Query 018294
Match_columns 358
No_of_seqs 208 out of 1146
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 07:46:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018294.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018294hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1464 COP9 signalosome, subu 100.0 7.6E-72 1.6E-76 488.3 29.7 355 1-357 84-439 (440)
2 KOG1463 26S proteasome regulat 100.0 5.7E-54 1.2E-58 384.9 25.9 333 4-348 70-410 (411)
3 COG5159 RPN6 26S proteasome re 100.0 2.9E-46 6.3E-51 328.9 27.2 341 3-355 66-415 (421)
4 KOG1498 26S proteasome regulat 100.0 4.9E-38 1.1E-42 287.4 21.4 320 17-356 85-423 (439)
5 KOG0687 26S proteasome regulat 100.0 3.1E-31 6.6E-36 237.5 29.1 277 67-354 107-392 (393)
6 COG5071 RPN5 26S proteasome re 100.0 8E-31 1.7E-35 232.5 19.8 319 17-355 85-422 (439)
7 KOG0686 COP9 signalosome, subu 100.0 3.8E-28 8.1E-33 223.5 19.0 263 68-344 154-426 (466)
8 COG5187 RPN7 26S proteasome re 100.0 1.2E-26 2.6E-31 205.2 26.6 278 67-353 118-405 (412)
9 KOG1497 COP9 signalosome, subu 100.0 5E-27 1.1E-31 209.8 24.2 335 4-355 24-389 (399)
10 KOG2908 26S proteasome regulat 100.0 5.2E-26 1.1E-30 205.2 29.3 280 65-356 71-374 (380)
11 KOG2758 Translation initiation 99.9 2.7E-22 5.9E-27 179.7 21.7 275 65-355 130-423 (432)
12 PF01399 PCI: PCI domain; Int 99.8 7.9E-20 1.7E-24 144.0 12.0 105 224-328 1-105 (105)
13 KOG2581 26S proteasome regulat 99.8 5.4E-16 1.2E-20 143.5 28.3 225 114-349 213-450 (493)
14 smart00088 PINT motif in prote 99.6 4E-15 8.7E-20 113.4 8.6 72 261-332 2-73 (88)
15 smart00753 PAM PCI/PINT associ 99.6 4E-15 8.7E-20 113.4 8.6 72 261-332 2-73 (88)
16 KOG2582 COP9 signalosome, subu 99.6 4.6E-13 1E-17 122.7 21.9 299 43-354 75-389 (422)
17 PF10602 RPN7: 26S proteasome 99.4 4.3E-12 9.3E-17 109.3 15.8 135 59-202 30-168 (177)
18 KOG2753 Uncharacterized conser 99.3 5.5E-09 1.2E-13 95.0 24.8 173 166-343 181-361 (378)
19 COG5600 Transcription-associat 99.2 5.7E-09 1.2E-13 96.6 23.3 246 79-331 145-406 (413)
20 KOG2688 Transcription-associat 99.1 1E-08 2.3E-13 96.8 18.2 240 80-331 132-387 (394)
21 KOG1076 Translation initiation 99.1 2.3E-07 5E-12 91.8 27.8 239 112-352 488-786 (843)
22 PF14938 SNAP: Soluble NSF att 97.9 0.0013 2.9E-08 60.9 17.6 175 78-258 88-270 (282)
23 KOG2072 Translation initiation 97.7 0.075 1.6E-06 54.6 30.8 76 252-327 416-492 (988)
24 PF10075 PCI_Csn8: COP9 signal 97.7 8.1E-05 1.8E-09 61.8 6.5 84 220-307 38-121 (143)
25 PF10255 Paf67: RNA polymerase 97.6 0.0028 6.1E-08 61.1 16.5 181 115-305 127-343 (404)
26 PF09976 TPR_21: Tetratricopep 97.5 0.0055 1.2E-07 50.8 14.3 95 66-176 50-144 (145)
27 KOG3250 COP9 signalosome, subu 97.2 0.0017 3.7E-08 56.1 7.6 128 220-357 56-191 (258)
28 PF14938 SNAP: Soluble NSF att 96.9 0.18 3.9E-06 46.7 19.3 149 19-176 72-222 (282)
29 PF03399 SAC3_GANP: SAC3/GANP/ 96.7 0.0072 1.6E-07 53.1 8.2 105 185-295 95-204 (204)
30 KOG1861 Leucine permease trans 96.6 0.014 3E-07 56.3 9.7 140 151-297 349-492 (540)
31 KOG2003 TPR repeat-containing 96.6 0.24 5.3E-06 48.0 17.9 104 69-191 529-634 (840)
32 TIGR02795 tol_pal_ybgF tol-pal 96.6 0.038 8.3E-07 43.1 10.9 103 67-181 5-107 (119)
33 PRK02603 photosystem I assembl 96.2 0.3 6.4E-06 41.5 15.1 106 68-182 39-145 (172)
34 cd00189 TPR Tetratricopeptide 96.1 0.087 1.9E-06 37.9 10.0 93 68-178 4-96 (100)
35 PF09756 DDRGK: DDRGK domain; 96.0 0.012 2.5E-07 50.9 5.1 58 272-329 102-159 (188)
36 KOG2908 26S proteasome regulat 96.0 0.27 5.8E-06 46.0 14.0 97 40-143 91-187 (380)
37 PF13424 TPR_12: Tetratricopep 95.8 0.051 1.1E-06 39.5 7.3 68 67-139 8-75 (78)
38 PF09012 FeoC: FeoC like trans 95.8 0.017 3.7E-07 41.4 4.5 48 273-320 4-51 (69)
39 PF13432 TPR_16: Tetratricopep 95.8 0.063 1.4E-06 37.4 7.4 59 69-139 2-60 (65)
40 CHL00033 ycf3 photosystem I as 95.5 0.22 4.8E-06 42.1 11.2 106 68-182 39-145 (168)
41 PF13424 TPR_12: Tetratricopep 95.5 0.14 3.1E-06 37.0 8.6 71 109-179 4-75 (78)
42 PF12569 NARP1: NMDA receptor- 95.4 1.1 2.4E-05 45.2 17.3 105 67-183 197-338 (517)
43 TIGR02552 LcrH_SycD type III s 95.3 0.19 4.2E-06 40.3 9.8 94 68-179 21-114 (135)
44 PF04190 DUF410: Protein of un 95.2 0.11 2.3E-06 47.7 8.7 185 68-264 14-233 (260)
45 PF12895 Apc3: Anaphase-promot 95.2 0.18 3.9E-06 37.2 8.5 83 76-175 1-83 (84)
46 KOG1840 Kinesin light chain [C 95.2 0.38 8.3E-06 48.1 12.9 108 69-181 246-356 (508)
47 PRK15363 pathogenicity island 95.0 1 2.2E-05 37.8 13.0 95 68-180 39-133 (157)
48 KOG1586 Protein required for f 94.9 2 4.4E-05 38.4 15.1 43 216-258 227-269 (288)
49 COG2956 Predicted N-acetylgluc 94.9 3.3 7.2E-05 38.8 17.5 96 68-176 145-240 (389)
50 KOG1840 Kinesin light chain [C 94.8 1.5 3.3E-05 44.0 16.0 110 67-180 286-397 (508)
51 PRK10370 formate-dependent nit 94.8 0.6 1.3E-05 40.8 11.9 136 43-202 55-194 (198)
52 TIGR02521 type_IV_pilW type IV 94.8 0.71 1.5E-05 39.8 12.5 94 67-178 34-127 (234)
53 KOG2002 TPR-containing nuclear 94.7 0.22 4.9E-06 52.3 10.1 99 68-180 274-372 (1018)
54 PF09976 TPR_21: Tetratricopep 94.7 0.24 5.3E-06 40.8 8.7 120 3-136 13-144 (145)
55 COG3063 PilF Tfp pilus assembl 94.6 0.56 1.2E-05 41.7 11.0 114 66-200 37-150 (250)
56 PRK15359 type III secretion sy 94.6 0.38 8.1E-06 39.7 9.6 92 69-178 29-120 (144)
57 PF13414 TPR_11: TPR repeat; P 94.3 0.32 7E-06 34.1 7.6 60 68-139 7-67 (69)
58 PRK11788 tetratricopeptide rep 94.3 2.4 5.1E-05 40.6 15.9 22 70-91 220-241 (389)
59 KOG2003 TPR repeat-containing 94.0 6.7 0.00015 38.4 19.8 145 16-178 374-518 (840)
60 PLN03088 SGT1, suppressor of 93.9 0.5 1.1E-05 45.4 10.3 92 69-178 7-98 (356)
61 TIGR02521 type_IV_pilW type IV 93.6 0.79 1.7E-05 39.5 10.3 97 67-179 68-164 (234)
62 KOG3081 Vesicle coat complex C 93.4 2.1 4.5E-05 39.0 12.4 44 157-205 214-257 (299)
63 PF13414 TPR_11: TPR repeat; P 93.4 0.61 1.3E-05 32.7 7.6 63 110-178 3-66 (69)
64 COG5010 TadD Flp pilus assembl 93.2 1 2.2E-05 40.7 10.1 91 70-178 106-196 (257)
65 PF12895 Apc3: Anaphase-promot 93.1 0.36 7.9E-06 35.6 6.3 56 68-136 29-84 (84)
66 PF14559 TPR_19: Tetratricopep 92.9 0.33 7.2E-06 33.9 5.6 52 75-138 2-53 (68)
67 PF13429 TPR_15: Tetratricopep 92.8 1.5 3.2E-05 40.2 11.3 92 69-178 151-242 (280)
68 PF08784 RPA_C: Replication pr 92.5 0.13 2.8E-06 39.9 3.2 38 282-319 64-101 (102)
69 TIGR03302 OM_YfiO outer membra 92.4 2 4.4E-05 38.0 11.3 103 67-181 36-146 (235)
70 TIGR00990 3a0801s09 mitochondr 92.1 0.99 2.1E-05 46.6 10.0 94 68-179 335-428 (615)
71 KOG3054 Uncharacterized conser 92.0 0.28 6.1E-06 43.4 4.8 55 275-329 206-260 (299)
72 PRK15431 ferrous iron transpor 91.9 0.31 6.8E-06 35.5 4.2 50 274-324 7-57 (78)
73 KOG2300 Uncharacterized conser 91.7 8 0.00017 38.3 14.7 116 50-170 390-505 (629)
74 TIGR03302 OM_YfiO outer membra 91.6 9.2 0.0002 33.7 15.9 108 66-182 72-198 (235)
75 TIGR00990 3a0801s09 mitochondr 91.6 1.2 2.6E-05 45.9 10.0 95 68-180 369-463 (615)
76 PRK11788 tetratricopeptide rep 91.5 1.9 4.1E-05 41.3 10.8 99 68-179 111-209 (389)
77 KOG1173 Anaphase-promoting com 91.5 1.3 2.9E-05 44.2 9.4 85 43-139 433-518 (611)
78 PF13371 TPR_9: Tetratricopept 91.3 0.98 2.1E-05 31.9 6.6 58 70-139 1-58 (73)
79 KOG1156 N-terminal acetyltrans 91.2 3.6 7.7E-05 41.9 12.1 171 74-269 17-192 (700)
80 PRK10803 tol-pal system protei 91.1 2.9 6.4E-05 38.3 10.9 95 75-182 154-249 (263)
81 PF13432 TPR_16: Tetratricopep 91.0 1.2 2.5E-05 30.8 6.5 57 116-178 3-59 (65)
82 KOG0543 FKBP-type peptidyl-pro 91.0 2.5 5.5E-05 40.6 10.5 104 69-178 213-319 (397)
83 COG3355 Predicted transcriptio 90.8 2.7 5.8E-05 33.8 9.0 80 276-355 35-120 (126)
84 PF12688 TPR_5: Tetratrico pep 90.6 6.9 0.00015 31.2 11.4 99 67-177 4-102 (120)
85 KOG1585 Protein required for f 90.4 11 0.00024 34.1 13.2 135 107-247 88-252 (308)
86 PRK11189 lipoprotein NlpI; Pro 90.1 2.7 5.8E-05 39.1 10.0 93 68-178 68-160 (296)
87 PF13525 YfiO: Outer membrane 90.1 9.5 0.00021 33.3 13.0 103 68-182 9-122 (203)
88 PF08220 HTH_DeoR: DeoR-like h 90.0 1.1 2.3E-05 30.8 5.3 52 271-326 2-53 (57)
89 TIGR02795 tol_pal_ybgF tol-pal 89.9 3.9 8.4E-05 31.4 9.5 65 66-139 41-105 (119)
90 PF13412 HTH_24: Winged helix- 89.8 0.75 1.6E-05 30.0 4.4 41 274-314 8-48 (48)
91 cd05804 StaR_like StaR_like; a 89.6 2.3 5E-05 40.2 9.3 95 69-177 119-213 (355)
92 KOG1156 N-terminal acetyltrans 89.5 4.5 9.8E-05 41.2 11.3 106 67-184 374-516 (700)
93 PF13525 YfiO: Outer membrane 89.2 14 0.00031 32.2 15.5 125 65-198 43-187 (203)
94 KOG1129 TPR repeat-containing 88.9 2.7 5.8E-05 39.5 8.6 96 68-181 294-389 (478)
95 PRK10049 pgaA outer membrane p 88.7 4.8 0.0001 42.8 11.8 96 68-181 363-458 (765)
96 TIGR00373 conserved hypothetic 88.7 5 0.00011 33.7 9.6 73 281-356 26-100 (158)
97 COG2976 Uncharacterized protei 88.5 6.3 0.00014 34.3 10.1 98 67-180 92-189 (207)
98 PF02082 Rrf2: Transcriptional 88.1 2.9 6.3E-05 30.9 7.0 47 283-330 25-71 (83)
99 smart00550 Zalpha Z-DNA-bindin 88.0 1 2.3E-05 32.0 4.3 43 273-315 10-54 (68)
100 TIGR03504 FimV_Cterm FimV C-te 87.9 0.55 1.2E-05 30.4 2.5 27 67-93 2-28 (44)
101 PRK10803 tol-pal system protei 87.8 5.9 0.00013 36.3 10.3 64 66-138 182-245 (263)
102 PRK15331 chaperone protein Sic 87.8 16 0.00034 30.9 12.5 94 68-179 41-134 (165)
103 PF13512 TPR_18: Tetratricopep 87.8 12 0.00025 30.9 10.9 85 69-165 15-99 (142)
104 PRK10866 outer membrane biogen 87.0 23 0.00049 32.0 16.0 128 65-199 70-222 (243)
105 PRK06266 transcription initiat 86.9 6.8 0.00015 33.7 9.5 100 253-356 5-108 (178)
106 KOG4414 COP9 signalosome, subu 86.7 2.2 4.8E-05 34.9 5.9 82 221-306 74-155 (197)
107 PF12569 NARP1: NMDA receptor- 86.2 41 0.00089 34.1 18.4 64 107-176 191-254 (517)
108 COG4105 ComL DNA uptake lipopr 86.0 14 0.0003 33.6 11.2 135 43-184 34-201 (254)
109 smart00345 HTH_GNTR helix_turn 85.7 1.7 3.8E-05 29.2 4.4 46 269-314 5-51 (60)
110 KOG2076 RNA polymerase III tra 85.6 11 0.00024 39.9 11.6 26 68-93 143-168 (895)
111 PF12802 MarR_2: MarR family; 85.4 2.5 5.4E-05 28.9 5.1 40 283-322 21-60 (62)
112 TIGR02917 PEP_TPR_lipo putativ 85.4 22 0.00047 37.5 14.7 56 70-137 742-797 (899)
113 PF03704 BTAD: Bacterial trans 85.3 7.2 0.00016 31.7 8.8 103 19-139 23-125 (146)
114 PF04733 Coatomer_E: Coatomer 85.2 8.4 0.00018 35.8 10.0 54 69-139 107-160 (290)
115 PF13174 TPR_6: Tetratricopept 85.0 1.8 3.8E-05 25.1 3.7 28 68-95 4-31 (33)
116 PF09295 ChAPs: ChAPs (Chs5p-A 85.0 21 0.00045 34.8 12.9 86 68-171 204-289 (395)
117 KOG3677 RNA polymerase I-assoc 85.0 11 0.00024 36.5 10.6 202 113-328 238-485 (525)
118 TIGR02917 PEP_TPR_lipo putativ 84.9 9 0.0002 40.4 11.4 58 69-138 164-221 (899)
119 COG1497 Predicted transcriptio 84.8 6.6 0.00014 35.1 8.4 72 274-353 16-87 (260)
120 PRK11447 cellulose synthase su 84.1 6.4 0.00014 44.0 10.2 95 66-178 605-699 (1157)
121 KOG4626 O-linked N-acetylgluco 84.0 29 0.00062 35.7 13.3 114 1-140 305-418 (966)
122 KOG4626 O-linked N-acetylgluco 83.9 29 0.00062 35.7 13.2 91 69-177 325-415 (966)
123 PRK11447 cellulose synthase su 83.6 7.3 0.00016 43.5 10.4 93 65-179 574-666 (1157)
124 KOG1155 Anaphase-promoting com 83.5 21 0.00046 35.2 11.9 96 68-177 436-534 (559)
125 PRK15174 Vi polysaccharide exp 83.5 16 0.00035 38.2 12.2 93 69-179 289-381 (656)
126 PF13371 TPR_9: Tetratricopept 83.2 6 0.00013 27.7 6.5 55 118-178 3-57 (73)
127 PRK12370 invasion protein regu 83.1 8.1 0.00017 39.4 9.7 24 70-93 344-367 (553)
128 COG2976 Uncharacterized protei 82.8 5.1 0.00011 34.8 6.8 63 65-140 127-189 (207)
129 cd07377 WHTH_GntR Winged helix 82.7 4.4 9.5E-05 27.8 5.5 52 263-314 4-56 (66)
130 smart00420 HTH_DEOR helix_turn 82.4 2.3 5.1E-05 27.7 3.8 33 282-314 13-45 (53)
131 KOG0553 TPR repeat-containing 82.3 14 0.00031 34.2 9.9 90 71-178 88-177 (304)
132 PF01047 MarR: MarR family; I 82.3 3.7 7.9E-05 27.8 4.8 49 274-322 8-56 (59)
133 PF13176 TPR_7: Tetratricopept 82.3 1.7 3.6E-05 26.4 2.8 26 69-94 4-29 (36)
134 TIGR00540 hemY_coli hemY prote 82.2 46 0.00099 32.4 14.3 92 69-177 89-180 (409)
135 PF04733 Coatomer_E: Coatomer 82.1 6.7 0.00015 36.5 8.0 113 69-205 136-251 (290)
136 PF04703 FaeA: FaeA-like prote 82.1 2.2 4.8E-05 29.8 3.6 34 281-314 13-46 (62)
137 PF01022 HTH_5: Bacterial regu 81.9 4.3 9.3E-05 26.4 4.8 43 270-314 4-46 (47)
138 COG3063 PilF Tfp pilus assembl 81.8 34 0.00074 30.7 11.6 96 65-177 104-199 (250)
139 PRK10857 DNA-binding transcrip 81.7 6.1 0.00013 33.5 6.9 47 282-328 24-70 (164)
140 smart00347 HTH_MARR helix_turn 81.5 13 0.00028 27.7 8.2 40 282-321 23-62 (101)
141 TIGR02010 IscR iron-sulfur clu 81.4 8 0.00017 31.4 7.3 47 282-328 24-70 (135)
142 smart00344 HTH_ASNC helix_turn 81.0 3.3 7.2E-05 32.0 4.8 46 274-319 8-56 (108)
143 PF08279 HTH_11: HTH domain; 80.8 5.2 0.00011 26.7 5.1 40 272-311 3-43 (55)
144 COG4700 Uncharacterized protei 80.7 21 0.00046 31.0 9.7 100 67-181 92-191 (251)
145 PRK11920 rirA iron-responsive 80.5 6.5 0.00014 32.9 6.6 48 281-328 22-69 (153)
146 PF10345 Cohesin_load: Cohesin 80.3 76 0.0017 32.8 23.7 140 40-186 30-175 (608)
147 PRK11014 transcriptional repre 80.1 5.1 0.00011 32.9 5.8 61 269-329 11-71 (141)
148 cd00090 HTH_ARSR Arsenical Res 80.0 10 0.00022 26.3 6.8 45 284-328 21-65 (78)
149 KOG3024 Uncharacterized conser 79.7 51 0.0011 30.5 13.5 44 219-262 230-273 (312)
150 PRK09954 putative kinase; Prov 79.4 4.4 9.5E-05 38.8 6.0 54 274-327 8-64 (362)
151 PRK10049 pgaA outer membrane p 79.4 28 0.00061 37.1 12.6 104 69-178 315-421 (765)
152 PRK15174 Vi polysaccharide exp 79.4 12 0.00027 39.0 9.7 91 69-177 251-345 (656)
153 TIGR03879 near_KaiC_dom probab 79.2 2.8 6.1E-05 30.3 3.4 37 277-313 26-62 (73)
154 PRK04841 transcriptional regul 79.0 52 0.0011 35.5 14.7 107 67-178 534-640 (903)
155 KOG0495 HAT repeat protein [RN 78.9 87 0.0019 32.6 16.5 104 63-184 684-787 (913)
156 PF00392 GntR: Bacterial regul 78.9 6.5 0.00014 27.3 5.3 51 264-314 4-55 (64)
157 PRK09782 bacteriophage N4 rece 78.7 14 0.0003 40.5 10.1 23 116-138 615-637 (987)
158 KOG0624 dsRNA-activated protei 78.0 66 0.0014 30.8 19.4 238 67-354 41-281 (504)
159 COG2956 Predicted N-acetylgluc 78.0 64 0.0014 30.6 13.3 105 21-138 126-242 (389)
160 PF13429 TPR_15: Tetratricopep 77.6 11 0.00024 34.4 7.9 92 69-178 185-276 (280)
161 TIGR02552 LcrH_SycD type III s 77.5 12 0.00026 29.6 7.3 60 68-139 55-114 (135)
162 KOG0495 HAT repeat protein [RN 77.5 22 0.00047 36.7 10.1 113 69-194 724-860 (913)
163 PLN03088 SGT1, suppressor of 77.2 15 0.00032 35.3 8.8 74 68-155 40-113 (356)
164 PF13181 TPR_8: Tetratricopept 77.1 7.9 0.00017 22.6 4.6 29 111-139 2-30 (34)
165 KOG1125 TPR repeat-containing 77.1 8.1 0.00018 38.8 7.0 95 65-178 431-526 (579)
166 KOG1070 rRNA processing protei 77.1 27 0.00058 39.1 11.2 82 41-141 1514-1595(1710)
167 cd00189 TPR Tetratricopeptide 77.0 13 0.00029 25.8 6.9 59 68-138 38-96 (100)
168 PF07719 TPR_2: Tetratricopept 76.7 5.6 0.00012 23.1 3.9 28 67-94 4-31 (34)
169 PRK11179 DNA-binding transcrip 76.6 4.7 0.0001 33.6 4.6 45 275-319 15-62 (153)
170 COG1729 Uncharacterized protei 76.4 41 0.0009 30.7 10.9 59 70-137 184-242 (262)
171 KOG1941 Acetylcholine receptor 76.3 65 0.0014 31.0 12.3 67 113-179 125-191 (518)
172 PF13404 HTH_AsnC-type: AsnC-t 76.3 4.6 0.0001 25.7 3.5 34 274-307 8-41 (42)
173 PRK12370 invasion protein regu 76.0 17 0.00037 37.0 9.5 92 68-176 376-467 (553)
174 TIGR00540 hemY_coli hemY prote 76.0 22 0.00047 34.7 9.9 92 68-176 122-213 (409)
175 smart00419 HTH_CRP helix_turn_ 75.7 4.4 9.4E-05 25.9 3.4 32 283-314 8-39 (48)
176 TIGR02337 HpaR homoprotocatech 75.6 23 0.00051 27.7 8.3 48 281-328 40-90 (118)
177 KOG1126 DNA-binding cell divis 75.4 1E+02 0.0022 31.7 15.4 30 63-94 354-383 (638)
178 smart00418 HTH_ARSR helix_turn 75.3 8.4 0.00018 25.9 5.0 44 281-324 8-51 (66)
179 TIGR02787 codY_Gpos GTP-sensin 75.2 9.7 0.00021 34.2 6.3 60 257-316 152-231 (251)
180 PRK11169 leucine-responsive tr 75.0 6.2 0.00013 33.3 5.0 48 272-319 17-67 (164)
181 PRK14574 hmsH outer membrane p 75.0 30 0.00065 37.2 11.1 98 67-182 419-516 (822)
182 PF13601 HTH_34: Winged helix 74.7 19 0.00041 26.4 7.0 49 274-322 5-53 (80)
183 KOG2796 Uncharacterized conser 74.7 71 0.0015 29.4 12.2 100 67-179 180-281 (366)
184 PF00325 Crp: Bacterial regula 74.2 5.6 0.00012 23.8 3.2 30 284-313 3-32 (32)
185 PF09339 HTH_IclR: IclR helix- 74.2 7.5 0.00016 25.7 4.3 33 282-314 17-49 (52)
186 PRK04841 transcriptional regul 74.1 65 0.0014 34.7 13.8 106 68-179 495-602 (903)
187 KOG3060 Uncharacterized conser 74.1 71 0.0015 29.2 13.2 61 69-139 159-220 (289)
188 KOG2002 TPR-containing nuclear 74.0 37 0.0008 36.5 11.1 97 63-177 495-591 (1018)
189 PF01325 Fe_dep_repress: Iron 73.9 8.4 0.00018 26.6 4.6 38 277-314 16-53 (60)
190 PF07719 TPR_2: Tetratricopept 73.8 6 0.00013 23.0 3.5 24 155-178 6-29 (34)
191 PF10300 DUF3808: Protein of u 73.6 47 0.001 33.2 11.6 103 78-201 247-351 (468)
192 PRK10747 putative protoheme IX 73.2 29 0.00064 33.7 10.0 90 67-178 266-356 (398)
193 COG1959 Predicted transcriptio 73.2 11 0.00023 31.4 5.9 54 272-325 12-67 (150)
194 PRK15179 Vi polysaccharide bio 72.9 44 0.00095 35.2 11.6 28 68-95 90-117 (694)
195 PF10602 RPN7: 26S proteasome 72.8 59 0.0013 27.7 12.3 92 107-201 33-125 (177)
196 COG1729 Uncharacterized protei 72.8 77 0.0017 29.0 11.8 104 68-184 145-249 (262)
197 COG1522 Lrp Transcriptional re 72.7 6.4 0.00014 32.4 4.5 45 275-319 14-61 (154)
198 PF13428 TPR_14: Tetratricopep 72.6 7.1 0.00015 24.7 3.8 28 68-95 5-32 (44)
199 PF13181 TPR_8: Tetratricopept 72.4 7.2 0.00016 22.7 3.6 27 67-93 4-30 (34)
200 KOG2300 Uncharacterized conser 72.3 1.1E+02 0.0024 30.6 19.2 101 78-178 289-395 (629)
201 COG3071 HemY Uncharacterized e 72.0 99 0.0021 29.9 13.8 92 65-177 264-355 (400)
202 KOG3151 26S proteasome regulat 72.0 75 0.0016 28.5 13.0 146 151-301 57-210 (260)
203 PF14559 TPR_19: Tetratricopep 71.7 10 0.00023 26.0 4.8 52 121-178 2-53 (68)
204 TIGR01764 excise DNA binding d 71.3 21 0.00045 22.6 5.9 37 284-326 2-38 (49)
205 cd00092 HTH_CRP helix_turn_hel 71.2 6 0.00013 27.3 3.5 34 282-315 24-57 (67)
206 PRK15359 type III secretion sy 71.1 16 0.00035 29.9 6.6 62 67-140 61-122 (144)
207 PF11817 Foie-gras_1: Foie gra 70.8 50 0.0011 29.8 10.3 78 45-128 159-236 (247)
208 PF12728 HTH_17: Helix-turn-he 70.6 20 0.00042 23.4 5.7 37 284-326 2-38 (51)
209 PF12840 HTH_20: Helix-turn-he 70.3 11 0.00023 25.9 4.5 37 279-315 20-56 (61)
210 PF13463 HTH_27: Winged helix 70.3 18 0.0004 24.9 5.9 43 279-321 14-56 (68)
211 PRK14574 hmsH outer membrane p 69.8 73 0.0016 34.3 12.6 102 69-176 372-476 (822)
212 KOG1586 Protein required for f 69.2 89 0.0019 28.3 15.1 51 226-279 199-254 (288)
213 KOG2041 WD40 repeat protein [G 69.0 1.3E+02 0.0028 31.7 13.2 56 117-176 767-822 (1189)
214 KOG3252 Uncharacterized conser 68.5 24 0.00051 30.4 6.8 93 222-328 97-190 (217)
215 KOG1941 Acetylcholine receptor 68.3 1.2E+02 0.0026 29.3 13.2 144 40-186 131-282 (518)
216 TIGR02944 suf_reg_Xantho FeS a 68.2 10 0.00023 30.4 4.7 36 282-317 24-59 (130)
217 PF13176 TPR_7: Tetratricopept 67.8 12 0.00026 22.5 3.9 25 115-139 4-28 (36)
218 PRK10866 outer membrane biogen 67.7 94 0.002 28.0 12.0 59 67-134 178-236 (243)
219 KOG3785 Uncharacterized conser 67.5 89 0.0019 30.0 11.0 57 68-136 61-117 (557)
220 PF01978 TrmB: Sugar-specific 66.9 9.3 0.0002 26.8 3.7 38 280-317 19-56 (68)
221 PF13545 HTH_Crp_2: Crp-like h 66.4 9.2 0.0002 27.2 3.7 44 283-330 28-71 (76)
222 PF13374 TPR_10: Tetratricopep 66.4 11 0.00023 22.9 3.5 29 68-96 6-34 (42)
223 PRK10747 putative protoheme IX 65.9 78 0.0017 30.7 11.2 92 69-177 89-180 (398)
224 COG4235 Cytochrome c biogenesi 65.9 1.1E+02 0.0025 28.3 11.4 119 39-177 134-254 (287)
225 PF07721 TPR_4: Tetratricopept 65.8 6.7 0.00015 21.8 2.2 22 67-88 4-25 (26)
226 PF04545 Sigma70_r4: Sigma-70, 65.7 16 0.00035 23.8 4.4 29 281-309 18-46 (50)
227 PRK10411 DNA-binding transcrip 65.5 9.9 0.00021 34.3 4.5 45 270-314 5-49 (240)
228 PRK10434 srlR DNA-bindng trans 65.3 9.7 0.00021 34.7 4.4 44 270-313 6-49 (256)
229 TIGR00738 rrf2_super rrf2 fami 64.7 17 0.00037 29.1 5.4 35 282-316 24-58 (132)
230 cd05804 StaR_like StaR_like; a 64.5 22 0.00049 33.3 7.0 63 68-138 152-214 (355)
231 CHL00033 ycf3 photosystem I as 64.5 44 0.00096 27.8 8.1 68 109-179 34-101 (168)
232 PRK10370 formate-dependent nit 64.5 93 0.002 26.9 10.3 29 111-139 74-102 (198)
233 PF14947 HTH_45: Winged helix- 64.2 40 0.00088 24.4 6.8 45 281-329 17-61 (77)
234 PLN03218 maturation of RBCL 1; 64.2 2.4E+02 0.0052 31.4 23.2 92 69-176 619-710 (1060)
235 PF08281 Sigma70_r4_2: Sigma-7 63.5 19 0.00042 23.7 4.6 29 280-308 23-51 (54)
236 smart00346 HTH_ICLR helix_turn 63.3 16 0.00034 27.0 4.6 42 274-315 10-52 (91)
237 PF08311 Mad3_BUB1_I: Mad3/BUB 63.1 77 0.0017 25.4 9.7 80 41-136 43-125 (126)
238 PRK02603 photosystem I assembl 63.1 43 0.00093 28.0 7.8 70 107-179 32-101 (172)
239 PRK03902 manganese transport t 62.8 59 0.0013 26.4 8.3 51 276-329 15-65 (142)
240 PF06163 DUF977: Bacterial pro 62.8 11 0.00025 30.1 3.7 40 275-314 18-57 (127)
241 COG3629 DnrI DNA-binding trans 62.7 1.3E+02 0.0028 27.9 12.0 65 63-139 152-216 (280)
242 TIGR02702 SufR_cyano iron-sulf 62.6 39 0.00084 29.5 7.6 55 274-328 6-65 (203)
243 PF13730 HTH_36: Helix-turn-he 62.6 11 0.00024 25.0 3.3 29 285-313 27-55 (55)
244 PF10668 Phage_terminase: Phag 61.8 14 0.00029 25.7 3.5 36 271-306 10-45 (60)
245 PF01726 LexA_DNA_bind: LexA D 61.5 16 0.00036 25.6 4.1 32 283-314 25-57 (65)
246 KOG2076 RNA polymerase III tra 61.3 2.4E+02 0.0051 30.4 16.3 157 5-178 139-308 (895)
247 PRK09782 bacteriophage N4 rece 60.7 44 0.00095 36.8 9.0 94 68-179 613-706 (987)
248 PHA02943 hypothetical protein; 60.7 83 0.0018 26.3 8.4 56 274-331 16-71 (165)
249 PRK10906 DNA-binding transcrip 60.4 14 0.00029 33.7 4.4 46 269-314 5-50 (252)
250 PRK13509 transcriptional repre 60.1 14 0.00031 33.5 4.5 45 270-314 6-50 (251)
251 PRK04424 fatty acid biosynthes 59.7 11 0.00025 32.4 3.6 45 270-314 8-52 (185)
252 PF09743 DUF2042: Uncharacteri 59.0 22 0.00048 32.7 5.5 56 260-320 112-167 (272)
253 PF00515 TPR_1: Tetratricopept 58.8 33 0.00071 19.8 4.6 26 114-139 5-30 (34)
254 PRK14165 winged helix-turn-hel 58.8 41 0.00089 29.9 7.0 55 276-330 14-68 (217)
255 KOG4162 Predicted calmodulin-b 58.3 81 0.0018 33.2 9.8 90 69-176 689-780 (799)
256 KOG1173 Anaphase-promoting com 57.6 2.3E+02 0.0049 29.0 13.7 91 68-176 248-338 (611)
257 PF05331 DUF742: Protein of un 57.1 20 0.00043 28.4 4.2 41 274-316 48-88 (114)
258 KOG1129 TPR repeat-containing 57.1 1.1E+02 0.0024 29.2 9.6 91 69-178 228-318 (478)
259 COG4783 Putative Zn-dependent 56.9 2.1E+02 0.0046 28.5 17.9 165 69-273 311-476 (484)
260 TIGR01610 phage_O_Nterm phage 56.7 36 0.00078 25.8 5.6 47 280-328 44-90 (95)
261 PRK15179 Vi polysaccharide bio 56.6 2.7E+02 0.0058 29.5 18.2 94 68-179 124-217 (694)
262 COG1349 GlpR Transcriptional r 55.8 17 0.00037 33.1 4.2 45 270-314 6-50 (253)
263 PRK03573 transcriptional regul 55.2 86 0.0019 25.4 8.1 41 283-323 46-86 (144)
264 PRK11189 lipoprotein NlpI; Pro 54.9 1.1E+02 0.0024 28.2 9.7 87 78-178 40-126 (296)
265 KOG0543 FKBP-type peptidyl-pro 54.4 2.2E+02 0.0047 27.8 13.2 63 65-139 258-320 (397)
266 KOG1585 Protein required for f 54.3 1.7E+02 0.0038 26.7 11.2 97 38-140 124-220 (308)
267 PF05584 Sulfolobus_pRN: Sulfo 54.2 36 0.00078 24.5 4.7 32 283-314 18-49 (72)
268 PF15015 NYD-SP12_N: Spermatog 53.7 2.3E+02 0.005 28.0 12.5 131 64-202 176-315 (569)
269 TIGR02844 spore_III_D sporulat 53.7 20 0.00042 26.5 3.5 34 270-304 7-40 (80)
270 PF03081 Exo70: Exo70 exocyst 53.3 37 0.00079 32.5 6.4 81 222-307 291-371 (371)
271 PF02002 TFIIE_alpha: TFIIE al 52.8 16 0.00035 28.2 3.1 49 281-329 25-75 (105)
272 PF12862 Apc5: Anaphase-promot 52.3 97 0.0021 23.1 8.4 68 75-145 9-76 (94)
273 TIGR01884 cas_HTH CRISPR locus 52.0 45 0.00097 29.1 6.2 46 281-327 155-200 (203)
274 PRK11512 DNA-binding transcrip 51.8 1.2E+02 0.0026 24.6 8.4 45 282-326 53-97 (144)
275 smart00531 TFIIE Transcription 51.7 62 0.0013 26.7 6.6 73 280-356 12-90 (147)
276 PF13428 TPR_14: Tetratricopep 51.4 37 0.00081 21.2 4.2 28 112-139 3-30 (44)
277 KOG1155 Anaphase-promoting com 51.4 58 0.0013 32.3 7.1 66 68-138 470-535 (559)
278 KOG1126 DNA-binding cell divis 51.3 53 0.0011 33.8 7.1 89 69-175 494-582 (638)
279 KOG1070 rRNA processing protei 51.0 4.4E+02 0.0095 30.3 16.6 61 68-138 1568-1628(1710)
280 PRK10141 DNA-binding transcrip 50.8 1.2E+02 0.0027 24.0 7.9 83 269-354 17-101 (117)
281 PF08221 HTH_9: RNA polymerase 50.5 57 0.0012 22.5 5.3 37 278-314 22-58 (62)
282 COG2345 Predicted transcriptio 50.5 39 0.00085 30.0 5.5 43 274-316 16-58 (218)
283 PRK09802 DNA-binding transcrip 50.5 24 0.00053 32.3 4.4 46 269-314 17-62 (269)
284 PF04967 HTH_10: HTH DNA bindi 50.0 28 0.0006 23.4 3.5 28 282-309 22-49 (53)
285 PF10771 DUF2582: Protein of u 49.8 54 0.0012 23.1 5.0 50 275-326 14-63 (65)
286 COG4700 Uncharacterized protei 49.3 1.8E+02 0.004 25.5 10.0 97 65-178 125-221 (251)
287 PRK11534 DNA-binding transcrip 49.2 40 0.00087 29.7 5.5 63 262-326 9-71 (224)
288 TIGR01889 Staph_reg_Sar staphy 49.0 98 0.0021 23.9 7.1 42 282-323 42-83 (109)
289 PLN03098 LPA1 LOW PSII ACCUMUL 48.3 65 0.0014 31.9 7.1 63 68-139 79-141 (453)
290 PF08672 APC2: Anaphase promot 47.7 19 0.00041 24.9 2.4 24 292-315 30-53 (60)
291 PF09295 ChAPs: ChAPs (Chs5p-A 47.5 2.8E+02 0.0061 27.1 11.5 88 69-177 174-261 (395)
292 PHA00738 putative HTH transcri 46.3 1.4E+02 0.0031 23.3 7.4 65 283-350 26-90 (108)
293 PF13518 HTH_28: Helix-turn-he 45.8 50 0.0011 21.2 4.3 36 283-319 12-47 (52)
294 PF12324 HTH_15: Helix-turn-he 45.8 37 0.00081 24.8 3.8 33 276-308 31-63 (77)
295 PF05470 eIF-3c_N: Eukaryotic 45.8 3.7E+02 0.0079 27.9 13.5 88 83-177 435-527 (595)
296 PRK10681 DNA-binding transcrip 45.6 28 0.0006 31.6 3.9 40 269-308 7-46 (252)
297 PF08280 HTH_Mga: M protein tr 45.6 47 0.001 22.6 4.2 39 270-308 6-44 (59)
298 PF10007 DUF2250: Uncharacteri 45.5 40 0.00086 25.6 4.1 30 285-314 23-52 (92)
299 KOG2235 Uncharacterized conser 45.5 1.2E+02 0.0026 31.2 8.4 62 259-327 114-175 (776)
300 PF04760 IF2_N: Translation in 44.6 27 0.00059 23.2 2.8 24 283-306 3-26 (54)
301 TIGR03826 YvyF flagellar opero 44.4 26 0.00055 28.7 3.1 37 276-316 37-75 (137)
302 PF12854 PPR_1: PPR repeat 44.1 20 0.00043 21.4 1.9 22 69-90 12-33 (34)
303 cd06171 Sigma70_r4 Sigma70, re 43.3 60 0.0013 20.4 4.4 27 282-308 25-51 (55)
304 PF10300 DUF3808: Protein of u 42.9 3.6E+02 0.0077 26.9 12.3 103 58-176 264-373 (468)
305 PF12643 MazG-like: MazG-like 42.4 54 0.0012 25.2 4.5 48 288-356 50-97 (98)
306 PF13542 HTH_Tnp_ISL3: Helix-t 42.0 68 0.0015 20.8 4.5 24 284-307 28-51 (52)
307 PRK10870 transcriptional repre 41.9 2.2E+02 0.0047 24.2 11.8 43 282-324 70-112 (176)
308 PF07106 TBPIP: Tat binding pr 41.4 2.1E+02 0.0046 24.0 8.8 49 275-327 11-61 (169)
309 COG4783 Putative Zn-dependent 41.3 2.6E+02 0.0057 27.9 9.9 52 69-132 379-430 (484)
310 COG4367 Uncharacterized protei 41.1 28 0.00061 25.9 2.6 24 281-304 21-44 (97)
311 smart00028 TPR Tetratricopepti 41.0 38 0.00081 17.8 2.8 26 68-93 5-30 (34)
312 TIGR03338 phnR_burk phosphonat 40.8 63 0.0014 28.0 5.4 63 263-327 14-76 (212)
313 KOG0547 Translocase of outer m 40.6 1.8E+02 0.004 29.2 8.7 91 69-177 331-421 (606)
314 PF14493 HTH_40: Helix-turn-he 40.5 36 0.00078 25.4 3.3 33 282-314 12-45 (91)
315 COG5010 TadD Flp pilus assembl 40.3 2.9E+02 0.0063 25.2 9.9 95 68-180 70-164 (257)
316 PF10078 DUF2316: Uncharacteri 40.2 29 0.00063 26.1 2.6 24 282-305 22-45 (89)
317 PRK11414 colanic acid/biofilm 40.1 64 0.0014 28.3 5.4 54 263-316 14-67 (221)
318 PRK04239 hypothetical protein; 40.1 25 0.00054 27.6 2.3 50 267-319 36-88 (110)
319 PF04492 Phage_rep_O: Bacterio 39.6 42 0.00092 25.8 3.5 35 279-313 50-84 (100)
320 PLN03077 Protein ECB2; Provisi 39.6 2.3E+02 0.0049 30.6 10.4 20 70-89 530-549 (857)
321 PF01638 HxlR: HxlR-like helix 39.5 1.6E+02 0.0034 21.8 7.0 64 282-345 17-85 (90)
322 PF08631 SPO22: Meiosis protei 39.4 3E+02 0.0065 25.1 12.4 71 65-135 36-112 (278)
323 PLN03081 pentatricopeptide (PP 39.2 4.7E+02 0.01 27.3 22.9 89 69-177 330-418 (697)
324 PRK10225 DNA-binding transcrip 39.2 1.1E+02 0.0024 27.5 7.0 64 262-327 11-75 (257)
325 PRK03837 transcriptional regul 38.4 72 0.0016 28.3 5.5 64 262-327 15-79 (241)
326 PF01535 PPR: PPR repeat; Int 38.2 41 0.00088 18.6 2.6 24 70-93 6-29 (31)
327 KOG3431 Apoptosis-related prot 38.2 28 0.00061 27.7 2.3 54 266-319 38-91 (129)
328 COG4565 CitB Response regulato 38.0 2.6E+02 0.0056 24.9 8.5 48 273-320 162-210 (224)
329 cd04761 HTH_MerR-SF Helix-Turn 37.7 58 0.0013 20.6 3.6 28 285-316 2-29 (49)
330 smart00421 HTH_LUXR helix_turn 37.6 73 0.0016 20.4 4.2 29 281-309 16-44 (58)
331 COG1802 GntR Transcriptional r 37.4 61 0.0013 28.7 4.8 63 262-326 18-80 (230)
332 TIGR02812 fadR_gamma fatty aci 37.2 1.1E+02 0.0024 27.0 6.5 63 263-327 9-72 (235)
333 PF04539 Sigma70_r3: Sigma-70 36.8 47 0.001 23.7 3.3 32 276-307 12-44 (78)
334 PF06969 HemN_C: HemN C-termin 36.6 1.4E+02 0.003 20.4 5.9 56 268-328 6-62 (66)
335 PF05920 Homeobox_KN: Homeobox 36.2 42 0.00092 21.0 2.5 31 277-307 6-37 (40)
336 PF04184 ST7: ST7 protein; In 35.9 3E+02 0.0066 27.7 9.4 62 64-135 259-320 (539)
337 KOG0548 Molecular co-chaperone 35.8 4.7E+02 0.01 26.5 10.8 59 119-178 307-386 (539)
338 KOG4555 TPR repeat-containing 35.7 2.5E+02 0.0054 23.1 10.3 95 74-186 53-147 (175)
339 PF05843 Suf: Suppressor of fo 35.7 3.2E+02 0.007 25.0 9.5 58 69-138 6-64 (280)
340 PF04348 LppC: LppC putative l 35.7 12 0.00026 38.0 0.0 97 68-176 28-124 (536)
341 PF14394 DUF4423: Domain of un 34.9 2.6E+02 0.0057 23.7 8.0 46 280-326 37-88 (171)
342 KOG2034 Vacuolar sorting prote 34.5 62 0.0013 34.5 4.8 56 118-182 366-421 (911)
343 KOG1130 Predicted G-alpha GTPa 33.9 4.8E+02 0.01 25.8 10.2 104 68-177 199-302 (639)
344 cd06170 LuxR_C_like C-terminal 33.9 86 0.0019 20.2 4.1 29 281-309 13-41 (57)
345 PRK10046 dpiA two-component re 33.8 80 0.0017 27.6 5.0 44 276-319 170-213 (225)
346 COG1846 MarR Transcriptional r 33.6 1.4E+02 0.003 22.7 5.9 36 287-322 40-75 (126)
347 PF01984 dsDNA_bind: Double-st 33.2 34 0.00073 26.7 2.1 22 298-319 62-83 (107)
348 PRK14720 transcript cleavage f 33.1 6.9E+02 0.015 27.4 15.6 189 48-272 3-216 (906)
349 cd04762 HTH_MerR-trunc Helix-T 33.1 77 0.0017 19.6 3.6 28 285-316 2-29 (49)
350 PF00440 TetR_N: Bacterial reg 33.1 63 0.0014 20.6 3.1 22 279-300 12-33 (47)
351 PRK13777 transcriptional regul 32.7 3.2E+02 0.007 23.5 8.3 47 277-323 53-99 (185)
352 COG4105 ComL DNA uptake lipopr 32.4 3.9E+02 0.0085 24.4 11.0 58 66-132 169-226 (254)
353 COG3947 Response regulator con 32.2 1.7E+02 0.0037 27.4 6.7 59 65-135 280-338 (361)
354 KOG3617 WD40 and TPR repeat-co 32.1 4.5E+02 0.0098 28.5 10.3 109 24-143 873-1000(1416)
355 PF10938 YfdX: YfdX protein; 31.8 2.3E+02 0.005 23.6 7.1 112 68-179 6-146 (155)
356 PF09743 DUF2042: Uncharacteri 31.8 1.3E+02 0.0028 27.8 6.0 44 273-319 185-228 (272)
357 PF01476 LysM: LysM domain; I 31.7 44 0.00096 20.7 2.2 19 285-303 8-26 (44)
358 PRK10153 DNA-binding transcrip 31.6 1.6E+02 0.0035 29.8 7.3 55 117-178 427-481 (517)
359 PF13431 TPR_17: Tetratricopep 31.4 24 0.00052 21.0 0.8 17 68-84 17-33 (34)
360 PF07079 DUF1347: Protein of u 31.4 5.5E+02 0.012 25.7 10.4 94 71-177 13-106 (549)
361 PF04190 DUF410: Protein of un 31.4 1.6E+02 0.0035 26.8 6.6 61 23-87 50-113 (260)
362 PF13384 HTH_23: Homeodomain-l 31.2 52 0.0011 21.1 2.5 29 283-311 17-45 (50)
363 TIGR00498 lexA SOS regulatory 31.0 65 0.0014 27.8 3.8 36 284-319 26-62 (199)
364 PF09202 Rio2_N: Rio2, N-termi 31.0 1.3E+02 0.0029 22.1 4.9 50 273-322 14-63 (82)
365 KOG4507 Uncharacterized conser 30.8 3.2E+02 0.007 28.2 8.8 138 17-178 566-704 (886)
366 PF14689 SPOB_a: Sensor_kinase 30.7 1.8E+02 0.0039 20.0 6.0 32 64-95 23-54 (62)
367 PRK04214 rbn ribonuclease BN/u 30.6 1.8E+02 0.0039 28.5 7.2 72 282-355 309-391 (412)
368 PF12793 SgrR_N: Sugar transpo 30.6 64 0.0014 25.5 3.4 33 282-314 18-50 (115)
369 PRK09334 30S ribosomal protein 30.6 1.5E+02 0.0033 22.1 5.1 37 280-316 38-74 (86)
370 PRK12514 RNA polymerase sigma 30.5 1E+02 0.0022 25.8 4.9 28 281-308 143-170 (179)
371 COG3071 HemY Uncharacterized e 30.4 5.2E+02 0.011 25.2 11.9 59 68-138 157-215 (400)
372 PRK04984 fatty acid metabolism 30.4 1.7E+02 0.0037 25.8 6.6 62 263-326 10-72 (239)
373 KOG0548 Molecular co-chaperone 30.2 6E+02 0.013 25.8 20.7 92 69-178 363-454 (539)
374 COG1321 TroR Mn-dependent tran 30.1 93 0.002 26.0 4.4 50 277-329 18-67 (154)
375 KOG1463 26S proteasome regulat 30.0 5.1E+02 0.011 24.9 14.2 22 273-294 287-308 (411)
376 PF10516 SHNi-TPR: SHNi-TPR; 30.0 1.2E+02 0.0027 18.7 3.9 21 157-177 8-28 (38)
377 PF10579 Rapsyn_N: Rapsyn N-te 29.8 2.3E+02 0.005 20.9 6.9 52 74-134 16-67 (80)
378 COG3413 Predicted DNA binding 29.8 60 0.0013 28.5 3.4 28 282-309 177-204 (215)
379 PF09986 DUF2225: Uncharacteri 29.7 3.9E+02 0.0085 23.5 9.5 89 105-193 113-208 (214)
380 PRK15090 DNA-binding transcrip 29.5 95 0.0021 28.0 4.8 34 281-314 26-59 (257)
381 PF13613 HTH_Tnp_4: Helix-turn 29.4 85 0.0018 20.7 3.4 37 272-308 8-44 (53)
382 TIGR02394 rpoS_proteo RNA poly 29.2 1E+02 0.0023 28.3 5.1 32 278-309 237-268 (285)
383 KOG1915 Cell cycle control pro 29.1 6.2E+02 0.013 25.6 11.3 82 40-137 382-464 (677)
384 PRK09464 pdhR transcriptional 28.9 1.4E+02 0.003 26.8 5.8 63 263-327 13-76 (254)
385 PRK14584 hmsS hemin storage sy 28.9 1.3E+02 0.0027 25.2 4.8 44 282-329 97-140 (153)
386 KOG4234 TPR repeat-containing 28.7 2.3E+02 0.005 25.1 6.6 97 157-259 102-202 (271)
387 PLN03077 Protein ECB2; Provisi 28.7 7.6E+02 0.017 26.5 14.7 51 297-348 707-766 (857)
388 PF09613 HrpB1_HrpK: Bacterial 28.6 2.5E+02 0.0053 23.7 6.6 57 69-137 15-71 (160)
389 KOG1128 Uncharacterized conser 28.3 2.1E+02 0.0045 30.2 7.2 103 66-178 400-513 (777)
390 PRK10421 DNA-binding transcrip 28.1 2E+02 0.0043 25.8 6.7 63 263-327 5-68 (253)
391 PRK11050 manganese transport r 28.0 3.4E+02 0.0074 22.3 9.6 45 282-329 50-94 (152)
392 PF13041 PPR_2: PPR repeat fam 28.0 75 0.0016 20.3 2.9 27 70-96 9-35 (50)
393 TIGR00756 PPR pentatricopeptid 27.6 84 0.0018 17.5 2.9 24 70-93 6-29 (35)
394 PF01865 PhoU_div: Protein of 27.6 1.8E+02 0.004 25.2 6.2 77 226-309 27-103 (214)
395 PHA02591 hypothetical protein; 27.6 63 0.0014 23.6 2.5 23 283-305 59-81 (83)
396 PF10975 DUF2802: Protein of u 27.6 65 0.0014 23.0 2.6 23 283-305 44-66 (70)
397 PF03444 HrcA_DNA-bdg: Winged 27.1 2.2E+02 0.0048 20.8 5.3 49 275-323 15-63 (78)
398 PRK15418 transcriptional regul 27.1 90 0.002 29.4 4.3 47 275-321 19-67 (318)
399 PRK12534 RNA polymerase sigma 26.9 1.2E+02 0.0026 25.6 4.8 28 281-308 151-178 (187)
400 PF00376 MerR: MerR family reg 26.8 63 0.0014 19.9 2.2 22 285-306 1-22 (38)
401 TIGR02561 HrpB1_HrpK type III 26.8 2.4E+02 0.0053 23.5 6.2 63 109-177 9-71 (153)
402 TIGR02675 tape_meas_nterm tape 26.7 69 0.0015 23.1 2.7 26 286-315 47-72 (75)
403 COG0568 RpoD DNA-directed RNA 26.5 2.5E+02 0.0054 26.8 7.0 60 261-322 183-244 (342)
404 PF08679 DsrD: Dissimilatory s 26.5 1E+02 0.0022 21.8 3.3 34 280-313 16-50 (67)
405 KOG2047 mRNA splicing factor [ 25.8 3.3E+02 0.0072 28.5 8.0 65 68-140 391-455 (835)
406 PRK13918 CRP/FNR family transc 25.7 89 0.0019 26.6 3.8 44 283-330 149-192 (202)
407 PRK09764 DNA-binding transcrip 25.3 2.7E+02 0.0059 24.7 7.0 63 263-327 8-71 (240)
408 PRK15481 transcriptional regul 25.3 1.5E+02 0.0032 28.9 5.7 54 263-316 8-62 (431)
409 PF13994 PgaD: PgaD-like prote 25.0 1.4E+02 0.003 24.3 4.5 37 284-324 101-137 (138)
410 PF03297 Ribosomal_S25: S25 ri 24.8 3.2E+02 0.007 21.2 6.2 48 279-326 55-102 (105)
411 cd00086 homeodomain Homeodomai 24.8 76 0.0016 20.9 2.5 29 279-307 22-51 (59)
412 PF00046 Homeobox: Homeobox do 24.8 79 0.0017 20.9 2.6 28 279-306 22-50 (57)
413 PRK09990 DNA-binding transcrip 24.5 1.9E+02 0.0041 25.8 5.8 62 263-326 10-72 (251)
414 PF06971 Put_DNA-bind_N: Putat 24.4 88 0.0019 20.8 2.6 25 281-305 26-50 (50)
415 KOG0547 Translocase of outer m 24.3 6E+02 0.013 25.7 9.2 98 66-181 362-459 (606)
416 PRK15363 pathogenicity island 24.0 4.3E+02 0.0094 22.1 9.2 74 118-202 43-116 (157)
417 PLN03081 pentatricopeptide (PP 24.0 8.4E+02 0.018 25.5 22.4 91 69-175 295-385 (697)
418 PRK11523 DNA-binding transcrip 24.0 2.5E+02 0.0055 25.1 6.5 62 263-326 11-73 (253)
419 PF12645 HTH_16: Helix-turn-he 24.0 2E+02 0.0044 20.1 4.6 49 229-277 3-61 (65)
420 PRK12537 RNA polymerase sigma 23.8 1.6E+02 0.0034 24.8 4.9 30 280-309 146-175 (182)
421 PRK11753 DNA-binding transcrip 23.7 1.5E+02 0.0033 25.3 4.9 42 283-328 168-209 (211)
422 PF01710 HTH_Tnp_IS630: Transp 23.7 93 0.002 24.5 3.2 35 273-307 61-95 (119)
423 TIGR02392 rpoH_proteo alternat 23.6 1.6E+02 0.0034 26.9 5.1 29 281-309 234-262 (270)
424 TIGR02366 DHAK_reg probable di 23.6 86 0.0019 26.1 3.2 27 271-297 9-37 (176)
425 PF02042 RWP-RK: RWP-RK domain 23.6 92 0.002 20.9 2.6 19 283-301 4-22 (52)
426 PRK06759 RNA polymerase factor 23.2 1.9E+02 0.004 23.3 5.1 29 281-309 120-148 (154)
427 COG2118 DNA-binding protein [G 23.1 63 0.0014 25.4 2.0 52 267-320 39-92 (116)
428 PRK12529 RNA polymerase sigma 23.1 1.8E+02 0.004 24.3 5.2 30 280-309 140-169 (178)
429 PLN03083 E3 UFM1-protein ligas 23.0 1.6E+02 0.0034 31.5 5.4 58 261-326 117-174 (803)
430 PF10607 CLTH: CTLH/CRA C-term 22.9 3.7E+02 0.0081 21.5 6.8 54 225-278 4-60 (145)
431 PF10345 Cohesin_load: Cohesin 22.9 8.5E+02 0.018 25.1 18.2 106 64-176 100-205 (608)
432 PRK06771 hypothetical protein; 22.7 56 0.0012 24.8 1.6 30 283-312 36-67 (93)
433 PF12487 DUF3703: Protein of u 22.5 3.9E+02 0.0084 21.1 7.6 60 63-130 8-67 (112)
434 smart00422 HTH_MERR helix_turn 22.4 1.2E+02 0.0026 20.8 3.3 39 285-327 2-40 (70)
435 PLN03218 maturation of RBCL 1; 22.4 1.1E+03 0.024 26.3 23.3 58 69-137 512-569 (1060)
436 PF02064 MAS20: MAS20 protein 22.4 1.9E+02 0.0042 23.1 4.7 36 62-97 61-96 (121)
437 KOG0550 Molecular chaperone (D 22.4 7.7E+02 0.017 24.4 12.4 96 68-178 253-349 (486)
438 PRK12530 RNA polymerase sigma 22.2 1.8E+02 0.0039 24.7 5.0 29 280-308 147-175 (189)
439 PRK09642 RNA polymerase sigma 22.1 1.9E+02 0.0041 23.6 4.9 30 280-309 119-148 (160)
440 KOG2471 TPR repeat-containing 22.0 2.4E+02 0.0051 28.5 6.0 119 71-202 247-382 (696)
441 PF08564 CDC37_C: Cdc37 C term 21.8 80 0.0017 24.3 2.3 36 279-314 30-66 (99)
442 PF14853 Fis1_TPR_C: Fis1 C-te 21.8 2.4E+02 0.0051 18.8 4.4 23 117-139 8-30 (53)
443 PRK00215 LexA repressor; Valid 21.8 1.2E+02 0.0026 26.2 3.9 43 283-326 23-66 (205)
444 PRK05657 RNA polymerase sigma 21.7 1.7E+02 0.0038 27.6 5.1 32 278-309 277-308 (325)
445 PF13812 PPR_3: Pentatricopept 21.6 1.4E+02 0.0029 16.8 3.0 24 70-93 7-30 (34)
446 PF13936 HTH_38: Helix-turn-he 21.6 1.1E+02 0.0023 19.4 2.6 24 282-305 19-42 (44)
447 PF12688 TPR_5: Tetratrico pep 21.6 4.1E+02 0.0089 21.0 9.5 64 115-182 6-70 (120)
448 PF04297 UPF0122: Putative hel 21.4 88 0.0019 24.2 2.5 28 281-308 31-58 (101)
449 PRK08301 sporulation sigma fac 21.4 2.2E+02 0.0048 25.1 5.5 29 281-309 196-224 (234)
450 PF04010 DUF357: Protein of un 21.3 3.3E+02 0.007 19.7 6.0 51 23-87 5-58 (75)
451 PF13591 MerR_2: MerR HTH fami 21.3 1.4E+02 0.003 22.0 3.5 32 284-319 1-32 (84)
452 PRK09651 RNA polymerase sigma 21.2 1E+02 0.0022 25.7 3.2 30 280-309 132-161 (172)
453 smart00389 HOX Homeodomain. DN 21.1 97 0.0021 20.2 2.4 25 282-306 26-50 (56)
454 KOG0551 Hsp90 co-chaperone CNS 21.1 5.1E+02 0.011 24.8 7.8 90 76-174 54-143 (390)
455 smart00777 Mad3_BUB1_I Mad3/BU 20.9 4.4E+02 0.0096 21.1 9.8 78 42-135 44-124 (125)
456 COG1414 IclR Transcriptional r 20.9 1.7E+02 0.0036 26.4 4.6 30 284-313 20-49 (246)
457 PF13118 DUF3972: Protein of u 20.9 1.9E+02 0.0042 23.3 4.3 33 289-327 2-34 (126)
458 PF11972 HTH_13: HTH DNA bindi 20.8 1.6E+02 0.0034 20.0 3.2 33 277-309 7-39 (54)
459 KOG3060 Uncharacterized conser 20.8 6.7E+02 0.015 23.1 16.2 25 112-136 156-180 (289)
460 TIGR00985 3a0801s04tom mitocho 20.7 5E+02 0.011 21.6 7.3 35 63-97 89-124 (148)
461 PRK12526 RNA polymerase sigma 20.7 1.7E+02 0.0037 25.2 4.6 30 280-309 166-195 (206)
462 PRK12522 RNA polymerase sigma 20.6 2E+02 0.0043 23.8 4.9 29 280-308 132-160 (173)
463 TIGR02859 spore_sigH RNA polym 20.5 1.9E+02 0.0042 24.4 4.8 29 280-308 162-190 (198)
464 PRK09637 RNA polymerase sigma 20.5 1.9E+02 0.0041 24.4 4.7 30 280-309 119-148 (181)
465 smart00653 eIF2B_5 domain pres 20.5 4.1E+02 0.0088 20.8 6.1 53 284-340 22-74 (110)
466 PF02796 HTH_7: Helix-turn-hel 20.5 1E+02 0.0023 19.5 2.4 22 283-304 21-42 (45)
467 PRK14511 maltooligosyl trehalo 20.5 83 0.0018 34.0 2.8 36 288-323 263-305 (879)
468 TIGR02947 SigH_actino RNA poly 20.4 1E+02 0.0022 26.3 3.0 31 279-309 143-173 (193)
469 COG1675 TFA1 Transcription ini 20.4 5.5E+02 0.012 22.0 7.4 50 283-332 32-83 (176)
470 PRK12520 RNA polymerase sigma 20.1 2.1E+02 0.0045 24.2 4.9 29 280-308 144-172 (191)
471 PF08626 TRAPPC9-Trs120: Trans 20.1 1.7E+02 0.0037 33.0 5.4 55 147-201 239-294 (1185)
472 PRK10219 DNA-binding transcrip 20.0 2.8E+02 0.006 20.9 5.2 27 281-307 19-45 (107)
No 1
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=7.6e-72 Score=488.34 Aligned_cols=355 Identities=72% Similarity=1.130 Sum_probs=344.2
Q ss_pred ChHHHHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchH
Q 018294 1 MMDAYREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEY 80 (358)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~ 80 (358)
|+++|+||++|++|+|+|||++|+|+.++|+++.+. +.+.++.||++|++.++.+.|+|+||+++.+|+++|++.|+|
T Consensus 84 Mm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~--~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~ 161 (440)
T KOG1464|consen 84 MMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK--NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEY 161 (440)
T ss_pred HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh--hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHH
Confidence 789999999999999999999999999999999644 488999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhH
Q 018294 81 GRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMH 160 (358)
Q Consensus 81 ~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~ 160 (358)
....+++.++++.|...+|.+|..++++++|+|++++++|..++|..+++.+|.++..+.+++|+|.++|.|++|+|.+|
T Consensus 162 ~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMH 241 (440)
T KOG1464|consen 162 TKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMH 241 (440)
T ss_pred HHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCcccccCCCCccHHHHHHHHHHHHhCCHHH
Q 018294 161 MAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIE 240 (358)
Q Consensus 161 ~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~ 240 (358)
+.+|+|.+|...|||+|.+|++.|+|++..||+|++||.+|..+++|||+++++++|+++|++-+|..|+.||.+.|+.+
T Consensus 242 lreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~e 321 (440)
T KOG1464|consen 242 LREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAKPYKNDPEILAMTNLVAAYQNNDIIE 321 (440)
T ss_pred cccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCCCCcccccCCCCCCHHHHHHHHHHHHHhcccHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeecc
Q 018294 241 FEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQV 320 (358)
Q Consensus 241 f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~ 320 (358)
|+.++..++..++.|||+..|+.+|.++||..+++++++||++|.+++|++.+++|+.+||.+|+.+|.+..|+|+||++
T Consensus 322 FE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~ 401 (440)
T KOG1464|consen 322 FERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEV 401 (440)
T ss_pred HHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEccCCccc-hHHHHHHHHHHHHHHHHHHHhhhc
Q 018294 321 NRLLERGDRSKGM-KKYTAIDKWNSQLRSLYQTVSNRV 357 (358)
Q Consensus 321 ~g~v~~~~~~~~~-~~~~~l~~w~~~i~~l~~~v~~~~ 357 (358)
++.+.+.+..... ..+..+..|.+++++|...|.+||
T Consensus 402 n~~l~~~~~~~s~~k~~~al~kW~~ql~Sl~~~i~sr~ 439 (440)
T KOG1464|consen 402 NQYLELDKSKNSGSKLYKALDKWNNQLKSLQSNIVSRV 439 (440)
T ss_pred hhHhccCccCCcchHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999997755433 469999999999999999999987
No 2
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.7e-54 Score=384.93 Aligned_cols=333 Identities=23% Similarity=0.398 Sum_probs=302.5
Q ss_pred HHHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhh-hHHHhh--hhhHHHHhhhchH
Q 018294 4 AYREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNER-LWFKTN--LKLCKIWFDMGEY 80 (358)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r-~~~~~~--~~la~~~~~~g~~ 80 (358)
..++++||+ +.|+|++++|.||.++|.+..+|+ .....++.+.++|+|+..++ .|+|.+ .+|+.+|++.++|
T Consensus 70 li~~~Rpf~-~~v~KakaaKlvR~Lvd~~~~~~~----~~~~~i~l~~~cIeWA~~ekRtFLRq~Learli~Ly~d~~~Y 144 (411)
T KOG1463|consen 70 LITSLRPFL-SSVSKAKAAKLVRSLVDMFLKIDD----GTGDQIELCTECIEWAKREKRTFLRQSLEARLIRLYNDTKRY 144 (411)
T ss_pred HHHHHHHHH-HHhhhHHHHHHHHHHHHHHccCCC----CcchHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHH
Confidence 467889999 999999999999999999998776 24477889999999988665 677554 5999999999999
Q ss_pred hHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-hhhhHHHhhhhhhh
Q 018294 81 GRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-PRIMGIIRECGGKM 159 (358)
Q Consensus 81 ~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~~~~~~i~~~~g~~ 159 (358)
.+|..++..+..++.+- || +..++++++++++.|++++|++||+..++.|++.+++++. |.+|+.++..+|++
T Consensus 145 teAlaL~~~L~rElKKl---DD---K~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa~lDLqSGIl 218 (411)
T KOG1463|consen 145 TEALALINDLLRELKKL---DD---KILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQATLDLQSGIL 218 (411)
T ss_pred HHHHHHHHHHHHHHHhc---cc---ccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHHHHHHhccce
Confidence 99999999888888664 45 4889999999999999999999999999999999999884 88999999999999
Q ss_pred HhhhhcHHHHHHHHHHHhhhhhhhcch-hHHHHHHHHHHHHHhhCC--CCC-CcCCcccccCCCCccHHHHHHHHHHHHh
Q 018294 160 HMAERQWADAATDFFEAFKNYDEAGNQ-RRIQCLKYLVLANMLMES--EVN-PFDGQEAKPYKNDPEILAMTNLIAAYQR 235 (358)
Q Consensus 160 ~~~~~~y~~A~~~f~e~~~~~~~~~~~-~~~~~l~y~~l~~lL~~~--~~~-~~~~~~~~~~~~~p~~~~l~~L~~af~~ 235 (358)
|+.++||+.|++||||+|++|+..++. ++...||||+||.||.+. +++ .+.++.+..|. +|.+++|+.+.+||.+
T Consensus 219 ha~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~y~-g~~i~AmkavAeA~~n 297 (411)
T KOG1463|consen 219 HAAEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALKYA-GRDIDAMKAVAEAFGN 297 (411)
T ss_pred eecccccchHHHHHHHHHccccccCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHhcc-CcchHHHHHHHHHhcC
Confidence 999999999999999999999999884 999999999999998643 222 35666766676 8999999999999999
Q ss_pred CCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 236 NEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 236 ~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
+++..|+..|.+|+.++..||+++.|...|++++.++||.++++||++|.+++||+.+|+|++.||+.|++||.|+++.|
T Consensus 298 RSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~~VEkKLsqMILDKkf~G 377 (411)
T KOG1463|consen 298 RSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVPQVEKKLSQMILDKKFYG 377 (411)
T ss_pred CcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccCCEEEEccCCccchHHHHHHHHHHHHHH
Q 018294 316 HIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRS 348 (358)
Q Consensus 316 kID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~ 348 (358)
.+||.+|++.+++.++.+..|+...+...++++
T Consensus 378 ~LDQg~g~Liv~~e~~~d~~y~~aLetI~~m~k 410 (411)
T KOG1463|consen 378 TLDQGEGCLIVFEEPPADNTYDAALETIQNMGK 410 (411)
T ss_pred ccccCCCeEEEeCCCCcchHHHHHHHHHHhccC
Confidence 999999999999999999999988777666543
No 3
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.9e-46 Score=328.92 Aligned_cols=341 Identities=21% Similarity=0.330 Sum_probs=303.1
Q ss_pred HHHHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhh-hhHHHhh--hhhHHHHhhhch
Q 018294 3 DAYREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNE-RLWFKTN--LKLCKIWFDMGE 79 (358)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-r~~~~~~--~~la~~~~~~g~ 79 (358)
+...+++|+| ..+++++++|+|+.++|.++.+|+ ....++.++..+|+|+..+ |.|+|.. .+++.++++.|+
T Consensus 66 ~~i~~sre~m-~~ftk~k~~KiirtLiekf~~~~d----sl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~ 140 (421)
T COG5159 66 DTITSSREAM-EDFTKPKITKIIRTLIEKFPYSSD----SLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGK 140 (421)
T ss_pred HHHHhhHHHH-HHhcchhHHHHHHHHHHhcCCCCc----cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4567889999 999999999999999999998665 3677788888888887766 4677665 599999999999
Q ss_pred HhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-hhhhHHHhhhhhh
Q 018294 80 YGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-PRIMGIIRECGGK 158 (358)
Q Consensus 80 ~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~~~~~~i~~~~g~ 158 (358)
|.+|..++..+..++..- || +..++++|+.++++|.+.+|+++++..++.|++.++++++ |.+++.++..+|+
T Consensus 141 YsdalalIn~ll~ElKk~---DD---K~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~sGI 214 (421)
T COG5159 141 YSDALALINPLLHELKKY---DD---KINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLSGI 214 (421)
T ss_pred HHHHHHHHHHHHHHHHhh---cC---ccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhccc
Confidence 999999888888877653 44 4779999999999999999999999999999999999885 6788999999999
Q ss_pred hHhhhhcHHHHHHHHHHHhhhhhhhc-chhHHHHHHHHHHHHHhhCC--CC-CCcCCccccc-CCCCccHHHHHHHHHHH
Q 018294 159 MHMAERQWADAATDFFEAFKNYDEAG-NQRRIQCLKYLVLANMLMES--EV-NPFDGQEAKP-YKNDPEILAMTNLIAAY 233 (358)
Q Consensus 159 ~~~~~~~y~~A~~~f~e~~~~~~~~~-~~~~~~~l~y~~l~~lL~~~--~~-~~~~~~~~~~-~~~~p~~~~l~~L~~af 233 (358)
+++.++||..|.++|+|+|++|+... +.++...|+|++|+.||.+. ++ +++.++.+.. |. ++.+++|+.+.++|
T Consensus 215 lhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~~K~t~~~y~-~r~I~am~avaea~ 293 (421)
T COG5159 215 LHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLNRREEVKAVLRNKNTLKHYD-DRMIRAMLAVAEAF 293 (421)
T ss_pred eeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHccchhHhhhh-hhhHHHHHHHHHHh
Confidence 99999999999999999999998764 45899999999999998654 22 2466666644 55 78899999999999
Q ss_pred HhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 234 QRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 234 ~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
.|+++..|...|++|.+++.+|+++..|.+.|++.+.++|+.++++||++|.+++||+.+|++...||..+++||.++-+
T Consensus 294 ~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgKLsqMILDKif 373 (421)
T COG5159 294 GNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIF 373 (421)
T ss_pred CCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhh
Q 018294 314 DGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSN 355 (358)
Q Consensus 314 ~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~ 355 (358)
+|.+||.+|++.++++++.+.+|+...+...+++.+....-+
T Consensus 374 yG~LDqg~gcLivy~ep~qd~tyd~ale~v~~l~~vVd~l~e 415 (421)
T COG5159 374 YGTLDQGDGCLIVYGEPAQDNTYDEALEQVEALDCVVDSLYE 415 (421)
T ss_pred HhhhccCCceEEEeCCccccchHHHHHHHHHHhhhHHHHHHH
Confidence 999999999999999988888999888877777766655443
No 4
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.9e-38 Score=287.37 Aligned_cols=320 Identities=13% Similarity=0.232 Sum_probs=269.7
Q ss_pred chhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHH-----HhhhhhHHHHhhhchHhHHHHHHHHHH
Q 018294 17 TRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWF-----KTNLKLCKIWFDMGEYGRMSKILKELH 91 (358)
Q Consensus 17 ~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~-----~~~~~la~~~~~~g~~~~a~~~l~~l~ 91 (358)
-|..+++||++++.+++++|+ .+++..++++++. +++||||+ |++-.|+++++++|+..+|++++.+++
T Consensus 85 lk~ai~~Mvq~~~~y~~~~~d--~~~k~~li~tLr~----VtegkIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~el~ 158 (439)
T KOG1498|consen 85 LKQAIQSMVQQAMTYIDGTPD--LETKIKLIETLRT----VTEGKIYVEVERARLTKMLAKIKEEQGDIAEAADILCELQ 158 (439)
T ss_pred HHHHHHHHHHHHHHhccCCCC--chhHHHHHHHHHH----hhcCceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcc
Confidence 366789999999999999887 7889999999998 58899998 777899999999999999999999999
Q ss_pred HhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-hhhh---HHHhhhhhhhHhhhhcHH
Q 018294 92 KSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-PRIM---GIIRECGGKMHMAERQWA 167 (358)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~~~~---~~i~~~~g~~~~~~~~y~ 167 (358)
+++++ +++ .+.++.+++.++|+|+..+||.+|..+.+ +++..+++ |..+ -++++....++.+.+.|.
T Consensus 159 VETyg---sm~---~~ekV~fiLEQmrKOG~~~D~vra~i~sk---KI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl 229 (439)
T KOG1498|consen 159 VETYG---SME---KSEKVAFILEQMRLCLLRLDYVRAQIISK---KINKKFFEKPDVQELKLKYYELMIRLGLHDRAYL 229 (439)
T ss_pred hhhhh---hhH---HHHHHHHHHHHHHHHHHhhhHHHHHHHHH---HhhHHhcCCccHHHHHHHHHHHHHHhcccccchh
Confidence 99985 477 49999999999999999999999997744 55555553 5443 345556677888999999
Q ss_pred HHHHHHHHHhhhhhhhcch-hHHHHHHHHHHHHHhhCCCCCCcCCcccccCC---CCccHHHHHHHHHHHHhCCHHHHHH
Q 018294 168 DAATDFFEAFKNYDEAGNQ-RRIQCLKYLVLANMLMESEVNPFDGQEAKPYK---NDPEILAMTNLIAAYQRNEIIEFEK 243 (358)
Q Consensus 168 ~A~~~f~e~~~~~~~~~~~-~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~---~~p~~~~l~~L~~af~~~d~~~f~~ 243 (358)
+++++|.+++.+.....++ +|..+++..+..++|++- ++.+++....-. ...+++.+..++..|.++++..|..
T Consensus 230 ~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~~LAp~--dneQsdll~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s 307 (439)
T KOG1498|consen 230 NVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFCVLAPH--DNEQSDLLARISNDKKLSELPDYKELLKLFVTMELIRWVS 307 (439)
T ss_pred hHHHHHHHHhcccccccChhhhhhhhhhheeEEeecCC--CcHHHHHHHHHhcccccccCccHHHHHHHHHhcceeeehh
Confidence 9999999999887766655 788888887777777733 233333322211 1234556899999999999999998
Q ss_pred HHHHhhhhhcCChh------HHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceee
Q 018294 244 ILKSNRKTIMDDPF------IRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI 317 (358)
Q Consensus 244 ~l~~~~~~l~~D~~------l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI 317 (358)
.-+.|.+.+..+.+ ...||++|..+|.+||++-++++|++|++.++|..+|+|+++.|..|+.|+..|.+.|||
T Consensus 308 ~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKi 387 (439)
T KOG1498|consen 308 LVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPVEEMEKFLSDLVVTGTIYAKI 387 (439)
T ss_pred HhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCHHHHHHHHHHHHhccceEEEe
Confidence 88888877765533 368999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhhh
Q 018294 318 DQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSNR 356 (358)
Q Consensus 318 D~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~~ 356 (358)
|+++|+|.|..+.. +.+.+++|..++.+|+..++.+
T Consensus 388 drpsgII~F~k~K~---~~~~LneW~~nve~L~~ll~K~ 423 (439)
T KOG1498|consen 388 DRPSGIINFQKVKD---SNEILNEWASNVEKLLGLLEKV 423 (439)
T ss_pred cCCCceEEEEeccc---HHHHHHHHHhhHHHHHHHHHHH
Confidence 99999999988765 5899999999999999998754
No 5
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.1e-31 Score=237.47 Aligned_cols=277 Identities=14% Similarity=0.230 Sum_probs=243.4
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.++.|.+|+..||-+.|.+.+...-..+.. .+.++++.+..+|+.+.-+|..-....+++++.+...--||
T Consensus 107 ~~~kaeYycqigDkena~~~~~~t~~ktvs---------~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDW 177 (393)
T KOG0687|consen 107 MLRKAEYYCQIGDKENALEALRKTYEKTVS---------LGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDW 177 (393)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHHhh---------cccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCh
Confidence 468999999999999999999988877542 37789999999999999999888888888888876666689
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCC--C--CCcCCcccccCCCCcc
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESE--V--NPFDGQEAKPYKNDPE 222 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~--~--~~~~~~~~~~~~~~p~ 222 (358)
...++++.|.|+++|..|||++|+..|.++..||.+.+-.....+.+|+++|++++-.. + .++.++++.... +.
T Consensus 178 eRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl--~~ 255 (393)
T KOG0687|consen 178 ERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVL--HK 255 (393)
T ss_pred hhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHh--hc
Confidence 99999999999999999999999999999999998887777888999999999976433 2 245666554332 33
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHH-hhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHH
Q 018294 223 ILAMTNLIAAYQRNEIIEFEKILKS-NRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVE 301 (358)
Q Consensus 223 ~~~l~~L~~af~~~d~~~f~~~l~~-~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE 301 (358)
++.+.+++.+++.++|..|...|.. ....+..|-++.+|.+...+.+|.+++-|+.++|++++++.||+.||+|++.++
T Consensus 256 l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiD 335 (393)
T KOG0687|consen 256 LPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFID 335 (393)
T ss_pred CchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHH
Confidence 5668899999999999999988854 467899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHH----HHHHHHHHHHHHh
Q 018294 302 QLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDK----WNSQLRSLYQTVS 354 (358)
Q Consensus 302 ~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~----w~~~i~~l~~~v~ 354 (358)
..|+++|.+|+++|+||+++|+|+.++|+..+..|+.+.+ ..++|+++.+.|.
T Consensus 336 reL~rFI~~grL~ckIDrVnGVVEtNrpD~KN~qyq~vikqGd~LLnriQK~~rvi~ 392 (393)
T KOG0687|consen 336 RELGRFIAAGRLHCKIDRVNGVVETNRPDEKNAQYQAVIKQGDLLLNRIQKLSRVIN 392 (393)
T ss_pred hHHHHhhccCceeeeeecccceeecCCccccchHHHHHHhhhHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999998888887665 8889999988763
No 6
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=8e-31 Score=232.50 Aligned_cols=319 Identities=12% Similarity=0.177 Sum_probs=256.0
Q ss_pred chhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHH-----HhhhhhHHHHhhhchHhHHHHHHHHHH
Q 018294 17 TRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWF-----KTNLKLCKIWFDMGEYGRMSKILKELH 91 (358)
Q Consensus 17 ~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~-----~~~~~la~~~~~~g~~~~a~~~l~~l~ 91 (358)
.|..++-||+.+|++.-.+.+ ..++.-++++++. ++++|||+ +++-.|.+++..+|+..+|++++.++.
T Consensus 85 lk~sI~~MIq~vmEylKg~~d--l~t~i~~ietlr~----VtEgkIFvEvERariT~~L~~ikee~Gdi~sA~Dilcn~p 158 (439)
T COG5071 85 LKQSITSMIQHVMEYLKGIDD--LKTKINLIETLRT----VTEGKIFVEVERARLTQLLSQIKEEQGDIKSAQDILCNEP 158 (439)
T ss_pred HHHHHHHHHHHHHHhccCccc--ccchHhHHHHHHH----HhcCceEEehhHHHHHHHHHHHHHHhcchhHHHHHHhcCc
Confidence 467788999999999987554 6678888888888 57889998 677799999999999999999999999
Q ss_pred HhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC-Chhhh---HHHhhhhhhhHhhhhcHH
Q 018294 92 KSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP-HPRIM---GIIRECGGKMHMAERQWA 167 (358)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~-~~~~~---~~i~~~~g~~~~~~~~y~ 167 (358)
++++++ ++ -+.++.+++.++|++.-.+||.+|-.+.++.++ ..+ .|+.+ .++++.--.+++++|.|.
T Consensus 159 VETygs---~~---~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~K---K~Fe~~d~~slKlkyYeL~V~i~Lh~R~Yl 229 (439)
T COG5071 159 VETYGS---FD---LSEKVAFILEQVRLFLLRSDYYMASTYTKKINK---KFFEKEDVQSLKLKYYELKVRIGLHDRAYL 229 (439)
T ss_pred hhhccc---hh---HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH---HHhccccHHHHHHHHHHHhheeecccHHHH
Confidence 999854 55 488999999999999999999999877666543 222 34443 344445566888999999
Q ss_pred HHHHHHHHHhhhhhhhcch-hHHHHHHHHHHHHHhhCCCCCCcCCcccccCCC---CccHHHHHHHHHHHHhCCHHHHHH
Q 018294 168 DAATDFFEAFKNYDEAGNQ-RRIQCLKYLVLANMLMESEVNPFDGQEAKPYKN---DPEILAMTNLIAAYQRNEIIEFEK 243 (358)
Q Consensus 168 ~A~~~f~e~~~~~~~~~~~-~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~---~p~~~~l~~L~~af~~~d~~~f~~ 243 (358)
++++++.+.+.+-...+++ .+..+|...+..++|++ +....+...++... ....+...+++.+|...++..|..
T Consensus 230 ~v~~y~~~vY~t~~~~~d~Akwk~VLS~~v~F~iLtp--y~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vNelmrwp~ 307 (439)
T COG5071 230 DVCKYYRAVYDTAVVQEDPAKWKEVLSNVVCFALLTP--YDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELMRWPK 307 (439)
T ss_pred HHHHHHHHHHHHHHhccCcccccchhhcceeeEEecc--cccHHHHHHHHhhhhhhhccchhhhhHHHHHHHHHHHhhhH
Confidence 9999999999887766665 67777766555555652 21111111111110 112233668899999999999998
Q ss_pred HHHHhhhhhcCChh------HHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceee
Q 018294 244 ILKSNRKTIMDDPF------IRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI 317 (358)
Q Consensus 244 ~l~~~~~~l~~D~~------l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI 317 (358)
.-..+.+.+..|.| -..||++|..++.+||++.+.++||+|+..+|+..+++|+.++|..++.|+..|-+.|||
T Consensus 308 V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~ISdlVN~G~~yaKi 387 (439)
T COG5071 308 VAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFISDLVNKGHFYAKI 387 (439)
T ss_pred HHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHHHHHhcCcEEEEe
Confidence 88888887776532 247999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhh
Q 018294 318 DQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSN 355 (358)
Q Consensus 318 D~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~ 355 (358)
++++|+|.|..+.. ..+.+++|+.||..+++.++.
T Consensus 388 Nrpa~Ii~FEK~~n---~~~~lneW~~NV~ellgklek 422 (439)
T COG5071 388 NRPAQIISFEKSQN---VQEQLNEWGSNVTELLGKLEK 422 (439)
T ss_pred cCccceEEeecccc---HHHHHHHhcccHHHHHHHHHH
Confidence 99999999988765 368999999999999988764
No 7
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.96 E-value=3.8e-28 Score=223.55 Aligned_cols=263 Identities=16% Similarity=0.287 Sum_probs=224.9
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC--C
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP--H 145 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~--~ 145 (358)
.+++.+|+++|+++.|.+.+.+++.+|+. ..+.+.+++..+++..-+|||.+.-.+..+|.+...+.. .
T Consensus 154 ~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs---------~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~ 224 (466)
T KOG0686|consen 154 EDLGDHYLDCGQLDNALRCYSRARDYCTS---------AKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLA 224 (466)
T ss_pred HHHHHHHHHhccHHHHHhhhhhhhhhhcc---------hHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHH
Confidence 48999999999999999999999999975 367899999999999999999999999999887643311 1
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH-hhhhh--hhcchhHHHHHHHHHHHHHhh--CCCC--CCcCCcccccCC
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEA-FKNYD--EAGNQRRIQCLKYLVLANMLM--ESEV--NPFDGQEAKPYK 218 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~-~~~~~--~~~~~~~~~~l~y~~l~~lL~--~~~~--~~~~~~~~~~~~ 218 (358)
+.+..+++++.|+.++..++|+.|+++|..+ +..++ ....|..+.+ |..||+|-+ +.++ ++..+..++.|.
T Consensus 225 q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~i--YggLcALAtfdr~~Lk~~vi~n~~Fk~fl 302 (466)
T KOG0686|consen 225 QEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAI--YGGLCALATFDRQDLKLNVIKNESFKLFL 302 (466)
T ss_pred HhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHH--HHhhHhhccCCHHHHHHHHHcchhhhhHH
Confidence 3445679999999999999999999999995 55544 5666666666 666777743 3333 345566677775
Q ss_pred -CCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCCh
Q 018294 219 -NDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPE 297 (358)
Q Consensus 219 -~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~ 297 (358)
-+|. +++++..|+++.|..|.++|.+.++.+..|+++++|++.|+..||.++++++..||+++.+..||..|+.++
T Consensus 303 el~Pq---lr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~sv 379 (466)
T KOG0686|consen 303 ELEPQ---LREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTSV 379 (466)
T ss_pred hcChH---HHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhcccH
Confidence 3465 889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHH
Q 018294 298 KDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNS 344 (358)
Q Consensus 298 ~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~ 344 (358)
.++|..|.++|.+|+|.||||+.++++.+.+.++....+++..--++
T Consensus 380 ~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~ 426 (466)
T KOG0686|consen 380 AILESELLELILEGKISGRIDSHNKILYARDADSENATFERVLPMGK 426 (466)
T ss_pred HHHHHHHHHHHHccchheeeccccceeeecccccccchhhhcchhhH
Confidence 99999999999999999999999999999998887777777655443
No 8
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=1.2e-26 Score=205.19 Aligned_cols=278 Identities=14% Similarity=0.239 Sum_probs=236.7
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
-.++|++|.+.+|.+.+.+++.++-..-.. .+.++++.++.+|+.+.-||..-.++.++.+..+...--||
T Consensus 118 ~~n~aeyY~qi~D~~ng~~~~~~~~~~a~s---------tg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDW 188 (412)
T COG5187 118 DRNIAEYYCQIMDIQNGFEWMRRLMRDAMS---------TGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDW 188 (412)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHh---------cccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCH
Confidence 458999999999999999999887665321 36799999999999999999888888888887776666689
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCC--CC--CCcCCcccccCC-CCc
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMES--EV--NPFDGQEAKPYK-NDP 221 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~--~~--~~~~~~~~~~~~-~~p 221 (358)
...++++.|.|+..|..|+|++|+..|.++..+|.+.+-...-.+.+|+++|.+++-. ++ .+++++++.... ...
T Consensus 189 eRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~diktki~dspevl~vi~~~e 268 (412)
T COG5187 189 ERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRDIKTKILDSPEVLDVIGSSE 268 (412)
T ss_pred HhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhhhhhhhcCCHHHHHhccchh
Confidence 9899999999999999999999999999999999888777788899999999998633 33 247777653332 122
Q ss_pred cHHHHHHHHHHHHhCCHH-HHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHH
Q 018294 222 EILAMTNLIAAYQRNEII-EFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDV 300 (358)
Q Consensus 222 ~~~~l~~L~~af~~~d~~-~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~v 300 (358)
.+..+..+..+.+.+||. -|...+.-+...+..|.|+..|++.+.+.+|.+++-|+.++|+.++++.||+.||+|++-+
T Consensus 269 ~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV~yv 348 (412)
T COG5187 269 KLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYV 348 (412)
T ss_pred hhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccHHHH
Confidence 355567888889999998 5666777788889999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHH----HHHHHHHHHHHH
Q 018294 301 EQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDK----WNSQLRSLYQTV 353 (358)
Q Consensus 301 E~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~----w~~~i~~l~~~v 353 (358)
+.-|.++|-+|++++.||+++|+|..++|+..+..|+.+.+ ..+++++-...|
T Consensus 349 drDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~vVkqGd~ll~klqKy~atv 405 (412)
T COG5187 349 DRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSVVKQGDDLLRKLQKYVATV 405 (412)
T ss_pred hhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHHHhcchHHHHHHHHHHHHH
Confidence 99999999999999999999999999999988777776655 556666665555
No 9
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.96 E-value=5e-27 Score=209.76 Aligned_cols=335 Identities=18% Similarity=0.266 Sum_probs=244.7
Q ss_pred HHHHHHhhhhhhcchh--hhHHHHHHHHHHhcCCC------------------CCChhHHHHHHHHHHHHHHHhh---hh
Q 018294 4 AYREMLTYIKSAVTRN--YSEKCINNIMDFVSGSA------------------SQNFSLLREFYQTTLKALEEAK---NE 60 (358)
Q Consensus 4 ~~~~~~~~~~~~~~~~--~~~~~v~~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~i~~~~---~~ 60 (358)
.|++++... ++-+ ..-+.++.++|.+-+.. ....+..+.+++.|++.|++-. ++
T Consensus 24 qyr~~l~~~---lt~~~~el~e~~k~~id~~~~~~vslvvsrqllsl~~~~l~~l~~e~~Kei~~~~l~~iq~rvisfeE 100 (399)
T KOG1497|consen 24 QYRQLLAKV---LTNNGMELLEALKRFIDAIVNENVSLVVSRQLLSLFDVELSILEDELRKEISHFTLEKIQPRVISFEE 100 (399)
T ss_pred HHHHHHHHH---hccchHHHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHhccCCHHHHHHHHHHHHHhcccccccHHH
Confidence 455554433 4444 56666666666553321 1346788899999999887611 11
Q ss_pred hhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh
Q 018294 61 RLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 61 r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
. .+-+..+||.+|+..++|..|+..|..+...+.. -......++..++...++|+..+|...|..+.+++.-..
T Consensus 101 q-v~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~-----~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~ 174 (399)
T KOG1497|consen 101 Q-VASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQ-----KAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQ 174 (399)
T ss_pred H-HHHHHHHHHHHHHHhhhHHHHHHHHhccCcccch-----hhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhh
Confidence 1 1255668999999999999999999988877621 111247789999999999999999999999999875444
Q ss_pred ccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCccc-ccCCC
Q 018294 141 SAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEA-KPYKN 219 (358)
Q Consensus 141 ~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~-~~~~~ 219 (358)
....++.++..++.|.+++....|+|.+|++.||+... +.......+..+|+.++.|.+|+... |..++.. -.|++
T Consensus 175 a~~~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~-~ki~~e~~~~~aL~~a~~CtlLA~~g--pqrsr~Latlfkd 251 (399)
T KOG1497|consen 175 AESSNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQ-RKIVDESERLEALKKALQCTLLASAG--PQRSRMLATLFKD 251 (399)
T ss_pred hcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhcchHHHHHHHHHhHhheeecCCC--hHHHHHHHHHhcC
Confidence 43467899999999999999999999999999998632 22334457889999999999998443 3333321 22331
Q ss_pred C--ccHHHHHHHHHH-----HHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhH
Q 018294 220 D--PEILAMTNLIAA-----YQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKE 292 (358)
Q Consensus 220 ~--p~~~~l~~L~~a-----f~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~ 292 (358)
. |+++++--+-+. ....++..|...|..|+..-..|+ ...+-+.+.+|||+..++-|.+|+|+.+++.
T Consensus 252 er~~~l~~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dg-----ssil~ra~~EhNlls~Skly~nisf~~Lg~l 326 (399)
T KOG1497|consen 252 ERCQKLPAYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDG-----SSILDRAVIEHNLLSASKLYNNISFEELGAL 326 (399)
T ss_pred cccccccchHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCc-----chhhhhHHHHHhHHHHHHHHHhccHHHHHHH
Confidence 1 233333332222 356778899999988876544444 3567788999999999999999999999999
Q ss_pred hCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhh
Q 018294 293 LNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSN 355 (358)
Q Consensus 293 l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~ 355 (358)
|++|++.+|+..++||..|+++|.|||.+|+|||.+.......-.++...++.|++++..+..
T Consensus 327 l~i~~ekaekiaa~MI~qeRmng~IDQ~egiihFe~~e~l~~wdkqi~sl~~qvNki~~~i~~ 389 (399)
T KOG1497|consen 327 LKIDAEKAEKIAAQMITQERMNGSIDQIEGIIHFEDREELPQWDKQIQSLCNQVNKILDKISH 389 (399)
T ss_pred hCCCHHHHHHHHHHHHhHHHhccchHhhcceEeecchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999987433222345555566666666666554
No 10
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=5.2e-26 Score=205.16 Aligned_cols=280 Identities=18% Similarity=0.254 Sum_probs=221.8
Q ss_pred Hhh-hhhHHHHh----hhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 65 KTN-LKLCKIWF----DMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 65 ~~~-~~la~~~~----~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
+++ +.++++.+ ..+|.++|.++++++...+... ++ +...+.+...+.+.++..||+..++..++..++.
T Consensus 71 kINplslvei~l~~~~~~~D~~~al~~Le~i~~~~~~~---~e---~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ 144 (380)
T KOG2908|consen 71 KINPLSLVEILLVVSEQISDKDEALEFLEKIIEKLKEY---KE---PDAVIYILTEIARLKLEINDLKEIKKLLDDLKSM 144 (380)
T ss_pred ccChHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhh---cc---chhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 444 46666654 5578999999999999987643 22 2457777788899999999999999999999887
Q ss_pred hccCC--ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhh---cchhHHHHHHHHHHHHHhhCCCCCCcCCccc
Q 018294 140 KSAIP--HPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEA---GNQRRIQCLKYLVLANMLMESEVNPFDGQEA 214 (358)
Q Consensus 140 ~~~~~--~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~---~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~ 214 (358)
.+... +|.+.+.++..+..+|-..+||..++++-..- -++.+. ...++.+...-+.++++|+.+.+| |.....
T Consensus 145 ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~Y-L~~~d~~~l~~se~~~lA~~L~~aALLGe~iyN-fGELL~ 222 (380)
T KOG2908|consen 145 LDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHALLY-LGCSDIDDLSESEKQDLAFDLSLAALLGENIYN-FGELLA 222 (380)
T ss_pred HhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHH-hccccccccCHHHHHHHHHHHHHHHHhcccccc-HHHHHh
Confidence 77655 36688999888888888888886654433332 223222 223444444459999999765554 433333
Q ss_pred ccC---CCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhc--cc--ccccchh
Q 018294 215 KPY---KNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLI--KP--YTRIRIP 287 (358)
Q Consensus 215 ~~~---~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~--~~--y~~I~l~ 287 (358)
+|. ..+...+|+.+++.||+.||+..|++.... +..-|.|+++...|.++|+..+++.++ +| -+.|+|+
T Consensus 223 HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~----~~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~ 298 (380)
T KOG2908|consen 223 HPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGV----WGKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFK 298 (380)
T ss_pred hHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHH----hccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHH
Confidence 332 125778999999999999999999998764 555899999999999999999999988 44 4789999
Q ss_pred hHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC-------CccchHHHHHHHHHHHHHHHHHHHhhh
Q 018294 288 FISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR-------SKGMKKYTAIDKWNSQLRSLYQTVSNR 356 (358)
Q Consensus 288 ~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~-------~~~~~~~~~l~~w~~~i~~l~~~v~~~ 356 (358)
.||+++.+|.++||.++|++++.|.|+|.||+++|+|+++|. +++..|.+++..|.++|+++...|+.|
T Consensus 299 ~Ia~~tkip~~eVE~LVMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~ 374 (380)
T KOG2908|consen 299 EIAEATKIPNKEVELLVMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHR 374 (380)
T ss_pred HHHHHhCCCHHHHHHHHHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999984 445678999999999999999999876
No 11
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=2.7e-22 Score=179.69 Aligned_cols=275 Identities=19% Similarity=0.230 Sum_probs=204.7
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHH---HHHhcCHHHHHHHHHHHHhhhc
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQM---YTETKNNKKLKQLYQKALAIKS 141 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~---~~~~~d~~~a~~~l~~a~~~~~ 141 (358)
...+++|++.+++|+|..|..+|.-.+..+..++ ....+.+|+-++.++.+ -.++.|+.+.+++++..
T Consensus 130 ~~lykyakfqyeCGNY~gAs~yLY~~r~l~~~~d----~n~lsalwGKlASEIL~qnWd~A~edL~rLre~IDs~----- 200 (432)
T KOG2758|consen 130 ETLYKYAKFQYECGNYSGASDYLYFYRALVSDPD----RNYLSALWGKLASEILTQNWDGALEDLTRLREYIDSK----- 200 (432)
T ss_pred HHHHHHHHHHHhccCcccHHHHHHHHHHhcCCcc----hhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHccc-----
Confidence 3356999999999999999999999999997653 32245667776666544 44556666666665531
Q ss_pred cCCCh--hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh---hhhhhcchhHHHHHHHHHHHHHhhCCCC-CC------c
Q 018294 142 AIPHP--RIMGIIRECGGKMHMAERQWADAATDFFEAFK---NYDEAGNQRRIQCLKYLVLANMLMESEV-NP------F 209 (358)
Q Consensus 142 ~~~~~--~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~---~~~~~~~~~~~~~l~y~~l~~lL~~~~~-~~------~ 209 (358)
.+..| .++.+-+...+-++.. -++..++....+.|- -|-++....++++++|++.|.+...+.. +. +
T Consensus 201 ~f~~~~~~l~qRtWLiHWslfv~-fnhpkgrd~iid~fly~p~YLNaIQt~cPhllRYLatAvvtnk~~rr~~lkdlvkV 279 (432)
T KOG2758|consen 201 SFSTSAQQLQQRTWLIHWSLFVF-FNHPKGRDTIIDMFLYQPPYLNAIQTSCPHLLRYLATAVVTNKRRRRNRLKDLVKV 279 (432)
T ss_pred ccccHHHHHHHHHHHHHHHHHhh-ccCCChhhHHHHHHccCHHHHHHHHhhCHHHHHHHHHHhhcchHhhHHHHHHHHHH
Confidence 12222 2334444333322221 234455666666653 2445666788999999999999652322 11 2
Q ss_pred CCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhH
Q 018294 210 DGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFI 289 (358)
Q Consensus 210 ~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~l 289 (358)
.+++-..|+ ||-++++..| |.+.|+...+..|.+++.++..|+|+....+++.+..|...+-.+++.+++|+++-+
T Consensus 280 IqqE~ysYk-DPiteFl~cl---yvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHqcIti~mL 355 (432)
T KOG2758|consen 280 IQQESYSYK-DPITEFLECL---YVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLIFETFCRIHQCITIDML 355 (432)
T ss_pred HHHhccccC-CcHHHHHHHH---hhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHheeHHHH
Confidence 356667777 8987766554 899999999999999999999999999999999999999999999999999999999
Q ss_pred HhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHH----HHHHHHHHHHHHhh
Q 018294 290 SKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDK----WNSQLRSLYQTVSN 355 (358)
Q Consensus 290 a~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~----w~~~i~~l~~~v~~ 355 (358)
|..++++++++|.|++++|.+.+|+||||...|.|+|..++.. .++++.+ .+-+-++|...++.
T Consensus 356 A~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg~~~~s--~~qQ~ie~tksLS~rsq~la~~lek 423 (432)
T KOG2758|consen 356 ADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMGHPTVS--PHQQLIEKTKSLSFRSQNLAQQLEK 423 (432)
T ss_pred HHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeecCCCCC--HHHHHHHhccccchhHHHHHHHHHH
Confidence 9999999999999999999999999999999999999877653 5777766 34444555555554
No 12
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=99.83 E-value=7.9e-20 Score=143.96 Aligned_cols=105 Identities=33% Similarity=0.626 Sum_probs=98.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHH
Q 018294 224 LAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQL 303 (358)
Q Consensus 224 ~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~ 303 (358)
+|+.+|+++|.++|+..|.+.++.+...+..|+++..+++.+.++++.+++.+++++|++|++++||+.++++.+++|.+
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~~vE~~ 80 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEEEVESI 80 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHHHHHHH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchHHHHHH
Confidence 57899999999999999999999997788889999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhcCccceeeeccCCEEEEcc
Q 018294 304 LVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 304 l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
+++||.+|.|+|+||+++|+|+|++
T Consensus 81 l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 81 LIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHCCCEEEEEECCCCEEEecC
Confidence 9999999999999999999999974
No 13
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.77 E-value=5.4e-16 Score=143.45 Aligned_cols=225 Identities=18% Similarity=0.251 Sum_probs=166.7
Q ss_pred HHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC---hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh-hhcchhHH
Q 018294 114 AIEIQMYTETKNNKKLKQLYQKALAIKSAIPH---PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYD-EAGNQRRI 189 (358)
Q Consensus 114 ~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~---~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~-~~~~~~~~ 189 (358)
-+..|.|+..+-+..|..+.-++ ..|+ ....+++-.|.|++.+-+.+|.+|..+|..+...-+ ........
T Consensus 213 N~LLr~yL~n~lydqa~~lvsK~-----~~pe~~snne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q 287 (493)
T KOG2581|consen 213 NLLLRNYLHNKLYDQADKLVSKS-----VYPEAASNNEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQ 287 (493)
T ss_pred HHHHHHHhhhHHHHHHHHHhhcc-----cCccccccHHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHH
Confidence 34457777776666665444332 1222 234678889999999999999999999999876443 33334566
Q ss_pred HHHHHHHHHHHhhCCCCC--CcCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHH
Q 018294 190 QCLKYLVLANMLMESEVN--PFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLK 267 (358)
Q Consensus 190 ~~l~y~~l~~lL~~~~~~--~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~ 267 (358)
++-+.+++..+|.+.... .|..+.. ...+.++..|.+|...||+..|.+.++++.+.|..|.... -.-.|..
T Consensus 288 ~v~k~~ivv~ll~geiPers~F~Qp~~-----~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~-LivRLR~ 361 (493)
T KOG2581|consen 288 QVNKLMIVVELLLGEIPERSVFRQPGM-----RKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYT-LIVRLRH 361 (493)
T ss_pred HHHHHHHHHHHHcCCCcchhhhcCccH-----HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcch-HHHHHHH
Confidence 777788888888654321 2443321 1246668899999999999999999999999999887653 2346777
Q ss_pred HHHHHHHHHhcccccccchhhHHhHhCCC-hHHHHHHHHHhhhcCccceeeeccCCEEEEcc------CCccchHHHHHH
Q 018294 268 NVRTQVLLKLIKPYTRIRIPFISKELNVP-EKDVEQLLVSLILDNRIDGHIDQVNRLLERGD------RSKGMKKYTAID 340 (358)
Q Consensus 268 ~i~~~~l~~~~~~y~~I~l~~la~~l~l~-~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~------~~~~~~~~~~l~ 340 (358)
++..-.|+.+.-.||+|++.+||+.|+++ ++++|.+++++|.+|.|+|+||..+|++.... ...+...+..=.
T Consensus 362 NVIkTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI 441 (493)
T KOG2581|consen 362 NVIKTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERI 441 (493)
T ss_pred HHHHHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHH
Confidence 77777888888999999999999999995 56699999999999999999999999887653 333334455555
Q ss_pred HHHHHHHHH
Q 018294 341 KWNSQLRSL 349 (358)
Q Consensus 341 ~w~~~i~~l 349 (358)
..|.++.+.
T Consensus 442 ~fCl~LhN~ 450 (493)
T KOG2581|consen 442 RFCLQLHNE 450 (493)
T ss_pred HHHHHHHHH
Confidence 566666553
No 14
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.60 E-value=4e-15 Score=113.43 Aligned_cols=72 Identities=32% Similarity=0.493 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCcc
Q 018294 261 YIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKG 332 (358)
Q Consensus 261 ~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~ 332 (358)
|++.+.++++.+++.+++++|++|++++||+.|++|.+++|.+|++||.+|.|+|+||+.+|+|++.+.+++
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 678999999999999999999999999999999999999999999999999999999999999999988765
No 15
>smart00753 PAM PCI/PINT associated module.
Probab=99.60 E-value=4e-15 Score=113.43 Aligned_cols=72 Identities=32% Similarity=0.493 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCcc
Q 018294 261 YIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKG 332 (358)
Q Consensus 261 ~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~ 332 (358)
|++.+.++++.+++.+++++|++|++++||+.|++|.+++|.+|++||.+|.|+|+||+.+|+|++.+.+++
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 678999999999999999999999999999999999999999999999999999999999999999988765
No 16
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.58 E-value=4.6e-13 Score=122.68 Aligned_cols=299 Identities=14% Similarity=0.178 Sum_probs=204.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhHH------HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHH
Q 018294 43 LREFYQTTLKALEEAKNERLWF------KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIE 116 (358)
Q Consensus 43 ~~~~~~~~~~~i~~~~~~r~~~------~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~ 116 (358)
-.+.++.+...++.++.|.+.+ -+...++...++.++..-...++........... ..+.-++...
T Consensus 75 ~~~li~~~~~FV~~~n~eqlr~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~--------~qlT~~H~~l 146 (422)
T KOG2582|consen 75 PETLIELLNDFVDENNGEQLRLASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSN--------GQLTSIHADL 146 (422)
T ss_pred HHHHHHHHHHHHHhcChHHHhhHHHHHHHHHHHHHHHHHhcCCccccchHHHHHHHHhccCc--------cchhhhHHHH
Confidence 4566677777888888886443 4445777777766655544555555555543321 3566677777
Q ss_pred HHHHHHhcCHHHHHHHHHHHHh-h--hccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHH
Q 018294 117 IQMYTETKNNKKLKQLYQKALA-I--KSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLK 193 (358)
Q Consensus 117 ~~~~~~~~d~~~a~~~l~~a~~-~--~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~ 193 (358)
+.+++..+++.-...+++.-.. + .++-.+|+..-.+..|+|.++...+||..|.-.|+.+..++.-..+....++++
T Consensus 147 ~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa~~vs~~hlEaYk 226 (422)
T KOG2582|consen 147 LQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPAMAVSHIHLEAYK 226 (422)
T ss_pred HHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 7888888887655444432110 0 122335666666778899999999999999876666665554444444455555
Q ss_pred -HHHHHHHhhCCCCC--CcCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHH
Q 018294 194 -YLVLANMLMESEVN--PFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVR 270 (358)
Q Consensus 194 -y~~l~~lL~~~~~~--~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~ 270 (358)
|+.++-|+.+.... --.++.+.++. .|-..++.+++++|.++.-.+...+..++.+.|..|.... .+......+-
T Consensus 227 kylLvsLI~~GK~~ql~k~ts~~~~r~~-K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~-l~k~av~sl~ 304 (422)
T KOG2582|consen 227 KYLLVSLILTGKVFQLPKNTSQNAGRFF-KPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTG-LAKQAVSSLY 304 (422)
T ss_pred HHHHHHhhhcCceeeccccchhhhHHhc-ccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHH-HHHHHHHHHH
Confidence 46666666654321 12344444443 3445568999999999999999999999999999998775 4677788889
Q ss_pred HHHHHHhcccccccchhhHHhHhCC-ChHHHHHHHHHhhhcCccceeeeccCCEEEEccCC---ccchHHHHHHHHHHHH
Q 018294 271 TQVLLKLIKPYTRIRIPFISKELNV-PEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRS---KGMKKYTAIDKWNSQL 346 (358)
Q Consensus 271 ~~~l~~~~~~y~~I~l~~la~~l~l-~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~---~~~~~~~~l~~w~~~i 346 (358)
.|+|.++.+.|+++++++||++..+ +.++||++|.+||.+|+|.+.|| |.|.|.+.+ ...+|.+.=...+..+
T Consensus 305 k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~nk~~~~~~L 381 (422)
T KOG2582|consen 305 KKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPEMHENKIDLCIQL 381 (422)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHHHHhhHHHHHHHH
Confidence 9999999999999999999998777 67899999999999999999999 999987632 2224555333334444
Q ss_pred HHHHHHHh
Q 018294 347 RSLYQTVS 354 (358)
Q Consensus 347 ~~l~~~v~ 354 (358)
.+.+..++
T Consensus 382 ~e~l~~~e 389 (422)
T KOG2582|consen 382 IEALKAME 389 (422)
T ss_pred HHHHHhcc
Confidence 44443333
No 17
>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=99.44 E-value=4.3e-12 Score=109.27 Aligned_cols=135 Identities=11% Similarity=0.115 Sum_probs=115.5
Q ss_pred hhhhHHHh-hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 59 NERLWFKT-NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 59 ~~r~~~~~-~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
.++..+|. ..++|++|++.||+++|.+.+.+.+..|.. ...++++++..+|+++..+|+..+..++.++.
T Consensus 30 ~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~---------~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~ 100 (177)
T PF10602_consen 30 LGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTS---------PGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE 100 (177)
T ss_pred cchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCC---------HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 33445544 358999999999999999999999999864 37799999999999999999999999999999
Q ss_pred hhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh---hcchhHHHHHHHHHHHHHhh
Q 018294 138 AIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE---AGNQRRIQCLKYLVLANMLM 202 (358)
Q Consensus 138 ~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~---~~~~~~~~~l~y~~l~~lL~ 202 (358)
.......+|...++++.+.|++++..|+|..|+..|.++..+|.. .+-....++..|.+||++++
T Consensus 101 ~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y~~l~aLat 168 (177)
T PF10602_consen 101 SLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIYGGLCALAT 168 (177)
T ss_pred HHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHHHHHHHHHh
Confidence 888777788999999999999999999999999999998777753 22224456677999999976
No 18
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=99.26 E-value=5.5e-09 Score=95.02 Aligned_cols=173 Identities=17% Similarity=0.261 Sum_probs=125.3
Q ss_pred HHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCccc-ccCCCCccHHHHHHHHHHHHhCCHHHHHHH
Q 018294 166 WADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEA-KPYKNDPEILAMTNLIAAYQRNEIIEFEKI 244 (358)
Q Consensus 166 y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~-~~~~~~p~~~~l~~L~~af~~~d~~~f~~~ 244 (358)
-.++.+-|.+.+.+|.+-....+..-..-++.-++-+++.. .|+..+. .+.+. -+-..+..|+..|..+.+..+-++
T Consensus 181 ~~~s~kvmt~lLgtyt~dnas~AredA~rcV~~av~dP~~F-~fD~Ll~L~pV~q-LE~d~i~qLL~IF~s~~L~aYveF 258 (378)
T KOG2753|consen 181 VDESSKVMTELLGTYTEDNASEAREDAMRCVVEAVKDPKIF-LFDHLLTLPPVKQ-LEGDLIHQLLKIFVSGKLDAYVEF 258 (378)
T ss_pred hhhHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCcee-ccchhccCchHHH-hccchHHHHHHHHHhcchHHHHHH
Confidence 44577777777788876553344444345556565332211 1221111 11110 011127889999999999999888
Q ss_pred HHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEE
Q 018294 245 LKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLL 324 (358)
Q Consensus 245 l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v 324 (358)
-+.+..-+..-++.. +....+||..-++.++.+-..|+++.|++.|++..+|||.++.+.|..|.+.|||||.+++|
T Consensus 259 ~~~N~~Fvqs~gl~~---E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~~~~v 335 (378)
T KOG2753|consen 259 VAANSGFVQSQGLVH---EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQMNRTV 335 (378)
T ss_pred HHhChHHHHHhcccH---HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhhcceE
Confidence 887765433333332 47899999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcc-------CCccchHHHHHHHHH
Q 018294 325 ERGD-------RSKGMKKYTAIDKWN 343 (358)
Q Consensus 325 ~~~~-------~~~~~~~~~~l~~w~ 343 (358)
+++. ..++...++.|..|.
T Consensus 336 iVs~~~hR~FG~~qW~~L~~kL~aw~ 361 (378)
T KOG2753|consen 336 IVSSSTHRTFGKQQWQQLRDKLAAWG 361 (378)
T ss_pred EeehhhhhhcccHHHHHHHHHHHHHH
Confidence 9985 466667889999996
No 19
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=99.22 E-value=5.7e-09 Score=96.58 Aligned_cols=246 Identities=17% Similarity=0.179 Sum_probs=161.5
Q ss_pred hHhHHHHHHHHHHHhcccCCCC-cchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh---hhh-HHHh
Q 018294 79 EYGRMSKILKELHKSCQREDGT-DDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP---RIM-GIIR 153 (358)
Q Consensus 79 ~~~~a~~~l~~l~~~~~~~~~~-~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~---~~~-~~i~ 153 (358)
..+++.+++.+....|-.+.+. -..++.....-+--....+|++++++.-++.+++.... .+....+ .-+ -.+.
T Consensus 145 ~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~-vs~~Di~~~~~sq~v~f~ 223 (413)
T COG5600 145 NLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKE-VSMPDISEYQKSQVVVFH 223 (413)
T ss_pred hHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhccc-ccccccchhhhcceeehh
Confidence 4678889999999998765433 11212222333334566789999999999988775443 2221112 112 2566
Q ss_pred hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCcccccCCCCccHHHHHHHHHHH
Q 018294 154 ECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILAMTNLIAAY 233 (358)
Q Consensus 154 ~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~~p~~~~l~~L~~af 233 (358)
.|-|++++...+|.+|.-+|-++|..+.....-+...++-|++..++|.+.-+ |... ..-. .+..+.+.-|+++.
T Consensus 224 YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~-Ptk~-~L~r---~~~~s~~~~Lvkav 298 (413)
T COG5600 224 YYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFP-PTKD-LLER---FKRCSVYSPLVKAV 298 (413)
T ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCC-CchH-HHHh---ccccchhHHHHHHH
Confidence 78899999999999999999999987765544455667778888888765433 2111 1111 23355678899999
Q ss_pred HhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHH----hcccccc--cchhhHHhHhCC-----ChHHHHH
Q 018294 234 QRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLK----LIKPYTR--IRIPFISKELNV-----PEKDVEQ 302 (358)
Q Consensus 234 ~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~----~~~~y~~--I~l~~la~~l~l-----~~~~vE~ 302 (358)
..|++..|...+++++.-|..-. +.--+...++-+.-+|+.+ ...--++ .++-.++..+.. +.++||.
T Consensus 299 rsGni~~~~~~l~~ner~~~~~~-l~ltl~~~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEc 377 (413)
T COG5600 299 RSGNIEDFDLALSRNERKFAKRG-LYLTLLAHYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVEC 377 (413)
T ss_pred HcCCHHHHHHHHHHhHHHHHHcc-hHHHHHhhccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHH
Confidence 99999999999999875433222 2111122233333333332 1111234 444455555543 3689999
Q ss_pred HHHHhhhcCccceeeeccCCEEEEccCCc
Q 018294 303 LLVSLILDNRIDGHIDQVNRLLERGDRSK 331 (358)
Q Consensus 303 ~l~~lI~~g~i~akID~~~g~v~~~~~~~ 331 (358)
.++.||..|.++|.|-+...+|++...++
T Consensus 378 iL~tlI~~G~lrgYis~s~~~vV~sk~~p 406 (413)
T COG5600 378 ILVTLIGLGLLRGYISHSRRTVVFSKKDP 406 (413)
T ss_pred HHHHHHhhhhhhheecccceEEEEecCCC
Confidence 99999999999999999999999987765
No 20
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=99.07 E-value=1e-08 Score=96.77 Aligned_cols=240 Identities=19% Similarity=0.216 Sum_probs=161.9
Q ss_pred HhHHHHHHHHHHHhcccCCCC-cchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-hhh-hHHHhhhh
Q 018294 80 YGRMSKILKELHKSCQREDGT-DDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-PRI-MGIIRECG 156 (358)
Q Consensus 80 ~~~a~~~l~~l~~~~~~~~~~-~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~~~-~~~i~~~~ 156 (358)
+++|.+.+.+....|-.+... .+.++......+-....++|++++.+.-++...+......+...+ +.- .-.+..+-
T Consensus 132 le~~s~~i~~~f~~cl~d~~~~~~~~kk~~~~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~Yyl 211 (394)
T KOG2688|consen 132 LEAASRTISRLFSSCLSDRRADLEESKKVAMLYIVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYL 211 (394)
T ss_pred HHHHHHHHHHHHHHHhCccccccccchhhHHHHHHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeee
Confidence 567777787777777543111 123334555666666778899999999888887765443211111 111 12345567
Q ss_pred hhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCcccccCCCCccHHHHHHHHHHHHhC
Q 018294 157 GKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILAMTNLIAAYQRN 236 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~~p~~~~l~~L~~af~~~ 236 (358)
|++++.+.||.+|..++-++|..+...--.+...++.|++.+.++.+.- |-.. ....| + ...+..++++...|
T Consensus 212 Gr~a~~~~d~~~A~~~L~~af~~cp~~~~~n~~~iliylip~~~llg~~--Pt~~-lL~~~---~-~~~~~~lv~aVr~G 284 (394)
T KOG2688|consen 212 GRYAMFESDFLNAFLQLNEAFRLCPDLLLKNKRLILIYLIPTGLLLGRI--PTKE-LLDFY---T-LDKYSPLVQAVRSG 284 (394)
T ss_pred eeehhhhhhHHHHHHHHHHHHHhCcHHHHhhhhhHHHHHhHHHHHhccC--cchh-hHhHh---h-HHhHHHHHHHHHhc
Confidence 8999999999999999999998776544445566888988888876541 2100 01111 1 45678899999999
Q ss_pred CHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcc-------cccccchhhHHhHhCC------ChHHHHHH
Q 018294 237 EIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIK-------PYTRIRIPFISKELNV------PEKDVEQL 303 (358)
Q Consensus 237 d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~-------~y~~I~l~~la~~l~l------~~~~vE~~ 303 (358)
++..|...+++++..|..-.. --..+..+...+..+++ --++++++.+-.++.. +.+++|..
T Consensus 285 nl~~f~~al~~~E~~f~~~gi-----~l~l~~l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveci 359 (394)
T KOG2688|consen 285 NLRLFDLALADNERFFIRSGI-----YLTLEKLPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECI 359 (394)
T ss_pred cHHHHHHHHhhhHHHHHHhcc-----HHHhhhhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHH
Confidence 999999999998854432221 11222233333333332 2268888888877764 46999999
Q ss_pred HHHhhhcCccceeeeccCCEEEEccCCc
Q 018294 304 LVSLILDNRIDGHIDQVNRLLERGDRSK 331 (358)
Q Consensus 304 l~~lI~~g~i~akID~~~g~v~~~~~~~ 331 (358)
|+.+|..|+|+|.|++....+++...++
T Consensus 360 La~lI~~G~ikgYish~~~~~V~sK~~p 387 (394)
T KOG2688|consen 360 LANLIDLGRIKGYISHQLQTLVFSKKDP 387 (394)
T ss_pred HHhhhhhccccchhchhhheEEEecCCC
Confidence 9999999999999999999999987654
No 21
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=2.3e-07 Score=91.84 Aligned_cols=239 Identities=15% Similarity=0.168 Sum_probs=150.9
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHHhhhccC--CChhhhH---HHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh--hh-
Q 018294 112 VYAIEIQMYTETKNNKKLKQLYQKALAIKSAI--PHPRIMG---IIRECGGKMHMAERQWADAATDFFEAFKNYD--EA- 183 (358)
Q Consensus 112 ~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~--~~~~~~~---~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~--~~- 183 (358)
..++-|-...-.+||.+|+.++-.+.- .+.| .|+..|. +.-..-|+..+..|--.+|..++.+...+-. ++
T Consensus 488 AmLchIYh~AL~d~f~~ARDlLLMSHl-QdnI~h~D~stQIL~NRtmvQLGLCAFR~Gmi~EaH~~L~dl~st~r~kELL 566 (843)
T KOG1076|consen 488 AMLCHIYHHALHDNFYTARDLLLMSHL-QDNIQHADISTQILFNRTMVQLGLCAFRQGMIKEAHQCLSDLQSTGRVKELL 566 (843)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH-HHHhhccChhHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcchHHHHH
Confidence 333433333335789999988876632 1222 2343332 2224457778888889999988888653310 00
Q ss_pred c-------------ch----hH----------HHHHHH-HHHHHHhhCCC------------C--CCcCCc----ccccC
Q 018294 184 G-------------NQ----RR----------IQCLKY-LVLANMLMESE------------V--NPFDGQ----EAKPY 217 (358)
Q Consensus 184 ~-------------~~----~~----------~~~l~y-~~l~~lL~~~~------------~--~~~~~~----~~~~~ 217 (358)
| .. ++ +..|-- ...|+||-.=+ + .+|..+ +-+.|
T Consensus 567 gQgv~~~~~he~t~eQe~~eR~rQlPyHmHINLELlEcVyLtcaMLlEIP~MAA~~~d~Rrr~iSk~frr~Le~serqsf 646 (843)
T KOG1076|consen 567 GQGVLQRRQHEKTAEQEKIERRRQLPYHMHINLELLECVYLTCAMLLEIPYMAAHESDARRRMISKSFRRQLEHSERQSF 646 (843)
T ss_pred hhhhhhhhhhccChhhHHHHHhhcCchhhhccHHHHHHHHHHHHHHHhhhHHhhhhhhhhcccccHHHHHHHHHHhhccc
Confidence 0 00 01 112211 34677764210 0 012111 12234
Q ss_pred CCCcc--HHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhccc----ccccchhhHHh
Q 018294 218 KNDPE--ILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKP----YTRIRIPFISK 291 (358)
Q Consensus 218 ~~~p~--~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~----y~~I~l~~la~ 291 (358)
..-|+ -+-+....+|...||+..|.+++-.....+..=|.-..-.+-|.++|++-.|+.|+.. |.+|+++.||+
T Consensus 647 ~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~ 726 (843)
T KOG1076|consen 647 TGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLAD 726 (843)
T ss_pred cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHH
Confidence 32233 1224466788999999999996655444554333333334678899999999888754 67999999999
Q ss_pred HhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHHHH
Q 018294 292 ELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQT 352 (358)
Q Consensus 292 ~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~ 352 (358)
+|++|+..|-.+|++||.+..|.|+.|++.++|+|++ .+++.........+.++..|...
T Consensus 727 mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hr-vE~srlq~La~qL~eKl~~L~E~ 786 (843)
T KOG1076|consen 727 MFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHR-VEPSRLQSLAVQLSEKLAILAEN 786 (843)
T ss_pred HhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEee-ccchHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999988 44445555566677777666554
No 22
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.86 E-value=0.0013 Score=60.93 Aligned_cols=175 Identities=14% Similarity=0.163 Sum_probs=110.4
Q ss_pred chHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHhhhccCCChhhhHHHhhhh
Q 018294 78 GEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTET-KNNKKLKQLYQKALAIKSAIPHPRIMGIIRECG 156 (358)
Q Consensus 78 g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~-~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~ 156 (358)
+++++|.+.+.......... |. .......+....++|... ||+.+|..+|.+|..+-.....+........-.
T Consensus 88 ~~~~~Ai~~~~~A~~~y~~~-G~-----~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~ 161 (282)
T PF14938_consen 88 GDPDEAIECYEKAIEIYREA-GR-----FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKA 161 (282)
T ss_dssp TTHHHHHHHHHHHHHHHHHC-T------HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hCHHHHHHHHHHHHHHHHhc-Cc-----HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHH
Confidence 37778887777766654321 11 345566777777888887 899999999999877654443444444454555
Q ss_pred hhhHhhhhcHHHHHHHHHHHhhhhhhhc--chhHHHHHHHHHHHHHhhCCCCC---CcCC--cccccCCCCccHHHHHHH
Q 018294 157 GKMHMAERQWADAATDFFEAFKNYDEAG--NQRRIQCLKYLVLANMLMESEVN---PFDG--QEAKPYKNDPEILAMTNL 229 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~~~~~~~~--~~~~~~~l~y~~l~~lL~~~~~~---~~~~--~~~~~~~~~p~~~~l~~L 229 (358)
|.++...++|.+|...|-+....+.+.. .......+-..+||.|..+..+. .+.. .....|...++...+..|
T Consensus 162 A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l 241 (282)
T PF14938_consen 162 ADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDL 241 (282)
T ss_dssp HHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHH
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHH
Confidence 7888899999999999888765543322 22444444456777775433211 0110 011234445678889999
Q ss_pred HHHHHhCCHHHHHHHHHHhhhhhcCChhH
Q 018294 230 IAAYQRNEIIEFEKILKSNRKTIMDDPFI 258 (358)
Q Consensus 230 ~~af~~~d~~~f~~~l~~~~~~l~~D~~l 258 (358)
++||.++|...|...+..|...-..|+..
T Consensus 242 ~~A~~~~D~e~f~~av~~~d~~~~ld~w~ 270 (282)
T PF14938_consen 242 LEAYEEGDVEAFTEAVAEYDSISRLDNWK 270 (282)
T ss_dssp HHHHHTT-CCCHHHHCHHHTTSS---HHH
T ss_pred HHHHHhCCHHHHHHHHHHHcccCccHHHH
Confidence 99999999999999999998777778754
No 23
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=97.73 E-value=0.075 Score=54.64 Aligned_cols=76 Identities=21% Similarity=0.275 Sum_probs=69.2
Q ss_pred hcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhC-CChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 252 IMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELN-VPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 252 l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~-l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
+...|...+++..|.+.+..+.+.+++.-|.+|++++|.+..- ++.-++|+.+++....+-+..+||+..++|.|.
T Consensus 416 ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~Fg 492 (988)
T KOG2072|consen 416 LSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFG 492 (988)
T ss_pred HHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeec
Confidence 4455666888999999999999999999999999999998866 488899999999999999999999999999998
No 24
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=97.73 E-value=8.1e-05 Score=61.82 Aligned_cols=84 Identities=24% Similarity=0.383 Sum_probs=66.2
Q ss_pred CccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHH
Q 018294 220 DPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKD 299 (358)
Q Consensus 220 ~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~ 299 (358)
+|.+..+..|.++..+++|.+|-..++.+.. .+.+...+..|.+.+|...+.-+.+.|++|+++.+|+.||++.++
T Consensus 38 ~~~i~~i~~l~~~L~~~~~~~~~~~~~~~~~----~~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~e 113 (143)
T PF10075_consen 38 DPEIKAIWSLGQALWEGDYSKFWQALRSNPW----SPDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEE 113 (143)
T ss_dssp -TTHHHHHHHHHHHHTT-HHHHHHHS-TT--------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHH
T ss_pred hHHHHHHHHHHHHHHCCCHHHHHHHHHhccc----hHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHH
Confidence 5889999999999999999999887664311 245667788899999999999999999999999999999999988
Q ss_pred HHHHHHHh
Q 018294 300 VEQLLVSL 307 (358)
Q Consensus 300 vE~~l~~l 307 (358)
++.++.+-
T Consensus 114 l~~~~~~~ 121 (143)
T PF10075_consen 114 LEKFIKSR 121 (143)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHc
Confidence 98888774
No 25
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=97.65 E-value=0.0028 Score=61.11 Aligned_cols=181 Identities=17% Similarity=0.205 Sum_probs=108.9
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHHhhhccCCC--hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhh------c--
Q 018294 115 IEIQMYTETKNNKKLKQLYQKALAIKSAIPH--PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEA------G-- 184 (358)
Q Consensus 115 ~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~--~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~------~-- 184 (358)
...|++.-+||+..|-..++...--..+++. |.-+-....+-|..|+..|+|.+|.+.|..++...... .
T Consensus 127 gLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~~~~ 206 (404)
T PF10255_consen 127 GLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQRSY 206 (404)
T ss_pred HHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccc
Confidence 3558888899999877665532100001111 22222344567999999999999999999964221110 0
Q ss_pred -----chhHHHHHHHHHHHHHhhCCCCC-CcCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcC----
Q 018294 185 -----NQRRIQCLKYLVLANMLMESEVN-PFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMD---- 254 (358)
Q Consensus 185 -----~~~~~~~l~y~~l~~lL~~~~~~-~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~---- 254 (358)
....-+++.-+++|..|++..++ .+.+..--+ +.+=......||+..|.++.....+.|..
T Consensus 207 q~d~i~K~~eqMyaLlAic~~l~p~~lde~i~~~lkek---------y~ek~~kmq~gd~~~f~elF~~acPKFIsp~~p 277 (404)
T PF10255_consen 207 QYDQINKKNEQMYALLAICLSLCPQRLDESISSQLKEK---------YGEKMEKMQRGDEEAFEELFSFACPKFISPVSP 277 (404)
T ss_pred hhhHHHhHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH---------HHHHHHHHHccCHHHHHHHHHhhCCCccCCCCC
Confidence 01223454456667767644332 111110001 11223335778999999888776554431
Q ss_pred ------------ChhHHHHHHHHHHHHH----HHHHHHhcccccccchhhHHhHhCCChHHHHHHHH
Q 018294 255 ------------DPFIRNYIEDLLKNVR----TQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 255 ------------D~~l~~~~~~L~~~i~----~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
||. ..+.+.+.+.|. ...|+.+++-|++|+++.+|..++++++++...|+
T Consensus 278 p~~~~~~~~~~~e~~-~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 278 PDYDGPSQNKNKEPY-RRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred CCcccccchhhhhHH-HHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 332 335555555555 44778899999999999999999999997666554
No 26
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.49 E-value=0.0055 Score=50.75 Aligned_cols=95 Identities=15% Similarity=0.212 Sum_probs=72.9
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
..+.+|+.+.+.|++++|...++.+.....+ + .......+...++++..|++.+|...+.. +.+
T Consensus 50 A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d-----~----~l~~~a~l~LA~~~~~~~~~d~Al~~L~~-------~~~ 113 (145)
T PF09976_consen 50 AALQLAKAAYEQGDYDEAKAALEKALANAPD-----P----ELKPLARLRLARILLQQGQYDEALATLQQ-------IPD 113 (145)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCC-----H----HHHHHHHHHHHHHHHHcCCHHHHHHHHHh-------ccC
Confidence 3467999999999999999999999887521 1 33334445567888999999999988754 223
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+...+......|.+++..|++.+|...|-.+
T Consensus 114 ~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 114 EAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 3345566778899999999999999888664
No 27
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.16 E-value=0.0017 Score=56.14 Aligned_cols=128 Identities=14% Similarity=0.196 Sum_probs=93.4
Q ss_pred CccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCC-ChH
Q 018294 220 DPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNV-PEK 298 (358)
Q Consensus 220 ~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l-~~~ 298 (358)
.|...++..++..|-.|++..+..--.. =|.|+ ..-..+++...+..++..-+++...-+-+.+.+ ++-
T Consensus 56 e~~dsa~lrlL~lFa~Gt~~Dy~aea~r-------lp~Ls---~~q~~kLk~ltV~slas~~k~lpy~~Ll~~l~~~nvr 125 (258)
T KOG3250|consen 56 EPIDSAYLRLLELFAYGTYRDYSAEALR-------LPKLS---LAQLNKLKHLTVVSLASFEKCLPYLVLLRLLPSRNVR 125 (258)
T ss_pred ccccHHHHHHHHHHhcCchhhhhhhhhc-------CCCCC---HHHHHhhhcceehhhhhhchhhhHHHHHhhccCCchh
Confidence 4555667888999999988876432211 12221 011122333333444444567777778888887 578
Q ss_pred HHHHHHHHhhhcCccceeeeccCCEEEEcc-------CCccchHHHHHHHHHHHHHHHHHHHhhhc
Q 018294 299 DVEQLLVSLILDNRIDGHIDQVNRLLERGD-------RSKGMKKYTAIDKWNSQLRSLYQTVSNRV 357 (358)
Q Consensus 299 ~vE~~l~~lI~~g~i~akID~~~g~v~~~~-------~~~~~~~~~~l~~w~~~i~~l~~~v~~~~ 357 (358)
++|++|++++-.+-+.|||||-+.++++.+ +.+++.|..-|.+|++.-.+++-.|++.|
T Consensus 126 elEd~iieamya~IlrGkldqr~q~leV~faigRdlr~k~i~nm~~TL~~w~~~cenvL~~ie~qv 191 (258)
T KOG3250|consen 126 ELEDLIIEAMYADILRGKLDQRNQTLEVDFAIGRDLRSKDIDNMKYTLDEWCEGCENVLFGIEAQV 191 (258)
T ss_pred HHHHHHHHHHHHHHHHhhHHhhcceEeechhhcccccHhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999985 56677788899999999999999998765
No 28
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.89 E-value=0.18 Score=46.67 Aligned_cols=149 Identities=11% Similarity=0.067 Sum_probs=91.0
Q ss_pred hhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhh-chHhHHHHHHHHHHHhcccC
Q 018294 19 NYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDM-GEYGRMSKILKELHKSCQRE 97 (358)
Q Consensus 19 ~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~-g~~~~a~~~l~~l~~~~~~~ 97 (358)
..+++.....-..+... +++.....++...+.....+.-...-++..++|++|++. |++++|.+.+++........
T Consensus 72 ~~Aa~~~~~Aa~~~k~~---~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e 148 (282)
T PF14938_consen 72 FEAAKAYEEAANCYKKG---DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQE 148 (282)
T ss_dssp HHHHHHHHHHHHHHHHT---THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHhh---CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence 34444444444444432 233444555555553332222223336777999999999 99999999999998877543
Q ss_pred CCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhh-HHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 98 DGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIM-GIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 98 ~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~-~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
. . .....+++.....++...|++.+|-.+|++.........-.+.. ..+....++.++..+|+..|...|-+.
T Consensus 149 ~---~---~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~ 222 (282)
T PF14938_consen 149 G---S---PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERY 222 (282)
T ss_dssp T-------HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred C---C---hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 1 1 35677888888899999999999999999865421111101111 133345688999999998887766554
No 29
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=96.73 E-value=0.0072 Score=53.06 Aligned_cols=105 Identities=16% Similarity=0.304 Sum_probs=67.7
Q ss_pred chhHHHHHHHHHHHHHhhCCCCCCcCCc--ccc-cCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHH
Q 018294 185 NQRRIQCLKYLVLANMLMESEVNPFDGQ--EAK-PYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNY 261 (358)
Q Consensus 185 ~~~~~~~l~y~~l~~lL~~~~~~~~~~~--~~~-~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~ 261 (358)
.++...+..|.+|..+..+... .+... ... ....+|.+....++..++.+|++..|....+. ...+.+..+
T Consensus 95 ~~~~~ef~~y~lL~~l~~~~~~-~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~ff~l~~~-----~~~~~l~~~ 168 (204)
T PF03399_consen 95 SPNEAEFIAYYLLYLLCQNNIP-DFHMELELLPSEILSSPYIQFALELCRALMEGNYVRFFRLYRS-----KSAPYLFAC 168 (204)
T ss_dssp -TTHHHHHHHHHHHTT-T---T-HHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHHHHHHHT------TTS-HHHHH
T ss_pred CCCHHHHHHHHHHHHHHcccch-HHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhc-----cCCChHHHH
Confidence 3466777778777766443111 11111 001 12246888888899999999999999987722 244555555
Q ss_pred HHH-HHHHHHHHHHHHhcccccc-cchhhHHhHhCC
Q 018294 262 IED-LLKNVRTQVLLKLIKPYTR-IRIPFISKELNV 295 (358)
Q Consensus 262 ~~~-L~~~i~~~~l~~~~~~y~~-I~l~~la~~l~l 295 (358)
+-. +...+|.+++..+.+.|.+ |+++.+++.|+.
T Consensus 169 l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 169 LMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 544 8899999999999999998 999999999874
No 30
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=96.63 E-value=0.014 Score=56.34 Aligned_cols=140 Identities=15% Similarity=0.212 Sum_probs=100.8
Q ss_pred HHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCC--cCCcccccCCCCccHHHHHH
Q 018294 151 IIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNP--FDGQEAKPYKNDPEILAMTN 228 (358)
Q Consensus 151 ~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~--~~~~~~~~~~~~p~~~~l~~ 228 (358)
..++..+++.+..||-.+=.++-.....-|.+.+......+..|-+|..|++.+..+. +-.......+.+|.+....+
T Consensus 349 eVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~~~EF~AYriLY~i~tkN~~di~sll~~lt~E~ked~~V~hAL~ 428 (540)
T KOG1861|consen 349 EVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGAYLEFTAYRILYYIFTKNYPDILSLLRDLTEEDKEDEAVAHALE 428 (540)
T ss_pred eeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCchhhHHHHHHHHHHHhcCchHHHHHHHhccHhhccCHHHHHHHH
Confidence 4456778888988888777776666666664444446778888988999987553321 11111122234677777789
Q ss_pred HHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHH-HHHHHHHHHHHHHHHhccccc-ccchhhHHhHhCCCh
Q 018294 229 LIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNY-IEDLLKNVRTQVLLKLIKPYT-RIRIPFISKELNVPE 297 (358)
Q Consensus 229 L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~-~~~L~~~i~~~~l~~~~~~y~-~I~l~~la~~l~l~~ 297 (358)
+-.|...|+|..|..+ +..-|.+..| ++.+.++-|..++.-+++.|. +|++++|++.|.+..
T Consensus 429 vR~A~~~GNY~kFFrL-------Y~~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~ 492 (540)
T KOG1861|consen 429 VRSAVTLGNYHKFFRL-------YLTAPNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDS 492 (540)
T ss_pred HHHHHHhccHHHHHHH-------HhhcccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhch
Confidence 9999999999999875 2333444444 466889999999999999998 999999999887753
No 31
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=96.62 E-value=0.24 Score=47.96 Aligned_cols=104 Identities=13% Similarity=0.189 Sum_probs=77.6
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC-Chh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP-HPR 147 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~-~~~ 147 (358)
.+|--+...|++++|.+++-.++.-+-+ -.+++.....+|--+.|..+|-++|..+.++ ++ ||.
T Consensus 529 niglt~e~~~~ldeald~f~klh~il~n------------n~evl~qianiye~led~aqaie~~~q~~sl---ip~dp~ 593 (840)
T KOG2003|consen 529 NIGLTAEALGNLDEALDCFLKLHAILLN------------NAEVLVQIANIYELLEDPAQAIELLMQANSL---IPNDPA 593 (840)
T ss_pred HhcccHHHhcCHHHHHHHHHHHHHHHHh------------hHHHHHHHHHHHHHhhCHHHHHHHHHHhccc---CCCCHH
Confidence 4555567778889999888888877532 3566666777888899999999998876543 44 688
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh-hcchhHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE-AGNQRRIQC 191 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~-~~~~~~~~~ 191 (358)
+..++ |.+|..+|+-..|++++|++++-|+. .+..+|+..
T Consensus 594 ilskl----~dlydqegdksqafq~~ydsyryfp~nie~iewl~a 634 (840)
T KOG2003|consen 594 ILSKL----ADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAA 634 (840)
T ss_pred HHHHH----HHHhhcccchhhhhhhhhhcccccCcchHHHHHHHH
Confidence 77776 67788899999999999999988863 333355443
No 32
>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=96.60 E-value=0.038 Score=43.09 Aligned_cols=103 Identities=9% Similarity=0.022 Sum_probs=74.8
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.+.+|..+...|++++|.+.+..+.....+. ....+.+....+++...|++..|..++..+....... +
T Consensus 5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~---------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~ 73 (119)
T TIGR02795 5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKS---------TYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS--P 73 (119)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCc---------cccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC--C
Confidence 3578899999999999999999998764321 2234455667788999999999999999876542111 1
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
.........|.++...+++.+|...|-++...++
T Consensus 74 -~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 107 (119)
T TIGR02795 74 -KAPDALLKLGMSLQELGDKEKAKATLQQVIKRYP 107 (119)
T ss_pred -cccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence 1122344457778889999999999988877654
No 33
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=96.25 E-value=0.3 Score=41.52 Aligned_cols=106 Identities=15% Similarity=0.125 Sum_probs=69.2
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh-
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP- 146 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~- 146 (358)
..+|..+...|++++|...+.+......++ ......+.....++...|++.+|..++.++.........+
T Consensus 39 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~---------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~ 109 (172)
T PRK02603 39 YRDGMSAQADGEYAEALENYEEALKLEEDP---------NDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSAL 109 (172)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHhhcc---------chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHH
Confidence 468999999999999999999887664321 1124456667788899999999999999987753221111
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
...+.+....|......+++..|...|.++...+..
T Consensus 110 ~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~ 145 (172)
T PRK02603 110 NNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQ 145 (172)
T ss_pred HHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHH
Confidence 111233333344445566677777776666554443
No 34
>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=96.14 E-value=0.087 Score=37.88 Aligned_cols=93 Identities=14% Similarity=0.219 Sum_probs=67.4
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|..+...|++++|.+.+.......+. + ..++.....++...+++.+|...+..+...... ++
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-----~-------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~- 68 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALELDPD-----N-------ADAYYNLAAAYYKLGKYEEALEDYEKALELDPD--NA- 68 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHhcCCc-----c-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--ch-
Confidence 46888999999999999999988776431 1 144556667788889999999999887654321 12
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
......|.++...+++..|...|..+..
T Consensus 69 ---~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 69 ---KAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred ---hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 2333447778888999999888777654
No 35
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=96.02 E-value=0.012 Score=50.88 Aligned_cols=58 Identities=19% Similarity=0.327 Sum_probs=42.1
Q ss_pred HHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 272 QVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 272 ~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
..++.|++.-..|.+++||..||++..++-.-|-.|..+|.|.|.||.-.+.|+++..
T Consensus 102 ~~Fi~yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~e 159 (188)
T PF09756_consen 102 QEFINYIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISEE 159 (188)
T ss_dssp HHHHHHHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE----
T ss_pred HHHHHHHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecHH
Confidence 3445788888999999999999999999999999999999999999998889988764
No 36
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=96.00 E-value=0.27 Score=45.99 Aligned_cols=97 Identities=16% Similarity=0.262 Sum_probs=73.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHH
Q 018294 40 FSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQM 119 (358)
Q Consensus 40 ~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 119 (358)
.+-..++.+.+.+.++.+.+.-=...+....|++++..||+.++.+.|.+.+..+...++++ ......+|...+++
T Consensus 91 ~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~----~~Vh~~fY~lssqY 166 (380)
T KOG2908|consen 91 KDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVT----SNVHSSFYSLSSQY 166 (380)
T ss_pred HHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCC----hhhhhhHHHHHHHH
Confidence 44466667777776666444212235555688999999999999999999999887766653 36889999999999
Q ss_pred HHHhcCHHHHHHHHHHHHhhhccC
Q 018294 120 YTETKNNKKLKQLYQKALAIKSAI 143 (358)
Q Consensus 120 ~~~~~d~~~a~~~l~~a~~~~~~~ 143 (358)
|-..||+. ++|+.+....+..
T Consensus 167 yk~~~d~a---~yYr~~L~YL~~~ 187 (380)
T KOG2908|consen 167 YKKIGDFA---SYYRHALLYLGCS 187 (380)
T ss_pred HHHHHhHH---HHHHHHHHHhccc
Confidence 99999998 5888888765544
No 37
>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=95.82 E-value=0.051 Score=39.45 Aligned_cols=68 Identities=18% Similarity=0.241 Sum_probs=53.3
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
-..+|.+|...|+|++|.+.+++....... .|. + ....+..+.....++...|++.+|..+++++.++
T Consensus 8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~-~---~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 8 YNNLARVYRELGRYDEALDYYEKALDIEEQ-LGD-D---HPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTT-H---HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-HCC-C---CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 346999999999999999999888877422 222 2 2456788888889999999999999999998764
No 38
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=95.81 E-value=0.017 Score=41.43 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=38.0
Q ss_pred HHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeecc
Q 018294 273 VLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQV 320 (358)
Q Consensus 273 ~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~ 320 (358)
.|+.+++--.++++..||..|++|++.||.+|..++..|+|.-.-+..
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~ 51 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSS 51 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE-
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCC
Confidence 456777778899999999999999999999999999999997544443
No 39
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=95.80 E-value=0.063 Score=37.45 Aligned_cols=59 Identities=14% Similarity=0.250 Sum_probs=47.1
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
.+|..+++.|+|++|.+.++.+...-+ .-.+.+....+++...|++.+|..+++.+...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDP------------DNPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCST------------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 578999999999999999999887742 24566667778888999999999999887654
No 40
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=95.54 E-value=0.22 Score=42.06 Aligned_cols=106 Identities=15% Similarity=0.060 Sum_probs=75.7
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-h
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-P 146 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~ 146 (358)
..+|..+...|++++|...+........++ ......+.....++...|++..|..++.++..+...... .
T Consensus 39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~~~---------~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~ 109 (168)
T CHL00033 39 YRDGMSAQSEGEYAEALQNYYEAMRLEIDP---------YDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQAL 109 (168)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHhccccc---------hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHH
Confidence 457888899999999999999887764321 122345566677888999999999999999876332221 1
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
...+.+....|..+...|+|..|...|-+++..|..
T Consensus 110 ~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~ 145 (168)
T CHL00033 110 NNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQ 145 (168)
T ss_pred HHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHH
Confidence 223445555566677889999888888887766654
No 41
>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=95.49 E-value=0.14 Score=37.00 Aligned_cols=71 Identities=15% Similarity=0.154 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh-hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 109 LLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR-IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 109 ~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~-~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
...++.....+|..+|++.+|..+++++..+.....+.. ..+......|.++...|+|.+|..+|-++++-
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 456667778889999999999999999988844444322 23455556688999999999999999888653
No 42
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=95.45 E-value=1.1 Score=45.21 Aligned_cols=105 Identities=14% Similarity=0.246 Sum_probs=78.0
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhcc----
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSA---- 142 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~---- 142 (358)
.+=+|.+|...|++++|.+.+......++ -.+++|....+++-..||+.+|-..++.|+....+
T Consensus 197 ~~~lAqhyd~~g~~~~Al~~Id~aI~htP------------t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyi 264 (517)
T PF12569_consen 197 LYFLAQHYDYLGDYEKALEYIDKAIEHTP------------TLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYI 264 (517)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhcCC------------CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHH
Confidence 34589999999999999999998877753 26899999999999999999999999998653100
Q ss_pred -----------------------CC----Ch----hhhHHHh--hhhhhhHhhhhcHHHHHHHHHHHhhhhhhh
Q 018294 143 -----------------------IP----HP----RIMGIIR--ECGGKMHMAERQWADAATDFFEAFKNYDEA 183 (358)
Q Consensus 143 -----------------------~~----~~----~~~~~i~--~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~ 183 (358)
++ +| .-+.++| .-.|..|...|+|..|.+.|..+...|.+.
T Consensus 265 NsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~ 338 (517)
T PF12569_consen 265 NSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDF 338 (517)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 00 11 1123333 235788888888988988888877666543
No 43
>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=95.33 E-value=0.19 Score=40.35 Aligned_cols=94 Identities=15% Similarity=0.056 Sum_probs=68.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|..++..|++++|...++.+...-+. -.+++......+...|++..|..+++.+...... ++.
T Consensus 21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~--~~~ 86 (135)
T TIGR02552 21 YALAYNLYQQGRYDEALKLFQLLAAYDPY------------NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD--DPR 86 (135)
T ss_pred HHHHHHHHHcccHHHHHHHHHHHHHhCCC------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--ChH
Confidence 45889999999999999999888665321 1344445567778899999999999987664211 122
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
.....|.++...++|..|...|-.+...
T Consensus 87 ----~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 87 ----PYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred ----HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 2334578888999999999988777653
No 44
>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=95.22 E-value=0.11 Score=47.67 Aligned_cols=185 Identities=16% Similarity=0.305 Sum_probs=91.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccC-CCCcchhhhhhHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHhhhcc---
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQRE-DGTDDQKKGSQLLEVYAIEIQMYTETK-NNKKLKQLYQKALAIKSA--- 142 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~-~~~~~~~~~~~~~e~~~~~~~~~~~~~-d~~~a~~~l~~a~~~~~~--- 142 (358)
..=|..+++.|++..|.++..-+.+..... ..+++. ...- .+++....+ +-+..+.+++++.++...
T Consensus 14 ~~Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~-----~~~r---l~~l~~~~~~~~p~r~~fi~~ai~WS~~~~~ 85 (260)
T PF04190_consen 14 YSGALILLKHGQYGSGADLALLLIEVYEKSEDPVDEE-----SIAR---LIELISLFPPEEPERKKFIKAAIKWSKFGSY 85 (260)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHH-----HHHH---HHHHHHHS-TT-TTHHHHHHHHHHHHHTSS-
T ss_pred HHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHH-----HHHH---HHHHHHhCCCCcchHHHHHHHHHHHHccCCC
Confidence 346777888888887776554433322211 111221 1111 111212221 222345577777776621
Q ss_pred -CCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH-----hhh------hhhhcch------hHHHHHHHHHHHHHhh-C
Q 018294 143 -IPHPRIMGIIRECGGKMHMAERQWADAATDFFEA-----FKN------YDEAGNQ------RRIQCLKYLVLANMLM-E 203 (358)
Q Consensus 143 -~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~-----~~~------~~~~~~~------~~~~~l~y~~l~~lL~-~ 203 (358)
..||.++..+ |.+++.+++|.+|..+|.-+ +.. ....+.+ -...++.|+++-.+-. .
T Consensus 86 ~~Gdp~LH~~~----a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~dlfi~RaVL~yL~l~n~~~A~ 161 (260)
T PF04190_consen 86 KFGDPELHHLL----AEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEADLFIARAVLQYLCLGNLRDAN 161 (260)
T ss_dssp TT--HHHHHHH----HHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--HHHHHHHHHHHHHHTTBHHHHH
T ss_pred CCCCHHHHHHH----HHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhcCHHHHH
Confidence 2256666555 77888899999999998652 111 0111211 1233444433222100 0
Q ss_pred CCC----------CC-cCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHH
Q 018294 204 SEV----------NP-FDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIED 264 (358)
Q Consensus 204 ~~~----------~~-~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~ 264 (358)
.-. +| +.+.....+...|.+.++.-|+.+...++...|..+.++|++.+..||.+...++.
T Consensus 162 ~~~~~f~~~~~~~~p~~~~~~~~~~~~~PllnF~~lLl~t~e~~~~~~F~~L~~~Y~~~L~rd~~~~~~L~~ 233 (260)
T PF04190_consen 162 ELFDTFTSKLIESHPKLENSDIEYPPSYPLLNFLQLLLLTCERDNLPLFKKLCEKYKPSLKRDPSFKEYLDK 233 (260)
T ss_dssp HHHHHHHHHHHHH---EEEEEEEEESS-HHHHHHHHHHHHHHHT-HHHHHHHHHHTHH---HHHHTHHHHHH
T ss_pred HHHHHHHHHHhccCcchhccccCCCCCCchHHHHHHHHHHHhcCcHHHHHHHHHHhCccccccHHHHHHHHH
Confidence 000 11 11101122233577888899999999999999999999999999888876554444
No 45
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=95.21 E-value=0.18 Score=37.23 Aligned_cols=83 Identities=17% Similarity=0.138 Sum_probs=57.4
Q ss_pred hhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhh
Q 018294 76 DMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIREC 155 (358)
Q Consensus 76 ~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~ 155 (358)
+.|+|++|..++..+....+.. . ...++......++..|++.+|-.++++ .+.. |. .......
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~~~~---------~-~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-----~~-~~~~~~l 63 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELDPTN---------P-NSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-----PS-NPDIHYL 63 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHHCGT---------H-HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-----HC-HHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHCCCC---------h-hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-----CC-CHHHHHH
Confidence 4689999999999999885421 1 334555567889999999999999887 3221 11 1122334
Q ss_pred hhhhHhhhhcHHHHHHHHHH
Q 018294 156 GGKMHMAERQWADAATDFFE 175 (358)
Q Consensus 156 ~g~~~~~~~~y~~A~~~f~e 175 (358)
-|..+...++|.+|...|-+
T Consensus 64 ~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 64 LARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHhCCHHHHHHHHhc
Confidence 48999999999999987754
No 46
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=95.16 E-value=0.38 Score=48.15 Aligned_cols=108 Identities=16% Similarity=0.244 Sum_probs=83.4
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhcc---CCC
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSA---IPH 145 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~---~~~ 145 (358)
.+|.+|...++|.+|..++++...-.....|.+. .....++-..+.+|...|++..|+.+++.|..|... ..+
T Consensus 246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h----~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~ 321 (508)
T KOG1840|consen 246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH----PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASH 321 (508)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC----HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccCh
Confidence 5999999999999999999888776554445443 456666677788899999999999999999887665 335
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
|++...+... |.++...++|.+|..++..+++-+.
T Consensus 322 ~~v~~~l~~~-~~~~~~~~~~Eea~~l~q~al~i~~ 356 (508)
T KOG1840|consen 322 PEVAAQLSEL-AAILQSMNEYEEAKKLLQKALKIYL 356 (508)
T ss_pred HHHHHHHHHH-HHHHHHhcchhHHHHHHHHHHHHHH
Confidence 6666555443 6677788999999998887765544
No 47
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=94.99 E-value=1 Score=37.81 Aligned_cols=95 Identities=12% Similarity=0.076 Sum_probs=73.2
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
+.+|..+++.|++++|.++++-+-..= ..-.+.+.-..-++..+|++.+|-..|..+.... ..+|+
T Consensus 39 Y~~A~~ly~~G~l~~A~~~f~~L~~~D------------p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~ddp~ 104 (157)
T PRK15363 39 YRYAMQLMEVKEFAGAARLFQLLTIYD------------AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK--IDAPQ 104 (157)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhC------------cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCch
Confidence 578999999999999999888776651 2345555666667888999999999999987654 33454
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
-. ...|..++..|+...|...|..+...+
T Consensus 105 ~~----~~ag~c~L~lG~~~~A~~aF~~Ai~~~ 133 (157)
T PRK15363 105 AP----WAAAECYLACDNVCYAIKALKAVVRIC 133 (157)
T ss_pred HH----HHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 32 345888889999999999999987655
No 48
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.92 E-value=2 Score=38.41 Aligned_cols=43 Identities=16% Similarity=0.294 Sum_probs=33.7
Q ss_pred cCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhH
Q 018294 216 PYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFI 258 (358)
Q Consensus 216 ~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l 258 (358)
.|.+.++..+++.|+.+...+|...|.+....+...-..|...
T Consensus 227 ~F~dsREckflk~L~~aieE~d~e~fte~vkefDsisrLD~W~ 269 (288)
T KOG1586|consen 227 AFTDSRECKFLKDLLDAIEEQDIEKFTEVVKEFDSISRLDQWK 269 (288)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHHHhhhccchHHHHH
Confidence 3554567899999999999999999999988876654455443
No 49
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=94.92 E-value=3.3 Score=38.80 Aligned_cols=96 Identities=16% Similarity=0.217 Sum_probs=72.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..|..||-...+|++|.+.=.++.+....+ ....+..+|.+.+.-+...+|+++|+..+.+|...... -
T Consensus 145 qqLl~IYQ~treW~KAId~A~~L~k~~~q~-------~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~----c 213 (389)
T COG2956 145 QQLLNIYQATREWEKAIDVAERLVKLGGQT-------YRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK----C 213 (389)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHcCCcc-------chhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc----c
Confidence 478888999999999998888888775332 25778899999889999999999999999998765321 1
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+.+.| ..|.+++..|+|..|-..+-.+
T Consensus 214 vRAsi--~lG~v~~~~g~y~~AV~~~e~v 240 (389)
T COG2956 214 VRASI--ILGRVELAKGDYQKAVEALERV 240 (389)
T ss_pred eehhh--hhhHHHHhccchHHHHHHHHHH
Confidence 12222 3488999999998887665443
No 50
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=94.82 E-value=1.5 Score=44.00 Aligned_cols=110 Identities=13% Similarity=0.173 Sum_probs=80.4
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
-.+||.+|+..|+|.+|..++++...-.....|... ..+...+...+-++..++.+..|..++..+.++....+.+
T Consensus 286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~----~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~ 361 (508)
T KOG1840|consen 286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASH----PEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGE 361 (508)
T ss_pred HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccCh----HHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccc
Confidence 358999999999999999888776655443333222 3455555666677788899999999999998865543322
Q ss_pred -h-hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 147 -R-IMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 147 -~-~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
. ..+.++.-.|.++...|+|.+|...|-++....
T Consensus 362 ~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~ 397 (508)
T KOG1840|consen 362 DNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL 397 (508)
T ss_pred cchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 2 346777777999999999999999888876443
No 51
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=94.77 E-value=0.6 Score=40.85 Aligned_cols=136 Identities=14% Similarity=0.168 Sum_probs=85.5
Q ss_pred HHHHHHHHHHHHHHh-hhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHH-H
Q 018294 43 LREFYQTTLKALEEA-KNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQM-Y 120 (358)
Q Consensus 43 ~~~~~~~~~~~i~~~-~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~-~ 120 (358)
..+.+..+...++.. ++...| ..||.++...|++++|...+......-.+ ..+++...... +
T Consensus 55 ~~~~i~~l~~~L~~~P~~~~~w----~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~------------~~~~~~~lA~aL~ 118 (198)
T PRK10370 55 PEAQLQALQDKIRANPQNSEQW----ALLGEYYLWRNDYDNALLAYRQALQLRGE------------NAELYAALATVLY 118 (198)
T ss_pred HHHHHHHHHHHHHHCCCCHHHH----HHHHHHHHHCCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHH
Confidence 345555555544431 222233 45799999999999999999988877432 23334444443 4
Q ss_pred HHhcC--HHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHH
Q 018294 121 TETKN--NKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLA 198 (358)
Q Consensus 121 ~~~~d--~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~ 198 (358)
...|+ ..+|...++++.+.... ++. .....|..++..|+|.+|...|-.+.+.-+. ++ ++..++..+--+
T Consensus 119 ~~~g~~~~~~A~~~l~~al~~dP~--~~~----al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~-~~-~r~~~i~~i~~a 190 (198)
T PRK10370 119 YQAGQHMTPQTREMIDKALALDAN--EVT----ALMLLASDAFMQADYAQAIELWQKVLDLNSP-RV-NRTQLVESINMA 190 (198)
T ss_pred HhcCCCCcHHHHHHHHHHHHhCCC--Chh----HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Cc-cHHHHHHHHHHH
Confidence 56666 59999999998765321 222 2334488889999999999999888654332 22 333444545555
Q ss_pred HHhh
Q 018294 199 NMLM 202 (358)
Q Consensus 199 ~lL~ 202 (358)
.+|.
T Consensus 191 ~~~~ 194 (198)
T PRK10370 191 KLLQ 194 (198)
T ss_pred HHHh
Confidence 5553
No 52
>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=94.76 E-value=0.71 Score=39.83 Aligned_cols=94 Identities=13% Similarity=0.185 Sum_probs=70.0
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
...+|..+...|++++|.+.+.+....-+. ....+.....++...|++.+|..++.++...... ++
T Consensus 34 ~~~la~~~~~~~~~~~A~~~~~~~l~~~p~------------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~--~~ 99 (234)
T TIGR02521 34 RVQLALGYLEQGDLEVAKENLDKALEHDPD------------DYLAYLALALYYQQLGELEKAEDSFRRALTLNPN--NG 99 (234)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc------------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC--CH
Confidence 456899999999999999999888665211 1345556677888999999999999988764221 12
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
......|.++...++|.+|...|-.+..
T Consensus 100 ----~~~~~~~~~~~~~g~~~~A~~~~~~~~~ 127 (234)
T TIGR02521 100 ----DVLNNYGTFLCQQGKYEQAMQQFEQAIE 127 (234)
T ss_pred ----HHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence 1233347778889999999999888765
No 53
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=94.72 E-value=0.22 Score=52.30 Aligned_cols=99 Identities=14% Similarity=0.176 Sum_probs=77.3
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..||+.++..|||+.+..+.......+.. .....+-+....|.|.++||+.+|..+|-.+.+..+.-+
T Consensus 274 ~~LAn~fyfK~dy~~v~~la~~ai~~t~~---------~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~--- 341 (1018)
T KOG2002|consen 274 NHLANHFYFKKDYERVWHLAEHAIKNTEN---------KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNF--- 341 (1018)
T ss_pred HHHHHHHhhcccHHHHHHHHHHHHHhhhh---------hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCc---
Confidence 47999999999999999988888777532 255677778888999999999999999999987655431
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
+...+. -|.++++.+++..|..+|...+..+
T Consensus 342 ~l~~~G--lgQm~i~~~dle~s~~~fEkv~k~~ 372 (1018)
T KOG2002|consen 342 VLPLVG--LGQMYIKRGDLEESKFCFEKVLKQL 372 (1018)
T ss_pred cccccc--hhHHHHHhchHHHHHHHHHHHHHhC
Confidence 111111 1778899999999999998876544
No 54
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=94.68 E-value=0.24 Score=40.77 Aligned_cols=120 Identities=18% Similarity=0.187 Sum_probs=71.3
Q ss_pred HHHHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCC------------ChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhh
Q 018294 3 DAYREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQ------------NFSLLREFYQTTLKALEEAKNERLWFKTNLKL 70 (358)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~------------~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~l 70 (358)
+.|.+++..+ ..-....+.+.+..+++..++++-. +..-..+-.+.+...+....+..+.-...++|
T Consensus 13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L 91 (145)
T PF09976_consen 13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL 91 (145)
T ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence 3566777766 4445555666677777766554210 00001122222222222222222222445689
Q ss_pred HHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q 018294 71 CKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKA 136 (358)
Q Consensus 71 a~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a 136 (358)
|.++++.|+|++|...|..+... ...-.+....-.++.+.|++.+|+..|.++
T Consensus 92 A~~~~~~~~~d~Al~~L~~~~~~-------------~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 92 ARILLQQGQYDEALATLQQIPDE-------------AFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHcCCHHHHHHHHHhccCc-------------chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 99999999999999999663211 223334556678899999999999999876
No 55
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.63 E-value=0.56 Score=41.72 Aligned_cols=114 Identities=19% Similarity=0.293 Sum_probs=79.9
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
..+.||-=|++.||+..|.+-|++....= ......++....+|...|+.+.|.+.|++|.+..
T Consensus 37 arlqLal~YL~~gd~~~A~~nlekAL~~D------------Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~----- 99 (250)
T COG3063 37 ARLQLALGYLQQGDYAQAKKNLEKALEHD------------PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA----- 99 (250)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhC------------cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-----
Confidence 34568888999999999999888877661 2245566677788999999999999999998763
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHH
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANM 200 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~l 200 (358)
|.--..+.-+++ ..+.+|+|.+|...|..+...+.- +.+ ...+-.+++|++
T Consensus 100 p~~GdVLNNYG~-FLC~qg~~~eA~q~F~~Al~~P~Y-~~~--s~t~eN~G~Cal 150 (250)
T COG3063 100 PNNGDVLNNYGA-FLCAQGRPEEAMQQFERALADPAY-GEP--SDTLENLGLCAL 150 (250)
T ss_pred CCccchhhhhhH-HHHhCCChHHHHHHHHHHHhCCCC-CCc--chhhhhhHHHHh
Confidence 321123334444 345677999999999998754321 111 123445778887
No 56
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=94.56 E-value=0.38 Score=39.74 Aligned_cols=92 Identities=16% Similarity=0.061 Sum_probs=70.0
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+|..+...|++++|...+..+...-+ ...+.+.....++...|++..|...|..+...... ++.
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~~P------------~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~--~~~- 93 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMAQP------------WSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS--HPE- 93 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCC------------CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CcH-
Confidence 478889999999999999888765522 13556667777888999999999999998865322 222
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.....|..+...|++.+|...|..+..
T Consensus 94 ---a~~~lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 94 ---PVYQTGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 233347788889999999999988764
No 57
>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=94.29 E-value=0.32 Score=34.11 Aligned_cols=60 Identities=18% Similarity=0.260 Sum_probs=43.8
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHhh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETK-NNKKLKQLYQKALAI 139 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~-d~~~a~~~l~~a~~~ 139 (358)
..+|..+...|+|++|...+.+.....+ ....++......+..+| ++.+|...++++.++
T Consensus 7 ~~~g~~~~~~~~~~~A~~~~~~ai~~~p------------~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 7 YNLGQIYFQQGDYEEAIEYFEKAIELDP------------NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHHHHHHST------------THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCC------------CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 3578888888888888888888777632 13456666777788887 688888888877654
No 58
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=94.26 E-value=2.4 Score=40.62 Aligned_cols=22 Identities=18% Similarity=0.382 Sum_probs=10.4
Q ss_pred hHHHHhhhchHhHHHHHHHHHH
Q 018294 70 LCKIWFDMGEYGRMSKILKELH 91 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~ 91 (358)
+|.++...|++++|.+.+.++.
T Consensus 220 la~~~~~~g~~~~A~~~~~~~~ 241 (389)
T PRK11788 220 LGDLALAQGDYAAAIEALERVE 241 (389)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 4444444444444444444443
No 59
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=93.97 E-value=6.7 Score=38.39 Aligned_cols=145 Identities=15% Similarity=0.137 Sum_probs=86.8
Q ss_pred cchhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcc
Q 018294 16 VTRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 16 ~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~ 95 (358)
-.|+-++|.|-....-++..-. ++ --.=+++|++.++......+-..+.+..|--++..||++.|.++|.-+...-
T Consensus 374 ~~ka~aek~i~ta~kiiapvi~--~~-fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kd- 449 (840)
T KOG2003|consen 374 ENKADAEKAIITAAKIIAPVIA--PD-FAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKD- 449 (840)
T ss_pred hhhhhHHHHHHHHHHHhccccc--cc-hhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhcc-
Confidence 3456667777666666653211 11 2234678888887744444555666677888899999999999987776552
Q ss_pred cCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHH
Q 018294 96 REDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFE 175 (358)
Q Consensus 96 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e 175 (358)
.+. .....--++..++..--+++..|.++-+.+.++. -++|. -..-.|-+.+..|+|.+|+..|-|
T Consensus 450 ------nk~--~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~----a~~nkgn~~f~ngd~dka~~~yke 515 (840)
T KOG2003|consen 450 ------NKT--ASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAA----ALTNKGNIAFANGDLDKAAEFYKE 515 (840)
T ss_pred ------chh--hHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHH----HhhcCCceeeecCcHHHHHHHHHH
Confidence 111 1111111222222222458999999988776531 11221 112236666778999999988888
Q ss_pred Hhh
Q 018294 176 AFK 178 (358)
Q Consensus 176 ~~~ 178 (358)
++.
T Consensus 516 al~ 518 (840)
T KOG2003|consen 516 ALN 518 (840)
T ss_pred HHc
Confidence 764
No 60
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=93.93 E-value=0.5 Score=45.38 Aligned_cols=92 Identities=14% Similarity=0.079 Sum_probs=70.1
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
..|.-.+..|+|++|.+++.+....-.. ....+...+.++...|++..|...++++.... |..
T Consensus 7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~P~------------~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-----P~~ 69 (356)
T PLN03088 7 DKAKEAFVDDDFALAVDLYTQAIDLDPN------------NAELYADRAQANIKLGNFTEAVADANKAIELD-----PSL 69 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----cCC
Confidence 4677888899999999999998876321 13455666778889999999999999987653 221
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.......|.++...|+|.+|...|-.+..
T Consensus 70 -~~a~~~lg~~~~~lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 70 -AKAYLRKGTACMKLEEYQTAKAALEKGAS 98 (356)
T ss_pred -HHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 12233448889999999999999988764
No 61
>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=93.57 E-value=0.79 Score=39.50 Aligned_cols=97 Identities=12% Similarity=0.104 Sum_probs=68.7
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
...+|.++...|++++|.+.+.......+. + ...+.....++...|++.+|..++..+.........+
T Consensus 68 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~-----~-------~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ 135 (234)
T TIGR02521 68 YLALALYYQQLGELEKAEDSFRRALTLNPN-----N-------GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPA 135 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-----C-------HHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccch
Confidence 346899999999999999999988776432 1 1233444567788999999999999886532211111
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
. .....|.++...+++.+|...|.++...
T Consensus 136 ~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~ 164 (234)
T TIGR02521 136 R----SLENAGLCALKAGDFDKAEKYLTRALQI 164 (234)
T ss_pred H----HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 1 2223477888899999999998887653
No 62
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.44 E-value=2.1 Score=39.02 Aligned_cols=44 Identities=14% Similarity=0.240 Sum_probs=32.8
Q ss_pred hhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCC
Q 018294 157 GKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESE 205 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~ 205 (358)
+..|+..+||.+|-....+++.... +....|-.+++|+.+.+.+
T Consensus 214 Av~~l~~~~~eeAe~lL~eaL~kd~-----~dpetL~Nliv~a~~~Gkd 257 (299)
T KOG3081|consen 214 AVCHLQLGRYEEAESLLEEALDKDA-----KDPETLANLIVLALHLGKD 257 (299)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhccC-----CCHHHHHHHHHHHHHhCCC
Confidence 4577889999999998888875432 4466777888888876554
No 63
>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=93.42 E-value=0.61 Score=32.68 Aligned_cols=63 Identities=21% Similarity=0.241 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhh-cHHHHHHHHHHHhh
Q 018294 110 LEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAER-QWADAATDFFEAFK 178 (358)
Q Consensus 110 ~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~-~y~~A~~~f~e~~~ 178 (358)
.+++......++..|++.+|...+.++... +|. ........|..+...+ +|.+|..+|-.+..
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~-----~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL-----DPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-----STT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 345667778889999999999999999876 333 2334555688899998 89999998887653
No 64
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=93.16 E-value=1 Score=40.69 Aligned_cols=91 Identities=18% Similarity=0.275 Sum_probs=70.5
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIM 149 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~ 149 (358)
+++.....|+|.+|...+.+....-++ | ++.+...--.|...|++..|+..|.++..... .+|.+.
T Consensus 106 ~gk~~~~~g~~~~A~~~~rkA~~l~p~-----d-------~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~--~~p~~~ 171 (257)
T COG5010 106 QGKNQIRNGNFGEAVSVLRKAARLAPT-----D-------WEAWNLLGAALDQLGRFDEARRAYRQALELAP--NEPSIA 171 (257)
T ss_pred HHHHHHHhcchHHHHHHHHHHhccCCC-----C-------hhhhhHHHHHHHHccChhHHHHHHHHHHHhcc--CCchhh
Confidence 778888999999999999888777432 2 55555666677789999999999999987532 245555
Q ss_pred HHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 150 GIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 150 ~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+.+ |..++-.+|+.+|..++..++.
T Consensus 172 nNl----gms~~L~gd~~~A~~lll~a~l 196 (257)
T COG5010 172 NNL----GMSLLLRGDLEDAETLLLPAYL 196 (257)
T ss_pred hhH----HHHHHHcCCHHHHHHHHHHHHh
Confidence 444 7778889999999999998864
No 65
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=93.15 E-value=0.36 Score=35.56 Aligned_cols=56 Identities=14% Similarity=0.242 Sum_probs=41.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKA 136 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a 136 (358)
+.+|..++..|+|++|.++++. ... . ....+......+.++.+|++.+|...+.++
T Consensus 29 ~~la~~~~~~~~y~~A~~~~~~-~~~-~-----------~~~~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 29 YNLAQCYFQQGKYEEAIELLQK-LKL-D-----------PSNPDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHC-HTH-H-----------HCHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHH-hCC-C-----------CCCHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 4589999999999999999988 211 1 112444445589999999999999988764
No 66
>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=92.91 E-value=0.33 Score=33.91 Aligned_cols=52 Identities=15% Similarity=0.254 Sum_probs=40.5
Q ss_pred hhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 75 FDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 75 ~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
++.|+|++|.++++.+....++ -.++.+..+++|+..|++.+|+..+.+...
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~------------~~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD------------NPEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT------------SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred hhccCHHHHHHHHHHHHHHCCC------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 5789999999999999887432 244555677889999999999999886554
No 67
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=92.81 E-value=1.5 Score=40.22 Aligned_cols=92 Identities=10% Similarity=0.140 Sum_probs=47.8
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+|.++.+.|++++|.+.++.....-++ + .++....+.++...|+..+++.++....... ..+|.+
T Consensus 151 ~~a~~~~~~G~~~~A~~~~~~al~~~P~-----~-------~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~ 216 (280)
T PF13429_consen 151 ALAEIYEQLGDPDKALRDYRKALELDPD-----D-------PDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDL 216 (280)
T ss_dssp HHHHHHHHCCHHHHHHHHHHHHHHH-TT-------------HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCCC-----C-------HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHH
Confidence 4666666667777777666666665332 1 1111122233445666666666666544332 112332
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
. ..-|..++..|++.+|...|-.+..
T Consensus 217 ~----~~la~~~~~lg~~~~Al~~~~~~~~ 242 (280)
T PF13429_consen 217 W----DALAAAYLQLGRYEEALEYLEKALK 242 (280)
T ss_dssp C----HHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred H----HHHHHHhcccccccccccccccccc
Confidence 2 2236666677777777777766553
No 68
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=92.53 E-value=0.13 Score=39.88 Aligned_cols=38 Identities=24% Similarity=0.344 Sum_probs=35.1
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
.=|+++.|++.|+++.++|+..|-.|+.+|.|+-.||.
T Consensus 64 ~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 64 EGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred CcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecccCC
Confidence 46999999999999999999999999999999999985
No 69
>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=92.40 E-value=2 Score=38.03 Aligned_cols=103 Identities=14% Similarity=0.111 Sum_probs=69.5
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.+.+|..++..|++++|...++++...-+.. ....+.+......+...|++..|...++++.+.... +|
T Consensus 36 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~---------~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~--~~ 104 (235)
T TIGR03302 36 LYEEAKEALDSGDYTEAIKYFEALESRYPFS---------PYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN--HP 104 (235)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc---------hhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC--CC
Confidence 3568889999999999999999987764321 233455666778889999999999999988764322 12
Q ss_pred hhhHHHhhhhhhhHhh--------hhcHHHHHHHHHHHhhhhh
Q 018294 147 RIMGIIRECGGKMHMA--------ERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~--------~~~y~~A~~~f~e~~~~~~ 181 (358)
... ......|..+.. .+++..|...|-.+...++
T Consensus 105 ~~~-~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 146 (235)
T TIGR03302 105 DAD-YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP 146 (235)
T ss_pred chH-HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC
Confidence 211 111222444443 3788888888877765543
No 70
>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=92.07 E-value=0.99 Score=46.62 Aligned_cols=94 Identities=17% Similarity=0.143 Sum_probs=68.7
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++...|++++|...++.....-+ .....+.....++...|++.+|...++++..... .++
T Consensus 335 ~~lg~~~~~~g~~~eA~~~~~kal~l~P------------~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p--~~~- 399 (615)
T TIGR00990 335 NLRGTFKCLKGKHLEALADLSKSIELDP------------RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS--EDP- 399 (615)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCC------------CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCH-
Confidence 4678888899999999999888776522 1233455566777889999999999998866421 122
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
.+....|.++...|+|.+|..+|-.+...
T Consensus 400 ---~~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 400 ---DIYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred ---HHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 23445588888999999999999887653
No 71
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.98 E-value=0.28 Score=43.44 Aligned_cols=55 Identities=13% Similarity=0.245 Sum_probs=50.7
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
++|++.-+.|.|++||..||+-..++-.-+-.++.+|.|.|.||--.+.|+++..
T Consensus 206 v~YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~e 260 (299)
T KOG3054|consen 206 VEYIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISME 260 (299)
T ss_pred HHHHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecHH
Confidence 4678888999999999999999999989999999999999999999999999853
No 72
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=91.87 E-value=0.31 Score=35.54 Aligned_cols=50 Identities=22% Similarity=0.274 Sum_probs=41.2
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeee-ccCCEE
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHID-QVNRLL 324 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID-~~~g~v 324 (358)
++.++.-+.+++...||..|+.|++-||.+|..++.-|++. +|+ ...|+.
T Consensus 7 lRd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkve-rv~~~~~gC~ 57 (78)
T PRK15431 7 VRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAV-RIQEEPDGCL 57 (78)
T ss_pred HHHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeE-eeccCCCCCC
Confidence 45666778999999999999999999999999999999994 444 444554
No 73
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.74 E-value=8 Score=38.27 Aligned_cols=116 Identities=10% Similarity=0.052 Sum_probs=72.1
Q ss_pred HHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHH
Q 018294 50 TLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKL 129 (358)
Q Consensus 50 ~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a 129 (358)
++++.+..+...+|.-++..+|-.|+..|+-+.--++++.+-..-+.+. .. -.....++....-..+.+|++.+|
T Consensus 390 f~~a~k~t~~~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~nt~s~--ss---q~l~a~~~~v~glfaf~qn~lnEa 464 (629)
T KOG2300|consen 390 FIEATKLTESIDLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLNTNSL--SS---QRLEASILYVYGLFAFKQNDLNEA 464 (629)
T ss_pred HHHHHHhhhHHHHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCCCCcc--hH---HHHHHHHHHHHHHHHHHhccHHHH
Confidence 3343333333446666777899999998876665555555544322111 11 234455656666667789999999
Q ss_pred HHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHH
Q 018294 130 KQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAA 170 (358)
Q Consensus 130 ~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~ 170 (358)
|..+.+..+.+++....++.+..-..-|.++...||-.++.
T Consensus 465 K~~l~e~Lkmanaed~~rL~a~~LvLLs~v~lslgn~~es~ 505 (629)
T KOG2300|consen 465 KRFLRETLKMANAEDLNRLTACSLVLLSHVFLSLGNTVESR 505 (629)
T ss_pred HHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence 99999999887766545665554444555555555555544
No 74
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=91.56 E-value=9.2 Score=33.75 Aligned_cols=108 Identities=10% Similarity=0.130 Sum_probs=67.0
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHh--------cCHHHHHHHHHHHH
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTET--------KNNKKLKQLYQKAL 137 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~--------~d~~~a~~~l~~a~ 137 (358)
....+|..++..|++++|.+.++++....++... ....+......+... |++.+|...++++.
T Consensus 72 a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~---------~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~ 142 (235)
T TIGR03302 72 AQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD---------ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELI 142 (235)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc---------hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH
Confidence 3467899999999999999999999988654321 111222222333333 77888888888775
Q ss_pred hhhccCCC-hhhhHH----------HhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 138 AIKSAIPH-PRIMGI----------IRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 138 ~~~~~~~~-~~~~~~----------i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
........ +..... .....|.+++..|+|.+|...|.++...|+.
T Consensus 143 ~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~ 198 (235)
T TIGR03302 143 RRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPD 198 (235)
T ss_pred HHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCC
Confidence 43221110 111111 1123467788889999999888887766543
No 75
>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=91.55 E-value=1.2 Score=45.94 Aligned_cols=95 Identities=16% Similarity=0.199 Sum_probs=70.1
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
+.+|.++...|++++|...+......-.. ..+++.....++...|++.+|...++++.... |.
T Consensus 369 ~~la~~~~~~g~~~eA~~~~~~al~~~p~------------~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-----P~ 431 (615)
T TIGR00990 369 IKRASMNLELGDPDKAEEDFDKALKLNSE------------DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-----PD 431 (615)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----cc
Confidence 47888999999999999999988665211 13455666778889999999999999987652 22
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
.. .....-|.++...++|.+|...|-++...+
T Consensus 432 ~~-~~~~~la~~~~~~g~~~eA~~~~~~al~~~ 463 (615)
T TIGR00990 432 FI-FSHIQLGVTQYKEGSIASSMATFRRCKKNF 463 (615)
T ss_pred CH-HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 11 122234777888899999999988876544
No 76
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=91.54 E-value=1.9 Score=41.31 Aligned_cols=99 Identities=10% Similarity=0.059 Sum_probs=62.2
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|..+...|++++|.+++.+...... .....+...+.++...|++.+|...+....+..... ...
T Consensus 111 ~~La~~~~~~g~~~~A~~~~~~~l~~~~------------~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~ 177 (389)
T PRK11788 111 QELGQDYLKAGLLDRAEELFLQLVDEGD------------FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDS-LRV 177 (389)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHcCCc------------chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCc-chH
Confidence 4678888888888888888877765411 112334455667777888888888877765432111 111
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
....+....|..+...+++.+|...|-++...
T Consensus 178 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~ 209 (389)
T PRK11788 178 EIAHFYCELAQQALARGDLDAARALLKKALAA 209 (389)
T ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH
Confidence 11223333466777788899998888887653
No 77
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=91.47 E-value=1.3 Score=44.16 Aligned_cols=85 Identities=19% Similarity=0.236 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHhhhhhh-HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHH
Q 018294 43 LREFYQTTLKALEEAKNERL-WFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYT 121 (358)
Q Consensus 43 ~~~~~~~~~~~i~~~~~~r~-~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~ 121 (358)
..+++..+++.+++..++++ |--+...||+.+-..+.|.+|....+.....+++ -++.|....-+|.
T Consensus 433 A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k------------~~~~~asig~iy~ 500 (611)
T KOG1173|consen 433 ALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK------------DASTHASIGYIYH 500 (611)
T ss_pred HHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC------------chhHHHHHHHHHH
Confidence 46777788888888788875 7777788999999999999999999998888754 2556666677888
Q ss_pred HhcCHHHHHHHHHHHHhh
Q 018294 122 ETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 122 ~~~d~~~a~~~l~~a~~~ 139 (358)
.+||+.+|-..+.+|+.+
T Consensus 501 llgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 501 LLGNLDKAIDHFHKALAL 518 (611)
T ss_pred HhcChHHHHHHHHHHHhc
Confidence 999999999999999765
No 78
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=91.32 E-value=0.98 Score=31.93 Aligned_cols=58 Identities=12% Similarity=0.163 Sum_probs=41.4
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
|..+|...++|++|.++++.+...-+. -...+.....++...|++..|...+..+.+.
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~~p~------------~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALELDPD------------DPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHhCcc------------cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 456788888888888888888777321 2334445566777888888888888877654
No 79
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=91.19 E-value=3.6 Score=41.88 Aligned_cols=171 Identities=15% Similarity=0.137 Sum_probs=103.6
Q ss_pred HhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHh
Q 018294 74 WFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIR 153 (358)
Q Consensus 74 ~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~ 153 (358)
.++.++|.+..++++.+.... +.+++ .++..-...--+|+...|-.....+.+. |++. ..-+
T Consensus 17 ~yE~kQYkkgLK~~~~iL~k~--~eHge----------slAmkGL~L~~lg~~~ea~~~vr~glr~-----d~~S-~vCw 78 (700)
T KOG1156|consen 17 CYETKQYKKGLKLIKQILKKF--PEHGE----------SLAMKGLTLNCLGKKEEAYELVRLGLRN-----DLKS-HVCW 78 (700)
T ss_pred HHHHHHHHhHHHHHHHHHHhC--Cccch----------hHHhccchhhcccchHHHHHHHHHHhcc-----Cccc-chhH
Confidence 357789999999999998854 33332 1111111122467777776666655442 2221 2344
Q ss_pred hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCC-cCCcccccCCCCc--cHHHHHHHH
Q 018294 154 ECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNP-FDGQEAKPYKNDP--EILAMTNLI 230 (358)
Q Consensus 154 ~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~-~~~~~~~~~~~~p--~~~~l~~L~ 230 (358)
..-|+++-..++|.+|.++|..+.. .+++..++++-+.+--+=.+ ++.+ +.+.. +.+...| ...|+.-.+
T Consensus 79 Hv~gl~~R~dK~Y~eaiKcy~nAl~-----~~~dN~qilrDlslLQ~QmR-d~~~~~~tr~-~LLql~~~~ra~w~~~Av 151 (700)
T KOG1156|consen 79 HVLGLLQRSDKKYDEAIKCYRNALK-----IEKDNLQILRDLSLLQIQMR-DYEGYLETRN-QLLQLRPSQRASWIGFAV 151 (700)
T ss_pred HHHHHHHhhhhhHHHHHHHHHHHHh-----cCCCcHHHHHHHHHHHHHHH-hhhhHHHHHH-HHHHhhhhhHHHHHHHHH
Confidence 5568999999999999999999863 23455677777655444111 2222 11110 0011122 356788888
Q ss_pred HHHHhCCHHHHHHHHHHhhhhh--cCChhHHHHHHHHHHHH
Q 018294 231 AAYQRNEIIEFEKILKSNRKTI--MDDPFIRNYIEDLLKNV 269 (358)
Q Consensus 231 ~af~~~d~~~f~~~l~~~~~~l--~~D~~l~~~~~~L~~~i 269 (358)
.++..+++..-.++++.+.... ..++...+|...+..+.
T Consensus 152 s~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n 192 (700)
T KOG1156|consen 152 AQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQN 192 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHH
Confidence 8999999999999999887655 35666556665554433
No 80
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=91.10 E-value=2.9 Score=38.30 Aligned_cols=95 Identities=11% Similarity=0.047 Sum_probs=64.2
Q ss_pred hhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC-hhhhHHHh
Q 018294 75 FDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH-PRIMGIIR 153 (358)
Q Consensus 75 ~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~-~~~~~~i~ 153 (358)
+..|+|++|...++.+...-+++ .+.-..+.....+|+..|++..|...+....+. .++ |. .....
T Consensus 154 ~~~~~y~~Ai~af~~fl~~yP~s---------~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~---yP~s~~-~~dAl 220 (263)
T PRK10803 154 QDKSRQDDAIVAFQNFVKKYPDS---------TYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN---YPKSPK-AADAM 220 (263)
T ss_pred HhcCCHHHHHHHHHHHHHHCcCC---------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCcc-hhHHH
Confidence 55689999999998888876432 223344455667888999999999888876432 222 21 11122
Q ss_pred hhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 154 ECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 154 ~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
...|.++...+++..|...|-...+.|+.
T Consensus 221 ~klg~~~~~~g~~~~A~~~~~~vi~~yP~ 249 (263)
T PRK10803 221 FKVGVIMQDKGDTAKAKAVYQQVIKKYPG 249 (263)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 23377777889999999988887776653
No 81
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=91.02 E-value=1.2 Score=30.84 Aligned_cols=57 Identities=11% Similarity=0.123 Sum_probs=42.5
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 116 EIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 116 ~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
..+.+...|++.+|...++.+... +|. .......-|.++...|+|.+|...|-++..
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~l~~-----~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQALKQ-----DPD-NPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHCC-----STT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHH-----CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 456778899999999999987653 233 233445568999999999999988877654
No 82
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=91.01 E-value=2.5 Score=40.60 Aligned_cols=104 Identities=18% Similarity=0.212 Sum_probs=73.3
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcc---hhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDD---QKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~---~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
.-|+.|+..|+|..|..-+......+....+.++ +.-...++-+++..+-.|+.++++..|...-++++... +
T Consensus 213 e~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~----~ 288 (397)
T KOG0543|consen 213 ERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD----P 288 (397)
T ss_pred HhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC----C
Confidence 4677788888888888777776665543332222 11234567778888888999999998887777766532 2
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+...+-++. |..++..++|..|...|..+..
T Consensus 289 ~N~KALyRr--G~A~l~~~e~~~A~~df~ka~k 319 (397)
T KOG0543|consen 289 NNVKALYRR--GQALLALGEYDLARDDFQKALK 319 (397)
T ss_pred CchhHHHHH--HHHHHhhccHHHHHHHHHHHHH
Confidence 334555655 8899999999999999988764
No 83
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=90.80 E-value=2.7 Score=33.84 Aligned_cols=80 Identities=11% Similarity=0.201 Sum_probs=62.1
Q ss_pred HhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc-eeee-ccCCEEEEccCCccch----HHHHHHHHHHHHHHH
Q 018294 276 KLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID-GHID-QVNRLLERGDRSKGMK----KYTAIDKWNSQLRSL 349 (358)
Q Consensus 276 ~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~-akID-~~~g~v~~~~~~~~~~----~~~~l~~w~~~i~~l 349 (358)
.++++-.-.+.++||+.++.+..-|.+-|-+++..|.+. -+.. ...|..+++.+-+.+. +...+++|..++.++
T Consensus 35 ~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~~~~ 114 (126)
T COG3355 35 ALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKMKQL 114 (126)
T ss_pred HHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 334345668999999999999999999999999999994 3444 5667888886554443 346788899999999
Q ss_pred HHHHhh
Q 018294 350 YQTVSN 355 (358)
Q Consensus 350 ~~~v~~ 355 (358)
....+.
T Consensus 115 i~~~~~ 120 (126)
T COG3355 115 IEEFEK 120 (126)
T ss_pred HHHHhc
Confidence 887654
No 84
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=90.64 E-value=6.9 Score=31.25 Aligned_cols=99 Identities=10% Similarity=0.017 Sum_probs=72.8
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.+.+|..+-..|+.++|..++......- . ++ ....+.++.....+..+|++.+|..+++.+.. ..+++
T Consensus 4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~g--L---~~----~~~~~a~i~lastlr~LG~~deA~~~L~~~~~---~~p~~ 71 (120)
T PF12688_consen 4 LYELAWAHDSLGREEEAIPLYRRALAAG--L---SG----ADRRRALIQLASTLRNLGRYDEALALLEEALE---EFPDD 71 (120)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHcC--C---Cc----hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCc
Confidence 4567778888899999999999887742 1 11 23445556666778899999999999987653 23444
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.....++...+......+++.+|...+..++
T Consensus 72 ~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~l 102 (120)
T PF12688_consen 72 ELNAALRVFLALALYNLGRPKEALEWLLEAL 102 (120)
T ss_pred cccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4455566666777788899999999998865
No 85
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.45 E-value=11 Score=34.14 Aligned_cols=135 Identities=19% Similarity=0.283 Sum_probs=68.2
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC-----------------ChhhhH--HHhhhhhhhHhhhhcHH
Q 018294 107 SQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP-----------------HPRIMG--IIRECGGKMHMAERQWA 167 (358)
Q Consensus 107 ~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~-----------------~~~~~~--~i~~~~g~~~~~~~~y~ 167 (358)
++.++++---+.+|.+-|...-|-..++++.+....+. +.+.+. .+....++++...++|.
T Consensus 88 sEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~ 167 (308)
T KOG1585|consen 88 SEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT 167 (308)
T ss_pred HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence 33455555555666666666666666666544333221 111121 12223467777888888
Q ss_pred HHHHHHHHHhh---hhhhhcchhHHHHHHHHHHHHH---hhCCCCC----Cc-CCcccccCCCCccHHHHHHHHHHHHhC
Q 018294 168 DAATDFFEAFK---NYDEAGNQRRIQCLKYLVLANM---LMESEVN----PF-DGQEAKPYKNDPEILAMTNLIAAYQRN 236 (358)
Q Consensus 168 ~A~~~f~e~~~---~~~~~~~~~~~~~l~y~~l~~l---L~~~~~~----~~-~~~~~~~~~~~p~~~~l~~L~~af~~~ 236 (358)
+|+.-|..-.. .+...+++ .| ..++.| |...++- .+ ..-....|....+...+..|+.+|..+
T Consensus 168 Eaa~a~lKe~~~~~~~~~y~~~-----~k-~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~g 241 (308)
T KOG1585|consen 168 EAATAFLKEGVAADKCDAYNSQ-----CK-AYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEG 241 (308)
T ss_pred HHHHHHHHhhhHHHHHhhcccH-----HH-HHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccC
Confidence 88887766322 22222222 11 112222 1222210 00 000111233222466789999999999
Q ss_pred CHHHHHHHHHH
Q 018294 237 EIIEFEKILKS 247 (358)
Q Consensus 237 d~~~f~~~l~~ 247 (358)
|.+.+.+.+..
T Consensus 242 D~E~~~kvl~s 252 (308)
T KOG1585|consen 242 DIEEIKKVLSS 252 (308)
T ss_pred CHHHHHHHHcC
Confidence 99999887653
No 86
>PRK11189 lipoprotein NlpI; Provisional
Probab=90.09 E-value=2.7 Score=39.15 Aligned_cols=93 Identities=10% Similarity=0.074 Sum_probs=68.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++...|++++|...+......-++ ..+.+.....++...|++..|...++++.... |.
T Consensus 68 ~~~g~~~~~~g~~~~A~~~~~~Al~l~P~------------~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-----P~ 130 (296)
T PRK11189 68 YERGVLYDSLGLRALARNDFSQALALRPD------------MADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-----PT 130 (296)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHcCCC------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-----CC
Confidence 46788899999999999888777665221 23455566678889999999999999987653 22
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.. .....-|.++...|+|.+|...|-.+..
T Consensus 131 ~~-~a~~~lg~~l~~~g~~~eA~~~~~~al~ 160 (296)
T PRK11189 131 YN-YAYLNRGIALYYGGRYELAQDDLLAFYQ 160 (296)
T ss_pred CH-HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 11 1223347778888999999999888764
No 87
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=90.08 E-value=9.5 Score=33.27 Aligned_cols=103 Identities=13% Similarity=0.142 Sum_probs=60.9
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
...|.-.++.|+|.+|.+.++.+....+.+ ...-+..+..+..+...||+..|...++.-.+.-.. +|.
T Consensus 9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s---------~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~--~~~ 77 (203)
T PF13525_consen 9 YQKALEALQQGDYEEAIKLFEKLIDRYPNS---------PYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN--SPK 77 (203)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHHHH-TTS---------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT---TT
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCCCC---------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--Ccc
Confidence 467888899999999999999999887543 223344456667888999999999888875432111 222
Q ss_pred hhHHHhhhhhhhHh-----------hhhcHHHHHHHHHHHhhhhhh
Q 018294 148 IMGIIRECGGKMHM-----------AERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 148 ~~~~i~~~~g~~~~-----------~~~~y~~A~~~f~e~~~~~~~ 182 (358)
+- ......|..++ ..+...+|...|-+....|++
T Consensus 78 ~~-~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~ 122 (203)
T PF13525_consen 78 AD-YALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPN 122 (203)
T ss_dssp HH-HHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TT
T ss_pred hh-hHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcC
Confidence 21 11122233322 233345666666666666654
No 88
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=89.99 E-value=1.1 Score=30.75 Aligned_cols=52 Identities=19% Similarity=0.223 Sum_probs=41.7
Q ss_pred HHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 271 TQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 271 ~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
...|+++++....++++++|+.||+|+.-+..-|..|-..|. |.+.-|-+.+
T Consensus 2 ~~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~----i~r~~GG~~~ 53 (57)
T PF08220_consen 2 QQQILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGL----IKRTHGGAVL 53 (57)
T ss_pred HHHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCC----EEEEcCEEEe
Confidence 345677777788999999999999999999999999998886 4444554444
No 89
>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=89.94 E-value=3.9 Score=31.39 Aligned_cols=65 Identities=14% Similarity=0.176 Sum_probs=49.6
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
....+|.++...|++++|.+.+..+....++. .....++.....++...|++..|...++.+...
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS---------PKAPDALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC---------CcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 34569999999999999999999998775321 122344555667788899999999999887653
No 90
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=89.79 E-value=0.75 Score=30.04 Aligned_cols=41 Identities=20% Similarity=0.328 Sum_probs=32.3
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
++.++.--..++..+||+.+|+|..-+-..+-+|...|.|.
T Consensus 8 Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 8 ILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 34444445669999999999999999999999999999763
No 91
>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=89.60 E-value=2.3 Score=40.18 Aligned_cols=95 Identities=8% Similarity=-0.050 Sum_probs=67.5
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+|.++...|++++|.+.+.+....-+. + ...+.....++...|++.+|..++.++...... +|..
T Consensus 119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~-----~-------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~ 184 (355)
T cd05804 119 MLAFGLEEAGQYDRAEEAARRALELNPD-----D-------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSML 184 (355)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhhCCC-----C-------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--Ccch
Confidence 5777889999999999999888776421 1 223344466778899999999999987654321 2333
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.......-|.++...|++.+|...|-++.
T Consensus 185 ~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 185 RGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred hHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 33344455888899999999998887763
No 92
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=89.49 E-value=4.5 Score=41.15 Aligned_cols=106 Identities=15% Similarity=0.202 Sum_probs=78.5
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhcc---C
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSA---I 143 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~---~ 143 (358)
..-+++.+...|+++.|...|...-..|+ -.+|.|+.-+|++...|++..|-.+++.+....++ +
T Consensus 374 ~y~laqh~D~~g~~~~A~~yId~AIdHTP------------TliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~I 441 (700)
T KOG1156|consen 374 LYFLAQHYDKLGDYEVALEYIDLAIDHTP------------TLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAI 441 (700)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHhccCc------------hHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHH
Confidence 34689999999999999999988777653 38999999999999999999999998887553211 0
Q ss_pred --------------C------------------ChhhhHHHh--hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhc
Q 018294 144 --------------P------------------HPRIMGIIR--ECGGKMHMAERQWADAATDFFEAFKNYDEAG 184 (358)
Q Consensus 144 --------------~------------------~~~~~~~i~--~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~ 184 (358)
. +-.-+.+.| .-+|..+..+++|-.|.+.|.+++..|....
T Consensus 442 NsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~~~ 516 (700)
T KOG1156|consen 442 NSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKTWS 516 (700)
T ss_pred HHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 0 000012222 2368888899999999999999877776543
No 93
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=89.25 E-value=14 Score=32.17 Aligned_cols=125 Identities=12% Similarity=0.118 Sum_probs=67.2
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHH------hcCHHHHHHHHHHHHh
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTE------TKNNKKLKQLYQKALA 138 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~------~~d~~~a~~~l~~a~~ 138 (358)
...+.+|..++..|+|.+|...++++...-++.+..++ +.+....+.+... ..|...++..+..-..
T Consensus 43 ~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~-------A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~ 115 (203)
T PF13525_consen 43 QAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADY-------ALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEE 115 (203)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHH-------HHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhh-------HHHHHHHHHHHhCccchhcccChHHHHHHHHHHHH
Confidence 44567999999999999999999999988665322111 1111111111111 2344444444444444
Q ss_pred hhccCCC----hhhhH---HHh-------hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHH
Q 018294 139 IKSAIPH----PRIMG---IIR-------ECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLA 198 (358)
Q Consensus 139 ~~~~~~~----~~~~~---~i~-------~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~ 198 (358)
+....|+ +.... .++ ..-|..++..++|..|...|-...+.|+... ....++.+++-+
T Consensus 116 li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~--~~~~al~~l~~~ 187 (203)
T PF13525_consen 116 LIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTP--AAEEALARLAEA 187 (203)
T ss_dssp HHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSH--HHHHHHHHHHHH
T ss_pred HHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCc--hHHHHHHHHHHH
Confidence 4444443 11111 111 2458889999999999999999988886433 233344444433
No 94
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=88.92 E-value=2.7 Score=39.50 Aligned_cols=96 Identities=18% Similarity=0.147 Sum_probs=67.8
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
.-.|+++++.|++++|.+++..+.+.- +..+|-+++..--|+--++..-|-.+|+..+.. ++.+|.
T Consensus 294 ~g~ARi~eam~~~~~a~~lYk~vlk~~------------~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm--G~~spe 359 (478)
T KOG1129|consen 294 LGQARIHEAMEQQEDALQLYKLVLKLH------------PINVEAIACIAVGYFYDNNPEMALRYYRRILQM--GAQSPE 359 (478)
T ss_pred hhhHHHHHHHHhHHHHHHHHHHHHhcC------------CccceeeeeeeeccccCCChHHHHHHHHHHHHh--cCCChH
Confidence 367888999999999999888887662 224555666666677777888888888876643 344565
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
+-..| |+-++..++|.-+...|..+..+-.
T Consensus 360 Lf~Ni----gLCC~yaqQ~D~~L~sf~RAlstat 389 (478)
T KOG1129|consen 360 LFCNI----GLCCLYAQQIDLVLPSFQRALSTAT 389 (478)
T ss_pred HHhhH----HHHHHhhcchhhhHHHHHHHHhhcc
Confidence 54444 6666778888888888888766544
No 95
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=88.69 E-value=4.8 Score=42.82 Aligned_cols=96 Identities=8% Similarity=-0.008 Sum_probs=74.0
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++...|++++|.+.++++....+. ..+++...+.++...|++.+|...++++.... |.
T Consensus 363 ~~~a~~l~~~g~~~eA~~~l~~al~~~P~------------n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-----Pd 425 (765)
T PRK10049 363 SLLSQVAKYSNDLPQAEMRARELAYNAPG------------NQGLRIDYASVLQARGWPRAAENELKKAEVLE-----PR 425 (765)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-----CC
Confidence 46888999999999999999999777431 13566777788999999999999999987652 32
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
-. .+....|..++..++|.+|...+-+....++
T Consensus 426 ~~-~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P 458 (765)
T PRK10049 426 NI-NLEVEQAWTALDLQEWRQMDVLTDDVVAREP 458 (765)
T ss_pred Ch-HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence 11 2445557788889999999998888765543
No 96
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=88.69 E-value=5 Score=33.74 Aligned_cols=73 Identities=18% Similarity=0.077 Sum_probs=49.8
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceee--eccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI--DQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSNR 356 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI--D~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~~ 356 (358)
.+-++-++||+.+|++..+|-+.|-+|-.+|.+.-+= |...|.....|.-......+. -..++.++...+..+
T Consensus 26 ~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~---Ik~~~~~~~~~lk~~ 100 (158)
T TIGR00373 26 KGEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDV---LKRKLEETAKKLREK 100 (158)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHH---HHHHHHHHHHHHHHH
Confidence 4679999999999999999999999999999994322 444566666664333223333 344455555554443
No 97
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.53 E-value=6.3 Score=34.30 Aligned_cols=98 Identities=14% Similarity=0.147 Sum_probs=69.7
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.+.+|+-+.+.|++++|...|......+. |+ ..+.-.-+...|+.+.+|.++.|-..++ ++-++
T Consensus 92 aL~lAk~~ve~~~~d~A~aqL~~~l~~t~-----De----~lk~l~~lRLArvq~q~~k~D~AL~~L~-------t~~~~ 155 (207)
T COG2976 92 ALELAKAEVEANNLDKAEAQLKQALAQTK-----DE----NLKALAALRLARVQLQQKKADAALKTLD-------TIKEE 155 (207)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHHccch-----hH----HHHHHHHHHHHHHHHHhhhHHHHHHHHh-------ccccc
Confidence 46899999999999999988887766643 23 3333333455677777777776655444 34455
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
...+.+-+.-|.+++..||=.+|...|-.+....
T Consensus 156 ~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 156 SWAAIVAELRGDILLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred cHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence 5555566777999999999999999888887654
No 98
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=88.06 E-value=2.9 Score=30.87 Aligned_cols=47 Identities=11% Similarity=0.094 Sum_probs=35.7
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCC
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRS 330 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~ 330 (358)
.++.++||+.+++|+..+++.+.+|...|.+...=-. +|-.....++
T Consensus 25 ~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~-~GGy~L~~~~ 71 (83)
T PF02082_consen 25 PVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGR-GGGYRLARPP 71 (83)
T ss_dssp -BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETST-TSEEEESS-C
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCC-CCceeecCCH
Confidence 4999999999999999999999999999998654333 4555554443
No 99
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=87.98 E-value=1 Score=32.02 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=35.0
Q ss_pred HHHHhcccccc--cchhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 273 VLLKLIKPYTR--IRIPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 273 ~l~~~~~~y~~--I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
.++++++.... ++..+||+.+|++...|...|.+|...|.+.-
T Consensus 10 ~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 10 KILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 33445544434 99999999999999999999999999998743
No 100
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=87.86 E-value=0.55 Score=30.38 Aligned_cols=27 Identities=22% Similarity=0.546 Sum_probs=24.4
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
.++||+.|.+.||++.|.++|+++...
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~~ 28 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIEE 28 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHHc
Confidence 467999999999999999999999854
No 101
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=87.82 E-value=5.9 Score=36.33 Aligned_cols=64 Identities=13% Similarity=0.199 Sum_probs=49.7
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
..+.+|.+|+..|+|++|...+..+...-++. ....+.++.....+..+|+..+|+.+|+...+
T Consensus 182 A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s---------~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~ 245 (263)
T PRK10803 182 ANYWLGQLNYNKGKKDDAAYYFASVVKNYPKS---------PKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK 245 (263)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC---------cchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45689999999999999999999998775432 22344455556677789999999999997654
No 102
>PRK15331 chaperone protein SicA; Provisional
Probab=87.78 E-value=16 Score=30.94 Aligned_cols=94 Identities=14% Similarity=0.018 Sum_probs=68.8
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
+..|-=++..|++++|..+++-+-..= ..-.++++-..-++..++++.+|-..|-.|-... ..||+
T Consensus 41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d------------~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~--~~dp~ 106 (165)
T PRK15331 41 YAHAYEFYNQGRLDEAETFFRFLCIYD------------FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL--KNDYR 106 (165)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhC------------cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--cCCCC
Confidence 467777889999999999888776641 1113345556667788999999999999876543 23444
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
- -.+.|.-++..++-..|..+|..+...
T Consensus 107 p----~f~agqC~l~l~~~~~A~~~f~~a~~~ 134 (165)
T PRK15331 107 P----VFFTGQCQLLMRKAAKARQCFELVNER 134 (165)
T ss_pred c----cchHHHHHHHhCCHHHHHHHHHHHHhC
Confidence 2 245577788899999999999888764
No 103
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=87.78 E-value=12 Score=30.90 Aligned_cols=85 Identities=12% Similarity=0.120 Sum_probs=54.9
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.-|.-.++.|+|.+|.+.++.|...-+.+. ..-...+..+-.|+..+++..|...++.=.+... .+|.+
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~---------ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP--~hp~v 83 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDTRYPFGE---------YAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHP--THPNV 83 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHhcCCCCc---------ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC--CCCCc
Confidence 456667788999999999999998875432 1223334556778999999999988887555422 13332
Q ss_pred hHHHhhhhhhhHhhhhc
Q 018294 149 MGIIRECGGKMHMAERQ 165 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~ 165 (358)
- -.....|+.++.+..
T Consensus 84 d-Ya~Y~~gL~~~~~~~ 99 (142)
T PF13512_consen 84 D-YAYYMRGLSYYEQDE 99 (142)
T ss_pred c-HHHHHHHHHHHHHhh
Confidence 2 112234666555543
No 104
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=87.03 E-value=23 Score=31.98 Aligned_cols=128 Identities=5% Similarity=0.116 Sum_probs=74.3
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHH-------H----HHhcCHHHHHHHH
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQM-------Y----TETKNNKKLKQLY 133 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~-------~----~~~~d~~~a~~~l 133 (358)
...+.+|..++..|+|++|...++++...-++.+..++ ....... ....+ + ....|...++..+
T Consensus 70 ~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~---a~Y~~g~--~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~ 144 (243)
T PRK10866 70 QVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDY---VLYMRGL--TNMALDDSALQGFFGVDRSDRDPQHARAAF 144 (243)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHH---HHHHHHH--hhhhcchhhhhhccCCCccccCHHHHHHHH
Confidence 45578999999999999999999999888665432221 1111111 00001 0 1123566666666
Q ss_pred HHHHhhhccCCC----hhhhHHHh----------hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHH
Q 018294 134 QKALAIKSAIPH----PRIMGIIR----------ECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLAN 199 (358)
Q Consensus 134 ~~a~~~~~~~~~----~~~~~~i~----------~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~ 199 (358)
..-..+....|+ +....++. ..-|..|...++|..|...|-...+.|+... ...++|.+++-+-
T Consensus 145 ~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~--~~~eal~~l~~ay 222 (243)
T PRK10866 145 RDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQ--ATRDALPLMENAY 222 (243)
T ss_pred HHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCc--hHHHHHHHHHHHH
Confidence 655555555543 22221122 2347778888888888888888887775433 2344444444333
No 105
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=86.88 E-value=6.8 Score=33.66 Aligned_cols=100 Identities=11% Similarity=0.126 Sum_probs=61.4
Q ss_pred cCChhHHHHHHHHH--HHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceee--eccCCEEEEcc
Q 018294 253 MDDPFIRNYIEDLL--KNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI--DQVNRLLERGD 328 (358)
Q Consensus 253 ~~D~~l~~~~~~L~--~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI--D~~~g~v~~~~ 328 (358)
..||.+...+..+. ..-... ++..+.....++-++||+.+|++..+|-+.|.+|-.+|.+..+- |...|.....|
T Consensus 5 ~~~~~v~~~l~~~~~~~~~~~~-Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w 83 (178)
T PRK06266 5 LNNPLVQKVLFEIMEGDEEGFE-VLKALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTW 83 (178)
T ss_pred hcCHHHHHHHHHHhcCCccHhH-HHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEE
Confidence 35666655444444 211222 23333345679999999999999999999999999999997533 22456666666
Q ss_pred CCccchHHHHHHHHHHHHHHHHHHHhhh
Q 018294 329 RSKGMKKYTAIDKWNSQLRSLYQTVSNR 356 (358)
Q Consensus 329 ~~~~~~~~~~l~~w~~~i~~l~~~v~~~ 356 (358)
.-......+.+ ..++.++...+..+
T Consensus 84 ~l~~~~i~d~i---k~~~~~~~~klk~~ 108 (178)
T PRK06266 84 KPELEKLPEII---KKKKMEELKKLKEQ 108 (178)
T ss_pred EeCHHHHHHHH---HHHHHHHHHHHHHH
Confidence 54332233333 34445555555444
No 106
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=86.65 E-value=2.2 Score=34.94 Aligned_cols=82 Identities=13% Similarity=0.212 Sum_probs=52.1
Q ss_pred ccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHH
Q 018294 221 PEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDV 300 (358)
Q Consensus 221 p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~v 300 (358)
|++...-.+-+-.-+.||....+.++.|+..=.. +.-+.-|.+.-|.+.+.-+...|++|...++|..+|+|+|++
T Consensus 74 ~El~aaWgiGQkiWq~Df~GiYeaI~~~dWSeea----k~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddA 149 (197)
T KOG4414|consen 74 PELGAAWGIGQKIWQHDFAGIYEAINAHDWSEEA----KDIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDA 149 (197)
T ss_pred chhhhhhhhhHHHHhcccchHHHHHhhhcchHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHH
Confidence 4444333444445555655555555554321111 112345566667777777788999999999999999999998
Q ss_pred HHHHHH
Q 018294 301 EQLLVS 306 (358)
Q Consensus 301 E~~l~~ 306 (358)
-+.+.+
T Consensus 150 tk~ilE 155 (197)
T KOG4414|consen 150 TKGILE 155 (197)
T ss_pred HHHHHH
Confidence 766643
No 107
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=86.20 E-value=41 Score=34.08 Aligned_cols=64 Identities=20% Similarity=0.145 Sum_probs=46.6
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 107 SQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 107 ~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+.++=++...++.|-..|++.+|-.++++|..-. |. ...+...-|+++-+.|++.+|+..+-++
T Consensus 191 ~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-----Pt-~~ely~~KarilKh~G~~~~Aa~~~~~A 254 (517)
T PF12569_consen 191 STLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-----PT-LVELYMTKARILKHAGDLKEAAEAMDEA 254 (517)
T ss_pred hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-----CC-cHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3344455666788889999999999999876432 22 1235556688999999999999866554
No 108
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=85.96 E-value=14 Score=33.59 Aligned_cols=135 Identities=14% Similarity=0.245 Sum_probs=88.1
Q ss_pred HHHHHHHHHHHHHHhh---hhhhH------------H-HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhh
Q 018294 43 LREFYQTTLKALEEAK---NERLW------------F-KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKG 106 (358)
Q Consensus 43 ~~~~~~~~~~~i~~~~---~~r~~------------~-~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~ 106 (358)
..++|+..+..++..+ ..+.+ . +..+.++-.++..|+|++|...+++....-++.+..+
T Consensus 34 ~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d----- 108 (254)
T COG4105 34 ASELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD----- 108 (254)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-----
Confidence 5677777777666422 11111 1 5567899999999999999999999999876543221
Q ss_pred hhHHHHHHHHHHHHH---HhcCHHHHHHHHHHHHhhhccCCC----hhhhHHHh----------hhhhhhHhhhhcHHHH
Q 018294 107 SQLLEVYAIEIQMYT---ETKNNKKLKQLYQKALAIKSAIPH----PRIMGIIR----------ECGGKMHMAERQWADA 169 (358)
Q Consensus 107 ~~~~e~~~~~~~~~~---~~~d~~~a~~~l~~a~~~~~~~~~----~~~~~~i~----------~~~g~~~~~~~~y~~A 169 (358)
-+-.+...+.+.. ..+|...++..+..-..+....|+ |..+.++. ..-|++|+..+.|..|
T Consensus 109 --Y~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA 186 (254)
T COG4105 109 --YAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAA 186 (254)
T ss_pred --HHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHH
Confidence 2222222232211 135778888888877766655553 33332222 2348899999999999
Q ss_pred HHHHHHHhhhhhhhc
Q 018294 170 ATDFFEAFKNYDEAG 184 (358)
Q Consensus 170 ~~~f~e~~~~~~~~~ 184 (358)
...|-+..++|....
T Consensus 187 ~nR~~~v~e~y~~t~ 201 (254)
T COG4105 187 INRFEEVLENYPDTS 201 (254)
T ss_pred HHHHHHHHhcccccc
Confidence 999999998886544
No 109
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=85.68 E-value=1.7 Score=29.23 Aligned_cols=46 Identities=15% Similarity=0.285 Sum_probs=35.7
Q ss_pred HHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 269 VRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
++...+.....|=..+ +..+||+.+|+|..-+...+.+|...|.|.
T Consensus 5 l~~~i~~~~~~~~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 5 LREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQ 51 (60)
T ss_pred HHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 3333333334455567 899999999999999999999999998874
No 110
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=85.56 E-value=11 Score=39.89 Aligned_cols=26 Identities=27% Similarity=0.331 Sum_probs=22.3
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
+..|++.+..|++++|.+++.++-..
T Consensus 143 l~eAN~lfarg~~eeA~~i~~EvIkq 168 (895)
T KOG2076|consen 143 LGEANNLFARGDLEEAEEILMEVIKQ 168 (895)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 46788888999999999999888776
No 111
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=85.44 E-value=2.5 Score=28.92 Aligned_cols=40 Identities=13% Similarity=0.243 Sum_probs=34.0
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
.++..+||+.++++..-+-..+.+|+..|.|.-.-|..++
T Consensus 21 ~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D~ 60 (62)
T PF12802_consen 21 ELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGDR 60 (62)
T ss_dssp GEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSST
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCCC
Confidence 4999999999999999999999999999999776666553
No 112
>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=85.44 E-value=22 Score=37.46 Aligned_cols=56 Identities=18% Similarity=0.251 Sum_probs=26.7
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
++..+...|++++|.+.+.......++ + ...+.....+|...|++.+|..++.++.
T Consensus 742 l~~~~~~~g~~~~A~~~~~~~l~~~~~-----~-------~~~~~~la~~~~~~g~~~~A~~~~~~~~ 797 (899)
T TIGR02917 742 LHRALLASGNTAEAVKTLEAWLKTHPN-----D-------AVLRTALAELYLAQKDYDKAIKHYRTVV 797 (899)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhCCC-----C-------HHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence 455555555555555555554443211 0 1233333444555555555555555543
No 113
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=85.32 E-value=7.2 Score=31.72 Aligned_cols=103 Identities=11% Similarity=0.202 Sum_probs=63.5
Q ss_pred hhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCC
Q 018294 19 NYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQRED 98 (358)
Q Consensus 19 ~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~ 98 (358)
........++++.+..-.=++... ..|....++.+. ..++.+..+++..+.+.|++++|..++..+...-+
T Consensus 23 ~~~~~~~~~al~ly~G~~l~~~~~-~~W~~~~r~~l~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP--- 93 (146)
T PF03704_consen 23 EEAIELLEEALALYRGDFLPDLDD-EEWVEPERERLR-----ELYLDALERLAEALLEAGDYEEALRLLQRALALDP--- 93 (146)
T ss_dssp HHHHHHHHHHHTT--SSTTGGGTT-STTHHHHHHHHH-----HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST---
T ss_pred HHHHHHHHHHHHHhCCCCCCCCCc-cHHHHHHHHHHH-----HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCC---
Confidence 334455666666665421111110 233333333221 23556667899999999999999999988887732
Q ss_pred CCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 99 GTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 99 ~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
.-=..+...|+.+...|+...|...|....+.
T Consensus 94 ---------~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~ 125 (146)
T PF03704_consen 94 ---------YDEEAYRLLMRALAAQGRRAEALRVYERYRRR 125 (146)
T ss_dssp ---------T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred ---------CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 12345667788999999999999999987653
No 114
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=85.16 E-value=8.4 Score=35.83 Aligned_cols=54 Identities=20% Similarity=0.295 Sum_probs=40.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
-.|.++...|++++|.+++... .-+|..++.+++++.++++..|+..++....+
T Consensus 107 ~~A~i~~~~~~~~~AL~~l~~~-----------------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~ 160 (290)
T PF04733_consen 107 LAATILFHEGDYEEALKLLHKG-----------------GSLELLALAVQILLKMNRPDLAEKELKNMQQI 160 (290)
T ss_dssp HHHHHHCCCCHHHHHHCCCTTT-----------------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred HHHHHHHHcCCHHHHHHHHHcc-----------------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 4677888899999998766321 13577778888999999999999888876654
No 115
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=85.03 E-value=1.8 Score=25.14 Aligned_cols=28 Identities=18% Similarity=0.535 Sum_probs=24.9
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcc
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~ 95 (358)
+++|.++...|++++|.+.++++....+
T Consensus 4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 4 YRLARCYYKLGDYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence 5689999999999999999999988754
No 116
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=85.00 E-value=21 Score=34.82 Aligned_cols=86 Identities=13% Similarity=0.140 Sum_probs=62.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
.-+|+++...++-.+|.+++.+.....+. -.+++..+++.++..+++..|..+.+++-..... .
T Consensus 204 ~~LA~v~l~~~~E~~AI~ll~~aL~~~p~------------d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~----~ 267 (395)
T PF09295_consen 204 VLLARVYLLMNEEVEAIRLLNEALKENPQ------------DSELLNLQAEFLLSKKKYELALEIAKKAVELSPS----E 267 (395)
T ss_pred HHHHHHHHhcCcHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch----h
Confidence 46888888888888999888888755321 1677778889999999999888887776543211 1
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAAT 171 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~ 171 (358)
. .-+..-+.+|...++|++|.-
T Consensus 268 f--~~W~~La~~Yi~~~d~e~ALl 289 (395)
T PF09295_consen 268 F--ETWYQLAECYIQLGDFENALL 289 (395)
T ss_pred H--HHHHHHHHHHHhcCCHHHHHH
Confidence 1 234445778888999999884
No 117
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=84.96 E-value=11 Score=36.50 Aligned_cols=202 Identities=15% Similarity=0.195 Sum_probs=104.7
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHh-hhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh------------
Q 018294 113 YAIEIQMYTETKNNKKLKQLYQKALA-IKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN------------ 179 (358)
Q Consensus 113 ~~~~~~~~~~~~d~~~a~~~l~~a~~-~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~------------ 179 (358)
++-..|+..-+||+.-.-++++.-.+ +-+. .|..+ +..+-|..|+..|+|.+|-+.|..++..
T Consensus 238 L~GLlR~H~lLgDhQat~q~idi~pk~iy~t--~p~c~--VTY~VGFayLmmrryadai~~F~niLlyIqrtks~~~~~~ 313 (525)
T KOG3677|consen 238 LLGLLRMHILLGDHQATSQILDIMPKEIYGT--EPMCR--VTYQVGFAYLMMRRYADAIRVFLNILLYIQRTKSMFSRTT 313 (525)
T ss_pred HHHHHHHHHHhhhhHhhhhhhhcCchhhcCc--cccee--EeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchh
Confidence 34456777778885443333332111 1111 12111 2245599999999999999999886421
Q ss_pred hhhh-cchhHHHHHHHHHHHHHhhCCCCC-CcCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhh-----
Q 018294 180 YDEA-GNQRRIQCLKYLVLANMLMESEVN-PFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTI----- 252 (358)
Q Consensus 180 ~~~~-~~~~~~~~l~y~~l~~lL~~~~~~-~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l----- 252 (358)
|... ....+-+..-.+++|-.+-+..++ .+.++..-.|- +|. . --.+|+...|.+...--.+.+
T Consensus 314 y~~d~inKq~eqm~~llai~l~~yPq~iDESi~s~l~Ek~~-d~m----l----~mqng~~q~~ks~f~y~cpkflsp~~ 384 (525)
T KOG3677|consen 314 YQYDMINKQNEQMHHLLAICLSMYPQMIDESIHSQLAEKYG-DKM----L----PMQNGDPQVFKSLFSYLCPKFLSPVV 384 (525)
T ss_pred hhHhhhhhhHHHHHHHHHHHHHhCchhhhHHHHHHHHHHhc-chh----h----hhhcCChHHHHHHHHHcCccccCCCC
Confidence 1111 111122221123333333222111 12222111111 111 1 125577777766554322222
Q ss_pred ----------cCChhHHHHHHHHHHHHHH----HHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhh---------
Q 018294 253 ----------MDDPFIRNYIEDLLKNVRT----QVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLIL--------- 309 (358)
Q Consensus 253 ----------~~D~~l~~~~~~L~~~i~~----~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~--------- 309 (358)
..+|++++ +..+.+.++. -.++++.+-|++.....+|..++++..+=.+.+.+++.
T Consensus 385 ~~~dgv~~~y~kePl~~q-lq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~~dk~li~Ll~~khkm~nlv 463 (525)
T KOG3677|consen 385 PNYDGVLPNYHKEPLLQQ-LQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQERDKFLIQLLVFKHKMKNLV 463 (525)
T ss_pred cccccccccccccHHHHH-HHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCchhhhhhhHHHHHHHHHHHHHHH
Confidence 25666553 3444444443 45678888899999999999999998886677776664
Q ss_pred --cCccceeee-ccCCEEEEcc
Q 018294 310 --DNRIDGHID-QVNRLLERGD 328 (358)
Q Consensus 310 --~g~i~akID-~~~g~v~~~~ 328 (358)
.|.....++ +....|-|.-
T Consensus 464 ~~sg~s~~d~~f~~~s~idfyi 485 (525)
T KOG3677|consen 464 WTSGPSDLDDAFFSRSEIDFYI 485 (525)
T ss_pred HhcCCccccccccCcceeeEEe
Confidence 344444554 3444566653
No 118
>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=84.91 E-value=9 Score=40.37 Aligned_cols=58 Identities=12% Similarity=0.180 Sum_probs=33.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
.+|.++...|++++|.+++..+....+. ..+.+.....++...|++.+|...+.++..
T Consensus 164 ~la~~~~~~~~~~~A~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~ 221 (899)
T TIGR02917 164 GLAQLALAENRFDEARALIDEVLTADPG------------NVDALLLKGDLLLSLGNIELALAAYRKAIA 221 (899)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCC------------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence 4666666667777777666666544211 122333444556666777777777766644
No 119
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=84.79 E-value=6.6 Score=35.14 Aligned_cols=72 Identities=18% Similarity=0.189 Sum_probs=51.7
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHH
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTV 353 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v 353 (358)
|..+....-++.-++||+.+|+++..|-..+-+|+.+|.++- +..|.-+++++- .+.+.+|..+++...+.|
T Consensus 16 L~ei~~~qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~---~gR~~Y~iTkkG-----~e~l~~~~~dlr~f~~ev 87 (260)
T COG1497 16 LSEIAVRQPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK---EGRGEYEITKKG-----AEWLLEQLSDLRRFSEEV 87 (260)
T ss_pred HHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee---cCCeeEEEehhH-----HHHHHHHHHHHHHHHHHH
Confidence 344444456789999999999999999999999999987753 223344444332 566777777777776665
No 120
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=84.12 E-value=6.4 Score=44.01 Aligned_cols=95 Identities=12% Similarity=-0.013 Sum_probs=71.2
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
....+|.++.+.|++++|.+.++.+...-+. ..+.+...++++...|++.+|...++.+..... .+
T Consensus 605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~P~------------~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p--~~ 670 (1157)
T PRK11447 605 IDLTLADWAQQRGDYAAARAAYQRVLTREPG------------NADARLGLIEVDIAQGDLAAARAQLAKLPATAN--DS 670 (1157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC--CC
Confidence 3467999999999999999999998887321 234556677889999999999999997654321 12
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+..+ ...|.++...+++.+|...|-.+..
T Consensus 671 ~~~~----~~la~~~~~~g~~~eA~~~~~~al~ 699 (1157)
T PRK11447 671 LNTQ----RRVALAWAALGDTAAAQRTFNRLIP 699 (1157)
T ss_pred hHHH----HHHHHHHHhCCCHHHHHHHHHHHhh
Confidence 3322 2236777889999999999998764
No 121
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=83.96 E-value=29 Score=35.69 Aligned_cols=114 Identities=16% Similarity=0.251 Sum_probs=55.4
Q ss_pred ChHHHHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchH
Q 018294 1 MMDAYREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEY 80 (358)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~ 80 (358)
++.+|++-+..= |.++-+|- ++-..+....+ ...-..-|.+++.. .|.-.+. -..||.+|-+.|.+
T Consensus 305 AI~~Ykral~~~-P~F~~Ay~-----NlanALkd~G~--V~ea~~cYnkaL~l-~p~hada-----m~NLgni~~E~~~~ 370 (966)
T KOG4626|consen 305 AIDTYKRALELQ-PNFPDAYN-----NLANALKDKGS--VTEAVDCYNKALRL-CPNHADA-----MNNLGNIYREQGKI 370 (966)
T ss_pred HHHHHHHHHhcC-CCchHHHh-----HHHHHHHhccc--hHHHHHHHHHHHHh-CCccHHH-----HHHHHHHHHHhccc
Confidence 357888888776 66654441 22222211112 22334445555442 2211110 12466666666666
Q ss_pred hHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh
Q 018294 81 GRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 81 ~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
++|..++.......+. ..+-+-...-+|-.+|++.+|-..|+.+.++.
T Consensus 371 e~A~~ly~~al~v~p~------------~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~ 418 (966)
T KOG4626|consen 371 EEATRLYLKALEVFPE------------FAAAHNNLASIYKQQGNLDDAIMCYKEALRIK 418 (966)
T ss_pred hHHHHHHHHHHhhChh------------hhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC
Confidence 6666666555444321 22222333344555666666666666666553
No 122
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=83.86 E-value=29 Score=35.72 Aligned_cols=91 Identities=16% Similarity=0.172 Sum_probs=58.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.||..+-+.|+..+|.+++......|.. ..+-.......|.++|.+..|-.+|.++..+......+
T Consensus 325 NlanALkd~G~V~ea~~cYnkaL~l~p~------------hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa-- 390 (966)
T KOG4626|consen 325 NLANALKDKGSVTEAVDCYNKALRLCPN------------HADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAA-- 390 (966)
T ss_pred HHHHHHHhccchHHHHHHHHHHHHhCCc------------cHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhh--
Confidence 4777777888888888888888888753 12222333456677888888888888887653322111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.. --|.++-.+|++.+|..+|-|+.
T Consensus 391 ---~n-NLa~i~kqqgnl~~Ai~~Ykeal 415 (966)
T KOG4626|consen 391 ---HN-NLASIYKQQGNLDDAIMCYKEAL 415 (966)
T ss_pred ---hh-hHHHHHHhcccHHHHHHHHHHHH
Confidence 00 11555666777888888777754
No 123
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=83.63 E-value=7.3 Score=43.54 Aligned_cols=93 Identities=12% Similarity=0.107 Sum_probs=65.7
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP 144 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~ 144 (358)
...+.+|..+.+.|++++|.+++.. .+. + ...+.....++...|++.+|...|.++......
T Consensus 574 ~~~l~~a~~l~~~G~~~eA~~~l~~------~p~---~-------~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-- 635 (1157)
T PRK11447 574 DQVLETANRLRDSGKEAEAEALLRQ------QPP---S-------TRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-- 635 (1157)
T ss_pred hHHHHHHHHHHHCCCHHHHHHHHHh------CCC---C-------chHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--
Confidence 3345789999999999999998871 121 1 123345567888999999999999998765211
Q ss_pred ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 145 HPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 145 ~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
++. .....|.++...++|.+|...|-.+...
T Consensus 636 ~~~----a~~~la~~~~~~g~~~eA~~~l~~ll~~ 666 (1157)
T PRK11447 636 NAD----ARLGLIEVDIAQGDLAAARAQLAKLPAT 666 (1157)
T ss_pred CHH----HHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence 222 2233377788889999999988876543
No 124
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=83.49 E-value=21 Score=35.19 Aligned_cols=96 Identities=14% Similarity=0.121 Sum_probs=68.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh--ccCCC
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK--SAIPH 145 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~--~~~~~ 145 (358)
.-||+.|.+.++.++|.+++.+.....+. + +. .+....++|-+++|..+|..++.+...+. .+.-+
T Consensus 436 ~aLG~CY~kl~~~~eAiKCykrai~~~dt-----e---~~----~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~ 503 (559)
T KOG1155|consen 436 VALGECYEKLNRLEEAIKCYKRAILLGDT-----E---GS----ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID 503 (559)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHhcccc-----c---hH----HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence 46899999999999999999988776432 1 12 33455788999999999999999976643 22223
Q ss_pred h-hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 146 P-RIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 146 ~-~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
| .+.+.+. -+..+...++|.+|..+-....
T Consensus 504 ~~t~ka~~f--LA~~f~k~~~~~~As~Ya~~~~ 534 (559)
T KOG1155|consen 504 DETIKARLF--LAEYFKKMKDFDEASYYATLVL 534 (559)
T ss_pred hHHHHHHHH--HHHHHHhhcchHHHHHHHHHHh
Confidence 4 4445554 3667777888988887655544
No 125
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=83.48 E-value=16 Score=38.18 Aligned_cols=93 Identities=8% Similarity=0.018 Sum_probs=47.8
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+|.++...|++++|...+++....-+. ...++......+...|++..|...+..+... +|..
T Consensus 289 ~lg~~l~~~g~~~eA~~~l~~al~l~P~------------~~~a~~~La~~l~~~G~~~eA~~~l~~al~~-----~P~~ 351 (656)
T PRK15174 289 LYADALIRTGQNEKAIPLLQQSLATHPD------------LPYVRAMYARALRQVGQYTAASDEFVQLARE-----KGVT 351 (656)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----Cccc
Confidence 4566666666666666666655544211 0112223344555666666666666655432 1111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
. ......|..+...|++.+|...|-.+...
T Consensus 352 ~-~~~~~~a~al~~~G~~deA~~~l~~al~~ 381 (656)
T PRK15174 352 S-KWNRYAAAALLQAGKTSEAESVFEHYIQA 381 (656)
T ss_pred h-HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 1 11122255556677777777777665543
No 126
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=83.23 E-value=6 Score=27.73 Aligned_cols=55 Identities=15% Similarity=0.264 Sum_probs=42.2
Q ss_pred HHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 118 QMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 118 ~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.+|+..+++.+|...++.+.... |. ....+...|.++...|+|.+|...|-.+.+
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~-----p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELD-----PD-DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhC-----cc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 46788999999999999887652 22 223444568899999999999998888764
No 127
>PRK12370 invasion protein regulator; Provisional
Probab=83.14 E-value=8.1 Score=39.42 Aligned_cols=24 Identities=25% Similarity=0.008 Sum_probs=11.8
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
+|.++...|++++|...+++....
T Consensus 344 lg~~~~~~g~~~~A~~~~~~Al~l 367 (553)
T PRK12370 344 LGLINTIHSEYIVGSLLFKQANLL 367 (553)
T ss_pred HHHHHHHccCHHHHHHHHHHHHHh
Confidence 444444455555555555544444
No 128
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.76 E-value=5.1 Score=34.83 Aligned_cols=63 Identities=14% Similarity=0.237 Sum_probs=46.5
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
-+.++||++.++.|++++|.+.|..+..... ...+.++ .-.++...||-..|+..|.++....
T Consensus 127 l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w----------~~~~~el---rGDill~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 127 LAALRLARVQLQQKKADAALKTLDTIKEESW----------AAIVAEL---RGDILLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHhccccccH----------HHHHHHH---hhhHHHHcCchHHHHHHHHHHHHcc
Confidence 4467999999999999999999987765522 1212222 2245678999999999999997653
No 129
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=82.72 E-value=4.4 Score=27.77 Aligned_cols=52 Identities=23% Similarity=0.348 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHhcccccccc-hhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRIR-IPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I~-l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
..+.+.++...+.....+-..++ ..+||+.+|+|...+.+.+.+|...|-|.
T Consensus 4 ~~~~~~i~~~i~~~~~~~~~~~~~~~~la~~~~is~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 4 EQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVE 56 (66)
T ss_pred HHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 34445555444333344444554 99999999999999999999999999764
No 130
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=82.39 E-value=2.3 Score=27.69 Aligned_cols=33 Identities=15% Similarity=0.196 Sum_probs=30.1
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
..++..+||+.++++..-+...+..|...|.|.
T Consensus 13 ~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~ 45 (53)
T smart00420 13 GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLT 45 (53)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 458999999999999999999999999988775
No 131
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=82.30 E-value=14 Score=34.18 Aligned_cols=90 Identities=13% Similarity=0.121 Sum_probs=62.3
Q ss_pred HHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhH
Q 018294 71 CKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMG 150 (358)
Q Consensus 71 a~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~ 150 (358)
|+=+.+.++|++|...+.+.....++. .=+|...+..|..+|.+..|-.-..+|..+ ||.. .
T Consensus 88 GN~~m~~~~Y~eAv~kY~~AI~l~P~n------------AVyycNRAAAy~~Lg~~~~AVkDce~Al~i-----Dp~y-s 149 (304)
T KOG0553|consen 88 GNKLMKNKDYQEAVDKYTEAIELDPTN------------AVYYCNRAAAYSKLGEYEDAVKDCESALSI-----DPHY-S 149 (304)
T ss_pred HHHHHHhhhHHHHHHHHHHHHhcCCCc------------chHHHHHHHHHHHhcchHHHHHHHHHHHhc-----ChHH-H
Confidence 444455668999999998888886431 123445567788999988877666666554 4432 2
Q ss_pred HHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 151 IIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 151 ~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+-+.-.|+.+...++|.+|...|-.+++
T Consensus 150 kay~RLG~A~~~~gk~~~A~~aykKaLe 177 (304)
T KOG0553|consen 150 KAYGRLGLAYLALGKYEEAIEAYKKALE 177 (304)
T ss_pred HHHHHHHHHHHccCcHHHHHHHHHhhhc
Confidence 3334459999999999999988777764
No 132
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=82.29 E-value=3.7 Score=27.84 Aligned_cols=49 Identities=16% Similarity=0.279 Sum_probs=40.2
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
++.++..+..++..+||+.++++..-+=..+-+|...|.|.-..|..++
T Consensus 8 iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 8 ILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 3444445667999999999999999999999999999999887777654
No 133
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=82.25 E-value=1.7 Score=26.44 Aligned_cols=26 Identities=15% Similarity=0.323 Sum_probs=21.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhc
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSC 94 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~ 94 (358)
.||++|.+.|+|++|.+++++.....
T Consensus 4 ~Lg~~~~~~g~~~~Ai~~y~~aL~l~ 29 (36)
T PF13176_consen 4 NLGRIYRQQGDYEKAIEYYEQALALA 29 (36)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence 59999999999999999999866544
No 134
>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=82.23 E-value=46 Score=32.40 Aligned_cols=92 Identities=9% Similarity=0.154 Sum_probs=53.5
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.-|-+.+..|+++.|.+.+.......+. . .-.++...+.+...||+.++..++.++.+. .+++.+
T Consensus 89 ~~glla~~~g~~~~A~~~l~~~~~~~~~----------~--~~~~llaA~aa~~~g~~~~A~~~l~~a~~~---~p~~~l 153 (409)
T TIGR00540 89 EEALLKLAEGDYAKAEKLIAKNADHAAE----------P--VLNLIKAAEAAQQRGDEARANQHLEEAAEL---AGNDNI 153 (409)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHhhcCCC----------C--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCcCch
Confidence 4566667778888888888665554321 1 122334556677778888888888776432 122221
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
. +....+.+++..++|..|...|-...
T Consensus 154 ~--~~~~~a~l~l~~~~~~~Al~~l~~l~ 180 (409)
T TIGR00540 154 L--VEIARTRILLAQNELHAARHGVDKLL 180 (409)
T ss_pred H--HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 1 12222566666777777666655543
No 135
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=82.10 E-value=6.7 Score=36.50 Aligned_cols=113 Identities=15% Similarity=0.186 Sum_probs=71.6
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhc--CHHHHHHHHHHHHhhhccC-CC
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETK--NNKKLKQLYQKALAIKSAI-PH 145 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~--d~~~a~~~l~~a~~~~~~~-~~ 145 (358)
-...+++..|+++.|.+.+..++..- +| ..++. +.++-+.+..| ++..|--+|+... ... ..
T Consensus 136 l~Vqi~L~~~R~dlA~k~l~~~~~~~------eD----~~l~q--La~awv~l~~g~e~~~~A~y~f~El~---~~~~~t 200 (290)
T PF04733_consen 136 LAVQILLKMNRPDLAEKELKNMQQID------ED----SILTQ--LAEAWVNLATGGEKYQDAFYIFEELS---DKFGST 200 (290)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHCCS------CC----HHHHH--HHHHHHHHHHTTTCCCHHHHHHHHHH---CCS--S
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhcC------Cc----HHHHH--HHHHHHHHHhCchhHHHHHHHHHHHH---hccCCC
Confidence 36678899999999999998887651 22 22333 34444555554 5888887877642 222 12
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCC
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESE 205 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~ 205 (358)
|. +....+..++..|+|.+|...+.+++. .+++..+++-.++.|+.+.+..
T Consensus 201 ~~----~lng~A~~~l~~~~~~eAe~~L~~al~-----~~~~~~d~LaNliv~~~~~gk~ 251 (290)
T PF04733_consen 201 PK----LLNGLAVCHLQLGHYEEAEELLEEALE-----KDPNDPDTLANLIVCSLHLGKP 251 (290)
T ss_dssp HH----HHHHHHHHHHHCT-HHHHHHHHHHHCC-----C-CCHHHHHHHHHHHHHHTT-T
T ss_pred HH----HHHHHHHHHHHhCCHHHHHHHHHHHHH-----hccCCHHHHHHHHHHHHHhCCC
Confidence 33 233447788999999999998888763 2345566777787777765543
No 136
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=82.08 E-value=2.2 Score=29.79 Aligned_cols=34 Identities=12% Similarity=0.167 Sum_probs=30.0
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
..-++-.+||+.+|++.-.+..+|..|-.+|+|.
T Consensus 13 ~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 6678999999999999999999999999999884
No 137
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=81.85 E-value=4.3 Score=26.35 Aligned_cols=43 Identities=19% Similarity=0.283 Sum_probs=33.8
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
|.+.+..+.+ ...++.+|++.+|++...+-..|..|...|.+.
T Consensus 4 R~~Il~~L~~--~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 4 RLRILKLLSE--GPLTVSELAEELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHTT--SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHh--CCCchhhHHHhccccchHHHHHHHHHHHCcCee
Confidence 3444444444 668899999999999999999999999998763
No 138
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=81.77 E-value=34 Score=30.69 Aligned_cols=96 Identities=8% Similarity=0.058 Sum_probs=59.6
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP 144 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~ 144 (358)
.+.-..|-+++..|.|++|...+......-.-. + ..+.+...--+.++.|++.+|+.++.++.......+
T Consensus 104 dVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~----~------~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~ 173 (250)
T COG3063 104 DVLNNYGAFLCAQGRPEEAMQQFERALADPAYG----E------PSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFP 173 (250)
T ss_pred chhhhhhHHHHhCCChHHHHHHHHHHHhCCCCC----C------cchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCC
Confidence 344479999999999999988777665543211 1 111111222234468999999999999987644333
Q ss_pred ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 145 HPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 145 ~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.+. .-....+...|+|-.|.. |++-+
T Consensus 174 ~~~------l~~a~~~~~~~~y~~Ar~-~~~~~ 199 (250)
T COG3063 174 PAL------LELARLHYKAGDYAPARL-YLERY 199 (250)
T ss_pred hHH------HHHHHHHHhcccchHHHH-HHHHH
Confidence 221 112556677899988875 44443
No 139
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=81.69 E-value=6.1 Score=33.46 Aligned_cols=47 Identities=17% Similarity=0.113 Sum_probs=38.6
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
..++.++||+.+++|...+++.+..|-..|.+...=....|..-..+
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~ 70 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKD 70 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCC
Confidence 57999999999999999999999999999999874445555444443
No 140
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=81.47 E-value=13 Score=27.68 Aligned_cols=40 Identities=18% Similarity=0.166 Sum_probs=34.8
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccC
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVN 321 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~ 321 (358)
..++..+||+.++++...+-..|-+|...|.+...-|..+
T Consensus 23 ~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~ 62 (101)
T smart00347 23 GPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPED 62 (101)
T ss_pred CCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCC
Confidence 3689999999999999999999999999999976655433
No 141
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=81.35 E-value=8 Score=31.44 Aligned_cols=47 Identities=13% Similarity=0.033 Sum_probs=37.5
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
..++.++||+.+++|...+++.+.+|...|.+...=....|..-..+
T Consensus 24 ~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~ 70 (135)
T TIGR02010 24 GPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRP 70 (135)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCC
Confidence 36999999999999999999999999999999764344445444333
No 142
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=81.04 E-value=3.3 Score=31.99 Aligned_cols=46 Identities=17% Similarity=0.273 Sum_probs=37.7
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc---eeeec
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID---GHIDQ 319 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~---akID~ 319 (358)
++.++....++++..||+.+|+|+..+-..+.+|...|.+. +.+|+
T Consensus 8 il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~~ 56 (108)
T smart00344 8 ILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVINP 56 (108)
T ss_pred HHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeCH
Confidence 34444445689999999999999999999999999999886 34554
No 143
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=80.79 E-value=5.2 Score=26.68 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=30.4
Q ss_pred HHHHHhc-ccccccchhhHHhHhCCChHHHHHHHHHhhhcC
Q 018294 272 QVLLKLI-KPYTRIRIPFISKELNVPEKDVEQLLVSLILDN 311 (358)
Q Consensus 272 ~~l~~~~-~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g 311 (358)
..++.++ +.-..++.++||+.||+|..-|...|..+-..|
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 3344444 332349999999999999999999999997777
No 144
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=80.69 E-value=21 Score=31.03 Aligned_cols=100 Identities=15% Similarity=0.128 Sum_probs=70.9
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.++||.-..+.|++.||...+++-..-..- +| -.+++-..+..++.+++..|...+++-...+.+.-.|
T Consensus 92 r~rLa~al~elGr~~EA~~hy~qalsG~fA----~d-------~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~p 160 (251)
T COG4700 92 RYRLANALAELGRYHEAVPHYQQALSGIFA----HD-------AAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSP 160 (251)
T ss_pred HHHHHHHHHHhhhhhhhHHHHHHHhccccC----CC-------HHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCC
Confidence 368999999999999999998877665543 23 1233445667788999999999999876655443223
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
.-+ ..-|+.+...|+|.+|...|-.+...|+
T Consensus 161 d~~----Ll~aR~laa~g~~a~Aesafe~a~~~yp 191 (251)
T COG4700 161 DGH----LLFARTLAAQGKYADAESAFEVAISYYP 191 (251)
T ss_pred Cch----HHHHHHHHhcCCchhHHHHHHHHHHhCC
Confidence 222 1236777788999999988888766654
No 145
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=80.54 E-value=6.5 Score=32.85 Aligned_cols=48 Identities=17% Similarity=0.099 Sum_probs=37.8
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
-..++.++||+..++|...+++.+..|...|.|...=-...|..-..+
T Consensus 22 ~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La~~ 69 (153)
T PRK11920 22 GKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLGRP 69 (153)
T ss_pred CCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCeeecCC
Confidence 346899999999999999999999999999999765444444433333
No 146
>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi. It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].
Probab=80.30 E-value=76 Score=32.80 Aligned_cols=140 Identities=13% Similarity=0.156 Sum_probs=88.7
Q ss_pred hhHHHHHHHHHHHHHHHhh-hhh----hHHHhhhhhHHHHh-hhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHH
Q 018294 40 FSLLREFYQTTLKALEEAK-NER----LWFKTNLKLCKIWF-DMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVY 113 (358)
Q Consensus 40 ~~~~~~~~~~~~~~i~~~~-~~r----~~~~~~~~la~~~~-~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~ 113 (358)
.+.--+++.+.+.+++.+- +-+ .-.++.+++|++++ +..+++.|...|..-...|... +-. ..+....
T Consensus 30 l~~Y~kLI~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~-~~~-----d~k~~~~ 103 (608)
T PF10345_consen 30 LKQYYKLIATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERH-RLT-----DLKFRCQ 103 (608)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-chH-----HHHHHHH
Confidence 5556677777777777644 333 33488889999988 6679999999999888887652 222 3345555
Q ss_pred HHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcch
Q 018294 114 AIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQ 186 (358)
Q Consensus 114 ~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~ 186 (358)
...++++...+... |...+++.........+....-.++......++..+|+..|...+-......+..+++
T Consensus 104 ~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~ 175 (608)
T PF10345_consen 104 FLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDP 175 (608)
T ss_pred HHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCH
Confidence 56688888877666 8888888765444432221122233332333333478988888777765544434554
No 147
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=80.15 E-value=5.1 Score=32.87 Aligned_cols=61 Identities=7% Similarity=0.055 Sum_probs=45.5
Q ss_pred HHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 269 VRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
++...+.....|=..++.+.||+.+|+|...+++.+.+|-..|.+..+=-...|+....++
T Consensus 11 l~~~i~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~ 71 (141)
T PRK11014 11 LRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPA 71 (141)
T ss_pred HHHHHHHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCH
Confidence 3333333334455678999999999999999999999999999997766665666554433
No 148
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=79.98 E-value=10 Score=26.28 Aligned_cols=45 Identities=11% Similarity=0.166 Sum_probs=37.4
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
++.++|++.+|++...+...+..|...|.+...-+...+...+++
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 999999999999999999999999999999876665444444443
No 149
>KOG3024 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.69 E-value=51 Score=30.45 Aligned_cols=44 Identities=16% Similarity=0.244 Sum_probs=37.7
Q ss_pred CCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHH
Q 018294 219 NDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYI 262 (358)
Q Consensus 219 ~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~ 262 (358)
..|.+.++.-|+....+.+...|..+.++|.+.+..|+-+...+
T Consensus 230 ~~pllNFl~~Ll~t~~~k~~~~f~~L~~~Y~~slkrd~~~~~~L 273 (312)
T KOG3024|consen 230 EYPLLNFLHFLLETIQRKDLPLFLMLRVKYQPSLKRDQAYNEYL 273 (312)
T ss_pred ccchHHHHHHHHHHHhccccHHHHHHHHHccchhhhhHHHHHHH
Confidence 45789999999999999999999999999999999887654443
No 150
>PRK09954 putative kinase; Provisional
Probab=79.43 E-value=4.4 Score=38.81 Aligned_cols=54 Identities=19% Similarity=0.313 Sum_probs=44.4
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccce---eeeccCCEEEEc
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG---HIDQVNRLLERG 327 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a---kID~~~g~v~~~ 327 (358)
|+.+++-..+++..+||+.||++...|...|.+|..+|.|.+ .+|+..+++.+-
T Consensus 8 il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG 64 (362)
T PRK09954 8 ILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVG 64 (362)
T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEE
Confidence 445555556899999999999999999999999999999964 677777766554
No 151
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=79.42 E-value=28 Score=37.08 Aligned_cols=104 Identities=9% Similarity=-0.057 Sum_probs=68.3
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCC---CCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQRED---GTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~---~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
.|+..+.+.|++++|...+..+....+... +...........+.+...+.++...|++.+|...++++..... .+
T Consensus 315 ~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P--~n 392 (765)
T PRK10049 315 DLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAP--GN 392 (765)
T ss_pred HHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CC
Confidence 355566788899999888888876532100 0000000123456667777888899999999999998765421 12
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+ .+....|.++...+++.+|...+-.+..
T Consensus 393 ~----~l~~~lA~l~~~~g~~~~A~~~l~~al~ 421 (765)
T PRK10049 393 Q----GLRIDYASVLQARGWPRAAENELKKAEV 421 (765)
T ss_pred H----HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence 2 2444457788888999999988877754
No 152
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=79.39 E-value=12 Score=38.97 Aligned_cols=91 Identities=15% Similarity=0.194 Sum_probs=58.5
Q ss_pred hhHHHHhhhchHhH----HHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC
Q 018294 69 KLCKIWFDMGEYGR----MSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP 144 (358)
Q Consensus 69 ~la~~~~~~g~~~~----a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~ 144 (358)
.+|..+...|++++ |...++......++ ....+.....++...|++..|...++.+..... .
T Consensus 251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~------------~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P--~ 316 (656)
T PRK15174 251 SLGLAYYQSGRSREAKLQAAEHWRHALQFNSD------------NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP--D 316 (656)
T ss_pred HHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--C
Confidence 46677777777764 55555555544211 134445556777888899999888888775421 1
Q ss_pred ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 145 HPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 145 ~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
++. .....|.++...|+|.+|...|-.+.
T Consensus 317 ~~~----a~~~La~~l~~~G~~~eA~~~l~~al 345 (656)
T PRK15174 317 LPY----VRAMYARALRQVGQYTAASDEFVQLA 345 (656)
T ss_pred CHH----HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 222 22334778888899999988887754
No 153
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=79.17 E-value=2.8 Score=30.30 Aligned_cols=37 Identities=19% Similarity=0.136 Sum_probs=31.9
Q ss_pred hcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 277 LIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 277 ~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
+...+...+..+||+.+|+|+.-|..++.++...|.+
T Consensus 26 L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 26 LAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 3355688999999999999999999999988877765
No 154
>PRK04841 transcriptional regulator MalT; Provisional
Probab=79.03 E-value=52 Score=35.49 Aligned_cols=107 Identities=14% Similarity=0.042 Sum_probs=70.5
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
...+|.+++..|++++|...+.+....+... |..+ .......+.....++...|++..|...+..+........ +
T Consensus 534 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~-~~~~---~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~-~ 608 (903)
T PRK04841 534 LLQQSEILFAQGFLQAAYETQEKAFQLIEEQ-HLEQ---LPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQ-P 608 (903)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHh-cccc---ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccC-c
Confidence 3568999999999999999998887765432 1111 011122233445677788999999999998876544332 2
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
..........|.++...|++..|...+-++..
T Consensus 609 ~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~ 640 (903)
T PRK04841 609 QQQLQCLAMLAKISLARGDLDNARRYLNRLEN 640 (903)
T ss_pred hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 22222333457788889999999888776643
No 155
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=78.89 E-value=87 Score=32.60 Aligned_cols=104 Identities=13% Similarity=0.150 Sum_probs=65.4
Q ss_pred HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhcc
Q 018294 63 WFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSA 142 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~ 142 (358)
|.|+-+.+|+++++.++.+.|.+.+..=...|+ ..+-+++..+++--..|++.+|+.++++++--+
T Consensus 684 f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP------------~~ipLWllLakleEk~~~~~rAR~ildrarlkN-- 749 (913)
T KOG0495|consen 684 FHKLWLMLGQIEEQMENIEMAREAYLQGTKKCP------------NSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-- 749 (913)
T ss_pred hHHHHHHHhHHHHHHHHHHHHHHHHHhccccCC------------CCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC--
Confidence 446777888888888888888766544444443 234455666777777888999999998886432
Q ss_pred CCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhc
Q 018294 143 IPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAG 184 (358)
Q Consensus 143 ~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~ 184 (358)
|. ...++.-..++-...|+-..|......++..|+..|
T Consensus 750 ---Pk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg 787 (913)
T KOG0495|consen 750 ---PK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSG 787 (913)
T ss_pred ---CC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccc
Confidence 21 112333334444555666667666666665555444
No 156
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=78.87 E-value=6.5 Score=27.28 Aligned_cols=51 Identities=18% Similarity=0.279 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 264 DLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 264 ~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
.+.+.++......-..|=+.+ +...||+.+|+|..-+..-+..|..+|.+.
T Consensus 4 ~i~~~l~~~I~~g~~~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~ 55 (64)
T PF00392_consen 4 QIYDQLRQAILSGRLPPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIE 55 (64)
T ss_dssp HHHHHHHHHHHTTSS-TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHcCCCCCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEE
Confidence 445555555545555677899 999999999999999999999999999874
No 157
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=78.66 E-value=14 Score=40.50 Aligned_cols=23 Identities=17% Similarity=0.193 Sum_probs=11.3
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHh
Q 018294 116 EIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 116 ~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
...++...|++..|...+..+..
T Consensus 615 LA~~l~~lG~~deA~~~l~~AL~ 637 (987)
T PRK09782 615 RATIYRQRHNVPAAVSDLRAALE 637 (987)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHH
Confidence 33444455555555555555443
No 158
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=78.03 E-value=66 Score=30.77 Aligned_cols=238 Identities=14% Similarity=0.175 Sum_probs=123.9
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
.+.||+-++..|++.+|+..+...... | .--...+....-+|+++|.-.-|-.-+.+.... -|
T Consensus 41 hlElGk~lla~~Q~sDALt~yHaAve~--------d----p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel-----Kp 103 (504)
T KOG0624|consen 41 HLELGKELLARGQLSDALTHYHAAVEG--------D----PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL-----KP 103 (504)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHcC--------C----chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc-----Cc
Confidence 467999999999999988765444332 1 112333445667788888654444333333322 24
Q ss_pred hhhH-HHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhhCCCCCCcCCcccccCCCCccHHH
Q 018294 147 RIMG-IIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILA 225 (358)
Q Consensus 147 ~~~~-~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~~p~~~~ 225 (358)
+.++ ++. -|.+++.+|.+..|...|-..+..-++.+.. ..+...+++. +.....
T Consensus 104 DF~~ARiQ--Rg~vllK~Gele~A~~DF~~vl~~~~s~~~~--~eaqskl~~~---------------------~e~~~l 158 (504)
T KOG0624|consen 104 DFMAARIQ--RGVVLLKQGELEQAEADFDQVLQHEPSNGLV--LEAQSKLALI---------------------QEHWVL 158 (504)
T ss_pred cHHHHHHH--hchhhhhcccHHHHHHHHHHHHhcCCCcchh--HHHHHHHHhH---------------------HHHHHH
Confidence 4443 443 3888999999999999988876543222221 1111111111 011122
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHH
Q 018294 226 MTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 226 l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
...+..+|.+||.....+.+... +.-.| |+--.+.+|-.++...-+|-+.|.=-..+..|.-+-.+.-..++
T Consensus 159 ~~ql~s~~~~GD~~~ai~~i~~l---lEi~~-----Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis 230 (504)
T KOG0624|consen 159 VQQLKSASGSGDCQNAIEMITHL---LEIQP-----WDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKIS 230 (504)
T ss_pred HHHHHHHhcCCchhhHHHHHHHH---HhcCc-----chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHH
Confidence 34566778888877766655532 22222 44445667777777777776666544444444444444444444
Q ss_pred Hhhh-cCccceeeeccCCEEEEccCC-ccchHHHHHHHHHHHHHHHHHHHh
Q 018294 306 SLIL-DNRIDGHIDQVNRLLERGDRS-KGMKKYTAIDKWNSQLRSLYQTVS 354 (358)
Q Consensus 306 ~lI~-~g~i~akID~~~g~v~~~~~~-~~~~~~~~l~~w~~~i~~l~~~v~ 354 (358)
++.- -|...-.+..+..|+.+...- .--.-|.++.+....+.++-..|+
T Consensus 231 ~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie 281 (504)
T KOG0624|consen 231 QLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIE 281 (504)
T ss_pred HHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4432 122222233333344433211 111235566555555555555544
No 159
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=77.95 E-value=64 Score=30.56 Aligned_cols=105 Identities=12% Similarity=0.158 Sum_probs=47.4
Q ss_pred hHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHH-----HhhhhhHHHHhhh-------chHhHHHHHHH
Q 018294 21 SEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWF-----KTNLKLCKIWFDM-------GEYGRMSKILK 88 (358)
Q Consensus 21 ~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~-----~~~~~la~~~~~~-------g~~~~a~~~l~ 88 (358)
++++.+.++|-=+-.+ .....+..+|+.++++=+..+..+-.+ .-+..+|++|++- .+.+.|..++.
T Consensus 126 AE~~f~~L~de~efa~-~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~ 204 (389)
T COG2956 126 AEDIFNQLVDEGEFAE-GALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK 204 (389)
T ss_pred HHHHHHHHhcchhhhH-HHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence 5556665555110001 113445666666766655444333222 1123455555433 24455555554
Q ss_pred HHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 89 ELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
.....-. +..-..+ ..-++.+..|++.+|-..+.....
T Consensus 205 kAlqa~~----------~cvRAsi--~lG~v~~~~g~y~~AV~~~e~v~e 242 (389)
T COG2956 205 KALQADK----------KCVRASI--ILGRVELAKGDYQKAVEALERVLE 242 (389)
T ss_pred HHHhhCc----------cceehhh--hhhHHHHhccchHHHHHHHHHHHH
Confidence 4433311 1122222 223555566666666666665544
No 160
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=77.57 E-value=11 Score=34.40 Aligned_cols=92 Identities=18% Similarity=0.227 Sum_probs=51.2
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.++.++.+.|+++++.+++..+....... ...+.. ....|..+|+..+|..+++++.+.. ..||.+
T Consensus 185 ~l~~~li~~~~~~~~~~~l~~~~~~~~~~---------~~~~~~---la~~~~~lg~~~~Al~~~~~~~~~~--p~d~~~ 250 (280)
T PF13429_consen 185 ALAWLLIDMGDYDEAREALKRLLKAAPDD---------PDLWDA---LAAAYLQLGRYEEALEYLEKALKLN--PDDPLW 250 (280)
T ss_dssp HHHHHHCTTCHHHHHHHHHHHHHHH-HTS---------CCHCHH---HHHHHHHHT-HHHHHHHHHHHHHHS--TT-HHH
T ss_pred HHHHHHHHCCChHHHHHHHHHHHHHCcCH---------HHHHHH---HHHHhcccccccccccccccccccc--cccccc
Confidence 57888899999999999999998886321 223332 2567888999999999999987642 225554
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
...+ |.++...|++.+|......++.
T Consensus 251 ~~~~----a~~l~~~g~~~~A~~~~~~~~~ 276 (280)
T PF13429_consen 251 LLAY----ADALEQAGRKDEALRLRRQALR 276 (280)
T ss_dssp HHHH----HHHHT-----------------
T ss_pred cccc----cccccccccccccccccccccc
Confidence 4333 6667778888888887776653
No 161
>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=77.53 E-value=12 Score=29.61 Aligned_cols=60 Identities=12% Similarity=-0.020 Sum_probs=46.4
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
..+|.++...|++++|.+.+......... -.+.+.....++...|++.+|...++.+...
T Consensus 55 ~~la~~~~~~~~~~~A~~~~~~~~~~~p~------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 55 LGLAACCQMLKEYEEAIDAYALAAALDPD------------DPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 46899999999999999999887665321 2334445556788899999999999988765
No 162
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=77.46 E-value=22 Score=36.74 Aligned_cols=113 Identities=21% Similarity=0.220 Sum_probs=77.8
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh-h-------
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI-K------- 140 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~-~------- 140 (358)
-|+++-+..|++-.|..+|+.-+..-++ -..+++..+|+-++.|+...|+..+.+|+.- .
T Consensus 724 lLakleEk~~~~~rAR~ildrarlkNPk------------~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWa 791 (913)
T KOG0495|consen 724 LLAKLEEKDGQLVRARSILDRARLKNPK------------NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWA 791 (913)
T ss_pred HHHHHHHHhcchhhHHHHHHHHHhcCCC------------cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHH
Confidence 5788888888888999988887766321 2467788899999999999999999888651 1
Q ss_pred ccCC---Ch----hhhHHHhh---------hhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHH
Q 018294 141 SAIP---HP----RIMGIIRE---------CGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKY 194 (358)
Q Consensus 141 ~~~~---~~----~~~~~i~~---------~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y 194 (358)
.+|. .| ..+..++. .-|+++..+++|.+|..-|..+....+..|+ .+..++++
T Consensus 792 EaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD-~wa~fykf 860 (913)
T KOG0495|consen 792 EAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGD-AWAWFYKF 860 (913)
T ss_pred HHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccch-HHHHHHHH
Confidence 1111 11 11222332 2367888999999999999888765555555 34445444
No 163
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=77.23 E-value=15 Score=35.30 Aligned_cols=74 Identities=12% Similarity=0.181 Sum_probs=53.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|..+...|++++|...++.....-.. ....+.....++..+|++..|...++++..... .++.
T Consensus 40 ~~~a~~~~~~g~~~eAl~~~~~Al~l~P~------------~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P--~~~~ 105 (356)
T PLN03088 40 ADRAQANIKLGNFTEAVADANKAIELDPS------------LAKAYLRKGTACMKLEEYQTAKAALEKGASLAP--GDSR 105 (356)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCcC------------CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC--CCHH
Confidence 46888999999999999999988776321 233455666788899999999999999887532 2344
Q ss_pred hhHHHhhh
Q 018294 148 IMGIIREC 155 (358)
Q Consensus 148 ~~~~i~~~ 155 (358)
+...+..|
T Consensus 106 ~~~~l~~~ 113 (356)
T PLN03088 106 FTKLIKEC 113 (356)
T ss_pred HHHHHHHH
Confidence 44334333
No 164
>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=77.14 E-value=7.9 Score=22.55 Aligned_cols=29 Identities=21% Similarity=0.358 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 111 EVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 111 e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
+++.....+|..+||+.+|..+++++..+
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 45566677788888888888888887665
No 165
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=77.14 E-value=8.1 Score=38.83 Aligned_cols=95 Identities=16% Similarity=0.198 Sum_probs=64.5
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHhhhccC
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETK-NNKKLKQLYQKALAIKSAI 143 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~-d~~~a~~~l~~a~~~~~~~ 143 (358)
.+..-||=+|+-.|+|+.|.++++.....=+. + ..+|--+-. -++-| ....|-+.|++|+.+..+.
T Consensus 431 dvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pn----d-----~~lWNRLGA----tLAN~~~s~EAIsAY~rALqLqP~y 497 (579)
T KOG1125|consen 431 DVQSGLGVLYNLSGEFDRAVDCFEAALQVKPN----D-----YLLWNRLGA----TLANGNRSEEAISAYNRALQLQPGY 497 (579)
T ss_pred hHHhhhHHHHhcchHHHHHHHHHHHHHhcCCc----h-----HHHHHHhhH----HhcCCcccHHHHHHHHHHHhcCCCe
Confidence 44456888999999999999999877665322 1 222222111 12333 4788888999988764332
Q ss_pred CChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 144 PHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 144 ~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+ +.+.-.|+.|+..|.|++|..+|++++.
T Consensus 498 ----V--R~RyNlgIS~mNlG~ykEA~~hlL~AL~ 526 (579)
T KOG1125|consen 498 ----V--RVRYNLGISCMNLGAYKEAVKHLLEALS 526 (579)
T ss_pred ----e--eeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence 1 2333459999999999999999999863
No 166
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=77.05 E-value=27 Score=39.11 Aligned_cols=82 Identities=13% Similarity=0.257 Sum_probs=56.3
Q ss_pred hHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHH
Q 018294 41 SLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMY 120 (358)
Q Consensus 41 ~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ 120 (358)
+...++++...++.++ .++-.+|+.+|...+++++|.++++.+.+.+.+ ...++..-....
T Consensus 1514 esl~kVFeRAcqycd~-------~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q------------~~~vW~~y~~fL 1574 (1710)
T KOG1070|consen 1514 ESLKKVFERACQYCDA-------YTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQ------------TRKVWIMYADFL 1574 (1710)
T ss_pred HHHHHHHHHHHHhcch-------HHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcc------------hhhHHHHHHHHH
Confidence 3455555555443222 244568999999999999999999999998742 233344444455
Q ss_pred HHhcCHHHHHHHHHHHHhhhc
Q 018294 121 TETKNNKKLKQLYQKALAIKS 141 (358)
Q Consensus 121 ~~~~d~~~a~~~l~~a~~~~~ 141 (358)
+..++-..|+.++..|++...
T Consensus 1575 l~~ne~~aa~~lL~rAL~~lP 1595 (1710)
T KOG1070|consen 1575 LRQNEAEAARELLKRALKSLP 1595 (1710)
T ss_pred hcccHHHHHHHHHHHHHhhcc
Confidence 667777899999999887643
No 167
>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=76.99 E-value=13 Score=25.75 Aligned_cols=59 Identities=15% Similarity=0.237 Sum_probs=44.4
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
..+|.++...|++++|.+.+......... + . ..+.....++...|++.+|...+..+..
T Consensus 38 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-----~----~---~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 38 YNLAAAYYKLGKYEEALEDYEKALELDPD-----N----A---KAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCc-----c----h---hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 46888899999999999999888766421 1 1 4445556778889999999988887654
No 168
>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=76.71 E-value=5.6 Score=23.09 Aligned_cols=28 Identities=11% Similarity=0.240 Sum_probs=23.2
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhc
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSC 94 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~ 94 (358)
...+|.+++..|++++|.+.+++.....
T Consensus 4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 4 WYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 3568999999999999999998887764
No 169
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=76.62 E-value=4.7 Score=33.60 Aligned_cols=45 Identities=11% Similarity=0.144 Sum_probs=37.9
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc---eeeec
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID---GHIDQ 319 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~---akID~ 319 (358)
+..+.--.++++.+||+.+|+|+..|-.-+-+|..+|-|. +.+|.
T Consensus 15 l~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 15 LEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred HHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 3444444899999999999999999999999999999996 45674
No 170
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.39 E-value=41 Score=30.73 Aligned_cols=59 Identities=15% Similarity=0.187 Sum_probs=43.2
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
||+.++..|+|.+|+..+..+.....+.+-..| ..+++. ....++|+...|+.++....
T Consensus 184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApd---allKlg------~~~~~l~~~d~A~atl~qv~ 242 (262)
T COG1729 184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPD---ALLKLG------VSLGRLGNTDEACATLQQVI 242 (262)
T ss_pred HHHHHHhcccchHHHHHHHHHHHhCCCCCCChH---HHHHHH------HHHHHhcCHHHHHHHHHHHH
Confidence 999999999999999999999887665433323 233333 33447899999998888754
No 171
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=76.33 E-value=65 Score=31.02 Aligned_cols=67 Identities=10% Similarity=-0.092 Sum_probs=51.3
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 113 YAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 113 ~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
++...+..+-++-+.++-+++++|.++++.+.||.+.-.+...-|-++..-+||.+|.-.-..+++-
T Consensus 125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~l 191 (518)
T KOG1941|consen 125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAEL 191 (518)
T ss_pred hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHH
Confidence 3345566777889999999999999999998888665455555577888889999998665555543
No 172
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=76.26 E-value=4.6 Score=25.73 Aligned_cols=34 Identities=24% Similarity=0.373 Sum_probs=23.7
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHh
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
|+.....-.+.++..||+.+|+|+..|-.-+.+|
T Consensus 8 Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 8 ILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 3344444489999999999999999887766554
No 173
>PRK12370 invasion protein regulator; Provisional
Probab=76.04 E-value=17 Score=37.02 Aligned_cols=92 Identities=9% Similarity=-0.074 Sum_probs=60.8
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++...|++++|...+......-+.. . . .-. .....+...|++.+|...+.++..... ..+|.
T Consensus 376 ~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~----~----~--~~~--~~~~~~~~~g~~eeA~~~~~~~l~~~~-p~~~~ 442 (553)
T PRK12370 376 YYYGWNLFMAGQLEEALQTINECLKLDPTR----A----A--AGI--TKLWITYYHTGIDDAIRLGDELRSQHL-QDNPI 442 (553)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHhcCCCC----h----h--hHH--HHHHHHHhccCHHHHHHHHHHHHHhcc-ccCHH
Confidence 468889999999999999999988774321 0 1 111 112234557899999988887654321 11222
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
.....|.++...|++.+|...|-..
T Consensus 443 ----~~~~la~~l~~~G~~~eA~~~~~~~ 467 (553)
T PRK12370 443 ----LLSMQVMFLSLKGKHELARKLTKEI 467 (553)
T ss_pred ----HHHHHHHHHHhCCCHHHHHHHHHHh
Confidence 2233477778899999999887664
No 174
>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=76.00 E-value=22 Score=34.70 Aligned_cols=92 Identities=11% Similarity=0.121 Sum_probs=64.2
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
+-.|.+....|+++.|.+.+.+.....+++ . +.+.....++++..|++..|...++...+.. ..+|.
T Consensus 122 llaA~aa~~~g~~~~A~~~l~~a~~~~p~~---------~--l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~ 188 (409)
T TIGR00540 122 IKAAEAAQQRGDEARANQHLEEAAELAGND---------N--ILVEIARTRILLAQNELHAARHGVDKLLEMA--PRHKE 188 (409)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCcC---------c--hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHH
Confidence 356888889999999999999987654321 1 2223344778888999999998888765542 11332
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
.....|.+++..++|..|...+-..
T Consensus 189 ----~l~ll~~~~~~~~d~~~a~~~l~~l 213 (409)
T TIGR00540 189 ----VLKLAEEAYIRSGAWQALDDIIDNM 213 (409)
T ss_pred ----HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 3344588889999998888765544
No 175
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=75.67 E-value=4.4 Score=25.91 Aligned_cols=32 Identities=19% Similarity=0.180 Sum_probs=29.6
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
.++..+||+.+|++...+-..+.+|...|.+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999885
No 176
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=75.56 E-value=23 Score=27.71 Aligned_cols=48 Identities=6% Similarity=0.077 Sum_probs=40.4
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC---EEEEcc
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR---LLERGD 328 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g---~v~~~~ 328 (358)
...++..+||+.+|++..-+-..+-+|...|.|...-|..++ .|..++
T Consensus 40 ~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~ 90 (118)
T TIGR02337 40 QGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTP 90 (118)
T ss_pred cCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECH
Confidence 456899999999999999999999999999999988876665 444443
No 177
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=75.43 E-value=1e+02 Score=31.71 Aligned_cols=30 Identities=20% Similarity=0.547 Sum_probs=25.9
Q ss_pred HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhc
Q 018294 63 WFKTNLKLCKIWFDMGEYGRMSKILKELHKSC 94 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~ 94 (358)
||... +|+.|++.++|++|.++++.++..-
T Consensus 354 wvl~q--~GrayFEl~~Y~~a~~~F~~~r~~~ 383 (638)
T KOG1126|consen 354 WVLSQ--LGRAYFELIEYDQAERIFSLVRRIE 383 (638)
T ss_pred HHHHH--HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 65554 9999999999999999999999864
No 178
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=75.30 E-value=8.4 Score=25.86 Aligned_cols=44 Identities=9% Similarity=0.069 Sum_probs=35.6
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEE
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLL 324 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v 324 (358)
-..+++.+|++.+|++...+-..+.+|...|.+...-+...+..
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~ 51 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYY 51 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEE
Confidence 45689999999999999999999999999999975544333333
No 179
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=75.23 E-value=9.7 Score=34.23 Aligned_cols=60 Identities=13% Similarity=0.252 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhc---cccc-----------------ccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 257 FIRNYIEDLLKNVRTQVLLKLI---KPYT-----------------RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 257 ~l~~~~~~L~~~i~~~~l~~~~---~~y~-----------------~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
.+....+.+-+..|.++..+++ -+|| +++-..||+.+|+|..-+-.-+.+|-..|.|.++
T Consensus 152 ilr~~~~~iEee~Rkka~Vq~Ai~tLSySEleAv~~IL~~L~~~egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 152 LLRAQAEEIEEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHHHhccccccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 3444556666777777776664 2354 8999999999999999999999999999998774
No 180
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=74.96 E-value=6.2 Score=33.29 Aligned_cols=48 Identities=15% Similarity=0.124 Sum_probs=40.9
Q ss_pred HHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc---eeeec
Q 018294 272 QVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID---GHIDQ 319 (358)
Q Consensus 272 ~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~---akID~ 319 (358)
+.|+..++.-.++++.+||+.+|+|+.-|-.-+-+|..+|.|. +.+|.
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~p 67 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLNP 67 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEECH
Confidence 3445667777899999999999999999999999999999996 45664
No 181
>PRK14574 hmsH outer membrane protein; Provisional
Probab=74.95 E-value=30 Score=37.19 Aligned_cols=98 Identities=14% Similarity=0.169 Sum_probs=71.3
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
..-+|..+.-.|++.+|.+.++++....+. -.++.+....++...|...+|+..++.+... +|
T Consensus 419 ~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~------------n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l-----~P 481 (822)
T PRK14574 419 QTLLVQSLVALNDLPTAQKKLEDLSSTAPA------------NQNLRIALASIYLARDLPRKAEQELKAVESL-----AP 481 (822)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-----CC
Confidence 345788888999999999999999777542 2455567788899999999999999877654 33
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
+- .......|..++..++|.+|....-...+.+++
T Consensus 482 ~~-~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe 516 (822)
T PRK14574 482 RS-LILERAQAETAMALQEWHQMELLTDDVISRSPE 516 (822)
T ss_pred cc-HHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCC
Confidence 31 123334577888899999998766555544443
No 182
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=74.75 E-value=19 Score=26.40 Aligned_cols=49 Identities=14% Similarity=0.203 Sum_probs=38.0
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
|+.+...-..++|++|.+.+|++...+-..+..|...|.|..+-....+
T Consensus 5 Il~~L~~~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~ 53 (80)
T PF13601_consen 5 ILALLYANEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGR 53 (80)
T ss_dssp HHHHHHHHSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS
T ss_pred HHHHHhhcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCC
Confidence 3444444578999999999999999999999999999999876665554
No 183
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.66 E-value=71 Score=29.44 Aligned_cols=100 Identities=14% Similarity=0.160 Sum_probs=69.5
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~ 146 (358)
-.-++.++.-.|+|.-..+.+.++.+.-. .+.--+.....++....||..-|+.+.+...+.++....
T Consensus 180 my~~~~~llG~kEy~iS~d~~~~vi~~~~-----------e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~- 247 (366)
T KOG2796|consen 180 MYSMANCLLGMKEYVLSVDAYHSVIKYYP-----------EQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDG- 247 (366)
T ss_pred HHHHHHHHhcchhhhhhHHHHHHHHHhCC-----------cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhc-
Confidence 34678888888999999999999988521 112223344567788899999999999977665544322
Q ss_pred hhhHHH--hhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 147 RIMGII--RECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 147 ~~~~~i--~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
+++.+ ...++.+|+...||.+|...|-++..+
T Consensus 248 -~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~ 281 (366)
T KOG2796|consen 248 -LQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRM 281 (366)
T ss_pred -cchhHHHHhhhhhheecccchHHHHHHHhhcccc
Confidence 12222 234467888899999999988777643
No 184
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=74.19 E-value=5.6 Score=23.78 Aligned_cols=30 Identities=20% Similarity=0.207 Sum_probs=24.6
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
++=.+||..+|++.+-|-..+.++-.+|.|
T Consensus 3 mtr~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 3 MTRQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp --HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred cCHHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 566899999999999999999999888865
No 185
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=74.16 E-value=7.5 Score=25.74 Aligned_cols=33 Identities=21% Similarity=0.481 Sum_probs=28.9
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
..+++.+||+.+|+|..-+-.++..|...|-+.
T Consensus 17 ~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 17 GPLTLSEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp SCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 458999999999999999999999999988763
No 186
>PRK04841 transcriptional regulator MalT; Provisional
Probab=74.12 E-value=65 Score=34.75 Aligned_cols=106 Identities=8% Similarity=0.006 Sum_probs=70.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCCh-
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHP- 146 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~- 146 (358)
..+|..+...|++++|...+.+........ |. .......+.....++...|++..|...+..+.........+
T Consensus 495 ~~lg~~~~~~G~~~~A~~~~~~al~~~~~~-g~-----~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~ 568 (903)
T PRK04841 495 SVLGEVHHCKGELARALAMMQQTEQMARQH-DV-----YHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQ 568 (903)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHhhh-cc-----hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccc
Confidence 357777888899999998888877664421 11 12223344555677888999999999999987765433211
Q ss_pred -hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 147 -RIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 147 -~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
..........|.++...|++.+|...+.++...
T Consensus 569 ~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~ 602 (903)
T PRK04841 569 LPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEV 602 (903)
T ss_pred ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh
Confidence 111222334577788889999998888776543
No 187
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.08 E-value=71 Score=29.19 Aligned_cols=61 Identities=20% Similarity=0.288 Sum_probs=33.3
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHH-hcCHHHHHHHHHHHHhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTE-TKNNKKLKQLYQKALAI 139 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~-~~d~~~a~~~l~~a~~~ 139 (358)
.||++|+..|+|++|+=+++++.-..+. .....--+.+.+++.. ..|+.-++.+|.++.++
T Consensus 159 eLaeiY~~~~~f~kA~fClEE~ll~~P~----------n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl 220 (289)
T KOG3060|consen 159 ELAEIYLSEGDFEKAAFCLEELLLIQPF----------NPLYFQRLAEVLYTQGGAENLELARKYYERALKL 220 (289)
T ss_pred HHHHHHHhHhHHHHHHHHHHHHHHcCCC----------cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence 5677777777777777777766544321 1122222233333332 23666667777766654
No 188
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=74.01 E-value=37 Score=36.53 Aligned_cols=97 Identities=19% Similarity=0.283 Sum_probs=69.2
Q ss_pred HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhcc
Q 018294 63 WFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSA 142 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~ 142 (358)
-+.+.+.+|.++++.+++..|.+.+..+..+.++ .++.++..-.+....+++..|...++.+..+.+.
T Consensus 495 ~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~------------YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~ 562 (1018)
T KOG2002|consen 495 NLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG------------YIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS 562 (1018)
T ss_pred hhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch------------hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC
Confidence 3445678999999999999999999999988642 3444444333333467899999999988876654
Q ss_pred CCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 143 IPHPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 143 ~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.+ . .+.+.|-.|+...+|.-|-..|--++
T Consensus 563 np--~----arsl~G~~~l~k~~~~~a~k~f~~i~ 591 (1018)
T KOG2002|consen 563 NP--N----ARSLLGNLHLKKSEWKPAKKKFETIL 591 (1018)
T ss_pred Cc--H----HHHHHHHHHHhhhhhcccccHHHHHH
Confidence 33 2 33444777888888888887666554
No 189
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=73.89 E-value=8.4 Score=26.60 Aligned_cols=38 Identities=21% Similarity=0.244 Sum_probs=32.2
Q ss_pred hcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 277 LIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 277 ~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
+.+.-..++..+||+.||+++.-|-..+-+|-..|.+.
T Consensus 16 l~~~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 16 LSEEGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp HHHCTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHcCCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 33455789999999999999999999999999999874
No 190
>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=73.77 E-value=6 Score=22.95 Aligned_cols=24 Identities=17% Similarity=0.171 Sum_probs=13.6
Q ss_pred hhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 155 CGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 155 ~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
..|.+++..++|.+|..+|-++..
T Consensus 6 ~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 6 YLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHH
Confidence 345566666666666666665543
No 191
>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=73.60 E-value=47 Score=33.19 Aligned_cols=103 Identities=20% Similarity=0.276 Sum_probs=67.9
Q ss_pred chHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhH-HHhhhh
Q 018294 78 GEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMG-IIRECG 156 (358)
Q Consensus 78 g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~-~i~~~~ 156 (358)
++.+.|.++|...+..-++ +.++ +....|++...||+.+|-..++.+....+. -+.++. .+++.
T Consensus 247 ~~~~~a~~lL~~~~~~yP~----------s~lf--l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~--~~Ql~~l~~~El- 311 (468)
T PF10300_consen 247 VPLEEAEELLEEMLKRYPN----------SALF--LFFEGRLERLKGNLEEAIESFERAIESQSE--WKQLHHLCYFEL- 311 (468)
T ss_pred CCHHHHHHHHHHHHHhCCC----------cHHH--HHHHHHHHHHhcCHHHHHHHHHHhccchhh--HHhHHHHHHHHH-
Confidence 3567888999998887643 2233 346779999999999999999976532211 133333 33333
Q ss_pred hhhHhhhhcHHHHHHHHHHHhhhhhhhcchhH-HHHHHHHHHHHHh
Q 018294 157 GKMHMAERQWADAATDFFEAFKNYDEAGNQRR-IQCLKYLVLANML 201 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~-~~~l~y~~l~~lL 201 (358)
|..++...+|.+|+.+|....+ ..+| ..++.|+.-|+++
T Consensus 312 ~w~~~~~~~w~~A~~~f~~L~~------~s~WSka~Y~Y~~a~c~~ 351 (468)
T PF10300_consen 312 AWCHMFQHDWEEAAEYFLRLLK------ESKWSKAFYAYLAAACLL 351 (468)
T ss_pred HHHHHHHchHHHHHHHHHHHHh------ccccHHHHHHHHHHHHHH
Confidence 6678889999999998887643 1233 4566675444443
No 192
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=73.24 E-value=29 Score=33.66 Aligned_cols=90 Identities=17% Similarity=0.286 Sum_probs=58.1
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC-C
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP-H 145 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~-~ 145 (358)
...+|..+...|+.++|.+.+.+....-. + ..++.++ ..+..++..++...+++-.+. -+ +
T Consensus 266 ~~~~A~~l~~~g~~~~A~~~L~~~l~~~~------~----~~l~~l~-----~~l~~~~~~~al~~~e~~lk~---~P~~ 327 (398)
T PRK10747 266 QVAMAEHLIECDDHDTAQQIILDGLKRQY------D----ERLVLLI-----PRLKTNNPEQLEKVLRQQIKQ---HGDT 327 (398)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHhcCC------C----HHHHHHH-----hhccCCChHHHHHHHHHHHhh---CCCC
Confidence 34689999999999999999988876321 1 1122221 122447777766665544322 22 2
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
|. +..+.|.+++..++|.+|..+|-.+..
T Consensus 328 ~~----l~l~lgrl~~~~~~~~~A~~~le~al~ 356 (398)
T PRK10747 328 PL----LWSTLGQLLMKHGEWQEASLAFRAALK 356 (398)
T ss_pred HH----HHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 32 445568888889999999988877654
No 193
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=73.19 E-value=11 Score=31.45 Aligned_cols=54 Identities=13% Similarity=0.044 Sum_probs=40.9
Q ss_pred HHHHHhcc--cccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEE
Q 018294 272 QVLLKLIK--PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLE 325 (358)
Q Consensus 272 ~~l~~~~~--~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~ 325 (358)
|++..++. ...-++.+.||+..|+|+..+++++.+|-..|.+...=-...|..-
T Consensus 12 ~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~L 67 (150)
T COG1959 12 RALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRL 67 (150)
T ss_pred HHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccC
Confidence 44445553 3347899999999999999999999999999999765444444433
No 194
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=72.93 E-value=44 Score=35.22 Aligned_cols=28 Identities=4% Similarity=0.042 Sum_probs=23.1
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcc
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~ 95 (358)
+.||.+....|.+++|..++..+....+
T Consensus 90 ~~La~i~~~~g~~~ea~~~l~~~~~~~P 117 (694)
T PRK15179 90 VLVARALEAAHRSDEGLAVWRGIHQRFP 117 (694)
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence 4788888888889999888888888764
No 195
>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=72.77 E-value=59 Score=27.72 Aligned_cols=92 Identities=13% Similarity=0.060 Sum_probs=59.0
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcch
Q 018294 107 SQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQ 186 (358)
Q Consensus 107 ~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~ 186 (358)
...-..+.....+|...||+..|...|.+++.... .+.....+...-.++.+..+||..+..+.-.+-......++.
T Consensus 33 esir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~---~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~ 109 (177)
T PF10602_consen 33 ESIRMALEDLADHYCKIGDLEEALKAYSRARDYCT---SPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDW 109 (177)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcC---CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchH
Confidence 44566667778889999999999999998765322 222222233344567788999999888777765555554554
Q ss_pred hHHH-HHHHHHHHHHh
Q 018294 187 RRIQ-CLKYLVLANML 201 (358)
Q Consensus 187 ~~~~-~l~y~~l~~lL 201 (358)
.+.. +-.|-.|+.|.
T Consensus 110 ~~~nrlk~~~gL~~l~ 125 (177)
T PF10602_consen 110 ERRNRLKVYEGLANLA 125 (177)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3322 22356666664
No 196
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.76 E-value=77 Score=29.00 Aligned_cols=104 Identities=9% Similarity=0.093 Sum_probs=70.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh-hccCCCh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI-KSAIPHP 146 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~-~~~~~~~ 146 (358)
++.|-=++..|+|.+|...+......-+++. ..--..+|+.+ .++.+||+..|..++..+.+- ..+-.-|
T Consensus 145 Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~-------~~~nA~yWLGe--~~y~qg~y~~Aa~~f~~~~k~~P~s~KAp 215 (262)
T COG1729 145 YNAALDLYKSGDYAEAEQAFQAFIKKYPNST-------YTPNAYYWLGE--SLYAQGDYEDAAYIFARVVKDYPKSPKAP 215 (262)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCc-------ccchhHHHHHH--HHHhcccchHHHHHHHHHHHhCCCCCCCh
Confidence 5666667888999999988888877765432 12345566665 455899999998888876442 2111124
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhc
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAG 184 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~ 184 (358)
+-+-++ |......++-.+||..|-+....|+...
T Consensus 216 dallKl----g~~~~~l~~~d~A~atl~qv~k~YP~t~ 249 (262)
T COG1729 216 DALLKL----GVSLGRLGNTDEACATLQQVIKRYPGTD 249 (262)
T ss_pred HHHHHH----HHHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence 444344 5555667889999999999888886543
No 197
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=72.70 E-value=6.4 Score=32.45 Aligned_cols=45 Identities=18% Similarity=0.258 Sum_probs=37.8
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc---eeeec
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID---GHIDQ 319 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~---akID~ 319 (358)
+.+++--.++++..||+.+|+|+..+-.-+-+|..+|.|. +.+|.
T Consensus 14 L~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 14 LRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred HHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 3444444569999999999999999999999999999986 46775
No 198
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=72.64 E-value=7.1 Score=24.69 Aligned_cols=28 Identities=14% Similarity=0.266 Sum_probs=25.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcc
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~ 95 (358)
..+|..|.+.|++++|.++++++....+
T Consensus 5 ~~la~~~~~~G~~~~A~~~~~~~l~~~P 32 (44)
T PF13428_consen 5 LALARAYRRLGQPDEAERLLRRALALDP 32 (44)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 5699999999999999999999999864
No 199
>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=72.37 E-value=7.2 Score=22.73 Aligned_cols=27 Identities=19% Similarity=0.338 Sum_probs=23.4
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
-..+|.++.+.|++++|.+.+++....
T Consensus 4 ~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 4 YYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 356899999999999999999887765
No 200
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.35 E-value=1.1e+02 Score=30.64 Aligned_cols=101 Identities=15% Similarity=0.149 Sum_probs=67.9
Q ss_pred chHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHH--hcCHHHHHHHHHHHHhhhccCCChhhh----HH
Q 018294 78 GEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTE--TKNNKKLKQLYQKALAIKSAIPHPRIM----GI 151 (358)
Q Consensus 78 g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~--~~d~~~a~~~l~~a~~~~~~~~~~~~~----~~ 151 (358)
|-|++|.++-+++...+.+....+-.++.-..+.+.+++..++.+ .||+.+|..-+...+.+-+..+-|.+. +.
T Consensus 289 gy~~~~~K~tDe~i~q~eklkq~d~~srilsm~km~~LE~iv~c~lv~~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ 368 (629)
T KOG2300|consen 289 GYFKKAQKYTDEAIKQTEKLKQADLMSRILSMFKMILLEHIVMCRLVRGDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQ 368 (629)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhCCchHHHHHhHHH
Confidence 344555554444444433322111123345567788888888766 589999988888888877766655442 34
Q ss_pred HhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 152 IRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 152 i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+...-|.+++.-+.|.+|...|.++.+
T Consensus 369 ih~LlGlys~sv~~~enAe~hf~~a~k 395 (629)
T KOG2300|consen 369 IHMLLGLYSHSVNCYENAEFHFIEATK 395 (629)
T ss_pred HHHHHhhHhhhcchHHHHHHHHHHHHH
Confidence 556679999999999999999999864
No 201
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=72.03 E-value=99 Score=29.93 Aligned_cols=92 Identities=13% Similarity=0.205 Sum_probs=61.0
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP 144 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~ 144 (358)
.+...+|.-+.++|+.++|.+++.+..+...+ + . +... --++.-+|..+.....++..+.- ..
T Consensus 264 ~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D-----~----~-L~~~-----~~~l~~~d~~~l~k~~e~~l~~h--~~ 326 (400)
T COG3071 264 ELVVAYAERLIRLGDHDEAQEIIEDALKRQWD-----P----R-LCRL-----IPRLRPGDPEPLIKAAEKWLKQH--PE 326 (400)
T ss_pred hHHHHHHHHHHHcCChHHHHHHHHHHHHhccC-----h----h-HHHH-----HhhcCCCCchHHHHHHHHHHHhC--CC
Confidence 33446888899999999999999988887542 2 1 1111 11235567776666666554421 12
Q ss_pred ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 145 HPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 145 ~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
+| .+..+-|.+++.++.|.+|..+|-.+.
T Consensus 327 ~p----~L~~tLG~L~~k~~~w~kA~~~leaAl 355 (400)
T COG3071 327 DP----LLLSTLGRLALKNKLWGKASEALEAAL 355 (400)
T ss_pred Ch----hHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 34 355566889999999999999997754
No 202
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=72.02 E-value=75 Score=28.55 Aligned_cols=146 Identities=15% Similarity=0.151 Sum_probs=88.0
Q ss_pred HHhhhhhhhHhhhhcHHHHHHHHHHHhhh---hhh-hcchhHHHHHHHHHHHHHhhCCCCCCcCCc-c---cccCCCCcc
Q 018294 151 IIRECGGKMHMAERQWADAATDFFEAFKN---YDE-AGNQRRIQCLKYLVLANMLMESEVNPFDGQ-E---AKPYKNDPE 222 (358)
Q Consensus 151 ~i~~~~g~~~~~~~~y~~A~~~f~e~~~~---~~~-~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~-~---~~~~~~~p~ 222 (358)
.+.+.+........||..=.++|.+.-.- ++. .+......-+-.+=|--+|+.+.+.-|... + .+....+|-
T Consensus 57 ~ilEi~vl~SI~t~D~~sFerY~~Qlk~YY~d~~~~l~~S~~~~~l~GLnLL~LLsqNRiaeFHteLe~lp~~~l~~~~~ 136 (260)
T KOG3151|consen 57 DILEIGVLLSILTKDFESFERYMNQLKPYYFDYNEKLSESEKKHKLLGLNLLYLLSQNRIAEFHTELELLPKKILQHNPY 136 (260)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHhcchhcccccccCcchhhhHHHHHHHHHHHHhccHHHHHHHHHhccHHHhhccch
Confidence 34466666777777776555555553211 122 233344444444444555665544222211 1 011122477
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHH
Q 018294 223 ILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVE 301 (358)
Q Consensus 223 ~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE 301 (358)
+.+...|-+.+-.|.|.+........ .++...-..+-|...||.-.=.-+=+.|..|+++..+++|.++.++-.
T Consensus 137 I~~~v~LEq~~MEGaYnKv~~a~~s~-----p~~~y~~FmdIl~~tiRdEIA~c~EKsYd~l~~s~a~~~L~f~~~~e~ 210 (260)
T KOG3151|consen 137 ISHPVSLEQSLMEGAYNKVLSAKQSI-----PSEEYTYFMDILLDTIRDEIAGCIEKSYDKLSASDATQMLLFNNDKEL 210 (260)
T ss_pred hhhHHHHHHHHHhhHHHHHHHHHhcC-----CcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHhcCChHHH
Confidence 77788888888899888776655432 366777777888888886543444478999999999999999754433
No 203
>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=71.68 E-value=10 Score=26.00 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=36.4
Q ss_pred HHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 121 TETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 121 ~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+..|++..|...++++...... ++. +....|.+++..|+|.+|...+-....
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~--~~~----~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD--NPE----ARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT--SHH----HHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred hhccCHHHHHHHHHHHHHHCCC--CHH----HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4678999999999988654211 222 333458888999999999987766544
No 204
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=71.30 E-value=21 Score=22.58 Aligned_cols=37 Identities=16% Similarity=0.165 Sum_probs=27.3
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
+++.++|+.+|++..-+.. ++.+|.+.+... .+...+
T Consensus 2 lt~~e~a~~lgis~~ti~~----~~~~g~i~~~~~--g~~~~~ 38 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVYR----LIHEGELPAYRV--GRHYRI 38 (49)
T ss_pred CCHHHHHHHHCCCHHHHHH----HHHcCCCCeEEe--CCeEEE
Confidence 5789999999999887775 567899887543 344444
No 205
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=71.19 E-value=6 Score=27.33 Aligned_cols=34 Identities=18% Similarity=0.138 Sum_probs=30.9
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
..++..+||+.+|++..-+...+.+|...|.|..
T Consensus 24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 24 LPLTRQEIADYLGLTRETVSRTLKELEEEGLISR 57 (67)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 3589999999999999999999999999988853
No 206
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=71.14 E-value=16 Score=29.88 Aligned_cols=62 Identities=11% Similarity=0.085 Sum_probs=48.0
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
...+|..+...|++++|...+......-++ -.+.+......+...|++..|...+..+....
T Consensus 61 ~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~------------~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~ 122 (144)
T PRK15359 61 HIALAGTWMMLKEYTTAINFYGHALMLDAS------------HPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS 122 (144)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHhcCCC------------CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 357999999999999999999999876432 12333444456778999999999999987754
No 207
>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=70.84 E-value=50 Score=29.78 Aligned_cols=78 Identities=17% Similarity=0.242 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhc
Q 018294 45 EFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETK 124 (358)
Q Consensus 45 ~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~ 124 (358)
.+++...+..+.....|+.-.+...+|+-|+..|+|++|.++++.+..... . +.+.....++.....+.+...|
T Consensus 159 ~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr-~-----egW~~l~~~~l~~l~~Ca~~~~ 232 (247)
T PF11817_consen 159 ELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYR-R-----EGWWSLLTEVLWRLLECAKRLG 232 (247)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH-h-----CCcHHHHHHHHHHHHHHHHHhC
Confidence 333333333333444566667778999999999999999999999944332 1 1233444555444445566677
Q ss_pred CHHH
Q 018294 125 NNKK 128 (358)
Q Consensus 125 d~~~ 128 (358)
|...
T Consensus 233 ~~~~ 236 (247)
T PF11817_consen 233 DVED 236 (247)
T ss_pred CHHH
Confidence 7654
No 208
>PF12728 HTH_17: Helix-turn-helix domain
Probab=70.62 E-value=20 Score=23.41 Aligned_cols=37 Identities=14% Similarity=0.186 Sum_probs=27.3
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
++.+++|+.||++..-+. +++..|.|.+. ...+...+
T Consensus 2 lt~~e~a~~l~is~~tv~----~~~~~g~i~~~--~~g~~~~~ 38 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVY----RWIRQGKIPPF--KIGRKWRI 38 (51)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHcCCCCeE--EeCCEEEE
Confidence 478899999999988877 55678888776 24444444
No 209
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=70.34 E-value=11 Score=25.91 Aligned_cols=37 Identities=16% Similarity=0.174 Sum_probs=32.3
Q ss_pred ccccccchhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 279 KPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
......++.+||+.+|++...+-..|..|...|.|..
T Consensus 20 ~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 20 ASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred hcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 4467899999999999999999999999999998864
No 210
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=70.27 E-value=18 Score=24.93 Aligned_cols=43 Identities=9% Similarity=0.164 Sum_probs=32.7
Q ss_pred ccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccC
Q 018294 279 KPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVN 321 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~ 321 (358)
.....++..+||+.++++...+-..|-+|+..|.|.=.-|..+
T Consensus 14 ~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d 56 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHD 56 (68)
T ss_dssp --TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSC
T ss_pred ccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCc
Confidence 3678899999999999999999999999999999954444433
No 211
>PRK14574 hmsH outer membrane protein; Provisional
Probab=69.81 E-value=73 Score=34.31 Aligned_cols=102 Identities=6% Similarity=0.007 Sum_probs=70.5
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhccc---CCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQR---EDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~---~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
+|.--+++.|+|++|..+++.+....+- ..|...+.....-.+.....+.++...||+.+|...+++..... ..+
T Consensus 372 ~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a--P~n 449 (822)
T PRK14574 372 DLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA--PAN 449 (822)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCC
Confidence 4555677899999999999999885431 01111111234456787888888889999999999999875432 234
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+.++ ...|.++...+++..|...+-.+
T Consensus 450 ~~l~----~~~A~v~~~Rg~p~~A~~~~k~a 476 (822)
T PRK14574 450 QNLR----IALASIYLARDLPRKAEQELKAV 476 (822)
T ss_pred HHHH----HHHHHHHHhcCCHHHHHHHHHHH
Confidence 4433 34477788899999999877443
No 212
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.23 E-value=89 Score=28.28 Aligned_cols=51 Identities=16% Similarity=0.341 Sum_probs=36.4
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhH-----HHHHHHHHHHHHHHHHHHhcc
Q 018294 226 MTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFI-----RNYIEDLLKNVRTQVLLKLIK 279 (358)
Q Consensus 226 l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l-----~~~~~~L~~~i~~~~l~~~~~ 279 (358)
++..+-.+-..|...-...|++|+.. ||-+ .+.+..|.+.+-+.++-.+.+
T Consensus 199 lkAgLChl~~~D~v~a~~ALeky~~~---dP~F~dsREckflk~L~~aieE~d~e~fte 254 (288)
T KOG1586|consen 199 LKAGLCHLCKADEVNAQRALEKYQEL---DPAFTDSRECKFLKDLLDAIEEQDIEKFTE 254 (288)
T ss_pred HHHHHHhHhcccHHHHHHHHHHHHhc---CCcccccHHHHHHHHHHHHHhhhhHHHHHH
Confidence 55666667778888888888888653 4544 356678888888888776663
No 213
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=69.04 E-value=1.3e+02 Score=31.66 Aligned_cols=56 Identities=13% Similarity=0.049 Sum_probs=35.7
Q ss_pred HHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 117 IQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 117 ~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+.++..+|||.+.-++++.... .. +...+..-..-.|..+.....|.+|+++|...
T Consensus 767 ielr~klgDwfrV~qL~r~g~~---d~-dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~ 822 (1189)
T KOG2041|consen 767 IELRKKLGDWFRVYQLIRNGGS---DD-DDEGKEDAFRNIGETFAEMMEWEEAAKYYSYC 822 (1189)
T ss_pred HHHHHhhhhHHHHHHHHHccCC---Cc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4456688999998888774321 11 22222223334577888889999999887653
No 214
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.52 E-value=24 Score=30.37 Aligned_cols=93 Identities=14% Similarity=0.108 Sum_probs=69.1
Q ss_pred cHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCC-ChHHH
Q 018294 222 EILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNV-PEKDV 300 (358)
Q Consensus 222 ~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l-~~~~v 300 (358)
.+..+..|..-..++++..|=...+.+. .+-+++.-+.+.||.-+-..+.-.|..|.=.-+|+++|- +..++
T Consensus 97 ~~r~ii~L~~~LEt~~Fq~FW~~~~~N~-------~mle~itGFedsvr~yachvv~iTyQkI~k~lLaellG~~sDs~l 169 (217)
T KOG3252|consen 97 PFRSIIDLGDYLETCRFQQFWQEADENR-------DMLEGITGFEDSVRKYACHVVGITYQKIDKWLLAELLGGLSDSQL 169 (217)
T ss_pred chhHHHhHHHHHhhchHHHHhhhhccch-------HHhcCCCcHHHHHHHHHHHheechHhhchHHHHHHhhCcccHHHH
Confidence 3445667777788999998876655543 344556677788876665666678999999999999985 56689
Q ss_pred HHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 301 EQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 301 E~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
|.|+.+ .|-+.+.+|.|.+..
T Consensus 170 e~~~~~-------~GW~a~e~G~ifv~~ 190 (217)
T KOG3252|consen 170 EVWMTK-------YGWIADESGQIFVAS 190 (217)
T ss_pred HHHHHH-------ccceecCCceEEEec
Confidence 998887 688888899666643
No 215
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=68.29 E-value=1.2e+02 Score=29.34 Aligned_cols=144 Identities=10% Similarity=0.101 Sum_probs=91.8
Q ss_pred hhHHHHHHHHHHHHHHHh------hhhh-hHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHH
Q 018294 40 FSLLREFYQTTLKALEEA------KNER-LWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEV 112 (358)
Q Consensus 40 ~~~~~~~~~~~~~~i~~~------~~~r-~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~ 112 (358)
++.-...++..++.++.+ +.++ +.+.+...|+.++-...|+++|+-+.......... .+.+|-. ..+ -..
T Consensus 131 Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s-~~l~d~~-~ky-r~~ 207 (518)
T KOG1941|consen 131 AHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNS-YGLKDWS-LKY-RAM 207 (518)
T ss_pred HhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHh-cCcCchh-HHH-HHH
Confidence 444556667777766531 1222 44577778999999999999988766655544422 2323311 111 111
Q ss_pred HHHHHHH-HHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcch
Q 018294 113 YAIEIQM-YTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQ 186 (358)
Q Consensus 113 ~~~~~~~-~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~ 186 (358)
.+.-+-+ +..+|.+..|+++-+.+.++.-..-|.-+++.--.+.|.+|-..+|-..|+..|-+++.+...+++-
T Consensus 208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdr 282 (518)
T KOG1941|consen 208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDR 282 (518)
T ss_pred HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhh
Confidence 2222223 4457888899999998877654444555666555677889999999999998888888777666653
No 216
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=68.18 E-value=10 Score=30.41 Aligned_cols=36 Identities=14% Similarity=0.161 Sum_probs=33.1
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceee
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI 317 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI 317 (358)
..++..+||+.+|+|...+.+.+..|...|.|.+.-
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~ 59 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKR 59 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecC
Confidence 579999999999999999999999999999997643
No 217
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=67.83 E-value=12 Score=22.54 Aligned_cols=25 Identities=24% Similarity=0.379 Sum_probs=17.3
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 115 IEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 115 ~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
...++|...|++.+|..+|+++..+
T Consensus 4 ~Lg~~~~~~g~~~~Ai~~y~~aL~l 28 (36)
T PF13176_consen 4 NLGRIYRQQGDYEKAIEYYEQALAL 28 (36)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 4456777888888888888876544
No 218
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=67.71 E-value=94 Score=27.97 Aligned_cols=59 Identities=8% Similarity=0.209 Sum_probs=45.7
Q ss_pred hhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 018294 67 NLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQ 134 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~ 134 (358)
.+..|++|++.|.|..|..-++.+...-+++ ...-+.+......|..+|....|+.+..
T Consensus 178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t---------~~~~eal~~l~~ay~~lg~~~~a~~~~~ 236 (243)
T PRK10866 178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDT---------QATRDALPLMENAYRQLQLNAQADKVAK 236 (243)
T ss_pred HHHHHHHHHHcCchHHHHHHHHHHHHHCCCC---------chHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence 4589999999999999999998888876543 3345555666778889999888886643
No 219
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.47 E-value=89 Score=30.03 Aligned_cols=57 Identities=18% Similarity=0.173 Sum_probs=39.1
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKA 136 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a 136 (358)
+-+|.-++.-|||++|+..+.-+..+-+ ....+.+.+.- .++-+|.+..|+++-.++
T Consensus 61 lWia~C~fhLgdY~~Al~~Y~~~~~~~~----------~~~el~vnLAc--c~FyLg~Y~eA~~~~~ka 117 (557)
T KOG3785|consen 61 LWIAHCYFHLGDYEEALNVYTFLMNKDD----------APAELGVNLAC--CKFYLGQYIEAKSIAEKA 117 (557)
T ss_pred HHHHHHHHhhccHHHHHHHHHHHhccCC----------CCcccchhHHH--HHHHHHHHHHHHHHHhhC
Confidence 3478888899999999999988877422 13345555443 344567788888776665
No 220
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=66.87 E-value=9.3 Score=26.78 Aligned_cols=38 Identities=18% Similarity=0.119 Sum_probs=33.8
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhhcCccceee
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHI 317 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akI 317 (358)
.....+..+||+.+|+|...|...|.+|...|.+.-.-
T Consensus 19 ~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEE
T ss_pred HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 45779999999999999999999999999999985443
No 221
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=66.40 E-value=9.2 Score=27.24 Aligned_cols=44 Identities=18% Similarity=0.119 Sum_probs=37.2
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCC
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRS 330 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~ 330 (358)
.++-+.||..+|++...+-..+.+|-.+|.|. ...|.+.+.+++
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~----~~~~~i~I~d~~ 71 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRILKRLKDEGIIE----VKRGKIIILDPE 71 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE----EETTEEEESSHH
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EcCCEEEECCHH
Confidence 57899999999999999999999999998765 556777776654
No 222
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=66.37 E-value=11 Score=22.93 Aligned_cols=29 Identities=21% Similarity=0.310 Sum_probs=23.0
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhccc
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQR 96 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~ 96 (358)
..||..|...|++++|.+++++.......
T Consensus 6 ~~la~~~~~~g~~~~A~~~~~~al~~~~~ 34 (42)
T PF13374_consen 6 NNLANAYRAQGRYEEALELLEEALEIRER 34 (42)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHhhhhcchhhHHHHHHHHHHHH
Confidence 46999999999999999999988776544
No 223
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=65.91 E-value=78 Score=30.71 Aligned_cols=92 Identities=9% Similarity=0.190 Sum_probs=51.2
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.-|-+.+..|||+.|.+.+..-...... . .-.++.-.+.....|++..+..++.++.... +++.+
T Consensus 89 ~~gl~a~~eGd~~~A~k~l~~~~~~~~~----------p--~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~---~~~~~ 153 (398)
T PRK10747 89 EQALLKLAEGDYQQVEKLMTRNADHAEQ----------P--VVNYLLAAEAAQQRGDEARANQHLERAAELA---DNDQL 153 (398)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhcccc----------h--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CcchH
Confidence 3444555678898888777654333211 1 1113445566677888888888888775431 12211
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
. .....+.++...|+|..|...+-...
T Consensus 154 ~--~~l~~a~l~l~~g~~~~Al~~l~~~~ 180 (398)
T PRK10747 154 P--VEITRVRIQLARNENHAARHGVDKLL 180 (398)
T ss_pred H--HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 1 11122556666777777766555543
No 224
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=65.88 E-value=1.1e+02 Score=28.32 Aligned_cols=119 Identities=13% Similarity=0.159 Sum_probs=78.1
Q ss_pred ChhHHHHHHHHHHHHHHHh-hhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHH
Q 018294 39 NFSLLREFYQTTLKALEEA-KNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEI 117 (358)
Q Consensus 39 ~~~~~~~~~~~~~~~i~~~-~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~ 117 (358)
+.+....++...+..+... ++.+=| ..||.+|...|++..|..-+..-.....+. ...+-- +.++
T Consensus 134 ~~~~~~~l~a~Le~~L~~nP~d~egW----~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n---------~~~~~g-~aea 199 (287)
T COG4235 134 AEQEMEALIARLETHLQQNPGDAEGW----DLLGRAYMALGRASDALLAYRNALRLAGDN---------PEILLG-LAEA 199 (287)
T ss_pred CcccHHHHHHHHHHHHHhCCCCchhH----HHHHHHHHHhcchhHHHHHHHHHHHhCCCC---------HHHHHH-HHHH
Confidence 3555777777777777642 233334 468999999999999999999888875321 222222 3455
Q ss_pred HHHHHh-cCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 118 QMYTET-KNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 118 ~~~~~~-~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.++..- .+-.+++.+++++.+.. +..+.+ ..+-|.-++.+++|.+|...+--..
T Consensus 200 L~~~a~~~~ta~a~~ll~~al~~D----~~~ira--l~lLA~~afe~g~~~~A~~~Wq~lL 254 (287)
T COG4235 200 LYYQAGQQMTAKARALLRQALALD----PANIRA--LSLLAFAAFEQGDYAEAAAAWQMLL 254 (287)
T ss_pred HHHhcCCcccHHHHHHHHHHHhcC----CccHHH--HHHHHHHHHHcccHHHHHHHHHHHH
Confidence 566553 35788999999887642 112222 1233777889999999987655544
No 225
>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=65.78 E-value=6.7 Score=21.84 Aligned_cols=22 Identities=18% Similarity=0.436 Sum_probs=18.9
Q ss_pred hhhhHHHHhhhchHhHHHHHHH
Q 018294 67 NLKLCKIWFDMGEYGRMSKILK 88 (358)
Q Consensus 67 ~~~la~~~~~~g~~~~a~~~l~ 88 (358)
...||..+...|++++|..++.
T Consensus 4 ~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 4 RLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHcCCHHHHHHHHh
Confidence 3468999999999999998875
No 226
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=65.66 E-value=16 Score=23.81 Aligned_cols=29 Identities=14% Similarity=0.344 Sum_probs=25.1
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
|...++.+||+.+|+|...|-....+++.
T Consensus 18 ~~~~t~~eIa~~lg~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 18 FEGLTLEEIAERLGISRSTVRRILKRALK 46 (50)
T ss_dssp TST-SHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCcHHHHHHHHHHHHH
Confidence 78899999999999999999988887764
No 227
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=65.45 E-value=9.9 Score=34.30 Aligned_cols=45 Identities=22% Similarity=0.330 Sum_probs=39.6
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
|...|+++++....++.++||+.||+|+.-+.+.|..|-..|.+.
T Consensus 5 R~~~Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~ 49 (240)
T PRK10411 5 RQQAIVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKIL 49 (240)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 566677888788899999999999999999999999998877764
No 228
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=65.30 E-value=9.7 Score=34.71 Aligned_cols=44 Identities=11% Similarity=0.224 Sum_probs=40.4
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
|...|+.+++...++++.+||+.||+|+.-+..-|..|-..|.+
T Consensus 6 R~~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l 49 (256)
T PRK10434 6 RQAAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTV 49 (256)
T ss_pred HHHHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCE
Confidence 67778888888999999999999999999999999999999866
No 229
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=64.73 E-value=17 Score=29.06 Aligned_cols=35 Identities=11% Similarity=0.201 Sum_probs=32.1
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
..++.++||+.+++|...+.+.+..|...|.|...
T Consensus 24 ~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~ 58 (132)
T TIGR00738 24 GPVSVKEIAERQGISRSYLEKILRTLRRAGLVESV 58 (132)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 37999999999999999999999999999998653
No 230
>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=64.53 E-value=22 Score=33.33 Aligned_cols=63 Identities=8% Similarity=0.068 Sum_probs=48.7
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
..+|.++++.|++++|..++.........+ ....+..+....+++...|++.+|...++.+..
T Consensus 152 ~~la~i~~~~g~~~eA~~~l~~~l~~~~~~--------~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 152 HAVAHVLEMQGRFKEGIAFMESWRDTWDCS--------SMLRGHNWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHHcCCHHHHHHHHHhhhhccCCC--------cchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 468999999999999999998887764321 122344555667889999999999999998743
No 231
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=64.50 E-value=44 Score=27.77 Aligned_cols=68 Identities=16% Similarity=0.126 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 109 LLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 109 ~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
....+......+...|++..|...+.++..... ++...+......|.++...+++.+|...|..+...
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~---~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI---DPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER 101 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc---cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 566777777888899999999999999876532 22222234445588999999999999988887653
No 232
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=64.49 E-value=93 Score=26.95 Aligned_cols=29 Identities=21% Similarity=0.280 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 111 EVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 111 e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
+.+....++|...|++..|...|+++.+.
T Consensus 74 ~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l 102 (198)
T PRK10370 74 EQWALLGEYYLWRNDYDNALLAYRQALQL 102 (198)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 34455556677777777777777776654
No 233
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=64.21 E-value=40 Score=24.35 Aligned_cols=45 Identities=11% Similarity=0.036 Sum_probs=34.4
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
....++.+|+...+++...+..+|-.|+..|.| ...++...+++.
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI----~~~~~~Y~lTek 61 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLI----KKKDGKYRLTEK 61 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSE----EEETTEEEE-HH
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCe----eCCCCEEEECcc
Confidence 577889999999999999999999999999999 336777777654
No 234
>PLN03218 maturation of RBCL 1; Provisional
Probab=64.17 E-value=2.4e+02 Score=31.45 Aligned_cols=92 Identities=10% Similarity=0.051 Sum_probs=54.0
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+...|...|++++|.+++.++...-..+ + ...|...+..|...|++.+|..++....+..- .++...
T Consensus 619 sLI~ay~k~G~~deAl~lf~eM~~~Gv~P----D-------~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~-~pd~~t 686 (1060)
T PLN03218 619 IAVNSCSQKGDWDFALSIYDDMKKKGVKP----D-------EVFFSALVDVAGHAGDLDKAFEILQDARKQGI-KLGTVS 686 (1060)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHcCCCC----C-------HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCHHH
Confidence 45666777788888888888877653222 1 12334455667778888888888777654211 112111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
. ..-...+...|++.+|...|-+.
T Consensus 687 y----nsLI~ay~k~G~~eeA~~lf~eM 710 (1060)
T PLN03218 687 Y----SSLMGACSNAKNWKKALELYEDI 710 (1060)
T ss_pred H----HHHHHHHHhCCCHHHHHHHHHHH
Confidence 1 11133455677888887776654
No 235
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=63.48 E-value=19 Score=23.69 Aligned_cols=29 Identities=17% Similarity=0.189 Sum_probs=22.0
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
.+...+..+||+.+|+|+..|...+.+..
T Consensus 23 ~~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 23 YFQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp HTS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 35778999999999999999999998764
No 236
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=63.28 E-value=16 Score=27.00 Aligned_cols=42 Identities=12% Similarity=0.221 Sum_probs=34.7
Q ss_pred HHHhcccc-cccchhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 274 LLKLIKPY-TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 274 l~~~~~~y-~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
++.++... ..+++.+||+.+|+|..-+-..+..|...|.+..
T Consensus 10 Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 10 VLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred HHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 34444333 4699999999999999999999999999998864
No 237
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=63.10 E-value=77 Score=25.36 Aligned_cols=80 Identities=23% Similarity=0.277 Sum_probs=50.8
Q ss_pred hHHHHHHHHHHHHHHH---hhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHH
Q 018294 41 SLLREFYQTTLKALEE---AKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEI 117 (358)
Q Consensus 41 ~~~~~~~~~~~~~i~~---~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~ 117 (358)
..+..+++.|...... ..|+..++++=+++|++.- ++.+++.-+...-- +.....+|..-+
T Consensus 43 ~~L~~lLer~~~~f~~~~~Y~nD~RylkiWi~ya~~~~------~~~~if~~l~~~~I----------G~~~A~fY~~wA 106 (126)
T PF08311_consen 43 SGLLELLERCIRKFKDDERYKNDERYLKIWIKYADLSS------DPREIFKFLYSKGI----------GTKLALFYEEWA 106 (126)
T ss_dssp HHHHHHHHHHHHHHTTSGGGTT-HHHHHHHHHHHTTBS------HHHHHHHHHHHHTT----------STTBHHHHHHHH
T ss_pred hHHHHHHHHHHHHHhhhHhhcCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCc----------cHHHHHHHHHHH
Confidence 3456666666665543 2234455555555555333 77777877776532 244667777777
Q ss_pred HHHHHhcCHHHHHHHHHHH
Q 018294 118 QMYTETKNNKKLKQLYQKA 136 (358)
Q Consensus 118 ~~~~~~~d~~~a~~~l~~a 136 (358)
.++...|++.+|..++..+
T Consensus 107 ~~le~~~~~~~A~~I~~~G 125 (126)
T PF08311_consen 107 EFLEKRGNFKKADEIYQLG 125 (126)
T ss_dssp HHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHhh
Confidence 8888899999999998865
No 238
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=63.06 E-value=43 Score=28.04 Aligned_cols=70 Identities=13% Similarity=0.062 Sum_probs=51.3
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 107 SQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 107 ~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
......+......+...|++.+|..++.++.+.....++ ........|.++...++|.+|...|.++...
T Consensus 32 ~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 32 AKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPND---RSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccch---HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345556677778889999999999999988765322111 1234445588889999999999988887653
No 239
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=62.81 E-value=59 Score=26.43 Aligned_cols=51 Identities=22% Similarity=0.142 Sum_probs=39.0
Q ss_pred HhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 276 KLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 276 ~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
.+...-..++++.||+.++++...|-..|-+|...|.|.-. ..+.|.+++.
T Consensus 15 ~l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~---~~~~i~LT~~ 65 (142)
T PRK03902 15 LLIEEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYE---KYRGLVLTPK 65 (142)
T ss_pred HHHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEe---cCceEEECHH
Confidence 34444456788999999999999999999999999887522 2356777654
No 240
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=62.79 E-value=11 Score=30.14 Aligned_cols=40 Identities=18% Similarity=0.299 Sum_probs=36.6
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
+.+++-.-++++..++..+|++-.-++.++.+|+..|.|.
T Consensus 18 vElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 18 VELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeE
Confidence 4567778899999999999999999999999999999884
No 241
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=62.75 E-value=1.3e+02 Score=27.86 Aligned_cols=65 Identities=14% Similarity=0.113 Sum_probs=51.2
Q ss_pred HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 63 WFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
++++..++++.+...|.++.+.+.++++-..=+ .-=..+...|+.|...|+...|...|+...+.
T Consensus 152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp------------~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~ 216 (280)
T COG3629 152 FIKALTKLAEALIACGRADAVIEHLERLIELDP------------YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKT 216 (280)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc------------cchHHHHHHHHHHHHcCCchHHHHHHHHHHHH
Confidence 447777999999999999999999988876621 12234566778899999999999999987653
No 242
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=62.61 E-value=39 Score=29.48 Aligned_cols=55 Identities=11% Similarity=0.147 Sum_probs=41.3
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee-----eeccCCEEEEcc
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH-----IDQVNRLLERGD 328 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak-----ID~~~g~v~~~~ 328 (358)
++.++.....++...||+.+|++..-|-..|-+|...|.|.-. .+++...+.++.
T Consensus 6 IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~ 65 (203)
T TIGR02702 6 ILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSR 65 (203)
T ss_pred HHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECc
Confidence 3444444466999999999999999999999999999999654 233444445554
No 243
>PF13730 HTH_36: Helix-turn-helix domain
Probab=62.59 E-value=11 Score=25.01 Aligned_cols=29 Identities=21% Similarity=0.280 Sum_probs=26.9
Q ss_pred chhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 285 RIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
+.+.||+.+|++..-|.+.+-++...|.|
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 89999999999999999999999988864
No 244
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=61.84 E-value=14 Score=25.67 Aligned_cols=36 Identities=14% Similarity=0.217 Sum_probs=26.8
Q ss_pred HHHHHHhcccccccchhhHHhHhCCChHHHHHHHHH
Q 018294 271 TQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVS 306 (358)
Q Consensus 271 ~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~ 306 (358)
..+..-|.+.=-.|++.+||+.||++...|..|=++
T Consensus 10 dkA~e~y~~~~g~i~lkdIA~~Lgvs~~tIr~WK~~ 45 (60)
T PF10668_consen 10 DKAFEIYKESNGKIKLKDIAEKLGVSESTIRKWKSR 45 (60)
T ss_pred HHHHHHHHHhCCCccHHHHHHHHCCCHHHHHHHhhh
Confidence 444444544456899999999999999888876544
No 245
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=61.50 E-value=16 Score=25.63 Aligned_cols=32 Identities=19% Similarity=0.174 Sum_probs=26.6
Q ss_pred ccchhhHHhHhCCC-hHHHHHHHHHhhhcCccc
Q 018294 283 RIRIPFISKELNVP-EKDVEQLLVSLILDNRID 314 (358)
Q Consensus 283 ~I~l~~la~~l~l~-~~~vE~~l~~lI~~g~i~ 314 (358)
.-++.+||+.||++ ..-|-..|-.|...|.|.
T Consensus 25 ~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 25 PPTVREIAEALGLKSTSTVQRHLKALERKGYIR 57 (65)
T ss_dssp ---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEE
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCcCcc
Confidence 36999999999995 999999999999988774
No 246
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=61.27 E-value=2.4e+02 Score=30.38 Aligned_cols=157 Identities=17% Similarity=0.259 Sum_probs=84.6
Q ss_pred HHHHHhhhhhhcchhhhHHHHHHHHHHhcCCCCC--ChhHHHHHHHHHHH---HHHH-----h---hhhhhHHHhhhhhH
Q 018294 5 YREMLTYIKSAVTRNYSEKCINNIMDFVSGSASQ--NFSLLREFYQTTLK---ALEE-----A---KNERLWFKTNLKLC 71 (358)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~--~~~~~~~~~~~~~~---~i~~-----~---~~~r~~~~~~~~la 71 (358)
.++|+..-|-...++..+....-++|.|-..|.. .-.++-.+|+..-. +++. . ++--+|+ ++|
T Consensus 139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~----~la 214 (895)
T KOG2076|consen 139 LRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWK----RLA 214 (895)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHH----HHH
Confidence 4566666655567777777777777777665431 11223333333211 1100 0 0111332 456
Q ss_pred HHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHH
Q 018294 72 KIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGI 151 (358)
Q Consensus 72 ~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~ 151 (358)
++..+.|.+..|.-+..+....- ...++++..-+.+|.+.|+..+|-..+.+.....+-..-.++.+.
T Consensus 215 dls~~~~~i~qA~~cy~rAI~~~------------p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~ 282 (895)
T KOG2076|consen 215 DLSEQLGNINQARYCYSRAIQAN------------PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDL 282 (895)
T ss_pred HHHHhcccHHHHHHHHHHHHhcC------------CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHH
Confidence 77777777777777776665552 223777777788888888888887777766544321111233333
Q ss_pred HhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 152 IRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 152 i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
++.+ ..++....+-..|++.+..++.
T Consensus 283 i~~~-~~~~~~~~~~e~a~~~le~~~s 308 (895)
T KOG2076|consen 283 IRRV-AHYFITHNERERAAKALEGALS 308 (895)
T ss_pred HHHH-HHHHHHhhHHHHHHHHHHHHHh
Confidence 3321 2223333333677777777654
No 247
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=60.69 E-value=44 Score=36.76 Aligned_cols=94 Identities=6% Similarity=-0.086 Sum_probs=70.3
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++.+.|++++|...+......-++ -.+.+......+...|++..|...++++..... .++.
T Consensus 613 ~~LA~~l~~lG~~deA~~~l~~AL~l~Pd------------~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P--~~~~ 678 (987)
T PRK09782 613 VARATIYRQRHNVPAAVSDLRAALELEPN------------NSNYQAALGYALWDSGDIAQSREMLERAHKGLP--DDPA 678 (987)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCC------------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHH
Confidence 57899999999999999999998887432 123444555566778999999999999876522 1222
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
+...-|.++...|++.+|...|-.++..
T Consensus 679 ----a~~nLA~al~~lGd~~eA~~~l~~Al~l 706 (987)
T PRK09782 679 ----LIRQLAYVNQRLDDMAATQHYARLVIDD 706 (987)
T ss_pred ----HHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence 3334488888999999999999998653
No 248
>PHA02943 hypothetical protein; Provisional
Probab=60.65 E-value=83 Score=26.26 Aligned_cols=56 Identities=14% Similarity=0.081 Sum_probs=43.7
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCc
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSK 331 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~ 331 (358)
+++++ ..-+-+.++||+.+|+|-.+++..|.-+=.+|.+.- +-+....++.-.++.
T Consensus 16 ILE~L-k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~da 71 (165)
T PHA02943 16 TLRLL-ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDEDA 71 (165)
T ss_pred HHHHH-hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEEChHH
Confidence 44555 456778999999999999999999999999999964 446666666665543
No 249
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=60.39 E-value=14 Score=33.68 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=40.9
Q ss_pred HHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 269 VRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
-|...|+.+++-...+++.+||+.|++|+.-+...|..|-..|.+.
T Consensus 5 ~R~~~Il~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~ 50 (252)
T PRK10906 5 QRHDAIIELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKIL 50 (252)
T ss_pred HHHHHHHHHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 3666778888888999999999999999999999999999998873
No 250
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=60.06 E-value=14 Score=33.48 Aligned_cols=45 Identities=16% Similarity=0.271 Sum_probs=39.6
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
|...|+.+++....++..++|+.||+|+.-+...|..|-..|.+.
T Consensus 6 R~~~Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~ 50 (251)
T PRK13509 6 RHQILLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLK 50 (251)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 555677788888999999999999999999999999998888774
No 251
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=59.71 E-value=11 Score=32.43 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=40.5
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
|...|+.++.....+++.+||+.||+|..-+..-|..|-.+|.+.
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~~ 52 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELRE 52 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHHH
Confidence 677788888889999999999999999999999999999888873
No 252
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=58.95 E-value=22 Score=32.74 Aligned_cols=56 Identities=20% Similarity=0.429 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeecc
Q 018294 260 NYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQV 320 (358)
Q Consensus 260 ~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~ 320 (358)
.+++.+.+.+.++ ..--..|++.++|+.+++|.+.+...+......+.|+|++|..
T Consensus 112 ~Yld~l~~Eine~-----Lqe~G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~~ 167 (272)
T PF09743_consen 112 SYLDSLAEEINEK-----LQESGQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDGD 167 (272)
T ss_pred HHHHHHHHHHHHH-----HHHcCeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeCC
Confidence 3445555555432 2223789999999999999999997777778888999999988
No 253
>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=58.79 E-value=33 Score=19.82 Aligned_cols=26 Identities=19% Similarity=0.215 Sum_probs=13.3
Q ss_pred HHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 114 AIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 114 ~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
......|..+|++.+|...++++.++
T Consensus 5 ~~~g~~~~~~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 5 YNLGNAYFQLGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 34444555555666665555555443
No 254
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=58.78 E-value=41 Score=29.87 Aligned_cols=55 Identities=13% Similarity=0.149 Sum_probs=46.2
Q ss_pred HhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCC
Q 018294 276 KLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRS 330 (358)
Q Consensus 276 ~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~ 330 (358)
....-...|+..+||+.++++..-+-..|.+|-..|.|.-..|.....|.+++..
T Consensus 14 g~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG 68 (217)
T PRK14165 14 GAVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITEKG 68 (217)
T ss_pred hccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHHH
Confidence 3344445799999999999999999999999999999998888877777777643
No 255
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=58.28 E-value=81 Score=33.15 Aligned_cols=90 Identities=13% Similarity=0.007 Sum_probs=43.8
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcC--HHHHHHHHHHHHhhhccCCCh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKN--NKKLKQLYQKALAIKSAIPHP 146 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d--~~~a~~~l~~a~~~~~~~~~~ 146 (358)
..|..++..|++.+|...+..-... +|+| +...-....+++..|+ +...+..+..+.++ ||
T Consensus 689 ~~G~~~~~~~~~~EA~~af~~Al~l--dP~h----------v~s~~Ala~~lle~G~~~la~~~~~L~dalr~-----dp 751 (799)
T KOG4162|consen 689 LRGLLLEVKGQLEEAKEAFLVALAL--DPDH----------VPSMTALAELLLELGSPRLAEKRSLLSDALRL-----DP 751 (799)
T ss_pred HhhHHHHHHHhhHHHHHHHHHHHhc--CCCC----------cHHHHHHHHHHHHhCCcchHHHHHHHHHHHhh-----CC
Confidence 4445555555556655544443333 1211 1122222334444554 33333355554443 22
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
. .-..|.+-|.++..+|+...|..+|..+
T Consensus 752 ~-n~eaW~~LG~v~k~~Gd~~~Aaecf~aa 780 (799)
T KOG4162|consen 752 L-NHEAWYYLGEVFKKLGDSKQAAECFQAA 780 (799)
T ss_pred C-CHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence 2 1235556677777777777777666554
No 256
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=57.65 E-value=2.3e+02 Score=28.98 Aligned_cols=91 Identities=15% Similarity=0.133 Sum_probs=59.1
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
...|+.++..++|.++.++..++.+.- .....++...+-.+.+.|+..+ ++.-+.+.....|+.
T Consensus 248 ~~~ad~~y~~c~f~~c~kit~~lle~d------------pfh~~~~~~~ia~l~el~~~n~---Lf~lsh~LV~~yP~~- 311 (611)
T KOG1173|consen 248 AEKADRLYYGCRFKECLKITEELLEKD------------PFHLPCLPLHIACLYELGKSNK---LFLLSHKLVDLYPSK- 311 (611)
T ss_pred HHHHHHHHHcChHHHHHHHhHHHHhhC------------CCCcchHHHHHHHHHHhcccch---HHHHHHHHHHhCCCC-
Confidence 367788888899999999998887763 2233333343344556676654 444444444333321
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
+.-+.+-|.+|+..++|.+|.++|..+
T Consensus 312 --a~sW~aVg~YYl~i~k~seARry~SKa 338 (611)
T KOG1173|consen 312 --ALSWFAVGCYYLMIGKYSEARRYFSKA 338 (611)
T ss_pred --CcchhhHHHHHHHhcCcHHHHHHHHHH
Confidence 123445588888889999999999885
No 257
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=57.11 E-value=20 Score=28.40 Aligned_cols=41 Identities=20% Similarity=0.252 Sum_probs=35.4
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
|+.++.. ..|..+||..+++|..-+.-+++.|+..|.+..+
T Consensus 48 Il~lC~~--~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 48 ILELCRR--PLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred HHHHHCC--CccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEe
Confidence 4566655 7899999999999999999999999999988653
No 258
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=57.10 E-value=1.1e+02 Score=29.15 Aligned_cols=91 Identities=15% Similarity=0.189 Sum_probs=61.1
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+|+-|+.-|-+.+|.+.++.-.... .+.+.+++.+++|-..++...|-..+.... +.++....
T Consensus 228 Q~gkCylrLgm~r~AekqlqssL~q~-------------~~~dTfllLskvY~ridQP~~AL~~~~~gl---d~fP~~VT 291 (478)
T KOG1129|consen 228 QMGKCYLRLGMPRRAEKQLQSSLTQF-------------PHPDTFLLLSKVYQRIDQPERALLVIGEGL---DSFPFDVT 291 (478)
T ss_pred HHHHHHHHhcChhhhHHHHHHHhhcC-------------CchhHHHHHHHHHHHhccHHHHHHHHhhhh---hcCCchhh
Confidence 48999999999999998776654432 256777888899999888888776666543 22332111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+..-.+++|-..+++.+|.+.|-+..+
T Consensus 292 ---~l~g~ARi~eam~~~~~a~~lYk~vlk 318 (478)
T KOG1129|consen 292 ---YLLGQARIHEAMEQQEDALQLYKLVLK 318 (478)
T ss_pred ---hhhhhHHHHHHHHhHHHHHHHHHHHHh
Confidence 222234555566788888888777653
No 259
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=56.85 E-value=2.1e+02 Score=28.48 Aligned_cols=165 Identities=14% Similarity=0.068 Sum_probs=102.0
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
-.|--++..|++++|.+.++.+....++ +...++ ....++++.|...+|.+.++++... +|..
T Consensus 311 G~A~~~~~~~~~d~A~~~l~~L~~~~P~---------N~~~~~---~~~~i~~~~nk~~~A~e~~~kal~l-----~P~~ 373 (484)
T COG4783 311 GRALQTYLAGQYDEALKLLQPLIAAQPD---------NPYYLE---LAGDILLEANKAKEAIERLKKALAL-----DPNS 373 (484)
T ss_pred HHHHHHHHhcccchHHHHHHHHHHhCCC---------CHHHHH---HHHHHHHHcCChHHHHHHHHHHHhc-----CCCc
Confidence 4455577889999999999998888653 122333 3456788899999999999887654 2221
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHH-HHHhhCCCCCCcCCcccccCCCCccHHHHH
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVL-ANMLMESEVNPFDGQEAKPYKNDPEILAMT 227 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l-~~lL~~~~~~~~~~~~~~~~~~~p~~~~l~ 227 (358)
..++...|..++..|++.+|....-..... +|+......|+.= |..+. .. .....+..
T Consensus 374 -~~l~~~~a~all~~g~~~eai~~L~~~~~~-----~p~dp~~w~~LAqay~~~g-~~--------------~~a~~A~A 432 (484)
T COG4783 374 -PLLQLNLAQALLKGGKPQEAIRILNRYLFN-----DPEDPNGWDLLAQAYAELG-NR--------------AEALLARA 432 (484)
T ss_pred -cHHHHHHHHHHHhcCChHHHHHHHHHHhhc-----CCCCchHHHHHHHHHHHhC-ch--------------HHHHHHHH
Confidence 234455588889999999888776664321 1222223333221 22221 10 11111222
Q ss_pred HHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHH
Q 018294 228 NLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQV 273 (358)
Q Consensus 228 ~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~ 273 (358)
...|..|++.++...+..-+.....+..-..+++..+..++..+
T Consensus 433 --E~~~~~G~~~~A~~~l~~A~~~~~~~~~~~aR~dari~~~~~~~ 476 (484)
T COG4783 433 --EGYALAGRLEQAIIFLMRASQQVKLGFPDWARADARIDQLRQQN 476 (484)
T ss_pred --HHHHhCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHH
Confidence 23478889888888887776666677666666777666666555
No 260
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=56.74 E-value=36 Score=25.76 Aligned_cols=47 Identities=13% Similarity=0.096 Sum_probs=38.8
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
....++-.+||+.+|++.+-|-+.|.+|...|.|. .+...|.+-++.
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~--r~~~~~~~~~n~ 90 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF--RQGMMGIVGVNT 90 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee--eecCCceeecCC
Confidence 34678899999999999999999999999999996 344457776653
No 261
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=56.63 E-value=2.7e+02 Score=29.49 Aligned_cols=94 Identities=3% Similarity=-0.111 Sum_probs=66.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..+|.++.+.+.+++|...++.+...-++ -.+.+........++|.+.+|..+|+++..- + ..++.
T Consensus 124 ~~~a~~L~~~~~~eeA~~~~~~~l~~~p~------------~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~-~-p~~~~ 189 (694)
T PRK15179 124 ILMLRGVKRQQGIEAGRAEIELYFSGGSS------------SAREILLEAKSWDEIGQSEQADACFERLSRQ-H-PEFEN 189 (694)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHhhcCCC------------CHHHHHHHHHHHHHhcchHHHHHHHHHHHhc-C-CCcHH
Confidence 46888999999999999888888776432 2344455556677899999999999998752 1 11122
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
...--|..++..|+..+|...|..+++.
T Consensus 190 ----~~~~~a~~l~~~G~~~~A~~~~~~a~~~ 217 (694)
T PRK15179 190 ----GYVGWAQSLTRRGALWRARDVLQAGLDA 217 (694)
T ss_pred ----HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 2222366777788888888888887653
No 262
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=55.83 E-value=17 Score=33.07 Aligned_cols=45 Identities=20% Similarity=0.254 Sum_probs=41.3
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
|.+.|+++++.-..|++++||+.||+|+.-+..-|..|=..|.+.
T Consensus 6 R~~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~ 50 (253)
T COG1349 6 RHQKILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLL 50 (253)
T ss_pred HHHHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEE
Confidence 778888999989999999999999999999999999998888774
No 263
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=55.20 E-value=86 Score=25.36 Aligned_cols=41 Identities=12% Similarity=0.073 Sum_probs=36.3
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCE
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRL 323 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~ 323 (358)
.++..+||+.++++..-+=..+-+|...|.|.-.-|..++.
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR 86 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRR 86 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcC
Confidence 36789999999999999999999999999998887776653
No 264
>PRK11189 lipoprotein NlpI; Provisional
Probab=54.88 E-value=1.1e+02 Score=28.24 Aligned_cols=87 Identities=11% Similarity=0.071 Sum_probs=58.4
Q ss_pred chHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhh
Q 018294 78 GEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGG 157 (358)
Q Consensus 78 g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g 157 (358)
+..+.+..-+.++....... .....+.+.....+|...|++..|...++++.+.. |.. ......-|
T Consensus 40 ~~~e~~i~~~~~~l~~~~~~--------~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-----P~~-~~a~~~lg 105 (296)
T PRK11189 40 LQQEVILARLNQILASRDLT--------DEERAQLHYERGVLYDSLGLRALARNDFSQALALR-----PDM-ADAYNYLG 105 (296)
T ss_pred hHHHHHHHHHHHHHccccCC--------cHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-----CCC-HHHHHHHH
Confidence 34455555555554432211 13345667777778889999999999999887653 221 22334458
Q ss_pred hhHhhhhcHHHHHHHHHHHhh
Q 018294 158 KMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 158 ~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.++...++|.+|...|-.+.+
T Consensus 106 ~~~~~~g~~~~A~~~~~~Al~ 126 (296)
T PRK11189 106 IYLTQAGNFDAAYEAFDSVLE 126 (296)
T ss_pred HHHHHCCCHHHHHHHHHHHHH
Confidence 899999999999998888764
No 265
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=54.38 E-value=2.2e+02 Score=27.76 Aligned_cols=63 Identities=14% Similarity=0.127 Sum_probs=47.1
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
.+.++||--++..++|.+|...-..+...=. +..+ -+...-+.++.+|++..|+..+.++.++
T Consensus 258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~----------~N~K--ALyRrG~A~l~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 258 ACHLNLAACYLKLKEYKEAIESCNKVLELDP----------NNVK--ALYRRGQALLALGEYDLARDDFQKALKL 320 (397)
T ss_pred HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC----------Cchh--HHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence 5567899999999999988876666555411 1222 3346667888999999999999999876
No 266
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.28 E-value=1.7e+02 Score=26.67 Aligned_cols=97 Identities=13% Similarity=0.209 Sum_probs=62.3
Q ss_pred CChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHH
Q 018294 38 QNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEI 117 (358)
Q Consensus 38 ~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~ 117 (358)
.+++.-.++|..++..++.....+.-+-+--+.++++..-..|.+|...+......-..- +. -......+...+
T Consensus 124 v~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~----~~--y~~~~k~~va~i 197 (308)
T KOG1585|consen 124 VKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKC----DA--YNSQCKAYVAAI 197 (308)
T ss_pred CCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHH----hh--cccHHHHHHHHH
Confidence 456778889998888877644444555555577788888888888776554433321110 00 022344455667
Q ss_pred HHHHHhcCHHHHHHHHHHHHhhh
Q 018294 118 QMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 118 ~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
.+|+-..|+..++..++.+..+.
T Consensus 198 lv~L~~~Dyv~aekc~r~~~qip 220 (308)
T KOG1585|consen 198 LVYLYAHDYVQAEKCYRDCSQIP 220 (308)
T ss_pred HHHhhHHHHHHHHHHhcchhcCc
Confidence 78888889999998888766543
No 267
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=54.20 E-value=36 Score=24.50 Aligned_cols=32 Identities=9% Similarity=0.114 Sum_probs=30.8
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
+++++++-+.+|++.+.+--.|.+|-..|.|.
T Consensus 18 c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~ 49 (72)
T PF05584_consen 18 CCTLEELEEKTGISKNTLLVYLSRLAKRGIIE 49 (72)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCee
Confidence 99999999999999999999999999999885
No 268
>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal
Probab=53.73 E-value=2.3e+02 Score=27.95 Aligned_cols=131 Identities=13% Similarity=0.136 Sum_probs=63.9
Q ss_pred HHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCC--------CCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHH
Q 018294 64 FKTNLKLCKIWFDMGEYGRMSKILKELHKSCQRED--------GTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQK 135 (358)
Q Consensus 64 ~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~--------~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~ 135 (358)
+.+-++=|.-++..++|..|+--+......|.+.. ..+|- .+..-.+.-..+-.|+.+++..-|-.....
T Consensus 176 l~vAL~das~~yrqk~ya~Aa~rF~taLelcskg~a~~k~~~~~~~di--~~vaSfIetklv~CYL~~rkpdlALnh~hr 253 (569)
T PF15015_consen 176 LQVALKDASSCYRQKKYAVAAGRFRTALELCSKGAALSKPFKASAEDI--SSVASFIETKLVTCYLRMRKPDLALNHSHR 253 (569)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhccCCCCCChhhH--HHHHHHHHHHHHHhhhhcCCCchHHHHHhh
Confidence 33334445555666666665555555555554321 11121 111111222233457777776665544443
Q ss_pred HHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh-hcchhHHHHHHHHHHHHHhh
Q 018294 136 ALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE-AGNQRRIQCLKYLVLANMLM 202 (358)
Q Consensus 136 a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~-~~~~~~~~~l~y~~l~~lL~ 202 (358)
+...+.+.+-+ ..+.+.++-...+|.+|++.+.=+---|.- .|+..++..+-.+-.++++.
T Consensus 254 sI~lnP~~frn------HLrqAavfR~LeRy~eAarSamia~ymywl~g~~~q~~S~lIklyWqamiE 315 (569)
T PF15015_consen 254 SINLNPSYFRN------HLRQAAVFRRLERYSEAARSAMIADYMYWLSGGSEQRISKLIKLYWQAMIE 315 (569)
T ss_pred hhhcCcchhhH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHhHHHHHHHHHHHHHH
Confidence 33222221111 123355555678999999988765333432 23445555555566777753
No 269
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=53.71 E-value=20 Score=26.47 Aligned_cols=34 Identities=21% Similarity=0.193 Sum_probs=28.5
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHH
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLL 304 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l 304 (358)
|..-|++++.- ..+++.++|+.+|+|..-|-..|
T Consensus 7 R~~~I~e~l~~-~~~ti~dvA~~~gvS~~TVsr~L 40 (80)
T TIGR02844 7 RVLEIGKYIVE-TKATVRETAKVFGVSKSTVHKDV 40 (80)
T ss_pred HHHHHHHHHHH-CCCCHHHHHHHhCCCHHHHHHHh
Confidence 55667778877 99999999999999998887654
No 270
>PF03081 Exo70: Exo70 exocyst complex subunit; InterPro: IPR004140 The Exo70 protein forms one subunit of the exocyst complex. First discovered in Saccharomyces cerevisiae [], Exo70 and other exocyst proteins have been observed in several other eukaryotes, including humans. In S. cerevisiae, the exocyst complex is involved in the late stages of exocytosis, and is localized at the tip of the bud, the major site of exocytosis in yeast []. Exo70 interacts with the Rho3 GTPase []. This interaction mediates one of the three known functions of Rho3 in cell polarity: vesicle docking and fusion with the plasma membrane (the other two functions are regulation of actin polarity and transport of exocytic vesicles from the mother cell to the bud) []. In humans, the functions of Exo70 and the exocyst complex are less well characterised: Exo70 is expressed in several tissues and is thought to also be involved in exocytosis [].; GO: 0006887 exocytosis, 0000145 exocyst; PDB: 2PFV_A 2B7M_B 2B1E_A 2PFT_A.
Probab=53.32 E-value=37 Score=32.52 Aligned_cols=81 Identities=19% Similarity=0.288 Sum_probs=51.8
Q ss_pred cHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHH
Q 018294 222 EILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVE 301 (358)
Q Consensus 222 ~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE 301 (358)
+-..+++..+.|+. .|+++...++.--..||.|...+..=......-++..+.+-|....+ .-.+-+..+++++|
T Consensus 291 ~~~~~ke~f~~Fn~----~fee~~~~q~~~~vpD~~LR~~Lr~~i~~~v~p~Y~~F~~~~~~~~~-~~~Kyikyt~~~le 365 (371)
T PF03081_consen 291 ERELLKEKFKKFNS----AFEEIYKAQKTWKVPDPELREELRREIKEKVVPAYRRFYERYRNSQF-NPEKYIKYTPEDLE 365 (371)
T ss_dssp HHHHHHHHHHHHHH----HHHHHHHHHTT---S-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCSS-SHCCC-SS-HHHHH
T ss_pred cHHHHHHHHHHHHH----HHHHHHHcCcceecCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-CCCCCCccCHHHHH
Confidence 34457777777754 46666665543334699887655555555555566666677888888 77778899999999
Q ss_pred HHHHHh
Q 018294 302 QLLVSL 307 (358)
Q Consensus 302 ~~l~~l 307 (358)
..|.+|
T Consensus 366 ~~l~~L 371 (371)
T PF03081_consen 366 NMLNEL 371 (371)
T ss_dssp HHHHTC
T ss_pred HHHHcC
Confidence 988764
No 271
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=52.77 E-value=16 Score=28.15 Aligned_cols=49 Identities=16% Similarity=0.081 Sum_probs=29.8
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee--eeccCCEEEEccC
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH--IDQVNRLLERGDR 329 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak--ID~~~g~v~~~~~ 329 (358)
...++-++||+.+|++..++-+.+.+|-.+|.+..+ =|...|.-...|-
T Consensus 25 ~~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~~~~~d~~~~~~~~yw~ 75 (105)
T PF02002_consen 25 KGELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSYRRRKDDERGWTRYYWY 75 (105)
T ss_dssp H--B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EEEEE--------EEEEE
T ss_pred cCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEEEEEcCCCcEEEEEEE
Confidence 356888999999999999999999999999999654 3333344444553
No 272
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=52.33 E-value=97 Score=23.14 Aligned_cols=68 Identities=10% Similarity=0.134 Sum_probs=45.6
Q ss_pred hhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 75 FDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 75 ~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
...|||.+|.+.|....+.+........ ........+....++...|++.+|...++.+.++.....|
T Consensus 9 ~~~~dy~~A~d~L~~~fD~~~~~~~~~~---~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D 76 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYFDYAKQSNNSSS---NSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGD 76 (94)
T ss_pred HHcCCHHHHHHHHHHHHHHHhhcccchh---hHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCC
Confidence 4568999999999998887754321110 0122233455667788889999999999988776554444
No 273
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=51.96 E-value=45 Score=29.07 Aligned_cols=46 Identities=11% Similarity=0.026 Sum_probs=36.4
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
...++..+||+.+|++..-+-..|.+|...|.+.-.-+ ....+.++
T Consensus 155 ~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~-r~~~~~lT 200 (203)
T TIGR01884 155 EGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGR-KGKRYSLT 200 (203)
T ss_pred cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcC-CccEEEeC
Confidence 35689999999999999999999999999999865433 33444443
No 274
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=51.82 E-value=1.2e+02 Score=24.58 Aligned_cols=45 Identities=13% Similarity=0.059 Sum_probs=39.5
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
..++..+||+.++++..-+=..|-+|...|.|.=..|..++....
T Consensus 53 ~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~ 97 (144)
T PRK11512 53 ACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVL 97 (144)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeE
Confidence 469999999999999999999999999999998888877764433
No 275
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=51.68 E-value=62 Score=26.70 Aligned_cols=73 Identities=12% Similarity=0.129 Sum_probs=49.1
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhhcCccce--e--eeccCC-EEEEccCCccchHHHHH-HHHHHHHHHHHHHH
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDG--H--IDQVNR-LLERGDRSKGMKKYTAI-DKWNSQLRSLYQTV 353 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a--k--ID~~~g-~v~~~~~~~~~~~~~~l-~~w~~~i~~l~~~v 353 (358)
+...++=++||+.+|++..+|-+.|.+|-.++.+.+ + -|..+| .....|.-. |+.+ ...-.++.++...+
T Consensus 12 ~~~~~~dedLa~~l~i~~n~vRkiL~~L~ed~~~~~~~~~e~~~~~~~~~~~yw~i~----y~~~~~vik~r~~~~~~~L 87 (147)
T smart00531 12 RNGCVTEEDLAELLGIKQKQLRKILYLLYDEKLIKIDYKREKDPETKTWYRYYWYIN----YDTLLDVVKYKLDKMRKRL 87 (147)
T ss_pred hcCCcCHHHHHHHhCCCHHHHHHHHHHHHhhhcchhheeeeeCCCCceEEEEEEEec----HHHHHHHHHHHHHHHHHHH
Confidence 356799999999999999999999999999777633 2 354556 555566432 2222 22344556665555
Q ss_pred hhh
Q 018294 354 SNR 356 (358)
Q Consensus 354 ~~~ 356 (358)
+++
T Consensus 88 ~~~ 90 (147)
T smart00531 88 EDK 90 (147)
T ss_pred HHH
Confidence 554
No 276
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=51.44 E-value=37 Score=21.24 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 112 VYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 112 ~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
.+....+.|...|++.+|...++++.+.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 3455677888899999999999887664
No 277
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=51.36 E-value=58 Score=32.32 Aligned_cols=66 Identities=9% Similarity=0.210 Sum_probs=45.0
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
.+||++|.+.+++++|+..+....+... ..|..+ ...++..+-..+.+...+|+.+|..+...+.+
T Consensus 470 ~~LakLye~l~d~~eAa~~yek~v~~~~-~eg~~~----~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 470 VRLAKLYEELKDLNEAAQYYEKYVEVSE-LEGEID----DETIKARLFLAEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHH-hhcccc----hHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence 4899999999999999988776665331 112211 22344444456788899999999887665543
No 278
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=51.29 E-value=53 Score=33.76 Aligned_cols=89 Identities=12% Similarity=0.175 Sum_probs=40.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
-||-+|+..|+++.|.-.++....--+ ....+- ......+.+.|..++|-.++++|-..... +|
T Consensus 494 GlG~vy~Kqek~e~Ae~~fqkA~~INP----------~nsvi~--~~~g~~~~~~k~~d~AL~~~~~A~~ld~k--n~-- 557 (638)
T KOG1126|consen 494 GLGTVYLKQEKLEFAEFHFQKAVEINP----------SNSVIL--CHIGRIQHQLKRKDKALQLYEKAIHLDPK--NP-- 557 (638)
T ss_pred hhhhheeccchhhHHHHHHHhhhcCCc----------cchhHH--hhhhHHHHHhhhhhHHHHHHHHHHhcCCC--Cc--
Confidence 455555555666665555544433311 011122 22334455666666666666665433111 01
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHH
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFE 175 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e 175 (358)
..++ ..|.+....++|.+|...+=+
T Consensus 558 l~~~--~~~~il~~~~~~~eal~~LEe 582 (638)
T KOG1126|consen 558 LCKY--HRASILFSLGRYVEALQELEE 582 (638)
T ss_pred hhHH--HHHHHHHhhcchHHHHHHHHH
Confidence 1111 224445555666666655443
No 279
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=50.97 E-value=4.4e+02 Score=30.29 Aligned_cols=61 Identities=15% Similarity=0.164 Sum_probs=51.9
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
+++|.+++...+-++|..+|.+...-++ +..+++++.--+++-++.||-.+.|.+++-...
T Consensus 1568 ~~y~~fLl~~ne~~aa~~lL~rAL~~lP----------k~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ 1628 (1710)
T KOG1070|consen 1568 IMYADFLLRQNEAEAARELLKRALKSLP----------KQEHVEFISKFAQLEFKYGDAERGRTLFEGLLS 1628 (1710)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHHhhcc----------hhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHh
Confidence 5689999999998999999999888764 366899999999999999999999988886543
No 280
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=50.78 E-value=1.2e+02 Score=23.96 Aligned_cols=83 Identities=11% Similarity=0.054 Sum_probs=52.3
Q ss_pred HHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHH-H-HHHHHHH
Q 018294 269 VRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTA-I-DKWNSQL 346 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~-l-~~w~~~i 346 (358)
.|...+..+.. -...+..+|++.+|++..-+-..|..|-..|.|..+-+-..-.-.+. ++.. ..... + ..|....
T Consensus 17 tRl~IL~~L~~-~~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~-~~~~-~~~~~~~~~~w~~~~ 93 (117)
T PRK10141 17 TRLGIVLLLRE-SGELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRLS-PHIP-AWAAKIIEQAWLCEQ 93 (117)
T ss_pred HHHHHHHHHHH-cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEEC-chHH-HHHHHHHHHHHHHHH
Confidence 44444443432 13588899999999999999999999999999988766443333332 2111 11111 1 1477777
Q ss_pred HHHHHHHh
Q 018294 347 RSLYQTVS 354 (358)
Q Consensus 347 ~~l~~~v~ 354 (358)
..+-..++
T Consensus 94 ~~l~~~l~ 101 (117)
T PRK10141 94 EDVQAIVR 101 (117)
T ss_pred HHHHHHHH
Confidence 76666553
No 281
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=50.54 E-value=57 Score=22.55 Aligned_cols=37 Identities=24% Similarity=0.346 Sum_probs=29.3
Q ss_pred cccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 278 IKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 278 ~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
.-.+-+.++.+|.+..++|.+.|..-++-||.-|-+.
T Consensus 22 Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 22 LLSRGRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp HHHC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEE
T ss_pred HHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCee
Confidence 3346789999999999999999999999999877654
No 282
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=50.48 E-value=39 Score=29.99 Aligned_cols=43 Identities=19% Similarity=0.268 Sum_probs=37.6
Q ss_pred HHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 274 LLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 274 l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
|+.+++--..++..+||+.||+++..|...+-++..+|.+...
T Consensus 16 il~lL~~~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~ 58 (218)
T COG2345 16 ILELLKKSGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVE 58 (218)
T ss_pred HHHHHhccCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee
Confidence 3445555678999999999999999999999999999999877
No 283
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=50.46 E-value=24 Score=32.35 Aligned_cols=46 Identities=11% Similarity=0.092 Sum_probs=40.4
Q ss_pred HHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 269 VRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
-|...|+.+++....++..+||+.||+|+.-+..-|..|=..|.+.
T Consensus 17 eR~~~Il~~L~~~~~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~ 62 (269)
T PRK09802 17 ERREQIIQRLRQQGSVQVNDLSALYGVSTVTIRNDLAFLEKQGIAV 62 (269)
T ss_pred HHHHHHHHHHHHcCCEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeE
Confidence 3666777888778889999999999999999999999998888875
No 284
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=50.01 E-value=28 Score=23.45 Aligned_cols=28 Identities=21% Similarity=0.284 Sum_probs=24.3
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+.++++++|+.||++..-+...|-+...
T Consensus 22 R~~tl~elA~~lgis~st~~~~LRrae~ 49 (53)
T PF04967_consen 22 RRITLEELAEELGISKSTVSEHLRRAER 49 (53)
T ss_pred CcCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 6999999999999999988888877543
No 285
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=49.85 E-value=54 Score=23.10 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=38.8
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
-++...-...++++|++..+++.+++-.-|.=+..+++| .|++.++.+.+
T Consensus 14 w~~L~~~~~~s~~el~k~~~l~~~~~~~AiGWLarE~KI--~~~~~~~~~~v 63 (65)
T PF10771_consen 14 WQLLNENGEWSVSELKKATGLSDKEVYLAIGWLARENKI--EFEEKNGELYV 63 (65)
T ss_dssp HHHHCCSSSEEHHHHHHHCT-SCHHHHHHHHHHHCTTSE--EEEEETTEEEE
T ss_pred HHHHhhCCCcCHHHHHHHhCcCHHHHHHHHHHHhccCce--eEEeeCCEEEE
Confidence 344444678999999999999999999888888889988 45677776665
No 286
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=49.30 E-value=1.8e+02 Score=25.46 Aligned_cols=97 Identities=11% Similarity=0.125 Sum_probs=64.2
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP 144 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~ 144 (358)
.+-+-+|+-.++.+++..|...|+++-+.-+. +.. -+-.++-.|.+...|....|+..++.+....
T Consensus 125 a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa--~r~--------pd~~Ll~aR~laa~g~~a~Aesafe~a~~~y---- 190 (251)
T COG4700 125 AMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA--FRS--------PDGHLLFARTLAAQGKYADAESAFEVAISYY---- 190 (251)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc--cCC--------CCchHHHHHHHHhcCCchhHHHHHHHHHHhC----
Confidence 34456788888889999999999888776422 111 1112455688899999999999988776542
Q ss_pred ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 145 HPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 145 ~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
|.-++++. .|.+...+|+-.+|..-+.+.++
T Consensus 191 -pg~~ar~~--Y~e~La~qgr~~ea~aq~~~v~d 221 (251)
T COG4700 191 -PGPQARIY--YAEMLAKQGRLREANAQYVAVVD 221 (251)
T ss_pred -CCHHHHHH--HHHHHHHhcchhHHHHHHHHHHH
Confidence 22244333 35666667777777766666554
No 287
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=49.15 E-value=40 Score=29.65 Aligned_cols=63 Identities=8% Similarity=0.152 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 262 IEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 262 ~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
.+.+++.|++..+..-+.|=.+++-..||+.||+|-.-|-.-|..|..+|.+.- -+..|+.+.
T Consensus 9 ~~~vy~~i~~~I~~g~l~pG~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~--~~~~G~~V~ 71 (224)
T PRK11534 9 ALDGYRWLKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTV--VNQKGYRVA 71 (224)
T ss_pred hHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEE--eCCCceEeC
Confidence 356778888877777788889999999999999999999999999999999964 233454443
No 288
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=49.04 E-value=98 Score=23.85 Aligned_cols=42 Identities=10% Similarity=0.159 Sum_probs=37.2
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCE
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRL 323 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~ 323 (358)
..++..+||+.++++..-+=..+.+|...|.|.=.-|..++.
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R 83 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDER 83 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCC
Confidence 579999999999999999999999999999998666666653
No 289
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=48.35 E-value=65 Score=31.88 Aligned_cols=63 Identities=13% Similarity=0.042 Sum_probs=47.2
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
..+|..|...|+|++|...++.....-.+ + ...-..+......|..+|++.+|...++++...
T Consensus 79 ~NLG~AL~~lGryeEAIa~f~rALeL~Pd-----~----aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 79 VNLGLSLFSKGRVKDALAQFETALELNPN-----P----DEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHhhCCC-----c----hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 46899999999999999999887777432 1 111122345566788899999999999998775
No 290
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=47.67 E-value=19 Score=24.94 Aligned_cols=24 Identities=8% Similarity=0.386 Sum_probs=18.0
Q ss_pred HhCCChHHHHHHHHHhhhcCccce
Q 018294 292 ELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 292 ~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
..+.+.++++..|.+++.+|++..
T Consensus 30 ~~~~s~~eL~~fL~~lv~e~~L~~ 53 (60)
T PF08672_consen 30 GYDISLEELQEFLDRLVEEGKLEC 53 (60)
T ss_dssp -TT--HHHHHHHHHHHHHTTSEE-
T ss_pred CCCCCHHHHHHHHHHHHHCCcEEe
Confidence 345778999999999999999865
No 291
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=47.49 E-value=2.8e+02 Score=27.08 Aligned_cols=88 Identities=16% Similarity=0.170 Sum_probs=61.3
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
-|.+++...+.++.|.++++++...-+ ++....+++++..++-.+|-.++.++.+.. |.
T Consensus 174 ~Ll~~l~~t~~~~~ai~lle~L~~~~p---------------ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-----p~- 232 (395)
T PF09295_consen 174 TLLKYLSLTQRYDEAIELLEKLRERDP---------------EVAVLLARVYLLMNEEVEAIRLLNEALKEN-----PQ- 232 (395)
T ss_pred HHHHHHhhcccHHHHHHHHHHHHhcCC---------------cHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-----CC-
Confidence 455666667899999999999887621 123345677778888888888888776421 11
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
...+-...+..++..++|..|....-.+-
T Consensus 233 d~~LL~~Qa~fLl~k~~~~lAL~iAk~av 261 (395)
T PF09295_consen 233 DSELLNLQAEFLLSKKKYELALEIAKKAV 261 (395)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 13344566778888999999988777753
No 292
>PHA00738 putative HTH transcription regulator
Probab=46.34 E-value=1.4e+02 Score=23.32 Aligned_cols=65 Identities=15% Similarity=0.065 Sum_probs=46.5
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHH
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLY 350 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~ 350 (358)
..+...|++.++++..-|-..|.-|-..|.|..+-+-..-...+.+.. ..++.++.-.....+|.
T Consensus 26 ~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~---~~~~l~~~~~~~~~~~~ 90 (108)
T PHA00738 26 ILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENS---KEIQILNSELEGFKKLS 90 (108)
T ss_pred CccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCc---cHHHHHhhHHHHHHhhc
Confidence 478889999999999999999999999999987654433333333333 34666666555555554
No 293
>PF13518 HTH_28: Helix-turn-helix domain
Probab=45.84 E-value=50 Score=21.25 Aligned_cols=36 Identities=14% Similarity=0.187 Sum_probs=29.2
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
..+...+|+.+|++..-+..|+.+.=..| +.|-.+.
T Consensus 12 g~s~~~~a~~~gis~~tv~~w~~~y~~~G-~~~l~~~ 47 (52)
T PF13518_consen 12 GESVREIAREFGISRSTVYRWIKRYREGG-IEGLKPK 47 (52)
T ss_pred CCCHHHHHHHHCCCHhHHHHHHHHHHhcC-HHHhccC
Confidence 44999999999999999999999887766 4554443
No 294
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=45.84 E-value=37 Score=24.78 Aligned_cols=33 Identities=15% Similarity=0.296 Sum_probs=22.9
Q ss_pred HhcccccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 276 KLIKPYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 276 ~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
+.+.-=.-|+.+.||..+|.|+++|...+..+=
T Consensus 31 r~LA~G~PVt~~~LA~a~g~~~e~v~~~L~~~p 63 (77)
T PF12324_consen 31 RLLAKGQPVTVEQLAAALGWPVEEVRAALAAMP 63 (77)
T ss_dssp HHHTTTS-B-HHHHHHHHT--HHHHHHHHHH-T
T ss_pred HHHHcCCCcCHHHHHHHHCCCHHHHHHHHHhCC
Confidence 333335679999999999999999999998863
No 295
>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005852 eukaryotic translation initiation factor 3 complex
Probab=45.76 E-value=3.7e+02 Score=27.90 Aligned_cols=88 Identities=13% Similarity=0.020 Sum_probs=53.0
Q ss_pred HHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCC--ChhhhHHH---hhhhh
Q 018294 83 MSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIP--HPRIMGII---RECGG 157 (358)
Q Consensus 83 a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~--~~~~~~~i---~~~~g 157 (358)
...++..+-..++.. | + ........++.+-.+---++|.+||.++-.+.- ...+. |+..|.-+ -..-|
T Consensus 435 ~~~li~~L~~~iy~~-~-~----~~~r~rA~Lc~IY~~AL~d~~~~ARDllLmShl-qe~I~~~D~~tQILyNR~~vQLG 507 (595)
T PF05470_consen 435 PSELIDRLCKYIYKD-G-D----ERLRTRAMLCHIYHHALHDRYYEARDLLLMSHL-QESIQHSDISTQILYNRAMVQLG 507 (595)
T ss_pred HHHHHHHHHHHHHHC-C-c----HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhHH-HHhhhccCHHHHHHHhHHHHHHH
Confidence 445566666555521 2 1 244566666666333345779999998887632 22232 33333222 24558
Q ss_pred hhHhhhhcHHHHHHHHHHHh
Q 018294 158 KMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 158 ~~~~~~~~y~~A~~~f~e~~ 177 (358)
+..+..|...+|..++.+.+
T Consensus 508 LcAFR~G~I~eah~~L~el~ 527 (595)
T PF05470_consen 508 LCAFRAGLIKEAHQCLSELC 527 (595)
T ss_pred HHHHHcCCHHHHHHHHHHHH
Confidence 88888999999988888865
No 296
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=45.59 E-value=28 Score=31.61 Aligned_cols=40 Identities=20% Similarity=0.191 Sum_probs=35.0
Q ss_pred HHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 269 VRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 269 i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
=|...|+.+++.+..++..+||+.||+|++-+..-|..|=
T Consensus 7 eR~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le 46 (252)
T PRK10681 7 ERIGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHS 46 (252)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhh
Confidence 3777888999999999999999999999998888888644
No 297
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=45.57 E-value=47 Score=22.58 Aligned_cols=39 Identities=26% Similarity=0.367 Sum_probs=28.3
Q ss_pred HHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 270 RTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 270 ~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
|...|+.++---..++++++|+.+|+|.--+...+..+=
T Consensus 6 rq~~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLKNKWITLKELAKKLNISERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHH
Confidence 334444444336789999999999999999888887753
No 298
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=45.51 E-value=40 Score=25.58 Aligned_cols=30 Identities=20% Similarity=0.274 Sum_probs=26.3
Q ss_pred chhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 285 RIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
.-..||..+++|.++|+..+-+|...|.|.
T Consensus 23 y~k~ia~~l~~~~~~v~~~l~~Le~~GLle 52 (92)
T PF10007_consen 23 YAKSIARRLKIPLEEVREALEKLEEMGLLE 52 (92)
T ss_pred cHHHHHHHHCCCHHHHHHHHHHHHHCCCeE
Confidence 445689999999999999999999998873
No 299
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.48 E-value=1.2e+02 Score=31.21 Aligned_cols=62 Identities=16% Similarity=0.447 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 259 RNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 259 ~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
..+|+.+.+.|+++- .--..|+++++|+.+++|.+.+...|..-.....|+|++|- |++...
T Consensus 114 e~Y~d~iaeEinekL-----qE~gqvtiaeLakq~dl~sellqs~l~ek~lg~iikgr~dg--gviyT~ 175 (776)
T KOG2235|consen 114 EEYVDRIAEEINEKL-----QEQGQVTIAELAKQWDLPSELLQSLLIEKLLGSIIKGRVDG--GVIYTS 175 (776)
T ss_pred HHHHHHHHHHHHHHH-----HHhcchHHHHHHHhcCCcHHHHHHHHHHHhhccceeeeecC--CEEeeH
Confidence 356667777776542 22478999999999999999999888887777777898887 666654
No 300
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=44.61 E-value=27 Score=23.24 Aligned_cols=24 Identities=38% Similarity=0.656 Sum_probs=19.5
Q ss_pred ccchhhHHhHhCCChHHHHHHHHH
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVS 306 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~ 306 (358)
.+++.++|+.+|+++.++-..+.+
T Consensus 3 ~i~V~elAk~l~v~~~~ii~~l~~ 26 (54)
T PF04760_consen 3 KIRVSELAKELGVPSKEIIKKLFK 26 (54)
T ss_dssp EE-TTHHHHHHSSSHHHHHHHH-H
T ss_pred ceEHHHHHHHHCcCHHHHHHHHHH
Confidence 578999999999999998888744
No 301
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=44.37 E-value=26 Score=28.74 Aligned_cols=37 Identities=22% Similarity=0.301 Sum_probs=28.1
Q ss_pred Hhcccc--cccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 276 KLIKPY--TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 276 ~~~~~y--~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
.|++-+ ..-++..+++.+|+|++.+. ++|.+|+|.-.
T Consensus 37 ~yLr~~p~~~ati~eV~e~tgVs~~~I~----~~IreGRL~~~ 75 (137)
T TIGR03826 37 KFLRKHENRQATVSEIVEETGVSEKLIL----KFIREGRLQLK 75 (137)
T ss_pred HHHHHCCCCCCCHHHHHHHHCcCHHHHH----HHHHcCCeecc
Confidence 455544 44999999999999987766 67788888543
No 302
>PF12854 PPR_1: PPR repeat
Probab=44.05 E-value=20 Score=21.38 Aligned_cols=22 Identities=14% Similarity=0.273 Sum_probs=18.7
Q ss_pred hhHHHHhhhchHhHHHHHHHHH
Q 018294 69 KLCKIWFDMGEYGRMSKILKEL 90 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l 90 (358)
-|.+-|.+.|++++|.++++++
T Consensus 12 ~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 12 TLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHCCCHHHHHHHHHhC
Confidence 3677788999999999999875
No 303
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=43.32 E-value=60 Score=20.40 Aligned_cols=27 Identities=19% Similarity=0.201 Sum_probs=23.7
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
...+...+|+.+|++...+..++.+..
T Consensus 25 ~~~~~~~ia~~~~~s~~~i~~~~~~~~ 51 (55)
T cd06171 25 EGLSYEEIAEILGISRSTVRQRLHRAL 51 (55)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 778999999999999999988887754
No 304
>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=42.89 E-value=3.6e+02 Score=26.94 Aligned_cols=103 Identities=8% Similarity=-0.082 Sum_probs=61.2
Q ss_pred hhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 58 KNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 58 ~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
.++.+| ..--|+++...|+.++|.+.+++.-... .+ ++....-.+...+-.+..+.||.+|..++....
T Consensus 264 P~s~lf---l~~~gR~~~~~g~~~~Ai~~~~~a~~~q------~~--~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~ 332 (468)
T PF10300_consen 264 PNSALF---LFFEGRLERLKGNLEEAIESFERAIESQ------SE--WKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL 332 (468)
T ss_pred CCcHHH---HHHHHHHHHHhcCHHHHHHHHHHhccch------hh--HHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence 344555 2347888889999999999998654211 11 123333344455566778899999988887765
Q ss_pred hhhccCCChhhhHHHhhhhhhhHhhhhcH-------HHHHHHHHHH
Q 018294 138 AIKSAIPHPRIMGIIRECGGKMHMAERQW-------ADAATDFFEA 176 (358)
Q Consensus 138 ~~~~~~~~~~~~~~i~~~~g~~~~~~~~y-------~~A~~~f~e~ 176 (358)
+.+ .| .++.+....|..+...++- .+|...|.++
T Consensus 333 ~~s----~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~v 373 (468)
T PF10300_consen 333 KES----KW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKV 373 (468)
T ss_pred hcc----cc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHH
Confidence 421 12 1344444445555555554 5555555554
No 305
>PF12643 MazG-like: MazG-like family
Probab=42.43 E-value=54 Score=25.16 Aligned_cols=48 Identities=21% Similarity=0.502 Sum_probs=35.7
Q ss_pred hHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHHHHHHHHHHHHHHHhhh
Q 018294 288 FISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAIDKWNSQLRSLYQTVSNR 356 (358)
Q Consensus 288 ~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~~w~~~i~~l~~~v~~~ 356 (358)
-||..+|+|..+++..+.+=+..+.. -|..+.+|..++++|.+.+..|
T Consensus 50 lLa~rLGid~~~lD~~i~~KL~~~~~---------------------k~~~~Ek~~gdls~l~~~l~~r 97 (98)
T PF12643_consen 50 LLADRLGIDFRELDEIIKEKLKKNIE---------------------KYPVLEKWYGDLSKLEQHLKKR 97 (98)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhccc---------------------ccchHHHHhccHHHHHHHHhcc
Confidence 48999999999988877775544322 1455778888898888887665
No 306
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=42.02 E-value=68 Score=20.75 Aligned_cols=24 Identities=17% Similarity=0.207 Sum_probs=20.9
Q ss_pred cchhhHHhHhCCChHHHHHHHHHh
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
.++..+|+.+|++.+-|..++-+.
T Consensus 28 ~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 28 RSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHhh
Confidence 799999999999999998877543
No 307
>PRK10870 transcriptional repressor MprA; Provisional
Probab=41.86 E-value=2.2e+02 Score=24.17 Aligned_cols=43 Identities=14% Similarity=0.093 Sum_probs=38.1
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEE
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLL 324 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v 324 (358)
..++..+||+.++++..-+-..+-+|...|.|.=.-|..++.+
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~ 112 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRC 112 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCe
Confidence 4688899999999999999999999999999988878777543
No 308
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=41.36 E-value=2.1e+02 Score=23.95 Aligned_cols=49 Identities=20% Similarity=0.215 Sum_probs=35.4
Q ss_pred HHhcccccccchhhHHhHh--CCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 275 LKLIKPYTRIRIPFISKEL--NVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l--~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
..--+||+..++ ...| +++-..|.+.|-.|..+|+|.+|. .+...|++.
T Consensus 11 ~~qNRPys~~di---~~nL~~~~~K~~v~k~Ld~L~~~g~i~~K~-~GKqkiY~~ 61 (169)
T PF07106_consen 11 KEQNRPYSAQDI---FDNLHNKVGKTAVQKALDSLVEEGKIVEKE-YGKQKIYFA 61 (169)
T ss_pred HHcCCCCcHHHH---HHHHHhhccHHHHHHHHHHHHhCCCeeeee-ecceEEEee
Confidence 334478876554 4444 588899999999999999999984 455555554
No 309
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=41.34 E-value=2.6e+02 Score=27.89 Aligned_cols=52 Identities=17% Similarity=0.134 Sum_probs=30.0
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHH
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQL 132 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~ 132 (358)
.+|+.+++.|++++|..+|.+....-+. + ..-| -...+.|-.+||..++...
T Consensus 379 ~~a~all~~g~~~eai~~L~~~~~~~p~-----d----p~~w---~~LAqay~~~g~~~~a~~A 430 (484)
T COG4783 379 NLAQALLKGGKPQEAIRILNRYLFNDPE-----D----PNGW---DLLAQAYAELGNRAEALLA 430 (484)
T ss_pred HHHHHHHhcCChHHHHHHHHHHhhcCCC-----C----chHH---HHHHHHHHHhCchHHHHHH
Confidence 4788888888888777777666554321 1 2222 2334556666666655433
No 310
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.12 E-value=28 Score=25.95 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=21.9
Q ss_pred ccccchhhHHhHhCCChHHHHHHH
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLL 304 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l 304 (358)
-+.++.+.||..|++++..+|+.+
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHH
Confidence 368999999999999999999887
No 311
>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=41.05 E-value=38 Score=17.85 Aligned_cols=26 Identities=12% Similarity=0.333 Sum_probs=21.3
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
..+|..+...|++++|...++.....
T Consensus 5 ~~~a~~~~~~~~~~~a~~~~~~~~~~ 30 (34)
T smart00028 5 YNLGNAYLKLGDYDEALEYYEKALEL 30 (34)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence 46889999999999999988776543
No 312
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=40.75 E-value=63 Score=28.03 Aligned_cols=63 Identities=13% Similarity=0.167 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
+.+++.|+...+..-+.|=.+++-..||+.||+|..-|-.-|..|-.+|.+.- -+..|+.+..
T Consensus 14 ~~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~--~~~~G~~V~~ 76 (212)
T TIGR03338 14 TLVQDEIERAILSGELPPGAKLNESDIAARLGVSRGPVREAFRALEEAGLVRN--EKNRGVFVRE 76 (212)
T ss_pred HHHHHHHHHHHHcCCCCCCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEE--ecCCCeEEec
Confidence 56777888777777788889999999999999999999999999999999864 3345665554
No 313
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.59 E-value=1.8e+02 Score=29.20 Aligned_cols=91 Identities=19% Similarity=0.223 Sum_probs=63.0
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.-|.+++-+|++.+|.+-++..-..-... .+. |....-+|...+|-.+....+++|..+... +|.
T Consensus 331 ~~gtF~fL~g~~~~a~~d~~~~I~l~~~~--------~~l----yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~--n~d- 395 (606)
T KOG0547|consen 331 LRGTFHFLKGDSLGAQEDFDAAIKLDPAF--------NSL----YIKRAAAYADENQSEKMWKDFNKAEDLDPE--NPD- 395 (606)
T ss_pred HhhhhhhhcCCchhhhhhHHHHHhcCccc--------chH----HHHHHHHHhhhhccHHHHHHHHHHHhcCCC--CCc-
Confidence 56778888899998888888777663321 111 444556677888888888888888765321 222
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.+..-|.+.+-.++|.+|..+|-++.
T Consensus 396 ---vYyHRgQm~flL~q~e~A~aDF~Kai 421 (606)
T KOG0547|consen 396 ---VYYHRGQMRFLLQQYEEAIADFQKAI 421 (606)
T ss_pred ---hhHhHHHHHHHHHHHHHHHHHHHHHh
Confidence 33344777788899999999988864
No 314
>PF14493 HTH_40: Helix-turn-helix domain
Probab=40.48 E-value=36 Score=25.44 Aligned_cols=33 Identities=24% Similarity=0.262 Sum_probs=30.2
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCc-cc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNR-ID 314 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~-i~ 314 (358)
.-.++++||+.-|+++.-|+..|++++..|. ++
T Consensus 12 ~G~si~eIA~~R~L~~sTI~~HL~~~~~~g~~~~ 45 (91)
T PF14493_consen 12 KGLSIEEIAKIRGLKESTIYGHLAELIESGEPLD 45 (91)
T ss_pred cCCCHHHHHHHcCCCHHHHHHHHHHHHHhCCCCC
Confidence 4689999999999999999999999999998 43
No 315
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=40.34 E-value=2.9e+02 Score=25.20 Aligned_cols=95 Identities=14% Similarity=0.071 Sum_probs=66.1
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
.++++-+...|+=+.+..+++.+...-. .| .+++..+.+..++.||+..|-..+.++.... .+||+
T Consensus 70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~-----~d-------~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--p~d~~ 135 (257)
T COG5010 70 AKLATALYLRGDADSSLAVLQKSAIAYP-----KD-------RELLAAQGKNQIRNGNFGEAVSVLRKAARLA--PTDWE 135 (257)
T ss_pred HHHHHHHHhcccccchHHHHhhhhccCc-----cc-------HHHHHHHHHHHHHhcchHHHHHHHHHHhccC--CCChh
Confidence 4577777777877777766666544422 11 2344447888899999999999988876432 23444
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAFKNY 180 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~ 180 (358)
. +-.-|..+...|++..|...|.++++-+
T Consensus 136 ~----~~~lgaaldq~Gr~~~Ar~ay~qAl~L~ 164 (257)
T COG5010 136 A----WNLLGAALDQLGRFDEARRAYRQALELA 164 (257)
T ss_pred h----hhHHHHHHHHccChhHHHHHHHHHHHhc
Confidence 3 3333888899999999999999987644
No 316
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=40.21 E-value=29 Score=26.13 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=21.4
Q ss_pred cccchhhHHhHhCCChHHHHHHHH
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
+.++.+.+|..||+|++++|..|.
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHc
Confidence 679999999999999999997763
No 317
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=40.14 E-value=64 Score=28.29 Aligned_cols=54 Identities=17% Similarity=0.264 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
+.+++.|++..+..-++|=.+++-..||+.||+|-.-|-.-|..|...|.+.-+
T Consensus 14 e~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVREAL~~L~~eGLV~~~ 67 (221)
T PRK11414 14 LQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVA 67 (221)
T ss_pred HHHHHHHHHHHHhCCCCCCCccCHHHHHHHHCCCchhHHHHHHHHHHCCCEEec
Confidence 567788888777777788889999999999999999999999999999998643
No 318
>PRK04239 hypothetical protein; Provisional
Probab=40.11 E-value=25 Score=27.59 Aligned_cols=50 Identities=32% Similarity=0.497 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhcccccccchhhHHhHhCCC---hHHHHHHHHHhhhcCccceeeec
Q 018294 267 KNVRTQVLLKLIKPYTRIRIPFISKELNVP---EKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 267 ~~i~~~~l~~~~~~y~~I~l~~la~~l~l~---~~~vE~~l~~lI~~g~i~akID~ 319 (358)
+..+...|.++..|--+=.|.+|+= +- ...||..|..|...|.|.++||.
T Consensus 36 e~qk~~iL~qiLt~eAreRL~rI~l---vkPe~A~~VE~~liqlAq~G~i~~ki~e 88 (110)
T PRK04239 36 EAQKQAILRQILTPEARERLNRIKL---VKPEFAEQVEQQLIQLAQSGRIQGPIDD 88 (110)
T ss_pred HHHHHHHHHHHCCHHHHHHHHhhhh---cCHHHHHHHHHHHHHHHHcCCCCCCcCH
Confidence 4455556778887754444444431 22 24799999999999999999874
No 319
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=39.64 E-value=42 Score=25.84 Aligned_cols=35 Identities=26% Similarity=0.255 Sum_probs=32.9
Q ss_pred ccccccchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 279 KPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
++...|+.+.++++.|++.+.|.+.+-.||..|-|
T Consensus 50 Kk~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 50 KKMDRISNSQIAEMTGLSRDHVSKALNELIRRGVI 84 (100)
T ss_pred CccceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 56679999999999999999999999999999988
No 320
>PLN03077 Protein ECB2; Provisional
Probab=39.57 E-value=2.3e+02 Score=30.59 Aligned_cols=20 Identities=10% Similarity=0.203 Sum_probs=10.4
Q ss_pred hHHHHhhhchHhHHHHHHHH
Q 018294 70 LCKIWFDMGEYGRMSKILKE 89 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~ 89 (358)
|.+.|.+.|++++|.+++.+
T Consensus 530 Li~~y~k~G~~~~A~~~f~~ 549 (857)
T PLN03077 530 LLDLYVRCGRMNYAWNQFNS 549 (857)
T ss_pred HHHHHHHcCCHHHHHHHHHh
Confidence 44555555555555554444
No 321
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=39.53 E-value=1.6e+02 Score=21.83 Aligned_cols=64 Identities=14% Similarity=0.205 Sum_probs=44.9
Q ss_pred cccchhhHHhHh-CCChHHHHHHHHHhhhcCccceeeeccCC-EEEEccCC---ccchHHHHHHHHHHH
Q 018294 282 TRIRIPFISKEL-NVPEKDVEQLLVSLILDNRIDGHIDQVNR-LLERGDRS---KGMKKYTAIDKWNSQ 345 (358)
Q Consensus 282 ~~I~l~~la~~l-~l~~~~vE~~l~~lI~~g~i~akID~~~g-~v~~~~~~---~~~~~~~~l~~w~~~ 345 (358)
...+|.+|.+.+ |+|...+-.-|-.|...|.+.-.++.... .+.-.=.+ ........+.+|..+
T Consensus 17 g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~~~l~~l~~W~~~ 85 (90)
T PF01638_consen 17 GPMRFSELQRRLPGISPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELLPVLEALEEWGEE 85 (90)
T ss_dssp SSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHHHHHHHHHHHHHH
Confidence 678999999999 99999999999999999999776665433 23222111 122345677778765
No 322
>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=39.44 E-value=3e+02 Score=25.12 Aligned_cols=71 Identities=11% Similarity=0.081 Sum_probs=45.6
Q ss_pred HhhhhhHHHHhhhc-hHhHHHHHHHHHHHhcccC-CCC-cchhhhhhHHHHHHHHHHHHHHhcCHH---HHHHHHHH
Q 018294 65 KTNLKLCKIWFDMG-EYGRMSKILKELHKSCQRE-DGT-DDQKKGSQLLEVYAIEIQMYTETKNNK---KLKQLYQK 135 (358)
Q Consensus 65 ~~~~~la~~~~~~g-~~~~a~~~l~~l~~~~~~~-~~~-~~~~~~~~~~e~~~~~~~~~~~~~d~~---~a~~~l~~ 135 (358)
++.+..|.-.+..+ ++++|..+|++....+..+ ... .........+.++...++.|+..++.. +|..+++.
T Consensus 36 ~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~ 112 (278)
T PF08631_consen 36 RVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRL 112 (278)
T ss_pred HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence 34456777777888 9999999999998887542 110 011113557777777888888877644 44444443
No 323
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=39.24 E-value=4.7e+02 Score=27.34 Aligned_cols=89 Identities=7% Similarity=0.040 Sum_probs=48.8
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.+...+...|++++|.+++.++...-..+ + ..++...+..|.+.|++..|..+++.... |.+
T Consensus 330 ~ll~a~~~~g~~~~a~~i~~~m~~~g~~~----d-------~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-------~d~ 391 (697)
T PLN03081 330 IMIRIFSRLALLEHAKQAHAGLIRTGFPL----D-------IVANTALVDLYSKWGRMEDARNVFDRMPR-------KNL 391 (697)
T ss_pred HHHHHHHhccchHHHHHHHHHHHHhCCCC----C-------eeehHHHHHHHHHCCCHHHHHHHHHhCCC-------CCe
Confidence 45566667777777777777776553221 1 12233445566677777777777765321 111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
. .+......+...|++.+|...|-+..
T Consensus 392 ~--t~n~lI~~y~~~G~~~~A~~lf~~M~ 418 (697)
T PLN03081 392 I--SWNALIAGYGNHGRGTKAVEMFERMI 418 (697)
T ss_pred e--eHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 1 11111233445677777777776643
No 324
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=39.21 E-value=1.1e+02 Score=27.45 Aligned_cols=64 Identities=14% Similarity=0.165 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 262 IEDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 262 ~~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
.+.+++.|+...+..-++|=.++ +-..||+.||+|-.-|-.-|..|-.+|.|.- .+..|+.+..
T Consensus 11 ~~~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~--~~~~G~~V~~ 75 (257)
T PRK10225 11 YQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEV--RRGAGIYVLD 75 (257)
T ss_pred HHHHHHHHHHHHHhCCCCCCCcCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEE--ecCCEEEEeC
Confidence 45677888887777778888999 6999999999999999999999999999873 3345665543
No 325
>PRK03837 transcriptional regulator NanR; Provisional
Probab=38.44 E-value=72 Score=28.28 Aligned_cols=64 Identities=11% Similarity=0.026 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 262 IEDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 262 ~~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
.+.+++.|++..+..-++|=.++ +-..||+.||+|..-|..-|..|-.+|.|.-+ +..|+.+..
T Consensus 15 ~~~v~~~l~~~I~~g~l~pG~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~~--~~~G~~V~~ 79 (241)
T PRK03837 15 SEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQIS--HGERARVSR 79 (241)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--cCCceeEec
Confidence 35677888888888888888999 89999999999999999999999999998653 445665543
No 326
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=38.22 E-value=41 Score=18.61 Aligned_cols=24 Identities=17% Similarity=0.440 Sum_probs=19.9
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
+.+.|...|++++|.+++.++...
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~~~ 29 (31)
T PF01535_consen 6 LISGYCKMGQFEEALEVFDEMRER 29 (31)
T ss_pred HHHHHHccchHHHHHHHHHHHhHC
Confidence 566788899999999999888653
No 327
>KOG3431 consensus Apoptosis-related protein/predicted DNA-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=38.21 E-value=28 Score=27.65 Aligned_cols=54 Identities=15% Similarity=0.273 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 266 LKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 266 ~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
-+.++...|-+++.+--+=.|++||=.=-=-..-||.+|.+|+.-|.|.+||+.
T Consensus 38 q~e~r~~~lsQvLdqqAr~RLsrlAlvkpekAq~VE~~lirma~~gQvs~Kise 91 (129)
T KOG3431|consen 38 QEEMRQSMLSQVLDQQARERLSRLALVKPEKAQAVENYLIRMAQTGQVSHKISE 91 (129)
T ss_pred HHHHHHhHHHHHhhHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHhCCccccccH
Confidence 344555555666655444444444421111124699999999999999999874
No 328
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=37.98 E-value=2.6e+02 Score=24.86 Aligned_cols=48 Identities=13% Similarity=0.222 Sum_probs=39.3
Q ss_pred HHHHhcc-cccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeecc
Q 018294 273 VLLKLIK-PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQV 320 (358)
Q Consensus 273 ~l~~~~~-~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~ 320 (358)
.+++.++ |-...|-+++|+.+|+|---+.++|.=|++.|.+.+.|-..
T Consensus 162 ~i~~~~~~~~~~~Taeela~~~giSRvTaRRYLeyl~~~~~l~a~i~yG 210 (224)
T COG4565 162 KVREALKEPDQELTAEELAQALGISRVTARRYLEYLVSNGILEAEIHYG 210 (224)
T ss_pred HHHHHHhCcCCccCHHHHHHHhCccHHHHHHHHHHHHhcCeeeEEeecc
Confidence 3344444 55678999999999999999999999999999998776543
No 329
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=37.69 E-value=58 Score=20.60 Aligned_cols=28 Identities=11% Similarity=-0.045 Sum_probs=22.5
Q ss_pred chhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 285 RIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
+++++|+.+|+++.-+..+ +..|.+.+.
T Consensus 2 ~~~e~a~~~gv~~~tlr~~----~~~g~l~~~ 29 (49)
T cd04761 2 TIGELAKLTGVSPSTLRYY----ERIGLLSPA 29 (49)
T ss_pred cHHHHHHHHCcCHHHHHHH----HHCCCCCCC
Confidence 6789999999999998877 566777643
No 330
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=37.56 E-value=73 Score=20.45 Aligned_cols=29 Identities=21% Similarity=0.267 Sum_probs=24.8
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+...+..+||+.+|+|...+...+.++..
T Consensus 16 ~~g~s~~eia~~l~is~~tv~~~~~~~~~ 44 (58)
T smart00421 16 AEGLTNKEIAERLGISEKTVKTHLSNIMR 44 (58)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 35579999999999999999999888643
No 331
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=37.38 E-value=61 Score=28.66 Aligned_cols=63 Identities=16% Similarity=0.218 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 262 IEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 262 ~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
.+.+++.+++..+..-+.|=++++-..||+.||+|.--|-.-|.+|-.+|.|.-. ...|.++.
T Consensus 18 ~~~vy~~Lr~~Il~g~l~pG~~l~e~~La~~~gvSrtPVReAL~rL~~eGlv~~~--p~rG~~V~ 80 (230)
T COG1802 18 ADQVYEELREAILSGELAPGERLSEEELAEELGVSRTPVREALRRLEAEGLVEIE--PNRGAFVA 80 (230)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCccHHHHHHHhCCCCccHHHHHHHHHHCCCeEec--CCCCCeeC
Confidence 4567777888777778889999999999999999999999999999999998765 33344443
No 332
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR. Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function.
Probab=37.16 E-value=1.1e+02 Score=27.02 Aligned_cols=63 Identities=10% Similarity=0.018 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
+..++.|+...+..-++|=.++ +-..||+.||+|-.-|-.-|..|-..|.|.- -+..|+.+..
T Consensus 9 ~~v~~~l~~~I~~g~l~pG~~LpsE~~La~~lgVSRtpVREAL~~Le~eGlV~~--~~~~G~~V~~ 72 (235)
T TIGR02812 9 GFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTI--QHGKPTKVNN 72 (235)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE--eCCCccEecC
Confidence 4566777777767777888999 7999999999999999999999999999873 3345665543
No 333
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=36.83 E-value=47 Score=23.70 Aligned_cols=32 Identities=22% Similarity=0.247 Sum_probs=22.7
Q ss_pred Hhcccc-cccchhhHHhHhCCChHHHHHHHHHh
Q 018294 276 KLIKPY-TRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 276 ~~~~~y-~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
++..-+ +.-+..+||+.+|++++++...+...
T Consensus 12 ~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~~ 44 (78)
T PF04539_consen 12 ELEQELGREPTDEEIAEELGISVEEVRELLQAS 44 (78)
T ss_dssp HHHHHHSS--BHHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHhCCCCCHHHHHHHHcccHHHHHHHHHhC
Confidence 344333 56799999999999999999888754
No 334
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=36.59 E-value=1.4e+02 Score=20.40 Aligned_cols=56 Identities=14% Similarity=0.144 Sum_probs=36.0
Q ss_pred HHHHHHHHHhcccccccchhhHHhHhCCChHHH-HHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 268 NVRTQVLLKLIKPYTRIRIPFISKELNVPEKDV-EQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 268 ~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~v-E~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
++++..+..+- ...-|+++.+.+.+|.+..+. ...+.+++.+|.+ ...++.+.+++
T Consensus 6 ~~~e~i~~~LR-~~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll----~~~~~~l~lT~ 62 (66)
T PF06969_consen 6 RLREYIMLGLR-CNEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLL----EIDGGRLRLTE 62 (66)
T ss_dssp HHHHHHHHHHH-HHSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSE----EE-SSEEEE-T
T ss_pred HHHHHHHHHHH-hHCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCE----EEeCCEEEECc
Confidence 34444444433 246799999999999985544 8889999999776 44556666654
No 335
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=36.15 E-value=42 Score=21.04 Aligned_cols=31 Identities=16% Similarity=0.389 Sum_probs=23.7
Q ss_pred hcccc-cccchhhHHhHhCCChHHHHHHHHHh
Q 018294 277 LIKPY-TRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 277 ~~~~y-~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
+.-|| +.-....||+..|++..+|..+.++.
T Consensus 6 ~~nPYPs~~ek~~L~~~tgls~~Qi~~WF~Na 37 (40)
T PF05920_consen 6 LHNPYPSKEEKEELAKQTGLSRKQISNWFINA 37 (40)
T ss_dssp TTSGS--HHHHHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 34577 56677889999999999999998864
No 336
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=35.87 E-value=3e+02 Score=27.74 Aligned_cols=62 Identities=18% Similarity=0.194 Sum_probs=43.8
Q ss_pred HHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHH
Q 018294 64 FKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQK 135 (358)
Q Consensus 64 ~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~ 135 (358)
+.+..+||...-+.|...||.+.+.++.++.... + ...++-..+..++.++.+..++.++.+
T Consensus 259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~----~------~l~IrenLie~LLelq~Yad~q~lL~k 320 (539)
T PF04184_consen 259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNL----D------NLNIRENLIEALLELQAYADVQALLAK 320 (539)
T ss_pred hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCcc----c------hhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 3455689999999999999999999998876421 1 233444444566677777777776664
No 337
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=35.79 E-value=4.7e+02 Score=26.51 Aligned_cols=59 Identities=22% Similarity=0.322 Sum_probs=38.4
Q ss_pred HHHHhcCHHHHHHHHHHHHhhhcc--C-------------------CChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 119 MYTETKNNKKLKQLYQKALAIKSA--I-------------------PHPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 119 ~~~~~~d~~~a~~~l~~a~~~~~~--~-------------------~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.|...+++..+..+|.++.+--.. + .+|..-..- ...|.-++..+||..|..+|.++.
T Consensus 307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~-r~kGne~Fk~gdy~~Av~~YteAI 385 (539)
T KOG0548|consen 307 AYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEE-REKGNEAFKKGDYPEAVKHYTEAI 385 (539)
T ss_pred hhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHH-HHHHHHHHhccCHHHHHHHHHHHH
Confidence 466678888888888887542211 0 012221111 234888899999999999999976
Q ss_pred h
Q 018294 178 K 178 (358)
Q Consensus 178 ~ 178 (358)
.
T Consensus 386 k 386 (539)
T KOG0548|consen 386 K 386 (539)
T ss_pred h
Confidence 3
No 338
>KOG4555 consensus TPR repeat-containing protein [Function unknown]
Probab=35.73 E-value=2.5e+02 Score=23.13 Aligned_cols=95 Identities=13% Similarity=0.065 Sum_probs=61.0
Q ss_pred HhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHh
Q 018294 74 WFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIR 153 (358)
Q Consensus 74 ~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~ 153 (358)
.-+.|++++|.+.+......++.. ...|-...+.+.-.|+..+|-.-++++....+.-+-..- .-.
T Consensus 53 laE~g~Ld~AlE~F~qal~l~P~r------------aSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtac--qa~ 118 (175)
T KOG4555|consen 53 LAEAGDLDGALELFGQALCLAPER------------ASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTAC--QAF 118 (175)
T ss_pred HHhccchHHHHHHHHHHHHhcccc------------hHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHH--HHH
Confidence 446689999999999888887532 223334455666688888888888888776543321111 122
Q ss_pred hhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcch
Q 018294 154 ECGGKMHMAERQWADAATDFFEAFKNYDEAGNQ 186 (358)
Q Consensus 154 ~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~ 186 (358)
..-|.+|-..|+-..|...|-.+- ..|++
T Consensus 119 vQRg~lyRl~g~dd~AR~DFe~AA----~LGS~ 147 (175)
T KOG4555|consen 119 VQRGLLYRLLGNDDAARADFEAAA----QLGSK 147 (175)
T ss_pred HHHHHHHHHhCchHHHHHhHHHHH----HhCCH
Confidence 344777777777777777765542 45555
No 339
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=35.72 E-value=3.2e+02 Score=24.99 Aligned_cols=58 Identities=16% Similarity=0.218 Sum_probs=34.3
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHH-hcCHHHHHHHHHHHHh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTE-TKNNKKLKQLYQKALA 138 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~-~~d~~~a~~~l~~a~~ 138 (358)
.+.++....+..+.|..++.+.+.. ....+++|..-+.+... .+|...|..+++.+.+
T Consensus 6 ~~m~~~~r~~g~~~aR~vF~~a~~~------------~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk 64 (280)
T PF05843_consen 6 QYMRFMRRTEGIEAARKVFKRARKD------------KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLK 64 (280)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCC------------CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhCChHHHHHHHHHHHcC------------CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 3455555666677777777777632 12234555566666444 4566668888887765
No 340
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=35.71 E-value=12 Score=38.02 Aligned_cols=97 Identities=10% Similarity=0.051 Sum_probs=0.0
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
+.-++.+++.|++..|..++.++....-. .....+..++.+++....|+...|...+.... .....+.
T Consensus 28 L~Aa~a~l~~g~~~~A~~ll~~l~~~~L~---------~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~---~~~l~~~ 95 (536)
T PF04348_consen 28 LLAARALLQEGDWAQAQALLNQLDPQQLS---------PSQQARYQLLRARLALAQGDPEQALSLLNAQD---LWQLPPE 95 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHhCCCHHHHHHHHHhcccccCC---------hHHHHHHHHHHHHHHHhcCCHHHHHHHhccCC---cccCCHH
Confidence 45788899999999999999999843211 14456777888899999999999998876421 1111233
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
.+..+....+.++...+++..|...+...
T Consensus 96 ~~~~~~~l~A~a~~~~~~~l~Aa~~~i~l 124 (536)
T PF04348_consen 96 QQARYHQLRAQAYEQQGDPLAAARERIAL 124 (536)
T ss_dssp -----------------------------
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 34556666677778888998888876653
No 341
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=34.86 E-value=2.6e+02 Score=23.67 Aligned_cols=46 Identities=24% Similarity=0.335 Sum_probs=37.0
Q ss_pred cccccchhhHHhHh--CCChHHHHHHHHHhhhcCccc----eeeeccCCEEEE
Q 018294 280 PYTRIRIPFISKEL--NVPEKDVEQLLVSLILDNRID----GHIDQVNRLLER 326 (358)
Q Consensus 280 ~y~~I~l~~la~~l--~l~~~~vE~~l~~lI~~g~i~----akID~~~g~v~~ 326 (358)
||.. +...||+.+ ++|.++|++-|--|...|.|. |+--+.++.|..
T Consensus 37 ~~~~-d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~~~g~y~~t~~~l~~ 88 (171)
T PF14394_consen 37 PFAP-DPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKDGDGKYVQTDKSLTT 88 (171)
T ss_pred CCCC-CHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEECCCCcEEEecceeeC
Confidence 4443 899999999 999999999999999999994 445555666653
No 342
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.48 E-value=62 Score=34.55 Aligned_cols=56 Identities=13% Similarity=0.288 Sum_probs=39.9
Q ss_pred HHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 118 QMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 118 ~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
++|+..|++.+|.++-+ ..|+.........+..++++++|..|++.|-++...|.+
T Consensus 366 k~yLd~g~y~kAL~~ar---------~~p~~le~Vl~~qAdf~f~~k~y~~AA~~yA~t~~~FEE 421 (911)
T KOG2034|consen 366 KTYLDKGEFDKALEIAR---------TRPDALETVLLKQADFLFQDKEYLRAAEIYAETLSSFEE 421 (911)
T ss_pred HHHHhcchHHHHHHhcc---------CCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhHHH
Confidence 45677899998775522 124544445556688899999999999999887666544
No 343
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=33.93 E-value=4.8e+02 Score=25.84 Aligned_cols=104 Identities=13% Similarity=0.041 Sum_probs=59.9
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
=.||+-|+-.|||+.|...=+ .+-++....| | ...--..+......+..+|++..|-+.|+.+...+-.+-+..
T Consensus 199 GnLGNTyYlLGdf~~ai~~H~-~RL~ia~efG--D---rAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~ 272 (639)
T KOG1130|consen 199 GNLGNTYYLLGDFDQAIHFHK-LRLEIAQEFG--D---RAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRT 272 (639)
T ss_pred cccCceeeeeccHHHHHHHHH-HHHHHHHHhh--h---HHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchh
Confidence 368888899999998874322 2222211111 1 111223333444456678899999999998876554444433
Q ss_pred hhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 148 IMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 148 ~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
+-+.-...-|-.|---.+|.+|..||...+
T Consensus 273 vEAQscYSLgNtytll~e~~kAI~Yh~rHL 302 (639)
T KOG1130|consen 273 VEAQSCYSLGNTYTLLKEVQKAITYHQRHL 302 (639)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 333222223555555677888888876643
No 344
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=33.86 E-value=86 Score=20.16 Aligned_cols=29 Identities=21% Similarity=0.156 Sum_probs=24.6
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+.-.+..+||+.+|+++..++..+-++..
T Consensus 13 ~~~~s~~eia~~l~~s~~tv~~~~~~~~~ 41 (57)
T cd06170 13 AEGKTNKEIADILGISEKTVKTHLRNIMR 41 (57)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 35679999999999999999999887643
No 345
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=33.80 E-value=80 Score=27.62 Aligned_cols=44 Identities=11% Similarity=0.095 Sum_probs=37.6
Q ss_pred HhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 276 KLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 276 ~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
-+.+.+.-.+..+||+.+|+|+.-|+.++..+...|.+...++.
T Consensus 170 ~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~~ 213 (225)
T PRK10046 170 LFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIVH 213 (225)
T ss_pred HHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEeec
Confidence 33444556789999999999999999999999999999887776
No 346
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=33.56 E-value=1.4e+02 Score=22.68 Aligned_cols=36 Identities=22% Similarity=0.231 Sum_probs=34.0
Q ss_pred hhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 287 PFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 287 ~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
..||+.++++..-+-..+-+|...|.|.=..|..++
T Consensus 40 ~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~Dr 75 (126)
T COG1846 40 KELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDR 75 (126)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCcccc
Confidence 999999999999999999999999999888888776
No 347
>PF01984 dsDNA_bind: Double-stranded DNA-binding domain; InterPro: IPR002836 This protein family is found in archaea and eukaryota. The human TFAR19 (TF-1 cell apoptosis-related protein 19) encodes a protein which shares significant homology to the corresponding proteins of species ranging from yeast to mice. TFAR19 exhibits a ubiquitous expression pattern and its expression is up-regulated in the tumour cells undergoing apoptosis. TFAR19 may play a general role in the apoptotic process []. Also included in this family is a DNA-binding protein from the archaea, Methanobacterium thermoautotrophicum.; GO: 0003677 DNA binding; PDB: 1EIJ_A 2K6B_A 2CRU_A 1YYB_A 2JXN_A 2FH0_A.
Probab=33.18 E-value=34 Score=26.74 Aligned_cols=22 Identities=32% Similarity=0.611 Sum_probs=18.3
Q ss_pred HHHHHHHHHhhhcCccceeeec
Q 018294 298 KDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 298 ~~vE~~l~~lI~~g~i~akID~ 319 (358)
..||..|..|...|.|.++||.
T Consensus 62 ~~VE~~Liqlaq~G~l~~kI~d 83 (107)
T PF01984_consen 62 RQVENQLIQLAQSGQLRGKIDD 83 (107)
T ss_dssp HHHHHHHHHHHHCTSSSS-B-H
T ss_pred HHHHHHHHHHHHcCCCCCCcCH
Confidence 4799999999999999999984
No 348
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=33.12 E-value=6.9e+02 Score=27.41 Aligned_cols=189 Identities=11% Similarity=0.035 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhhhhhHHHhhh------------hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHH
Q 018294 48 QTTLKALEEAKNERLWFKTNL------------KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAI 115 (358)
Q Consensus 48 ~~~~~~i~~~~~~r~~~~~~~------------~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~ 115 (358)
+.+.+.+.+.=++-.|.|... +|+..+...|++++|..++.+.... ....+.++..
T Consensus 3 ~~~~~~~~~~~~ee~~~r~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~------------~P~~i~~yy~ 70 (906)
T PRK14720 3 NIDIDKLTSLLNEEKWTRADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE------------HKKSISALYI 70 (906)
T ss_pred hhhHHHHHHHhhhhhhhhcccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh------------CCcceehHHH
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhh-------------hcHHHHHHHHHHHhhhhhh
Q 018294 116 EIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAE-------------RQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 116 ~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~-------------~~y~~A~~~f~e~~~~~~~ 182 (358)
..-+++..+++..+--. .+..+...-..+.+..-+..+.|.+.-.. +++.+|...+-++.
T Consensus 71 ~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L----- 143 (906)
T PRK14720 71 SGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLV----- 143 (906)
T ss_pred HHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHH-----
Q ss_pred hcchhHHHHHHHHHHHHHhhCCCCCCcCCcccccCCCCccHHHHHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHH
Q 018294 183 AGNQRRIQCLKYLVLANMLMESEVNPFDGQEAKPYKNDPEILAMTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYI 262 (358)
Q Consensus 183 ~~~~~~~~~l~y~~l~~lL~~~~~~~~~~~~~~~~~~~p~~~~l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~ 262 (358)
.-++....++.+++-.--.. .+ +.....++..+..|.+.. ++.++++-....+..++.=....
T Consensus 144 ~~D~~n~~aLNn~AY~~ae~--dL-------------~KA~~m~~KAV~~~i~~k--q~~~~~e~W~k~~~~~~~d~d~f 206 (906)
T PRK14720 144 KADRDNPEIVKKLATSYEEE--DK-------------EKAITYLKKAIYRFIKKK--QYVGIEEIWSKLVHYNSDDFDFF 206 (906)
T ss_pred hcCcccHHHHHHHHHHHHHh--hH-------------HHHHHHHHHHHHHHHhhh--cchHHHHHHHHHHhcCcccchHH
Q ss_pred HHHHHHHHHH
Q 018294 263 EDLLKNVRTQ 272 (358)
Q Consensus 263 ~~L~~~i~~~ 272 (358)
-.+.++|..+
T Consensus 207 ~~i~~ki~~~ 216 (906)
T PRK14720 207 LRIERKVLGH 216 (906)
T ss_pred HHHHHHHHhh
No 349
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=33.11 E-value=77 Score=19.61 Aligned_cols=28 Identities=7% Similarity=0.141 Sum_probs=21.8
Q ss_pred chhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 285 RIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
++.++|+.+|++..-+..++. .|.+.+.
T Consensus 2 s~~e~a~~lgvs~~tl~~~~~----~g~~~~~ 29 (49)
T cd04762 2 TTKEAAELLGVSPSTLRRWVK----EGKLKAI 29 (49)
T ss_pred CHHHHHHHHCcCHHHHHHHHH----cCCCCce
Confidence 678999999999988886655 5777653
No 350
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=33.09 E-value=63 Score=20.63 Aligned_cols=22 Identities=23% Similarity=0.336 Sum_probs=19.4
Q ss_pred ccccccchhhHHhHhCCChHHH
Q 018294 279 KPYTRIRIPFISKELNVPEKDV 300 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~v 300 (358)
+.|..+++..||+..|++...+
T Consensus 12 ~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 12 KGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHTTTSSHHHHHHHHTSCHHHH
T ss_pred hCHHhCCHHHHHHHHccchhhH
Confidence 5799999999999999997654
No 351
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=32.68 E-value=3.2e+02 Score=23.51 Aligned_cols=47 Identities=9% Similarity=-0.116 Sum_probs=38.3
Q ss_pred hcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCE
Q 018294 277 LIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRL 323 (358)
Q Consensus 277 ~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~ 323 (358)
++.....++..+||+.++++..-+=..+-+|-..|.|.=..|..++.
T Consensus 53 ~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR 99 (185)
T PRK13777 53 IAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKR 99 (185)
T ss_pred HHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCC
Confidence 33334578999999999999999999999999999998666666553
No 352
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=32.39 E-value=3.9e+02 Score=24.35 Aligned_cols=58 Identities=14% Similarity=0.192 Sum_probs=41.5
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHH
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQL 132 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~ 132 (358)
-++..|++|++.|.+..|..-.+++.+.-++. +..-+-+......|..+|-...|+..
T Consensus 169 ~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t---------~~~~eaL~~l~eaY~~lgl~~~a~~~ 226 (254)
T COG4105 169 HEMAIARYYLKRGAYVAAINRFEEVLENYPDT---------SAVREALARLEEAYYALGLTDEAKKT 226 (254)
T ss_pred HHHHHHHHHHHhcChHHHHHHHHHHHhccccc---------cchHHHHHHHHHHHHHhCChHHHHHH
Confidence 35789999999999999998888888775432 23344444555677788877766643
No 353
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=32.19 E-value=1.7e+02 Score=27.40 Aligned_cols=59 Identities=7% Similarity=0.006 Sum_probs=41.0
Q ss_pred HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHH
Q 018294 65 KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQK 135 (358)
Q Consensus 65 ~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~ 135 (358)
++--+.|+.|.++|.+.+|.++.+.....=. .--+.+-..++++..+||-..+...|++
T Consensus 280 kllgkva~~yle~g~~neAi~l~qr~ltldp------------L~e~~nk~lm~~la~~gD~is~~khyer 338 (361)
T COG3947 280 KLLGKVARAYLEAGKPNEAIQLHQRALTLDP------------LSEQDNKGLMASLATLGDEISAIKHYER 338 (361)
T ss_pred HHHHHHHHHHHHcCChHHHHHHHHHHhhcCh------------hhhHHHHHHHHHHHHhccchhhhhHHHH
Confidence 4444788899999999999999988877621 1122334556777788886666655554
No 354
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=32.08 E-value=4.5e+02 Score=28.53 Aligned_cols=109 Identities=14% Similarity=0.231 Sum_probs=61.3
Q ss_pred HHHHHHHHhcCCCCCChhHHHHHHHHHHH-------HHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHH-------HHHH
Q 018294 24 CINNIMDFVSGSASQNFSLLREFYQTTLK-------ALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSK-------ILKE 89 (358)
Q Consensus 24 ~v~~~l~~~~~~~~~~~~~~~~~~~~~~~-------~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~-------~l~~ 89 (358)
.|...+++++++.. . ..++..++.+ +++...++++| .=-|.+++..|+.+.|+. .+.-
T Consensus 873 Di~~AleyyEK~~~--h--afev~rmL~e~p~~~e~Yv~~~~d~~L~----~WWgqYlES~GemdaAl~~Y~~A~D~fs~ 944 (1416)
T KOG3617|consen 873 DIEAALEYYEKAGV--H--AFEVFRMLKEYPKQIEQYVRRKRDESLY----SWWGQYLESVGEMDAALSFYSSAKDYFSM 944 (1416)
T ss_pred cHHHHHHHHHhcCC--h--HHHHHHHHHhChHHHHHHHHhccchHHH----HHHHHHHhcccchHHHHHHHHHhhhhhhh
Confidence 48888999988543 1 2333333333 22222222221 235677778887666554 4444
Q ss_pred HHHhcccCCCC-----cchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccC
Q 018294 90 LHKSCQREDGT-----DDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAI 143 (358)
Q Consensus 90 l~~~~~~~~~~-----~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~ 143 (358)
++..|....-. -++ ...+.-.| ...|.|-..|++.+|-.++++|....++|
T Consensus 945 VrI~C~qGk~~kAa~iA~e--sgd~AAcY-hlaR~YEn~g~v~~Av~FfTrAqafsnAI 1000 (1416)
T KOG3617|consen 945 VRIKCIQGKTDKAARIAEE--SGDKAACY-HLARMYENDGDVVKAVKFFTRAQAFSNAI 1000 (1416)
T ss_pred eeeEeeccCchHHHHHHHh--cccHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 55555432100 001 11123332 34688989999999999999998887776
No 355
>PF10938 YfdX: YfdX protein; InterPro: IPR021236 YfdX is a protein found in Proteobacteria of unknown function. The protein coding for this gene is regulated by EvgA in Escherichia coli []. ; PDB: 3DZA_C.
Probab=31.81 E-value=2.3e+02 Score=23.59 Aligned_cols=112 Identities=8% Similarity=0.053 Sum_probs=62.7
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCC------C---------------------CcchhhhhhHHHHHHHHHHHH
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQRED------G---------------------TDDQKKGSQLLEVYAIEIQMY 120 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~------~---------------------~~~~~~~~~~~e~~~~~~~~~ 120 (358)
+..|...+..|+.++|.+.|.+....+.... . +.|........+-......-.
T Consensus 6 i~~Ar~aL~~g~~~~A~~~L~~A~~~l~~~~~~~p~~~~~~~~~~~~~~~~iPI~~~~~v~d~~~~~~~~~~ai~~a~~~ 85 (155)
T PF10938_consen 6 IQKARLALFQGDTDEAKKLLEDAQGKLDAARADDPKLAKAEKILPPAKDDLIPIDAEVIVIDDYVPTPEKKAAIKTANEL 85 (155)
T ss_dssp HHHHHHHHCTT-HHHHHHHHHHHHHHHTS-HHHHHCCB-TT-S--SSSS-EEEEEEEEEEE------HHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhcChHhHhhhhccccCCCceEEEeeEEEEeeccCChHHHHHHHHHHHHH
Confidence 4678888999999999999888877554210 0 000001122344445566667
Q ss_pred HHhcCHHHHHHHHHHHHhhhcc-CC-ChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhh
Q 018294 121 TETKNNKKLKQLYQKALAIKSA-IP-HPRIMGIIRECGGKMHMAERQWADAATDFFEAFKN 179 (358)
Q Consensus 121 ~~~~d~~~a~~~l~~a~~~~~~-~~-~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~ 179 (358)
+..|+...|+..+..+..-..- .. -|.-+-.-....+.-.+.+|+|.+|..-+-.+.++
T Consensus 86 l~~g~~~~A~~~L~~~~~ei~~~~~~lPL~~~~~av~~A~~ll~~~k~~eA~~aL~~A~~~ 146 (155)
T PF10938_consen 86 LKKGDKQAAREILKLAGSEIDITTALLPLAQTPAAVKQAAALLDEGKYYEANAALKQALDG 146 (155)
T ss_dssp HHTT-HHHHHHHHHHTT-EEEEEEEEEEHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred HhCCCHHHHHHHHHHhcccceeeeeeCCHHhhHHHHHHHHHHHHCCCHHHHHHHHHHHhcC
Confidence 8889999999888865331110 00 13222222233466677889999988877766544
No 356
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=31.76 E-value=1.3e+02 Score=27.76 Aligned_cols=44 Identities=23% Similarity=0.327 Sum_probs=38.2
Q ss_pred HHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 273 VLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 273 ~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
++..+.+| ++++.+.+.++++..-+-..+-++|..|.+.|+|--
T Consensus 185 ~l~a~T~P---t~l~~l~~~~~~~~~l~~~il~~Li~~~~l~G~i~G 228 (272)
T PF09743_consen 185 ALSAITRP---TPLSSLLKRYGFEEKLFQSILEELIKSGELPGSIVG 228 (272)
T ss_pred HHhcCccc---eEHHHHHHHhCCcHHHHHHHHHHHHhcCcceEEEEC
Confidence 44455555 899999999999999999999999999999998876
No 357
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=31.72 E-value=44 Score=20.70 Aligned_cols=19 Identities=16% Similarity=0.251 Sum_probs=14.8
Q ss_pred chhhHHhHhCCChHHHHHH
Q 018294 285 RIPFISKELNVPEKDVEQL 303 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~ 303 (358)
++..||+.+|++.+++..+
T Consensus 8 tl~~IA~~~~~~~~~l~~~ 26 (44)
T PF01476_consen 8 TLWSIAKRYGISVDELMEL 26 (44)
T ss_dssp -HHHHHHHTTS-HHHHHHH
T ss_pred cHHHHHhhhhhhHhHHHHh
Confidence 5788999999999988764
No 358
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=31.59 E-value=1.6e+02 Score=29.80 Aligned_cols=55 Identities=16% Similarity=0.035 Sum_probs=37.5
Q ss_pred HHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 117 IQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 117 ~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.-.+...|++..|...+++|...+ |.. .-..+.|.++...|++.+|...|..++.
T Consensus 427 a~~~~~~g~~~~A~~~l~rAl~L~-----ps~--~a~~~lG~~~~~~G~~~eA~~~~~~A~~ 481 (517)
T PRK10153 427 AVQALVKGKTDEAYQAINKAIDLE-----MSW--LNYVLLGKVYELKGDNRLAADAYSTAFN 481 (517)
T ss_pred HHHHHhcCCHHHHHHHHHHHHHcC-----CCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 334455688888888888877653 221 2334557888888888888888877763
No 359
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=31.39 E-value=24 Score=21.03 Aligned_cols=17 Identities=18% Similarity=0.538 Sum_probs=14.9
Q ss_pred hhhHHHHhhhchHhHHH
Q 018294 68 LKLCKIWFDMGEYGRMS 84 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~ 84 (358)
..||.+|...|++++|.
T Consensus 17 ~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 17 NNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHCcCHHhhc
Confidence 46999999999999885
No 360
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=31.38 E-value=5.5e+02 Score=25.74 Aligned_cols=94 Identities=9% Similarity=-0.072 Sum_probs=64.4
Q ss_pred HHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhH
Q 018294 71 CKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMG 150 (358)
Q Consensus 71 a~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~ 150 (358)
|=++-..+++++|.+++..+.++...++ ...+-|++...+-..+.++|.+.++..+..-.+.....+
T Consensus 13 gf~Lqkq~~~~esEkifskI~~e~~~~~-------f~lkeEvl~grilnAffl~nld~Me~~l~~l~~~~~~s~------ 79 (549)
T PF07079_consen 13 GFILQKQKKFQESEKIFSKIYDEKESSP-------FLLKEEVLGGRILNAFFLNNLDLMEKQLMELRQQFGKSA------ 79 (549)
T ss_pred hHHHHHHhhhhHHHHHHHHHHHHhhcch-------HHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHhcCCch------
Confidence 3445567899999999999988865321 355668888877778889999999888776655432211
Q ss_pred HHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 151 IIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 151 ~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
-+-...|+++-+++.|..|...|.-.+
T Consensus 80 ~l~LF~~L~~Y~~k~~~kal~~ls~w~ 106 (549)
T PF07079_consen 80 YLPLFKALVAYKQKEYRKALQALSVWK 106 (549)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 122344667777888888877665543
No 361
>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=31.37 E-value=1.6e+02 Score=26.78 Aligned_cols=61 Identities=15% Similarity=0.231 Sum_probs=31.7
Q ss_pred HHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHH---HhhhhhHHHHhhhchHhHHHHHH
Q 018294 23 KCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWF---KTNLKLCKIWFDMGEYGRMSKIL 87 (358)
Q Consensus 23 ~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~---~~~~~la~~~~~~g~~~~a~~~l 87 (358)
..+.++++-+...|...+ .+.++++.++. |+..+.-.. .+...+|..+.+.|++.+|...+
T Consensus 50 ~~~~rl~~l~~~~~~~~p-~r~~fi~~ai~---WS~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hf 113 (260)
T PF04190_consen 50 ESIARLIELISLFPPEEP-ERKKFIKAAIK---WSKFGSYKFGDPELHHLLAEKLWKEGNYYEAERHF 113 (260)
T ss_dssp HHHHHHHHHHHHS-TT-T-THHHHHHHHHH---HHHTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCcc-hHHHHHHHHHH---HHccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Confidence 344555555544432112 25555555444 442221111 55567899999999988887554
No 362
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=31.24 E-value=52 Score=21.15 Aligned_cols=29 Identities=21% Similarity=0.162 Sum_probs=18.9
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcC
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDN 311 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g 311 (358)
-.+...||+.||+|..-|..++-+.-..|
T Consensus 17 G~s~~~ia~~lgvs~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 17 GWSIREIAKRLGVSRSTVYRWIKRYREEG 45 (50)
T ss_dssp T--HHHHHHHHTS-HHHHHHHHT------
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHccccc
Confidence 67899999999999999999988766555
No 363
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=31.05 E-value=65 Score=27.83 Aligned_cols=36 Identities=17% Similarity=0.158 Sum_probs=31.5
Q ss_pred cchhhHHhHhCCC-hHHHHHHHHHhhhcCccceeeec
Q 018294 284 IRIPFISKELNVP-EKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 284 I~l~~la~~l~l~-~~~vE~~l~~lI~~g~i~akID~ 319 (358)
.+..+||+.+|++ ..-+-..|.+|...|.|...-.+
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~~~ 62 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIERDPGK 62 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCCCC
Confidence 7899999999998 99999999999999998654333
No 364
>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain. It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.
Probab=31.02 E-value=1.3e+02 Score=22.14 Aligned_cols=50 Identities=16% Similarity=0.141 Sum_probs=36.9
Q ss_pred HHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 273 VLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 273 ~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
++-.-.+.|.=|+++.|++..|++..+++..|.+++..|.+.-+.-.-+|
T Consensus 14 aiE~gmk~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~~kLv~~~~~~Y~G 63 (82)
T PF09202_consen 14 AIEMGMKNHEWVPLELIEKISGLSEGEVEKRLKRLVKLKLVSRRNKPYDG 63 (82)
T ss_dssp HHHTTTTT-SSEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE-SSS-E
T ss_pred HHHHcccCCccCCHHHHHHHhCcCHHHHHHHHHHHHhcCCccccCCCcce
Confidence 33444578999999999999999999999999999999998664433344
No 365
>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]
Probab=30.79 E-value=3.2e+02 Score=28.23 Aligned_cols=138 Identities=15% Similarity=0.191 Sum_probs=81.7
Q ss_pred chhhhHHHHHHHHHHhcCCCCCChhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHh-hhchHhHHHHHHHHHHHhcc
Q 018294 17 TRNYSEKCINNIMDFVSGSASQNFSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWF-DMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 17 ~~~~~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~-~~g~~~~a~~~l~~l~~~~~ 95 (358)
++.+.++.....+..+.+-.-+ .+-.-.++..... .+++-+|+.++ +|-+|. ..|+-..|.++|......-.
T Consensus 566 ~~~~~~~~~k~~~~r~~~~~i~-e~e~~~~~~~~~~----~~~~p~w~~ln--~aglywr~~gn~~~a~~cl~~a~~~~p 638 (886)
T KOG4507|consen 566 AKMPDDHARKILLSRINNYTIP-EEEIGSFLFHAIN----KPNAPIWLILN--EAGLYWRAVGNSTFAIACLQRALNLAP 638 (886)
T ss_pred ccCchHHHHHHHHHHHhcccCc-HHHHHHHHHHHhc----CCCCCeEEEee--cccceeeecCCcHHHHHHHHHHhccCh
Confidence 4556666666666665431111 2223333333333 25666776655 888887 55899999998887765532
Q ss_pred cCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHH
Q 018294 96 REDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFE 175 (358)
Q Consensus 96 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e 175 (358)
.. .+ ..++. .+.+.+..+=...|-.++.++..++.+ +|.. ....|.+++...|-..|.+.|.+
T Consensus 639 ~~---~~----v~~v~----la~~~~~~~~~~da~~~l~q~l~~~~s--epl~----~~~~g~~~l~l~~i~~a~~~~~~ 701 (886)
T KOG4507|consen 639 LQ---QD----VPLVN----LANLLIHYGLHLDATKLLLQALAINSS--EPLT----FLSLGNAYLALKNISGALEAFRQ 701 (886)
T ss_pred hh---hc----ccHHH----HHHHHHHhhhhccHHHHHHHHHhhccc--CchH----HHhcchhHHHHhhhHHHHHHHHH
Confidence 11 01 11222 223333444555677788888877632 3432 34458889999999999999999
Q ss_pred Hhh
Q 018294 176 AFK 178 (358)
Q Consensus 176 ~~~ 178 (358)
+..
T Consensus 702 a~~ 704 (886)
T KOG4507|consen 702 ALK 704 (886)
T ss_pred HHh
Confidence 875
No 366
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=30.70 E-value=1.8e+02 Score=19.98 Aligned_cols=32 Identities=28% Similarity=0.466 Sum_probs=24.5
Q ss_pred HHhhhhhHHHHhhhchHhHHHHHHHHHHHhcc
Q 018294 64 FKTNLKLCKIWFDMGEYGRMSKILKELHKSCQ 95 (358)
Q Consensus 64 ~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~ 95 (358)
+.-.+....-+++.|++++|.+.+.++...+.
T Consensus 23 ~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~~ 54 (62)
T PF14689_consen 23 FLNHLQVIYGLLQLGKYEEAKEYIKELSKDLQ 54 (62)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 34445677778999999999999999887753
No 367
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=30.63 E-value=1.8e+02 Score=28.48 Aligned_cols=72 Identities=10% Similarity=0.063 Sum_probs=48.6
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccc--hHHHHH---------HHHHHHHHHHH
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGM--KKYTAI---------DKWNSQLRSLY 350 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~--~~~~~l---------~~w~~~i~~l~ 350 (358)
..++.++|++.+++|++.++..+.+|...|.+. +-+ .++.+-..++++.+ +.++.+ ..|..+++.++
T Consensus 309 ~~~t~~~La~~l~~~~~~v~~iL~~L~~agLI~-~~~-~g~~~l~rd~~~itL~dv~~~~~~~~~~~~~~~~~~~~~~~l 386 (412)
T PRK04214 309 KALDVDEIRRLEPMGYDELGELLCELARIGLLR-RGE-RGQWVLARDLDSVPLAELYELFVLRPLPCRDDHVGQAADAAL 386 (412)
T ss_pred CCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCeE-ecC-CCceEecCCHHhCcHHHHHHhCCCCcCCCccchHHHHHHHHH
Confidence 478999999999999999999999999999995 322 22344444433321 122211 24777777777
Q ss_pred HHHhh
Q 018294 351 QTVSN 355 (358)
Q Consensus 351 ~~v~~ 355 (358)
..++.
T Consensus 387 ~~~~~ 391 (412)
T PRK04214 387 TQLRQ 391 (412)
T ss_pred HHHHH
Confidence 66553
No 368
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=30.61 E-value=64 Score=25.48 Aligned_cols=33 Identities=12% Similarity=0.213 Sum_probs=31.3
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
..+++++||+.+..|.--+-.+|-+|...|-|.
T Consensus 18 ~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~ 50 (115)
T PF12793_consen 18 VEVTLDELAELLFCSRRNARTLLKKMQEEGWIT 50 (115)
T ss_pred cceeHHHHHHHhCCCHHHHHHHHHHHHHCCCee
Confidence 479999999999999999999999999999995
No 369
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=30.60 E-value=1.5e+02 Score=22.12 Aligned_cols=37 Identities=5% Similarity=-0.093 Sum_probs=34.2
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
.|+-|+-..+|+.+++...-+...|-.|-..|.|.-.
T Consensus 38 ~~K~ITps~lserlkI~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 38 KEKIVTPYTLASKYGIKISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred cCcEEcHHHHHHHhcchHHHHHHHHHHHHHCCCEEEE
Confidence 3899999999999999999999999999999999755
No 370
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=30.46 E-value=1e+02 Score=25.84 Aligned_cols=28 Identities=11% Similarity=0.179 Sum_probs=24.5
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
+.-.++++||+.+|+|+.-|...+.++.
T Consensus 143 ~~g~s~~eIA~~lgis~~tV~~~l~Rar 170 (179)
T PRK12514 143 LEGLSYKELAERHDVPLNTMRTWLRRSL 170 (179)
T ss_pred HcCCCHHHHHHHHCCChHHHHHHHHHHH
Confidence 5667899999999999999999888764
No 371
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=30.44 E-value=5.2e+02 Score=25.17 Aligned_cols=59 Identities=14% Similarity=0.205 Sum_probs=44.7
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALA 138 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~ 138 (358)
+-.+++.+..||++.|..-+.++..... ...++.-+..+.|+..|++..+-.++.+-.+
T Consensus 157 ltrarlll~~~d~~aA~~~v~~ll~~~p------------r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~k 215 (400)
T COG3071 157 LTRARLLLNRRDYPAARENVDQLLEMTP------------RHPEVLRLALRAYIRLGAWQALLAILPKLRK 215 (400)
T ss_pred HHHHHHHHhCCCchhHHHHHHHHHHhCc------------CChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 4578888899999999988888887743 2455666677889999999888777776543
No 372
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=30.37 E-value=1.7e+02 Score=25.85 Aligned_cols=62 Identities=10% Similarity=0.014 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
+..++.|+...+..-.+|=.++ +-..||+.||+|-.-|-.-|..|..+|.|.- -+..|+++.
T Consensus 10 ~~~~~~l~~~I~~g~l~pG~~LPsE~eLae~~gVSRt~VReAL~~L~~eGlv~~--~~g~G~~V~ 72 (239)
T PRK04984 10 GFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTI--QHGKPTKVN 72 (239)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--eCCCeeEeC
Confidence 3456666666666666787899 6889999999999999999999999999974 344566664
No 373
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=30.25 E-value=6e+02 Score=25.80 Aligned_cols=92 Identities=18% Similarity=0.228 Sum_probs=62.4
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
.-|+-++..|||.+|.+.+.+....- | +| ...|....-.|+.++++..|-.-.+++... .++.+
T Consensus 363 ~kGne~Fk~gdy~~Av~~YteAIkr~--P---~D-------a~lYsNRAac~~kL~~~~~aL~Da~~~ieL----~p~~~ 426 (539)
T KOG0548|consen 363 EKGNEAFKKGDYPEAVKHYTEAIKRD--P---ED-------ARLYSNRAACYLKLGEYPEALKDAKKCIEL----DPNFI 426 (539)
T ss_pred HHHHHHHhccCHHHHHHHHHHHHhcC--C---ch-------hHHHHHHHHHHHHHhhHHHHHHHHHHHHhc----CchHH
Confidence 34777889999999999999855542 1 22 234455556677888888766554444332 12334
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
.+.++. |.++.+.++|..|...|.++.+
T Consensus 427 kgy~RK--g~al~~mk~ydkAleay~eale 454 (539)
T KOG0548|consen 427 KAYLRK--GAALRAMKEYDKALEAYQEALE 454 (539)
T ss_pred HHHHHH--HHHHHHHHHHHHHHHHHHHHHh
Confidence 455554 8888889999999998888764
No 374
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=30.14 E-value=93 Score=25.97 Aligned_cols=50 Identities=16% Similarity=0.108 Sum_probs=37.8
Q ss_pred hcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 277 LIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 277 ~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
+.+.--.+...+||+.|++++.-|-..+-+|-..|.+.= .+.|-+..++.
T Consensus 18 l~~~~~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~---~~y~gi~LT~~ 67 (154)
T COG1321 18 LLEEKGFARTKDIAERLKVSPPSVTEMLKRLERLGLVEY---EPYGGVTLTEK 67 (154)
T ss_pred HHhccCcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEE---ecCCCeEEChh
Confidence 344445689999999999999999999999998876632 15566666643
No 375
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=29.99 E-value=5.1e+02 Score=24.92 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=13.4
Q ss_pred HHHHhcccccccchhhHHhHhC
Q 018294 273 VLLKLIKPYTRIRIPFISKELN 294 (358)
Q Consensus 273 ~l~~~~~~y~~I~l~~la~~l~ 294 (358)
++..+++.|.+=++.....+|+
T Consensus 287 AmkavAeA~~nRSLkdF~~AL~ 308 (411)
T KOG1463|consen 287 AMKAVAEAFGNRSLKDFEKALA 308 (411)
T ss_pred HHHHHHHHhcCCcHHHHHHHHH
Confidence 4455556666666666666654
No 376
>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].
Probab=29.99 E-value=1.2e+02 Score=18.70 Aligned_cols=21 Identities=19% Similarity=0.515 Sum_probs=10.8
Q ss_pred hhhHhhhhcHHHHHHHHHHHh
Q 018294 157 GKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~ 177 (358)
|-+.+...+|..|..+|..+.
T Consensus 8 geisle~e~f~qA~~D~~~aL 28 (38)
T PF10516_consen 8 GEISLENENFEQAIEDYEKAL 28 (38)
T ss_pred HHHHHHhccHHHHHHHHHHHH
Confidence 444455555555555555543
No 377
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=29.77 E-value=2.3e+02 Score=20.88 Aligned_cols=52 Identities=10% Similarity=0.062 Sum_probs=37.4
Q ss_pred HhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 018294 74 WFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQ 134 (358)
Q Consensus 74 ~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~ 134 (358)
+++..+.++|......+....+++ ...+.++-+.++.|...|.+..+-.+-.
T Consensus 16 LY~~~~~~~Al~~W~~aL~k~~~~---------~~rf~~lG~l~qA~~e~Gkyr~~L~fA~ 67 (80)
T PF10579_consen 16 LYHQNETQQALQKWRKALEKITDR---------EDRFRVLGYLIQAHMEWGKYREMLAFAL 67 (80)
T ss_pred HhccchHHHHHHHHHHHHhhcCCh---------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447778888988888888776543 3467777777888888887776555433
No 378
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=29.76 E-value=60 Score=28.55 Aligned_cols=28 Identities=18% Similarity=0.269 Sum_probs=24.5
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+++++.+||+.||++..-+...|.++..
T Consensus 177 R~~~l~dLA~~lGISkst~~ehLRrAe~ 204 (215)
T COG3413 177 RRVSLKDLAKELGISKSTLSEHLRRAER 204 (215)
T ss_pred ccCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 7999999999999999888888877653
No 379
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.70 E-value=3.9e+02 Score=23.51 Aligned_cols=89 Identities=10% Similarity=0.041 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHhcC-------HHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 105 KGSQLLEVYAIEIQMYTETKN-------NKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 105 ~~~~~~e~~~~~~~~~~~~~d-------~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
+.+.+..+++..+=+|..+|| +.+|...|.+|-...+....+.-...+..+.|.++..-|++.+|.+.|-..+
T Consensus 113 ~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi 192 (214)
T PF09986_consen 113 KPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVI 192 (214)
T ss_pred CHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q ss_pred hhhhhhcchhHHHHHH
Q 018294 178 KNYDEAGNQRRIQCLK 193 (358)
Q Consensus 178 ~~~~~~~~~~~~~~l~ 193 (358)
........+.-+...+
T Consensus 193 ~~~~~s~~~~l~~~AR 208 (214)
T PF09986_consen 193 GSKKASKEPKLKDMAR 208 (214)
T ss_pred cCCCCCCcHHHHHHHH
No 380
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=29.51 E-value=95 Score=28.03 Aligned_cols=34 Identities=15% Similarity=0.154 Sum_probs=31.0
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhhcCccc
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ 314 (358)
...+++++||+.+|+|..-+-.++..|...|-+.
T Consensus 26 ~~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~ 59 (257)
T PRK15090 26 EREIGITELSQRVMMSKSTVYRFLQTMKTLGYVA 59 (257)
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 3568999999999999999999999999998874
No 381
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=29.42 E-value=85 Score=20.75 Aligned_cols=37 Identities=16% Similarity=0.291 Sum_probs=27.3
Q ss_pred HHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 272 QVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 272 ~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
+.++.+..--...++..+|..||++..-|-+++...+
T Consensus 8 ~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 8 QLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 3334444444678999999999999988888777655
No 382
>TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393).
Probab=29.19 E-value=1e+02 Score=28.30 Aligned_cols=32 Identities=16% Similarity=0.282 Sum_probs=27.5
Q ss_pred cccccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 278 IKPYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 278 ~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+..|.-.|+.+||+.+|+|+.-|...+.+++.
T Consensus 237 L~~~e~~s~~EIA~~Lgis~~tVk~~l~rAlk 268 (285)
T TIGR02394 237 LLGYEPATLEEVAAEVGLTRERVRQIQVEALK 268 (285)
T ss_pred CCCCCCccHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 34578899999999999999999999888663
No 383
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=29.07 E-value=6.2e+02 Score=25.61 Aligned_cols=82 Identities=20% Similarity=0.275 Sum_probs=42.1
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhhHH-HhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHH
Q 018294 40 FSLLREFYQTTLKALEEAKNERLWF-KTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQ 118 (358)
Q Consensus 40 ~~~~~~~~~~~~~~i~~~~~~r~~~-~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 118 (358)
.+...++|..|++.| ...+..| |+=+..|++...+-++..|.++|-...-.|+++ + .+ . .-|.
T Consensus 382 ~ertr~vyq~~l~lI---PHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~-----K---lF--k---~YIe 445 (677)
T KOG1915|consen 382 VERTRQVYQACLDLI---PHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKD-----K---LF--K---GYIE 445 (677)
T ss_pred HHHHHHHHHHHHhhc---CcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCch-----h---HH--H---HHHH
Confidence 444455555555531 2223323 555566666666667777777776666666431 1 11 1 1122
Q ss_pred HHHHhcCHHHHHHHHHHHH
Q 018294 119 MYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 119 ~~~~~~d~~~a~~~l~~a~ 137 (358)
+-+.++++++++.+|.+=.
T Consensus 446 lElqL~efDRcRkLYEkfl 464 (677)
T KOG1915|consen 446 LELQLREFDRCRKLYEKFL 464 (677)
T ss_pred HHHHHhhHHHHHHHHHHHH
Confidence 3345566666666666543
No 384
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=28.93 E-value=1.4e+02 Score=26.78 Aligned_cols=63 Identities=10% Similarity=0.140 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
+.+++.++...+..-++|=.++ +-..||+.||+|-.-|-.-|..|-..|.|.-+ +..|+.+..
T Consensus 13 ~~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~lgVSRtpVREAL~~L~~eGlv~~~--~~~G~~V~~ 76 (254)
T PRK09464 13 DVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRR--QGGGTFVQS 76 (254)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--cCceeEEec
Confidence 4566777776666667888899 89999999999999999999999999999754 345655543
No 385
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=28.86 E-value=1.3e+02 Score=25.22 Aligned_cols=44 Identities=5% Similarity=0.050 Sum_probs=37.6
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
..++.+++|+.|+++.+.++ ++-..+.+...-|+..+++.+...
T Consensus 97 ~~l~~dElA~sF~l~~e~i~----qLr~~kiltVh~De~G~Ii~V~~~ 140 (153)
T PRK14584 97 PDLDDDELASSFALSPELIA----QLKSGSCLTLYNDEHGHIIDVKEG 140 (153)
T ss_pred CCCChHHHHHHcCCCHHHHH----HHHhCCeEEEEECCCCCEEEeecC
Confidence 57899999999999998876 566677788999999999999753
No 386
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=28.70 E-value=2.3e+02 Score=25.12 Aligned_cols=97 Identities=18% Similarity=0.249 Sum_probs=53.0
Q ss_pred hhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHH-hhCCC--CCCcCCcccccCCCCccHHHHHHHHH-H
Q 018294 157 GKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANM-LMESE--VNPFDGQEAKPYKNDPEILAMTNLIA-A 232 (358)
Q Consensus 157 g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~l-L~~~~--~~~~~~~~~~~~~~~p~~~~l~~L~~-a 232 (358)
|--++..|+|.+|.+.|.++++.++......+.-++..-+.|.| |...+ ++. .++ .....|.. .+.|.. |
T Consensus 102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~d-csK---aiel~pty--~kAl~RRA 175 (271)
T KOG4234|consen 102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIED-CSK---AIELNPTY--EKALERRA 175 (271)
T ss_pred HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHH-HHh---hHhcCchh--HHHHHHHH
Confidence 55567789999999999999988876654322222222233333 11100 110 010 01112321 122222 4
Q ss_pred HHhCCHHHHHHHHHHhhhhhcCChhHH
Q 018294 233 YQRNEIIEFEKILKSNRKTIMDDPFIR 259 (358)
Q Consensus 233 f~~~d~~~f~~~l~~~~~~l~~D~~l~ 259 (358)
+--.....|+..++.|+..+..||-..
T Consensus 176 eayek~ek~eealeDyKki~E~dPs~~ 202 (271)
T KOG4234|consen 176 EAYEKMEKYEEALEDYKKILESDPSRR 202 (271)
T ss_pred HHHHhhhhHHHHHHHHHHHHHhCcchH
Confidence 433445789999999999888898653
No 387
>PLN03077 Protein ECB2; Provisional
Probab=28.66 E-value=7.6e+02 Score=26.55 Aligned_cols=51 Identities=8% Similarity=0.127 Sum_probs=29.1
Q ss_pred hHHHHHHHHHhhhcCccc--e--eeeccCCEEEEc-----cCCccchHHHHHHHHHHHHHH
Q 018294 297 EKDVEQLLVSLILDNRID--G--HIDQVNRLLERG-----DRSKGMKKYTAIDKWNSQLRS 348 (358)
Q Consensus 297 ~~~vE~~l~~lI~~g~i~--a--kID~~~g~v~~~-----~~~~~~~~~~~l~~w~~~i~~ 348 (358)
.+++++....|...|.-+ | -|. ++|.|+.. ..++..+.|..+.++...+..
T Consensus 707 ~~~a~~vr~~M~~~g~~k~~g~s~ie-~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~ 766 (857)
T PLN03077 707 WDEVARVRKTMRENGLTVDPGCSWVE-VKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKA 766 (857)
T ss_pred hHHHHHHHHHHHHcCCCCCCCccEEE-ECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHh
Confidence 456777777777776543 2 233 34555543 134445567777766666654
No 388
>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=28.57 E-value=2.5e+02 Score=23.70 Aligned_cols=57 Identities=9% Similarity=0.078 Sum_probs=43.2
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
.+...-+..++.+++..+|..+++.-+ ...++-+....++...|+|..|..+++...
T Consensus 15 e~~~~al~~~~~~D~e~lL~ALrvLRP------------~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~ 71 (160)
T PF09613_consen 15 EVLSVALRLGDPDDAEALLDALRVLRP------------EFPELDLFDGWLHIVRGDWDDALRLLRELE 71 (160)
T ss_pred HHHHHHHccCChHHHHHHHHHHHHhCC------------CchHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence 344445556789999999999999843 245555677788889999999999988753
No 389
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=28.30 E-value=2.1e+02 Score=30.16 Aligned_cols=103 Identities=15% Similarity=0.212 Sum_probs=54.4
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHh-----cccCCCCcchhhhhhHHHHHHHHH------HHHHHhcCHHHHHHHHH
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKS-----CQREDGTDDQKKGSQLLEVYAIEI------QMYTETKNNKKLKQLYQ 134 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~-----~~~~~~~~~~~~~~~~~e~~~~~~------~~~~~~~d~~~a~~~l~ 134 (358)
+...+|.++...|-..+|..+...+.-. |+...|.+++ .-++...++ ++|..+||+..=-.+|+
T Consensus 400 ~q~~laell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~k-----aeei~~q~lek~~d~~lyc~LGDv~~d~s~yE 474 (777)
T KOG1128|consen 400 LQRLLAELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGK-----AEEINRQELEKDPDPRLYCLLGDVLHDPSLYE 474 (777)
T ss_pred HHHHHHHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccch-----HHHHHHHHhcCCCcchhHHHhhhhccChHHHH
Confidence 3446888899999888888877776653 2222221110 111222222 24555555554444555
Q ss_pred HHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 135 KALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 135 ~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+|-.+.+ .++++-+.+-|......++|.++-.+|-.+++
T Consensus 475 kawElsn-----~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~ 513 (777)
T KOG1128|consen 475 KAWELSN-----YISARAQRSLALLILSNKDFSEADKHLERSLE 513 (777)
T ss_pred HHHHHhh-----hhhHHHHHhhccccccchhHHHHHHHHHHHhh
Confidence 5433322 12233333334444557888888888877664
No 390
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=28.06 E-value=2e+02 Score=25.76 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
+.+++.|+...+..-++|=.++ +-.+||+.||+|-.-|-.-|..|-..|.|.-+ +..|+.+..
T Consensus 5 ~~v~~~L~~~I~~g~l~pG~~LpsE~eLae~~gVSRtpVREAL~~Le~~GlV~~~--~~~G~~V~~ 68 (253)
T PRK10421 5 DEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSR--RGGGTFIRW 68 (253)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--CCCeEEEec
Confidence 4566677766666666888899 68999999999999999999999999999743 345665543
No 391
>PRK11050 manganese transport regulator MntR; Provisional
Probab=28.03 E-value=3.4e+02 Score=22.31 Aligned_cols=45 Identities=20% Similarity=0.125 Sum_probs=35.9
Q ss_pred cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccC
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDR 329 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~ 329 (358)
..++..+||+.++++..-+-..+.+|...|.|.-+. .+.+.++..
T Consensus 50 ~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~~---~~~v~LT~~ 94 (152)
T PRK11050 50 GEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMRP---YRGVFLTPE 94 (152)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec---CCceEECch
Confidence 568999999999999999999999999998775432 344555543
No 392
>PF13041 PPR_2: PPR repeat family
Probab=28.01 E-value=75 Score=20.32 Aligned_cols=27 Identities=22% Similarity=0.388 Sum_probs=22.6
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHhccc
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKSCQR 96 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~~~~ 96 (358)
+.+.+.+.|++++|.++++++...--.
T Consensus 9 li~~~~~~~~~~~a~~l~~~M~~~g~~ 35 (50)
T PF13041_consen 9 LISGYCKAGKFEEALKLFKEMKKRGIK 35 (50)
T ss_pred HHHHHHHCcCHHHHHHHHHHHHHcCCC
Confidence 566788899999999999999977433
No 393
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=27.64 E-value=84 Score=17.55 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=20.0
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
+.+-|...|++++|.+++.++...
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~~~ 29 (35)
T TIGR00756 6 LIDGLCKAGRVEEALELFKEMLER 29 (35)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHc
Confidence 455677889999999999998865
No 394
>PF01865 PhoU_div: Protein of unknown function DUF47; InterPro: IPR018445 This family includes prokaryotic proteins of unknown function, as well as a protein annotated as the pit accessory protein from Rhizobium meliloti (Sinorhizobium meliloti) (O30498 from SWISSPROT). However, the function of this protein is also unknown (Pit stands for Phosphate transport) [].; PDB: 2OLT_C 2IIU_C 3L39_A.
Probab=27.64 E-value=1.8e+02 Score=25.23 Aligned_cols=77 Identities=18% Similarity=0.346 Sum_probs=47.8
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHhhhhhcCChhHHHHHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHH
Q 018294 226 MTNLIAAYQRNEIIEFEKILKSNRKTIMDDPFIRNYIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 226 l~~L~~af~~~d~~~f~~~l~~~~~~l~~D~~l~~~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
+.++++++..+++..+...+++.. -+....+.+.+.++.+....++-|+.|-.+-.++..++=-.+.++....
T Consensus 27 ~~e~l~~~~~~~~~~~~~~~~~i~-------~lE~~aD~i~~~i~~~L~~~fitP~dRedi~~L~~~lD~I~d~i~~~a~ 99 (214)
T PF01865_consen 27 LAELLEAYLEGDYEDVEELLEEIK-------ELEHEADEIKREIREELYKSFITPFDREDILRLISSLDDIADYIEDAAK 99 (214)
T ss_dssp HHHHHHHHCTT-CHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH-SS-SS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666777777766666655432 1334456777888877777777888888888887777655666666665
Q ss_pred Hhhh
Q 018294 306 SLIL 309 (358)
Q Consensus 306 ~lI~ 309 (358)
.+..
T Consensus 100 ~l~~ 103 (214)
T PF01865_consen 100 RLSL 103 (214)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5544
No 395
>PHA02591 hypothetical protein; Provisional
Probab=27.60 E-value=63 Score=23.62 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=19.8
Q ss_pred ccchhhHHhHhCCChHHHHHHHH
Q 018294 283 RIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
-.+.+.||+.||++.+.|-+++-
T Consensus 59 GlSqeqIA~~LGVsqetVrKYL~ 81 (83)
T PHA02591 59 GFTVEKIASLLGVSVRKVRRYLE 81 (83)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHh
Confidence 46789999999999999988764
No 396
>PF10975 DUF2802: Protein of unknown function (DUF2802); InterPro: IPR021244 This bacterial family of proteins has no known function.
Probab=27.56 E-value=65 Score=23.03 Aligned_cols=23 Identities=17% Similarity=0.231 Sum_probs=19.8
Q ss_pred ccchhhHHhHhCCChHHHHHHHH
Q 018294 283 RIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
=.+.++|++.+|+|..|+|-+++
T Consensus 44 Ga~~~el~~~CgL~~aEAeLl~~ 66 (70)
T PF10975_consen 44 GASVEELMEECGLSRAEAELLLS 66 (70)
T ss_pred CCCHHHHHHHcCCCHHHHHHHHH
Confidence 46899999999999999997653
No 397
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=27.07 E-value=2.2e+02 Score=20.84 Aligned_cols=49 Identities=10% Similarity=0.026 Sum_probs=38.6
Q ss_pred HHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCE
Q 018294 275 LKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRL 323 (358)
Q Consensus 275 ~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~ 323 (358)
-.|.+.-.-|.=..||+.+++++.-+...++.+-..|.+.++--...|.
T Consensus 15 ~~Y~~~~~PVgSk~ia~~l~~s~aTIRN~M~~Le~lGlve~~p~~s~Gr 63 (78)
T PF03444_consen 15 ELYIETGEPVGSKTIAEELGRSPATIRNEMADLEELGLVESQPHPSGGR 63 (78)
T ss_pred HHHHhcCCCcCHHHHHHHHCCChHHHHHHHHHHHHCCCccCCCCCCCCC
Confidence 3444555678889999999999999999999999999987654444444
No 398
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=27.05 E-value=90 Score=29.41 Aligned_cols=47 Identities=17% Similarity=0.113 Sum_probs=40.3
Q ss_pred HHhccc-c-cccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccC
Q 018294 275 LKLIKP-Y-TRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVN 321 (358)
Q Consensus 275 ~~~~~~-y-~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~ 321 (358)
.+++.- | ...+=++||+.||+|-..|-++|.++...|-++=+|+.+.
T Consensus 19 ~~vA~lYY~~g~tQ~eIA~~lgiSR~~VsRlL~~Ar~~GiV~I~I~~~~ 67 (318)
T PRK15418 19 ARIAWFYYHDGLTQSEIGERLGLTRLKVSRLLEKGRQSGIIRVQINSRF 67 (318)
T ss_pred HHHHHHHHhcCCCHHHHHHHhCCCHHHHHHHHHHHHHcCcEEEEEeCCC
Confidence 344443 3 6889999999999999999999999999999999998763
No 399
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=26.88 E-value=1.2e+02 Score=25.58 Aligned_cols=28 Identities=11% Similarity=0.173 Sum_probs=25.2
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
+...+.++||+.||+|+.-|...+.++.
T Consensus 151 ~~g~s~~eIA~~lgis~~~v~~~l~Rar 178 (187)
T PRK12534 151 FEGITYEELAARTDTPIGTVKSWIRRGL 178 (187)
T ss_pred HcCCCHHHHHHHhCCChhHHHHHHHHHH
Confidence 5789999999999999999999988764
No 400
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=26.80 E-value=63 Score=19.93 Aligned_cols=22 Identities=18% Similarity=0.141 Sum_probs=16.7
Q ss_pred chhhHHhHhCCChHHHHHHHHH
Q 018294 285 RIPFISKELNVPEKDVEQLLVS 306 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~ 306 (358)
++.++|+.+|+++.-+-.+=..
T Consensus 1 ti~e~A~~~gvs~~tlR~ye~~ 22 (38)
T PF00376_consen 1 TIGEVAKLLGVSPRTLRYYERE 22 (38)
T ss_dssp EHHHHHHHHTS-HHHHHHHHHT
T ss_pred CHHHHHHHHCCCHHHHHHHHHC
Confidence 5789999999999988766443
No 401
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=26.78 E-value=2.4e+02 Score=23.51 Aligned_cols=63 Identities=13% Similarity=0.148 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHh
Q 018294 109 LLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAF 177 (358)
Q Consensus 109 ~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~ 177 (358)
.+.-+...+...+..++...+..+++.-+-. -|+ ...++.+-|.+++..|+|.+|.+.|.+.-
T Consensus 9 iv~gLi~~~~~aL~~~d~~D~e~lLdALrvL-----rP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~ 71 (153)
T TIGR02561 9 LLGGLIEVLMYALRSADPYDAQAMLDALRVL-----RPN-LKELDMFDGWLLIARGNYDEAARILRELL 71 (153)
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCC-ccccchhHHHHHHHcCCHHHHHHHHHhhh
Confidence 3444444455566688888888887754422 222 23466778999999999999999988863
No 402
>TIGR02675 tape_meas_nterm tape measure domain. Proteins containing this domain are strictly bacterial, including bacteriophage and prophage regions of bacterial genomes. Most members are 800 to 1800 amino acids long, making them among the longest predicted proteins of their respective phage genomes, where they are encoded in tail protein regions. This roughly 80-residue domain described here usually begins between residue 100 and 250. Many members are known or predicted to act as phage tail tape measure proteins, a minor tail component that regulates tail length.
Probab=26.71 E-value=69 Score=23.12 Aligned_cols=26 Identities=12% Similarity=0.424 Sum_probs=20.5
Q ss_pred hhhHHhHhCCChHHHHHHHHHhhhcCccce
Q 018294 286 IPFISKELNVPEKDVEQLLVSLILDNRIDG 315 (358)
Q Consensus 286 l~~la~~l~l~~~~vE~~l~~lI~~g~i~a 315 (358)
+..+|+.+|++..++. +|+.+|+|.+
T Consensus 47 ~~~lAk~~G~t~~~l~----~~~~~Gkit~ 72 (75)
T TIGR02675 47 LQALAKAMGVTRGELR----KMLSDGKLTA 72 (75)
T ss_pred HHHHHHHhCCCHHHHH----HHHHCCCCcc
Confidence 4578889999988765 7888888865
No 403
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Probab=26.47 E-value=2.5e+02 Score=26.82 Aligned_cols=60 Identities=20% Similarity=0.165 Sum_probs=43.3
Q ss_pred HHHHHHHHHHH--HHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCC
Q 018294 261 YIEDLLKNVRT--QVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNR 322 (358)
Q Consensus 261 ~~~~L~~~i~~--~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g 322 (358)
|+..+..+++. +.+.+- -.+.=+..+||+.+|+++++|..+...+-..--++..|...++
T Consensus 183 h~~e~~nkl~r~~r~l~q~--~~r~p~~eeia~~l~~~~~~V~~m~~~~~~~~SLd~~ig~ded 244 (342)
T COG0568 183 HQVELINKLRRVKRELLQE--LGREPTPEEIAEELGVSPDKVREMLKRASEPISLDTPIGDDED 244 (342)
T ss_pred HHHHHHHHHHHHHHHHHHH--hcCCCCHHHHHHHhCCCHHHHHHHHHhcccCcccCCcCCCCcc
Confidence 66666666654 222222 2456689999999999999999999988887777788866543
No 404
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=26.45 E-value=1e+02 Score=21.83 Aligned_cols=34 Identities=9% Similarity=0.205 Sum_probs=27.5
Q ss_pred cccccchhhHHh-HhCCChHHHHHHHHHhhhcCcc
Q 018294 280 PYTRIRIPFISK-ELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 280 ~y~~I~l~~la~-~l~l~~~~vE~~l~~lI~~g~i 313 (358)
+=+..-|.++++ ..+..+-+|.+.+..||.+|++
T Consensus 16 ~KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l 50 (67)
T PF08679_consen 16 KKSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKL 50 (67)
T ss_dssp HSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeE
Confidence 457888999999 5678899999999999999987
No 405
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=25.81 E-value=3.3e+02 Score=28.47 Aligned_cols=65 Identities=17% Similarity=0.228 Sum_probs=50.6
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIK 140 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~ 140 (358)
..+|++|+..|+++.|..+++.-...-.. + ...+.+++..-..+-+...++..|..++..|..+.
T Consensus 391 ~~faklYe~~~~l~~aRvifeka~~V~y~--~------v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP 455 (835)
T KOG2047|consen 391 VEFAKLYENNGDLDDARVIFEKATKVPYK--T------VEDLAEVWCAWAEMELRHENFEAALKLMRRATHVP 455 (835)
T ss_pred HHHHHHHHhcCcHHHHHHHHHHhhcCCcc--c------hHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCC
Confidence 46899999999999999888766544322 1 24578888888888888899999999998876543
No 406
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=25.74 E-value=89 Score=26.63 Aligned_cols=44 Identities=9% Similarity=-0.004 Sum_probs=36.3
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCC
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRS 330 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~ 330 (358)
.++-.+||..+|++.+-+-..+.+|-.+|.|. ...|.|.+.+.+
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~----~~~~~i~I~d~~ 192 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYIR----SGYGKIQLLDLK 192 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCEE----cCCCEEEEECHH
Confidence 57889999999999999999999999888774 445677776654
No 407
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=25.27 E-value=2.7e+02 Score=24.69 Aligned_cols=63 Identities=17% Similarity=0.220 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
..+.+.|+......-..|=..+ +=.+||+.+|++-.-|-+-|..|..+|.|.-+ +..|+.+..
T Consensus 8 ~qi~~~L~~~I~~g~~~~G~~LPsE~eL~~~~~VSR~TvR~Al~~L~~eGli~r~--~G~GtfV~~ 71 (240)
T PRK09764 8 RQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESI--QGSGTYVKE 71 (240)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCceeEEcc
Confidence 3444445544434445677788 67999999999999999999999999998643 446776643
No 408
>PRK15481 transcriptional regulatory protein PtsJ; Provisional
Probab=25.27 E-value=1.5e+02 Score=28.95 Aligned_cols=54 Identities=13% Similarity=0.269 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCcccee
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGH 316 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~ak 316 (358)
..+.+.|+......-.+|=.++ +...||+.+|+|..-|..-+.+|..+|.|.++
T Consensus 8 ~~~~~~i~~~i~~g~l~~g~~lps~r~la~~~~vsr~tv~~a~~~L~~~g~i~~~ 62 (431)
T PRK15481 8 NEIFDSIRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQ 62 (431)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 3455555555545556677888 78999999999999999999999999999753
No 409
>PF13994 PgaD: PgaD-like protein
Probab=25.00 E-value=1.4e+02 Score=24.34 Aligned_cols=37 Identities=11% Similarity=0.249 Sum_probs=28.0
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEE
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLL 324 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v 324 (358)
++.+++|+.|++++++++ ++-..+.+...-|+..+++
T Consensus 101 ~~~~elA~~f~l~~~~l~----~lr~~k~~~V~~d~~G~I~ 137 (138)
T PF13994_consen 101 VSDEELARSFGLSPEQLQ----QLRQAKVLTVHHDDHGRII 137 (138)
T ss_pred CCHHHHHHHcCCCHHHHH----HHHhCCeEEEEeCCCCCcC
Confidence 999999999999977766 6666666666666665554
No 410
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=24.81 E-value=3.2e+02 Score=21.24 Aligned_cols=48 Identities=13% Similarity=0.046 Sum_probs=39.6
Q ss_pred ccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 279 KPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
.-|+-|+-..+|+.|++...-+...|-.|-..|.|.-..-.....|+.
T Consensus 55 ~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~kG~Ik~V~k~~~~~IYt 102 (105)
T PF03297_consen 55 PKMKLITPSVLSERLKINGSLARKALRELESKGLIKPVSKHHRQRIYT 102 (105)
T ss_dssp TTSSCECHHHHHHHHCCSCHHHHHHHHHHHHCCSSEEEECCTTCEEEE
T ss_pred ccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHCCCEEEEeccCCeEEEe
Confidence 448999999999999999999999999999999997664444444443
No 411
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=24.77 E-value=76 Score=20.89 Aligned_cols=29 Identities=28% Similarity=0.446 Sum_probs=24.5
Q ss_pred ccc-cccchhhHHhHhCCChHHHHHHHHHh
Q 018294 279 KPY-TRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 279 ~~y-~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
.|| +.-.+..||..+|++...|..|..+-
T Consensus 22 ~~~P~~~~~~~la~~~~l~~~qV~~WF~nr 51 (59)
T cd00086 22 NPYPSREEREELAKELGLTERQVKIWFQNR 51 (59)
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence 456 67789999999999999999987653
No 412
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=24.77 E-value=79 Score=20.87 Aligned_cols=28 Identities=25% Similarity=0.495 Sum_probs=22.9
Q ss_pred ccc-cccchhhHHhHhCCChHHHHHHHHH
Q 018294 279 KPY-TRIRIPFISKELNVPEKDVEQLLVS 306 (358)
Q Consensus 279 ~~y-~~I~l~~la~~l~l~~~~vE~~l~~ 306 (358)
.|| +.-....||..+|++...|..|-.+
T Consensus 22 ~~~p~~~~~~~la~~l~l~~~~V~~WF~n 50 (57)
T PF00046_consen 22 NPYPSKEEREELAKELGLTERQVKNWFQN 50 (57)
T ss_dssp SSSCHHHHHHHHHHHHTSSHHHHHHHHHH
T ss_pred hccccccccccccccccccccccccCHHH
Confidence 344 5678899999999999999988754
No 413
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=24.52 E-value=1.9e+02 Score=25.83 Aligned_cols=62 Identities=8% Similarity=0.028 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHhccccccc-chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRI-RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I-~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
+.+++.|+...+..-+.|=.++ +-..||+.||+|-.-|-.-|..|-..|.|.-+- ..|+.+.
T Consensus 10 ~~v~~~i~~~I~~g~l~pG~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~--~~G~~V~ 72 (251)
T PRK09990 10 DVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQ--GRGSFVA 72 (251)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC--CCeeEEe
Confidence 4566777776666667888999 899999999999999999999999999986433 3455444
No 414
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=24.38 E-value=88 Score=20.76 Aligned_cols=25 Identities=16% Similarity=0.235 Sum_probs=19.3
Q ss_pred ccccchhhHHhHhCCChHHHHHHHH
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
...|+=.+||+.+|+++..|.+-++
T Consensus 26 ~~~vSS~~La~~~gi~~~qVRKDlS 50 (50)
T PF06971_consen 26 VERVSSQELAEALGITPAQVRKDLS 50 (50)
T ss_dssp -SEE-HHHHHHHHTS-HHHHHHHHH
T ss_pred CeeECHHHHHHHHCCCHHHhcccCC
Confidence 5789999999999999999887653
No 415
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.32 E-value=6e+02 Score=25.72 Aligned_cols=98 Identities=18% Similarity=0.187 Sum_probs=55.7
Q ss_pred hhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCC
Q 018294 66 TNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPH 145 (358)
Q Consensus 66 ~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~ 145 (358)
+-+++|.+|.+.++-++-.+.+......=+ .--++|--..++++-++++..|..=++++..+..
T Consensus 362 lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp------------~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p---- 425 (606)
T KOG0547|consen 362 LYIKRAAAYADENQSEKMWKDFNKAEDLDP------------ENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP---- 425 (606)
T ss_pred HHHHHHHHHhhhhccHHHHHHHHHHHhcCC------------CCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh----
Confidence 345788888888777666666655544421 1223444555666677788888877787765422
Q ss_pred hhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhh
Q 018294 146 PRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYD 181 (358)
Q Consensus 146 ~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~ 181 (358)
..+.+.+..|.+.+- +.++.++-.-|-++-..|+
T Consensus 426 e~~~~~iQl~~a~Yr--~~k~~~~m~~Fee~kkkFP 459 (606)
T KOG0547|consen 426 ENAYAYIQLCCALYR--QHKIAESMKTFEEAKKKFP 459 (606)
T ss_pred hhhHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhCC
Confidence 122334444444332 2355566666666555444
No 416
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=24.05 E-value=4.3e+02 Score=22.14 Aligned_cols=74 Identities=14% Similarity=-0.020 Sum_probs=46.7
Q ss_pred HHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHH
Q 018294 118 QMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVL 197 (358)
Q Consensus 118 ~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l 197 (358)
-.....|++..|+.++.....+ ||.. ..++.--|.++-..++|.+|...|-.++. .+++......++..
T Consensus 43 ~~ly~~G~l~~A~~~f~~L~~~-----Dp~~-~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~-----L~~ddp~~~~~ag~ 111 (157)
T PRK15363 43 MQLMEVKEFAGAARLFQLLTIY-----DAWS-FDYWFRLGECCQAQKHWGEAIYAYGRAAQ-----IKIDAPQAPWAAAE 111 (157)
T ss_pred HHHHHCCCHHHHHHHHHHHHHh-----Cccc-HHHHHHHHHHHHHHhhHHHHHHHHHHHHh-----cCCCCchHHHHHHH
Confidence 3445789999999998876543 3332 22333336677778999998877766542 22344445566777
Q ss_pred HHHhh
Q 018294 198 ANMLM 202 (358)
Q Consensus 198 ~~lL~ 202 (358)
|-+..
T Consensus 112 c~L~l 116 (157)
T PRK15363 112 CYLAC 116 (157)
T ss_pred HHHHc
Confidence 77754
No 417
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=24.01 E-value=8.4e+02 Score=25.47 Aligned_cols=91 Identities=12% Similarity=-0.045 Sum_probs=49.2
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI 148 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~ 148 (358)
-+...|...|++++|.+++.++...-..+ + ...+...+..|...|++..++.++....+..- .++..+
T Consensus 295 ~li~~y~~~g~~~eA~~lf~~M~~~g~~p----d-------~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~-~~d~~~ 362 (697)
T PLN03081 295 SMLAGYALHGYSEEALCLYYEMRDSGVSI----D-------QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF-PLDIVA 362 (697)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHcCCCC----C-------HHHHHHHHHHHHhccchHHHHHHHHHHHHhCC-CCCeee
Confidence 45555666677777777776665442211 1 11334445666677777777777766544211 111111
Q ss_pred hHHHhhhhhhhHhhhhcHHHHHHHHHH
Q 018294 149 MGIIRECGGKMHMAERQWADAATDFFE 175 (358)
Q Consensus 149 ~~~i~~~~g~~~~~~~~y~~A~~~f~e 175 (358)
.. .-..+|...|++.+|...|-+
T Consensus 363 ~~----~Li~~y~k~G~~~~A~~vf~~ 385 (697)
T PLN03081 363 NT----ALVDLYSKWGRMEDARNVFDR 385 (697)
T ss_pred hH----HHHHHHHHCCCHHHHHHHHHh
Confidence 11 112344557888888888766
No 418
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=23.97 E-value=2.5e+02 Score=25.08 Aligned_cols=62 Identities=13% Similarity=0.186 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHhcccccccc-hhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 263 EDLLKNVRTQVLLKLIKPYTRIR-IPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 263 ~~L~~~i~~~~l~~~~~~y~~I~-l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
+.+++.|+...+..-++|=.+++ -..||+.||+|-.-|..-|..|-..|.|.-+ +..|+.+.
T Consensus 11 ~~v~~~l~~~I~~g~l~pG~~LpsE~eLae~~gVSRtpVREAL~~L~~eGlV~~~--~~~G~~V~ 73 (253)
T PRK11523 11 QQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVR--KGSGIHVV 73 (253)
T ss_pred HHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCCeeEEe
Confidence 55667777766666678888995 7899999999999999999999999998643 33455444
No 419
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=23.96 E-value=2e+02 Score=20.06 Aligned_cols=49 Identities=22% Similarity=0.342 Sum_probs=27.5
Q ss_pred HHHHHHhCCHHHHHHHHHHhhhhhc---------CChhHHHHH-HHHHHHHHHHHHHHh
Q 018294 229 LIAAYQRNEIIEFEKILKSNRKTIM---------DDPFIRNYI-EDLLKNVRTQVLLKL 277 (358)
Q Consensus 229 L~~af~~~d~~~f~~~l~~~~~~l~---------~D~~l~~~~-~~L~~~i~~~~l~~~ 277 (358)
++.+=.+||-....++|..|++.+. .......|+ .++.+++..+-+..+
T Consensus 3 vI~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I 61 (65)
T PF12645_consen 3 VIKAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAI 61 (65)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHH
Confidence 4445567777777777777766444 333333344 345666665554443
No 420
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=23.83 E-value=1.6e+02 Score=24.81 Aligned_cols=30 Identities=13% Similarity=0.070 Sum_probs=26.6
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.+...++++||+.+|+|+.-|...+.++..
T Consensus 146 ~~~~~s~~eIA~~lgis~~tV~~~l~ra~~ 175 (182)
T PRK12537 146 YVDGCSHAEIAQRLGAPLGTVKAWIKRSLK 175 (182)
T ss_pred HHcCCCHHHHHHHHCCChhhHHHHHHHHHH
Confidence 357899999999999999999999988763
No 421
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=23.73 E-value=1.5e+02 Score=25.31 Aligned_cols=42 Identities=14% Similarity=0.065 Sum_probs=33.8
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEcc
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGD 328 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~ 328 (358)
.++-.+||+.+|++.+-+-..+.+|-.+|.|. ...+.|.+.+
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~----~~~~~i~i~~ 209 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLIS----AHGKTIVVYG 209 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE----ecCCEEEEec
Confidence 67779999999999999999999999998774 2345555544
No 422
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.68 E-value=93 Score=24.54 Aligned_cols=35 Identities=17% Similarity=0.205 Sum_probs=28.1
Q ss_pred HHHHhcccccccchhhHHhHhCCChHHHHHHHHHh
Q 018294 273 VLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 273 ~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
.|..+++-+..+++.+||+.||++..-+-..|-++
T Consensus 61 ~L~~~v~~~pd~tl~Ela~~l~Vs~~ti~~~Lkrl 95 (119)
T PF01710_consen 61 ELKALVEENPDATLRELAERLGVSPSTIWRALKRL 95 (119)
T ss_pred HHHHHHHHCCCcCHHHHHHHcCCCHHHHHHHHHHc
Confidence 35667777889999999999999988888777654
No 423
>TIGR02392 rpoH_proteo alternative sigma factor RpoH. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors.
Probab=23.62 E-value=1.6e+02 Score=26.92 Aligned_cols=29 Identities=10% Similarity=0.209 Sum_probs=24.9
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+...|+.+||+.+|+|..-|.....+++.
T Consensus 234 ~~~~t~~eIA~~lgvS~~~V~q~~~~Al~ 262 (270)
T TIGR02392 234 DDKLTLQELAAEYGVSAERIRQIEKNAMK 262 (270)
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 34689999999999999999988887764
No 424
>TIGR02366 DHAK_reg probable dihydroxyacetone kinase regulator. The seed alignment for this family was built from a set of closely related uncharacterized proteins associated with operons for the type of bacterial dihydroxyacetone kinase that transfers PEP-derived phosphate from a phosphoprotein, as in phosphotransferase system transport, rather than from ATP. Members have a TetR transcriptional regulator domain (pfam00440) at the N-terminus and sequence homology throughout.
Probab=23.60 E-value=86 Score=26.12 Aligned_cols=27 Identities=11% Similarity=0.343 Sum_probs=21.4
Q ss_pred HHHHHHhc--ccccccchhhHHhHhCCCh
Q 018294 271 TQVLLKLI--KPYTRIRIPFISKELNVPE 297 (358)
Q Consensus 271 ~~~l~~~~--~~y~~I~l~~la~~l~l~~ 297 (358)
..++.+++ +||..||+++|++..|++.
T Consensus 9 ~~a~~~Ll~~k~~~~ITV~~I~~~AgvsR 37 (176)
T TIGR02366 9 AKAFKDLMEVQAFSKISVSDIMSTAQIRR 37 (176)
T ss_pred HHHHHHHHHHCCCccCCHHHHHHHhCCCH
Confidence 33445555 6899999999999999983
No 425
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=23.58 E-value=92 Score=20.90 Aligned_cols=19 Identities=16% Similarity=0.350 Sum_probs=10.3
Q ss_pred ccchhhHHhHhCCChHHHH
Q 018294 283 RIRIPFISKELNVPEKDVE 301 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE 301 (358)
.|++++|++-|++|.+++-
T Consensus 4 ~lt~~~L~~~fhlp~~eAA 22 (52)
T PF02042_consen 4 SLTLEDLSQYFHLPIKEAA 22 (52)
T ss_pred ccCHHHHHHHhCCCHHHHH
Confidence 4555555555555555443
No 426
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=23.20 E-value=1.9e+02 Score=23.33 Aligned_cols=29 Identities=10% Similarity=0.045 Sum_probs=25.7
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+.-.+..+||+.+|+|+.-|...+.+++.
T Consensus 120 ~~~~s~~EIA~~l~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 120 FVGKTMGEIALETEMTYYQVRWIYRQALE 148 (154)
T ss_pred hcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 56788999999999999999999988653
No 427
>COG2118 DNA-binding protein [General function prediction only]
Probab=23.11 E-value=63 Score=25.41 Aligned_cols=52 Identities=25% Similarity=0.407 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhcccccccchhhHHhHhCCC--hHHHHHHHHHhhhcCccceeeecc
Q 018294 267 KNVRTQVLLKLIKPYTRIRIPFISKELNVP--EKDVEQLLVSLILDNRIDGHIDQV 320 (358)
Q Consensus 267 ~~i~~~~l~~~~~~y~~I~l~~la~~l~l~--~~~vE~~l~~lI~~g~i~akID~~ 320 (358)
+.-+.-.|.+++.|--+=.+..+.=. =| .+.||..|..|...|+|..+||..
T Consensus 39 eaqkqaiLrqiLtpeAreRL~~irLv--RPe~AeavE~qLi~LaqtGri~~~I~e~ 92 (116)
T COG2118 39 EAQKQAILRQILTPEARERLARVRLV--RPELAEAVENQLIQLAQTGRITHKIDEE 92 (116)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHhhhc--CHHHHHHHHHHHHHHHHcCCCCCCCCHH
Confidence 34455556777777433333322110 01 257999999999999999999853
No 428
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=23.06 E-value=1.8e+02 Score=24.33 Aligned_cols=30 Identities=10% Similarity=0.192 Sum_probs=26.0
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.+...+.++||+.+|+|+.-|...+.+.+.
T Consensus 140 ~~~g~s~~EIA~~lgis~~tVk~~l~rAl~ 169 (178)
T PRK12529 140 TLDGMKQKDIAQALDIALPTVKKYIHQAYV 169 (178)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 357789999999999999999999887654
No 429
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=22.99 E-value=1.6e+02 Score=31.48 Aligned_cols=58 Identities=12% Similarity=0.307 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHhcccccccchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 261 YIEDLLKNVRTQVLLKLIKPYTRIRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 261 ~~~~L~~~i~~~~l~~~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
+++.+.+.|- ..++--..|++.++|+.+++|.+.+...|..-+ .+.|+|++| .|.++.
T Consensus 117 Yld~iaeEIn-----e~LqE~G~isI~eLa~~~~Lpsefl~~~l~~rl-G~iI~g~~~--g~~lyT 174 (803)
T PLN03083 117 YWDSIAEEIN-----ERLQECSQIALAELARQLQVGSELVTSMLEPRL-GTIVKARLE--GGQLYT 174 (803)
T ss_pred HHHHHHHHHH-----HHHHHcCcChHHHHHHhcCChHHHHHHHHHHHh-ccceEEEec--CCEEec
Confidence 3444544443 233345789999999999999999999998874 478899993 455543
No 430
>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=22.89 E-value=3.7e+02 Score=21.46 Aligned_cols=54 Identities=11% Similarity=0.098 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHhhhhhcC---ChhHHHHHHHHHHHHHHHHHHHhc
Q 018294 225 AMTNLIAAYQRNEIIEFEKILKSNRKTIMD---DPFIRNYIEDLLKNVRTQVLLKLI 278 (358)
Q Consensus 225 ~l~~L~~af~~~d~~~f~~~l~~~~~~l~~---D~~l~~~~~~L~~~i~~~~l~~~~ 278 (358)
....+.++..+||+....+.++.+.+.+.. +-.+.-|...+++-++...+...+
T Consensus 4 ~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai 60 (145)
T PF10607_consen 4 ERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAI 60 (145)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHH
Confidence 467788889999999999999988776642 233444556667777765554444
No 431
>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi. It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].
Probab=22.85 E-value=8.5e+02 Score=25.10 Aligned_cols=106 Identities=13% Similarity=0.155 Sum_probs=70.8
Q ss_pred HHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccC
Q 018294 64 FKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAI 143 (358)
Q Consensus 64 ~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~ 143 (358)
+.+..-+++++.+.|... |.+.+.+....+.+... ....+-+-+..+.+++..+|+..|-+.+.......+..
T Consensus 100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~------~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~ 172 (608)
T PF10345_consen 100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGH------SAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQR 172 (608)
T ss_pred HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCc------hhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhc
Confidence 355557789999888777 88888888777754211 12333343444555555589999999999887776655
Q ss_pred CChhhhHHHhhhhhhhHhhhhcHHHHHHHHHHH
Q 018294 144 PHPRIMGIIRECGGKMHMAERQWADAATDFFEA 176 (358)
Q Consensus 144 ~~~~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~ 176 (358)
.+|.+..-.....|.+++..+...++....-.+
T Consensus 173 ~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~ 205 (608)
T PF10345_consen 173 GDPAVFVLASLSEALLHLRRGSPDDVLELLQRA 205 (608)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Confidence 577766666667788888777666655554443
No 432
>PRK06771 hypothetical protein; Provisional
Probab=22.65 E-value=56 Score=24.76 Aligned_cols=30 Identities=23% Similarity=0.455 Sum_probs=24.6
Q ss_pred ccchhhHHhHhCCChH--HHHHHHHHhhhcCc
Q 018294 283 RIRIPFISKELNVPEK--DVEQLLVSLILDNR 312 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~--~vE~~l~~lI~~g~ 312 (358)
..+++.|++.+|++.. ++...+.+++.+|+
T Consensus 36 e~~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gk 67 (93)
T PRK06771 36 EDRLQLITKEMGIVDREPPVNKELRQLMEEGQ 67 (93)
T ss_pred HHHHHHHHHHcCCCCCcccccHHHHHHHHcCC
Confidence 3578899999999766 67788889998885
No 433
>PF12487 DUF3703: Protein of unknown function (DUF3703) ; InterPro: IPR022172 This family of proteins is found in bacteria. Proteins in this family are typically between 113 and 135 amino acids in length.
Probab=22.55 E-value=3.9e+02 Score=21.06 Aligned_cols=60 Identities=10% Similarity=0.070 Sum_probs=46.4
Q ss_pred HHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHH
Q 018294 63 WFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLK 130 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~ 130 (358)
.+...+..|+..++.|++..|-..|+..+...+.. ...++.++..-.++..+.+|..++.
T Consensus 8 ~~~~el~~a~~a~~~~~~~~aw~hLErAHIlgQ~~--------~~~H~~~H~~ML~~a~r~rd~rEv~ 67 (112)
T PF12487_consen 8 AYDAELEAAREALAAGDLQQAWRHLERAHILGQPY--------PWLHTRVHWAMLRFALRQRDRREVL 67 (112)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHhhHHhcCCc--------hhHHHHHHHHHHHHHHHccCHHHHH
Confidence 44456778888889999999999999999996532 3667788777778877888777543
No 434
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=22.44 E-value=1.2e+02 Score=20.79 Aligned_cols=39 Identities=10% Similarity=-0.076 Sum_probs=27.9
Q ss_pred chhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 285 RIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 285 ~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
++.++|+.+|+++..+..+. ..|.+...-...+|.-.++
T Consensus 2 s~~eva~~~gvs~~tlr~~~----~~gli~~~~~~~~g~r~y~ 40 (70)
T smart00422 2 TIGEVAKLAGVSVRTLRYYE----RIGLLPPPIRTEGGYRLYS 40 (70)
T ss_pred CHHHHHHHHCcCHHHHHHHH----HCCCCCCCccCCCCCEecC
Confidence 67899999999999998775 4777766533345544443
No 435
>PLN03218 maturation of RBCL 1; Provisional
Probab=22.37 E-value=1.1e+03 Score=26.35 Aligned_cols=58 Identities=9% Similarity=0.027 Sum_probs=29.2
Q ss_pred hhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Q 018294 69 KLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKAL 137 (358)
Q Consensus 69 ~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~ 137 (358)
.+...|...|++++|.+++.++...-..+ + ...|...+..|...|++.+|..++....
T Consensus 512 aLI~gy~k~G~~eeAl~lf~~M~~~Gv~P----D-------~vTYnsLI~a~~k~G~~deA~~lf~eM~ 569 (1060)
T PLN03218 512 ALIDGCARAGQVAKAFGAYGIMRSKNVKP----D-------RVVFNALISACGQSGAVDRAFDVLAEMK 569 (1060)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHcCCCC----C-------HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34555556666666666666655432211 0 1223334445555566666665555443
No 436
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=22.35 E-value=1.9e+02 Score=23.08 Aligned_cols=36 Identities=17% Similarity=0.371 Sum_probs=28.5
Q ss_pred hHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccC
Q 018294 62 LWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQRE 97 (358)
Q Consensus 62 ~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~ 97 (358)
-+|--...+|+-+...|++++|+..+......|..|
T Consensus 61 ~~Fl~qV~lGE~L~~~G~~~~aa~hf~nAl~V~~qP 96 (121)
T PF02064_consen 61 RFFLQQVQLGEQLLAQGDYEEAAEHFYNALKVCPQP 96 (121)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTSSSH
T ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCH
Confidence 345556789999999999999999998888888653
No 437
>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=22.35 E-value=7.7e+02 Score=24.41 Aligned_cols=96 Identities=16% Similarity=0.202 Sum_probs=68.5
Q ss_pred hhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChh
Q 018294 68 LKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPR 147 (358)
Q Consensus 68 ~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~ 147 (358)
..-|+-.+..|+|..|.+++.+-...-+. + ..-...+|.-.+.+...+|+...|-.--+.+.++ ||.
T Consensus 253 k~~gN~~fk~G~y~~A~E~Yteal~idP~--n------~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i-----D~s 319 (486)
T KOG0550|consen 253 KERGNDAFKNGNYRKAYECYTEALNIDPS--N------KKTNAKLYGNRALVNIRLGRLREAISDCNEALKI-----DSS 319 (486)
T ss_pred HhhhhhHhhccchhHHHHHHHHhhcCCcc--c------cchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc-----CHH
Confidence 35678888999999999999887766321 1 2346677778888888899888777666666554 322
Q ss_pred -hhHHHhhhhhhhHhhhhcHHHHHHHHHHHhh
Q 018294 148 -IMGIIRECGGKMHMAERQWADAATDFFEAFK 178 (358)
Q Consensus 148 -~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~ 178 (358)
+.+.+ .-|..|+.-++|.+|-++|-.+..
T Consensus 320 yikall--~ra~c~l~le~~e~AV~d~~~a~q 349 (486)
T KOG0550|consen 320 YIKALL--RRANCHLALEKWEEAVEDYEKAMQ 349 (486)
T ss_pred HHHHHH--HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22222 237778888999999999988764
No 438
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=22.25 E-value=1.8e+02 Score=24.71 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=25.2
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
.|.-.+.++||+.+|+|+.-|...+.++.
T Consensus 147 ~~~g~s~~EIA~~lgis~~tVk~~l~RAr 175 (189)
T PRK12530 147 EYLELSSEQICQECDISTSNLHVLLYRAR 175 (189)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35678899999999999999999888765
No 439
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=22.05 E-value=1.9e+02 Score=23.57 Aligned_cols=30 Identities=17% Similarity=-0.024 Sum_probs=26.0
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.+.-.+..+||+.+|+|+.-|...+.++..
T Consensus 119 ~~~g~s~~EIA~~lgis~~tV~~~l~Rar~ 148 (160)
T PRK09642 119 YLEEKSYQEIALQEKIEVKTVEMKLYRARK 148 (160)
T ss_pred HHhCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 357899999999999999999998887653
No 440
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=21.96 E-value=2.4e+02 Score=28.48 Aligned_cols=119 Identities=14% Similarity=0.060 Sum_probs=0.0
Q ss_pred HHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHH-----HHHHHhcCHHHHHHHHHHHHh-------
Q 018294 71 CKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEI-----QMYTETKNNKKLKQLYQKALA------- 138 (358)
Q Consensus 71 a~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~-----~~~~~~~d~~~a~~~l~~a~~------- 138 (358)
+++++..|+|..|.++|......+... +..--+...+.. .+.++++.+.-+--+..+|.+
T Consensus 247 sq~eY~~gn~~kA~KlL~~sni~~~~g--------~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~ 318 (696)
T KOG2471|consen 247 SQLEYAHGNHPKAMKLLLVSNIHKEAG--------GTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLR 318 (696)
T ss_pred HHHHHHhcchHHHHHHHHhcccccccC--------ccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHh
Q ss_pred --hhccCCChhhhH---HHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHHHHHHHHHHHHhh
Q 018294 139 --IKSAIPHPRIMG---IIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQCLKYLVLANMLM 202 (358)
Q Consensus 139 --~~~~~~~~~~~~---~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~~l~y~~l~~lL~ 202 (358)
...+......++ .|-.-+|+.+++.|+-..|+++|.++..-|. ..+.+.-.++=|+|+.
T Consensus 319 ~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh-----~nPrlWLRlAEcCima 382 (696)
T KOG2471|consen 319 NGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFH-----RNPRLWLRLAECCIMA 382 (696)
T ss_pred ccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHh-----cCcHHHHHHHHHHHHH
No 441
>PF08564 CDC37_C: Cdc37 C terminal domain; InterPro: IPR013873 Cdc37 is a protein required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the C-terminal domain whose function is unclear. It is found C-terminal to the Hsp90 chaperone (heat shock protein 90) binding domain IPR013874 from INTERPRO and the N-terminal kinase binding domain of Cdc37 IPR013855 from INTERPRO []. ; PDB: 1US7_B.
Probab=21.84 E-value=80 Score=24.29 Aligned_cols=36 Identities=17% Similarity=0.134 Sum_probs=22.7
Q ss_pred ccccccchhhHHhHhC-CChHHHHHHHHHhhhcCccc
Q 018294 279 KPYTRIRIPFISKELN-VPEKDVEQLLVSLILDNRID 314 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~-l~~~~vE~~l~~lI~~g~i~ 314 (358)
+.+.+=+++.+-+.|+ +|++++|.++-+++..|.+.
T Consensus 30 ~Alet~~ld~vnkVl~~M~veeAE~~v~~~~esGi~~ 66 (99)
T PF08564_consen 30 KALETGDLDEVNKVLGKMPVEEAEYHVERCIESGIWS 66 (99)
T ss_dssp ----------HHHHHT--SSSHHHHHHHHHHHTTSS-
T ss_pred HHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhCCccc
Confidence 3467778889999988 79999999999999999883
No 442
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=21.82 E-value=2.4e+02 Score=18.84 Aligned_cols=23 Identities=13% Similarity=0.034 Sum_probs=17.6
Q ss_pred HHHHHHhcCHHHHHHHHHHHHhh
Q 018294 117 IQMYTETKNNKKLKQLYQKALAI 139 (358)
Q Consensus 117 ~~~~~~~~d~~~a~~~l~~a~~~ 139 (358)
+--+.++||+.+|+.+.+...++
T Consensus 8 Aig~ykl~~Y~~A~~~~~~lL~~ 30 (53)
T PF14853_consen 8 AIGHYKLGEYEKARRYCDALLEI 30 (53)
T ss_dssp HHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHhhhHHHHHHHHHHHHhh
Confidence 34567889999999999988765
No 443
>PRK00215 LexA repressor; Validated
Probab=21.80 E-value=1.2e+02 Score=26.22 Aligned_cols=43 Identities=19% Similarity=0.121 Sum_probs=35.1
Q ss_pred ccchhhHHhHhCC-ChHHHHHHHHHhhhcCccceeeeccCCEEEE
Q 018294 283 RIRIPFISKELNV-PEKDVEQLLVSLILDNRIDGHIDQVNRLLER 326 (358)
Q Consensus 283 ~I~l~~la~~l~l-~~~~vE~~l~~lI~~g~i~akID~~~g~v~~ 326 (358)
..++.+||+.+|+ +..-+-.+|.+|...|.|...-+. ...+.+
T Consensus 23 ~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~~~-~r~~~l 66 (205)
T PRK00215 23 PPSRREIADALGLRSPSAVHEHLKALERKGFIRRDPGR-SRAIEV 66 (205)
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCCCC-cceEEe
Confidence 4789999999999 999999999999999999654433 344454
No 444
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=21.69 E-value=1.7e+02 Score=27.58 Aligned_cols=32 Identities=16% Similarity=0.320 Sum_probs=27.5
Q ss_pred cccccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 278 IKPYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 278 ~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
...+.-.++..||+.+|+|+.-|...+.+++.
T Consensus 277 L~~~e~~s~~EIA~~Lgis~~tV~~~~~rAl~ 308 (325)
T PRK05657 277 LLGYEAATLEDVAREIGLTRERVRQIQVEALR 308 (325)
T ss_pred cCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 44578899999999999999999998887764
No 445
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=21.63 E-value=1.4e+02 Score=16.77 Aligned_cols=24 Identities=13% Similarity=0.265 Sum_probs=19.4
Q ss_pred hHHHHhhhchHhHHHHHHHHHHHh
Q 018294 70 LCKIWFDMGEYGRMSKILKELHKS 93 (358)
Q Consensus 70 la~~~~~~g~~~~a~~~l~~l~~~ 93 (358)
+.+.+...|+++.|.+++.++...
T Consensus 7 ll~a~~~~g~~~~a~~~~~~M~~~ 30 (34)
T PF13812_consen 7 LLRACAKAGDPDAALQLFDEMKEQ 30 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHh
Confidence 556677789999999999988764
No 446
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=21.63 E-value=1.1e+02 Score=19.41 Aligned_cols=24 Identities=25% Similarity=0.239 Sum_probs=15.9
Q ss_pred cccchhhHHhHhCCChHHHHHHHH
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLV 305 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~ 305 (358)
.-.++..||+.||.+..-|-.+|-
T Consensus 19 ~G~s~~~IA~~lg~s~sTV~relk 42 (44)
T PF13936_consen 19 QGMSIREIAKRLGRSRSTVSRELK 42 (44)
T ss_dssp S---HHHHHHHTT--HHHHHHHHH
T ss_pred cCCCHHHHHHHHCcCcHHHHHHHh
Confidence 568999999999999988877664
No 447
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=21.60 E-value=4.1e+02 Score=20.99 Aligned_cols=64 Identities=14% Similarity=0.127 Sum_probs=44.6
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhh-hHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhh
Q 018294 115 IEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRI-MGIIRECGGKMHMAERQWADAATDFFEAFKNYDE 182 (358)
Q Consensus 115 ~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~-~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~ 182 (358)
.....+-..|+..+|..+|.++.. .+..++.. .+.+ .-|..+...|++.+|...|-+....|+.
T Consensus 6 ~~A~a~d~~G~~~~Ai~~Y~~Al~--~gL~~~~~~~a~i--~lastlr~LG~~deA~~~L~~~~~~~p~ 70 (120)
T PF12688_consen 6 ELAWAHDSLGREEEAIPLYRRALA--AGLSGADRRRALI--QLASTLRNLGRYDEALALLEEALEEFPD 70 (120)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHH--cCCCchHHHHHHH--HHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence 444556678999999999999865 33433322 2233 2366677889999999999888766543
No 448
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=21.43 E-value=88 Score=24.17 Aligned_cols=28 Identities=14% Similarity=0.177 Sum_probs=20.4
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
....|+++||+.+|+|...|-+.+-++.
T Consensus 31 ~eDlSlsEIAe~~~iSRqaV~d~ikr~~ 58 (101)
T PF04297_consen 31 EEDLSLSEIAEELGISRQAVYDSIKRAE 58 (101)
T ss_dssp TS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3689999999999999999888887754
No 449
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=21.38 E-value=2.2e+02 Score=25.08 Aligned_cols=29 Identities=10% Similarity=0.071 Sum_probs=25.7
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
+.-.+.++||+.+|+|+.-|...+.+++.
T Consensus 196 ~eg~s~~EIA~~lgis~~tVk~~~~rA~~ 224 (234)
T PRK08301 196 GEEKTQKEVADMLGISQSYISRLEKRIIK 224 (234)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 57889999999999999999998887753
No 450
>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=21.33 E-value=3.3e+02 Score=19.70 Aligned_cols=51 Identities=10% Similarity=0.240 Sum_probs=25.9
Q ss_pred HHHHHHHHHhcCCCCCC---hhHHHHHHHHHHHHHHHhhhhhhHHHhhhhhHHHHhhhchHhHHHHHH
Q 018294 23 KCINNIMDFVSGSASQN---FSLLREFYQTTLKALEEAKNERLWFKTNLKLCKIWFDMGEYGRMSKIL 87 (358)
Q Consensus 23 ~~v~~~l~~~~~~~~~~---~~~~~~~~~~~~~~i~~~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l 87 (358)
.++.+.++.++..|.+. ...-.+++++...+ ++=|+.+++.||+..|...+
T Consensus 5 ~~l~~al~~i~~~~~~~s~~~~~a~~~~~mA~~Y--------------~~D~~~fl~~gD~v~Ala~~ 58 (75)
T PF04010_consen 5 RMLEEALESIEIAPPEGSPLYDAAEEILEMAESY--------------LEDGKYFLEKGDYVNALACF 58 (75)
T ss_dssp HHHHHHHHHCC-----TS---HCHHHHHHHHHHH--------------HHHHHHHHHTT-HHHHHHHH
T ss_pred HHHHHHHHHhhhhhccCCcchHHHHHHHHHHHHH--------------HHHHHHHHHCCCHHHHHHHH
Confidence 45666677776433211 22234444554443 33467778888888877554
No 451
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=21.30 E-value=1.4e+02 Score=21.97 Aligned_cols=32 Identities=9% Similarity=0.160 Sum_probs=26.1
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeec
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQ 319 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~ 319 (358)
|++++++...|++++.+. .++..|.+....+.
T Consensus 1 is~~e~~~~~~i~~~~l~----~lve~Gli~p~~~~ 32 (84)
T PF13591_consen 1 ISLEEFCEACGIEPEFLR----ELVEEGLIEPEGEE 32 (84)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCeeecCCC
Confidence 688999999999988776 67778888775555
No 452
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=21.21 E-value=1e+02 Score=25.73 Aligned_cols=30 Identities=13% Similarity=0.163 Sum_probs=26.5
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.+...+.++||+.+|+|+.-|...+.+++.
T Consensus 132 ~~~g~s~~EIA~~lgis~~tV~~~l~Ra~~ 161 (172)
T PRK09651 132 QLDGLTYSEIAHKLGVSVSSVKKYVAKATE 161 (172)
T ss_pred hccCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 457889999999999999999999988764
No 453
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=21.10 E-value=97 Score=20.19 Aligned_cols=25 Identities=16% Similarity=0.260 Sum_probs=22.0
Q ss_pred cccchhhHHhHhCCChHHHHHHHHH
Q 018294 282 TRIRIPFISKELNVPEKDVEQLLVS 306 (358)
Q Consensus 282 ~~I~l~~la~~l~l~~~~vE~~l~~ 306 (358)
+.-.+..||+.+|++...|..|..+
T Consensus 26 ~~~~~~~la~~~~l~~~qV~~WF~n 50 (56)
T smart00389 26 SREEREELAAKLGLSERQVKVWFQN 50 (56)
T ss_pred CHHHHHHHHHHHCcCHHHHHHhHHH
Confidence 6677999999999999999988765
No 454
>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=21.07 E-value=5.1e+02 Score=24.81 Aligned_cols=90 Identities=18% Similarity=0.214 Sum_probs=53.5
Q ss_pred hhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhhccCCChhhhHHHhhh
Q 018294 76 DMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQMYTETKNNKKLKQLYQKALAIKSAIPHPRIMGIIREC 155 (358)
Q Consensus 76 ~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~d~~~a~~~l~~a~~~~~~~~~~~~~~~i~~~ 155 (358)
+.|++..-...|+.+.-.-.. |. .....+-|-.+-.-|++-+++..|...|..+.+.. -.||.+.+.++.-
T Consensus 54 ~~gd~~~~~~~LqslK~da~E--~e-----p~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~k--c~D~dlnavLY~N 124 (390)
T KOG0551|consen 54 SEGDPNPDNVCLQSLKADAEE--GE-----PHEQAENYKEEGNEYFKEKRYKDAVESYTEGLKKK--CADPDLNAVLYTN 124 (390)
T ss_pred CCCCCCccHHHHHHhhhcccc--CC-----hHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhc--CCCccHHHHHHhh
Confidence 445554444444444433221 11 23466666666677888888999999998876543 4577877766644
Q ss_pred hhhhHhhhhcHHHHHHHHH
Q 018294 156 GGKMHMAERQWADAATDFF 174 (358)
Q Consensus 156 ~g~~~~~~~~y~~A~~~f~ 174 (358)
-+-.+++-+||+.|...=.
T Consensus 125 RAAa~~~l~NyRs~l~Dcs 143 (390)
T KOG0551|consen 125 RAAAQLYLGNYRSALNDCS 143 (390)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444555666666655433
No 455
>smart00777 Mad3_BUB1_I Mad3/BUB1 hoMad3/BUB1 homology region 1. Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of the binding of BUB1 and MAD3 to CDC20p.
Probab=20.89 E-value=4.4e+02 Score=21.10 Aligned_cols=78 Identities=21% Similarity=0.243 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHH---hhhhhhHHHhhhhhHHHHhhhchHhHHHHHHHHHHHhcccCCCCcchhhhhhHHHHHHHHHH
Q 018294 42 LLREFYQTTLKALEE---AKNERLWFKTNLKLCKIWFDMGEYGRMSKILKELHKSCQREDGTDDQKKGSQLLEVYAIEIQ 118 (358)
Q Consensus 42 ~~~~~~~~~~~~i~~---~~~~r~~~~~~~~la~~~~~~g~~~~a~~~l~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 118 (358)
-+..+++.|...... ..|+-.++|+=+++|+.. +++.+++.-+...-- +..+..+|..-+.
T Consensus 44 ~L~~lLerc~~~f~~~~~YknD~RyLkiWi~ya~~~------~dp~~if~~L~~~~I----------G~~~AlfYe~~A~ 107 (125)
T smart00777 44 GLLTLLERCIRYFEDDERYKNDPRYLKIWLKYADNC------DEPRELFQFLYSKGI----------GTKLALFYEEWAQ 107 (125)
T ss_pred hHHHHHHHHHHHhhhhhhhcCCHHHHHHHHHHHHhc------CCHHHHHHHHHHCCc----------chhhHHHHHHHHH
Confidence 355666666655433 224445666666666653 334555555554421 3446667767777
Q ss_pred HHHHhcCHHHHHHHHHH
Q 018294 119 MYTETKNNKKLKQLYQK 135 (358)
Q Consensus 119 ~~~~~~d~~~a~~~l~~ 135 (358)
++-..|++.+|..+|..
T Consensus 108 ~lE~~g~~~~A~~iy~~ 124 (125)
T smart00777 108 LLEAAGRYKKADEVYQL 124 (125)
T ss_pred HHHHcCCHHHHHHHHHc
Confidence 77888999999988763
No 456
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=20.87 E-value=1.7e+02 Score=26.41 Aligned_cols=30 Identities=20% Similarity=0.420 Sum_probs=28.6
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCcc
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRI 313 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i 313 (358)
+++.+||+.+|+|..-+-.+|..|+..|.+
T Consensus 20 l~l~ela~~~glpksT~~RlL~tL~~~G~v 49 (246)
T COG1414 20 LSLAELAERLGLPKSTVHRLLQTLVELGYV 49 (246)
T ss_pred CCHHHHHHHhCcCHHHHHHHHHHHHHCCCE
Confidence 789999999999999999999999999876
No 457
>PF13118 DUF3972: Protein of unknown function (DUF3972)
Probab=20.87 E-value=1.9e+02 Score=23.26 Aligned_cols=33 Identities=12% Similarity=0.094 Sum_probs=25.2
Q ss_pred HHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEc
Q 018294 289 ISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERG 327 (358)
Q Consensus 289 la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~ 327 (358)
.|+..|++.+.|. .||.+|.|.++. .+|.+++.
T Consensus 2 F~~l~~L~~~~v~----~~i~~g~l~~K~--e~g~~~Ie 34 (126)
T PF13118_consen 2 FAKLTGLDREAVL----ELIKRGKLKSKN--EDGKIYIE 34 (126)
T ss_pred hHHHhCCCHHHHH----HHHhcCCccccc--cCCeEEEE
Confidence 4778899988877 778899999887 45555554
No 458
>PF11972 HTH_13: HTH DNA binding domain; InterPro: IPR021068 The proteins in this entry have not been characterised. They contain a C-terminal helix-turn-helix DNA binding domain.
Probab=20.83 E-value=1.6e+02 Score=20.00 Aligned_cols=33 Identities=27% Similarity=0.466 Sum_probs=26.0
Q ss_pred hcccccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 277 LIKPYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 277 ~~~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
++-..--||..-+++.+|++..-+.+++.++-.
T Consensus 7 ll~~~P~Vsa~mva~~L~vT~~~A~~li~eLg~ 39 (54)
T PF11972_consen 7 LLLSRPLVSAPMVAKELGVTPQAAQRLIAELGL 39 (54)
T ss_pred HHHhCccccHHHHHHHhCCCHHHHHHHHHHhhc
Confidence 333344588899999999999999998877654
No 459
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.76 E-value=6.7e+02 Score=23.11 Aligned_cols=25 Identities=8% Similarity=0.086 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHH
Q 018294 112 VYAIEIQMYTETKNNKKLKQLYQKA 136 (358)
Q Consensus 112 ~~~~~~~~~~~~~d~~~a~~~l~~a 136 (358)
.+...+.+|+..|++.+|-=.|+..
T Consensus 156 AW~eLaeiY~~~~~f~kA~fClEE~ 180 (289)
T KOG3060|consen 156 AWHELAEIYLSEGDFEKAAFCLEEL 180 (289)
T ss_pred HHHHHHHHHHhHhHHHHHHHHHHHH
Confidence 3344455566666666666555554
No 460
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=20.72 E-value=5e+02 Score=21.58 Aligned_cols=35 Identities=11% Similarity=0.132 Sum_probs=28.4
Q ss_pred HHHhhhhhHHHHhhhc-hHhHHHHHHHHHHHhcccC
Q 018294 63 WFKTNLKLCKIWFDMG-EYGRMSKILKELHKSCQRE 97 (358)
Q Consensus 63 ~~~~~~~la~~~~~~g-~~~~a~~~l~~l~~~~~~~ 97 (358)
||--...+|+-+...| ++.+++..+......|..|
T Consensus 89 ~Fl~eV~~GE~L~~~g~~~~ega~hf~nAl~Vc~qP 124 (148)
T TIGR00985 89 FFLQEVQLGEELMAQGTNVDEGAVHFYNALKVYPQP 124 (148)
T ss_pred HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCCH
Confidence 4444677999999999 9999999998888888754
No 461
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=20.65 E-value=1.7e+02 Score=25.24 Aligned_cols=30 Identities=20% Similarity=0.278 Sum_probs=25.8
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.|...+.++||+.+|+|+.-|...+.++..
T Consensus 166 ~~~g~s~~EIA~~lgis~~tV~~~l~Ra~~ 195 (206)
T PRK12526 166 YFQELSQEQLAQQLNVPLGTVKSRLRLALA 195 (206)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 468899999999999999999988776553
No 462
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=20.64 E-value=2e+02 Score=23.83 Aligned_cols=29 Identities=24% Similarity=0.176 Sum_probs=25.4
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
.+...+..+||+.+|+|+.-|...+.+..
T Consensus 132 ~~~~~s~~EIA~~lgis~~tV~~~l~Ra~ 160 (173)
T PRK12522 132 YYEQYSYKEMSEILNIPIGTVKYRLNYAK 160 (173)
T ss_pred HHcCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 35789999999999999999999988754
No 463
>TIGR02859 spore_sigH RNA polymerase sigma-H factor. Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt.
Probab=20.55 E-value=1.9e+02 Score=24.44 Aligned_cols=29 Identities=17% Similarity=0.090 Sum_probs=24.8
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
.|...++.+||+.+|+|+.-|...+.++.
T Consensus 162 ~~~~~s~~eIA~~l~~s~~tV~~~l~r~r 190 (198)
T TIGR02859 162 YLDGKSYQEIACDLNRHVKSIDNALQRVK 190 (198)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 46889999999999999999987776654
No 464
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=20.52 E-value=1.9e+02 Score=24.44 Aligned_cols=30 Identities=7% Similarity=0.008 Sum_probs=25.8
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
.+...+.++||+.+|+|+.-|...+.++..
T Consensus 119 ~~~g~~~~EIA~~lgis~~tV~~~l~Rar~ 148 (181)
T PRK09637 119 ELEGLSQKEIAEKLGLSLSGAKSRVQRGRV 148 (181)
T ss_pred HhcCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 468899999999999999999888877653
No 465
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=20.51 E-value=4.1e+02 Score=20.81 Aligned_cols=53 Identities=25% Similarity=0.240 Sum_probs=35.4
Q ss_pred cchhhHHhHhCCChHHHHHHHHHhhhcCccceeeeccCCEEEEccCCccchHHHHHH
Q 018294 284 IRIPFISKELNVPEKDVEQLLVSLILDNRIDGHIDQVNRLLERGDRSKGMKKYTAID 340 (358)
Q Consensus 284 I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~akID~~~g~v~~~~~~~~~~~~~~l~ 340 (358)
..|.+||+.|+-+++.+-+++..=.. ..|+||.. |.+.+...=+.....+.|.
T Consensus 22 ~Nf~~I~~~L~R~p~hv~kyl~~ELg---t~g~id~~-~rlii~G~~~~~~i~~~l~ 74 (110)
T smart00653 22 VNFADIAKALNRPPDHVLKFLLAELG---TQGSIDGK-GRLIVNGRFTPKKLQDLLR 74 (110)
T ss_pred EcHHHHHHHHCCCHHHHHHHHHHHhC---CceeECCC-CeEEEEEeeCHHHHHHHHH
Confidence 47999999999999988887776332 35788766 6667665433323333343
No 466
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=20.49 E-value=1e+02 Score=19.51 Aligned_cols=22 Identities=27% Similarity=0.374 Sum_probs=15.7
Q ss_pred ccchhhHHhHhCCChHHHHHHH
Q 018294 283 RIRIPFISKELNVPEKDVEQLL 304 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l 304 (358)
-+++..||+.+|++..-+-.++
T Consensus 21 G~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 21 GMSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp T--HHHHHHHTTS-HHHHHHHH
T ss_pred CCCHHHHHHHHCcCHHHHHHHH
Confidence 3889999999999988776654
No 467
>PRK14511 maltooligosyl trehalose synthase; Provisional
Probab=20.46 E-value=83 Score=34.02 Aligned_cols=36 Identities=22% Similarity=0.392 Sum_probs=27.9
Q ss_pred hHHhHhCCCh------HHHHHHHHHhhhcCccce-eeeccCCE
Q 018294 288 FISKELNVPE------KDVEQLLVSLILDNRIDG-HIDQVNRL 323 (358)
Q Consensus 288 ~la~~l~l~~------~~vE~~l~~lI~~g~i~a-kID~~~g~ 323 (358)
.|..+.|+-+ +++=.++.+++.+|.++| +||+++|.
T Consensus 263 dIn~L~~lRvE~~~VF~~tH~li~~L~~~G~vdGlRIDHiDGL 305 (879)
T PRK14511 263 DVNTLAAVRVEDPEVFEETHALILRLLREGLVDGLRIDHPDGL 305 (879)
T ss_pred cchhheeeecCCHHHHHHHHHHHHHHHHCCCCCeEEeCCCccc
Confidence 4455555543 457789999999999998 99999883
No 468
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=20.37 E-value=1e+02 Score=26.29 Aligned_cols=31 Identities=13% Similarity=-0.053 Sum_probs=26.6
Q ss_pred ccccccchhhHHhHhCCChHHHHHHHHHhhh
Q 018294 279 KPYTRIRIPFISKELNVPEKDVEQLLVSLIL 309 (358)
Q Consensus 279 ~~y~~I~l~~la~~l~l~~~~vE~~l~~lI~ 309 (358)
..+...+..+||+.+|+|+.-|...+.++..
T Consensus 143 ~~~~g~s~~EIA~~lgis~~tVk~~l~Rar~ 173 (193)
T TIGR02947 143 ADVEGFAYKEIAEIMGTPIGTVMSRLHRGRK 173 (193)
T ss_pred hhhcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3467899999999999999999999887654
No 469
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.36 E-value=5.5e+02 Score=21.98 Aligned_cols=50 Identities=16% Similarity=0.086 Sum_probs=43.5
Q ss_pred ccchhhHHhHhCCChHHHHHHHHHhhhcCccce--eeeccCCEEEEccCCcc
Q 018294 283 RIRIPFISKELNVPEKDVEQLLVSLILDNRIDG--HIDQVNRLLERGDRSKG 332 (358)
Q Consensus 283 ~I~l~~la~~l~l~~~~vE~~l~~lI~~g~i~a--kID~~~g~v~~~~~~~~ 332 (358)
-++=++||..+|+...+|-+.|..+-.+|.+.. ..|...|...-+|....
T Consensus 32 e~tDeela~~l~i~~~~vrriL~~L~e~~li~~~k~rd~~~~~~~y~w~~~~ 83 (176)
T COG1675 32 ELTDEELAELLGIKKNEVRRILYALYEDGLISYRKKRDEESGWEEYTWYINY 83 (176)
T ss_pred CcChHHHHHHhCccHHHHHHHHHHHHhCCceEEEeecccCCCcEEEEEEech
Confidence 577899999999999999999999999999964 68888998888886543
No 470
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=20.10 E-value=2.1e+02 Score=24.22 Aligned_cols=29 Identities=17% Similarity=0.205 Sum_probs=25.2
Q ss_pred cccccchhhHHhHhCCChHHHHHHHHHhh
Q 018294 280 PYTRIRIPFISKELNVPEKDVEQLLVSLI 308 (358)
Q Consensus 280 ~y~~I~l~~la~~l~l~~~~vE~~l~~lI 308 (358)
.+...+..+||+.+|+|+.-|...+.++.
T Consensus 144 ~~~g~s~~EIA~~lgis~~tV~~~l~Rar 172 (191)
T PRK12520 144 EWLELETEEICQELQITATNAWVLLYRAR 172 (191)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34678899999999999999999988764
No 471
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=20.05 E-value=1.7e+02 Score=33.04 Aligned_cols=55 Identities=18% Similarity=0.371 Sum_probs=41.2
Q ss_pred hhhHHHhhhhhhhHhhhhcHHHHHHHHHHHhhhhhhhcchhHHH-HHHHHHHHHHh
Q 018294 147 RIMGIIRECGGKMHMAERQWADAATDFFEAFKNYDEAGNQRRIQ-CLKYLVLANML 201 (358)
Q Consensus 147 ~~~~~i~~~~g~~~~~~~~y~~A~~~f~e~~~~~~~~~~~~~~~-~l~y~~l~~lL 201 (358)
+..|+..-..|-+++..|+|.+|..+|.++.+.....+|.-|.. +|-.+++|.+|
T Consensus 239 r~~gR~~k~~gd~~LlaG~~~dAl~~y~~a~~~~k~~~D~lW~a~alEg~~~~~~l 294 (1185)
T PF08626_consen 239 RCKGRLQKVLGDLYLLAGRWPDALKEYTEAIEILKSSNDYLWLASALEGIAVCLLL 294 (1185)
T ss_pred hhhhhhhhhhhhHHHHcCCHHHHHHHHHHHHHHHhhcCcHhhhHHHHHHHHHHHHH
Confidence 34567777889999999999999999999987766666654432 44556666665
No 472
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=20.04 E-value=2.8e+02 Score=20.94 Aligned_cols=27 Identities=7% Similarity=0.187 Sum_probs=21.7
Q ss_pred ccccchhhHHhHhCCChHHHHHHHHHh
Q 018294 281 YTRIRIPFISKELNVPEKDVEQLLVSL 307 (358)
Q Consensus 281 y~~I~l~~la~~l~l~~~~vE~~l~~l 307 (358)
...+++++||+.+|+|+.-+.....+.
T Consensus 19 ~~~~~~~~lA~~~~~S~~~l~r~f~~~ 45 (107)
T PRK10219 19 DQPLNIDVVAKKSGYSKWYLQRMFRTV 45 (107)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 356899999999999988877766664
Done!