
Probab=39.66 E-value=2.2e+02 Score=28.65 Aligned_cols=60 Identities=13% Similarity=0.035 Sum_probs=35.4
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHH
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKARE 80 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~ 80 (267)
+...|..+...++|++|..++-.|=+. --|.+-...-+.++|+..++ .++|..-+.+|.+
T Consensus 341 ~~~lg~~~~~~g~~~~A~~~~~~Al~l-----------~P~~~~a~~~lg~~l~~~G~---~~eAi~~~~~Al~ 400 (553)
T PRK12370 341 LGLLGLINTIHSEYIVGSLLFKQANLL-----------SPISADIKYYYGWNLFMAGQ---LEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHh-----------CCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHh
Confidence 345566777788888888777655332 22333344556778877644 4555555555433
No 154
>KOG2239 consensus Transcription factor containing NAC and TS-N domains [Transcription]
Probab=39.63 E-value=37 Score=30.52 Aligned_cols=35 Identities=26% Similarity=0.375 Sum_probs=28.4
Q ss_pred CCHHHHHHHHh-CCCCHHHHHHHHHHcCCCHHHHHH
Q 024447 215 VDIEKIKELVS-IGFEKELVAEALRRNENDSQKALD 249 (267)
Q Consensus 215 vd~e~v~~L~~-MGF~~~~A~~ALr~t~ndve~Ald 249 (267)
++...|+-++. .|-+|..|.+||+.++||+--|+=
T Consensus 170 ve~kDIeLVmsQanvSR~kAVkALk~~~~DiVnAIM 205 (209)
T KOG2239|consen 170 VEAKDIELVMSQANVSRAKAVKALKNNNNDIVNAIM 205 (209)
T ss_pred CchhhHHHHHHHhhhhHHHHHHHHHhccchHHHHHH
Confidence 55566666554 589999999999999999998874
No 155
>PRK11189 lipoprotein NlpI; Provisional
Probab=39.04 E-value=3.1e+02 Score=25.09 Aligned_cols=96 Identities=14% Similarity=0.054 Sum_probs=57.4
Q ss_pred hhhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Q 024447 5 LMLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIER 84 (267)
Q Consensus 5 ~~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r 84 (267)
-.+++.|....+.+++++|...+-.|=+. +| |.+-.-.-+...|..+++ .+ .|...|.+
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l----~P-------~~~~a~~~lg~~~~~~g~---~~-------~A~~~~~~ 123 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDFSQALAL----RP-------DMADAYNYLGIYLTQAGN---FD-------AAYEAFDS 123 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHc----CC-------CCHHHHHHHHHHHHHCCC---HH-------HHHHHHHH
Confidence 35778888889999999998877666432 12 112222233344444433 33 34445554
Q ss_pred HhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 85 AHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 85 ~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
....++ ....+.+-| |++.+..|+.++|...+..+-.
T Consensus 124 Al~l~P----------~~~~a~~~l-----g~~l~~~g~~~eA~~~~~~al~ 160 (296)
T PRK11189 124 VLELDP----------TYNYAYLNR-----GIALYYGGRYELAQDDLLAFYQ 160 (296)
T ss_pred HHHhCC----------CCHHHHHHH-----HHHHHHCCCHHHHHHHHHHHHH
Confidence 442222 233344444 8889999999999998886654
No 156
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=38.70 E-value=39 Score=23.09 Aligned_cols=25 Identities=16% Similarity=0.159 Sum_probs=21.0
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhh
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
.++..|+.+.++|+|++|+.++-.+
T Consensus 33 a~~~lg~~~~~~g~~~~A~~~~~~a 57 (65)
T PF13432_consen 33 AWYLLGRILYQQGRYDEALAYYERA 57 (65)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 5677899999999999999988776
No 157
>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=38.70 E-value=1.3e+02 Score=23.80 Aligned_cols=23 Identities=17% Similarity=0.366 Sum_probs=18.1
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHH
Q 024447 217 IEKIKELVSIGFEKELVAEALRR 239 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~ 239 (267)
...+..|+.-||+.+.+..+++.
T Consensus 96 ~K~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 96 QKLIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHHHTT--HHHHHHHCHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHhh
Confidence 35678899999999999999886
No 158
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=38.14 E-value=1.8e+02 Score=22.04 Aligned_cols=69 Identities=16% Similarity=0.043 Sum_probs=46.6
Q ss_pred HHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Q 024447 13 SLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAH 86 (267)
Q Consensus 13 ~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~y 86 (267)
..++.++|.+|++.|...=..+...+..-...--.||+|++=.++-.| .+.+.|..-|..|-+.-+..-
T Consensus 7 ~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~-----G~~~~A~~~l~eAi~~Are~~ 75 (94)
T PF12862_consen 7 NALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRF-----GHYEEALQALEEAIRLARENG 75 (94)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHh-----CCHHHHHHHHHHHHHHHHHHC
Confidence 368999999999999876555555444433445567777765554443 667888887777777666554
No 159
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=38.14 E-value=4.7e+02 Score=27.02 Aligned_cols=27 Identities=30% Similarity=0.210 Sum_probs=19.4
Q ss_pred HHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 110 MELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 110 L~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
.+...|.+.+..|+.++|...+..+-.
T Consensus 286 a~~~lg~~l~~~g~~~eA~~~l~~al~ 312 (656)
T PRK15174 286 IVTLYADALIRTGQNEKAIPLLQQSLA 312 (656)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 344457888888888888888776544
No 160
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=38.06 E-value=3.8e+02 Score=30.68 Aligned_cols=68 Identities=13% Similarity=0.195 Sum_probs=37.0
Q ss_pred HHHHHhhhhccCCchhHhhhhHhhHhh-hccCCCChhhHhhHHhCCCCHH-----HHHHHHHHhCCCHHHHHHHH
Q 024447 111 ELLEGVAAYHSGQFDKARNALTSAQAK-FFQLQVPDESLSLVMSMGFKEQ-----DAKRALRICSQDVGSAIDFL 179 (267)
Q Consensus 111 ~lLqg~v~~h~g~~d~A~~~l~~a~~~-~~~l~vd~~~l~~L~~MGF~~~-----~Ar~ALr~~~gdve~A~~wL 179 (267)
.|.|.|--|-..........-..|++- ..++...++.|.+|++- ..+. ..-.-|..|.||+.+|-+.+
T Consensus 1475 ~Li~~v~~Flt~~~adp~si~~vA~~vL~l~lp~tpeqi~~L~~~-I~e~v~sL~nVd~IL~~T~~di~ra~~L~ 1548 (1758)
T KOG0994|consen 1475 NLIQQVRDFLTQPDADPDSIEEVAEEVLALELPLTPEQIQQLTGE-IQERVASLPNVDAILSRTKGDIARAENLQ 1548 (1758)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHHHhccCCCCHHHHHHHHHH-HHHHHHhcccHHHHHHhhhhhHHHHHHHH
Confidence 356677677654332222222333332 34667788888888751 1111 11223567788888887744
No 161
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=37.94 E-value=57 Score=28.53 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=23.2
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcCC
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNEN 242 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~n 242 (267)
.+.+..|.++||++..|..|++....
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 57899999999999999999998853
No 162
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=37.77 E-value=59 Score=28.68 Aligned_cols=25 Identities=16% Similarity=0.310 Sum_probs=22.4
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHcC
Q 024447 217 IEKIKELVSIGFEKELVAEALRRNE 241 (267)
Q Consensus 217 ~e~v~~L~~MGF~~~~A~~ALr~t~ 241 (267)
.+.+..|+++||++..|.+|++...
T Consensus 149 ~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 149 SDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 4789999999999999999998874
No 163
>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=37.49 E-value=1.9e+02 Score=22.23 Aligned_cols=59 Identities=15% Similarity=0.108 Sum_probs=39.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKA 78 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~a 78 (267)
.++..|..+++.++|++|+..+-.+=+.+.. | +-...-+.|||..+++ ...|...++++
T Consensus 53 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~----------~-~~~~~~la~~~~~~g~---~~~A~~~~~~a 111 (135)
T TIGR02552 53 YWLGLAACCQMLKEYEEAIDAYALAAALDPD----------D-PRPYFHAAECLLALGE---PESALKALDLA 111 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC----------C-hHHHHHHHHHHHHcCC---HHHHHHHHHHH
Confidence 3456788999999999999988777554321 2 3334557899998865 44444444433
No 164
>KOG3450 consensus Huntingtin interacting protein HYPK [General function prediction only]
Probab=37.42 E-value=1.2e+02 Score=24.83 Aligned_cols=37 Identities=22% Similarity=0.329 Sum_probs=30.2
Q ss_pred CCHHHHHHH-HhCCCCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 215 VDIEKIKEL-VSIGFEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 215 vd~e~v~~L-~~MGF~~~~A~~ALr~t~ndve~AldlL 251 (267)
+.++.|.-+ .+|-.++..|.+-||.+.|||-.|+.-|
T Consensus 79 IkkeDlelImnELei~k~~aer~LrE~~Gdvv~Alral 116 (119)
T KOG3450|consen 79 IKKEDLELIMNELEISKAAAERSLREHMGDVVEALRAL 116 (119)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence 555666654 4788999999999999999999999844
No 165
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=37.24 E-value=45 Score=20.73 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=19.0
Q ss_pred hhHhHHHHHHhhchHHHHHHHHh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTM 29 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ 29 (267)
++.-|+...+.++|++|..+.-.
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 56779999999999999998766
No 166
>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=36.90 E-value=1.7e+02 Score=21.50 Aligned_cols=65 Identities=12% Similarity=0.066 Sum_probs=42.5
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREG 81 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~ 81 (267)
.....|+.+++.++|++|+..+-.+=..+.. -...+...+=+.|||..+++ ..+|...+..+-+.
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--------~~~~~~~~~~~~~~~~~~~~---~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPK--------SPKAPDALLKLGMSLQELGD---KEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHCCC--------CCcccHHHHHHHHHHHHhCC---hHHHHHHHHHHHHH
Confidence 3456899999999999999998776554320 00123445667788887655 45666666555444
No 167
>PRK13342 recombination factor protein RarA; Reviewed
Probab=36.66 E-value=3.7e+02 Score=26.02 Aligned_cols=68 Identities=22% Similarity=0.190 Sum_probs=42.1
Q ss_pred HHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhC--------CCCHHHHHHHHHHh--CCCHHHHHHHHHhhh
Q 024447 114 EGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSM--------GFKEQDAKRALRIC--SQDVGSAIDFLVEEK 183 (267)
Q Consensus 114 qg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~M--------GF~~~~Ar~ALr~~--~gdve~A~~wL~~~~ 183 (267)
+.++.++.|+.-.+...++.+-.. .-.++.+.+..++.- |-+.-....|+... ++|++.|+.|+..--
T Consensus 180 ~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~~~~~d~~~~~~~~~isa~~ks~rgsd~~aal~~l~~~l 257 (413)
T PRK13342 180 DALARLANGDARRALNLLELAALG--VDSITLELLEEALQKRAARYDKDGDEHYDLISALHKSIRGSDPDAALYYLARML 257 (413)
T ss_pred HHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhhhhccCCCccHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 455566778877777777654322 223566666655542 33445556677653 569999999986543
No 168
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=36.63 E-value=1.1e+02 Score=26.02 Aligned_cols=86 Identities=20% Similarity=0.349 Sum_probs=58.3
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERA 85 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~ 85 (267)
-++.+|..+|++|+|++|-..|-.=|..|--=. .- .--||||..+||.=++. +.|..-+ +-|.|.
T Consensus 12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~--ya------~qAqL~l~yayy~~~~y---~~A~a~~----~rFirL 76 (142)
T PF13512_consen 12 ELYQEAQEALQKGNYEEAIKQLEALDTRYPFGE--YA------EQAQLDLAYAYYKQGDY---EEAIAAY----DRFIRL 76 (142)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCc--cc------HHHHHHHHHHHHHccCH---HHHHHHH----HHHHHh
Confidence 478899999999999999877776666654321 11 23589999999988764 3443322 225555
Q ss_pred hCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhcc
Q 024447 86 HGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHS 121 (267)
Q Consensus 86 yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~ 121 (267)
| ++ +-...-++|+| |+..|.+
T Consensus 77 h-P~---------hp~vdYa~Y~~-----gL~~~~~ 97 (142)
T PF13512_consen 77 H-PT---------HPNVDYAYYMR-----GLSYYEQ 97 (142)
T ss_pred C-CC---------CCCccHHHHHH-----HHHHHHH
Confidence 5 33 34456788888 8777665
No 169
>PLN03196 MOC1-like protein; Provisional
Probab=36.60 E-value=4.6e+02 Score=26.41 Aligned_cols=93 Identities=15% Similarity=0.236 Sum_probs=46.7
Q ss_pred HHhCCCHHHHHHHHc------CCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCCh---hhHhhHHhC
Q 024447 84 RAHGKDSSRVRLLQA------GRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPD---ESLSLVMSM 154 (267)
Q Consensus 84 r~yG~~~~rl~~lkg------~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~---~~l~~L~~M 154 (267)
+++|...+-+..+-- .++.|..+.-+++.|+++.. . .+.-...+..... .-...++. .+|.-|.++
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-K---RQDIPRVLERYPE-LLGFKLEGTMSTSVAYLVSI 206 (487)
T ss_pred HHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCC-C---HHHHHHHHHhCch-hhcCCHHHHHHHHHHHHHHc
Confidence 566666666554431 24456666666677765422 2 1222222221111 00111111 356667778
Q ss_pred CCCHHHHHHHHHHhC--------CCHHHHHHHHHh
Q 024447 155 GFKEQDAKRALRICS--------QDVGSAIDFLVE 181 (267)
Q Consensus 155 GF~~~~Ar~ALr~~~--------gdve~A~~wL~~ 181 (267)
|++..+..+.+..+- +++..-++|+.+
T Consensus 207 Gvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~ 241 (487)
T PLN03196 207 GVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLES 241 (487)
T ss_pred CCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHH
Confidence 888888777776542 345666677654
No 170
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=35.88 E-value=4e+02 Score=26.97 Aligned_cols=90 Identities=18% Similarity=0.295 Sum_probs=52.9
Q ss_pred ChhhHhhHH-hCCCCHHHHHHHHHH------------hCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCC
Q 024447 144 PDESLSLVM-SMGFKEQDAKRALRI------------CSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP 210 (267)
Q Consensus 144 d~~~l~~L~-~MGF~~~~Ar~ALr~------------~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~ 210 (267)
+++....++ ++|.+...|..-+.. .+.+...|.+||+..--..- .+-+.+.
T Consensus 298 P~~~~~rl~~~ygls~~~a~~L~~~~~~~~~fe~~~~~~~~~k~~anwl~~el~~~l----------------~~~~~~~ 361 (474)
T PRK05477 298 PDAKRARFVEEYGLSEYDARVLTSDKELADYFEAVVAAGADAKLAANWLMGELLGLL----------------NEEGIEI 361 (474)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHcChHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH----------------HHCCCCh
Confidence 557777777 489998888643221 23567888889876431110 0012222
Q ss_pred CCCcCCHHHHHHHHhC----CCCHHHHHHHHHHc---CCCHHHHHH
Q 024447 211 LKKAVDIEKIKELVSI----GFEKELVAEALRRN---ENDSQKALD 249 (267)
Q Consensus 211 ~~~~vd~e~v~~L~~M----GF~~~~A~~ALr~t---~ndve~Ald 249 (267)
+...++++.+..|+.+ -.+...|+..|... +.+++..++
T Consensus 362 ~~~~i~~~~l~~Li~lv~~g~Is~~~ak~vl~~~~~~~~~~~~ii~ 407 (474)
T PRK05477 362 EESPITPEQLAELIKLIDDGTISGKIAKEVFEEMLETGGDPDEIVE 407 (474)
T ss_pred hhcCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCCHHHHHH
Confidence 2233566666666555 47888888766643 556776666
No 171
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=35.22 E-value=2.5e+02 Score=26.92 Aligned_cols=89 Identities=20% Similarity=0.198 Sum_probs=58.5
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCC
Q 024447 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGK 88 (267)
Q Consensus 9 ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~ 88 (267)
.-|+++++.+++++|...|..+-+ ... ++ +++--|-.+.. ++..+.|..+++.. +.|..
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 348999999999999999966655 221 22 34445555544 45555677776654 44423
Q ss_pred CHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 89 DSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 89 ~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
|++ +++..|.+++..|+.++|+..|+.+-+
T Consensus 327 ~~~------------------l~l~lgrl~~~~~~~~~A~~~le~al~ 356 (398)
T PRK10747 327 TPL------------------LWSTLGQLLMKHGEWQEASLAFRAALK 356 (398)
T ss_pred CHH------------------HHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 322 334558889999999999999985543
No 172
>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=34.64 E-value=35 Score=23.51 Aligned_cols=55 Identities=15% Similarity=0.167 Sum_probs=37.0
Q ss_pred HHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCC-CHHHHHHHH
Q 024447 111 ELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQ-DVGSAIDFL 179 (267)
Q Consensus 111 ~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~g-dve~A~~wL 179 (267)
+...|.+.+..|+.++|...+.++=.. |+.....+..||.. ....| +.+.|+.++
T Consensus 6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~------~p~~~~~~~~~g~~--------~~~~~~~~~~A~~~~ 61 (69)
T PF13414_consen 6 WYNLGQIYFQQGDYEEAIEYFEKAIEL------DPNNAEAYYNLGLA--------YMKLGKDYEEAIEDF 61 (69)
T ss_dssp HHHHHHHHHHTTHHHHHHHHHHHHHHH------STTHHHHHHHHHHH--------HHHTTTHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHc------CCCCHHHHHHHHHH--------HHHhCccHHHHHHHH
Confidence 456799999999999999999866543 55555555555532 12234 577777765
No 173
>PF08811 DUF1800: Protein of unknown function (DUF1800); InterPro: IPR014917 This is an entry of large bacterial proteins of unknown function.
Probab=34.54 E-value=70 Score=31.83 Aligned_cols=65 Identities=25% Similarity=0.258 Sum_probs=44.5
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhCCCCHHHHHHHHHHcCCCHHHHHH-h
Q 024447 172 VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSIGFEKELVAEALRRNENDSQKALD-D 250 (267)
Q Consensus 172 ve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~MGF~~~~A~~ALr~t~ndve~Ald-l 250 (267)
.+.+++.|++|+.-...+.. + .-..|.. +.|++..|+.| ..+.+.++||+...+. +
T Consensus 253 ~~~~ld~L~~hP~tA~fia~-----k----L~~~fv~----d~P~~~~V~~l----------a~~f~~~~gdl~~vl~al 309 (462)
T PF08811_consen 253 GDDVLDILAEHPATARFIAR-----K----LIRRFVA----DNPPPAYVARL----------AAAFRDNDGDLKAVLRAL 309 (462)
T ss_pred HHHHHHHHHcCCchHHHHHH-----H----HHHHHcC----CCCCHHHHHHH----------HHHHHcCCCcHHHHHHHH
Confidence 77888888888766544421 1 1112222 23677777665 6788999999999999 8
Q ss_pred ccCCCcchh
Q 024447 251 LTNPESNSA 259 (267)
Q Consensus 251 L~~pd~~~~ 259 (267)
|.+|+-.+.
T Consensus 310 l~s~ef~~~ 318 (462)
T PF08811_consen 310 LTSPEFYDP 318 (462)
T ss_pred HCCHHHhCc
Confidence 889886665
No 174
>PRK04028 glutamyl-tRNA(Gln) amidotransferase subunit E; Validated
Probab=34.49 E-value=5.7e+02 Score=26.91 Aligned_cols=87 Identities=21% Similarity=0.297 Sum_probs=54.2
Q ss_pred ChhhHhhHHh-CCCCHHHHHHH-----------HHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCC
Q 024447 144 PDESLSLVMS-MGFKEQDAKRA-----------LRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPL 211 (267)
Q Consensus 144 d~~~l~~L~~-MGF~~~~Ar~A-----------Lr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~ 211 (267)
+++.+..|++ +|.++..|..= +-..+++...+.+||++-...... -+...
T Consensus 455 p~~~~~r~~~~ygls~~~a~~L~~~~~~~~f~~~~~~~~~~~~~anwl~~~~~~l~~-----------------~~~~~- 516 (630)
T PRK04028 455 PEEKVERLIKEYGLSEELAEQLAYSERLDLFEELVKKGVDPTLIASTLENTLKELRR-----------------EGVDV- 516 (630)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHCCchHHHHHHHHHhCCCHHHHHHHHHHHHHHHHh-----------------CCCCc-
Confidence 4577888875 89999888643 112245778889999873211110 01111
Q ss_pred CCcCCHHHHHHHHhC----CCCHHHHHHHHHH---c-CCCHHHHHH
Q 024447 212 KKAVDIEKIKELVSI----GFEKELVAEALRR---N-ENDSQKALD 249 (267)
Q Consensus 212 ~~~vd~e~v~~L~~M----GF~~~~A~~ALr~---t-~ndve~Ald 249 (267)
..++++.|..|..| ..+...|+..|.. + +.+++.-++
T Consensus 517 -~~i~~~~l~~l~~~~~~~~is~~~ak~v~~~~~~~~~~~~~~IIe 561 (630)
T PRK04028 517 -ENITDEHIEEVFKLVSEGKIAKEAIEEILKELAENPGKSAEEAAE 561 (630)
T ss_pred -ccCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 12566666666555 7999999988875 2 567776665
No 175
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=34.09 E-value=82 Score=22.98 Aligned_cols=37 Identities=27% Similarity=0.374 Sum_probs=28.5
Q ss_pred CCCCHHHHHHHHHHcCCCHHHHHHhccCCCcchhhhh
Q 024447 226 IGFEKELVAEALRRNENDSQKALDDLTNPESNSAIQV 262 (267)
Q Consensus 226 MGF~~~~A~~ALr~t~ndve~AldlL~~pd~~~~l~~ 262 (267)
-|-..+-+.+.|..++-|.++|+..|..-..-..|+.
T Consensus 23 Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~lk~~~~IP~ 59 (63)
T smart00804 23 TGMNAEYSQMCLEDNNWDYERALKNFTELKSEGSIPP 59 (63)
T ss_pred HCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCh
Confidence 3889999999999999999999997765333333433
No 176
>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=33.80 E-value=51 Score=19.16 Aligned_cols=22 Identities=23% Similarity=0.156 Sum_probs=18.7
Q ss_pred hhhHhHHHHHHhhchHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVL 27 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~l 27 (267)
..+..|+++...|++++|..++
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l 24 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLL 24 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHH
Confidence 3566799999999999999876
No 177
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=33.18 E-value=1.8e+02 Score=25.91 Aligned_cols=20 Identities=25% Similarity=0.373 Sum_probs=9.3
Q ss_pred HhhhhccCCchhHhhhhHhh
Q 024447 115 GVAAYHSGQFDKARNALTSA 134 (267)
Q Consensus 115 g~v~~h~g~~d~A~~~l~~a 134 (267)
+++.+.-|+.++|...+.++
T Consensus 221 a~~~~~lg~~~~Al~~~~~~ 240 (280)
T PF13429_consen 221 AAAYLQLGRYEEALEYLEKA 240 (280)
T ss_dssp HHHHHHHT-HHHHHHHHHHH
T ss_pred HHHhcccccccccccccccc
Confidence 33344445555555555543
No 178
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=32.32 E-value=73 Score=24.46 Aligned_cols=39 Identities=18% Similarity=0.280 Sum_probs=27.8
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKR 186 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~ 186 (267)
.+.+..|..+|+|...|.+..+..+. .|++-|.++|-..
T Consensus 9 ~~~~~~L~~~gl~~~~a~kl~~~yg~---~ai~~l~~nPY~L 47 (94)
T PF14490_consen 9 RELMAFLQEYGLSPKLAMKLYKKYGD---DAIEILKENPYRL 47 (94)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHH-T---THHHHHHH-STCC
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhH---HHHHHHHHChHHH
Confidence 46688999999999999999999885 5667776666443
No 179
>PRK01905 DNA-binding protein Fis; Provisional
Probab=32.20 E-value=40 Score=25.14 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 228 FEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 228 F~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
|+++....+|..++||+.+|++.|-
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~LG 61 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYLG 61 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHC
Confidence 6788899999999999999999775
No 180
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=31.96 E-value=42 Score=26.88 Aligned_cols=30 Identities=13% Similarity=0.099 Sum_probs=25.1
Q ss_pred HhHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 024447 9 ANAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (267)
Q Consensus 9 ek~r~~~~~~~y~~al~~ll~ad~~f~~c~ 38 (267)
-.+=...|.++|++|-.+|-+|++.|..+-
T Consensus 25 ~eAl~~ak~gdf~~A~~~l~eA~~~l~~AH 54 (104)
T PRK09591 25 HEAFAAMREGNFDLAEQKLNQSNEELLEAH 54 (104)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 345567899999999999999999997653
No 181
>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=31.81 E-value=2.7e+02 Score=25.45 Aligned_cols=154 Identities=14% Similarity=0.089 Sum_probs=78.8
Q ss_pred HHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhCCCHHHHH
Q 024447 15 IKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAREGIERAHGKDSSRVR 94 (267)
Q Consensus 15 ~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae~~f~r~yG~~~~rl~ 94 (267)
|++++|++|+++|..+=..|-+.+- .-..+| .+++-|| +|-. ...+.-.+.+.+--+++...-...++|..
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 6899999999999888777766542 222222 2344444 2333 33333333444444455554445566766
Q ss_pred HHH-----cCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHH--
Q 024447 95 LLQ-----AGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRI-- 167 (267)
Q Consensus 95 ~lk-----g~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~-- 167 (267)
-++ ...+....=.-.||.+=|.+.+..|++.+|+.|+--..+..... .-..+..-...|++.+.-.-+.|+
T Consensus 72 fi~~ai~WS~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~--~~~ll~~~~~~~~~~e~dlfi~RaVL 149 (260)
T PF04190_consen 72 FIKAAIKWSKFGSYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFA--YVMLLEEWSTKGYPSEADLFIARAVL 149 (260)
T ss_dssp HHHHHHHHHHTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHH--HHHHHHHHHHHTSS--HHHHHHHHHH
T ss_pred HHHHHHHHHccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHH--HHHHHHHHHHhcCCcchhHHHHHHHH
Confidence 665 11222333346788888889999999999999874222110000 001222334578887764444333
Q ss_pred ---hCCCHHHHHHHH
Q 024447 168 ---CSQDVGSAIDFL 179 (267)
Q Consensus 168 ---~~gdve~A~~wL 179 (267)
|-+|+..|...+
T Consensus 150 ~yL~l~n~~~A~~~~ 164 (260)
T PF04190_consen 150 QYLCLGNLRDANELF 164 (260)
T ss_dssp HHHHTTBHHHHHHHH
T ss_pred HHHHhcCHHHHHHHH
Confidence 457777666533
No 182
>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=31.50 E-value=36 Score=23.07 Aligned_cols=27 Identities=19% Similarity=0.305 Sum_probs=19.9
Q ss_pred HHHHHHhCCCHHHHHHHHcCCcchhhH
Q 024447 80 EGIERAHGKDSSRVRLLQAGRHPELAL 106 (267)
Q Consensus 80 ~~f~r~yG~~~~rl~~lkg~~~~E~al 106 (267)
+.....||.|.+||+.||..-.|+-..
T Consensus 14 ~~~~~yyg~n~~rL~~iK~~yDP~n~F 40 (47)
T PF08031_consen 14 DWQEAYYGENYDRLRAIKRKYDPDNVF 40 (47)
T ss_dssp HHHHHHHGGGHHHHHHHHHHH-TT-TS
T ss_pred HHHHHHhchhHHHHHHHHHHhCcccee
Confidence 456788999999999999766665443
No 183
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=30.57 E-value=1.1e+02 Score=29.08 Aligned_cols=40 Identities=18% Similarity=0.046 Sum_probs=31.9
Q ss_pred CCHHHHH-HHHhC-CCCHHHHHHHHHHcCCCHHHHHHhccCC
Q 024447 215 VDIEKIK-ELVSI-GFEKELVAEALRRNENDSQKALDDLTNP 254 (267)
Q Consensus 215 vd~e~v~-~L~~M-GF~~~~A~~ALr~t~ndve~AldlL~~p 254 (267)
++.+.+. -|.+- |.+.+.|..+++.++|++.+|++++.+.
T Consensus 167 ~~~~~~~~~L~~~~~~~~~~a~~~~~la~G~~~~Al~l~~~~ 208 (334)
T PRK07993 167 PPEQYALTWLSREVTMSQDALLAALRLSAGAPGAALALLQPE 208 (334)
T ss_pred CCHHHHHHHHHHccCCCHHHHHHHHHHcCCCHHHHHHHhcCc
Confidence 4445554 46554 9999999999999999999999988764
No 184
>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=30.38 E-value=46 Score=26.15 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=25.1
Q ss_pred hHhHHHHHHhhchHHHHHHHHhhhhhhccCCh
Q 024447 8 HANAKSLIKRHMYKDALEVLTMGEEAFSLCDP 39 (267)
Q Consensus 8 ~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~ 39 (267)
.-++=...|.++|++|-.++-+|++.|.+|-.
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 33455667999999999999999999987643
No 185
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=30.10 E-value=48 Score=27.14 Aligned_cols=29 Identities=14% Similarity=0.098 Sum_probs=24.7
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 024447 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (267)
Q Consensus 10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~ 38 (267)
.+=...|+++|++|-.+|-+|++.|..+-
T Consensus 37 eAl~~Ak~gdfe~A~~~l~eA~e~l~~AH 65 (115)
T PRK10454 37 AALKQAKQGDFAAAKAMMDQSRMALNEAH 65 (115)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Confidence 44557899999999999999999998653
No 186
>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=30.07 E-value=48 Score=26.19 Aligned_cols=29 Identities=17% Similarity=0.220 Sum_probs=24.4
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 024447 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (267)
Q Consensus 10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~ 38 (267)
.+=...|.++|++|-.+|-+|++.|..+-
T Consensus 21 eAl~~a~~g~fe~A~~~l~ea~~~l~~AH 49 (97)
T cd00215 21 EALKAAKEGDFAEAEELLEEANDSLNEAH 49 (97)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 44456899999999999999999998653
No 187
>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=29.52 E-value=4.3e+02 Score=23.92 Aligned_cols=28 Identities=21% Similarity=0.387 Sum_probs=22.2
Q ss_pred HHHHHHHHHhhhhccCCchhHhhhhHhh
Q 024447 107 HLRMELLEGVAAYHSGQFDKARNALTSA 134 (267)
Q Consensus 107 ~lRL~lLqg~v~~h~g~~d~A~~~l~~a 134 (267)
-+++.++++++.|..|+.++|...+..+
T Consensus 306 ~~~~~~l~A~~~~~~g~~~~A~~~L~~a 333 (355)
T cd05804 306 DVGLPLAEALYAFAEGNYATALELLGPV 333 (355)
T ss_pred hhhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4677888888888888888888877643
No 188
>PRK06476 pyrroline-5-carboxylate reductase; Reviewed
Probab=29.51 E-value=2.4e+02 Score=25.10 Aligned_cols=67 Identities=13% Similarity=-0.008 Sum_probs=39.2
Q ss_pred hhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHH-HhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHH
Q 024447 146 ESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFL-VEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELV 224 (267)
Q Consensus 146 ~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL-~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~ 224 (267)
+.......+||++++|++.+..+ +.-++.-+ .+....+.+.+ . --.+|.| ...+.|..|.
T Consensus 174 ~~~~~~~~~Gl~~~~a~~~~~~~---~~G~~~l~~~~~~~~~~~l~-----------~---~v~spgG--tT~~gl~~le 234 (258)
T PRK06476 174 TATGWLEEQGLKRQKARAYLAPL---FASLAQDAVRSTKTDFSALS-----------R---EFSTKGG--LNEQVLNDFS 234 (258)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHH---HHHHHHHHHhcCCCCHHHHH-----------H---hCCCCCc--hHHHHHHHHH
Confidence 44556688899999999888764 33344432 22222222211 1 1234443 3668899999
Q ss_pred hCCCCHH
Q 024447 225 SIGFEKE 231 (267)
Q Consensus 225 ~MGF~~~ 231 (267)
.-||...
T Consensus 235 ~~~~~~~ 241 (258)
T PRK06476 235 RQGGYAA 241 (258)
T ss_pred HCChHHH
Confidence 9999654
No 189
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=28.93 E-value=69 Score=20.61 Aligned_cols=26 Identities=15% Similarity=0.008 Sum_probs=21.5
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEE 32 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~ 32 (267)
+..-|+..++.|++++|..++-.+=+
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 56679999999999999998876543
No 190
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=28.45 E-value=4e+02 Score=28.00 Aligned_cols=28 Identities=14% Similarity=-0.037 Sum_probs=20.0
Q ss_pred HHHHHHhhhhccCCchhHhhhhHhhHhh
Q 024447 110 MELLEGVAAYHSGQFDKARNALTSAQAK 137 (267)
Q Consensus 110 L~lLqg~v~~h~g~~d~A~~~l~~a~~~ 137 (267)
..++.+.+....|+.++|...+.++...
T Consensus 361 a~~~~a~~l~~~g~~~eA~~~l~~al~~ 388 (765)
T PRK10049 361 GQSLLSQVAKYSNDLPQAEMRARELAYN 388 (765)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3345566666889999999988876554
No 191
>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=28.26 E-value=20 Score=33.00 Aligned_cols=28 Identities=36% Similarity=0.468 Sum_probs=22.9
Q ss_pred chhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 024447 47 NGPLLQIDMVWCYFMLRDISWLSEAGIRLRK 77 (267)
Q Consensus 47 n~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ 77 (267)
=.|+|+. |||+|+.++..|.+-+.+|.+
T Consensus 30 vVALL~a---sc~~c~~qa~~le~Lr~kL~~ 57 (238)
T PF04592_consen 30 VVALLQA---SCYFCLLQASRLEDLREKLEN 57 (238)
T ss_pred eeeehhh---hhHHHHHHHHHHHHHHHHHHH
Confidence 3566665 999999999999998888864
No 192
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=27.63 E-value=2e+02 Score=28.84 Aligned_cols=91 Identities=23% Similarity=0.327 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhh-HhhHhhhccCCCChhhHhh
Q 024447 72 GIRLRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNAL-TSAQAKFFQLQVPDESLSL 150 (267)
Q Consensus 72 ~~rL~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l-~~a~~~~~~l~vd~~~l~~ 150 (267)
++-+..|...+++.||...++|+.. |.|+ |..++.+|...+ ...+-++-+ |--+-|..
T Consensus 257 e~~a~e~~~LL~~lH~leqe~L~~~---------L~l~----------qEE~~aKa~Rqla~~~R~eLh~--if~~qi~~ 315 (429)
T PF12297_consen 257 ERSAAECSSLLRKLHGLEQEHLRRS---------LLLQ----------QEEDFAKARRQLAVFRRVELHE--IFFEQIKS 315 (429)
T ss_pred HhhHHHHHHHHHHHHhhhHHHHHHH---------HHHH----------HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 3456678888899998888888543 2222 222222332222 112222222 23466888
Q ss_pred HHhCC-CCHHHHHHHHHHhC---CCHHHHHHHHHhhh
Q 024447 151 VMSMG-FKEQDAKRALRICS---QDVGSAIDFLVEEK 183 (267)
Q Consensus 151 L~~MG-F~~~~Ar~ALr~~~---gdve~A~~wL~~~~ 183 (267)
.+.|| +.++.|+.-++.+. .+||+.|++++.+.
T Consensus 316 ai~~GeL~~e~Ak~Ll~~y~~~Q~~vEelMD~~qA~k 352 (429)
T PF12297_consen 316 AIFKGELKPEAAKSLLQDYSKIQENVEELMDFFQANK 352 (429)
T ss_pred HHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999 99999999887653 46999999987764
No 193
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=27.03 E-value=70 Score=24.58 Aligned_cols=24 Identities=29% Similarity=0.224 Sum_probs=19.5
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhh
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
.++-|..++..++|++|+..|++.
T Consensus 25 r~~lA~~~~~~g~~e~Al~~Ll~~ 48 (90)
T PF14561_consen 25 RYALADALLAAGDYEEALDQLLEL 48 (90)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHH
Confidence 356788999999999999998864
No 194
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=26.59 E-value=56 Score=25.61 Aligned_cols=25 Identities=16% Similarity=0.167 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHhcc
Q 024447 228 FEKELVAEALRRNENDSQKALDDLT 252 (267)
Q Consensus 228 F~~~~A~~ALr~t~ndve~AldlL~ 252 (267)
|++.....||+.++||+.+|+++|-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~LG 79 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALMLG 79 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 6788999999999999999999775
No 195
>cd04752 Commd4 COMM_Domain containing protein 4. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=26.42 E-value=3.2e+02 Score=23.46 Aligned_cols=60 Identities=25% Similarity=0.362 Sum_probs=37.0
Q ss_pred CChhhHhhHH-hCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHH-H
Q 024447 143 VPDESLSLVM-SMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEK-I 220 (267)
Q Consensus 143 vd~~~l~~L~-~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~-v 220 (267)
+|.+.+..|. ..||+....+.++ +|+-||+++--.. .++++. .
T Consensus 22 ~~~~~~~kl~~~~~~~~~~lk~~v--------a~l~fiL~~A~k~---------------------------n~~~~~l~ 66 (174)
T cd04752 22 IDYEKVLKLTADAKFESGDVKASI--------AVLSFILSSAAKY---------------------------NVDGESLS 66 (174)
T ss_pred CCHHHHHHHHHHhCCCHhhHHHHH--------HHHHHHHHHHHHc---------------------------CCCHHHHH
Confidence 5667777666 8899886555443 4666777643111 133333 4
Q ss_pred HHHHhCCCCHHHHHHHH
Q 024447 221 KELVSIGFEKELVAEAL 237 (267)
Q Consensus 221 ~~L~~MGF~~~~A~~AL 237 (267)
+.|..+||+++.+..=.
T Consensus 67 ~eL~~lglp~e~~~~l~ 83 (174)
T cd04752 67 SELQQLGLPKEHATSLC 83 (174)
T ss_pred HHHHHcCCCHHHHHHHH
Confidence 45999999998765433
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=26.19 E-value=1.2e+02 Score=26.24 Aligned_cols=57 Identities=28% Similarity=0.305 Sum_probs=40.9
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHH
Q 024447 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRK 77 (267)
Q Consensus 10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ 77 (267)
.|.-.|+|++|.+|+-+|=+.++. ..|.+ +-.==+.||++.++|-+|=--|.+-|..
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 477889999999999999887764 23333 1111158999999999987776655543
No 197
>PRK14137 recX recombination regulator RecX; Provisional
Probab=26.01 E-value=3.4e+02 Score=23.96 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=18.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHH
Q 024447 218 EKIKELVSIGFEKELVAEALRR 239 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~ 239 (267)
..+..|+.=||+.+.+..|++.
T Consensus 157 K~~~~L~rRGFs~~~I~~al~~ 178 (195)
T PRK14137 157 SAYAFLARRGFSGAVIWPAIRE 178 (195)
T ss_pred HHHHHHHHCCCCHHHHHHHHHH
Confidence 4578899999999999998874
No 198
>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=25.82 E-value=1.6e+02 Score=24.38 Aligned_cols=30 Identities=33% Similarity=0.272 Sum_probs=22.5
Q ss_pred CCHHHHHHHHhCCCCHHHHHHHHHHcCCCH
Q 024447 215 VDIEKIKELVSIGFEKELVAEALRRNENDS 244 (267)
Q Consensus 215 vd~e~v~~L~~MGF~~~~A~~ALr~t~ndv 244 (267)
+..+++.-|.+=|.+.+...+||++.+++.
T Consensus 22 p~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 22 PLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp -HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 345779999999999999999999999877
No 199
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=25.69 E-value=79 Score=21.84 Aligned_cols=27 Identities=19% Similarity=0.319 Sum_probs=21.0
Q ss_pred HHHHHHhhhhccCCchhHhhhhHhhHh
Q 024447 110 MELLEGVAAYHSGQFDKARNALTSAQA 136 (267)
Q Consensus 110 L~lLqg~v~~h~g~~d~A~~~l~~a~~ 136 (267)
++...|.+.+..|+..+|...+..+-+
T Consensus 31 ~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 31 LWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred hhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 445568999999999999988876543
No 200
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=25.24 E-value=1.4e+02 Score=31.14 Aligned_cols=90 Identities=21% Similarity=0.198 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHhCCCHHHHHHHHcCCcchhhHHHHHHHHHHhhhhccCCchhHhhhhHhhHhhhccC-------------
Q 024447 75 LRKAREGIERAHGKDSSRVRLLQAGRHPELALHLRMELLEGVAAYHSGQFDKARNALTSAQAKFFQL------------- 141 (267)
Q Consensus 75 L~~ae~~f~r~yG~~~~rl~~lkg~~~~E~al~lRL~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l------------- 141 (267)
+..|++-|..+||+.|.=-. ++=|+ |||+|+.+..++|..+|.++-....++
T Consensus 396 ~kLAe~Ff~~A~ai~P~Dpl-------------v~~El--gvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~N 460 (611)
T KOG1173|consen 396 LKLAEKFFKQALAIAPSDPL-------------VLHEL--GVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNN 460 (611)
T ss_pred HHHHHHHHHHHHhcCCCcch-------------hhhhh--hheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHh
Confidence 34556666666655544332 22233 899999999999999987664221111
Q ss_pred --------CCChhhHh-----hHHhCCCCHHHHHHHH-HHhCCCHHHHHHHH
Q 024447 142 --------QVPDESLS-----LVMSMGFKEQDAKRAL-RICSQDVGSAIDFL 179 (267)
Q Consensus 142 --------~vd~~~l~-----~L~~MGF~~~~Ar~AL-r~~~gdve~A~~wL 179 (267)
...+++|. .+++=-+....|-.|+ ++--||++.|++++
T Consensus 461 LGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~f 512 (611)
T KOG1173|consen 461 LGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHF 512 (611)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHH
Confidence 11223332 1233345556666665 34467777777765
No 201
>PF09675 Chlamy_scaf: Chlamydia-phage Chp2 scaffold (Chlamy_scaf); InterPro: IPR014131 Members of this entry are encoded by genes in chlamydiaphage such as Vp3. These viruses have around eight genes and infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.
Probab=25.23 E-value=77 Score=25.97 Aligned_cols=36 Identities=25% Similarity=0.386 Sum_probs=33.4
Q ss_pred chHHHHHHHHhhhhhhccCChhhhhhccchhhhhhh
Q 024447 19 MYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQID 54 (267)
Q Consensus 19 ~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ld 54 (267)
+|.+||.++.+|.|+|-.-.+++-+..-|=|-.-++
T Consensus 32 DyqeAln~V~e~~eaFd~LPa~iRe~F~N~P~efl~ 67 (114)
T PF09675_consen 32 DYQEALNMVAEANEAFDELPAHIRERFNNDPEEFLE 67 (114)
T ss_pred hHHHHHHHHHHHHHHHHHchHHHHHHhCCCHHHHHH
Confidence 688999999999999999999999999998887777
No 202
>TIGR00823 EIIA-LAC phosphotransferase system enzyme II, lactose-specific, factor III. operon. While the Lac permeases consist of two polypeptide chains (IIA and IICB), the Chb permease of E. coli consists of three (IIA, IIB and IIC). In B. subtilis, a PTS permease similar to the Chb permease of E. coli is believed to transport lichenan (a b-1,3;1,4 glucan) degradation products, oligosaccharides of 2-4 glucose units. This model is specific for the IIA subunit of the Lac PTS family.
Probab=25.16 E-value=65 Score=25.52 Aligned_cols=29 Identities=10% Similarity=0.055 Sum_probs=24.4
Q ss_pred hHHHHHHhhchHHHHHHHHhhhhhhccCC
Q 024447 10 NAKSLIKRHMYKDALEVLTMGEEAFSLCD 38 (267)
Q Consensus 10 k~r~~~~~~~y~~al~~ll~ad~~f~~c~ 38 (267)
.+=...|.++|++|-.+|-+|++.|..+-
T Consensus 23 eAl~~a~~gdfe~A~~~l~eA~~~l~~AH 51 (99)
T TIGR00823 23 EALKAAKAGDFAKARALVEQAGMCLNEAH 51 (99)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 44556899999999999999999998653
No 203
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=24.59 E-value=1.7e+02 Score=20.24 Aligned_cols=22 Identities=27% Similarity=0.395 Sum_probs=18.0
Q ss_pred hhhHhhHHhC---CCCHHHHHHHHH
Q 024447 145 DESLSLVMSM---GFKEQDAKRALR 166 (267)
Q Consensus 145 ~~~l~~L~~M---GF~~~~Ar~ALr 166 (267)
...+.+|++= ||+.++|.-|+.
T Consensus 22 ~~l~~QL~se~ge~Ft~e~A~YAv~ 46 (48)
T PF07553_consen 22 QGLYDQLTSEYGEGFTEEEAQYAVD 46 (48)
T ss_pred HHHHHHHHhhcccCCCHHHHHHHHH
Confidence 3566799986 999999998875
No 204
>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.
Probab=24.41 E-value=52 Score=27.09 Aligned_cols=47 Identities=28% Similarity=0.377 Sum_probs=26.8
Q ss_pred HHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHH
Q 024447 11 AKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLR 76 (267)
Q Consensus 11 ~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~ 76 (267)
.-++|.||+|.+||.+ ..|.+ ||=| |-|--+|=-.+.-.+.+..||.
T Consensus 47 ~~sLmNrG~Yq~ALl~--------~~~~~--------~pdL---~p~~AL~a~klGL~~~~e~~l~ 93 (116)
T PF09477_consen 47 LSSLMNRGDYQEALLL--------PQCHC--------YPDL---EPWAALCAWKLGLASALESRLT 93 (116)
T ss_dssp HHHHHHTT-HHHHHHH--------HTTS----------GGG---HHHHHHHHHHCT-HHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHh--------cccCC--------CccH---HHHHHHHHHhhccHHHHHHHHH
Confidence 4579999999999432 44543 1111 4576666655666666666555
No 205
>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=24.35 E-value=98 Score=22.96 Aligned_cols=22 Identities=23% Similarity=0.496 Sum_probs=18.2
Q ss_pred HHHHHHHhCCCCHHHHHHHHHH
Q 024447 218 EKIKELVSIGFEKELVAEALRR 239 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~ 239 (267)
..+..+..|||++.+++.-|+.
T Consensus 13 aA~dam~~lG~~~~~v~~vl~~ 34 (65)
T PF10440_consen 13 AALDAMRQLGFSKKQVRPVLKN 34 (65)
T ss_pred HHHHHHHHcCCCHHHHHHHHHH
Confidence 4588999999999998877653
No 206
>TIGR00134 gatE_arch glutamyl-tRNA(Gln) amidotransferase, subunit E. The Archaea have an Asp-tRNA(Asn) amidotransferase instead of an Asp--tRNA ligase, but the genes have not been identified. It is likely that this protein replaces gatB in Asp-tRNA(Asn) amidotransferase but that both enzymes share gatA.
Probab=24.07 E-value=7.5e+02 Score=25.98 Aligned_cols=87 Identities=16% Similarity=0.223 Sum_probs=49.9
Q ss_pred ChhhHhhHH-hCCCCHHHHHHHH------------HHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCC
Q 024447 144 PDESLSLVM-SMGFKEQDAKRAL------------RICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP 210 (267)
Q Consensus 144 d~~~l~~L~-~MGF~~~~Ar~AL------------r~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~ 210 (267)
+++....++ ++|.++..|..=+ ..++.+...+.+||+........ -+.+.
T Consensus 448 p~~~~~r~~~~ygls~~~A~~l~~~~~~~~fe~~~~~~~~~~~~~an~l~~~~~~l~~-----------------~~~~~ 510 (620)
T TIGR00134 448 PEEKKERIMREYGLSEDLASQLVKSNYVDEFEALTEKFRVDPTVIASLLAYTLRELRR-----------------EGHDI 510 (620)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHhchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHh-----------------CCCCc
Confidence 667788887 6899998886532 22345778888898775322110 01111
Q ss_pred CCCcCCHHHHHHHHhC----CCCHHHHHHHHHHc---CCCHHHHHH
Q 024447 211 LKKAVDIEKIKELVSI----GFEKELVAEALRRN---ENDSQKALD 249 (267)
Q Consensus 211 ~~~~vd~e~v~~L~~M----GF~~~~A~~ALr~t---~ndve~Ald 249 (267)
..++++.+..|..+ -++.+.|+..|... +++.+..++
T Consensus 511 --~~~~~~~l~~l~~~~~~g~is~~~~k~vl~~~~~~~~~~~~iie 554 (620)
T TIGR00134 511 --DGLELRHLRDAIKLLEVGKIAKEGLREILKCMCDEPLAAEDAAR 554 (620)
T ss_pred --ccCCHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhCCCCHHHHHH
Confidence 12345555555444 58888888766632 345555554
No 207
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=23.34 E-value=1.5e+02 Score=29.52 Aligned_cols=51 Identities=12% Similarity=0.371 Sum_probs=38.2
Q ss_pred hhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCH
Q 024447 7 LHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWL 68 (267)
Q Consensus 7 l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l 68 (267)
+-|+|-.+.|+|.|+||.+|-. .-+..----||+-..=.-.||++|....-
T Consensus 100 iKE~GN~yFKQgKy~EAIDCYs-----------~~ia~~P~NpV~~~NRA~AYlk~K~FA~A 150 (536)
T KOG4648|consen 100 IKERGNTYFKQGKYEEAIDCYS-----------TAIAVYPHNPVYHINRALAYLKQKSFAQA 150 (536)
T ss_pred HHHhhhhhhhccchhHHHHHhh-----------hhhccCCCCccchhhHHHHHHHHHHHHHH
Confidence 5789999999999999997543 32322222368999999999999987743
No 208
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=23.32 E-value=3.1e+02 Score=26.23 Aligned_cols=58 Identities=12% Similarity=0.170 Sum_probs=33.3
Q ss_pred HHHHHhhhhccCCchhHhhhhHhhHhhhccCCCChhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhh
Q 024447 111 ELLEGVAAYHSGQFDKARNALTSAQAKFFQLQVPDESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEE 182 (267)
Q Consensus 111 ~lLqg~v~~h~g~~d~A~~~l~~a~~~~~~l~vd~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~ 182 (267)
++.+|++++..||.+.|...+.++.... +...+..|+ .|+-|. -.|+.+.|..|+..-
T Consensus 87 ~~~~gl~a~~eGd~~~A~k~l~~~~~~~-----~~p~l~~ll-------aA~aA~--~~g~~~~A~~~l~~A 144 (398)
T PRK10747 87 QTEQALLKLAEGDYQQVEKLMTRNADHA-----EQPVVNYLL-------AAEAAQ--QRGDEARANQHLERA 144 (398)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHhcc-----cchHHHHHH-------HHHHHH--HCCCHHHHHHHHHHH
Confidence 4567888888899988887766543321 112333221 122222 257788888877543
No 209
>PRK14134 recX recombination regulator RecX; Provisional
Probab=23.24 E-value=4.7e+02 Score=24.32 Aligned_cols=72 Identities=13% Similarity=0.128 Sum_probs=0.0
Q ss_pred hhHHhCCCCHHHHHHHHHHhCCC--HHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHhC
Q 024447 149 SLVMSMGFKEQDAKRALRICSQD--VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVSI 226 (267)
Q Consensus 149 ~~L~~MGF~~~~Ar~ALr~~~gd--ve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~M 226 (267)
..|..-|.+.+....||.....+ .+.|..++.................+..+ +..|+.=
T Consensus 132 ~eL~qKGI~~~iIe~al~~~~~e~e~e~a~~l~~Kk~~~~~~~~~~~~k~k~Kl-------------------~~~L~rr 192 (283)
T PRK14134 132 YTLLNKGIKENIIIEKINNIDEEKEKKVAYKLAEKKYKILILSEKNKFKIYKKL-------------------GPYLISR 192 (283)
T ss_pred HHHHHCCCCHHHHHHHHHhCChhhHHHHHHHHHHHhhcccccccccHHHHHHHH-------------------HHHHHHC
Q ss_pred CCCHHHHHHHHHH
Q 024447 227 GFEKELVAEALRR 239 (267)
Q Consensus 227 GF~~~~A~~ALr~ 239 (267)
||+.+.+..+|+.
T Consensus 193 GFs~~~I~~vl~~ 205 (283)
T PRK14134 193 GYSSNIAEWILNE 205 (283)
T ss_pred CCCHHHHHHHHHH
No 210
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=22.83 E-value=1.4e+02 Score=26.75 Aligned_cols=53 Identities=17% Similarity=0.156 Sum_probs=37.9
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhh----hhHHHHHHHhCCCCC
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQ----IDMVWCYFMLRDISW 67 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~----ldivwcy~~l~~~~~ 67 (267)
...+-|+..++.|+|+.|+.+|-.+...|+. ++.-.|- .-...||..++|+..
T Consensus 180 l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~---------egW~~l~~~~l~~l~~Ca~~~~~~~~ 236 (247)
T PF11817_consen 180 LSLEMAEEYFRLGDYDKALKLLEPAASSYRR---------EGWWSLLTEVLWRLLECAKRLGDVED 236 (247)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHh---------CCcHHHHHHHHHHHHHHHHHhCCHHH
Confidence 3457799999999999999999999777763 3333333 334558888887653
No 211
>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.
Probab=22.70 E-value=67 Score=28.48 Aligned_cols=25 Identities=32% Similarity=0.581 Sum_probs=19.4
Q ss_pred CCChhhHhhHHhCCCCHHHHHHHHH
Q 024447 142 QVPDESLSLVMSMGFKEQDAKRALR 166 (267)
Q Consensus 142 ~vd~~~l~~L~~MGF~~~~Ar~ALr 166 (267)
++|++.|=-||+.|+++++|++-+-
T Consensus 202 ~idee~LFYL~SRGl~~~eA~~Liv 226 (229)
T PF01458_consen 202 QIDEEQLFYLMSRGLSEEEARKLIV 226 (229)
T ss_dssp ES-HHHHHHHHCTT--HHHHHHHHH
T ss_pred cCCHHHHHHHHHcCCCHHHHHHHHH
Confidence 5799999999999999999998653
No 212
>COG3626 PhnI Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.67 E-value=93 Score=29.63 Aligned_cols=32 Identities=28% Similarity=0.465 Sum_probs=26.3
Q ss_pred HHHHHhCC--CCHHHHHHHHHHcCCCHHHHHHhc
Q 024447 220 IKELVSIG--FEKELVAEALRRNENDSQKALDDL 251 (267)
Q Consensus 220 v~~L~~MG--F~~~~A~~ALr~t~ndve~AldlL 251 (267)
|+..|.=| |+++.|.-|+|+..||+-.|+=+|
T Consensus 45 VdRVM~EgslyDreLAALAikQa~GD~~EAIFLl 78 (367)
T COG3626 45 VDRVMTEGSLYDRELAALALKQASGDLVEAIFLL 78 (367)
T ss_pred HHHHhhccchhHHHHHHHHHHHhcchHHHHHHHH
Confidence 45555555 999999999999999999998654
No 213
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=22.62 E-value=2.7e+02 Score=21.87 Aligned_cols=41 Identities=7% Similarity=0.071 Sum_probs=29.5
Q ss_pred hhHhhHHhCCCCHHHHHHHHHHh--CCCHHHHHHHHHhhhhhh
Q 024447 146 ESLSLVMSMGFKEQDAKRALRIC--SQDVGSAIDFLVEEKAKR 186 (267)
Q Consensus 146 ~~l~~L~~MGF~~~~Ar~ALr~~--~gdve~A~~wL~~~~~d~ 186 (267)
..|..|.++|||..+.+..+... +++.+.....+.++....
T Consensus 48 ~~I~~lr~~G~~l~~I~~~l~~~~~~~~~~~~~~~l~~~~~~l 90 (108)
T cd04773 48 RLIHLLRRGGYLLEQIATVVEQLRHAGGTEALAAALEQRRVAL 90 (108)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHH
Confidence 45778999999999999999764 345666566665555444
No 214
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=22.04 E-value=1.4e+02 Score=27.89 Aligned_cols=31 Identities=23% Similarity=0.293 Sum_probs=23.5
Q ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHhhhh
Q 024447 154 MGFKEQDAKRALRICSQDVGSAIDFLVEEKA 184 (267)
Q Consensus 154 MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~ 184 (267)
.|-+..+|+.+|..++|+|..|+--+..+.+
T Consensus 246 ~~~~~~~a~~~l~~~~~~vk~a~~~~~~~~~ 276 (299)
T PRK05441 246 TGVSREEAEAALEAADGSVKLAIVMILTGLD 276 (299)
T ss_pred HCcCHHHHHHHHHHhCCCcHHHHHHHHhCCC
Confidence 4778888888888888888888876655543
No 215
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=21.86 E-value=1.3e+02 Score=28.53 Aligned_cols=37 Identities=30% Similarity=0.447 Sum_probs=32.2
Q ss_pred hhhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Q 024447 145 DESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVE 181 (267)
Q Consensus 145 ~~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~ 181 (267)
++.++-|.+-|.+...|..+++.++|.+..|++|+.+
T Consensus 175 ~~~~~~L~~~~~~~~~a~~~~~l~~G~p~~A~~~~~~ 211 (319)
T PRK08769 175 HEALAWLLAQGVSERAAQEALDAARGHPGLAAQWLRE 211 (319)
T ss_pred HHHHHHHHHcCCChHHHHHHHHHcCCCHHHHHHHhcC
Confidence 4666678888999999999999999999999999854
No 216
>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function.
Probab=21.77 E-value=60 Score=26.50 Aligned_cols=20 Identities=30% Similarity=0.345 Sum_probs=15.7
Q ss_pred HhHHHHHHhhchHHHHHHHH
Q 024447 9 ANAKSLIKRHMYKDALEVLT 28 (267)
Q Consensus 9 ek~r~~~~~~~y~~al~~ll 28 (267)
|+++.+++||||-.||.++=
T Consensus 1 e~A~~~~~rGnhiKAL~iie 20 (111)
T PF04781_consen 1 EKAKDYFARGNHIKALEIIE 20 (111)
T ss_pred ChHHHHHHccCHHHHHHHHH
Confidence 57788888888888888764
No 217
>PRK14136 recX recombination regulator RecX; Provisional
Probab=21.76 E-value=4.7e+02 Score=25.10 Aligned_cols=26 Identities=15% Similarity=0.411 Sum_probs=21.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHcCCC
Q 024447 218 EKIKELVSIGFEKELVAEALRRNEND 243 (267)
Q Consensus 218 e~v~~L~~MGF~~~~A~~ALr~t~nd 243 (267)
..+..|+.=||+-+.+..+|+...+.
T Consensus 280 K~iRfL~rRGFS~D~I~~vLk~~~de 305 (309)
T PRK14136 280 KQARFLAARGFSSATIVKLLKVGDDE 305 (309)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhchhc
Confidence 44778999999999999999876553
No 218
>TIGR00133 gatB glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit. The heterotrimer GatABC is responsible for transferring the NH2 group that converts Glu to Gln, or Asp to Asn after the Glu or Asp has been ligated to the tRNA for Gln or Asn, respectively. In Lactobacillus, GatABC is responsible only for tRNA(Gln). In the Archaea, GatABC is responsible only for tRNA(Asn), while GatDE is responsible for tRNA(Gln). In lineages that include Thermus, Chlamydia, or Acidithiobacillus, the GatABC complex catalyzes both.
Probab=21.76 E-value=8.5e+02 Score=24.68 Aligned_cols=90 Identities=18% Similarity=0.244 Sum_probs=50.4
Q ss_pred ChhhHhhHH-hCCCCHHHHHHHH------------HHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCC
Q 024447 144 PDESLSLVM-SMGFKEQDAKRAL------------RICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTP 210 (267)
Q Consensus 144 d~~~l~~L~-~MGF~~~~Ar~AL------------r~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~ 210 (267)
+++....++ ++|.+...|+.=. -..+.+...+.+||++..-..-. +-+.+.
T Consensus 301 P~~~~~R~~~~ygls~~~a~~L~~~~~~~~~fe~~~~~~~~~k~~anwl~~el~~~l~----------------~~~~~i 364 (478)
T TIGR00133 301 PSAKRIRLKKEYGLSEQDAKVLTSDLTLADYFEEVVKLIGDPKLAANWICIELLGVLN----------------KLQISL 364 (478)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHcChHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH----------------HCCCCH
Confidence 456666665 6799988886432 11244678888898765411100 001222
Q ss_pred CCCcCCHHHHHHHHhC---C-CCHHHHHHHHHH---cCCCHHHHHH
Q 024447 211 LKKAVDIEKIKELVSI---G-FEKELVAEALRR---NENDSQKALD 249 (267)
Q Consensus 211 ~~~~vd~e~v~~L~~M---G-F~~~~A~~ALr~---t~ndve~Ald 249 (267)
....++++.+..|+.| | .+...|+..|.. ++.+++..++
T Consensus 365 ~~~~l~p~~l~~Li~lv~~g~Is~~~ak~vl~~~~~~~~~~~~ii~ 410 (478)
T TIGR00133 365 AECGLKPSDLAELIKLIKEGKISGKSAKQLIEEMLENGGDPSKLIE 410 (478)
T ss_pred hhcCCCHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcCCCHHHHHH
Confidence 2234566666666555 3 677777766553 3556666665
No 219
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=21.43 E-value=99 Score=25.02 Aligned_cols=30 Identities=23% Similarity=0.542 Sum_probs=24.2
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhc
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFS 35 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~ 35 (267)
.+.+.++.++++++|+.|+.+|-.-+..|.
T Consensus 72 ~~~~~~~~~l~~g~~~~a~~ll~~~~~~~~ 101 (115)
T PF12793_consen 72 LLEQQAEELLEQGKYEQALQLLDFDQRQLA 101 (115)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHhCHHHHH
Confidence 356889999999999999999985555543
No 220
>PRK14135 recX recombination regulator RecX; Provisional
Probab=21.23 E-value=6e+02 Score=22.77 Aligned_cols=79 Identities=16% Similarity=0.205 Sum_probs=44.5
Q ss_pred hHhhHHhCCCCHHHHHHHHHHhCCC--HHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHH
Q 024447 147 SLSLVMSMGFKEQDAKRALRICSQD--VGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELV 224 (267)
Q Consensus 147 ~l~~L~~MGF~~~~Ar~ALr~~~gd--ve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~ 224 (267)
....|+.-||+.+....||....-+ .+.-.+-+.... ++ ..++++... ........+..|.
T Consensus 181 i~~~L~rkGf~~~~I~~~l~~~~~e~d~~~e~e~l~~~~-----------~k-----~~~k~~~~~-~~k~k~K~~~~L~ 243 (263)
T PRK14135 181 IIQSLLTKGFSYEVIKAALEELDLEQDEEEEQELLQKEL-----------EK-----AYRKYSKYD-GYELKQKLKQALY 243 (263)
T ss_pred HHHHHHhCCCCHHHHHHHHHHcccCCChHHHHHHHHHHH-----------HH-----HHHHHhcCC-HHHHHHHHHHHHH
Confidence 3457999999999999999876422 211111111100 00 001111100 0011224567899
Q ss_pred hCCCCHHHHHHHHHHcCC
Q 024447 225 SIGFEKELVAEALRRNEN 242 (267)
Q Consensus 225 ~MGF~~~~A~~ALr~t~n 242 (267)
.=||+-+.+..+|+....
T Consensus 244 rrGF~~~~I~~~l~~~~~ 261 (263)
T PRK14135 244 RKGFSYDDIDSFLREYGI 261 (263)
T ss_pred HCCCCHHHHHHHHHHhcc
Confidence 999999999999987644
No 221
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=21.06 E-value=68 Score=31.16 Aligned_cols=36 Identities=22% Similarity=0.290 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHcCCCHHHHHHhcc--CCCcchhhhhc
Q 024447 228 FEKELVAEALRRNENDSQKALDDLT--NPESNSAIQVT 263 (267)
Q Consensus 228 F~~~~A~~ALr~t~ndve~AldlL~--~pd~~~~l~~~ 263 (267)
|+++....||+.++||+.+|++.|- ....+.-|..+
T Consensus 429 ~E~~~i~~aL~~~~gn~~~aA~~Lgisr~tL~rkl~~~ 466 (469)
T PRK10923 429 LERTLLTTALRHTQGHKQEAARLLGWGRNTLTRKLKEL 466 (469)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHHHh
Confidence 6888999999999999999999764 33333444443
No 222
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=21.05 E-value=3.7e+02 Score=25.55 Aligned_cols=60 Identities=18% Similarity=0.146 Sum_probs=39.6
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR 79 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae 79 (267)
.+...|.++++.++|++|+..+-.|=+. ++ +.+...+-...+|+.+++ ..+|...+.+|-
T Consensus 38 a~~~~a~~~~~~g~~~eAl~~~~~Al~l----~P-------~~~~a~~~lg~~~~~lg~---~~eA~~~~~~al 97 (356)
T PLN03088 38 LYADRAQANIKLGNFTEAVADANKAIEL----DP-------SLAKAYLRKGTACMKLEE---YQTAKAALEKGA 97 (356)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHh----Cc-------CCHHHHHHHHHHHHHhCC---HHHHHHHHHHHH
Confidence 4677899999999999999987655332 12 334445566777777644 455655555544
No 223
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=20.88 E-value=1.2e+02 Score=24.36 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=18.7
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhhhhhh
Q 024447 160 DAKRALRICSQDVGSAIDFLVEEKAKR 186 (267)
Q Consensus 160 ~Ar~ALr~~~gdve~A~~wL~~~~~d~ 186 (267)
.-+.++ .+||++.|++|+.++....
T Consensus 7 ~I~~~I--~~g~i~~Ai~w~~~~~~~l 31 (145)
T PF10607_consen 7 KIRQAI--LNGDIDPAIEWLNENFPEL 31 (145)
T ss_pred HHHHHH--HcCCHHHHHHHHHHcCHHH
Confidence 344555 3899999999998887554
No 224
>PF14748 P5CR_dimer: Pyrroline-5-carboxylate reductase dimerisation; PDB: 2RCY_D 3TRI_A 2IZZ_B 2GR9_B 2GRA_B 2GER_C 1YQG_A 2AG8_A 3GT0_A 2AMF_E ....
Probab=20.82 E-value=3e+02 Score=21.58 Aligned_cols=67 Identities=16% Similarity=0.187 Sum_probs=40.9
Q ss_pred hhHhhHHhCCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHhhcCCCCCCCcCCHHHHHHHHh
Q 024447 146 ESLSLVMSMGFKEQDAKRALRICSQDVGSAIDFLVEEKAKRVKEREDNEQRRKEIMEQKRYGLTPLKKAVDIEKIKELVS 225 (267)
Q Consensus 146 ~~l~~L~~MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d~~~~~~~~~e~~~~~~~~~~~~~~~~~~~vd~e~v~~L~~ 225 (267)
..+...+.+|++++.|++....+ +.-+...+.+...++...++ + -.+|.| +..+.|..|..
T Consensus 26 al~~a~v~~Gl~~~~A~~lv~~t---~~G~a~ll~~~~~~~~~l~~-----~---------v~tPgG--~T~~gl~~L~~ 86 (107)
T PF14748_consen 26 ALADAAVAQGLPREEARKLVAQT---FIGAAKLLEESGRSPAELRD-----E---------VTTPGG--TTIAGLEVLEK 86 (107)
T ss_dssp HHHHHHHHTT--HHHHHHHHHHH---HHHHHHHHHHCSS-HHHHHH-----H---------HS-TTS--HHHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHH---HHHHHHHHHccCCCHHHHhh-----h---------ccCCCC--cHHHHHHHHHH
Confidence 44566788999999999998764 56677777654444433211 1 123333 35678889988
Q ss_pred CCCCHH
Q 024447 226 IGFEKE 231 (267)
Q Consensus 226 MGF~~~ 231 (267)
-||..-
T Consensus 87 ~~~~~~ 92 (107)
T PF14748_consen 87 GGLRAA 92 (107)
T ss_dssp TTHHHH
T ss_pred CCHHHH
Confidence 888664
No 225
>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=20.80 E-value=1.3e+02 Score=28.25 Aligned_cols=32 Identities=19% Similarity=0.206 Sum_probs=25.1
Q ss_pred CCCCHHHHHHHHHHhCCCHHHHHHHHHhhhhh
Q 024447 154 MGFKEQDAKRALRICSQDVGSAIDFLVEEKAK 185 (267)
Q Consensus 154 MGF~~~~Ar~ALr~~~gdve~A~~wL~~~~~d 185 (267)
.|-+..+|+.+|..++|+|..|+--+..+.+-
T Consensus 241 ~~~~~~~a~~~l~~~~~~vk~Ai~~~~~~~~~ 272 (291)
T TIGR00274 241 TDCNKELAEQTLLAADQNVKLAIVMILSTLSA 272 (291)
T ss_pred hCcCHHHHHHHHHHhCCCcHHHHHHHHhCCCH
Confidence 57888899999999999999888766555433
No 226
>PF04010 DUF357: Protein of unknown function (DUF357); InterPro: IPR023140 This domain is found in a family of proteins, which have no known function.; PDB: 2OO2_A 2PMR_A.
Probab=20.63 E-value=1.3e+02 Score=22.60 Aligned_cols=28 Identities=18% Similarity=0.305 Sum_probs=23.2
Q ss_pred hhhhhhHhHHHHHHhhchHHHHHHHHhh
Q 024447 3 MGLMLHANAKSLIKRHMYKDALEVLTMG 30 (267)
Q Consensus 3 ~~~~l~ek~r~~~~~~~y~~al~~ll~a 30 (267)
||-.+.+-|+-+++++++-.||..+-=|
T Consensus 34 mA~~Y~~D~~~fl~~gD~v~Ala~~sYa 61 (75)
T PF04010_consen 34 MAESYLEDGKYFLEKGDYVNALACFSYA 61 (75)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 6778889999999999999999887544
No 227
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=20.22 E-value=2.1e+02 Score=23.19 Aligned_cols=60 Identities=15% Similarity=0.011 Sum_probs=40.7
Q ss_pred hhhHhHHHHHHhhchHHHHHHHHhhhhhhccCChhhhhhccchhhhhhhHHHHHHHhCCCCCHHHHHHHHHHHH
Q 024447 6 MLHANAKSLIKRHMYKDALEVLTMGEEAFSLCDPKVLEFVDNGPLLQIDMVWCYFMLRDISWLSEAGIRLRKAR 79 (267)
Q Consensus 6 ~l~ek~r~~~~~~~y~~al~~ll~ad~~f~~c~~~~l~~vDn~a~l~ldivwcy~~l~~~~~l~dA~~rL~~ae 79 (267)
.++.+|..+.+.++|++|+..+-.|= ..-.+++-.-.-...||+.++ ...+|..-+.+|-
T Consensus 60 a~~~lg~~~~~~g~~~~A~~~y~~Al-----------~l~p~~~~a~~~lg~~l~~~g---~~~eAi~~~~~Al 119 (144)
T PRK15359 60 AHIALAGTWMMLKEYTTAINFYGHAL-----------MLDASHPEPVYQTGVCLKMMG---EPGLAREAFQTAI 119 (144)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHH-----------hcCCCCcHHHHHHHHHHHHcC---CHHHHHHHHHHHH
Confidence 46789999999999999998876552 333444555555666777654 4566666665553
No 228
>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=20.15 E-value=6.5e+02 Score=22.72 Aligned_cols=25 Identities=8% Similarity=0.013 Sum_probs=18.1
Q ss_pred HHHHHHhhhhccCCchhHhhhhHhh
Q 024447 110 MELLEGVAAYHSGQFDKARNALTSA 134 (267)
Q Consensus 110 L~lLqg~v~~h~g~~d~A~~~l~~a 134 (267)
.+..-+.+....|+.++|...+..+
T Consensus 188 ~~~~la~~~~~~G~~~~A~~~~~~~ 212 (355)
T cd05804 188 NWWHLALFYLERGDYEAALAIYDTH 212 (355)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3344466677889999999888765
Done!