Query psy4083
Match_columns 374
No_of_seqs 185 out of 700
Neff 7.3
Searched_HMMs 46136
Date Sat Aug 17 00:52:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4083.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4083hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1463|consensus 100.0 1.5E-76 3.3E-81 556.8 33.2 361 1-362 1-411 (411)
2 COG5159 RPN6 26S proteasome re 100.0 1.9E-67 4.2E-72 486.4 33.0 370 1-373 1-420 (421)
3 KOG1464|consensus 100.0 1.7E-60 3.7E-65 438.4 24.1 325 27-367 58-432 (440)
4 KOG0687|consensus 100.0 1.9E-40 4.1E-45 311.3 25.4 265 94-364 80-392 (393)
5 KOG1498|consensus 100.0 1.2E-36 2.6E-41 291.8 29.2 320 34-372 48-422 (439)
6 COG5187 RPN7 26S proteasome re 100.0 1.5E-33 3.2E-38 261.5 27.7 292 55-355 55-390 (412)
7 COG5071 RPN5 26S proteasome re 100.0 2.9E-32 6.2E-37 253.9 24.1 319 35-372 49-422 (439)
8 KOG0686|consensus 100.0 3.5E-29 7.5E-34 241.5 23.6 256 113-373 146-442 (466)
9 KOG1497|consensus 99.9 5.1E-19 1.1E-23 166.6 26.4 247 117-369 104-390 (399)
10 KOG2758|consensus 99.8 1.8E-17 4E-22 156.3 22.8 265 39-361 130-412 (432)
11 PF10602 RPN7: 26S proteasome 99.7 2.2E-16 4.7E-21 141.6 17.0 157 95-257 13-173 (177)
12 smart00753 PAM PCI/PINT associ 99.5 2.7E-14 5.8E-19 113.1 9.1 73 273-345 1-73 (88)
13 smart00088 PINT motif in prote 99.5 2.7E-14 5.8E-19 113.1 9.1 73 273-345 1-73 (88)
14 PF01399 PCI: PCI domain; Int 99.5 9.3E-14 2E-18 112.7 9.2 77 264-340 28-104 (105)
15 KOG2908|consensus 99.4 2.6E-09 5.7E-14 102.3 29.9 240 127-367 84-368 (380)
16 KOG2581|consensus 99.2 3.5E-08 7.6E-13 96.6 28.0 189 165-360 216-448 (493)
17 KOG2582|consensus 98.7 2.7E-06 5.9E-11 82.6 20.6 184 154-345 136-364 (422)
18 KOG1076|consensus 98.4 0.00024 5.3E-09 74.1 27.8 210 152-365 480-786 (843)
19 KOG2753|consensus 98.1 0.00094 2E-08 64.4 22.4 85 276-360 274-361 (378)
20 PF14938 SNAP: Soluble NSF att 97.9 0.0077 1.7E-07 57.8 24.4 184 33-226 34-222 (282)
21 KOG2072|consensus 97.7 0.059 1.3E-06 57.7 27.8 77 264-340 415-492 (988)
22 PRK11788 tetratricopeptide rep 97.2 0.052 1.1E-06 53.6 20.4 94 123-230 219-312 (389)
23 PF14938 SNAP: Soluble NSF att 97.2 0.22 4.7E-06 47.8 24.2 180 45-233 82-263 (282)
24 COG5600 Transcription-associat 97.2 0.1 2.3E-06 51.5 21.1 179 163-344 182-406 (413)
25 PF09976 TPR_21: Tetratricopep 97.1 0.044 9.4E-07 47.0 16.6 96 117-226 49-144 (145)
26 KOG2688|consensus 97.0 0.008 1.7E-07 59.9 11.3 185 156-343 161-386 (394)
27 PF09976 TPR_21: Tetratricopep 96.8 0.12 2.6E-06 44.2 16.0 123 49-184 22-144 (145)
28 KOG1840|consensus 96.7 0.28 6.1E-06 51.0 20.7 189 40-232 201-399 (508)
29 TIGR02521 type_IV_pilW type IV 96.5 0.46 9.9E-06 41.9 18.8 167 39-229 32-198 (234)
30 TIGR02795 tol_pal_ybgF tol-pal 96.5 0.055 1.2E-06 43.4 11.3 102 123-232 7-108 (119)
31 KOG1840|consensus 96.4 0.44 9.5E-06 49.6 19.9 182 39-224 284-474 (508)
32 PRK11788 tetratricopeptide rep 96.4 0.41 8.9E-06 47.1 19.0 26 41-66 72-97 (389)
33 TIGR00990 3a0801s09 mitochondr 96.4 0.41 8.9E-06 50.9 20.2 31 39-69 366-396 (615)
34 TIGR00990 3a0801s09 mitochondr 96.2 0.33 7.1E-06 51.7 18.6 163 41-229 334-496 (615)
35 TIGR03302 OM_YfiO outer membra 96.2 1 2.2E-05 41.2 19.4 180 40-230 35-233 (235)
36 PF04190 DUF410: Protein of un 95.8 1.2 2.6E-05 42.3 18.4 100 35-138 7-110 (260)
37 PF13424 TPR_12: Tetratricopep 95.8 0.078 1.7E-06 40.0 8.4 65 123-187 10-75 (78)
38 cd00189 TPR Tetratricopeptide 95.8 0.12 2.6E-06 37.8 9.4 93 123-229 5-97 (100)
39 PF10255 Paf67: RNA polymerase 95.7 2 4.3E-05 43.5 20.4 154 163-318 127-343 (404)
40 TIGR02521 type_IV_pilW type IV 95.6 1.5 3.3E-05 38.5 18.3 160 40-223 67-226 (234)
41 PF09756 DDRGK: DDRGK domain; 95.5 0.027 5.8E-07 50.9 5.7 73 285-362 102-174 (188)
42 TIGR03302 OM_YfiO outer membra 95.3 2.2 4.8E-05 39.0 18.0 133 39-184 71-229 (235)
43 TIGR00540 hemY_coli hemY prote 95.3 0.91 2E-05 45.8 16.6 91 123-224 268-359 (409)
44 TIGR02917 PEP_TPR_lipo putativ 95.1 6 0.00013 42.5 23.8 95 123-231 640-734 (899)
45 PF10075 PCI_Csn8: COP9 signal 95.0 0.032 6.9E-07 48.0 4.4 50 271-320 72-121 (143)
46 CHL00033 ycf3 photosystem I as 95.0 0.25 5.5E-06 43.2 10.1 106 123-232 40-145 (168)
47 PRK02603 photosystem I assembl 94.9 0.25 5.3E-06 43.5 10.0 105 123-231 40-144 (172)
48 TIGR02917 PEP_TPR_lipo putativ 94.9 1.5 3.2E-05 47.2 17.8 22 124-145 199-220 (899)
49 PF09012 FeoC: FeoC like trans 94.7 0.06 1.3E-06 40.4 4.6 49 286-334 4-52 (69)
50 COG3063 PilF Tfp pilus assembl 94.7 2 4.3E-05 40.2 15.3 121 117-256 36-156 (250)
51 PRK10747 putative protoheme IX 94.6 2.1 4.5E-05 43.1 16.9 89 123-228 268-356 (398)
52 KOG2003|consensus 94.5 2.1 4.6E-05 43.6 16.2 175 35-246 521-701 (840)
53 KOG2003|consensus 94.4 2.8 6E-05 42.8 16.5 167 98-281 402-604 (840)
54 PRK10866 outer membrane biogen 94.4 3.4 7.3E-05 38.8 16.7 137 39-182 70-236 (243)
55 PF13432 TPR_16: Tetratricopep 94.3 0.32 6.9E-06 35.2 7.8 59 123-187 2-60 (65)
56 COG2956 Predicted N-acetylgluc 94.0 3.2 7E-05 40.7 15.7 69 112-187 210-278 (389)
57 PF12895 Apc3: Anaphase-promot 93.9 0.58 1.3E-05 35.8 8.9 84 130-226 1-84 (84)
58 TIGR02552 LcrH_SycD type III s 93.9 0.74 1.6E-05 38.1 10.1 94 123-230 22-115 (135)
59 PRK10049 pgaA outer membrane p 93.9 4.2 9.1E-05 44.6 18.6 97 123-233 364-460 (765)
60 PRK10370 formate-dependent nit 93.4 5.3 0.00012 36.2 15.6 96 123-232 78-176 (198)
61 PF13414 TPR_11: TPR repeat; P 93.2 0.45 9.9E-06 34.7 6.9 59 123-187 8-67 (69)
62 KOG1125|consensus 93.2 4.9 0.00011 42.0 16.3 95 118-227 430-525 (579)
63 PRK11447 cellulose synthase su 93.1 8.6 0.00019 44.3 20.2 56 123-184 608-663 (1157)
64 PF13424 TPR_12: Tetratricopep 93.1 0.54 1.2E-05 35.2 7.3 70 157-228 4-74 (78)
65 KOG3081|consensus 92.6 4.1 8.9E-05 38.9 13.7 116 125-257 115-259 (299)
66 PF08784 RPA_C: Replication pr 92.3 0.17 3.7E-06 40.8 3.8 38 295-332 64-101 (102)
67 PF13525 YfiO: Outer membrane 92.3 8.5 0.00018 34.8 19.3 164 38-251 5-190 (203)
68 PLN03088 SGT1, suppressor of 92.1 1.5 3.2E-05 43.6 11.0 93 123-229 7-99 (356)
69 PF08220 HTH_DeoR: DeoR-like h 92.0 0.46 9.9E-06 34.3 5.4 53 283-339 1-53 (57)
70 PRK15359 type III secretion sy 92.0 2.1 4.5E-05 36.6 10.4 92 123-228 29-120 (144)
71 PRK11447 cellulose synthase su 92.0 11 0.00024 43.3 19.3 97 124-228 275-379 (1157)
72 cd05804 StaR_like StaR_like; a 91.9 10 0.00022 36.6 16.6 163 45-227 50-213 (355)
73 KOG3054|consensus 91.9 0.7 1.5E-05 43.1 7.5 70 288-362 206-275 (299)
74 cd00189 TPR Tetratricopeptide 91.4 2.8 6.1E-05 30.2 9.5 56 124-185 40-95 (100)
75 KOG3060|consensus 91.1 14 0.00031 35.1 17.0 149 28-188 48-221 (289)
76 PRK04841 transcriptional regul 91.1 28 0.00062 38.5 22.5 182 42-227 456-639 (903)
77 TIGR02795 tol_pal_ybgF tol-pal 90.9 4.4 9.5E-05 32.0 10.8 101 39-146 3-104 (119)
78 PRK15431 ferrous iron transpor 90.8 0.47 1E-05 36.6 4.5 52 286-337 6-57 (78)
79 PRK10803 tol-pal system protei 90.7 4.4 9.5E-05 38.6 12.2 98 127-233 152-250 (263)
80 PF04733 Coatomer_E: Coatomer 90.6 7.2 0.00016 37.7 13.7 53 124-187 108-160 (290)
81 KOG2002|consensus 90.4 13 0.00028 41.3 16.4 99 123-231 275-373 (1018)
82 COG3355 Predicted transcriptio 90.2 4.1 8.8E-05 34.5 10.0 87 285-371 31-119 (126)
83 KOG1861|consensus 90.1 9.2 0.0002 39.2 14.1 176 131-318 320-501 (540)
84 TIGR02552 LcrH_SycD type III s 90.1 9.4 0.0002 31.3 12.8 58 124-187 57-114 (135)
85 PF12569 NARP1: NMDA receptor- 89.9 10 0.00022 39.9 14.9 65 113-187 193-257 (517)
86 PF04733 Coatomer_E: Coatomer 89.6 21 0.00045 34.5 17.8 123 124-265 137-262 (290)
87 KOG1155|consensus 89.4 21 0.00045 36.8 16.0 137 78-229 385-536 (559)
88 PF13371 TPR_9: Tetratricopept 89.2 1.3 2.8E-05 32.6 5.8 58 124-187 1-58 (73)
89 PRK14574 hmsH outer membrane p 88.9 23 0.00049 39.4 17.5 163 42-231 38-200 (822)
90 PRK04841 transcriptional regul 88.9 42 0.00091 37.1 24.1 108 123-231 496-604 (903)
91 KOG0548|consensus 88.8 33 0.00071 35.8 22.3 91 124-228 364-454 (539)
92 PRK15174 Vi polysaccharide exp 88.6 28 0.0006 37.6 17.7 63 158-228 284-346 (656)
93 PRK15174 Vi polysaccharide exp 88.6 39 0.00085 36.4 19.8 93 123-229 289-381 (656)
94 PF13429 TPR_15: Tetratricopep 88.5 4.8 0.0001 38.0 10.6 92 123-228 151-242 (280)
95 PF13525 YfiO: Outer membrane 88.4 19 0.00041 32.5 18.2 133 39-177 43-197 (203)
96 PF12895 Apc3: Anaphase-promot 88.3 1.6 3.5E-05 33.3 6.0 55 123-184 30-84 (84)
97 PF13429 TPR_15: Tetratricopep 88.1 16 0.00034 34.4 14.0 163 39-228 111-276 (280)
98 PF14559 TPR_19: Tetratricopep 87.8 1.1 2.3E-05 32.5 4.5 53 129-187 2-54 (68)
99 KOG0495|consensus 87.2 18 0.0004 38.8 14.4 178 44-235 624-852 (913)
100 COG3071 HemY Uncharacterized e 87.1 36 0.00077 34.3 17.4 91 121-228 266-356 (400)
101 KOG2300|consensus 87.1 41 0.00089 35.0 20.0 179 74-263 4-191 (629)
102 PF13414 TPR_11: TPR repeat; P 87.0 3.6 7.8E-05 29.8 7.0 62 159-228 4-66 (69)
103 PF09295 ChAPs: ChAPs (Chs5p-A 86.9 19 0.00042 36.4 14.3 120 43-183 174-293 (395)
104 COG2956 Predicted N-acetylgluc 86.9 34 0.00074 33.8 17.0 90 122-223 145-237 (389)
105 KOG0495|consensus 86.7 35 0.00076 36.8 16.1 120 92-232 564-683 (913)
106 TIGR00540 hemY_coli hemY prote 86.7 22 0.00047 35.8 14.8 141 37-190 262-402 (409)
107 PF13176 TPR_7: Tetratricopept 86.7 1.4 3.1E-05 28.2 4.1 23 123-145 4-26 (36)
108 PLN03218 maturation of RBCL 1; 86.2 51 0.0011 37.8 18.6 58 124-186 620-677 (1060)
109 smart00550 Zalpha Z-DNA-bindin 86.1 1.6 3.4E-05 32.7 4.6 45 284-328 8-54 (68)
110 PLN03218 maturation of RBCL 1; 86.0 53 0.0012 37.7 18.6 57 124-185 655-711 (1060)
111 PF13174 TPR_6: Tetratricopept 85.7 1.7 3.7E-05 26.5 4.0 31 39-69 1-31 (33)
112 KOG0543|consensus 85.1 4.9 0.00011 40.3 8.8 99 123-229 213-320 (397)
113 PRK10049 pgaA outer membrane p 85.0 65 0.0014 35.4 18.7 100 123-230 315-423 (765)
114 smart00345 HTH_GNTR helix_turn 84.8 1.9 4E-05 30.3 4.4 48 280-327 3-51 (60)
115 KOG2002|consensus 84.6 75 0.0016 35.7 20.3 199 39-251 308-540 (1018)
116 PRK15179 Vi polysaccharide bio 84.1 41 0.00088 36.7 16.0 132 39-188 87-218 (694)
117 PRK09782 bacteriophage N4 rece 83.2 87 0.0019 35.7 18.6 92 123-228 614-705 (987)
118 KOG4626|consensus 83.2 8 0.00017 41.2 9.6 24 123-146 393-416 (966)
119 PLN03088 SGT1, suppressor of 82.8 25 0.00054 34.9 12.9 79 123-210 41-119 (356)
120 PRK11189 lipoprotein NlpI; Pro 82.8 26 0.00057 33.6 12.8 91 124-228 70-160 (296)
121 PF03399 SAC3_GANP: SAC3/GANP/ 82.7 4.8 0.00011 36.1 7.2 43 266-308 160-204 (204)
122 TIGR03504 FimV_Cterm FimV C-te 82.6 3.2 7E-05 28.4 4.5 41 42-82 3-43 (44)
123 smart00420 HTH_DEOR helix_turn 82.5 2.5 5.4E-05 28.8 4.1 34 295-328 13-46 (53)
124 PF13412 HTH_24: Winged helix- 82.4 3.3 7.1E-05 28.3 4.6 42 285-326 6-47 (48)
125 KOG3617|consensus 82.3 60 0.0013 36.0 15.8 175 45-226 820-1034(1416)
126 cd05804 StaR_like StaR_like; a 82.1 50 0.0011 31.8 19.0 183 43-234 119-341 (355)
127 PF08279 HTH_11: HTH domain; 81.8 3.8 8.1E-05 28.7 4.9 42 283-324 1-43 (55)
128 KOG4234|consensus 81.7 13 0.00028 34.3 9.3 92 44-145 101-195 (271)
129 PF10602 RPN7: 26S proteasome 81.4 39 0.00084 30.1 12.9 36 36-71 34-69 (177)
130 PF04703 FaeA: FaeA-like prote 81.0 2.7 5.9E-05 31.0 3.9 41 287-327 5-46 (62)
131 PF10345 Cohesin_load: Cohesin 80.7 58 0.0013 34.8 15.6 120 113-237 56-176 (608)
132 KOG1126|consensus 80.5 22 0.00047 37.9 11.8 92 123-228 426-517 (638)
133 PF12688 TPR_5: Tetratrico pep 80.1 34 0.00073 28.6 11.7 98 123-228 6-103 (120)
134 PF13512 TPR_18: Tetratricopep 79.9 29 0.00062 30.0 10.5 83 125-215 17-99 (142)
135 PF00392 GntR: Bacterial regul 79.9 6 0.00013 28.8 5.6 52 276-327 3-55 (64)
136 KOG1941|consensus 79.9 39 0.00085 33.9 12.6 111 124-235 128-281 (518)
137 COG2976 Uncharacterized protei 79.7 49 0.0011 30.3 13.9 77 104-187 111-188 (207)
138 COG2909 MalT ATP-dependent tra 79.5 1.1E+02 0.0024 34.1 19.0 136 35-174 412-553 (894)
139 KOG0624|consensus 79.5 34 0.00074 34.1 11.9 142 40-187 225-370 (504)
140 PRK11189 lipoprotein NlpI; Pro 79.4 60 0.0013 31.1 18.7 126 40-184 66-191 (296)
141 COG3071 HemY Uncharacterized e 78.9 55 0.0012 33.0 13.4 124 40-185 265-388 (400)
142 PRK09782 bacteriophage N4 rece 78.7 1E+02 0.0022 35.2 17.2 90 123-226 648-737 (987)
143 KOG1538|consensus 78.5 89 0.0019 33.8 15.2 149 45-226 652-830 (1081)
144 PLN03081 pentatricopeptide (PP 78.4 79 0.0017 34.1 15.9 58 124-186 296-353 (697)
145 PF03704 BTAD: Bacterial trans 78.2 39 0.00085 28.3 14.5 81 113-201 59-142 (146)
146 PRK10370 formate-dependent nit 78.2 40 0.00087 30.4 11.7 95 41-147 76-173 (198)
147 PRK10866 outer membrane biogen 78.2 60 0.0013 30.4 20.4 126 123-256 74-229 (243)
148 PRK10803 tol-pal system protei 77.8 11 0.00024 35.9 8.1 62 122-186 184-245 (263)
149 PF13174 TPR_6: Tetratricopept 77.8 2.3 4.9E-05 25.9 2.4 25 123-147 5-29 (33)
150 PF02082 Rrf2: Transcriptional 77.8 7.5 0.00016 29.9 5.8 49 296-345 25-73 (83)
151 PRK09954 putative kinase; Prov 77.7 5.6 0.00012 39.3 6.4 55 285-339 6-63 (362)
152 PF13432 TPR_16: Tetratricopep 77.7 10 0.00022 27.0 6.3 58 163-228 2-59 (65)
153 PF12802 MarR_2: MarR family; 77.6 8 0.00017 27.5 5.6 50 286-335 9-60 (62)
154 PF07719 TPR_2: Tetratricopept 77.6 4.2 9.1E-05 24.9 3.6 24 123-146 6-29 (34)
155 PF11817 Foie-gras_1: Foie gra 77.5 38 0.00083 31.7 11.7 81 97-177 157-237 (247)
156 PRK02603 photosystem I assembl 77.4 46 0.001 28.9 11.6 74 152-230 29-102 (172)
157 COG5010 TadD Flp pilus assembl 77.3 22 0.00047 33.8 9.7 91 124-228 106-196 (257)
158 PRK10434 srlR DNA-bindng trans 77.3 4 8.7E-05 38.6 5.0 45 282-326 5-49 (256)
159 KOG2376|consensus 77.1 37 0.00081 35.9 12.0 106 38-145 376-485 (652)
160 cd07377 WHTH_GntR Winged helix 76.7 8.1 0.00018 27.5 5.5 51 277-327 5-56 (66)
161 COG4235 Cytochrome c biogenesi 76.7 30 0.00066 33.4 10.7 90 123-224 161-251 (287)
162 PRK04424 fatty acid biosynthes 76.6 3.8 8.2E-05 36.9 4.3 45 283-327 8-52 (185)
163 PF13176 TPR_7: Tetratricopept 76.0 7.5 0.00016 24.8 4.5 29 41-69 2-30 (36)
164 PRK15363 pathogenicity island 75.3 39 0.00085 29.7 10.2 94 123-230 40-133 (157)
165 PF13181 TPR_8: Tetratricopept 75.1 8.1 0.00017 23.7 4.5 24 123-146 6-29 (34)
166 PRK12370 invasion protein regu 74.7 1.2E+02 0.0025 32.0 16.0 92 123-228 343-434 (553)
167 smart00344 HTH_ASNC helix_turn 74.7 5.8 0.00013 31.8 4.6 47 285-331 6-55 (108)
168 KOG4414|consensus 74.6 23 0.00049 30.8 8.2 109 165-318 46-154 (197)
169 KOG1585|consensus 74.4 83 0.0018 30.1 17.7 147 33-188 70-220 (308)
170 PRK10411 DNA-binding transcrip 74.3 5 0.00011 37.6 4.7 46 282-327 4-49 (240)
171 PF09295 ChAPs: ChAPs (Chs5p-A 74.3 60 0.0013 32.9 12.6 94 123-231 205-298 (395)
172 PF00515 TPR_1: Tetratricopept 74.1 8.3 0.00018 23.7 4.3 24 123-146 6-29 (34)
173 KOG1129|consensus 74.1 50 0.0011 32.8 11.4 160 45-231 230-389 (478)
174 PRK12370 invasion protein regu 73.6 1.2E+02 0.0027 31.8 17.7 93 123-228 377-469 (553)
175 PF01047 MarR: MarR family; I 73.6 8.6 0.00019 27.2 4.8 50 286-335 7-56 (59)
176 KOG2076|consensus 72.8 45 0.00098 36.9 11.8 155 73-248 132-288 (895)
177 KOG4626|consensus 72.3 1.5E+02 0.0032 32.1 16.9 166 39-227 355-520 (966)
178 PRK06266 transcription initiat 71.8 58 0.0013 29.2 10.7 63 265-328 4-68 (178)
179 CHL00033 ycf3 photosystem I as 71.8 53 0.0011 28.3 10.4 74 152-230 29-102 (168)
180 KOG0543|consensus 71.7 1.2E+02 0.0026 30.7 15.0 95 123-231 262-357 (397)
181 smart00347 HTH_MARR helix_turn 71.4 44 0.00095 25.6 9.1 49 287-335 15-63 (101)
182 KOG0547|consensus 70.7 29 0.00063 36.0 9.3 106 124-243 121-229 (606)
183 PF09743 DUF2042: Uncharacteri 70.7 23 0.0005 34.0 8.4 55 274-333 113-167 (272)
184 PF13428 TPR_14: Tetratricopep 70.6 9.8 0.00021 25.3 4.3 24 123-146 6-29 (44)
185 PF13374 TPR_10: Tetratricopep 70.5 8.2 0.00018 24.6 3.8 28 123-150 7-34 (42)
186 PRK13509 transcriptional repre 70.5 7 0.00015 36.9 4.8 46 282-327 5-50 (251)
187 PRK10906 DNA-binding transcrip 69.9 7.8 0.00017 36.6 4.9 46 282-327 5-50 (252)
188 TIGR03504 FimV_Cterm FimV C-te 69.8 5.9 0.00013 27.1 3.0 23 123-145 4-26 (44)
189 PF01638 HxlR: HxlR-like helix 69.8 42 0.0009 26.2 8.4 68 295-362 17-85 (90)
190 PRK11014 transcriptional repre 69.7 13 0.00028 31.7 5.8 59 282-340 11-69 (141)
191 PRK15359 type III secretion sy 69.4 48 0.001 28.1 9.4 60 123-188 63-122 (144)
192 KOG2300|consensus 69.1 1.5E+02 0.0033 31.0 18.4 214 27-248 262-492 (629)
193 PF01022 HTH_5: Bacterial regu 69.1 15 0.00032 25.0 5.0 42 283-326 4-45 (47)
194 PF13371 TPR_9: Tetratricopept 68.9 17 0.00037 26.3 5.7 55 166-228 3-57 (73)
195 PRK10681 DNA-binding transcrip 68.5 7.2 0.00016 36.8 4.4 42 281-322 6-47 (252)
196 COG1349 GlpR Transcriptional r 68.5 8.2 0.00018 36.5 4.8 47 281-327 4-50 (253)
197 cd00090 HTH_ARSR Arsenical Res 68.4 30 0.00065 24.6 7.0 43 297-339 21-63 (78)
198 KOG1173|consensus 68.3 1.7E+02 0.0036 31.1 15.9 179 33-227 239-441 (611)
199 PF13404 HTH_AsnC-type: AsnC-t 68.1 10 0.00022 25.5 3.9 35 286-320 7-41 (42)
200 cd00092 HTH_CRP helix_turn_hel 68.1 11 0.00024 27.0 4.5 34 295-328 24-57 (67)
201 smart00419 HTH_CRP helix_turn_ 67.6 8.6 0.00019 25.6 3.5 32 296-327 8-39 (48)
202 KOG2076|consensus 67.4 2.1E+02 0.0046 31.9 19.8 167 39-228 140-308 (895)
203 PLN03081 pentatricopeptide (PP 67.3 1.3E+02 0.0027 32.6 14.2 87 124-226 468-554 (697)
204 PF07719 TPR_2: Tetratricopept 66.1 18 0.00038 21.9 4.5 29 40-68 3-31 (34)
205 TIGR03879 near_KaiC_dom probab 66.0 8.5 0.00018 29.4 3.5 35 292-326 28-62 (73)
206 TIGR00373 conserved hypothetic 65.9 92 0.002 27.2 10.9 93 269-363 2-97 (158)
207 PRK09802 DNA-binding transcrip 65.8 10 0.00023 36.1 4.9 47 281-327 16-62 (269)
208 PRK10747 putative protoheme IX 65.6 1.4E+02 0.003 29.9 13.3 121 125-263 91-211 (398)
209 PRK11169 leucine-responsive tr 65.4 13 0.00028 32.6 5.1 48 284-331 16-66 (164)
210 COG4783 Putative Zn-dependent 65.2 1.8E+02 0.0038 30.3 14.3 153 39-204 307-472 (484)
211 smart00418 HTH_ARSR helix_turn 65.2 20 0.00042 24.9 5.3 40 294-333 8-47 (66)
212 PRK14574 hmsH outer membrane p 65.0 2.4E+02 0.0051 31.6 16.9 96 123-226 372-476 (822)
213 KOG3785|consensus 64.6 69 0.0015 32.2 10.2 56 123-184 62-117 (557)
214 TIGR02337 HpaR homoprotocatech 64.4 55 0.0012 26.6 8.5 50 287-336 33-82 (118)
215 PRK14720 transcript cleavage f 64.2 2.5E+02 0.0055 31.7 17.7 128 41-184 34-175 (906)
216 KOG3677|consensus 64.0 53 0.0011 33.5 9.4 183 128-342 282-486 (525)
217 TIGR02010 IscR iron-sulfur clu 62.5 18 0.0004 30.5 5.4 44 296-339 25-68 (135)
218 PRK11920 rirA iron-responsive 61.8 19 0.0004 31.4 5.4 45 295-339 23-67 (153)
219 KOG1130|consensus 61.5 48 0.001 33.9 8.6 100 123-225 200-300 (639)
220 PF13545 HTH_Crp_2: Crp-like h 60.9 12 0.00025 27.9 3.5 43 296-342 28-70 (76)
221 COG4105 ComL DNA uptake lipopr 60.8 1.6E+02 0.0034 28.1 16.8 131 29-178 66-224 (254)
222 COG1959 Predicted transcriptio 60.7 16 0.00035 31.7 4.8 47 293-339 22-68 (150)
223 PF12793 SgrR_N: Sugar transpo 60.5 72 0.0016 26.4 8.4 75 295-369 18-106 (115)
224 TIGR02944 suf_reg_Xantho FeS a 60.2 14 0.00031 30.8 4.3 44 295-338 24-67 (130)
225 KOG1156|consensus 60.1 92 0.002 33.5 10.8 59 124-188 377-435 (700)
226 TIGR03338 phnR_burk phosphonat 59.9 71 0.0015 28.7 9.2 64 275-340 13-76 (212)
227 COG2976 Uncharacterized protei 59.7 1.4E+02 0.003 27.5 10.6 102 117-232 90-191 (207)
228 PF13601 HTH_34: Winged helix 59.4 62 0.0014 24.8 7.4 49 287-335 5-53 (80)
229 PF00325 Crp: Bacterial regula 58.5 18 0.00039 23.0 3.4 30 297-326 3-32 (32)
230 PRK10857 DNA-binding transcrip 57.3 27 0.00059 30.8 5.7 45 295-339 24-68 (164)
231 KOG2047|consensus 57.3 1.1E+02 0.0024 33.0 10.8 128 29-161 153-291 (835)
232 PRK11179 DNA-binding transcrip 57.1 20 0.00044 30.9 4.8 47 286-332 13-62 (153)
233 KOG3250|consensus 56.7 22 0.00048 32.9 5.0 64 304-367 117-184 (258)
234 PF09339 HTH_IclR: IclR helix- 56.5 31 0.00067 23.9 4.8 32 295-326 17-48 (52)
235 TIGR02844 spore_III_D sporulat 55.5 19 0.00041 28.0 3.8 34 283-317 7-40 (80)
236 smart00346 HTH_ICLR helix_turn 55.5 27 0.00058 26.8 4.8 44 285-328 8-52 (91)
237 PRK11534 DNA-binding transcrip 55.4 55 0.0012 29.8 7.7 63 275-339 9-71 (224)
238 PF01984 dsDNA_bind: Double-st 54.0 4.3 9.2E-05 33.4 0.0 51 281-331 32-82 (107)
239 PF01325 Fe_dep_repress: Iron 53.7 33 0.00073 24.8 4.7 36 292-327 18-53 (60)
240 PF01726 LexA_DNA_bind: LexA D 53.6 29 0.00063 25.7 4.5 32 296-327 25-57 (65)
241 TIGR01764 excise DNA binding d 53.5 22 0.00047 23.5 3.6 30 297-330 2-31 (49)
242 PF13181 TPR_8: Tetratricopept 53.3 37 0.0008 20.5 4.4 30 159-188 2-31 (34)
243 KOG2114|consensus 53.2 2.2E+02 0.0048 31.7 12.5 32 37-68 367-398 (933)
244 KOG1173|consensus 53.1 2.9E+02 0.0063 29.4 12.9 139 42-188 350-519 (611)
245 KOG2376|consensus 53.0 3.2E+02 0.0069 29.3 19.4 62 125-186 182-252 (652)
246 KOG0551|consensus 52.8 87 0.0019 31.1 8.7 90 123-222 86-175 (390)
247 PF08280 HTH_Mga: M protein tr 52.7 35 0.00075 24.5 4.7 40 282-321 5-44 (59)
248 PF12840 HTH_20: Helix-turn-he 52.3 32 0.0007 24.6 4.5 40 289-328 17-56 (61)
249 PRK03837 transcriptional regul 52.0 49 0.0011 30.4 6.8 63 275-339 15-78 (241)
250 TIGR02702 SufR_cyano iron-sulf 52.0 72 0.0016 28.8 7.8 44 286-329 5-48 (203)
251 COG1522 Lrp Transcriptional re 52.0 27 0.00059 29.7 4.8 46 287-332 13-61 (154)
252 PF13463 HTH_27: Winged helix 51.9 59 0.0013 23.3 6.0 48 287-334 8-56 (68)
253 PF14689 SPOB_a: Sensor_kinase 51.7 91 0.002 22.7 7.9 51 98-151 6-56 (62)
254 COG1802 GntR Transcriptional r 51.5 73 0.0016 29.2 7.9 63 275-339 18-80 (230)
255 PF01978 TrmB: Sugar-specific 51.3 48 0.001 24.2 5.4 44 285-329 12-55 (68)
256 smart00028 TPR Tetratricopepti 51.2 22 0.00047 19.7 3.0 23 123-145 6-28 (34)
257 PF12862 Apc5: Anaphase-promot 51.1 1.1E+02 0.0024 23.8 7.8 61 129-189 9-72 (94)
258 PHA02943 hypothetical protein; 50.9 1.2E+02 0.0027 26.5 8.4 73 286-364 15-88 (165)
259 PF13374 TPR_10: Tetratricopep 50.3 42 0.00091 21.0 4.5 29 40-68 4-32 (42)
260 TIGR02812 fadR_gamma fatty aci 50.2 45 0.00097 30.6 6.2 63 275-339 8-71 (235)
261 PRK10225 DNA-binding transcrip 50.1 52 0.0011 30.7 6.7 64 275-340 11-75 (257)
262 PF04545 Sigma70_r4: Sigma-70, 49.7 44 0.00094 22.8 4.7 28 294-321 18-45 (50)
263 PF06957 COPI_C: Coatomer (COP 48.9 1.9E+02 0.0041 29.6 10.8 97 123-221 209-321 (422)
264 KOG0553|consensus 48.8 1.8E+02 0.0038 28.4 10.0 90 125-228 88-177 (304)
265 PF13518 HTH_28: Helix-turn-he 48.7 51 0.0011 22.3 4.9 36 296-332 12-47 (52)
266 KOG1070|consensus 48.7 3.5E+02 0.0077 32.1 13.6 119 50-185 1509-1627(1710)
267 PF00515 TPR_1: Tetratricopept 48.1 54 0.0012 19.9 4.5 29 39-67 2-30 (34)
268 PRK04239 hypothetical protein; 47.6 16 0.00036 30.1 2.5 52 280-331 36-87 (110)
269 cd06171 Sigma70_r4 Sigma70, re 47.5 47 0.001 21.8 4.6 27 295-321 25-51 (55)
270 PF06163 DUF977: Bacterial pro 47.2 48 0.001 28.0 5.2 43 285-327 15-57 (127)
271 PF14559 TPR_19: Tetratricopep 46.2 63 0.0014 22.8 5.3 54 169-230 2-55 (68)
272 PF10300 DUF3808: Protein of u 46.1 2.2E+02 0.0048 29.4 11.2 87 132-228 247-333 (468)
273 TIGR00738 rrf2_super rrf2 fami 46.1 23 0.00049 29.5 3.2 42 296-337 25-66 (132)
274 TIGR01610 phage_O_Nterm phage 45.9 66 0.0014 25.5 5.7 47 293-341 44-90 (95)
275 KOG2471|consensus 45.8 88 0.0019 32.7 7.8 71 160-231 242-314 (696)
276 PF13730 HTH_36: Helix-turn-he 45.8 31 0.00066 23.9 3.4 28 298-325 27-54 (55)
277 PF10668 Phage_terminase: Phag 45.7 39 0.00083 24.8 3.9 37 283-319 9-45 (60)
278 TIGR02787 codY_Gpos GTP-sensin 45.5 79 0.0017 29.9 6.9 59 271-329 153-231 (251)
279 PF09418 DUF2009: Protein of u 44.8 1.1E+02 0.0025 31.4 8.4 85 212-297 74-193 (458)
280 PF13428 TPR_14: Tetratricopep 44.7 54 0.0012 21.6 4.4 32 40-71 3-34 (44)
281 KOG3431|consensus 44.6 20 0.00043 30.1 2.5 53 279-331 38-90 (129)
282 KOG2235|consensus 42.8 1.6E+02 0.0035 31.6 9.2 60 273-339 115-174 (776)
283 PF06971 Put_DNA-bind_N: Putat 42.4 48 0.001 23.3 3.9 25 294-318 26-50 (50)
284 PF08672 APC2: Anaphase promot 42.3 43 0.00094 24.4 3.8 25 305-329 30-54 (60)
285 PF10345 Cohesin_load: Cohesin 42.2 4.5E+02 0.0098 28.0 24.3 112 116-230 98-212 (608)
286 KOG4648|consensus 41.7 51 0.0011 32.9 5.3 23 123-145 102-124 (536)
287 PHA00738 putative HTH transcri 41.5 1.1E+02 0.0025 25.1 6.4 70 294-363 24-93 (108)
288 PF14853 Fis1_TPR_C: Fis1 C-te 41.2 1.3E+02 0.0028 21.3 6.4 33 39-71 2-34 (53)
289 KOG2063|consensus 41.1 5.7E+02 0.012 28.8 14.0 65 41-109 507-571 (877)
290 PRK04984 fatty acid metabolism 40.8 78 0.0017 29.0 6.3 62 276-339 10-72 (239)
291 PF14947 HTH_45: Winged helix- 40.7 97 0.0021 23.4 5.8 43 294-340 17-59 (77)
292 PF13542 HTH_Tnp_ISL3: Helix-t 40.7 88 0.0019 21.2 5.1 38 280-320 14-51 (52)
293 PRK14165 winged helix-turn-hel 40.6 2.1E+02 0.0045 26.5 8.9 55 288-342 13-67 (217)
294 PRK11512 DNA-binding transcrip 40.6 2.2E+02 0.0048 23.9 8.8 45 295-339 53-97 (144)
295 COG4105 ComL DNA uptake lipopr 39.9 3.4E+02 0.0073 25.8 12.3 107 123-234 76-201 (254)
296 PRK11414 colanic acid/biofilm 39.6 1.3E+02 0.0028 27.3 7.5 62 275-338 13-74 (221)
297 PRK03902 manganese transport t 39.5 2.3E+02 0.005 23.8 8.7 38 290-327 16-53 (142)
298 TIGR01884 cas_HTH CRISPR locus 39.5 91 0.002 28.2 6.4 45 286-330 147-191 (203)
299 TIGR01889 Staph_reg_Sar staphy 39.2 2E+02 0.0044 23.0 8.7 44 295-338 42-85 (109)
300 PF14493 HTH_40: Helix-turn-he 39.0 39 0.00084 26.4 3.4 33 295-327 12-45 (91)
301 PF12728 HTH_17: Helix-turn-he 38.8 44 0.00094 22.8 3.3 38 297-340 2-39 (51)
302 PRK13266 Thf1-like protein; Re 38.3 3.4E+02 0.0073 25.4 10.2 74 156-232 33-107 (225)
303 PF05470 eIF-3c_N: Eukaryotic 37.9 5.4E+02 0.012 27.6 14.0 77 151-228 449-528 (595)
304 PRK10421 DNA-binding transcrip 37.2 1.1E+02 0.0023 28.6 6.6 63 276-340 5-68 (253)
305 KOG1070|consensus 37.2 8E+02 0.017 29.4 14.9 130 42-187 1534-1663(1710)
306 PF11459 DUF2893: Protein of u 37.2 1.5E+02 0.0032 22.4 6.0 42 38-87 4-45 (69)
307 KOG1585|consensus 37.2 3.9E+02 0.0084 25.7 17.6 99 128-228 120-218 (308)
308 PF08281 Sigma70_r4_2: Sigma-7 37.1 80 0.0017 21.6 4.5 27 294-320 24-50 (54)
309 PRK10870 transcriptional repre 37.0 2E+02 0.0043 25.4 8.1 44 295-338 70-113 (176)
310 PF04760 IF2_N: Translation in 36.8 43 0.00094 23.4 3.0 24 296-319 3-26 (54)
311 PF04967 HTH_10: HTH DNA bindi 36.8 84 0.0018 22.3 4.4 33 289-321 16-48 (53)
312 PF12569 NARP1: NMDA receptor- 36.3 5.4E+02 0.012 27.1 21.3 86 154-248 190-275 (517)
313 PF13384 HTH_23: Homeodomain-l 36.0 46 0.00099 22.5 3.0 29 296-324 17-45 (50)
314 PF00244 14-3-3: 14-3-3 protei 35.6 3.7E+02 0.008 25.0 17.4 45 41-85 4-51 (236)
315 PRK15179 Vi polysaccharide bio 35.6 6.3E+02 0.014 27.7 17.0 99 117-231 121-219 (694)
316 COG2118 DNA-binding protein [G 35.5 35 0.00076 28.3 2.6 51 280-332 39-91 (116)
317 TIGR00498 lexA SOS regulatory 35.3 60 0.0013 29.1 4.5 40 297-336 26-66 (199)
318 KOG1156|consensus 35.3 6.1E+02 0.013 27.5 20.0 83 154-248 367-452 (700)
319 TIGR03826 YvyF flagellar opero 35.3 45 0.00097 28.7 3.4 39 289-331 37-77 (137)
320 COG2345 Predicted transcriptio 35.3 85 0.0018 29.1 5.4 45 285-329 14-58 (218)
321 PLN03077 Protein ECB2; Provisi 35.2 6.6E+02 0.014 27.8 16.2 26 40-65 426-451 (857)
322 COG3063 PilF Tfp pilus assembl 35.1 41 0.0009 31.6 3.3 63 158-221 35-97 (250)
323 PLN03098 LPA1 LOW PSII ACCUMUL 35.0 1.4E+02 0.0031 30.7 7.5 60 123-187 80-141 (453)
324 PRK15331 chaperone protein Sic 34.7 3.3E+02 0.0071 24.2 10.4 93 123-229 42-134 (165)
325 smart00421 HTH_LUXR helix_turn 34.6 89 0.0019 20.9 4.4 28 294-321 16-43 (58)
326 PRK09464 pdhR transcriptional 34.6 84 0.0018 29.2 5.5 63 276-340 13-76 (254)
327 KOG0553|consensus 34.0 90 0.0019 30.4 5.5 86 45-145 88-176 (304)
328 KOG4340|consensus 34.0 2E+02 0.0043 28.4 7.8 89 128-232 88-178 (459)
329 PRK11523 DNA-binding transcrip 33.7 1.3E+02 0.0027 28.0 6.5 63 275-339 10-73 (253)
330 PRK06771 hypothetical protein; 33.3 26 0.00057 28.0 1.5 29 297-325 37-67 (93)
331 KOG1129|consensus 33.2 3.5E+02 0.0077 27.1 9.4 95 119-228 224-318 (478)
332 PF12862 Apc5: Anaphase-promot 33.0 1.6E+02 0.0035 22.9 6.2 35 123-157 46-80 (94)
333 KOG4340|consensus 33.0 5E+02 0.011 25.7 12.2 160 40-227 46-205 (459)
334 PF03704 BTAD: Bacterial trans 32.7 1.6E+02 0.0035 24.4 6.6 37 35-71 59-95 (146)
335 PF04492 Phage_rep_O: Bacterio 32.6 66 0.0014 26.0 3.8 37 290-326 48-84 (100)
336 COG4700 Uncharacterized protei 32.2 3.1E+02 0.0066 25.3 8.2 98 123-231 94-191 (251)
337 PRK14720 transcript cleavage f 32.1 8E+02 0.017 27.9 17.2 31 38-68 116-146 (906)
338 PF10516 SHNi-TPR: SHNi-TPR; 32.1 51 0.0011 21.7 2.5 27 201-228 3-29 (38)
339 TIGR01716 RGG_Cterm transcript 31.7 3.8E+02 0.0081 23.9 19.3 135 47-188 20-158 (220)
340 PF01535 PPR: PPR repeat; Int 31.7 67 0.0015 18.6 3.0 22 124-145 6-27 (31)
341 PF07721 TPR_4: Tetratricopept 31.7 80 0.0017 18.4 3.2 23 40-62 3-25 (26)
342 PF12324 HTH_15: Helix-turn-he 31.6 91 0.002 24.1 4.1 36 286-321 28-63 (77)
343 cd06170 LuxR_C_like C-terminal 31.3 1.1E+02 0.0024 20.5 4.4 29 294-322 13-41 (57)
344 PRK09990 DNA-binding transcrip 31.3 1.1E+02 0.0024 28.3 5.7 63 275-339 9-72 (251)
345 KOG4521|consensus 31.2 5.2E+02 0.011 30.2 11.3 175 48-232 947-1134(1480)
346 PF13613 HTH_Tnp_4: Helix-turn 30.6 83 0.0018 21.9 3.6 39 283-321 6-44 (53)
347 COG1729 Uncharacterized protei 30.3 1.2E+02 0.0026 28.9 5.7 59 123-184 183-241 (262)
348 cd00086 homeodomain Homeodomai 30.1 1.1E+02 0.0023 21.1 4.2 36 282-319 14-50 (59)
349 KOG1586|consensus 30.1 4.9E+02 0.011 24.8 20.4 193 31-233 31-231 (288)
350 PRK12514 RNA polymerase sigma 29.8 1E+02 0.0023 26.6 5.0 46 273-321 125-170 (179)
351 PF05584 Sulfolobus_pRN: Sulfo 29.7 1.5E+02 0.0033 22.5 5.0 42 285-328 9-50 (72)
352 PRK15481 transcriptional regul 29.7 1E+02 0.0022 31.1 5.5 54 276-329 8-62 (431)
353 PRK10046 dpiA two-component re 29.4 97 0.0021 28.0 4.9 46 287-332 168-213 (225)
354 PF09743 DUF2042: Uncharacteri 29.3 1.6E+02 0.0035 28.3 6.4 52 278-332 177-228 (272)
355 TIGR02325 C_P_lyase_phnF phosp 29.3 1.7E+02 0.0037 26.6 6.6 64 275-340 10-74 (238)
356 COG2378 Predicted transcriptio 29.2 1E+02 0.0022 30.1 5.2 48 278-325 4-51 (311)
357 COG1497 Predicted transcriptio 28.9 4.1E+02 0.0089 25.2 8.7 46 283-328 12-57 (260)
358 PF08221 HTH_9: RNA polymerase 28.5 2.3E+02 0.005 20.5 6.2 36 290-325 21-56 (62)
359 TIGR02018 his_ut_repres histid 28.5 1.4E+02 0.003 27.3 5.8 63 276-340 4-67 (230)
360 PF10428 SOG2: RAM signalling 28.2 6.1E+02 0.013 26.1 10.9 82 166-252 61-143 (445)
361 TIGR02937 sigma70-ECF RNA poly 28.1 3.2E+02 0.0068 21.9 7.9 27 294-320 124-150 (158)
362 PF12213 Dpoe2NT: DNA polymera 28.1 1.4E+02 0.003 22.7 4.7 33 59-91 23-55 (73)
363 PF10078 DUF2316: Uncharacteri 28.0 61 0.0013 25.7 2.8 23 295-317 22-44 (89)
364 PF11817 Foie-gras_1: Foie gra 27.9 2.3E+02 0.0051 26.3 7.3 78 178-257 158-236 (247)
365 cd04762 HTH_MerR-trunc Helix-T 27.6 1.2E+02 0.0026 19.6 4.0 28 298-329 2-29 (49)
366 PRK03573 transcriptional regul 27.5 3.6E+02 0.0079 22.4 8.6 44 296-339 46-89 (144)
367 PF01710 HTH_Tnp_IS630: Transp 27.5 90 0.002 25.7 3.9 40 284-323 59-98 (119)
368 PRK05472 redox-sensing transcr 27.3 1.7E+02 0.0036 26.6 6.0 48 277-324 11-60 (213)
369 COG4367 Uncharacterized protei 27.2 67 0.0015 25.4 2.8 24 294-317 21-44 (97)
370 PRK09764 DNA-binding transcrip 27.1 1.5E+02 0.0032 27.4 5.7 64 275-340 7-71 (240)
371 TIGR00756 PPR pentatricopeptid 27.0 1E+02 0.0022 18.1 3.3 22 124-145 6-27 (35)
372 PF02002 TFIIE_alpha: TFIIE al 26.8 80 0.0017 25.2 3.4 35 294-328 25-59 (105)
373 PF12854 PPR_1: PPR repeat 26.7 76 0.0017 19.9 2.6 20 123-142 12-31 (34)
374 PF13041 PPR_2: PPR repeat fam 26.5 94 0.002 20.8 3.3 22 124-145 9-30 (50)
375 PLN03083 E3 UFM1-protein ligas 26.2 3.3E+02 0.0072 30.3 8.8 46 291-339 129-174 (803)
376 PRK14999 histidine utilization 26.1 1.5E+02 0.0034 27.2 5.7 64 275-340 14-78 (241)
377 PF10366 Vps39_1: Vacuolar sor 26.1 75 0.0016 25.9 3.1 65 40-107 41-106 (108)
378 PF04297 UPF0122: Putative hel 26.0 72 0.0016 25.9 2.9 44 277-320 12-57 (101)
379 COG1846 MarR Transcriptional r 26.0 3.2E+02 0.0069 21.3 7.5 36 300-335 40-75 (126)
380 PRK13777 transcriptional regul 25.8 4.9E+02 0.011 23.4 8.6 52 286-337 49-100 (185)
381 PF10771 DUF2582: Protein of u 25.7 2E+02 0.0043 21.4 5.0 51 287-339 13-63 (65)
382 KOG2908|consensus 25.5 6.9E+02 0.015 25.0 16.3 98 69-176 70-175 (380)
383 KOG1126|consensus 25.5 3.3E+02 0.0071 29.4 8.3 93 117-225 490-582 (638)
384 PF04539 Sigma70_r3: Sigma-70 25.4 1.1E+02 0.0024 22.7 3.8 44 285-328 8-52 (78)
385 PF02796 HTH_7: Helix-turn-hel 25.4 79 0.0017 21.2 2.7 21 297-317 22-42 (45)
386 KOG1174|consensus 25.3 7.8E+02 0.017 25.5 19.4 89 127-230 309-398 (564)
387 PRK11050 manganese transport r 25.2 4.4E+02 0.0095 22.6 10.2 36 294-329 49-84 (152)
388 COG3629 DnrI DNA-binding trans 25.1 6.3E+02 0.014 24.4 10.9 82 123-210 158-242 (280)
389 TIGR02850 spore_sigG RNA polym 25.1 5.6E+02 0.012 23.8 10.0 26 295-320 135-160 (254)
390 KOG2062|consensus 25.0 8.4E+02 0.018 27.1 11.2 143 60-226 9-157 (929)
391 PRK11753 DNA-binding transcrip 25.0 1.3E+02 0.0028 26.6 4.9 42 296-341 168-209 (211)
392 PF11264 ThylakoidFormat: Thyl 24.9 5.6E+02 0.012 23.8 12.4 74 156-232 28-102 (216)
393 PF00440 TetR_N: Bacterial reg 24.9 58 0.0013 21.9 1.9 25 291-315 11-35 (47)
394 PF13812 PPR_3: Pentatricopept 24.6 1.5E+02 0.0032 17.5 3.7 24 43-66 6-29 (34)
395 PF01476 LysM: LysM domain; I 24.5 78 0.0017 20.6 2.5 19 298-316 8-26 (44)
396 KOG3617|consensus 24.5 1.1E+03 0.023 26.9 16.3 28 198-226 1144-1171(1416)
397 PF09824 ArsR: ArsR transcript 24.4 2.5E+02 0.0055 24.7 6.2 50 257-316 91-141 (160)
398 PHA02591 hypothetical protein; 24.3 74 0.0016 24.6 2.5 23 297-319 60-82 (83)
399 COG3413 Predicted DNA binding 24.3 82 0.0018 28.7 3.4 42 280-321 161-203 (215)
400 PF14561 TPR_20: Tetratricopep 23.8 2.4E+02 0.0051 22.1 5.5 50 39-88 23-72 (90)
401 PF04124 Dor1: Dor1-like famil 23.5 3.5E+02 0.0075 26.6 7.9 42 43-87 111-152 (338)
402 cd04761 HTH_MerR-SF Helix-Turn 23.4 1.6E+02 0.0035 19.4 4.0 28 298-329 2-29 (49)
403 PRK13918 CRP/FNR family transc 23.3 1.2E+02 0.0026 26.6 4.3 43 296-342 149-191 (202)
404 PF13431 TPR_17: Tetratricopep 23.1 59 0.0013 20.4 1.6 16 123-138 18-33 (34)
405 KOG2047|consensus 22.9 1E+03 0.022 26.1 17.5 180 40-226 250-451 (835)
406 PF03297 Ribosomal_S25: S25 ri 22.7 3.4E+02 0.0074 22.2 6.3 49 291-339 54-102 (105)
407 TIGR00122 birA_repr_reg BirA b 22.5 2E+02 0.0043 20.9 4.6 29 297-325 14-42 (69)
408 PF05331 DUF742: Protein of un 22.4 3.1E+02 0.0068 22.7 6.1 42 286-329 47-88 (114)
409 PF10007 DUF2250: Uncharacteri 22.1 1.7E+02 0.0038 23.3 4.4 42 285-326 10-51 (92)
410 COG1191 FliA DNA-directed RNA 22.1 4.5E+02 0.0098 24.8 8.0 87 222-320 61-150 (247)
411 PF13936 HTH_38: Helix-turn-he 22.1 1.1E+02 0.0024 20.5 2.9 24 295-318 19-42 (44)
412 KOG2316|consensus 22.0 63 0.0014 30.2 2.1 49 289-338 115-169 (277)
413 PF11972 HTH_13: HTH DNA bindi 21.9 1.8E+02 0.0039 20.9 3.9 36 287-322 4-39 (54)
414 PRK10548 flagellar biosynthesi 21.6 4.1E+02 0.0089 22.2 6.8 35 34-68 8-44 (121)
415 TIGR02675 tape_meas_nterm tape 21.4 1E+02 0.0022 23.3 2.9 26 299-328 47-72 (75)
416 PF04348 LppC: LppC putative l 21.4 31 0.00068 36.4 0.0 95 123-226 29-124 (536)
417 PF13011 LZ_Tnp_IS481: leucine 21.3 1.3E+02 0.0028 23.7 3.4 38 296-334 25-62 (85)
418 PRK13184 pknD serine/threonine 21.3 1.3E+03 0.027 26.5 17.1 55 193-252 798-854 (932)
419 TIGR02885 spore_sigF RNA polym 21.3 6.2E+02 0.013 22.9 9.9 25 296-320 113-137 (231)
420 PF04184 ST7: ST7 protein; In 21.2 4.4E+02 0.0094 27.8 8.1 28 122-149 263-290 (539)
421 PLN03077 Protein ECB2; Provisi 21.1 1.1E+03 0.025 25.9 15.5 23 42-64 528-550 (857)
422 KOG2034|consensus 21.0 1.5E+02 0.0032 33.1 4.9 57 165-232 365-421 (911)
423 KOG1128|consensus 21.0 5.1E+02 0.011 28.5 8.7 106 114-229 397-514 (777)
424 PRK00215 LexA repressor; Valid 20.7 1.5E+02 0.0033 26.5 4.4 43 296-339 23-66 (205)
425 PF14561 TPR_20: Tetratricopep 20.6 1.6E+02 0.0034 23.1 3.9 27 117-145 23-49 (90)
426 COG3107 LppC Putative lipoprot 20.6 7.8E+02 0.017 26.2 9.7 93 125-226 70-162 (604)
427 PRK05911 RNA polymerase sigma 20.5 6E+02 0.013 23.7 8.6 86 221-318 62-148 (257)
428 COG4235 Cytochrome c biogenesi 20.5 7.9E+02 0.017 23.8 11.4 112 44-164 162-273 (287)
429 PF07720 TPR_3: Tetratricopept 20.3 1.9E+02 0.0042 18.6 3.6 20 123-142 6-25 (36)
430 PF06056 Terminase_5: Putative 20.2 2.5E+02 0.0055 20.2 4.6 35 282-319 2-36 (58)
431 KOG0550|consensus 20.2 9.7E+02 0.021 24.7 12.8 97 124-232 255-353 (486)
432 PF00376 MerR: MerR family reg 20.2 1.2E+02 0.0025 19.8 2.6 20 298-317 1-20 (38)
433 PF12964 DUF3853: Protein of u 20.1 96 0.0021 25.0 2.5 38 298-339 47-84 (96)
434 smart00342 HTH_ARAC helix_turn 20.1 1.3E+02 0.0028 21.8 3.2 25 297-321 2-26 (84)
No 1
>KOG1463|consensus
Probab=100.00 E-value=1.5e-76 Score=556.77 Aligned_cols=361 Identities=64% Similarity=0.965 Sum_probs=341.2
Q ss_pred Ccchhh-hHhhhhhcccCccc---------ccCCcCCCCchHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhh
Q psy4083 1 MAGAMM-FERSASQISITGNS---------YKTGYEEENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQ 70 (374)
Q Consensus 1 ~~~~~~-~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~ 70 (374)
|++... +++++...+.++.+ +++...++++|...+.+|+.|.++++++.+.|+++++.++++++|||+.+
T Consensus 1 m~~~~~~~e~~~~~~~~~~~~~~~~il~~vl~~~~~~~s~e~~i~~kE~~Ilel~~ll~~~~~~~~lr~li~~~Rpf~~~ 80 (411)
T KOG1463|consen 1 MSSAASLLERAQNLVSVNQVEEAINILKSVLNKAQGASSDEARIKEKEQSILELGDLLAKEGDAEELRDLITSLRPFLSS 80 (411)
T ss_pred CCchHHHHHHHHHhcccchhhhhHHHHHHHhhhhccccCCHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHH
Confidence 344444 77887766666522 44322377899999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHH
Q psy4083 71 ISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKK 150 (374)
Q Consensus 71 ~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~ 150 (374)
++|++++|+||.++|.+..++++.+.++.+|.++|+||+.++|+|||+.|++||+.+|++.++|.+|+.+++.+++|+++
T Consensus 81 v~KakaaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFLRq~Learli~Ly~d~~~YteAlaL~~~L~rElKK 160 (411)
T KOG1463|consen 81 VSKAKAAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFLRQSLEARLIRLYNDTKRYTEALALINDLLRELKK 160 (411)
T ss_pred hhhHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 151 LDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 151 ~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
.||+..++|++++|++.|+.++|.+|++++++.||+.+|++||||.+|+.++.++|++|. .++||++|++||||||++|
T Consensus 161 lDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa~lDLqSGIlha-~ekDykTafSYFyEAfEgf 239 (411)
T KOG1463|consen 161 LDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQATLDLQSGILHA-AEKDYKTAFSYFYEAFEGF 239 (411)
T ss_pred cccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHHHHHHhccceee-cccccchHHHHHHHHHccc
Confidence 999999999999999999999999999999999999999999999999999999999999 8999999999999999999
Q ss_pred Ccccc-hhHHHHHHHHHHHHHhcCCchhHHHHHH---------------------------------------HHhcChH
Q psy4083 231 STVDH-NHAMMSLKYMLLSKIMLNTPEDVNQILS---------------------------------------ELEDDTI 270 (374)
Q Consensus 231 ~~~~~-~~~~~~LkY~vL~~iL~~~~~~v~~ll~---------------------------------------~l~~D~~ 270 (374)
++.++ ..+...||||+||+||.|.+++|..+++ +|..||+
T Consensus 240 ~s~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~i 319 (411)
T KOG1463|consen 240 DSLDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPI 319 (411)
T ss_pred cccCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChH
Confidence 99998 6999999999999999999998877766 7999999
Q ss_pred HHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHH
Q psy4083 271 VKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYE 350 (374)
Q Consensus 271 l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~ 350 (374)
++.|+..|++++.|+|+++++||||+|.++|+|+.+|++++.||++|++||+|++++|.+||++||++++++++.+++|+
T Consensus 320 vr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~~VEkKLsqMILDKkf~G~LDQg~g~Liv~~e~~~d~~y~ 399 (411)
T KOG1463|consen 320 VRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVPQVEKKLSQMILDKKFYGTLDQGEGCLIVFEEPPADNTYD 399 (411)
T ss_pred HHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcHHHHHHHHHHHHHHHhhcccccCCCeEEEeCCCCcchHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy4083 351 KALETITSMGKV 362 (374)
Q Consensus 351 ~~~~~i~~l~~~ 362 (374)
+++++|++++.+
T Consensus 400 ~aLetI~~m~kV 411 (411)
T KOG1463|consen 400 AALETIQNMGKV 411 (411)
T ss_pred HHHHHHHhccCC
Confidence 999999998753
No 2
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.9e-67 Score=486.35 Aligned_cols=370 Identities=45% Similarity=0.708 Sum_probs=347.1
Q ss_pred CcchhhhHhhhhhcccCccc---------ccCCcCCCCchHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh
Q psy4083 1 MAGAMMFERSASQISITGNS---------YKTGYEEENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQI 71 (374)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~ 71 (374)
||.-++++.++..-+.|.-+ +.++ ...+|.+...+|+.+.++.++|...|++..+.+.+++.++.+.++
T Consensus 1 ms~~~sle~a~~~v~~~~~~~ai~~yk~iL~kg--~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~f 78 (421)
T COG5159 1 MSSKSSLELANNAVKSNDIEKAIGEYKRILGKG--VSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDF 78 (421)
T ss_pred CCCcchHHHHHHhhhhhhHHHHHHHHHHHhcCC--CChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHh
Confidence 55556677777544443322 5666 445788899999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh
Q psy4083 72 SKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL 151 (374)
Q Consensus 72 ~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~ 151 (374)
+|++++|+|+.+++.++..|++.+.++.++..+|+||..++|.|||+.+++|++.++++.|.|.+|+..|..++.|+++.
T Consensus 79 tk~k~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~ 158 (421)
T COG5159 79 TKPKITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPLLHELKKY 158 (421)
T ss_pred cchhHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999899999999999999999999999999999999999999999
Q ss_pred ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 152 DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 152 dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
||+..+++++++|+++|++.+|.+++++.+++|++.+|++||||.+|+.++.++|++|+ +++||++|++||+|||++|+
T Consensus 159 DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~sGIlhc-dd~dyktA~SYF~Ea~Egft 237 (421)
T COG5159 159 DDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLSGILHC-DDRDYKTASSYFIEALEGFT 237 (421)
T ss_pred cCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhccceee-ccccchhHHHHHHHHHhccc
Confidence 99999999999999999999999999999999999999999999999999999999999 99999999999999999999
Q ss_pred cccc-hhHHHHHHHHHHHHHhcCCchhHHHHHH----------------------------------------HHhcChH
Q psy4083 232 TVDH-NHAMMSLKYMLLSKIMLNTPEDVNQILS----------------------------------------ELEDDTI 270 (374)
Q Consensus 232 ~~~~-~~~~~~LkY~vL~~iL~~~~~~v~~ll~----------------------------------------~l~~D~~ 270 (374)
.... ..+...||||+|++||.|..+++..++. ++..|+|
T Consensus 238 ~l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~~D~~ 317 (421)
T COG5159 238 LLKMDVKACVSLKYMLLSKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSF 317 (421)
T ss_pred cccchHHHHHHHHHHHHHHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHH
Confidence 8655 7888999999999999998776554443 7999999
Q ss_pred HHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHH
Q psy4083 271 VKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYE 350 (374)
Q Consensus 271 l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~ 350 (374)
++.|+++||+.+.++|+++++|||++|.++|||+.+|+++.+||.+|++||+|+-++|.+||++||++++.++..+++|+
T Consensus 318 iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgKLsqMILDKifyG~LDqg~gcLivy~ep~qd~tyd 397 (421)
T COG5159 318 IRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIFYGTLDQGDGCLIVYGEPAQDNTYD 397 (421)
T ss_pred HHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHHHHHHHHHHHHHhhhccCCceEEEeCCccccchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhccc
Q psy4083 351 KALETITSMGKVIDTLYQKAKKL 373 (374)
Q Consensus 351 ~~~~~i~~l~~~vd~l~~~~~~~ 373 (374)
++++.+..++.+||++++||+.+
T Consensus 398 ~ale~v~~l~~vVd~l~ekas~l 420 (421)
T COG5159 398 EALEQVEALDCVVDSLYEKASAL 420 (421)
T ss_pred HHHHHHHHhhhHHHHHHHHHhhc
Confidence 99999999999999999999865
No 3
>KOG1464|consensus
Probab=100.00 E-value=1.7e-60 Score=438.40 Aligned_cols=325 Identities=25% Similarity=0.386 Sum_probs=287.6
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-hhhhhHHHHHHHHHHHHHhhccccch--hhhHHHHHH
Q psy4083 27 EENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFL-SQISKAKAAKLVRSLVDFFLDLETRT--GMEVALCKE 103 (374)
Q Consensus 27 ~~~~~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~-~~~~k~~~~k~i~~ild~~~~~~~~~--~~~~~l~~e 103 (374)
++.+||+||+.||. ++++|..|+|++|.+.++++..+. +.++|++++|+|+.|+|+++.+.+.. ..-++.+++
T Consensus 58 gEKgeWGFKALKQm----iKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ 133 (440)
T KOG1464|consen 58 GEKGEWGFKALKQM----IKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLD 133 (440)
T ss_pred cccchhHHHHHHHH----HHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence 67899999999999 999999999999999999999998 89999999999999999998644322 223777789
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhc-------c---chhHHHHHHHHHHHHHHhCC
Q psy4083 104 CIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLD-------D---KNLLVEVLLLESKTYHALSN 173 (374)
Q Consensus 104 ~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~d-------d---~~~~lev~l~ei~l~~~~~n 173 (374)
++++|++ .|+||+++. +|+.+|++.|+|.+. +++++++++++ | +++++|+|++||++|..++|
T Consensus 134 ALkdAKN-eRLWFKTNt--KLgkl~fd~~e~~kl----~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKn 206 (440)
T KOG1464|consen 134 ALKDAKN-ERLWFKTNT--KLGKLYFDRGEYTKL----QKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKN 206 (440)
T ss_pred HHHhhhc-ceeeeeccc--hHhhhheeHHHHHHH----HHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcc
Confidence 9999994 599999988 999999999999999 67777777652 2 68999999999999999999
Q ss_pred HHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcC
Q psy4083 174 LSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLN 253 (374)
Q Consensus 174 ~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~ 253 (374)
.++++.+|.+|..+. +++|||.++|.|++|||+||+ .+|.|.+|...|||||++||+.|+|++.+||||+||+.||..
T Consensus 207 NKkLK~lYeqalhiK-SAIPHPlImGvIRECGGKMHl-reg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmk 284 (440)
T KOG1464|consen 207 NKKLKALYEQALHIK-SAIPHPLIMGVIRECGGKMHL-REGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMK 284 (440)
T ss_pred cHHHHHHHHHHHHhh-ccCCchHHHhHHHHcCCcccc-ccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHH
Confidence 999999999999986 788999999999999999999 999999999999999999999999999999999999999985
Q ss_pred C---chh---------HHHHHH-------------------------HHhcChHHHhhHHHHHHHHHHHHHHHhhccccc
Q psy4083 254 T---PED---------VNQILS-------------------------ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSR 296 (374)
Q Consensus 254 ~---~~~---------v~~ll~-------------------------~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~ 296 (374)
+ ||+ -++|+. .++.|||++.|.++|++++|+++++++++||++
T Consensus 285 S~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~ 364 (440)
T KOG1464|consen 285 SGINPFDSQEAKPYKNDPEILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTN 364 (440)
T ss_pred cCCCCCcccccCCCCCCHHHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 5 432 122222 599999999999999999999999999999999
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHHHHHH
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVIDTLY 367 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~vd~l~ 367 (374)
|.|.++++.|++|+.+|+..|+.+|+|..|+|+||++++.+...+....... .-+.+.+|+..+++|-
T Consensus 365 i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~~k---~~~al~kW~~ql~Sl~ 432 (440)
T KOG1464|consen 365 IGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSGSK---LYKALDKWNNQLKSLQ 432 (440)
T ss_pred cCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHhhhHhccCccCCcchH---HHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999998655443332 2344677777777664
No 4
>KOG0687|consensus
Probab=100.00 E-value=1.9e-40 Score=311.32 Aligned_cols=265 Identities=17% Similarity=0.265 Sum_probs=238.5
Q ss_pred hhhhHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhC
Q psy4083 94 TGMEVALCKECIEWAKEE-RRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALS 172 (374)
Q Consensus 94 ~~~~~~l~~e~i~~~~~~-~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~ 172 (374)
.+.+++-+.+.|+++..+ |...+|..+ .++|.+|+++||.++|++.+.+.. .+....++++|+.+..+|+.+...
T Consensus 80 neeki~eld~~iedaeenlGE~ev~ea~-~~kaeYycqigDkena~~~~~~t~---~ktvs~g~kiDVvf~~iRlglfy~ 155 (393)
T KOG0687|consen 80 NEEKIKELDEKIEDAEENLGESEVREAM-LRKAEYYCQIGDKENALEALRKTY---EKTVSLGHKIDVVFYKIRLGLFYL 155 (393)
T ss_pred hHHHHHHHHHHHHHHHHhcchHHHHHHH-HHHHHHHHHhccHHHHHHHHHHHH---HHHhhcccchhhHHHHHHHHHhhc
Confidence 466788888999998633 689998887 589999999999999988776554 455567899999999999999999
Q ss_pred CHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhc
Q psy4083 173 NLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIML 252 (374)
Q Consensus 173 n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~ 252 (374)
|..-+...+++|+.+...+ +||+++++++.+.|++.| ..|||+.|+..|+|+..+|++.+...+..++.|+|+|++++
T Consensus 156 D~~lV~~~iekak~liE~G-gDWeRrNRlKvY~Gly~m-svR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~ 233 (393)
T KOG0687|consen 156 DHDLVTESIEKAKSLIEEG-GDWERRNRLKVYQGLYCM-SVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIA 233 (393)
T ss_pred cHHHHHHHHHHHHHHHHhC-CChhhhhhHHHHHHHHHH-HHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhhe
Confidence 9999999999999887666 899999999999999999 99999999999999999999999999999999999999999
Q ss_pred CCchh--------------------HHHHHH--------------------HHhcChHHHhhHHHHHHHHHHHHHHHhhc
Q psy4083 253 NTPED--------------------VNQILS--------------------ELEDDTIVKAHIGTLYDNMLEQNLCRIIE 292 (374)
Q Consensus 253 ~~~~~--------------------v~~ll~--------------------~l~~D~~l~~h~~~L~~~ire~~l~~~~~ 292 (374)
.+.-+ +.+++. .+..|.|+.+|++++.++||.+++-|+++
T Consensus 234 leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLE 313 (393)
T KOG0687|consen 234 LERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLE 313 (393)
T ss_pred eccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHH
Confidence 65211 122222 68999999999999999999999999999
Q ss_pred cccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHH-------HHHHHHHHHH
Q psy4083 293 PYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALE-------TITSMGKVID 364 (374)
Q Consensus 293 pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~-------~i~~l~~~vd 364 (374)
||.+++++.||+.||+|++++++.|+++|.+|+++|+||++||+|++++|++++.+|+++++ +||+++++|+
T Consensus 314 SYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~KN~qyq~vikqGd~LLnriQK~~rvi~ 392 (393)
T KOG0687|consen 314 SYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDEKNAQYQAVIKQGDLLLNRIQKLSRVIN 392 (393)
T ss_pred HHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeecccceeecCCccccchHHHHHHhhhHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999885 6888888874
No 5
>KOG1498|consensus
Probab=100.00 E-value=1.2e-36 Score=291.81 Aligned_cols=320 Identities=14% Similarity=0.161 Sum_probs=274.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhH
Q psy4083 34 VKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERR 113 (374)
Q Consensus 34 ~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r 113 (374)
+.+..+++..++++||+.++|+.+++++..|.+.++|+ |+++++||++.+.+++++|+ .+.++.++ ++++.++ +||
T Consensus 48 ~~s~~kv~~~i~~lc~~~~~w~~Lne~i~~Lskkrgql-k~ai~~Mvq~~~~y~~~~~d-~~~k~~li-~tLr~Vt-egk 123 (439)
T KOG1498|consen 48 MASNTKVLEEIMKLCFSAKDWDLLNEQIRLLSKKRGQL-KQAIQSMVQQAMTYIDGTPD-LETKIKLI-ETLRTVT-EGK 123 (439)
T ss_pred HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH-HHHHHHHHHHHHHhccCCCC-chhHHHHH-HHHHHhh-cCc
Confidence 57788899999999999999999999999999999999 99999999999999998885 78889999 9999999 789
Q ss_pred HHH---HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh----ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 114 TFL---RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL----DDKNLLVEVLLLESKTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 114 ~~l---r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~----dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~ 186 (374)
+|+ |+|++..|++++.+.|+..+| +++++|+++. ++++.+++++|.++|+|...+||.+|..+..+
T Consensus 124 IyvEvERarlTk~L~~ike~~Gdi~~A----a~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skK--- 196 (439)
T KOG1498|consen 124 IYVEVERARLTKMLAKIKEEQGDIAEA----ADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKK--- 196 (439)
T ss_pred eEEeehHHHHHHHHHHHHHHcCCHHHH----HHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH---
Confidence 999 999999999999999999999 7888888874 67999999999999999999999999955544
Q ss_pred hccccCCChh---hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccc-hhHHHHHHHHHHHHHhcCCch---h--
Q psy4083 187 TANSIYCPPK---MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDH-NHAMMSLKYMLLSKIMLNTPE---D-- 257 (374)
Q Consensus 187 ~~~~~~~~~~---~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~-~~~~~~LkY~vL~~iL~~~~~---~-- 257 (374)
+..+.+..|. +.-++++.+..+++ +.+.|-++++++-+.+.+-....+ ..|..+|.-.++.++|++-.. +
T Consensus 197 I~~K~F~~~~~~~lKlkyY~lmI~l~l-h~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll 275 (439)
T KOG1498|consen 197 INKKFFEKPDVQELKLKYYELMIRLGL-HDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLL 275 (439)
T ss_pred hhHHhcCCccHHHHHHHHHHHHHHhcc-cccchhhHHHHHHHHhcccccccChhhhhhhhhhheeEEeecCCCcHHHHHH
Confidence 4334455554 45588899999999 999999999999888776665555 578888888888878874311 0
Q ss_pred --------------HHHHHH-------------------HHh------cChHHHhhHHHHHHHHHHHHHHHhhcccccee
Q psy4083 258 --------------VNQILS-------------------ELE------DDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVE 298 (374)
Q Consensus 258 --------------v~~ll~-------------------~l~------~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~ 298 (374)
..+++. .+. .+.....||++|..+|.|||++.+.++||||+
T Consensus 276 ~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt 355 (439)
T KOG1498|consen 276 ARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRIT 355 (439)
T ss_pred HHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 111221 232 23345589999999999999999999999999
Q ss_pred HHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4083 299 VGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVIDTLYQKAKK 372 (374)
Q Consensus 299 l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~vd~l~~~~~~ 372 (374)
+.+||+.+|+|+++.|..||.|+..|.+.||||+++|++.|..+... .+.+++|+.+++.|++..++
T Consensus 356 ~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~-------~~~LneW~~nve~L~~ll~K 422 (439)
T KOG1498|consen 356 LKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKDS-------NEILNEWASNVEKLLGLLEK 422 (439)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCCCceEEEEecccH-------HHHHHHHHhhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999766533 77899999999999987654
No 6
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.5e-33 Score=261.54 Aligned_cols=292 Identities=15% Similarity=0.212 Sum_probs=240.3
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHhccC
Q psy4083 55 IELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEE-RRTFLRQSLEARLIALYFDTGE 133 (374)
Q Consensus 55 ~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~-~r~~lr~~l~~kLa~~~~~~g~ 133 (374)
+.|..+++.+.+.-.--+.+..-|.=+..+..+-+ ..+.+++-+.+.|+..+.. |.+.--+.. +.+|++|.+++|
T Consensus 55 ~~maplYkyL~E~~n~kt~a~~ikfD~~~~n~l~k---kneeki~Elde~i~~~eedngE~e~~ea~-~n~aeyY~qi~D 130 (412)
T COG5187 55 KCMAPLYKYLAEKGNPKTSASVIKFDRGRMNTLLK---KNEEKIEELDERIREKEEDNGETEGSEAD-RNIAEYYCQIMD 130 (412)
T ss_pred hhhhHHHHHHHhccCCcccchheehhhHHHHHHHH---hhHHHHHHHHHHHHHHhhcccchHHHHHH-HHHHHHHHHHhh
Confidence 34445566555432111111122444444443321 2467788888999988644 366665544 589999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhccc
Q psy4083 134 YTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADE 213 (374)
Q Consensus 134 ~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~ 213 (374)
.+++.+.+.+++ .+.+..+.++|+++..+|+.+..+|..-+.+.++.+..+...+ ++|+++++++.+.|+..| ..
T Consensus 131 ~~ng~~~~~~~~---~~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkG-gDWeRrNRyK~Y~Gi~~m-~~ 205 (412)
T COG5187 131 IQNGFEWMRRLM---RDAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKG-GDWERRNRYKVYKGIFKM-MR 205 (412)
T ss_pred hhhHHHHHHHHH---HHHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhC-CCHHhhhhHHHHHHHHHH-HH
Confidence 999987776665 3445678999999999999999999999999999998887776 899999999999999999 99
Q ss_pred ccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCC-----------chh---------HHHHHH----------
Q psy4083 214 QDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNT-----------PED---------VNQILS---------- 263 (374)
Q Consensus 214 rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~-----------~~~---------v~~ll~---------- 263 (374)
|+|+.|+..|.|+..+|.+.+...+-.++.|+++|.+++.+ |+- +..|..
T Consensus 206 RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY 285 (412)
T COG5187 206 RNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDY 285 (412)
T ss_pred HhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999854 321 111111
Q ss_pred -------------HHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceee
Q psy4083 264 -------------ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGIL 330 (374)
Q Consensus 264 -------------~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akI 330 (374)
.|..|.|+..|++.++++||.+++-|++|+|..++|+.||+.||+|++.+++.|.++|.+|+++|+|
T Consensus 286 ~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvI 365 (412)
T COG5187 286 GGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVI 365 (412)
T ss_pred chhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeee
Confidence 6899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCeEEEecCCcchHHHHHHHHH
Q psy4083 331 DQGEKVLIVFEGAEIDKTYEKALET 355 (374)
Q Consensus 331 D~~~giv~~~~~~~~~~~y~~~~~~ 355 (374)
|++||+|++++|++++++|+..++.
T Consensus 366 DRvnGvVetnrpdekn~qy~~vVkq 390 (412)
T COG5187 366 DRVNGVVETNRPDEKNQQYSSVVKQ 390 (412)
T ss_pred ecccceEeccCcchhhhhHHHHHhc
Confidence 9999999999999999999998864
No 7
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.9e-32 Score=253.95 Aligned_cols=319 Identities=13% Similarity=0.190 Sum_probs=267.1
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHH
Q psy4083 35 KAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRT 114 (374)
Q Consensus 35 k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~ 114 (374)
.+...++..|+.+|++.|+|++++++++.+.+.++|+ |+.+.-||++++++.-.+.+ ...++.++ ++|+.++ +||+
T Consensus 49 ~~~~kvl~~i~dLl~S~~~~~~Lneql~~L~kKhGQl-k~sI~~MIq~vmEylKg~~d-l~t~i~~i-etlr~Vt-EgkI 124 (439)
T COG5071 49 STNTKVLIYIADLLFSAGDFQGLNEQLVSLFKKHGQL-KQSITSMIQHVMEYLKGIDD-LKTKINLI-ETLRTVT-EGKI 124 (439)
T ss_pred HHHHHHHHHHHHHHhhcCchhhhhhHHHHHHHHcchH-HHHHHHHHHHHHHhccCccc-ccchHhHH-HHHHHHh-cCce
Confidence 4556678888999999999999999999999999999 99999999999999965442 46677777 9999999 7899
Q ss_pred HH---HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh----ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 115 FL---RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL----DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 115 ~l---r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~----dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
|+ |++++.-|..++...||...| .++++++++. .+-+.++.++|.+++++...+||.+|-.+..+.++-
T Consensus 125 FvEvERariT~~L~~ikee~Gdi~sA----~Dilcn~pVETygs~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK 200 (439)
T COG5071 125 FVEVERARLTQLLSQIKEEQGDIKSA----QDILCNEPVETYGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKK 200 (439)
T ss_pred EEehhHHHHHHHHHHHHHHhcchhHH----HHHHhcCchhhccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHH
Confidence 99 999999999999999999999 7788877764 567899999999999999999999999777765543
Q ss_pred ccccCCCh---hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccc-hhHHHHHHHHHHHHHhcCCc---h----
Q psy4083 188 ANSIYCPP---KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDH-NHAMMSLKYMLLSKIMLNTP---E---- 256 (374)
Q Consensus 188 ~~~~~~~~---~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~-~~~~~~LkY~vL~~iL~~~~---~---- 256 (374)
.+..| ...-+++++--.+++ +.|.|-.|+.|+-+.+.+-...++ ..|..+|...+...+|+.-. .
T Consensus 201 ---~Fe~~d~~slKlkyYeL~V~i~L-h~R~Yl~v~~y~~~vY~t~~~~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvh 276 (439)
T COG5071 201 ---FFEKEDVQSLKLKYYELKVRIGL-HDRAYLDVCKYYRAVYDTAVVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLH 276 (439)
T ss_pred ---HhccccHHHHHHHHHHHhheeec-ccHHHHHHHHHHHHHHHHHHhccCcccccchhhcceeeEEecccccHHHHHHH
Confidence 23444 345578888889999 999999999999999877666666 67888887777666776211 0
Q ss_pred ---------------------hHHHHHH----------HHhc------ChHHHhhHHHHHHHHHHHHHHHhhccccceeH
Q psy4083 257 ---------------------DVNQILS----------ELED------DTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEV 299 (374)
Q Consensus 257 ---------------------~v~~ll~----------~l~~------D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l 299 (374)
.+.+++. .+.. |..-..||++|..++.|||++.+.+.||||++
T Consensus 277 Ki~~d~kl~sl~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~ 356 (439)
T COG5071 277 KINADHKLNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHC 356 (439)
T ss_pred HhhhhhhhccchhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhH
Confidence 1223332 2333 33344899999999999999999999999999
Q ss_pred HHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4083 300 GFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVIDTLYQKAKK 372 (374)
Q Consensus 300 ~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~vd~l~~~~~~ 372 (374)
.+++..+++|+++.|..+|.|+..|-++|||+|++|+|.|..+.. +-+.+++|+.+|+.++++-.+
T Consensus 357 ~rl~~lld~~~s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n-------~~~~lneW~~NV~ellgklek 422 (439)
T COG5071 357 SRLGVLLDMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQN-------VQEQLNEWGSNVTELLGKLEK 422 (439)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhcCcEEEEecCccceEEeecccc-------HHHHHHHhcccHHHHHHHHHH
Confidence 999999999999999999999999999999999999999976653 367899999999999988654
No 8
>KOG0686|consensus
Probab=99.97 E-value=3.5e-29 Score=241.50 Aligned_cols=256 Identities=21% Similarity=0.272 Sum_probs=217.8
Q ss_pred HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhcccc-
Q psy4083 113 RTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSI- 191 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~- 191 (374)
+-..|..++ .++++|.+.|+++.|+++|.++. ++. ....+.+.+++.-|++....+||.|+-.+..+|++.+...
T Consensus 146 KEsiRra~~-Dl~dhy~~cG~l~~Alr~YsR~R-dYC--Ts~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~ 221 (466)
T KOG0686|consen 146 KESIRRALE-DLGDHYLDCGQLDNALRCYSRAR-DYC--TSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANE 221 (466)
T ss_pred hHHHHHHHH-HHHHHHHHhccHHHHHhhhhhhh-hhh--cchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhh
Confidence 555566664 89999999999999999999864 221 1357999999999999999999999999999998774110
Q ss_pred CCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh-ccCcCcccchhHHHHHHHHHHHHHhcCCchh-------------
Q psy4083 192 YCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEA-FEGFSTVDHNHAMMSLKYMLLSKIMLNTPED------------- 257 (374)
Q Consensus 192 ~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea-f~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~------------- 257 (374)
-..+.+-.++++..|..++ ..++|+.|+.+|+.+ |...|..+...-.++..|++||.+.+.++.+
T Consensus 222 ~~~q~v~~kl~C~agLa~L-~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~ 300 (466)
T KOG0686|consen 222 NLAQEVPAKLKCAAGLANL-LLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKL 300 (466)
T ss_pred hHHHhcCcchHHHHHHHHH-HHHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhh
Confidence 0234566689999999999 999999999999998 5555532332333556699999999977532
Q ss_pred -------HHHHHH-------------------HHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChH
Q psy4083 258 -------VNQILS-------------------ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDEL 311 (374)
Q Consensus 258 -------v~~ll~-------------------~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~ 311 (374)
++++|. .+..|+||++|++.|+..||.+.++|++.||++++++.||.+||.|+.
T Consensus 301 flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~sv~ 380 (466)
T KOG0686|consen 301 FLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTSVA 380 (466)
T ss_pred HHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhcccHH
Confidence 334443 588999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHHHHHHHHhccc
Q psy4083 312 AVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVIDTLYQKAKKL 373 (374)
Q Consensus 312 ~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~vd~l~~~~~~~ 373 (374)
.+|+.|-++|.+|+|+||||+.++++.+.+.++++..|+.+..+++...+-...|+.||..+
T Consensus 381 ~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~~~~~~~kal~lr~~~~ 442 (466)
T KOG0686|consen 381 ILESELLELILEGKISGRIDSHNKILYARDADSENATFERVLPMGKRSQLEAKALLLRAALL 442 (466)
T ss_pred HHHHHHHHHHHccchheeeccccceeeecccccccchhhhcchhhHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999998764
No 9
>KOG1497|consensus
Probab=99.85 E-value=5.1e-19 Score=166.62 Aligned_cols=247 Identities=18% Similarity=0.245 Sum_probs=187.8
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH-HHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKEL-KKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPP 195 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el-~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~ 195 (374)
-.++ .||.+|+..++|.+|-..+..+-.+- ++.-|-..++..|+...++|...+|...+..+..++.-.. +.-.++
T Consensus 104 ~irl--~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~-a~~~Ne 180 (399)
T KOG1497|consen 104 SIRL--HLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQ-AESSNE 180 (399)
T ss_pred HHHH--HHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhh-hcccCH
Confidence 4555 79999999999999943333222111 1223457889999999999999999999999998874432 222789
Q ss_pred hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCchhHH----------------
Q psy4083 196 KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVN---------------- 259 (374)
Q Consensus 196 ~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~---------------- 259 (374)
.++-.++.|.+.+.- ..|+|-+|+..+++.-. +.......+.++|+-.+.|.+|+.......
T Consensus 181 ~Lqie~kvc~ARvlD-~krkFlEAAqrYyels~-~ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~l~ 258 (399)
T KOG1497|consen 181 QLQIEYKVCYARVLD-YKRKFLEAAQRYYELSQ-RKIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQKLP 258 (399)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH-HHhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCccccccc
Confidence 999999999999988 89999999999998722 111333678899999999999986532211
Q ss_pred --HHHH-----------HH-hcChHHHhh--------HHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHH
Q psy4083 260 --QILS-----------EL-EDDTIVKAH--------IGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 260 --~ll~-----------~l-~~D~~l~~h--------~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L 317 (374)
+|+. ++ .--+++.+| ...+-+.+.|||++...+-|.+|+++.+++.|++|.+.+|+..
T Consensus 259 ~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgssil~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~ekaekia 338 (399)
T KOG1497|consen 259 AYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSSILDRAVIEHNLLSASKLYNNISFEELGALLKIDAEKAEKIA 338 (399)
T ss_pred chHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcchhhhhHHHHHhHHHHHHHHHhccHHHHHHHhCCCHHHHHHHH
Confidence 2222 11 112344444 3467889999999999999999999999999999999999999
Q ss_pred HHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHH-HHHHHHHHHHHHHHH
Q psy4083 318 SQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALE-TITSMGKVIDTLYQK 369 (374)
Q Consensus 318 ~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~-~i~~l~~~vd~l~~~ 369 (374)
++||..++++|-|||.+|+|+|.+ .+.-++|...+. +++.+.++.|.+-.+
T Consensus 339 a~MI~qeRmng~IDQ~egiihFe~-~e~l~~wdkqi~sl~~qvNki~~~i~~~ 390 (399)
T KOG1497|consen 339 AQMITQERMNGSIDQIEGIIHFED-REELPQWDKQIQSLCNQVNKILDKISHY 390 (399)
T ss_pred HHHHhHHHhccchHhhcceEeecc-hhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999954 445567776655 677777777666543
No 10
>KOG2758|consensus
Probab=99.79 E-value=1.8e-17 Score=156.30 Aligned_cols=265 Identities=14% Similarity=0.216 Sum_probs=208.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHH----HHHHHHHHHhhccccchhhhHHHHHHHHHH-------
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAA----KLVRSLVDFFLDLETRTGMEVALCKECIEW------- 107 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~----k~i~~ild~~~~~~~~~~~~~~l~~e~i~~------- 107 (374)
..+|+++++.++||+|.+..+++..++.+.++..+++.. |+...|+-.- |+..-..+.-++++|+.
T Consensus 130 ~~lykyakfqyeCGNY~gAs~yLY~~r~l~~~~d~n~lsalwGKlASEIL~qn---Wd~A~edL~rLre~IDs~~f~~~~ 206 (432)
T KOG2758|consen 130 ETLYKYAKFQYECGNYSGASDYLYFYRALVSDPDRNYLSALWGKLASEILTQN---WDGALEDLTRLREYIDSKSFSTSA 206 (432)
T ss_pred HHHHHHHHHHHhccCcccHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHHHcccccccHH
Confidence 568999999999999999999999999999999886554 8888888755 66554556666777763
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHH-HHHHHhCCHHHHHHHHHHHHh
Q psy4083 108 AKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLES-KTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 108 ~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei-~l~~~~~n~~~a~~~~~~a~~ 186 (374)
..-.+|+||-||. |.- |+.. . .+...++|+++.+= .+...+.-.||+.+|+..|-
T Consensus 207 ~~l~qRtWLiHWs---lfv-~fnh---p----------------kgrd~iid~fly~p~YLNaIQt~cPhllRYLatAv- 262 (432)
T KOG2758|consen 207 QQLQQRTWLIHWS---LFV-FFNH---P----------------KGRDTIIDMFLYQPPYLNAIQTSCPHLLRYLATAV- 262 (432)
T ss_pred HHHHHHHHHHHHH---HHh-hccC---C----------------ChhhHHHHHHccCHHHHHHHHhhCHHHHHHHHHHh-
Confidence 2234699999998 663 3332 1 12335667777555 45556667899999997752
Q ss_pred hccccCCC-hhhhHHHHHHHHHHhhcccccHHHHHHHHHHh-ccCcCcccchhHHHHHHHHHHHHHhcCCchhHHHHHHH
Q psy4083 187 TANSIYCP-PKMQAALDLQSGILHAADEQDFKTAFSYFYEA-FEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILSE 264 (374)
Q Consensus 187 ~~~~~~~~-~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea-f~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~ll~~ 264 (374)
+.+ .+.++.++..--++.- +.-.|+++...|++| |-+||.-|....+.- | ++ .
T Consensus 263 -----vtnk~~rr~~lkdlvkVIqq-E~ysYkDPiteFl~clyvn~DFdgAq~kl~e------C-------ee------V 317 (432)
T KOG2758|consen 263 -----VTNKRRRRNRLKDLVKVIQQ-ESYSYKDPITEFLECLYVNYDFDGAQKKLRE------C-------EE------V 317 (432)
T ss_pred -----hcchHhhHHHHHHHHHHHHH-hccccCCcHHHHHHHHhhccchHHHHHHHHH------H-------HH------H
Confidence 234 7788999999999999 899999999999999 788988776543332 3 23 5
Q ss_pred HhcChHHHhhHHHHHHHHHHHHHHHhhccc----cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 265 LEDDTIVKAHIGTLYDNMLEQNLCRIIEPY----SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 265 l~~D~~l~~h~~~L~~~ire~~l~~~~~pY----s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+.+|+|+-. +++.++|.+-+-++|.| ++|+++.+|..|+++.+++|++++.+|.+.+|+||||...|-|++.
T Consensus 318 l~nDfFLva----~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg 393 (432)
T KOG2758|consen 318 LVNDFFLVA----LLDEFLENARLLIFETFCRIHQCITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMG 393 (432)
T ss_pred HhcchhHHH----HHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeec
Confidence 889999944 55667777778888887 8899999999999999999999999999999999999999999996
Q ss_pred cCCcchHHHHHHHHHHHHHHH
Q psy4083 341 EGAEIDKTYEKALETITSMGK 361 (374)
Q Consensus 341 ~~~~~~~~y~~~~~~i~~l~~ 361 (374)
.++ -..|++.++.++.+|-
T Consensus 394 ~~~--~s~~qQ~ie~tksLS~ 412 (432)
T KOG2758|consen 394 HPT--VSPHQQLIEKTKSLSF 412 (432)
T ss_pred CCC--CCHHHHHHHhccccch
Confidence 655 5678999987666654
No 11
>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=99.72 E-value=2.2e-16 Score=141.55 Aligned_cols=157 Identities=17% Similarity=0.159 Sum_probs=134.8
Q ss_pred hhhHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCC
Q psy4083 95 GMEVALCKECIEWAKEE-RRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSN 173 (374)
Q Consensus 95 ~~~~~l~~e~i~~~~~~-~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n 173 (374)
..+++-+..-|+.++++ ++.-+|..+. .||++|++.||+++|++++.+++. ......+++|+++..+++++..+|
T Consensus 13 ~~~~~~Le~elk~~~~n~~kesir~~~~-~l~~~~~~~Gd~~~A~k~y~~~~~---~~~~~~~~id~~l~~irv~i~~~d 88 (177)
T PF10602_consen 13 AEELEKLEAELKDAKSNLGKESIRMALE-DLADHYCKIGDLEEALKAYSRARD---YCTSPGHKIDMCLNVIRVAIFFGD 88 (177)
T ss_pred HHHHHHHHHHHHHHHhccchHHHHHHHH-HHHHHHHHhhhHHHHHHHHHHHhh---hcCCHHHHHHHHHHHHHHHHHhCC
Confidence 44566666667776544 4788877774 899999999999999999988652 234578999999999999999999
Q ss_pred HHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc---ccchhHHHHHHHHHHHHH
Q psy4083 174 LSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST---VDHNHAMMSLKYMLLSKI 250 (374)
Q Consensus 174 ~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~---~~~~~~~~~LkY~vL~~i 250 (374)
+.++..++.+|+..... -++|.++++++.+.|+.++ ..|+|+.|+..|+++..+|.. .+.....++..|++||++
T Consensus 89 ~~~v~~~i~ka~~~~~~-~~d~~~~nrlk~~~gL~~l-~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y~~l~aL 166 (177)
T PF10602_consen 89 WSHVEKYIEKAESLIEK-GGDWERRNRLKVYEGLANL-AQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIYGGLCAL 166 (177)
T ss_pred HHHHHHHHHHHHHHHhc-cchHHHHHHHHHHHHHHHH-HhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHHHHHHHH
Confidence 99999999999998765 3789999999999999999 999999999999999999976 666788899999999999
Q ss_pred hcCCchh
Q psy4083 251 MLNTPED 257 (374)
Q Consensus 251 L~~~~~~ 257 (374)
++.+..+
T Consensus 167 at~~R~e 173 (177)
T PF10602_consen 167 ATLDRSE 173 (177)
T ss_pred HhCCHHH
Confidence 9976544
No 12
>smart00753 PAM PCI/PINT associated module.
Probab=99.54 E-value=2.7e-14 Score=113.14 Aligned_cols=73 Identities=26% Similarity=0.277 Sum_probs=69.9
Q ss_pred hhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcc
Q psy4083 273 AHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEI 345 (374)
Q Consensus 273 ~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~ 345 (374)
+|++.+.+.++.+++.++.+||++|+++.||+.|++|.+++|..|++||.+|.|+|+||+.+|+|++.+.+++
T Consensus 1 ~~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00753 1 QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred ChHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 4788999999999999999999999999999999999999999999999999999999999999999887765
No 13
>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=99.54 E-value=2.7e-14 Score=113.14 Aligned_cols=73 Identities=26% Similarity=0.277 Sum_probs=69.9
Q ss_pred hhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcc
Q psy4083 273 AHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEI 345 (374)
Q Consensus 273 ~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~ 345 (374)
+|++.+.+.++.+++.++.+||++|+++.||+.|++|.+++|..|++||.+|.|+|+||+.+|+|++.+.+++
T Consensus 1 ~~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00088 1 QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred ChHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 4788999999999999999999999999999999999999999999999999999999999999999887765
No 14
>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=99.50 E-value=9.3e-14 Score=112.71 Aligned_cols=77 Identities=26% Similarity=0.390 Sum_probs=73.3
Q ss_pred HHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 264 ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 264 ~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
.+..|+++..|++.+.+.++.+++.+++.||++|+++.||+.|+++.+++|..+++||.+|.|+|+||+++|+|++.
T Consensus 28 ~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~~vE~~l~~~I~~~~i~~~ID~~~~~v~~~ 104 (105)
T PF01399_consen 28 SLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEEEVESILIDLISNGLIKAKIDQVNGVVVFS 104 (105)
T ss_dssp HHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEETTTTEEEE-
T ss_pred HHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchHHHHHHHHHHHHCCCEEEEEECCCCEEEec
Confidence 57789999999999999999999999999999999999999999999999999999999999999999999999985
No 15
>KOG2908|consensus
Probab=99.36 E-value=2.6e-09 Score=102.33 Aligned_cols=240 Identities=12% Similarity=0.116 Sum_probs=182.0
Q ss_pred HHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccC-CChhhhHHHHHHH
Q psy4083 127 LYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIY-CPPKMQAALDLQS 205 (374)
Q Consensus 127 ~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~-~~~~~~~~i~~~~ 205 (374)
+..+.+|.++|++.+.++...++..+.+...+-+...+.+.+...+|...++..+...+...++.. .+|.+.+.++..+
T Consensus 84 ~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~ls 163 (380)
T KOG2908|consen 84 VSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLS 163 (380)
T ss_pred HHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHH
Confidence 445667999999999999998888888877788888889999999999999999999887555433 4667999999999
Q ss_pred HHHhhcccccHHHHHHHHHHh--ccCcCcccchhHHHHHHHHHHHHHhcCCchhHHH--------------------HHH
Q psy4083 206 GILHAADEQDFKTAFSYFYEA--FEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQ--------------------ILS 263 (374)
Q Consensus 206 G~~~~~~~rdy~~A~~~F~ea--f~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~--------------------ll~ 263 (374)
..+|- ..+||..++..-+-= +..-+.....++.+-..-++++++|...-+...+ ++.
T Consensus 164 sqYyk-~~~d~a~yYr~~L~YL~~~d~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~ 242 (380)
T KOG2908|consen 164 SQYYK-KIGDFASYYRHALLYLGCSDIDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLKDLLI 242 (380)
T ss_pred HHHHH-HHHhHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHH
Confidence 99999 899988744332211 1212222224555666778889998865322222 221
Q ss_pred ---------------HHhcChHHHhhHHHHHHHHHHHHHHHhh--cc--ccceeHHHHHhHhCCChHHHHHHHHHHhhcC
Q psy4083 264 ---------------ELEDDTIVKAHIGTLYDNMLEQNLCRII--EP--YSRVEVGFIAKSIKLDELAVEKKLSQMILDK 324 (374)
Q Consensus 264 ---------------~l~~D~~l~~h~~~L~~~ire~~l~~~~--~p--Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dg 324 (374)
....=|.+..|-..|.+.++--++..+. +| =..|+++.||++..+|.++||-.+.+.++-|
T Consensus 243 Afn~Gdl~~f~~l~~~~~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eVE~LVMKAlslg 322 (380)
T KOG2908|consen 243 AFNSGDLKRFESLKGVWGKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEVELLVMKALSLG 322 (380)
T ss_pred HhccCCHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHHHHHHHHHHhcc
Confidence 3455678889999999999888887665 32 2669999999999999999999999999999
Q ss_pred ccceeecCCCCeEEEecCCcchHHHHHHH---HHHHHHHHHHHHHH
Q psy4083 325 KFHGILDQGEKVLIVFEGAEIDKTYEKAL---ETITSMGKVIDTLY 367 (374)
Q Consensus 325 kl~akID~~~giv~~~~~~~~~~~y~~~~---~~i~~l~~~vd~l~ 367 (374)
-|.|.||+++|+|.+.--.+|--.-++.. +++..|...|.++-
T Consensus 323 LikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me 368 (380)
T KOG2908|consen 323 LIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSME 368 (380)
T ss_pred ceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHH
Confidence 99999999999999977666543333333 47888888887654
No 16
>KOG2581|consensus
Probab=99.19 E-value=3.5e-08 Score=96.58 Aligned_cols=189 Identities=18% Similarity=0.243 Sum_probs=131.5
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhccccCCCh---hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcC-cccchhHHH
Q psy4083 165 SKTYHALSNLSTSRASLTSARTTANSIYCPP---KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFS-TVDHNHAMM 240 (374)
Q Consensus 165 i~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~---~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~-~~~~~~~~~ 240 (374)
.|.|...+-+.+|-.+..+ +.+++. .-.+++--|.|++.+ -+.||.+|..+|..|..--. ....--..+
T Consensus 216 Lr~yL~n~lydqa~~lvsK------~~~pe~~snne~ARY~yY~GrIka-iqldYssA~~~~~qa~rkapq~~alGf~q~ 288 (493)
T KOG2581|consen 216 LRNYLHNKLYDQADKLVSK------SVYPEAASNNEWARYLYYLGRIKA-IQLDYSSALEYFLQALRKAPQHAALGFRQQ 288 (493)
T ss_pred HHHHhhhHHHHHHHHHhhc------ccCccccccHHHHHHHHHHhhHHH-hhcchhHHHHHHHHHHHhCcchhhhhHHHH
Confidence 3455555555555544443 233332 367899999999999 99999999999999964333 222234567
Q ss_pred HHHHHHHHHHhcCC-ch-----------------hHHHHHH-----------HHhcChHHHhhHH----HHHHHHHHHHH
Q psy4083 241 SLKYMLLSKIMLNT-PE-----------------DVNQILS-----------ELEDDTIVKAHIG----TLYDNMLEQNL 287 (374)
Q Consensus 241 ~LkY~vL~~iL~~~-~~-----------------~v~~ll~-----------~l~~D~~l~~h~~----~L~~~ire~~l 287 (374)
+-|.+++..+|.++ |+ ++..-+. +-..|.|.+.+.- .|..+|+.-.|
T Consensus 289 v~k~~ivv~ll~geiPers~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgI 368 (493)
T KOG2581|consen 289 VNKLMIVVELLLGEIPERSVFRQPGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGI 368 (493)
T ss_pred HHHHHHHHHHHcCCCcchhhhcCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhh
Confidence 88999999999876 42 1111111 3445666665544 45556666678
Q ss_pred HHhhccccceeHHHHHhHhCCCh-HHHHHHHHHHhhcCccceeecCCCCeEEEe------cCCcchHHHHHHHHHHHHHH
Q psy4083 288 CRIIEPYSRVEVGFIAKSIKLDE-LAVEKKLSQMILDKKFHGILDQGEKVLIVF------EGAEIDKTYEKALETITSMG 360 (374)
Q Consensus 288 ~~~~~pYs~I~l~~lA~~l~ls~-~~vE~~L~~lI~dgkl~akID~~~giv~~~------~~~~~~~~y~~~~~~i~~l~ 360 (374)
++|.-+||||++..||+.|+++. +++|-.+++.|.||.|.|+||..+|++... +..++...|..-+.-+.++-
T Consensus 369 R~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~Lh 448 (493)
T KOG2581|consen 369 RKISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLH 448 (493)
T ss_pred hheeeeeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHH
Confidence 89999999999999999999965 559999999999999999999999988664 33444455555454444443
No 17
>KOG2582|consensus
Probab=98.70 E-value=2.7e-06 Score=82.55 Aligned_cols=184 Identities=15% Similarity=0.176 Sum_probs=126.4
Q ss_pred chhHHHHHHHHHHHHHHhCCHHHHHHHHHH-----HHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 154 KNLLVEVLLLESKTYHALSNLSTSRASLTS-----ARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 154 ~~~~lev~l~ei~l~~~~~n~~~a~~~~~~-----a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...+.-++..-.+.+...+++.-+..++.. +.+ | .--||+.--.+-.++|.++. .-++|++|.-.|+-+..
T Consensus 136 ~~qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~~--n-~h~~~k~fL~Y~yYgg~ici-glk~fe~Al~~~e~~v~ 211 (422)
T KOG2582|consen 136 NGQLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICKA--N-PHLDPKYFLLYLYYGGMICI-GLKRFERALYLLEICVT 211 (422)
T ss_pred ccchhhhHHHHHHHHHHhhcccccCCccchhHHHHhcc--C-CCCCHHHHHHHHHhcceeee-ccccHHHHHHHHHHHHh
Confidence 336666777778888888888765444332 221 1 12466666677788888888 99999999855555543
Q ss_pred CcCcccc-hhHHHHHHHHHHHHHhcCCchh----------------------------------HHHHHH----HHhcCh
Q psy4083 229 GFSTVDH-NHAMMSLKYMLLSKIMLNTPED----------------------------------VNQILS----ELEDDT 269 (374)
Q Consensus 229 ~f~~~~~-~~~~~~LkY~vL~~iL~~~~~~----------------------------------v~~ll~----~l~~D~ 269 (374)
....+-. ......-||++++-|+.+.-++ ++.++. .+..|.
T Consensus 212 ~Pa~~vs~~hlEaYkkylLvsLI~~GK~~ql~k~ts~~~~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDn 291 (422)
T KOG2582|consen 212 TPAMAVSHIHLEAYKKYLLVSLILTGKVFQLPKNTSQNAGRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDN 291 (422)
T ss_pred cchhHHHHHHHHHHHHHHHHHhhhcCceeeccccchhhhHHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcC
Confidence 3322222 3333456788888888755221 222222 233332
Q ss_pred HHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCC-ChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcc
Q psy4083 270 IVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKL-DELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEI 345 (374)
Q Consensus 270 ~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~l-s~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~ 345 (374)
-. .-+.+....+-.|+|.++-+.|++++|+.||++-.+ +.+++|+++.+||.+|++.+.|| |.|.|.+.+.+
T Consensus 292 nt-~l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~ 364 (422)
T KOG2582|consen 292 NT-GLAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN---GMVFFTDNPEK 364 (422)
T ss_pred cH-HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec---ceEEEecCccc
Confidence 11 124566777889999999999999999999997776 56899999999999999999999 99988765543
No 18
>KOG1076|consensus
Probab=98.45 E-value=0.00024 Score=74.09 Aligned_cols=210 Identities=17% Similarity=0.216 Sum_probs=132.0
Q ss_pred ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh---hhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 152 DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK---MQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 152 dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~---~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
++....---+|+-|..+.-..||-+|+.++-.+.--.|---.|+. +-++-.++-|+-.+ ..|--++|...+.|...
T Consensus 480 ~d~r~rtRAmLchIYh~AL~d~f~~ARDlLLMSHlQdnI~h~D~stQIL~NRtmvQLGLCAF-R~Gmi~EaH~~L~dl~s 558 (843)
T KOG1076|consen 480 DDDRLRTRAMLCHIYHHALHDNFYTARDLLLMSHLQDNIQHADISTQILFNRTMVQLGLCAF-RQGMIKEAHQCLSDLQS 558 (843)
T ss_pred chHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHHH-HcccHHHHHHHHHHHHh
Confidence 333344445666676677778999999888665211111112333 34566777888777 88888999988888754
Q ss_pred CcC---------------c----c--------------cchhHHHHHHHHHHHHHhcCCc--------------------
Q psy4083 229 GFS---------------T----V--------------DHNHAMMSLKYMLLSKIMLNTP-------------------- 255 (374)
Q Consensus 229 ~f~---------------~----~--------------~~~~~~~~LkY~vL~~iL~~~~-------------------- 255 (374)
+=. + . -+.+.+.|+ | +.|+||..=|
T Consensus 559 t~r~kELLgQgv~~~~~he~t~eQe~~eR~rQlPyHmHINLELlEcV-y-LtcaMLlEIP~MAA~~~d~Rrr~iSk~frr 636 (843)
T KOG1076|consen 559 TGRVKELLGQGVLQRRQHEKTAEQEKIERRRQLPYHMHINLELLECV-Y-LTCAMLLEIPYMAAHESDARRRMISKSFRR 636 (843)
T ss_pred cchHHHHHhhhhhhhhhhccChhhHHHHHhhcCchhhhccHHHHHHH-H-HHHHHHHhhhHHhhhhhhhhcccccHHHHH
Confidence 321 1 0 012233442 3 4577775221
Q ss_pred --------------hhHHHHH-H---HHhc------ChHHHh-------------hHHHHHHHHHHHHHHHhhc----cc
Q psy4083 256 --------------EDVNQIL-S---ELED------DTIVKA-------------HIGTLYDNMLEQNLCRIIE----PY 294 (374)
Q Consensus 256 --------------~~v~~ll-~---~l~~------D~~l~~-------------h~~~L~~~ire~~l~~~~~----pY 294 (374)
+.+++-+ . .+.. -.|+.. -.+-|.+.|.+-.|+-|+- .|
T Consensus 637 ~Le~serqsf~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y 716 (843)
T KOG1076|consen 637 QLEHSERQSFTGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVY 716 (843)
T ss_pred HHHHHhhccccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 1111100 0 0000 001111 1234566777777666554 46
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHHHH
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVIDT 365 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~vd~ 365 (374)
++|++..||++|.+|++.|-..+++||....|.|.+|++.+||++.+ .+.+..-.-+++.-.++...+++
T Consensus 717 ~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hr-vE~srlq~La~qL~eKl~~L~E~ 786 (843)
T KOG1076|consen 717 DSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHR-VEPSRLQSLAVQLSEKLAILAEN 786 (843)
T ss_pred hhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEee-ccchHHHHHHHHHHHHHHHHHHh
Confidence 88999999999999999999999999999999999999999999977 55666666667766666665543
No 19
>KOG2753|consensus
Probab=98.15 E-value=0.00094 Score=64.45 Aligned_cols=85 Identities=19% Similarity=0.250 Sum_probs=77.5
Q ss_pred HHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcch---HHHHHH
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEID---KTYEKA 352 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~---~~y~~~ 352 (374)
+...+.||---+..+.++=-.|+++.|++.|++..++||-++.+.|..|-+.|||||.+++|++.+...|. ..|++.
T Consensus 274 E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~~~~viVs~~~hR~FG~~qW~~L 353 (378)
T KOG2753|consen 274 EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQQWQQL 353 (378)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhhcceEEeehhhhhhcccHHHHHH
Confidence 46788899999999999999999999999999999999999999999999999999999999998766553 578888
Q ss_pred HHHHHHHH
Q psy4083 353 LETITSMG 360 (374)
Q Consensus 353 ~~~i~~l~ 360 (374)
-+.++.|.
T Consensus 354 ~~kL~aw~ 361 (378)
T KOG2753|consen 354 RDKLAAWG 361 (378)
T ss_pred HHHHHHHH
Confidence 88999995
No 20
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.91 E-value=0.0077 Score=57.76 Aligned_cols=184 Identities=15% Similarity=0.130 Sum_probs=126.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhh-hHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHh
Q psy4083 33 EVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQIS-KAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEE 111 (374)
Q Consensus 33 ~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~-k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~ 111 (374)
.-..++++ +..+...|+|++..+.+..-........ +..+++.....-..+.+. ..+.-++.+..+++--...
T Consensus 34 Aa~~y~~A----a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~--~~~~Ai~~~~~A~~~y~~~ 107 (282)
T PF14938_consen 34 AADLYEKA----ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG--DPDEAIECYEKAIEIYREA 107 (282)
T ss_dssp HHHHHHHH----HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT--THHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHH----HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh--CHHHHHHHHHHHHHHHHhc
Confidence 45566666 9999999999999998887766664432 335556666666665443 2344466666666655545
Q ss_pred hHHHHHHHHHHHHHHHHHhc-cCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccc
Q psy4083 112 RRTFLRQSLEARLIALYFDT-GEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANS 190 (374)
Q Consensus 112 ~r~~lr~~l~~kLa~~~~~~-g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~ 190 (374)
|+.---.+...++|.+|.+. |++++|++.|.+.+..+...+......+++..-..++...++|..|-..+.+.-...
T Consensus 108 G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~-- 185 (282)
T PF14938_consen 108 GRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKC-- 185 (282)
T ss_dssp T-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTC--
T ss_pred CcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--
Confidence 55555455566899999999 999999999999988777777778888999999999999999999999998754321
Q ss_pred cCCChhhhH---HHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 191 IYCPPKMQA---ALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 191 ~~~~~~~~~---~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
...+-.+. .+....|+.++ ..+|+-.|...|=+.
T Consensus 186 -l~~~l~~~~~~~~~l~a~l~~L-~~~D~v~A~~~~~~~ 222 (282)
T PF14938_consen 186 -LENNLLKYSAKEYFLKAILCHL-AMGDYVAARKALERY 222 (282)
T ss_dssp -CCHCTTGHHHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred -hcccccchhHHHHHHHHHHHHH-HcCCHHHHHHHHHHH
Confidence 11222222 34456788999 899998877666554
No 21
>KOG2072|consensus
Probab=97.67 E-value=0.059 Score=57.69 Aligned_cols=77 Identities=14% Similarity=0.137 Sum_probs=70.4
Q ss_pred HHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhC-CChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 264 ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIK-LDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 264 ~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~-ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
-+..-|...+++..|.+.+..+.+.|+..-|.+|++++|-+..- ++.-++|+.+++....+-+..+||...++|.|.
T Consensus 415 ~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~Fg 492 (988)
T KOG2072|consen 415 KLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFG 492 (988)
T ss_pred HHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeec
Confidence 45666777889999999999999999999999999999988766 588899999999999999999999999999996
No 22
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.23 E-value=0.052 Score=53.57 Aligned_cols=94 Identities=21% Similarity=0.207 Sum_probs=60.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++.+|...|++++|++.+.+++. .++....+.+...+.++...+++..+...+.++.... +++. ..
T Consensus 219 ~la~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~----p~~~---~~- 285 (389)
T PRK11788 219 LLGDLALAQGDYAAAIEALERVEE-----QDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY----PGAD---LL- 285 (389)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH-----HChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CCch---HH-
Confidence 477777788888888776666653 1333334455555677777888888887777765442 2221 12
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
...|.++. ..++|..|...|-++.+.+
T Consensus 286 ~~la~~~~-~~g~~~~A~~~l~~~l~~~ 312 (389)
T PRK11788 286 LALAQLLE-EQEGPEAAQALLREQLRRH 312 (389)
T ss_pred HHHHHHHH-HhCCHHHHHHHHHHHHHhC
Confidence 44566666 7788888888887776654
No 23
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.22 E-value=0.22 Score=47.76 Aligned_cols=180 Identities=18% Similarity=0.235 Sum_probs=109.3
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhh-HHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISK-AKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEAR 123 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k-~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~k 123 (374)
+..+.+. ++++..+++..-.......++ ..+++...++=..+.+..+..+.-++...+++++-+.++........-.+
T Consensus 82 a~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~ 160 (282)
T PF14938_consen 82 ANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLK 160 (282)
T ss_dssp HHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHH
Confidence 6665554 888888888888777766554 35567777777766554233566688888888887766654444444458
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhc-cchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLD-DKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~d-d~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
+|.++...|+|++|++.+.++........ .+...=+.++..+-+++..+|...++..+........+ +.+ ....+
T Consensus 161 ~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~-F~~---s~E~~ 236 (282)
T PF14938_consen 161 AADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPS-FAS---SREYK 236 (282)
T ss_dssp HHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT-STT---SHHHH
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CCC---cHHHH
Confidence 99999999999999998887764221111 12233456777777888999999999999886544211 122 22334
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
.+.+++..+..+|-.. |-++...|+..
T Consensus 237 ~~~~l~~A~~~~D~e~----f~~av~~~d~~ 263 (282)
T PF14938_consen 237 FLEDLLEAYEEGDVEA----FTEAVAEYDSI 263 (282)
T ss_dssp HHHHHHHHHHTT-CCC----HHHHCHHHTTS
T ss_pred HHHHHHHHHHhCCHHH----HHHHHHHHccc
Confidence 4555544423334222 44455555543
No 24
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=97.19 E-value=0.1 Score=51.50 Aligned_cols=179 Identities=17% Similarity=0.189 Sum_probs=109.8
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh----hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhH
Q psy4083 163 LESKTYHALSNLSTSRASLTSARTTANSIYCPP----KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHA 238 (374)
Q Consensus 163 ~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~----~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~ 238 (374)
...++|++++++.-.+..+.+.+.. +....+ .-.-.++-+-|++|+ +.++|+.|+-.|-+||-.-.-...-+.
T Consensus 182 lL~~iY~Rl~~~~l~~n~lka~~~v--s~~Di~~~~~sq~v~f~YYLG~~~l-~~en~heA~~~L~~aFl~c~~l~~~n~ 258 (413)
T COG5600 182 LLFQIYLRLGRFKLCENFLKASKEV--SMPDISEYQKSQVVVFHYYLGIYYL-LNENFHEAFLHLNEAFLQCPWLITRNR 258 (413)
T ss_pred HHHHHHHHhccHHHHHHHHHhcccc--cccccchhhhcceeehhhHHHHHHH-HHHhHHHHHHHHHHHHHhChhhhhcch
Confidence 5678999999999888777665432 211122 112266889999999 999999999999999864433222344
Q ss_pred HHHHHHHHHHHHhcCC--ch----------h-HHHHHH------------HHh-cChHHHh-----hHHHHHHHHHHHHH
Q psy4083 239 MMSLKYMLLSKIMLNT--PE----------D-VNQILS------------ELE-DDTIVKA-----HIGTLYDNMLEQNL 287 (374)
Q Consensus 239 ~~~LkY~vL~~iL~~~--~~----------~-v~~ll~------------~l~-~D~~l~~-----h~~~L~~~ire~~l 287 (374)
..++-|++-++++.+. |- + .+.++. .+. +..++.. -+...++-|--+|+
T Consensus 259 ~rIl~~~ipt~Llv~~~~Ptk~~L~r~~~~s~~~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL 338 (413)
T COG5600 259 KRILPYYIPTSLLVNKFPPTKDLLERFKRCSVYSPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNL 338 (413)
T ss_pred heehhHHhhHHHHhCCCCCchHHHHhccccchhHHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHH
Confidence 5667788888888865 21 0 112222 010 1111111 01111222222333
Q ss_pred HH--hhccc--cc--eeHHHHHhHhCC-C----hHHHHHHHHHHhhcCccceeecCCCCeEEEecCCc
Q psy4083 288 CR--IIEPY--SR--VEVGFIAKSIKL-D----ELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAE 344 (374)
Q Consensus 288 ~~--~~~pY--s~--I~l~~lA~~l~l-s----~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~ 344 (374)
.+ ..-.. ++ +++-.++..+.. + .++||-.|+.||..|.+.|-|=....+|++.++++
T Consensus 339 ~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk~~p 406 (413)
T COG5600 339 FRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILVTLIGLGLLRGYISHSRRTVVFSKKDP 406 (413)
T ss_pred HHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHHHHHhhhhhhheecccceEEEEecCCC
Confidence 33 11111 44 344455555543 3 68999999999999999999999999999976653
No 25
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.15 E-value=0.044 Score=46.97 Aligned_cols=96 Identities=18% Similarity=0.163 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
...+ .+|..+++.|++++|...+..++. ...|....--..+.-.++++..+++..+...+.. +.++.
T Consensus 49 ~A~l--~lA~~~~~~g~~~~A~~~l~~~~~---~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~--------~~~~~ 115 (145)
T PF09976_consen 49 LAAL--QLAKAAYEQGDYDEAKAALEKALA---NAPDPELKPLARLRLARILLQQGQYDEALATLQQ--------IPDEA 115 (145)
T ss_pred HHHH--HHHHHHHHCCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh--------ccCcc
Confidence 3445 589999999999999877777663 2223334444556677888999999999988744 13455
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
..+...+..|.+++ ..|++..|...|-.+
T Consensus 116 ~~~~~~~~~Gdi~~-~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 116 FKALAAELLGDIYL-AQGDYDEARAAYQKA 144 (145)
T ss_pred hHHHHHHHHHHHHH-HCCCHHHHHHHHHHh
Confidence 67788899999999 999999999888665
No 26
>KOG2688|consensus
Probab=96.96 E-value=0.008 Score=59.95 Aligned_cols=185 Identities=15% Similarity=0.196 Sum_probs=116.6
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhh--hHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 156 LLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKM--QAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 156 ~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~--~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
..+.+--..-++|+..+...-.+.....-+... +.+.+..+ +-.++-+-|..+| .+.||..|..++-++|..-...
T Consensus 161 ~~~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~-~~~~~~~l~~~v~y~YylGr~a~-~~~d~~~A~~~L~~af~~cp~~ 238 (394)
T KOG2688|consen 161 AMLYIVNQLFQIYFRIEKLLLCKNLIRAFDQSG-SDISDFPLAQLVVYHYYLGRYAM-FESDFLNAFLQLNEAFRLCPDL 238 (394)
T ss_pred HHHHHHHHHHHHHHHHhhHHHhHHHHHHhhccc-cchhhcccccceeeeeeeeeehh-hhhhHHHHHHHHHHHHHhCcHH
Confidence 445555677788888888777776665544331 11111111 1144556789999 9999999999999998754432
Q ss_pred cchhHHHHHHHHHHHHHhcCC-chh----------HHHHHH------------HH--hcChHHHhhHH--------HHHH
Q psy4083 234 DHNHAMMSLKYMLLSKIMLNT-PED----------VNQILS------------EL--EDDTIVKAHIG--------TLYD 280 (374)
Q Consensus 234 ~~~~~~~~LkY~vL~~iL~~~-~~~----------v~~ll~------------~l--~~D~~l~~h~~--------~L~~ 280 (374)
-..+...++.|++-+.++.+. |.. ...++. .+ ....|++.-+- -.++
T Consensus 239 ~~~n~~~iliylip~~~llg~~Pt~~lL~~~~~~~~~~lv~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~lv~yr 318 (394)
T KOG2688|consen 239 LLKNKRLILIYLIPTGLLLGRIPTKELLDFYTLDKYSPLVQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYR 318 (394)
T ss_pred HHhhhhhHHHHHhHHHHHhccCcchhhHhHhhHHhHHHHHHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHH
Confidence 224556789999999999876 421 122222 00 00112221111 1233
Q ss_pred HHHHHHHHHhhccccceeHHHHHhHhCCC------hHHHHHHHHHHhhcCccceeecCCCCeEEEecCC
Q psy4083 281 NMLEQNLCRIIEPYSRVEVGFIAKSIKLD------ELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGA 343 (374)
Q Consensus 281 ~ire~~l~~~~~pYs~I~l~~lA~~l~ls------~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~ 343 (374)
++..+++.--. -=++++++.+-.++..+ .+++|=.|+.+|..|+|.|-|+.....+++.+.+
T Consensus 319 nL~kkv~~~~~-~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgYish~~~~~V~sK~~ 386 (394)
T KOG2688|consen 319 NLFKKVIQLWG-KTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGYISHQLQTLVFSKKD 386 (394)
T ss_pred HHHHHHHHHhC-CCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccchhchhhheEEEecCC
Confidence 33333322221 22788888888887643 5899999999999999999999999999986554
No 27
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.77 E-value=0.12 Score=44.21 Aligned_cols=123 Identities=18% Similarity=0.154 Sum_probs=78.6
Q ss_pred HHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q psy4083 49 KQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALY 128 (374)
Q Consensus 49 ~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~ 128 (374)
...|++..+.+.+..+....+..+-+..+.+..--+-+- .+..+.-...+...+.... +..+--..++ +|+.++
T Consensus 22 ~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~---~g~~~~A~~~l~~~~~~~~-d~~l~~~a~l--~LA~~~ 95 (145)
T PF09976_consen 22 LQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYE---QGDYDEAKAALEKALANAP-DPELKPLARL--RLARIL 95 (145)
T ss_pred HHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHhhCC-CHHHHHHHHH--HHHHHH
Confidence 368888888777777777766664444444432222221 1223333444544444331 2222224455 789999
Q ss_pred HhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 129 FDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 129 ~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
++.|+|++|++.+.. ..+....-.+....-.++...|++.+|+..|.+|
T Consensus 96 ~~~~~~d~Al~~L~~-------~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 96 LQQGQYDEALATLQQ-------IPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHcCCHHHHHHHHHh-------ccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 999999999876643 2344455556778889999999999999999876
No 28
>KOG1840|consensus
Probab=96.70 E-value=0.28 Score=51.03 Aligned_cols=189 Identities=17% Similarity=0.194 Sum_probs=120.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh----hhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHH---Hhh
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFL----SQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAK---EER 112 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~----~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~---~~~ 112 (374)
++..++..|+.+|+++....+.++-.... + ..-..++-+.+.+=..+... +....-+.++.+++..-. ...
T Consensus 201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G-~~hl~va~~l~~~a~~y~~~-~k~~eAv~ly~~AL~i~e~~~G~~ 278 (508)
T KOG1840|consen 201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSG-LKHLVVASMLNILALVYRSL-GKYDEAVNLYEEALTIREEVFGED 278 (508)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccC-ccCHHHHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHHHHHhcCCC
Confidence 44558999999999999888777655442 1 10112222222222222111 112334566666655432 111
Q ss_pred HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhcc--chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccc
Q psy4083 113 RTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDD--KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANS 190 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd--~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~ 190 (374)
--=+-.-+ ..||.+|...|+|.+|...+.+.++-..+... ...+-..+...+-++...+.+..+..++..+..+-..
T Consensus 279 h~~va~~l-~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~ 357 (508)
T KOG1840|consen 279 HPAVAATL-NNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD 357 (508)
T ss_pred CHHHHHHH-HHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence 12223333 37899999999999999999888876666432 3333445556666777788899999999998776544
Q ss_pred cCCChh-hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 191 IYCPPK-MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 191 ~~~~~~-~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
..+... ..+.++.-.|.++. ..|+|++|...|-+|..-..+
T Consensus 358 ~~g~~~~~~a~~~~nl~~l~~-~~gk~~ea~~~~k~ai~~~~~ 399 (508)
T KOG1840|consen 358 APGEDNVNLAKIYANLAELYL-KMGKYKEAEELYKKAIQILRE 399 (508)
T ss_pred hccccchHHHHHHHHHHHHHH-HhcchhHHHHHHHHHHHHHHh
Confidence 333333 56788888888889 999999999999888654433
No 29
>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=96.54 E-value=0.46 Score=41.90 Aligned_cols=167 Identities=12% Similarity=0.009 Sum_probs=104.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQ 118 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~ 118 (374)
++.+.++..++..|++++..+.+.......+...... ...-.+.-. .+..+.-++.+...++....+.. .
T Consensus 32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~--~~la~~~~~----~~~~~~A~~~~~~al~~~~~~~~----~ 101 (234)
T TIGR02521 32 KIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAY--LALALYYQQ----LGELEKAEDSFRRALTLNPNNGD----V 101 (234)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHH--HHHHHHHHH----cCCHHHHHHHHHHHHhhCCCCHH----H
Confidence 4456779999999999999888887765543322111 111111111 12233334445444443222222 1
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhh
Q psy4083 119 SLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQ 198 (374)
Q Consensus 119 ~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~ 198 (374)
.. .++.++...|++++|++.+.+.+.. .+.....+.+.....++...+++..+..++.++..... .++
T Consensus 102 ~~--~~~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~--- 169 (234)
T TIGR02521 102 LN--NYGTFLCQQGKYEQAMQQFEQAIED----PLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP---QRP--- 169 (234)
T ss_pred HH--HHHHHHHHcccHHHHHHHHHHHHhc----cccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---CCh---
Confidence 22 4788899999999999888877641 11122234455557788899999999999998866521 122
Q ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 199 AALDLQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 199 ~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
......|.++. ..++|..|...|-++...
T Consensus 170 -~~~~~la~~~~-~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 170 -ESLLELAELYY-LRGQYKDARAYLERYQQT 198 (234)
T ss_pred -HHHHHHHHHHH-HcCCHHHHHHHHHHHHHh
Confidence 23445677888 899999999988877554
No 30
>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=96.47 E-value=0.055 Score=43.42 Aligned_cols=102 Identities=13% Similarity=0.157 Sum_probs=75.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+...|++++|.+.+..++. ...+.....+..+...+++...+++..+..++..+.... ++........
T Consensus 7 ~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----p~~~~~~~~~ 79 (119)
T TIGR02795 7 DAALLVLKAGDYADAIQAFQAFLK---KYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY----PKSPKAPDAL 79 (119)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH---HCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC----CCCCcccHHH
Confidence 578889999999999888777763 222333445677888999999999999999999876542 2222223445
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
...|.++. ..+++..|...|-++.+.+..
T Consensus 80 ~~~~~~~~-~~~~~~~A~~~~~~~~~~~p~ 108 (119)
T TIGR02795 80 LKLGMSLQ-ELGDKEKAKATLQQVIKRYPG 108 (119)
T ss_pred HHHHHHHH-HhCChHHHHHHHHHHHHHCcC
Confidence 66677778 899999999999988877653
No 31
>KOG1840|consensus
Probab=96.41 E-value=0.44 Score=49.64 Aligned_cols=182 Identities=16% Similarity=0.184 Sum_probs=114.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhh---hhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHH---Hhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQ---ISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAK---EER 112 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~---~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~---~~~ 112 (374)
.++..|+.+|++.|++++...++..-...... .+-..+++.+..+...+..... .+.-..++...++... .+.
T Consensus 284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~-~Eea~~l~q~al~i~~~~~g~~ 362 (508)
T KOG1840|consen 284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNE-YEEAKKLLQKALKIYLDAPGED 362 (508)
T ss_pred HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcc-hhHHHHHHHHHHHHHHhhcccc
Confidence 45667799999999999999999887776655 3344666666666665543222 3333344433333211 111
Q ss_pred HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccc-hhHHHHHHHHH-HHHHHhCCHHHHHHHHHHHHhhccc
Q psy4083 113 RTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDK-NLLVEVLLLES-KTYHALSNLSTSRASLTSARTTANS 190 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~-~~~lev~l~ei-~l~~~~~n~~~a~~~~~~a~~~~~~ 190 (374)
- .--+.+...||.+|+..|+|++|.+++.++++-.+..+++ ..-+-..+..+ ..|...+++..+-.++..+..+...
T Consensus 363 ~-~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~ 441 (508)
T KOG1840|consen 363 N-VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKL 441 (508)
T ss_pred c-hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHH
Confidence 1 1112233478999999999999999999998777665542 33333333322 3346777888888888888776522
Q ss_pred -cCCChhhhHHHHHHHHHHhhcccccHHHHHHHHH
Q psy4083 191 -IYCPPKMQAALDLQSGILHAADEQDFKTAFSYFY 224 (374)
Q Consensus 191 -~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ 224 (374)
...+|.+...+.-+++.+. ..|+|+.|..+--
T Consensus 442 ~g~~~~~~~~~~~nL~~~Y~--~~g~~e~a~~~~~ 474 (508)
T KOG1840|consen 442 CGPDHPDVTYTYLNLAALYR--AQGNYEAAEELEE 474 (508)
T ss_pred hCCCCCchHHHHHHHHHHHH--HcccHHHHHHHHH
Confidence 2345666666666666653 4789988876543
No 32
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=96.36 E-value=0.41 Score=47.12 Aligned_cols=26 Identities=15% Similarity=0.302 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRP 66 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~ 66 (374)
...++.+++..|++++..+.+.....
T Consensus 72 ~~~la~~~~~~g~~~~A~~~~~~~l~ 97 (389)
T PRK11788 72 HLALGNLFRRRGEVDRAIRIHQNLLS 97 (389)
T ss_pred HHHHHHHHHHcCcHHHHHHHHHHHhc
Confidence 44556666666666666666655544
No 33
>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=96.35 E-value=0.41 Score=50.89 Aligned_cols=31 Identities=16% Similarity=0.073 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLS 69 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~ 69 (374)
+..+.++.++...|++++..+.+.......+
T Consensus 366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~p 396 (615)
T TIGR00990 366 QSYIKRASMNLELGDPDKAEEDFDKALKLNS 396 (615)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence 4566778888888888888877776655543
No 34
>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=96.24 E-value=0.33 Score=51.66 Aligned_cols=163 Identities=16% Similarity=0.118 Sum_probs=103.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHH
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSL 120 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l 120 (374)
...++.+++..|++++..+.+......-+..+....... .+.-.. +..+.-+..+.+.++.-.++...| .
T Consensus 334 ~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la--~~~~~~----g~~~eA~~~~~~al~~~p~~~~~~----~ 403 (615)
T TIGR00990 334 LNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRA--SMNLEL----GDPDKAEEDFDKALKLNSEDPDIY----Y 403 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHH--HHHHHC----CCHHHHHHHHHHHHHhCCCCHHHH----H
Confidence 456677888888998888887777666555433222111 111111 223333445545544322122222 2
Q ss_pred HHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHH
Q psy4083 121 EARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAA 200 (374)
Q Consensus 121 ~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~ 200 (374)
.+|.+++..|++++|+..+.+.+.. ++ .-.+.+.....++...|++..+...+..+.... ..+| .
T Consensus 404 --~lg~~~~~~g~~~~A~~~~~kal~l-----~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~---P~~~----~ 468 (615)
T TIGR00990 404 --HRAQLHFIKGEFAQAGKDYQKSIDL-----DP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF---PEAP----D 468 (615)
T ss_pred --HHHHHHHHcCCHHHHHHHHHHHHHc-----Cc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCh----H
Confidence 4788899999999999888777631 21 123456677788889999999999999886542 1122 2
Q ss_pred HHHHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 201 LDLQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 201 i~~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
....-|.++. ..++|.+|...|-.+++.
T Consensus 469 ~~~~lg~~~~-~~g~~~~A~~~~~~Al~l 496 (615)
T TIGR00990 469 VYNYYGELLL-DQNKFDEAIEKFDTAIEL 496 (615)
T ss_pred HHHHHHHHHH-HccCHHHHHHHHHHHHhc
Confidence 3345588888 899999999999888654
No 35
>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=96.16 E-value=1 Score=41.21 Aligned_cols=180 Identities=7% Similarity=-0.068 Sum_probs=98.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQS 119 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~ 119 (374)
..+..+..++..|+|+...+.+..+....+.-+- ....--.+-..... .+..+.-++.+.+.++-..++... -...
T Consensus 35 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~--~~~a~~~la~~~~~-~~~~~~A~~~~~~~l~~~p~~~~~-~~a~ 110 (235)
T TIGR03302 35 ELYEEAKEALDSGDYTEAIKYFEALESRYPFSPY--AEQAQLDLAYAYYK-SGDYAEAIAAADRFIRLHPNHPDA-DYAY 110 (235)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchh--HHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHCcCCCch-HHHH
Confidence 4567799999999999998888777666543321 11111111111111 122344455555555433222111 0111
Q ss_pred HHHHHHHHHHhc--------cCHHHHHHHHHHHHHHHHHhccch-----------hHHHHHHHHHHHHHHhCCHHHHHHH
Q psy4083 120 LEARLIALYFDT--------GEYTEALKLSSSLLKELKKLDDKN-----------LLVEVLLLESKTYHALSNLSTSRAS 180 (374)
Q Consensus 120 l~~kLa~~~~~~--------g~~~~Al~~~~~ll~el~~~dd~~-----------~~lev~l~ei~l~~~~~n~~~a~~~ 180 (374)
. .++..+.+. |++++|++.+.++++.-....... ......+....+++..|++..+...
T Consensus 111 ~--~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~ 188 (235)
T TIGR03302 111 Y--LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINR 188 (235)
T ss_pred H--HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence 1 244445443 889999888887764322211000 0011123455678888999999988
Q ss_pred HHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 181 LTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 181 ~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
+..+...- ++...........|..+. ..++|.+|..+|-..-..|
T Consensus 189 ~~~al~~~----p~~~~~~~a~~~l~~~~~-~lg~~~~A~~~~~~l~~~~ 233 (235)
T TIGR03302 189 FETVVENY----PDTPATEEALARLVEAYL-KLGLKDLAQDAAAVLGANY 233 (235)
T ss_pred HHHHHHHC----CCCcchHHHHHHHHHHHH-HcCCHHHHHHHHHHHHhhC
Confidence 88875442 211112334446677788 8899999998765554444
No 36
>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=95.79 E-value=1.2 Score=42.31 Aligned_cols=100 Identities=14% Similarity=0.115 Sum_probs=68.7
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHh---
Q psy4083 35 KAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEE--- 111 (374)
Q Consensus 35 k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~--- 111 (374)
...-++++.-+..+.+.|++....++...+......-........+.++++.+..+|.+.....+++..+|+|.+..
T Consensus 7 ~eAidLL~~Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~rl~~l~~~~~~~~p~r~~fi~~ai~WS~~~~~~ 86 (260)
T PF04190_consen 7 DEAIDLLYSGALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIARLIELISLFPPEEPERKKFIKAAIKWSKFGSYK 86 (260)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHHHHHHHHHS-TT-TTHHHHHHHHHHHHHTSS-T
T ss_pred HHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHccCCCC
Confidence 34457888999999999999999888887777765554444555667777777766765667888999999999411
Q ss_pred -hHHHHHHHHHHHHHHHHHhccCHHHHH
Q psy4083 112 -RRTFLRQSLEARLIALYFDTGEYTEAL 138 (374)
Q Consensus 112 -~r~~lr~~l~~kLa~~~~~~g~~~~Al 138 (374)
|.-.|.+ .+|..|.+.|++.+|.
T Consensus 87 ~Gdp~LH~----~~a~~~~~e~~~~~A~ 110 (260)
T PF04190_consen 87 FGDPELHH----LLAEKLWKEGNYYEAE 110 (260)
T ss_dssp T--HHHHH----HHHHHHHHTT-HHHHH
T ss_pred CCCHHHHH----HHHHHHHhhccHHHHH
Confidence 3333333 4799999999999883
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=95.79 E-value=0.078 Score=39.97 Aligned_cols=65 Identities=22% Similarity=0.226 Sum_probs=54.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDD-KNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd-~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.+|.+|...|+|++|++.+.+.++-.....+ .......+..-..++...|++..|..++.+|.++
T Consensus 10 ~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 10 NLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 5899999999999999999999987444443 3457889999999999999999999999998765
No 38
>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=95.77 E-value=0.12 Score=37.83 Aligned_cols=93 Identities=19% Similarity=0.230 Sum_probs=68.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+...|++++|+..+..+++. .+... .++.....++...+++..+...+..+..... .++ ...
T Consensus 5 ~~a~~~~~~~~~~~A~~~~~~~~~~----~~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~---~~~----~~~ 71 (100)
T cd00189 5 NLGNLYYKLGDYDEALEYYEKALEL----DPDNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDP---DNA----KAY 71 (100)
T ss_pred HHHHHHHHHhcHHHHHHHHHHHHhc----CCccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---cch----hHH
Confidence 5788889999999998777666532 22222 5677788888899999999999988765421 122 445
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
...|.++. ..+++..|...|-.+.+.
T Consensus 72 ~~~~~~~~-~~~~~~~a~~~~~~~~~~ 97 (100)
T cd00189 72 YNLGLAYY-KLGKYEEALEAYEKALEL 97 (100)
T ss_pred HHHHHHHH-HHHhHHHHHHHHHHHHcc
Confidence 56677778 889999999998877653
No 39
>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=95.75 E-value=2 Score=43.49 Aligned_cols=154 Identities=10% Similarity=0.134 Sum_probs=85.7
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhccccCC-ChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc---C---cccc
Q psy4083 163 LESKTYHALSNLSTSRASLTSARTTANSIYC-PPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF---S---TVDH 235 (374)
Q Consensus 163 ~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~-~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f---~---~~~~ 235 (374)
--.|++.-+||+..|...+.-..-...+.+. -|.-.-.+.-+.|-.+| --|+|.+|...|-.+.-.. . ....
T Consensus 127 gLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFayl-MlrRY~DAir~f~~iL~yi~r~k~~~~~~~ 205 (404)
T PF10255_consen 127 GLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYL-MLRRYADAIRTFSQILLYIQRTKNQYHQRS 205 (404)
T ss_pred HHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhhhhcccc
Confidence 3457777788877766444321000000000 01111144567788899 8999999999998884211 1 1111
Q ss_pred h-------hHHHHHHHHHHHHHhcCC--chhHH-----------------------HHHH-------------------H
Q psy4083 236 N-------HAMMSLKYMLLSKIMLNT--PEDVN-----------------------QILS-------------------E 264 (374)
Q Consensus 236 ~-------~~~~~LkY~vL~~iL~~~--~~~v~-----------------------~ll~-------------------~ 264 (374)
. ...+..--+.+|..|+.. ++.+. ++.. .
T Consensus 206 ~q~d~i~K~~eqMyaLlAic~~l~p~~lde~i~~~lkeky~ek~~kmq~gd~~~f~elF~~acPKFIsp~~pp~~~~~~~ 285 (404)
T PF10255_consen 206 YQYDQINKKNEQMYALLAICLSLCPQRLDESISSQLKEKYGEKMEKMQRGDEEAFEELFSFACPKFISPVSPPDYDGPSQ 285 (404)
T ss_pred chhhHHHhHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHhhCCCccCCCCCCCcccccc
Confidence 1 222332334445555433 12111 1111 0
Q ss_pred Hh-cChHHHhhHHHHHHHHH----HHHHHHhhccccceeHHHHHhHhCCChHHHHHHHH
Q psy4083 265 LE-DDTIVKAHIGTLYDNML----EQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLS 318 (374)
Q Consensus 265 l~-~D~~l~~h~~~L~~~ir----e~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~ 318 (374)
-. .||+ ..|++-+.++|. ...|+.|++-|++|+++.+|..++++++++...|.
T Consensus 286 ~~~~e~~-~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 286 NKNKEPY-RRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred hhhhhHH-HHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 11 1443 345555555555 45889999999999999999999999997765554
No 40
>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=95.56 E-value=1.5 Score=38.51 Aligned_cols=160 Identities=16% Similarity=0.092 Sum_probs=95.1
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQS 119 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~ 119 (374)
+...++.++...|++++..+.+.......+..+... ...-..... .+..+.-.+.+...++.... .......
T Consensus 67 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~~-~g~~~~A~~~~~~~~~~~~~--~~~~~~~ 138 (234)
T TIGR02521 67 AYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVL-----NNYGTFLCQ-QGKYEQAMQQFEQAIEDPLY--PQPARSL 138 (234)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHH-----HHHHHHHHH-cccHHHHHHHHHHHHhcccc--ccchHHH
Confidence 456678999999999998888877766654432211 111111111 12223334444444432110 1111122
Q ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhH
Q psy4083 120 LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQA 199 (374)
Q Consensus 120 l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~ 199 (374)
..++..+...|++++|...+.+.+.. +.. ..+.+....+++...+++.++..++.++.... . .++..
T Consensus 139 --~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~--~~~~~-- 205 (234)
T TIGR02521 139 --ENAGLCALKAGDFDKAEKYLTRALQI----DPQ--RPESLLELAELYYLRGQYKDARAYLERYQQTY-N--QTAES-- 205 (234)
T ss_pred --HHHHHHHHHcCCHHHHHHHHHHHHHh----CcC--ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C--CCHHH--
Confidence 24788999999999998877776632 211 13456677889999999999999999887652 1 12222
Q ss_pred HHHHHHHHHhhcccccHHHHHHHH
Q psy4083 200 ALDLQSGILHAADEQDFKTAFSYF 223 (374)
Q Consensus 200 ~i~~~~G~~~~~~~rdy~~A~~~F 223 (374)
....+.++. ..+++..|..++
T Consensus 206 --~~~~~~~~~-~~~~~~~a~~~~ 226 (234)
T TIGR02521 206 --LWLGIRIAR-ALGDVAAAQRYG 226 (234)
T ss_pred --HHHHHHHHH-HHhhHHHHHHHH
Confidence 224566667 778888877653
No 41
>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=95.55 E-value=0.027 Score=50.91 Aligned_cols=73 Identities=19% Similarity=0.307 Sum_probs=41.5
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHH
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKV 362 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~ 362 (374)
..++.|++.=+.|.|+.||..||++.+++-+.|-.|..+|.|.|.||.-...|++.... +.++.+.|+.-+++
T Consensus 102 ~~Fi~yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~eE-----~~~va~fi~~rGRv 174 (188)
T PF09756_consen 102 QEFINYIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISEEE-----MEAVAKFIKQRGRV 174 (188)
T ss_dssp HHHHHHHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE------------------------
T ss_pred HHHHHHHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecHHH-----HHHHHHHHHHcCCc
Confidence 44556777789999999999999999999999999999999999999977777774332 34445555555555
No 42
>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=95.32 E-value=2.2 Score=38.96 Aligned_cols=133 Identities=14% Similarity=0.187 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhH--------------------------HHHHHHHHHHHHhhcccc
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKA--------------------------KAAKLVRSLVDFFLDLET 92 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~--------------------------~~~k~i~~ild~~~~~~~ 92 (374)
++.+.++..+++.|+|++..+.+..+....+.-+.. .+.+..+++++.. |+
T Consensus 71 ~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---p~ 147 (235)
T TIGR03302 71 QAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY---PN 147 (235)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC---CC
Confidence 456788999999999999999998887766533221 1122223333222 22
Q ss_pred chhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhC
Q psy4083 93 RTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALS 172 (374)
Q Consensus 93 ~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~ 172 (374)
+... ...+ ..+.+..+ ..-.... .+|.+|+..|++.+|+..+.+++... .+.....+......+.+...|
T Consensus 148 ~~~~-~~a~-~~~~~~~~---~~~~~~~--~~a~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~a~~~l~~~~~~lg 217 (235)
T TIGR03302 148 SEYA-PDAK-KRMDYLRN---RLAGKEL--YVARFYLKRGAYVAAINRFETVVENY---PDTPATEEALARLVEAYLKLG 217 (235)
T ss_pred ChhH-HHHH-HHHHHHHH---HHHHHHH--HHHHHHHHcCChHHHHHHHHHHHHHC---CCCcchHHHHHHHHHHHHHcC
Confidence 1110 0001 11111110 0011122 57899999999999988887776431 123455778888899999999
Q ss_pred CHHHHHHHHHHH
Q psy4083 173 NLSTSRASLTSA 184 (374)
Q Consensus 173 n~~~a~~~~~~a 184 (374)
++..+..++...
T Consensus 218 ~~~~A~~~~~~l 229 (235)
T TIGR03302 218 LKDLAQDAAAVL 229 (235)
T ss_pred CHHHHHHHHHHH
Confidence 999999887664
No 43
>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=95.29 E-value=0.91 Score=45.81 Aligned_cols=91 Identities=19% Similarity=0.162 Sum_probs=60.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHh-ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKL-DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~-dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
.++..+.+.|++++|.+.+.+.++ +. ++....+. +...-.....+|...+...++++.+.. ..+|. +.+
T Consensus 268 ~~a~~l~~~g~~~~A~~~l~~~l~---~~pd~~~~~~~--~l~~~~~l~~~~~~~~~~~~e~~lk~~---p~~~~--~~l 337 (409)
T TIGR00540 268 ALAEHLIDCDDHDSAQEIIFDGLK---KLGDDRAISLP--LCLPIPRLKPEDNEKLEKLIEKQAKNV---DDKPK--CCI 337 (409)
T ss_pred HHHHHHHHCCChHHHHHHHHHHHh---hCCCcccchhH--HHHHhhhcCCCChHHHHHHHHHHHHhC---CCChh--HHH
Confidence 578889999999999887776663 32 22221111 222222233567888888887776542 13443 456
Q ss_pred HHHHHHHhhcccccHHHHHHHHH
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFY 224 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~ 224 (374)
....|.+++ ..++|.+|..+|-
T Consensus 338 l~sLg~l~~-~~~~~~~A~~~le 359 (409)
T TIGR00540 338 NRALGQLLM-KHGEFIEAADAFK 359 (409)
T ss_pred HHHHHHHHH-HcccHHHHHHHHH
Confidence 677888899 9999999999776
No 44
>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=95.07 E-value=6 Score=42.49 Aligned_cols=95 Identities=15% Similarity=0.053 Sum_probs=58.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++..+...|++++|++.+.++++. .. .-.+.+.....++...+++..+..++....... ..+ ....
T Consensus 640 ~l~~~~~~~~~~~~A~~~~~~~~~~----~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~----~~~~ 706 (899)
T TIGR02917 640 LLADAYAVMKNYAKAITSLKRALEL----KP--DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH---PKA----ALGF 706 (899)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhc----CC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---cCC----hHHH
Confidence 4666777777777776666555421 11 112445555666677777777776666553321 111 2334
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
...|.++. ..++|..|...|-.++....
T Consensus 707 ~~~~~~~~-~~g~~~~A~~~~~~~~~~~~ 734 (899)
T TIGR02917 707 ELEGDLYL-RQKDYPAAIQAYRKALKRAP 734 (899)
T ss_pred HHHHHHHH-HCCCHHHHHHHHHHHHhhCC
Confidence 55677788 88999999999988876543
No 45
>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=95.03 E-value=0.032 Score=48.01 Aligned_cols=50 Identities=22% Similarity=0.257 Sum_probs=39.5
Q ss_pred HHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 271 VKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 271 l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
+...+..+.+.+|+....-+...|++|+++.+|+.||++.+++++.+.+.
T Consensus 72 ~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~ 121 (143)
T PF10075_consen 72 YKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSR 121 (143)
T ss_dssp HHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHc
Confidence 34445667899999999999999999999999999999977777666654
No 46
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=94.98 E-value=0.25 Score=43.16 Aligned_cols=106 Identities=16% Similarity=-0.005 Sum_probs=76.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+...|++++|+..+.+.+... .+.......+.....++...+++..+..++.+|..+...........+.+.
T Consensus 40 ~~g~~~~~~g~~~~A~~~~~~al~l~---~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~ 116 (168)
T CHL00033 40 RDGMSAQSEGEYAEALQNYYEAMRLE---IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVIC 116 (168)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhcc---ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence 46778888999999998887776421 122223446777788899999999999999998776422212234556677
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
...|.... ..++|..|..+|-+++..|..
T Consensus 117 ~~~~~~~~-~~g~~~~A~~~~~~a~~~~~~ 145 (168)
T CHL00033 117 HYRGEQAI-EQGDSEIAEAWFDQAAEYWKQ 145 (168)
T ss_pred HHhhHHHH-HcccHHHHHHHHHHHHHHHHH
Confidence 77777777 789999888888887766554
No 47
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=94.95 E-value=0.25 Score=43.51 Aligned_cols=105 Identities=20% Similarity=0.064 Sum_probs=67.4
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+...|++++|+..+.+.+..- .+.......+.....++...|++.++..++.++..............+.+.
T Consensus 40 ~lg~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~ 116 (172)
T PRK02603 40 RDGMSAQADGEYAEALENYEEALKLE---EDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY 116 (172)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHh---hccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence 46888999999999998888776421 122233567788889999999999999999998765311101111223344
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
...|.... ..+++..|...|-++.+.|.
T Consensus 117 ~~~g~~~~-a~~~~~~A~~~~~~A~~~~~ 144 (172)
T PRK02603 117 HKRGEKAE-EAGDQDEAEALFDKAAEYWK 144 (172)
T ss_pred HHcCChHh-HhhCHHHHHHHHHHHHHHHH
Confidence 44444444 45667666666666544443
No 48
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=94.90 E-value=1.5 Score=47.16 Aligned_cols=22 Identities=18% Similarity=0.102 Sum_probs=12.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll 145 (374)
++.++...|++++|+..+..++
T Consensus 199 ~~~~~~~~g~~~~A~~~~~~a~ 220 (899)
T TIGR02917 199 KGDLLLSLGNIELALAAYRKAI 220 (899)
T ss_pred HHHHHHhcCCHHHHHHHHHHHH
Confidence 4555666666666655555443
No 49
>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=94.71 E-value=0.06 Score=40.42 Aligned_cols=49 Identities=18% Similarity=0.186 Sum_probs=39.0
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCC
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGE 334 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~ 334 (374)
.|.++++--.++++..||..|++|++.||..|..||.-|+|.-.-+...
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~~ 52 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSSC 52 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE--
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCCC
Confidence 5677888889999999999999999999999999999999985444443
No 50
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.71 E-value=2 Score=40.17 Aligned_cols=121 Identities=18% Similarity=0.202 Sum_probs=86.0
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
.+++ .||--|++.||+..|.+-+.+.|+ .|.+. ...++....+|...|....+...|++|.+. +|.
T Consensus 36 ~arl--qLal~YL~~gd~~~A~~nlekAL~----~DPs~--~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl------~p~ 101 (250)
T COG3063 36 KARL--QLALGYLQQGDYAQAKKNLEKALE----HDPSY--YLAHLVRAHYYQKLGENDLADESYRKALSL------APN 101 (250)
T ss_pred HHHH--HHHHHHHHCCCHHHHHHHHHHHHH----hCccc--HHHHHHHHHHHHHcCChhhHHHHHHHHHhc------CCC
Confidence 5666 588789999999999777766663 23332 345667778899999999999999999765 344
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCch
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPE 256 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~ 256 (374)
--..+.-+|+-+ + ..+.|.+|...|-.|.....- +.+ -..+-..++|++=.+.+.
T Consensus 102 ~GdVLNNYG~FL-C-~qg~~~eA~q~F~~Al~~P~Y-~~~--s~t~eN~G~Cal~~gq~~ 156 (250)
T COG3063 102 NGDVLNNYGAFL-C-AQGRPEEAMQQFERALADPAY-GEP--SDTLENLGLCALKAGQFD 156 (250)
T ss_pred ccchhhhhhHHH-H-hCCChHHHHHHHHHHHhCCCC-CCc--chhhhhhHHHHhhcCCch
Confidence 444555566654 3 689999999999999654321 211 134567899988666544
No 51
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=94.60 E-value=2.1 Score=43.13 Aligned_cols=89 Identities=17% Similarity=0.072 Sum_probs=58.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++..+...|+.++|.+.+.+.++ +..+. .++. .......+|..++...+....+.. ..+| .+.
T Consensus 268 ~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~-~l~~-----l~~~l~~~~~~~al~~~e~~lk~~---P~~~----~l~ 331 (398)
T PRK10747 268 AMAEHLIECDDHDTAQQIILDGLK---RQYDE-RLVL-----LIPRLKTNNPEQLEKVLRQQIKQH---GDTP----LLW 331 (398)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHh---cCCCH-HHHH-----HHhhccCCChHHHHHHHHHHHhhC---CCCH----HHH
Confidence 578899999999999877766653 22222 2221 222234478787776665543221 1222 466
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.+-|.+++ ..++|.+|..+|-.+.+
T Consensus 332 l~lgrl~~-~~~~~~~A~~~le~al~ 356 (398)
T PRK10747 332 STLGQLLM-KHGEWQEASLAFRAALK 356 (398)
T ss_pred HHHHHHHH-HCCCHHHHHHHHHHHHh
Confidence 78899999 99999999999988865
No 52
>KOG2003|consensus
Probab=94.54 E-value=2.1 Score=43.62 Aligned_cols=175 Identities=13% Similarity=0.188 Sum_probs=101.6
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHH--HHHHHhhccccchhhhHHHHHHHHHHHHHhh
Q psy4083 35 KAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVR--SLVDFFLDLETRTGMEVALCKECIEWAKEER 112 (374)
Q Consensus 35 k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~--~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~ 112 (374)
-++-+++++|+-.+-..|+.++.++++. ++++.+ .+.++-+++ +|-+.+. + .. .+|+|-..-+
T Consensus 521 asc~ealfniglt~e~~~~ldeald~f~---klh~il-~nn~evl~qianiye~le---d-~a-------qaie~~~q~~ 585 (840)
T KOG2003|consen 521 ASCTEALFNIGLTAEALGNLDEALDCFL---KLHAIL-LNNAEVLVQIANIYELLE---D-PA-------QAIELLMQAN 585 (840)
T ss_pred hHHHHHHHHhcccHHHhcCHHHHHHHHH---HHHHHH-HhhHHHHHHHHHHHHHhh---C-HH-------HHHHHHHHhc
Confidence 3677889999999999999999866654 444444 555554433 3333331 2 22 2333322110
Q ss_pred HHHH---HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh-ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 113 RTFL---RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL-DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 113 r~~l---r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~-dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
..+ -+-| .+|+++|-+.||...|..+.-+-. ++ -..-+.+| --.-+|+..+=+.++-.|+++|.-+.
T Consensus 586 -slip~dp~il-skl~dlydqegdksqafq~~ydsy----ryfp~nie~ie---wl~ayyidtqf~ekai~y~ekaaliq 656 (840)
T KOG2003|consen 586 -SLIPNDPAIL-SKLADLYDQEGDKSQAFQCHYDSY----RYFPCNIETIE---WLAAYYIDTQFSEKAINYFEKAALIQ 656 (840)
T ss_pred -ccCCCCHHHH-HHHHHHhhcccchhhhhhhhhhcc----cccCcchHHHH---HHHHHHHhhHHHHHHHHHHHHHHhcC
Confidence 111 2333 389999999999999965432111 11 11223333 23455666777888999999874332
Q ss_pred cccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHH
Q psy4083 189 NSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYML 246 (374)
Q Consensus 189 ~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~v 246 (374)
.. ...|.+ .+-.|- - ..|+|.+|+..+-+.-+.| |+.++||+++|
T Consensus 657 p~-~~kwql--miasc~----r-rsgnyqka~d~yk~~hrkf-----pedldclkflv 701 (840)
T KOG2003|consen 657 PN-QSKWQL--MIASCF----R-RSGNYQKAFDLYKDIHRKF-----PEDLDCLKFLV 701 (840)
T ss_pred cc-HHHHHH--HHHHHH----H-hcccHHHHHHHHHHHHHhC-----ccchHHHHHHH
Confidence 10 111222 222221 2 5799999999888876555 55678898876
No 53
>KOG2003|consensus
Probab=94.36 E-value=2.8 Score=42.84 Aligned_cols=167 Identities=19% Similarity=0.314 Sum_probs=95.3
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHH-HHHHHHHHHHHhCCHHH
Q psy4083 98 VALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVE-VLLLESKTYHALSNLST 176 (374)
Q Consensus 98 ~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~le-v~l~ei~l~~~~~n~~~ 176 (374)
.+-|.|.++.. ...-|-..|+...+--|+..||++.|++ +|+.+.+-|.+...-- --|+-.+..---+++..
T Consensus 402 ~dwcle~lk~s---~~~~la~dlei~ka~~~lk~~d~~~aie----ilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~ 474 (840)
T KOG2003|consen 402 CDWCLESLKAS---QHAELAIDLEINKAGELLKNGDIEGAIE----ILKVFEKKDNKTASAAANNLCALRFLQGGKDFAD 474 (840)
T ss_pred cHHHHHHHHHh---hhhhhhhhhhhhHHHHHHhccCHHHHHH----HHHHHHhccchhhHHHhhhhHHHHHHhcccchhH
Confidence 44444444432 2456666777788888999999999954 5555555444321111 11111222222448999
Q ss_pred HHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc--------------ccc-hhHHHH
Q psy4083 177 SRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST--------------VDH-NHAMMS 241 (374)
Q Consensus 177 a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~--------------~~~-~~~~~~ 241 (374)
+.+|-..|..+.. |.+..+. -.|-+.+ ..|||.+|+..+-|++.+=.+ .+. .++++|
T Consensus 475 aqqyad~aln~dr--yn~~a~~-----nkgn~~f-~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~ 546 (840)
T KOG2003|consen 475 AQQYADIALNIDR--YNAAALT-----NKGNIAF-ANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDC 546 (840)
T ss_pred HHHHHHHHhcccc--cCHHHhh-----cCCceee-ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHH
Confidence 9988888765531 2222221 2244455 689999999999999765322 122 445555
Q ss_pred HHHHHHHHHhcCCchhH------HHHHH--------------HHhcChHHHhhHHHHHHH
Q psy4083 242 LKYMLLSKIMLNTPEDV------NQILS--------------ELEDDTIVKAHIGTLYDN 281 (374)
Q Consensus 242 LkY~vL~~iL~~~~~~v------~~ll~--------------~l~~D~~l~~h~~~L~~~ 281 (374)
++-|-.||.|+.+.+ .+++. .+-.||-+-..+.+||++
T Consensus 547 --f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ilskl~dlydq 604 (840)
T KOG2003|consen 547 --FLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQ 604 (840)
T ss_pred --HHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhc
Confidence 445566777664422 12221 355677776667777664
No 54
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=94.36 E-value=3.4 Score=38.83 Aligned_cols=137 Identities=16% Similarity=0.193 Sum_probs=83.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHH---------HHHhhccccch-hh-----hHHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSL---------VDFFLDLETRT-GM-----EVALCKE 103 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~i---------ld~~~~~~~~~-~~-----~~~l~~e 103 (374)
++.+.++..+++.|+|++....+..+....|.-++..-+--+..+ ++....++... +. -++.+.+
T Consensus 70 ~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~ 149 (243)
T PRK10866 70 QVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSK 149 (243)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHH
Confidence 456788999999999999999998888888766654322222221 12221111100 00 0122222
Q ss_pred HHH---------HHHHhhH-HHH-----HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH
Q psy4083 104 CIE---------WAKEERR-TFL-----RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTY 168 (374)
Q Consensus 104 ~i~---------~~~~~~r-~~l-----r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~ 168 (374)
.|+ .++ .| ..+ ++.+ ..|++|++.|.|..|+.-+..++. ..-+....-|.....+..|
T Consensus 150 li~~yP~S~ya~~A~--~rl~~l~~~la~~e~--~ia~~Y~~~~~y~AA~~r~~~v~~---~Yp~t~~~~eal~~l~~ay 222 (243)
T PRK10866 150 LVRGYPNSQYTTDAT--KRLVFLKDRLAKYEL--SVAEYYTKRGAYVAVVNRVEQMLR---DYPDTQATRDALPLMENAY 222 (243)
T ss_pred HHHHCcCChhHHHHH--HHHHHHHHHHHHHHH--HHHHHHHHcCchHHHHHHHHHHHH---HCCCCchHHHHHHHHHHHH
Confidence 222 111 11 122 3333 578899999999999888887774 3334556667777778888
Q ss_pred HHhCCHHHHHHHHH
Q psy4083 169 HALSNLSTSRASLT 182 (374)
Q Consensus 169 ~~~~n~~~a~~~~~ 182 (374)
..+|....++....
T Consensus 223 ~~lg~~~~a~~~~~ 236 (243)
T PRK10866 223 RQLQLNAQADKVAK 236 (243)
T ss_pred HHcCChHHHHHHHH
Confidence 89998888876553
No 55
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=94.33 E-value=0.32 Score=35.18 Aligned_cols=59 Identities=19% Similarity=0.161 Sum_probs=48.5
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.+|..+++.|+|++|++.+..+++ ....-.+..+..-.++...|++..+..++..+...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~------~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALK------QDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHC------CSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHH------HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 478899999999999888877763 23446788888999999999999999999988654
No 56
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=94.00 E-value=3.2 Score=40.70 Aligned_cols=69 Identities=23% Similarity=0.309 Sum_probs=53.5
Q ss_pred hHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 112 RRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 112 ~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
+..=+|+.+ -|++++...|+|+.|.+.+..+++ -++.++=|+.-.-...|..+|........+..+...
T Consensus 210 ~~~cvRAsi--~lG~v~~~~g~y~~AV~~~e~v~e-----Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~ 278 (389)
T COG2956 210 DKKCVRASI--ILGRVELAKGDYQKAVEALERVLE-----QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET 278 (389)
T ss_pred Cccceehhh--hhhHHHHhccchHHHHHHHHHHHH-----hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence 345557777 799999999999999999998875 355566666666677788889888888888776554
No 57
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=93.93 E-value=0.58 Score=35.83 Aligned_cols=84 Identities=17% Similarity=0.145 Sum_probs=57.0
Q ss_pred hccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHh
Q psy4083 130 DTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILH 209 (374)
Q Consensus 130 ~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~ 209 (374)
+.|+|++|+..+.+++..- +....-++.+...+.++..+++.+|-.++.+ ... +|.. .......|..+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~----~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~------~~~~-~~~~~l~a~~~ 68 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELD----PTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL------DPSN-PDIHYLLARCL 68 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHH----CGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH------HHCH-HHHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHC----CCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC------CCCC-HHHHHHHHHHH
Confidence 4689999999888887532 2122444666688999999999999988876 222 1211 23333458888
Q ss_pred hcccccHHHHHHHHHHh
Q psy4083 210 AADEQDFKTAFSYFYEA 226 (374)
Q Consensus 210 ~~~~rdy~~A~~~F~ea 226 (374)
+ ..++|.+|...|-++
T Consensus 69 ~-~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 69 L-KLGKYEEAIKALEKA 84 (84)
T ss_dssp H-HTT-HHHHHHHHHHH
T ss_pred H-HhCCHHHHHHHHhcC
Confidence 8 999999999888653
No 58
>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=93.86 E-value=0.74 Score=38.09 Aligned_cols=94 Identities=18% Similarity=0.093 Sum_probs=68.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++..++..|++++|+..+..++. .++. -.+++..-...+...++++.+...+..+.... |.- ....
T Consensus 22 ~~a~~~~~~~~~~~A~~~~~~~~~----~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~------p~~-~~~~ 88 (135)
T TIGR02552 22 ALAYNLYQQGRYDEALKLFQLLAA----YDPY--NSRYWLGLAACCQMLKEYEEAIDAYALAAALD------PDD-PRPY 88 (135)
T ss_pred HHHHHHHHcccHHHHHHHHHHHHH----hCCC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC------CCC-hHHH
Confidence 578889999999999877766543 2222 23566667788889999999999998876542 221 2334
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
..-|.++. ..++|..|...|-.+.+..
T Consensus 89 ~~la~~~~-~~g~~~~A~~~~~~al~~~ 115 (135)
T TIGR02552 89 FHAAECLL-ALGEPESALKALDLAIEIC 115 (135)
T ss_pred HHHHHHHH-HcCCHHHHHHHHHHHHHhc
Confidence 55678888 8999999999998886643
No 59
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=93.85 E-value=4.2 Score=44.61 Aligned_cols=97 Identities=10% Similarity=-0.002 Sum_probs=74.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++.++...|++++|++.+.+++. . .+.. .++.+....++...+++..+...+.++.... |.-. .+.
T Consensus 364 ~~a~~l~~~g~~~eA~~~l~~al~----~-~P~n-~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~------Pd~~-~l~ 430 (765)
T PRK10049 364 LLSQVAKYSNDLPQAEMRARELAY----N-APGN-QGLRIDYASVLQARGWPRAAENELKKAEVLE------PRNI-NLE 430 (765)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH----h-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC------CCCh-HHH
Confidence 588899999999999877766653 2 2222 5788888999999999999999999987652 3222 256
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
...|...+ ..++|..|-..+=+..+.+.+.
T Consensus 431 ~~~a~~al-~~~~~~~A~~~~~~ll~~~Pd~ 460 (765)
T PRK10049 431 VEQAWTAL-DLQEWRQMDVLTDDVVAREPQD 460 (765)
T ss_pred HHHHHHHH-HhCCHHHHHHHHHHHHHhCCCC
Confidence 67777888 8999999999988887766543
No 60
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=93.36 E-value=5.3 Score=36.17 Aligned_cols=96 Identities=15% Similarity=0.105 Sum_probs=67.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHH-HHHhCC--HHHHHHHHHHHHhhccccCCChhhhH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKT-YHALSN--LSTSRASLTSARTTANSIYCPPKMQA 199 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l-~~~~~n--~~~a~~~~~~a~~~~~~~~~~~~~~~ 199 (374)
.||.+|...|++++|+..+.+.++ .+.. ..+++..-..+ +...++ ...+...+.++..... .++
T Consensus 78 ~Lg~~~~~~g~~~~A~~a~~~Al~----l~P~--~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP---~~~---- 144 (198)
T PRK10370 78 LLGEYYLWRNDYDNALLAYRQALQ----LRGE--NAELYAALATVLYYQAGQHMTPQTREMIDKALALDA---NEV---- 144 (198)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH----hCCC--CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC---CCh----
Confidence 588899999999999888877763 2222 23455555554 455565 5899999999876531 222
Q ss_pred HHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 200 ALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 200 ~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
.....-|..++ ..++|.+|...|-.+.+.-..
T Consensus 145 ~al~~LA~~~~-~~g~~~~Ai~~~~~aL~l~~~ 176 (198)
T PRK10370 145 TALMLLASDAF-MQADYAQAIELWQKVLDLNSP 176 (198)
T ss_pred hHHHHHHHHHH-HcCCHHHHHHHHHHHHhhCCC
Confidence 33456688888 999999999999888765443
No 61
>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=93.18 E-value=0.45 Score=34.69 Aligned_cols=59 Identities=22% Similarity=0.319 Sum_probs=48.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHhh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALS-NLSTSRASLTSARTT 187 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~-n~~~a~~~~~~a~~~ 187 (374)
.+|..++..|+|++|+..+.+.++ .++. -.+++.....++...+ ++.++...+.+|.++
T Consensus 8 ~~g~~~~~~~~~~~A~~~~~~ai~-----~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 8 NLGQIYFQQGDYEEAIEYFEKAIE-----LDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp HHHHHHHHTTHHHHHHHHHHHHHH-----HSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH-----cCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 478899999999999999888874 2332 3568888999999999 799999999998765
No 62
>KOG1125|consensus
Probab=93.17 E-value=4.9 Score=42.01 Aligned_cols=95 Identities=20% Similarity=0.214 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHhhccccCCChh
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSN-LSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n-~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
..++.-|+-+|+-.|+|++|..|++..|+. ....++ .-...-...+.+| ...|-.+|++|..+. |.-
T Consensus 430 pdvQ~~LGVLy~ls~efdraiDcf~~AL~v----~Pnd~~---lWNRLGAtLAN~~~s~EAIsAY~rALqLq-----P~y 497 (579)
T KOG1125|consen 430 PDVQSGLGVLYNLSGEFDRAVDCFEAALQV----KPNDYL---LWNRLGATLANGNRSEEAISAYNRALQLQ-----PGY 497 (579)
T ss_pred hhHHhhhHHHHhcchHHHHHHHHHHHHHhc----CCchHH---HHHHhhHHhcCCcccHHHHHHHHHHHhcC-----CCe
Confidence 345667899999999999999999888752 111111 1122222223333 555888899998763 555
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
++.++ -.|+-+| -.|.|++|+.+|++++
T Consensus 498 VR~Ry--NlgIS~m-NlG~ykEA~~hlL~AL 525 (579)
T KOG1125|consen 498 VRVRY--NLGISCM-NLGAYKEAVKHLLEAL 525 (579)
T ss_pred eeeeh--hhhhhhh-hhhhHHHHHHHHHHHH
Confidence 65555 4588888 9999999999999995
No 63
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=93.07 E-value=8.6 Score=44.27 Aligned_cols=56 Identities=20% Similarity=0.177 Sum_probs=33.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
.||.++.+.|++++|+..+.+++.. +.. -.+..+...+++...+++..|...+..+
T Consensus 608 ~La~~~~~~g~~~~A~~~y~~al~~----~P~--~~~a~~~la~~~~~~g~~~eA~~~l~~l 663 (1157)
T PRK11447 608 TLADWAQQRGDYAAARAAYQRVLTR----EPG--NADARLGLIEVDIAQGDLAAARAQLAKL 663 (1157)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHh----CCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 5788888889999998888777642 111 1234444445555555555555555544
No 64
>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=93.06 E-value=0.54 Score=35.24 Aligned_cols=70 Identities=13% Similarity=0.090 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh-hhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 157 LVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK-MQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 157 ~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~-~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...++.....+|...|++.+|..++.+|.++. ...++.. ..+...-..|.++. ..++|.+|..+|-+|++
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~lg~~~~-~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIE-EQLGDDHPDTANTLNNLGECYY-RLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTTHHHHHHHHHHHHHHHHH-HTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHHH-HcCCHHHHHHHHHHHHh
Confidence 34566777889999999999999999998883 4445433 34777788888888 99999999999988864
No 65
>KOG3081|consensus
Probab=92.56 E-value=4.1 Score=38.92 Aligned_cols=116 Identities=17% Similarity=0.223 Sum_probs=69.2
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccc-------------c
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANS-------------I 191 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~-------------~ 191 (374)
|.+|...|++++|++.... ..-+|..++.+++.++..-+.-++..+.+...+.+- +
T Consensus 115 a~i~~~~~~~deAl~~~~~-----------~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la 183 (299)
T KOG3081|consen 115 AIIYMHDGDFDEALKALHL-----------GENLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLA 183 (299)
T ss_pred hHHhhcCCChHHHHHHHhc-----------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh
Confidence 4578899999999765422 355777777777777766655555555444332211 1
Q ss_pred CCChhhhHHH---HHHHH-------------HHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCc
Q psy4083 192 YCPPKMQAAL---DLQSG-------------ILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTP 255 (374)
Q Consensus 192 ~~~~~~~~~i---~~~~G-------------~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~ 255 (374)
.+..+++..+ -+.++ ..|+ +.++|..|-+..-++...+.. .-.+|-.+++|+.+.+.|
T Consensus 184 ~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l-~~~~~eeAe~lL~eaL~kd~~-----dpetL~Nliv~a~~~Gkd 257 (299)
T KOG3081|consen 184 TGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHL-QLGRYEEAESLLEEALDKDAK-----DPETLANLIVLALHLGKD 257 (299)
T ss_pred ccchhhhhHHHHHHHHhcccCCChHHHccHHHHHH-HhcCHHHHHHHHHHHHhccCC-----CHHHHHHHHHHHHHhCCC
Confidence 1122233322 22222 2567 788888888888888664432 235566777787777665
Q ss_pred hh
Q psy4083 256 ED 257 (374)
Q Consensus 256 ~~ 257 (374)
.+
T Consensus 258 ~~ 259 (299)
T KOG3081|consen 258 AE 259 (299)
T ss_pred hH
Confidence 43
No 66
>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=92.34 E-value=0.17 Score=40.84 Aligned_cols=38 Identities=24% Similarity=0.282 Sum_probs=35.0
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecC
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQ 332 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~ 332 (374)
.=|.++.|++.|+++.++|++.|-.|+.+|.|+-.||.
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 35999999999999999999999999999999999995
No 67
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=92.28 E-value=8.5 Score=34.83 Aligned_cols=164 Identities=16% Similarity=0.176 Sum_probs=90.9
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 38 EQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 38 e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
.+.++..+..+++.|+|++..+.++.+....+.- +- .. +
T Consensus 5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s-------------------~~--a~--------------~------ 43 (203)
T PF13525_consen 5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNS-------------------PY--AP--------------Q------ 43 (203)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTS-------------------TT--HH--------------H------
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCC-------------------hH--HH--------------H------
Confidence 3567888999999999999866666555443322 11 00 0
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHH--------hCCHHHHHHHHHHHHhhcc
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHA--------LSNLSTSRASLTSARTTAN 189 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~--------~~n~~~a~~~~~~a~~~~~ 189 (374)
+.+ .+|..++..|+|.+|...+.+.++....... .=+........++. ..|...++..+...+.+.+
T Consensus 44 A~l--~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~---~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~ 118 (203)
T PF13525_consen 44 AQL--MLAYAYYKQGDYEEAIAAYERFIKLYPNSPK---ADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIK 118 (203)
T ss_dssp HHH--HHHHHHHHTT-HHHHHHHHHHHHHH-TT-TT---HHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHH
T ss_pred HHH--HHHHHHHHcCCHHHHHHHHHHHHHHCCCCcc---hhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHH
Confidence 111 4677888999999998888888765444321 11111111111111 3444555544444443332
Q ss_pred ccCCChh-----------hhHHH---HHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHh
Q psy4083 190 SIYCPPK-----------MQAAL---DLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIM 251 (374)
Q Consensus 190 ~~~~~~~-----------~~~~i---~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL 251 (374)
. +|+.. ++.++ ....|..++ ..+.|..|...|-..+++|... +....++.+++-+-..
T Consensus 119 ~-yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~-~~~~y~aA~~r~~~v~~~yp~t--~~~~~al~~l~~~y~~ 190 (203)
T PF13525_consen 119 R-YPNSEYAEEAKKRLAELRNRLAEHELYIARFYY-KRGKYKAAIIRFQYVIENYPDT--PAAEEALARLAEAYYK 190 (203)
T ss_dssp H--TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHH-CTT-HHHHHHHHHHHHHHSTTS--HHHHHHHHHHHHHHHH
T ss_pred H-CcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HcccHHHHHHHHHHHHHHCCCC--chHHHHHHHHHHHHHH
Confidence 2 23321 11122 344588899 9999999999999999999754 4445566676666433
No 68
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=92.10 E-value=1.5 Score=43.59 Aligned_cols=93 Identities=16% Similarity=0.155 Sum_probs=70.3
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
..|.-.+..|+|++|+..+.+.++. +.. -.+.+.....++...+++..|...+.+|.... |.. ....
T Consensus 7 ~~a~~a~~~~~~~~Ai~~~~~Al~~----~P~--~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~------P~~-~~a~ 73 (356)
T PLN03088 7 DKAKEAFVDDDFALAVDLYTQAIDL----DPN--NAELYADRAQANIKLGNFTEAVADANKAIELD------PSL-AKAY 73 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHh----CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------cCC-HHHH
Confidence 4566778889999999988888741 221 23577888899999999999999999987653 211 2334
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
...|.+++ ..|+|..|...|-.+.+-
T Consensus 74 ~~lg~~~~-~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 74 LRKGTACM-KLEEYQTAKAALEKGASL 99 (356)
T ss_pred HHHHHHHH-HhCCHHHHHHHHHHHHHh
Confidence 45688888 899999999999888653
No 69
>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=92.02 E-value=0.46 Score=34.27 Aligned_cols=53 Identities=11% Similarity=0.265 Sum_probs=43.9
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
|...|+.+++.-..++++.+|+.||+|+.-+.+.|..|-..|. |.+..|-+..
T Consensus 1 R~~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~----i~r~~GG~~~ 53 (57)
T PF08220_consen 1 RQQQILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGL----IKRTHGGAVL 53 (57)
T ss_pred CHHHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCC----EEEEcCEEEe
Confidence 3466788888889999999999999999999999999999986 4455554444
No 70
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=92.00 E-value=2.1 Score=36.64 Aligned_cols=92 Identities=16% Similarity=0.062 Sum_probs=69.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+...|++++|+..+..++. -...-.+.+.....++...|++..|...|.++..... .++ ...
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~------~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p---~~~----~a~ 95 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVM------AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA---SHP----EPV 95 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH------cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCc----HHH
Confidence 367788999999999888777652 2223457778888899999999999999999876531 222 233
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...|..+. ..|++.+|...|-.+.+
T Consensus 96 ~~lg~~l~-~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 96 YQTGVCLK-MMGEPGLAREAFQTAIK 120 (144)
T ss_pred HHHHHHHH-HcCCHHHHHHHHHHHHH
Confidence 45577777 88999999999998865
No 71
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=92.00 E-value=11 Score=43.35 Aligned_cols=97 Identities=14% Similarity=0.089 Sum_probs=61.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh-hhhH---
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPP-KMQA--- 199 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~-~~~~--- 199 (374)
++..+...|++++|+..+.+.++. +.. -.+.+..-..++...+++..|..++.++....... .+. ....
T Consensus 275 ~G~~~~~~g~~~~A~~~l~~aL~~----~P~--~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~-~~~~~~~~ll~ 347 (1157)
T PRK11447 275 QGLAAVDSGQGGKAIPELQQAVRA----NPK--DSEALGALGQAYSQQGDRARAVAQFEKALALDPHS-SNRDKWESLLK 347 (1157)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHh----CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-cchhHHHHHHH
Confidence 577888999999998888777642 111 13566677788999999999999999987653111 110 1111
Q ss_pred --HH--HHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 200 --AL--DLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 200 --~i--~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.+ ....|..++ ..++|..|...|-.+.+
T Consensus 348 ~~~~~~~~~~g~~~~-~~g~~~eA~~~~~~Al~ 379 (1157)
T PRK11447 348 VNRYWLLIQQGDAAL-KANNLAQAERLYQQARQ 379 (1157)
T ss_pred hhhHHHHHHHHHHHH-HCCCHHHHHHHHHHHHH
Confidence 11 122355555 66666666666666544
No 72
>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=91.92 E-value=10 Score=36.63 Aligned_cols=163 Identities=11% Similarity=0.046 Sum_probs=96.1
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHH-HHhhHHHHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWA-KEERRTFLRQSLEAR 123 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~-~~~~r~~lr~~l~~k 123 (374)
+-.++..|+++...+.+.......|.-. ..-.+ .+..+.. +..........+.++.. ......+.-.. .
T Consensus 50 a~~~~~~g~~~~A~~~~~~~l~~~P~~~---~a~~~--~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~---~ 119 (355)
T cd05804 50 ALSAWIAGDLPKALALLEQLLDDYPRDL---LALKL--HLGAFGL--GDFSGMRDHVARVLPLWAPENPDYWYLLG---M 119 (355)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHCCCcH---HHHHH--hHHHHHh--cccccCchhHHHHHhccCcCCCCcHHHHH---H
Confidence 5677888999998777776665544332 11111 1111100 00011111122222211 11112222222 3
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
++.++...|++++|...+.+.+. ..... ...+..-..++...|++..+..++.++..... .+|........
T Consensus 120 ~a~~~~~~G~~~~A~~~~~~al~----~~p~~--~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~---~~~~~~~~~~~ 190 (355)
T cd05804 120 LAFGLEEAGQYDRAEEAARRALE----LNPDD--AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWD---CSSMLRGHNWW 190 (355)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHh----hCCCC--cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccC---CCcchhHHHHH
Confidence 68889999999999887776663 11111 34455567888999999999999988765421 23444445555
Q ss_pred HHHHHhhcccccHHHHHHHHHHhc
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
.-|.+++ ..|++..|...|=++.
T Consensus 191 ~la~~~~-~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 191 HLALFYL-ERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHH-HCCCHHHHHHHHHHHh
Confidence 6788888 9999999998887764
No 73
>KOG3054|consensus
Probab=91.87 E-value=0.7 Score=43.07 Aligned_cols=70 Identities=14% Similarity=0.237 Sum_probs=56.4
Q ss_pred HHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHH
Q psy4083 288 CRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKV 362 (374)
Q Consensus 288 ~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~ 362 (374)
++|++.-+.|-|+.||..||+-.+.+-..+-.++.+|.|.|.||.-.+.|.+... -+.++.+.|+.-++|
T Consensus 206 v~YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~e-----El~AVAkfIkqrGRV 275 (299)
T KOG3054|consen 206 VEYIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISME-----ELAAVAKFIKQRGRV 275 (299)
T ss_pred HHHHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecHH-----HHHHHHHHHHHcCce
Confidence 4566667899999999999999999999999999999999999999999998533 234445555555544
No 74
>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=91.40 E-value=2.8 Score=30.17 Aligned_cols=56 Identities=25% Similarity=0.313 Sum_probs=31.8
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSAR 185 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~ 185 (374)
++.++...|++++|.+.+...++. .... .+.+.....++...+++..+...+..+.
T Consensus 40 ~~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 40 LAAAYYKLGKYEEALEDYEKALEL----DPDN--AKAYYNLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhC----CCcc--hhHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 455666667777776655554421 1111 1455555666677777777776666553
No 75
>KOG3060|consensus
Probab=91.11 E-value=14 Score=35.12 Aligned_cols=149 Identities=18% Similarity=0.153 Sum_probs=88.3
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHH--------HHHHHHHHHHHhhcc-ccch----
Q psy4083 28 ENHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAK--------AAKLVRSLVDFFLDL-ETRT---- 94 (374)
Q Consensus 28 ~~~~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~--------~~k~i~~ild~~~~~-~~~~---- 94 (374)
+++.|. -+||+.+ ....+|+.+....++.+|+..++...|=. +...=...++++..+ .+.+
T Consensus 48 g~e~w~--l~EqV~I----AAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v 121 (289)
T KOG3060|consen 48 GDEIWT--LYEQVFI----AALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTV 121 (289)
T ss_pred CchHHH--HHHHHHH----HHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhH
Confidence 345775 5778843 34456888888889999988875543311 111112223332221 1111
Q ss_pred --hhhHHHH------HHHHHHHHHhhHHHH---HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHH
Q psy4083 95 --GMEVALC------KECIEWAKEERRTFL---RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLL 163 (374)
Q Consensus 95 --~~~~~l~------~e~i~~~~~~~r~~l---r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ 163 (374)
..++.++ .++|+..++--..|. -+|. -|+++|+..|+|++|.=|+.+++. ...-.++..--+.
T Consensus 122 ~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~--eLaeiY~~~~~f~kA~fClEE~ll----~~P~n~l~f~rla 195 (289)
T KOG3060|consen 122 IRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWH--ELAEIYLSEGDFEKAAFCLEELLL----IQPFNPLYFQRLA 195 (289)
T ss_pred HHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHH--HHHHHHHhHhHHHHHHHHHHHHHH----cCCCcHHHHHHHH
Confidence 2234444 366666653345666 5566 599999999999999877777762 2233444444455
Q ss_pred HHHHHHHh-CCHHHHHHHHHHHHhhc
Q psy4083 164 ESKTYHAL-SNLSTSRASLTSARTTA 188 (374)
Q Consensus 164 ei~l~~~~-~n~~~a~~~~~~a~~~~ 188 (374)
+++++... .|+.-++.+|.+|.++.
T Consensus 196 e~~Yt~gg~eN~~~arkyy~~alkl~ 221 (289)
T KOG3060|consen 196 EVLYTQGGAENLELARKYYERALKLN 221 (289)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence 55544332 38888999999987763
No 76
>PRK04841 transcriptional regulator MalT; Provisional
Probab=91.08 E-value=28 Score=38.47 Aligned_cols=182 Identities=9% Similarity=0.029 Sum_probs=106.7
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHH
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLE 121 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~ 121 (374)
...+..++..|++++............+.-.. ...-.....+-.+....+..+.-...+.+.++.+...+..+......
T Consensus 456 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~ 534 (903)
T PRK04841 456 ALRAQVAINDGDPEEAERLAELALAELPLTWY-YSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSL 534 (903)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHhcCCCccH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHH
Confidence 34577788899999988887765543322111 11111111221111112334444556666666555333222222222
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHHHhccc--hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhH
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELKKLDDK--NLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQA 199 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~--~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~ 199 (374)
..++.++...|++++|...+.+.+.-....... ....-++.....++...|++..+...+..+....... . +....
T Consensus 535 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~-~-~~~~~ 612 (903)
T PRK04841 535 LQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNY-Q-PQQQL 612 (903)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhcc-C-chHHH
Confidence 468999999999999988887776544443221 1112234455677888999999999998886654321 2 22223
Q ss_pred HHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 200 ALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 200 ~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
......|.++. ..+++..|...+-++.
T Consensus 613 ~~~~~la~~~~-~~G~~~~A~~~l~~a~ 639 (903)
T PRK04841 613 QCLAMLAKISL-ARGDLDNARRYLNRLE 639 (903)
T ss_pred HHHHHHHHHHH-HcCCHHHHHHHHHHHH
Confidence 34455677888 8999999988876663
No 77
>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=90.87 E-value=4.4 Score=32.05 Aligned_cols=101 Identities=7% Similarity=-0.054 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhh-HHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISK-AKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k-~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
+.++.++..+.+.|++++..+.+..+....+.-+. ..+.-..-.+.-.. +..+.-++.+...+.... ++.....
T Consensus 3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~p-~~~~~~~ 77 (119)
T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQ----GKYADAAKAFLAVVKKYP-KSPKAPD 77 (119)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhh----ccHHHHHHHHHHHHHHCC-CCCcccH
Confidence 45788899999999999998888887765543211 11111111111111 112333444433333211 1111111
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
... .++.++.+.|++++|++.+.+++.
T Consensus 78 ~~~--~~~~~~~~~~~~~~A~~~~~~~~~ 104 (119)
T TIGR02795 78 ALL--KLGMSLQELGDKEKAKATLQQVIK 104 (119)
T ss_pred HHH--HHHHHHHHhCChHHHHHHHHHHHH
Confidence 222 467778888888888777766653
No 78
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=90.81 E-value=0.47 Score=36.61 Aligned_cols=52 Identities=15% Similarity=0.194 Sum_probs=43.9
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeE
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVL 337 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv 337 (374)
.+..++.-+.+++...||..|+.|++-||.+|..++.-|++.-.-....|+.
T Consensus 6 qlRd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv~~~~~gC~ 57 (78)
T PRK15431 6 QVRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRIQEEPDGCL 57 (78)
T ss_pred HHHHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEeeccCCCCCC
Confidence 3567778889999999999999999999999999999999975543555554
No 79
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=90.73 E-value=4.4 Score=38.64 Aligned_cols=98 Identities=14% Similarity=0.192 Sum_probs=68.8
Q ss_pred HHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCC-ChhhhHHHHHHH
Q psy4083 127 LYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYC-PPKMQAALDLQS 205 (374)
Q Consensus 127 ~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~-~~~~~~~i~~~~ 205 (374)
++++.|+|++|+..+..+++. .-+..+.-+.+...-++|+..|++..|...+...-+. ++ +|..-..+ ...
T Consensus 152 l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~----yP~s~~~~dAl-~kl 223 (263)
T PRK10803 152 LVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN----YPKSPKAADAM-FKV 223 (263)
T ss_pred HHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----CCCCcchhHHH-HHH
Confidence 445669999999888877743 3333444566778888999999999999888776432 22 33332222 234
Q ss_pred HHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 206 GILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 206 G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
|.++. ..+++..|...|-...+.|...
T Consensus 224 g~~~~-~~g~~~~A~~~~~~vi~~yP~s 250 (263)
T PRK10803 224 GVIMQ-DKGDTAKAKAVYQQVIKKYPGT 250 (263)
T ss_pred HHHHH-HcCCHHHHHHHHHHHHHHCcCC
Confidence 56667 7899999999998888888643
No 80
>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=90.58 E-value=7.2 Score=37.66 Aligned_cols=53 Identities=25% Similarity=0.358 Sum_probs=36.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.|.++...|++++|++.+. +..-+|..+..+++++..+.+..|+..+...+..
T Consensus 108 ~A~i~~~~~~~~~AL~~l~-----------~~~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~ 160 (290)
T PF04733_consen 108 AATILFHEGDYEEALKLLH-----------KGGSLELLALAVQILLKMNRPDLAEKELKNMQQI 160 (290)
T ss_dssp HHHHHCCCCHHHHHHCCCT-----------TTTCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred HHHHHHHcCCHHHHHHHHH-----------ccCcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 4667777888888865431 2244688888888888888888888777666543
No 81
>KOG2002|consensus
Probab=90.35 E-value=13 Score=41.29 Aligned_cols=99 Identities=14% Similarity=0.272 Sum_probs=75.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.|+.+|+..|+|..+..+....+ +.+..+..+-|-|..--|.|+.+||+.+|..||..|.+..+..+.-|..
T Consensus 275 ~LAn~fyfK~dy~~v~~la~~ai---~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~----- 346 (1018)
T KOG2002|consen 275 HLANHFYFKKDYERVWHLAEHAI---KNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLV----- 346 (1018)
T ss_pred HHHHHHhhcccHHHHHHHHHHHH---HhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccccc-----
Confidence 68999999999999976655544 3445566777888899999999999999999999998876443222221
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
=-|.+++ +.++++.|...|.-..+.+.
T Consensus 347 -GlgQm~i-~~~dle~s~~~fEkv~k~~p 373 (1018)
T KOG2002|consen 347 -GLGQMYI-KRGDLEESKFCFEKVLKQLP 373 (1018)
T ss_pred -chhHHHH-HhchHHHHHHHHHHHHHhCc
Confidence 1267888 99999999988877666554
No 82
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=90.21 E-value=4.1 Score=34.48 Aligned_cols=87 Identities=10% Similarity=0.170 Sum_probs=72.9
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce-eec-CCCCeEEEecCCcchHHHHHHHHHHHHHHHH
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG-ILD-QGEKVLIVFEGAEIDKTYEKALETITSMGKV 362 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a-kID-~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~ 362 (374)
.++..++++=.-.+.+.||+.++.+..-|.+-|-+|+.-|-+.- +.. ...|....+.+.+++...+...+.+++|...
T Consensus 31 ~v~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~ 110 (126)
T COG3355 31 EVYKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDK 110 (126)
T ss_pred HHHHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHH
Confidence 44555665667788999999999999999999999999998864 444 6778889998988888888999999999999
Q ss_pred HHHHHHHhc
Q psy4083 363 IDTLYQKAK 371 (374)
Q Consensus 363 vd~l~~~~~ 371 (374)
+..++++..
T Consensus 111 ~~~~i~~~~ 119 (126)
T COG3355 111 MKQLIEEFE 119 (126)
T ss_pred HHHHHHHHh
Confidence 988887643
No 83
>KOG1861|consensus
Probab=90.15 E-value=9.2 Score=39.24 Aligned_cols=176 Identities=13% Similarity=0.125 Sum_probs=95.3
Q ss_pred ccCHHHHHHHHHHHHHHHHHh-ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHh
Q psy4083 131 TGEYTEALKLSSSLLKELKKL-DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILH 209 (374)
Q Consensus 131 ~g~~~~Al~~~~~ll~el~~~-dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~ 209 (374)
..+|.=+-.-+..+.++|.+- -...+-++||=--.|+.++.||...-.+..++.+..=.-+ -|--.+.+-.|..+++
T Consensus 320 ~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~eg--ipg~~~EF~AYriLY~ 397 (540)
T KOG1861|consen 320 KANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEG--IPGAYLEFTAYRILYY 397 (540)
T ss_pred hccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccC--CCCchhhHHHHHHHHH
Confidence 356665655556677766653 3456777888777899999998887766665554432111 1212556666666666
Q ss_pred hcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHH--HHHhcCCchhHHHHHHHHhcChHHHhhH-HHHHHHHHHHH
Q psy4083 210 AADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLL--SKIMLNTPEDVNQILSELEDDTIVKAHI-GTLYDNMLEQN 286 (374)
Q Consensus 210 ~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL--~~iL~~~~~~v~~ll~~l~~D~~l~~h~-~~L~~~ire~~ 286 (374)
+ ..+|+-+--+..-+ -++ ++ ....++..++= ..+..+..- -+......=|-+..|+ +.++++.|.++
T Consensus 398 i-~tkN~~di~sll~~----lt~-E~-ked~~V~hAL~vR~A~~~GNY~---kFFrLY~~AP~M~~yLmdlF~erER~~A 467 (540)
T KOG1861|consen 398 I-FTKNYPDILSLLRD----LTE-ED-KEDEAVAHALEVRSAVTLGNYH---KFFRLYLTAPNMSGYLMDLFLERERKKA 467 (540)
T ss_pred H-HhcCchHHHHHHHh----ccH-hh-ccCHHHHHHHHHHHHHHhccHH---HHHHHHhhcccchhHHHHHHHHHHHHHH
Confidence 6 55554422211111 111 00 00111111100 000011100 0000223334444453 55789999999
Q ss_pred HHHhhcccc-ceeHHHHHhHhCCCh-HHHHHHHH
Q psy4083 287 LCRIIEPYS-RVEVGFIAKSIKLDE-LAVEKKLS 318 (374)
Q Consensus 287 l~~~~~pYs-~I~l~~lA~~l~ls~-~~vE~~L~ 318 (374)
+.-++++|. +|++++|++-|.+.+ +..-.++.
T Consensus 468 l~ii~KsyrP~i~~~fi~~~laf~~~e~c~~~l~ 501 (540)
T KOG1861|consen 468 LTIICKSYRPTITVDFIASELAFDSMEDCVNFLN 501 (540)
T ss_pred HHHHHHHcCCCccHHHHhhhhhhchHHHHHHHHh
Confidence 999999999 999999999888754 33433433
No 84
>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=90.07 E-value=9.4 Score=31.28 Aligned_cols=58 Identities=21% Similarity=0.082 Sum_probs=34.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
+|..+...|++++|++.+...+. .+ ....+++.....++...|++..+...+..+...
T Consensus 57 la~~~~~~~~~~~A~~~~~~~~~----~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 57 LAACCQMLKEYEEAIDAYALAAA----LD--PDDPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh----cC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 56666666777777665554442 11 112444555556667777777777777666554
No 85
>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=89.88 E-value=10 Score=39.87 Aligned_cols=65 Identities=18% Similarity=0.275 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 113 RTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.+|+-. =||.+|-..|++++|++.|.+.+ +-..-++|+|+...+++-..||+..|-..+..|+..
T Consensus 193 ~lw~~~----~lAqhyd~~g~~~~Al~~Id~aI------~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~L 257 (517)
T PF12569_consen 193 LLWTLY----FLAQHYDYLGDYEKALEYIDKAI------EHTPTLVELYMTKARILKHAGDLKEAAEAMDEAREL 257 (517)
T ss_pred HHHHHH----HHHHHHHHhCCHHHHHHHHHHHH------hcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence 456544 36889999999999999988777 333456999999999999999999999999888775
No 86
>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=89.59 E-value=21 Score=34.52 Aligned_cols=123 Identities=18% Similarity=0.243 Sum_probs=77.9
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALS--NLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~--n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
...+|+..+..+-| .+.++..++.++-..++. +.+.-+.+..| ++..+--.|..... ..-..| .+
T Consensus 137 ~Vqi~L~~~R~dlA----~k~l~~~~~~~eD~~l~q--La~awv~l~~g~e~~~~A~y~f~El~~---~~~~t~----~~ 203 (290)
T PF04733_consen 137 AVQILLKMNRPDLA----EKELKNMQQIDEDSILTQ--LAEAWVNLATGGEKYQDAFYIFEELSD---KFGSTP----KL 203 (290)
T ss_dssp HHHHHHHTT-HHHH----HHHHHHHHCCSCCHHHHH--HHHHHHHHHHTTTCCCHHHHHHHHHHC---CS--SH----HH
T ss_pred HHHHHHHcCCHHHH----HHHHHHHHhcCCcHHHHH--HHHHHHHHHhCchhHHHHHHHHHHHHh---ccCCCH----HH
Confidence 56788999999999 555566666655444444 34444555555 57777777766322 111223 33
Q ss_pred HHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCc-hhHHHHHHHH
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTP-EDVNQILSEL 265 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~-~~v~~ll~~l 265 (374)
.-..+..++ ..|+|.+|.+.+.+++. .++...++|-.++.|+.+.+.+ +...+.++++
T Consensus 204 lng~A~~~l-~~~~~~eAe~~L~~al~-----~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL 262 (290)
T PF04733_consen 204 LNGLAVCHL-QLGHYEEAEELLEEALE-----KDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL 262 (290)
T ss_dssp HHHHHHHHH-HCT-HHHHHHHHHHHCC-----C-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred HHHHHHHHH-HhCCHHHHHHHHHHHHH-----hccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence 345566788 99999999999999865 2344556778888898888876 5566666643
No 87
>KOG1155|consensus
Probab=89.42 E-value=21 Score=36.82 Aligned_cols=137 Identities=18% Similarity=0.131 Sum_probs=85.8
Q ss_pred HHHHHHHHHhhc---cccchhhhHHHH------HHHHHHHH----HhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Q psy4083 78 KLVRSLVDFFLD---LETRTGMEVALC------KECIEWAK----EERRTFLRQSLEARLIALYFDTGEYTEALKLSSSL 144 (374)
Q Consensus 78 k~i~~ild~~~~---~~~~~~~~~~l~------~e~i~~~~----~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~l 144 (374)
.+=|..+|.++. .|-+.++.++++ +-+++-|. ++.|+|+ .||+.|.+.+..++|++++.+.
T Consensus 385 ~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~------aLG~CY~kl~~~~eAiKCykra 458 (559)
T KOG1155|consen 385 ESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWV------ALGECYEKLNRLEEAIKCYKRA 458 (559)
T ss_pred HHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHH------HHHHHHHHhccHHHHHHHHHHH
Confidence 556677776643 222234444443 22333332 3446664 5899999999999999999887
Q ss_pred HHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc--cccCCChhhhHHHHHHHHHHhhcccccHHHHHHH
Q psy4083 145 LKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA--NSIYCPPKMQAALDLQSGILHAADEQDFKTAFSY 222 (374)
Q Consensus 145 l~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~--~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~ 222 (374)
+. ..|. --..+..-.++|=..++..+|..++.+.-... .+.+.+..+.+++- -+..+. ..+||+.|..|
T Consensus 459 i~----~~dt--e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~f--LA~~f~-k~~~~~~As~Y 529 (559)
T KOG1155|consen 459 IL----LGDT--EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLF--LAEYFK-KMKDFDEASYY 529 (559)
T ss_pred Hh----cccc--chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHH--HHHHHH-hhcchHHHHHH
Confidence 63 1121 11345556788999999999999998864421 22233445555554 445556 77899999887
Q ss_pred HHHhccC
Q psy4083 223 FYEAFEG 229 (374)
Q Consensus 223 F~eaf~~ 229 (374)
--.+...
T Consensus 530 a~~~~~~ 536 (559)
T KOG1155|consen 530 ATLVLKG 536 (559)
T ss_pred HHHHhcC
Confidence 7776554
No 88
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=89.15 E-value=1.3 Score=32.57 Aligned_cols=58 Identities=22% Similarity=0.280 Sum_probs=46.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
|..+|...++|++|++.+..++.. ++ .-...+.....++...|++..+...+..+.+.
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~-----~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALEL-----DP-DDPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHh-----Cc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 356889999999999988888742 22 24567777889999999999999999998765
No 89
>PRK14574 hmsH outer membrane protein; Provisional
Probab=88.94 E-value=23 Score=39.41 Aligned_cols=163 Identities=13% Similarity=-0.001 Sum_probs=93.7
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHH
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLE 121 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~ 121 (374)
+.-+-+.++.|+++...+.+.+....-+.-+. .+. .++-..... +..+.-+..+..++. ..-.+....+
T Consensus 38 y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~-av~----dll~l~~~~-G~~~~A~~~~eka~~----p~n~~~~~ll- 106 (822)
T PRK14574 38 YDSLIIRARAGDTAPVLDYLQEESKAGPLQSG-QVD----DWLQIAGWA-GRDQEVIDVYERYQS----SMNISSRGLA- 106 (822)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHhhCccchh-hHH----HHHHHHHHc-CCcHHHHHHHHHhcc----CCCCCHHHHH-
Confidence 33467889999999887777777655544321 122 222222211 323444555555551 1123333333
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
-+|.+|...|+|++|++.+.++++ .+... -++++..+.++...++..++...+.++... +|... .
T Consensus 107 -alA~ly~~~gdyd~Aiely~kaL~----~dP~n--~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~------dp~~~--~ 171 (822)
T PRK14574 107 -SAARAYRNEKRWDQALALWQSSLK----KDPTN--PDLISGMIMTQADAGRGGVVLKQATELAER------DPTVQ--N 171 (822)
T ss_pred -HHHHHHHHcCCHHHHHHHHHHHHh----hCCCC--HHHHHHHHHHHhhcCCHHHHHHHHHHhccc------CcchH--H
Confidence 368899999999999888887764 22221 344455588888889999998887776443 33321 1
Q ss_pred HHHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
....+-+.. ..+++.+|...|-++++.+.
T Consensus 172 ~l~layL~~-~~~~~~~AL~~~ekll~~~P 200 (822)
T PRK14574 172 YMTLSYLNR-ATDRNYDALQASSEAVRLAP 200 (822)
T ss_pred HHHHHHHHH-hcchHHHHHHHHHHHHHhCC
Confidence 111222222 23455558888877766543
No 90
>PRK04841 transcriptional regulator MalT; Provisional
Probab=88.87 E-value=42 Score=37.14 Aligned_cols=108 Identities=17% Similarity=0.023 Sum_probs=77.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCC-ChhhhHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYC-PPKMQAAL 201 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~-~~~~~~~i 201 (374)
.++..+...|++++|...+.+.+.......+.....-.......++...|++..+..++..+.......-. .....+.+
T Consensus 496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~ 575 (903)
T PRK04841 496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL 575 (903)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence 57888889999999998888887665555454444556666678889999999999999988776533211 11122334
Q ss_pred HHHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
....|.++. ..+++..|...+-++.....
T Consensus 576 ~~~la~~~~-~~G~~~~A~~~~~~al~~~~ 604 (903)
T PRK04841 576 LRIRAQLLW-EWARLDEAEQCARKGLEVLS 604 (903)
T ss_pred HHHHHHHHH-HhcCHHHHHHHHHHhHHhhh
Confidence 456677788 88999999998888865444
No 91
>KOG0548|consensus
Probab=88.84 E-value=33 Score=35.83 Aligned_cols=91 Identities=20% Similarity=0.262 Sum_probs=67.2
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
.|.-++..|||.+|++.|.+.++ +.-+|. -.|-...--|+.+++++++..-..++... .++.+.|-++.
T Consensus 364 kGne~Fk~gdy~~Av~~YteAIk--r~P~Da----~lYsNRAac~~kL~~~~~aL~Da~~~ieL-----~p~~~kgy~RK 432 (539)
T KOG0548|consen 364 KGNEAFKKGDYPEAVKHYTEAIK--RDPEDA----RLYSNRAACYLKLGEYPEALKDAKKCIEL-----DPNFIKAYLRK 432 (539)
T ss_pred HHHHHHhccCHHHHHHHHHHHHh--cCCchh----HHHHHHHHHHHHHhhHHHHHHHHHHHHhc-----CchHHHHHHHH
Confidence 58889999999999999988663 111222 25677777888999999988665555443 35567777777
Q ss_pred HHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
|..+. ..++|..|...|.++.+
T Consensus 433 --g~al~-~mk~ydkAleay~eale 454 (539)
T KOG0548|consen 433 --GAALR-AMKEYDKALEAYQEALE 454 (539)
T ss_pred --HHHHH-HHHHHHHHHHHHHHHHh
Confidence 55566 67999999999999855
No 92
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=88.63 E-value=28 Score=37.61 Aligned_cols=63 Identities=11% Similarity=0.017 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 158 VEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 158 lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.+.+.....++...+++..+...+..+.... ..++ .+...-|.++. ..++|..|...|-.+.+
T Consensus 284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~---P~~~----~a~~~La~~l~-~~G~~~eA~~~l~~al~ 346 (656)
T PRK15174 284 VRIVTLYADALIRTGQNEKAIPLLQQSLATH---PDLP----YVRAMYARALR-QVGQYTAASDEFVQLAR 346 (656)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCH----HHHHHHHHHHH-HCCCHHHHHHHHHHHHH
Confidence 3555666677777777777777777766542 1122 22334566667 77888888777766654
No 93
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=88.59 E-value=39 Score=36.43 Aligned_cols=93 Identities=10% Similarity=0.039 Sum_probs=63.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|.++...|++++|+..+.+++. .+... -++...-..++...|++..+...+.++... +|..- ...
T Consensus 289 ~lg~~l~~~g~~~eA~~~l~~al~----l~P~~--~~a~~~La~~l~~~G~~~eA~~~l~~al~~------~P~~~-~~~ 355 (656)
T PRK15174 289 LYADALIRTGQNEKAIPLLQQSLA----THPDL--PYVRAMYARALRQVGQYTAASDEFVQLARE------KGVTS-KWN 355 (656)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH----hCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh------Cccch-HHH
Confidence 579999999999999887777663 22211 133444567888999999999988876543 22211 223
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
...|..+. ..|++..|...|-.+.+.
T Consensus 356 ~~~a~al~-~~G~~deA~~~l~~al~~ 381 (656)
T PRK15174 356 RYAAAALL-QAGKTSEAESVFEHYIQA 381 (656)
T ss_pred HHHHHHHH-HCCCHHHHHHHHHHHHHh
Confidence 33466667 789999999888777543
No 94
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=88.46 E-value=4.8 Score=37.97 Aligned_cols=92 Identities=15% Similarity=0.161 Sum_probs=55.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|.++.+.|++++|++.+.+.++. +.... ++...-+.++...|+..+++.++....... ..+|.+..
T Consensus 151 ~~a~~~~~~G~~~~A~~~~~~al~~----~P~~~--~~~~~l~~~li~~~~~~~~~~~l~~~~~~~---~~~~~~~~--- 218 (280)
T PF13429_consen 151 ALAEIYEQLGDPDKALRDYRKALEL----DPDDP--DARNALAWLLIDMGDYDEAREALKRLLKAA---PDDPDLWD--- 218 (280)
T ss_dssp HHHHHHHHCCHHHHHHHHHHHHHHH-----TT-H--HHHHHHHHHHCTTCHHHHHHHHHHHHHHH----HTSCCHCH---
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHc----CCCCH--HHHHHHHHHHHHCCChHHHHHHHHHHHHHC---cCHHHHHH---
Confidence 3667788888888887777666531 11111 122233445567778887777777665542 13455443
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.-|..++ .-+++.+|..+|-.+.+
T Consensus 219 -~la~~~~-~lg~~~~Al~~~~~~~~ 242 (280)
T PF13429_consen 219 -ALAAAYL-QLGRYEEALEYLEKALK 242 (280)
T ss_dssp -HHHHHHH-HHT-HHHHHHHHHHHHH
T ss_pred -HHHHHhc-ccccccccccccccccc
Confidence 3366677 77888888888888755
No 95
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=88.36 E-value=19 Score=32.52 Aligned_cols=133 Identities=21% Similarity=0.253 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhcccc---------chhhhHHHHHHHHH---
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLET---------RTGMEVALCKECIE--- 106 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~---------~~~~~~~l~~e~i~--- 106 (374)
++.+.++..+++.|+|+.....+..+....|.-+...-+-.+..+. .+...++ ....-+..+.+.|+
T Consensus 43 ~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~-~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP 121 (203)
T PF13525_consen 43 QAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLS-YYKQIPGILRSDRDQTSTRKAIEEFEELIKRYP 121 (203)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHH-HHHHHHHHH-TT---HHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHH-HHHhCccchhcccChHHHHHHHHHHHHHHHHCc
Confidence 5677889999999999999999999888887765432221111111 0000000 00011222222221
Q ss_pred ------HHHH---hhHHHH-HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHH
Q psy4083 107 ------WAKE---ERRTFL-RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLST 176 (374)
Q Consensus 107 ------~~~~---~~r~~l-r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~ 176 (374)
+++. .-|-.+ ++.+ ..|++|++.|.|..|+.-+..+++. .-+....=+.....++.|..+|....
T Consensus 122 ~S~y~~~A~~~l~~l~~~la~~e~--~ia~~Y~~~~~y~aA~~r~~~v~~~---yp~t~~~~~al~~l~~~y~~l~~~~~ 196 (203)
T PF13525_consen 122 NSEYAEEAKKRLAELRNRLAEHEL--YIARFYYKRGKYKAAIIRFQYVIEN---YPDTPAAEEALARLAEAYYKLGLKQA 196 (203)
T ss_dssp TSTTHHHHHHHHHHHHHHHHHHHH--HHHHHHHCTT-HHHHHHHHHHHHHH---STTSHHHHHHHHHHHHHHHHTT-HHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHcccHHHHHHHHHHHHHH---CCCCchHHHHHHHHHHHHHHhCChHH
Confidence 1110 001112 3334 5899999999999999888887743 33333444555666777777777663
Q ss_pred H
Q psy4083 177 S 177 (374)
Q Consensus 177 a 177 (374)
+
T Consensus 197 a 197 (203)
T PF13525_consen 197 A 197 (203)
T ss_dssp H
T ss_pred H
Confidence 3
No 96
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=88.34 E-value=1.6 Score=33.35 Aligned_cols=55 Identities=29% Similarity=0.447 Sum_probs=39.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
.+|..|++.|+|++|++.+.. .+.++.. .+....-.+.++.+|++..|...+.+|
T Consensus 30 ~la~~~~~~~~y~~A~~~~~~-----~~~~~~~--~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 30 NLAQCYFQQGKYEEAIELLQK-----LKLDPSN--PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHTTHHHHHHHHHHC-----HTHHHCH--HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHH-----hCCCCCC--HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 468899999999999776654 1122222 455555589999999999999888764
No 97
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=88.09 E-value=16 Score=34.39 Aligned_cols=163 Identities=19% Similarity=0.166 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHH-HHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVR-SLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~-~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
+.+...+.++...|+|+.+.+.+..+... +..+.+..--... .+.... +..+.-+..+..+++-..++ ..++
T Consensus 111 ~~l~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~~~a~~~~~~----G~~~~A~~~~~~al~~~P~~--~~~~ 183 (280)
T PF13429_consen 111 RYLLSALQLYYRLGDYDEAEELLEKLEEL-PAAPDSARFWLALAEIYEQL----GDPDKALRDYRKALELDPDD--PDAR 183 (280)
T ss_dssp -------H-HHHTT-HHHHHHHHHHHHH--T---T-HHHHHHHHHHHHHC----CHHHHHHHHHHHHHHH-TT---HHHH
T ss_pred chhhHHHHHHHHHhHHHHHHHHHHHHHhc-cCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHcCCCC--HHHH
Confidence 34455677888889999988888776632 2222221111111 111211 32344456666666644322 2222
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh--ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKELKKL--DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPP 195 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~--dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~ 195 (374)
. .++.++.+.|+++++.+. ++.+.+. .+.. . ...-...+..+|+..+|..++.++.+.. ..+|
T Consensus 184 ~----~l~~~li~~~~~~~~~~~----l~~~~~~~~~~~~-~---~~~la~~~~~lg~~~~Al~~~~~~~~~~---p~d~ 248 (280)
T PF13429_consen 184 N----ALAWLLIDMGDYDEAREA----LKRLLKAAPDDPD-L---WDALAAAYLQLGRYEEALEYLEKALKLN---PDDP 248 (280)
T ss_dssp H----HHHHHHCTTCHHHHHHHH----HHHHHHH-HTSCC-H---CHHHHHHHHHHT-HHHHHHHHHHHHHHS---TT-H
T ss_pred H----HHHHHHHHCCChHHHHHH----HHHHHHHCcCHHH-H---HHHHHHHhcccccccccccccccccccc---cccc
Confidence 2 367788999999998444 4444443 2232 2 2233678889999999999999987653 1355
Q ss_pred hhhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 196 KMQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 196 ~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.... .-|.+.. ..|++..|......+++
T Consensus 249 ~~~~----~~a~~l~-~~g~~~~A~~~~~~~~~ 276 (280)
T PF13429_consen 249 LWLL----AYADALE-QAGRKDEALRLRRQALR 276 (280)
T ss_dssp HHHH----HHHHHHT------------------
T ss_pred cccc----ccccccc-ccccccccccccccccc
Confidence 5543 3344555 67888888877766643
No 98
>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=87.83 E-value=1.1 Score=32.51 Aligned_cols=53 Identities=21% Similarity=0.272 Sum_probs=39.8
Q ss_pred HhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 129 FDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 129 ~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
++.|+|++|++.+.+++.. + ..-.++.+.-.++++..|++.+|+..+......
T Consensus 2 l~~~~~~~A~~~~~~~l~~----~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQR----N--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHH----T--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hhccCHHHHHHHHHHHHHH----C--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5679999999888887742 1 123466777889999999999999998876543
No 99
>KOG0495|consensus
Probab=87.18 E-value=18 Score=38.80 Aligned_cols=178 Identities=15% Similarity=0.050 Sum_probs=106.6
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHH
Q psy4083 44 LGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEAR 123 (374)
Q Consensus 44 l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~k 123 (374)
-+++.+....+|.+..++..-+..-+.- + ---|.+ .++.+. +..+.-+.+|.++|+.- -.|.+-++ .
T Consensus 624 avKle~en~e~eraR~llakar~~sgTe-R-v~mKs~--~~er~l---d~~eeA~rllEe~lk~f----p~f~Kl~l--m 690 (913)
T KOG0495|consen 624 AVKLEFENDELERARDLLAKARSISGTE-R-VWMKSA--NLERYL---DNVEEALRLLEEALKSF----PDFHKLWL--M 690 (913)
T ss_pred HHHHhhccccHHHHHHHHHHHhccCCcc-h-hhHHHh--HHHHHh---hhHHHHHHHHHHHHHhC----CchHHHHH--H
Confidence 3667777777777766666555421110 1 001221 123331 22345566776666533 35666667 6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHH----------hc-------------c-----chhHHHHHHHHHHHHHHhCCHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKK----------LD-------------D-----KNLLVEVLLLESKTYHALSNLS 175 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~----------~d-------------d-----~~~~lev~l~ei~l~~~~~n~~ 175 (374)
|+.++.+.++.+.|-+.|..=++.+.. .+ + +..-..+++.-||+-.+.||..
T Consensus 691 lGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~ 770 (913)
T KOG0495|consen 691 LGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKE 770 (913)
T ss_pred HhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHH
Confidence 899999999999997776432222111 11 1 1122568999999999999999
Q ss_pred HHHHHHHHHHh-hccccC---------CChhhh----HHHHH---------HHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 176 TSRASLTSART-TANSIY---------CPPKMQ----AALDL---------QSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 176 ~a~~~~~~a~~-~~~~~~---------~~~~~~----~~i~~---------~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
.++.++.+|.+ .++++. ++|..+ ..++. .-|+++- .+++|++|...|.-+.+-=..
T Consensus 771 ~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw-~e~k~~kar~Wf~Ravk~d~d 849 (913)
T KOG0495|consen 771 QAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFW-SEKKIEKAREWFERAVKKDPD 849 (913)
T ss_pred HHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHH-HHHHHHHHHHHHHHHHccCCc
Confidence 99999998865 333321 233222 23343 3456667 899999999999988654333
Q ss_pred ccc
Q psy4083 233 VDH 235 (374)
Q Consensus 233 ~~~ 235 (374)
.|+
T Consensus 850 ~GD 852 (913)
T KOG0495|consen 850 NGD 852 (913)
T ss_pred cch
Confidence 443
No 100
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=87.09 E-value=36 Score=34.28 Aligned_cols=91 Identities=14% Similarity=0.008 Sum_probs=60.3
Q ss_pred HHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHH
Q psy4083 121 EARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAA 200 (374)
Q Consensus 121 ~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~ 200 (374)
..-++..+.+.|+.++|.+++.+.+ ++.-|.. +..--=+...+|..+.....++..+-- ..+| -
T Consensus 266 ~~~~a~~li~l~~~~~A~~~i~~~L---k~~~D~~------L~~~~~~l~~~d~~~l~k~~e~~l~~h---~~~p----~ 329 (400)
T COG3071 266 VVAYAERLIRLGDHDEAQEIIEDAL---KRQWDPR------LCRLIPRLRPGDPEPLIKAAEKWLKQH---PEDP----L 329 (400)
T ss_pred HHHHHHHHHHcCChHHHHHHHHHHH---HhccChh------HHHHHhhcCCCCchHHHHHHHHHHHhC---CCCh----h
Confidence 3357888999999999976665554 4544443 111122335668888777777654331 1334 5
Q ss_pred HHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 201 LDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 201 i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
+...-|.+++ -++.|.+|.++|=-|++
T Consensus 330 L~~tLG~L~~-k~~~w~kA~~~leaAl~ 356 (400)
T COG3071 330 LLSTLGRLAL-KNKLWGKASEALEAALK 356 (400)
T ss_pred HHHHHHHHHH-HhhHHHHHHHHHHHHHh
Confidence 5667789999 99999999988876654
No 101
>KOG2300|consensus
Probab=87.06 E-value=41 Score=34.97 Aligned_cols=179 Identities=17% Similarity=0.179 Sum_probs=110.0
Q ss_pred HHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHH---hhHHHHHHHHHHHHHHHHHhc-cCHHHHHHHHHHHHHHHH
Q psy4083 74 AKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKE---ERRTFLRQSLEARLIALYFDT-GEYTEALKLSSSLLKELK 149 (374)
Q Consensus 74 ~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~---~~r~~lr~~l~~kLa~~~~~~-g~~~~Al~~~~~ll~el~ 149 (374)
.+.++..-.+-|.+.+. ..-++..|-.|++..-. ..++..|++| +||.+++.. .+++-|-.-+++..--.+
T Consensus 4 dAva~aLlGlAe~~rt~---~PPkIkk~IkClqA~~~~~is~~veart~L--qLg~lL~~yT~N~elAksHLekA~~i~~ 78 (629)
T KOG2300|consen 4 DAVAEALLGLAEHFRTS---GPPKIKKCIKCLQAIFQFQISFLVEARTHL--QLGALLLRYTKNVELAKSHLEKAWLISK 78 (629)
T ss_pred hHHHHHHHHHHHHHhhc---CChhHHHHHHHHHHHhccCChHHHHHHHHH--HHHHHHHHHhccHHHHHHHHHHHHHHHc
Confidence 34556666666666432 23346666566654321 1357778888 788886544 567777544443322111
Q ss_pred Hhcc-chhHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh-
Q psy4083 150 KLDD-KNLLVEVLLLESKTYHALS-NLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEA- 226 (374)
Q Consensus 150 ~~dd-~~~~lev~l~ei~l~~~~~-n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea- 226 (374)
.... -..+++-+.+-..+|.... +++.+|+.+.+|-+++. ..|....++-.+-+-+|. -++||..|.+. +++
T Consensus 79 ~ip~fydvKf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq---~~p~wsckllfQLaql~~-idkD~~sA~el-Lavg 153 (629)
T KOG2300|consen 79 SIPSFYDVKFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQ---SVPYWSCKLLFQLAQLHI-IDKDFPSALEL-LAVG 153 (629)
T ss_pred ccccHHhhhhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc---CCchhhHHHHHHHHHHHh-hhccchhHHHH-Hhcc
Confidence 1111 1456677777778887776 99999999999988864 345666677777788888 89999999987 444
Q ss_pred ccCcCcccchhHHHHHHHHHHHHHhcCCch--hHHHHHH
Q psy4083 227 FEGFSTVDHNHAMMSLKYMLLSKIMLNTPE--DVNQILS 263 (374)
Q Consensus 227 f~~f~~~~~~~~~~~LkY~vL~~iL~~~~~--~v~~ll~ 263 (374)
+++-+..+. .+.++++-++-.-++.-+++ +|..+++
T Consensus 154 a~sAd~~~~-~ylr~~ftls~~~ll~me~d~~dV~~ll~ 191 (629)
T KOG2300|consen 154 AESADHICF-PYLRMLFTLSMLMLLIMERDDYDVEKLLQ 191 (629)
T ss_pred ccccchhhh-HHHHHHHHHHHHHHHHhCccHHHHHHHHH
Confidence 555454443 45566665555555554443 4444444
No 102
>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=86.97 E-value=3.6 Score=29.77 Aligned_cols=62 Identities=16% Similarity=0.191 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccc-cHHHHHHHHHHhcc
Q psy4083 159 EVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQ-DFKTAFSYFYEAFE 228 (374)
Q Consensus 159 ev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~r-dy~~A~~~F~eaf~ 228 (374)
+++...-..++..+++.++..++.+|.... |. ...+....|..++ ..+ +|..|..+|-.+.+
T Consensus 4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~------p~-~~~~~~~~g~~~~-~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD------PN-NAEAYYNLGLAYM-KLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS------TT-HHHHHHHHHHHHH-HTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CC-CHHHHHHHHHHHH-HhCccHHHHHHHHHHHHH
Confidence 466777888999999999999999987662 22 2346667788888 888 79999999877743
No 103
>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=86.88 E-value=19 Score=36.42 Aligned_cols=120 Identities=16% Similarity=0.143 Sum_probs=63.9
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHH
Q psy4083 43 QLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEA 122 (374)
Q Consensus 43 ~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~ 122 (374)
.|.+++-..++++.+.+.+..+...-+.+ .-.+-++.-.. +....-++++.++|+....+ .. +-.
T Consensus 174 ~Ll~~l~~t~~~~~ai~lle~L~~~~pev-----~~~LA~v~l~~----~~E~~AI~ll~~aL~~~p~d---~~---LL~ 238 (395)
T PF09295_consen 174 TLLKYLSLTQRYDEAIELLEKLRERDPEV-----AVLLARVYLLM----NEEVEAIRLLNEALKENPQD---SE---LLN 238 (395)
T ss_pred HHHHHHhhcccHHHHHHHHHHHHhcCCcH-----HHHHHHHHHhc----CcHHHHHHHHHHHHHhCCCC---HH---HHH
Confidence 34455555566666666666555444332 11122221111 11223355666666433222 11 111
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTS 183 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~ 183 (374)
-.|+++++.|+++.|+++..+.. .-...-.+....-.+.|...+++..|...+..
T Consensus 239 ~Qa~fLl~k~~~~lAL~iAk~av------~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs 293 (395)
T PF09295_consen 239 LQAEFLLSKKKYELALEIAKKAV------ELSPSEFETWYQLAECYIQLGDFENALLALNS 293 (395)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHH------HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhc
Confidence 35778888888888876655443 22334456667777888888888888766643
No 104
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=86.87 E-value=34 Score=33.82 Aligned_cols=90 Identities=19% Similarity=0.272 Sum_probs=64.9
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHHHhccc---hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhh
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELKKLDDK---NLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQ 198 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~---~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~ 198 (374)
+.|..+|-...+|++|++.-. .+.+.++. -++-.+|-.-.+-+...+|..+++..+.+|.+.. +.-.+
T Consensus 145 qqLl~IYQ~treW~KAId~A~----~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-----~~cvR 215 (389)
T COG2956 145 QQLLNIYQATREWEKAIDVAE----RLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-----KKCVR 215 (389)
T ss_pred HHHHHHHHHhhHHHHHHHHHH----HHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-----cccee
Confidence 368889999999999976533 34455543 3445577777777788889999999999987653 22233
Q ss_pred HHHHHHHHHHhhcccccHHHHHHHH
Q psy4083 199 AALDLQSGILHAADEQDFKTAFSYF 223 (374)
Q Consensus 199 ~~i~~~~G~~~~~~~rdy~~A~~~F 223 (374)
+.| ..|.+++ ..|+|..|...+
T Consensus 216 Asi--~lG~v~~-~~g~y~~AV~~~ 237 (389)
T COG2956 216 ASI--ILGRVEL-AKGDYQKAVEAL 237 (389)
T ss_pred hhh--hhhHHHH-hccchHHHHHHH
Confidence 333 5688899 999999987654
No 105
>KOG0495|consensus
Probab=86.75 E-value=35 Score=36.79 Aligned_cols=120 Identities=17% Similarity=0.166 Sum_probs=79.9
Q ss_pred cchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHh
Q psy4083 92 TRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHAL 171 (374)
Q Consensus 92 ~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~ 171 (374)
++.+.-..++++++..+....-+||-- ++-+...||...|..++.... +-..+..|+.|--+++-+..
T Consensus 564 gt~Esl~Allqkav~~~pkae~lwlM~------ake~w~agdv~~ar~il~~af------~~~pnseeiwlaavKle~en 631 (913)
T KOG0495|consen 564 GTRESLEALLQKAVEQCPKAEILWLMY------AKEKWKAGDVPAARVILDQAF------EANPNSEEIWLAAVKLEFEN 631 (913)
T ss_pred CcHHHHHHHHHHHHHhCCcchhHHHHH------HHHHHhcCCcHHHHHHHHHHH------HhCCCcHHHHHHHHHHhhcc
Confidence 333444556666677665445677743 333444499999966665554 34455778999999999999
Q ss_pred CCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 172 SNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 172 ~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
..+.+++.++.+|+..+ +.++ +..-+..+.= ..++...|....=+|.+.|..
T Consensus 632 ~e~eraR~llakar~~s----gTeR----v~mKs~~~er-~ld~~eeA~rllEe~lk~fp~ 683 (913)
T KOG0495|consen 632 DELERARDLLAKARSIS----GTER----VWMKSANLER-YLDNVEEALRLLEEALKSFPD 683 (913)
T ss_pred ccHHHHHHHHHHHhccC----Ccch----hhHHHhHHHH-HhhhHHHHHHHHHHHHHhCCc
Confidence 99999999999998764 3333 3333444444 567777887777777666653
No 106
>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=86.74 E-value=22 Score=35.81 Aligned_cols=141 Identities=11% Similarity=0.056 Sum_probs=83.2
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHH
Q psy4083 37 KEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFL 116 (374)
Q Consensus 37 ~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~l 116 (374)
.-++.+.++..+...|++++..+.+....+..++-.... -..++.....- ++..+..++.+...++...++-...+
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~-~~~l~~~~~l~---~~~~~~~~~~~e~~lk~~p~~~~~~l 337 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAIS-LPLCLPIPRLK---PEDNEKLEKLIEKQAKNVDDKPKCCI 337 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccch-hHHHHHhhhcC---CCChHHHHHHHHHHHHhCCCChhHHH
Confidence 346777889999999999999888877777665542211 01333333322 33233334444333332221211122
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccc
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANS 190 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~ 190 (374)
.. -+|.+++..|+|++|.+.++... .+. . ++.. +.+..-..++...|+...+..++.++.....+
T Consensus 338 l~----sLg~l~~~~~~~~~A~~~le~a~-a~~-~-~p~~--~~~~~La~ll~~~g~~~~A~~~~~~~l~~~~~ 402 (409)
T TIGR00540 338 NR----ALGQLLMKHGEFIEAADAFKNVA-ACK-E-QLDA--NDLAMAADAFDQAGDKAEAAAMRQDSLGLMLA 402 (409)
T ss_pred HH----HHHHHHHHcccHHHHHHHHHHhH-Hhh-c-CCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Confidence 22 47999999999999976665311 011 1 1211 22445578889999999999999998665433
No 107
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=86.68 E-value=1.4 Score=28.24 Aligned_cols=23 Identities=26% Similarity=0.485 Sum_probs=20.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
.||.+|.+.|+|++|++.+.+.|
T Consensus 4 ~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 4 NLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHH
Confidence 58999999999999999999876
No 108
>PLN03218 maturation of RBCL 1; Provisional
Probab=86.21 E-value=51 Score=37.79 Aligned_cols=58 Identities=14% Similarity=0.095 Sum_probs=31.1
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~ 186 (374)
+...|.+.|++++|++++.++.+. -..+. ...|-.-+..|...+++..+..++....+
T Consensus 620 LI~ay~k~G~~deAl~lf~eM~~~---Gv~PD--~~TynsLI~a~~k~G~~eeA~~l~~eM~k 677 (1060)
T PLN03218 620 AVNSCSQKGDWDFALSIYDDMKKK---GVKPD--EVFFSALVDVAGHAGDLDKAFEILQDARK 677 (1060)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHc---CCCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 566677777777776666555421 00011 12333445555666666666666655543
No 109
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=86.09 E-value=1.6 Score=32.66 Aligned_cols=45 Identities=18% Similarity=0.178 Sum_probs=38.0
Q ss_pred HHHHHHhhccccc--eeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 284 EQNLCRIIEPYSR--VEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 284 e~~l~~~~~pYs~--I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
+..+++++..-.. ++...||+.+|++...|.+.|..|...|.+..
T Consensus 8 ~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 8 EEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 4556666666655 99999999999999999999999999998754
No 110
>PLN03218 maturation of RBCL 1; Provisional
Probab=85.99 E-value=53 Score=37.66 Aligned_cols=57 Identities=11% Similarity=0.031 Sum_probs=32.1
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSAR 185 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~ 185 (374)
+.+.|...|++++|.+++..+. +. +...-...+-.-+..|...+++..|..++....
T Consensus 655 LI~a~~k~G~~eeA~~l~~eM~----k~-G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~ 711 (1060)
T PLN03218 655 LVDVAGHAGDLDKAFEILQDAR----KQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711 (1060)
T ss_pred HHHHHHhCCCHHHHHHHHHHHH----Hc-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 5566777777777755554443 21 111112345555666667777777776666543
No 111
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=85.69 E-value=1.7 Score=26.50 Aligned_cols=31 Identities=16% Similarity=0.172 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLS 69 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~ 69 (374)
++++.++..+.+.|++++..+.+..+...+|
T Consensus 1 ~a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 1 DALYRLARCYYKLGDYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp HHHHHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence 4688999999999999999888888776655
No 112
>KOG0543|consensus
Probab=85.10 E-value=4.9 Score=40.34 Aligned_cols=99 Identities=17% Similarity=0.135 Sum_probs=77.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHh---cc------chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCC
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKL---DD------KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYC 193 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~---dd------~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~ 193 (374)
--++.|++.|+|..|...|.+.+..+... ++ ...++-+++.-.-.+..++.+..|.....++... .
T Consensus 213 e~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~-----~ 287 (397)
T KOG0543|consen 213 ERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLEL-----D 287 (397)
T ss_pred HhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhc-----C
Confidence 36889999999999999999998888642 11 4566778888888999999999999888887655 3
Q ss_pred ChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 194 PPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 194 ~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
++...+-++. |..++ ..++|..|...|.-+.+-
T Consensus 288 ~~N~KALyRr--G~A~l-~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 288 PNNVKALYRR--GQALL-ALGEYDLARDDFQKALKL 320 (397)
T ss_pred CCchhHHHHH--HHHHH-hhccHHHHHHHHHHHHHh
Confidence 4556666665 66667 789999999999888553
No 113
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=85.03 E-value=65 Score=35.38 Aligned_cols=100 Identities=11% Similarity=0.001 Sum_probs=71.5
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHh---------ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCC
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKL---------DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYC 193 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~---------dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~ 193 (374)
.|+..+.+.|++++|+..+..+...-... .......+.++....++...++++.|...+..+.... ..
T Consensus 315 ~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~---P~ 391 (765)
T PRK10049 315 DLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA---PG 391 (765)
T ss_pred HHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CC
Confidence 56777899999999987776665321100 0122456788889999999999999999999876542 12
Q ss_pred ChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 194 PPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 194 ~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
++ .+...-|.++. ..+++..|...+-.+.+-+
T Consensus 392 n~----~l~~~lA~l~~-~~g~~~~A~~~l~~al~l~ 423 (765)
T PRK10049 392 NQ----GLRIDYASVLQ-ARGWPRAAENELKKAEVLE 423 (765)
T ss_pred CH----HHHHHHHHHHH-hcCCHHHHHHHHHHHHhhC
Confidence 22 35556677777 8899999999998886643
No 114
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=84.77 E-value=1.9 Score=30.29 Aligned_cols=48 Identities=13% Similarity=0.206 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 280 DNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 280 ~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
+.++.......+.|=..+ +...||+.||+|...+.+.+..|..+|-+.
T Consensus 3 ~~l~~~i~~~~~~~~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 3 ERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQ 51 (60)
T ss_pred HHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 445555555545555667 899999999999999999999999998764
No 115
>KOG2002|consensus
Probab=84.55 E-value=75 Score=35.66 Aligned_cols=199 Identities=16% Similarity=0.122 Sum_probs=107.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh------h-------hhhhHHHHHHHHHHHHHhhccccchhhhHHHH----
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFL------S-------QISKAKAAKLVRSLVDFFLDLETRTGMEVALC---- 101 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~------~-------~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~---- 101 (374)
+..|.+++.+-..||+++...++..-.+.- + ++-.+-.+.++...-..+...|+..+. +.++
T Consensus 308 es~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~et-m~iLG~Ly 386 (1018)
T KOG2002|consen 308 ESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYET-MKILGCLY 386 (1018)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHH-HHHHHhHH
Confidence 457899999999999999988877654322 1 111223333333333333233443322 1111
Q ss_pred ------HHHHHHHHHhhHHH-------HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH
Q psy4083 102 ------KECIEWAKEERRTF-------LRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTY 168 (374)
Q Consensus 102 ------~e~i~~~~~~~r~~-------lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~ 168 (374)
.+.++-+.+--+-- ..+++ .||.+|+.. |...++..+...+..+...... .-.|+.=...-++
T Consensus 387 a~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l--~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~-ip~E~LNNvaslh 462 (1018)
T KOG2002|consen 387 AHSAKKQEKRDKASNVLGKVLEQTPVDSEAWL--ELAQLLEQT-DPWASLDAYGNALDILESKGKQ-IPPEVLNNVASLH 462 (1018)
T ss_pred HhhhhhhHHHHHHHHHHHHHHhcccccHHHHH--HHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCC-CCHHHHHhHHHHH
Confidence 01111111000000 13566 488777775 4444488888887666654333 5567777788889
Q ss_pred HHhCCHHHHHHHHHHHHhh----ccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHH
Q psy4083 169 HALSNLSTSRASLTSARTT----ANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKY 244 (374)
Q Consensus 169 ~~~~n~~~a~~~~~~a~~~----~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY 244 (374)
+..|++.+|...+..|... .|...+ ..+.-.++---+...= +-.++..|...+-+..+ ..|.++++ |
T Consensus 463 f~~g~~~~A~~~f~~A~~~~~~~~n~de~-~~~~lt~~YNlarl~E-~l~~~~~A~e~Yk~Ilk-----ehp~YId~--y 533 (1018)
T KOG2002|consen 463 FRLGNIEKALEHFKSALGKLLEVANKDEG-KSTNLTLKYNLARLLE-ELHDTEVAEEMYKSILK-----EHPGYIDA--Y 533 (1018)
T ss_pred HHhcChHHHHHHHHHHhhhhhhhcCcccc-ccchhHHHHHHHHHHH-hhhhhhHHHHHHHHHHH-----HCchhHHH--H
Confidence 9999999999999988766 222111 0111111111222222 33456666666666643 23667777 6
Q ss_pred HHHHHHh
Q psy4083 245 MLLSKIM 251 (374)
Q Consensus 245 ~vL~~iL 251 (374)
+-|.+|.
T Consensus 534 lRl~~ma 540 (1018)
T KOG2002|consen 534 LRLGCMA 540 (1018)
T ss_pred HHhhHHH
Confidence 6665444
No 116
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=84.11 E-value=41 Score=36.73 Aligned_cols=132 Identities=8% Similarity=-0.082 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQ 118 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~ 118 (374)
.+++.|+.+..+.|.+++...++..+..+-++...+...- -.+|-...+ .+.-+..+...++-..++ .. -
T Consensus 87 ~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~--a~~L~~~~~----~eeA~~~~~~~l~~~p~~-~~--~- 156 (694)
T PRK15179 87 LFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILM--LRGVKRQQG----IEAGRAEIELYFSGGSSS-AR--E- 156 (694)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHH--HHHHHHhcc----HHHHHHHHHHHhhcCCCC-HH--H-
Confidence 4566778888888888888888877777777664332221 112222211 121222222222221111 11 1
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 119 SLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 119 ~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
...+|..+-+.|+|++|..+|.+++. +..++. +..+.........|+...|...|.+|-+..
T Consensus 157 --~~~~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~----~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~ 218 (694)
T PRK15179 157 --ILLEAKSWDEIGQSEQADACFERLSR--QHPEFE----NGYVGWAQSLTRRGALWRARDVLQAGLDAI 218 (694)
T ss_pred --HHHHHHHHHHhcchHHHHHHHHHHHh--cCCCcH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence 12478889999999999999999985 111222 345555677778899999999999986653
No 117
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=83.21 E-value=87 Score=35.69 Aligned_cols=92 Identities=15% Similarity=0.095 Sum_probs=53.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|.++.+.|++++|+..+.+.+. .+.. . .+.+..-..++...+++..+...+.+|.... ..++ .+.
T Consensus 614 ~LA~~l~~lG~~deA~~~l~~AL~----l~Pd-~-~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~---P~~~----~a~ 680 (987)
T PRK09782 614 ARATIYRQRHNVPAAVSDLRAALE----LEPN-N-SNYQAALGYALWDSGDIAQSREMLERAHKGL---PDDP----ALI 680 (987)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH----hCCC-C-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCH----HHH
Confidence 456677777777777666655542 1111 1 1344444555666777777777777765542 0122 334
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
..-|.++. ..+++..|..+|-.+++
T Consensus 681 ~nLA~al~-~lGd~~eA~~~l~~Al~ 705 (987)
T PRK09782 681 RQLAYVNQ-RLDDMAATQHYARLVID 705 (987)
T ss_pred HHHHHHHH-HCCCHHHHHHHHHHHHh
Confidence 45566666 77777777777777754
No 118
>KOG4626|consensus
Probab=83.20 E-value=8 Score=41.18 Aligned_cols=24 Identities=21% Similarity=0.407 Sum_probs=19.4
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
.||.+|-+.|++++|+.+|++.++
T Consensus 393 NLa~i~kqqgnl~~Ai~~Ykealr 416 (966)
T KOG4626|consen 393 NLASIYKQQGNLDDAIMCYKEALR 416 (966)
T ss_pred hHHHHHHhcccHHHHHHHHHHHHh
Confidence 478888888888888888877764
No 119
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=82.81 E-value=25 Score=34.89 Aligned_cols=79 Identities=16% Similarity=0.211 Sum_probs=56.4
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..|...|++++|+..+.+++. .+.. -.+.++....+++..|++..|...+.++.... ..++..+..+.
T Consensus 41 ~~a~~~~~~g~~~eAl~~~~~Al~----l~P~--~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~---P~~~~~~~~l~ 111 (356)
T PLN03088 41 DRAQANIKLGNFTEAVADANKAIE----LDPS--LAKAYLRKGTACMKLEEYQTAKAALEKGASLA---PGDSRFTKLIK 111 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH----hCcC--CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC---CCCHHHHHHHH
Confidence 367778888999999877776653 1221 23456667788888999999999998887763 24677777777
Q ss_pred HHHHHHhh
Q psy4083 203 LQSGILHA 210 (374)
Q Consensus 203 ~~~G~~~~ 210 (374)
.|.+.+.-
T Consensus 112 ~~~~kl~~ 119 (356)
T PLN03088 112 ECDEKIAE 119 (356)
T ss_pred HHHHHHHh
Confidence 77777643
No 120
>PRK11189 lipoprotein NlpI; Provisional
Probab=82.80 E-value=26 Score=33.56 Aligned_cols=91 Identities=15% Similarity=0.078 Sum_probs=57.4
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
+|.+|...|++++|...+.+.++ .+.. ..+.+...-.++...+++..+...+.++.... |.-. ....
T Consensus 70 ~g~~~~~~g~~~~A~~~~~~Al~----l~P~--~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~------P~~~-~a~~ 136 (296)
T PRK11189 70 RGVLYDSLGLRALARNDFSQALA----LRPD--MADAYNYLGIYLTQAGNFDAAYEAFDSVLELD------PTYN-YAYL 136 (296)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHH----cCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC------CCCH-HHHH
Confidence 56677777888888766665553 1111 13556666677778888888888877776542 2111 1233
Q ss_pred HHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.-|.++. ..++|..|...|-.+.+
T Consensus 137 ~lg~~l~-~~g~~~eA~~~~~~al~ 160 (296)
T PRK11189 137 NRGIALY-YGGRYELAQDDLLAFYQ 160 (296)
T ss_pred HHHHHHH-HCCCHHHHHHHHHHHHH
Confidence 4566666 67888888877777755
No 121
>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=82.69 E-value=4.8 Score=36.14 Aligned_cols=43 Identities=14% Similarity=0.313 Sum_probs=34.6
Q ss_pred hcChHHHhhHHH-HHHHHHHHHHHHhhccccc-eeHHHHHhHhCC
Q psy4083 266 EDDTIVKAHIGT-LYDNMLEQNLCRIIEPYSR-VEVGFIAKSIKL 308 (374)
Q Consensus 266 ~~D~~l~~h~~~-L~~~ire~~l~~~~~pYs~-I~l~~lA~~l~l 308 (374)
...+++..++-. +...+|.+++..+...|.+ |+++.+++.||.
T Consensus 160 ~~~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 160 KSAPYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp TTS-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 566667666554 8899999999999999999 999999999873
No 122
>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=82.59 E-value=3.2 Score=28.40 Aligned_cols=41 Identities=20% Similarity=0.238 Sum_probs=30.3
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHH
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRS 82 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ 82 (374)
+++++.|.+.||.++..+.+..+..--+.--+..+.+++++
T Consensus 3 LdLA~ayie~Gd~e~Ar~lL~evl~~~~~~q~~eA~~LL~~ 43 (44)
T TIGR03504 3 LDLARAYIEMGDLEGARELLEEVIEEGDEAQRQEARALLAQ 43 (44)
T ss_pred hHHHHHHHHcCChHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence 57899999999999999999988854333335555565543
No 123
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=82.47 E-value=2.5 Score=28.79 Aligned_cols=34 Identities=15% Similarity=0.291 Sum_probs=30.5
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
..++...||+.||++...+.+.|..|...|.+..
T Consensus 13 ~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 13 GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 4589999999999999999999999999887653
No 124
>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=82.41 E-value=3.3 Score=28.27 Aligned_cols=42 Identities=10% Similarity=0.181 Sum_probs=33.0
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
..++.++.-=..++...||+.+|+|...+-+.+-+|+..|-|
T Consensus 6 ~~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 6 RKILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 344455555567999999999999999999999999999865
No 125
>KOG3617|consensus
Probab=82.34 E-value=60 Score=36.04 Aligned_cols=175 Identities=17% Similarity=0.164 Sum_probs=95.3
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhhH--------------HH-----HHHHHHHHHHhhccccchhhhHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISKA--------------KA-----AKLVRSLVDFFLDLETRTGMEVALCKECI 105 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~--------------~~-----~k~i~~ild~~~~~~~~~~~~~~l~~e~i 105 (374)
-.+|+++++||.|+.+++..-..-..+.-+ |+ ..=|...|+++.+.....-....++.|..
T Consensus 820 ~~lYr~ckR~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p 899 (1416)
T KOG3617|consen 820 LILYRQCKRYDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYP 899 (1416)
T ss_pred HHHHHHHHHHHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhCh
Confidence 677888888888888776543222222111 11 12277888888775432222333443332
Q ss_pred HHHHHhhHHHHHHH----HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh-----ccchhH----------HHHHHHHHH
Q psy4083 106 EWAKEERRTFLRQS----LEARLIALYFDTGEYTEALKLSSSLLKELKKL-----DDKNLL----------VEVLLLESK 166 (374)
Q Consensus 106 ~~~~~~~r~~lr~~----l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~-----dd~~~~----------lev~l~ei~ 166 (374)
... +.|++.. |=..-+.+++..|+.+.|+..|...-....-. -++..+ .--+....|
T Consensus 900 ~~~----e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR 975 (1416)
T KOG3617|consen 900 KQI----EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLAR 975 (1416)
T ss_pred HHH----HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHH
Confidence 221 2222111 11134777888899999998887664332211 122222 223445578
Q ss_pred HHHHhCCHHHHHHHHHHHHhhccccC-C-ChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 167 TYHALSNLSTSRASLTSARTTANSIY-C-PPKMQAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 167 l~~~~~n~~~a~~~~~~a~~~~~~~~-~-~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
+|-..+++.+|-..+++|++..|++- | ...++.++ .-+..++..+|--.|+.||=|.
T Consensus 976 ~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L---~nlal~s~~~d~v~aArYyEe~ 1034 (1416)
T KOG3617|consen 976 MYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRL---ANLALMSGGSDLVSAARYYEEL 1034 (1416)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHH---HHHHhhcCchhHHHHHHHHHHc
Confidence 88899999999999999998876541 1 12233322 2222232455556666665554
No 126
>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=82.11 E-value=50 Score=31.81 Aligned_cols=183 Identities=14% Similarity=0.135 Sum_probs=102.9
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHH
Q psy4083 43 QLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEA 122 (374)
Q Consensus 43 ~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~ 122 (374)
.++..+...|++++..+.+......-+.-+ ...-.+-.+.... +..+.-+..+.+.++.............+
T Consensus 119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~~~--~~~~~la~i~~~~----g~~~eA~~~l~~~l~~~~~~~~~~~~~~~-- 190 (355)
T cd05804 119 MLAFGLEEAGQYDRAEEAARRALELNPDDA--WAVHAVAHVLEMQ----GRFKEGIAFMESWRDTWDCSSMLRGHNWW-- 190 (355)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhhCCCCc--HHHHHHHHHHHHc----CCHHHHHHHHHhhhhccCCCcchhHHHHH--
Confidence 446677777888877666666555443331 1112222222211 22233344443444322111122233333
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHH---------H-HH-h-------cc-----c--hhHHH-------------HHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKE---------L-KK-L-------DD-----K--NLLVE-------------VLLLE 164 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~e---------l-~~-~-------dd-----~--~~~le-------------v~l~e 164 (374)
.++.++...|++++|+..+.+.+.. . .. . .. . ....+ .-+..
T Consensus 191 ~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~ 270 (355)
T cd05804 191 HLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHA 270 (355)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHH
Confidence 4788899999999998888775411 0 00 0 00 0 00111 11245
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhcccc--CCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCccc
Q psy4083 165 SKTYHALSNLSTSRASLTSARTTANSI--YCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVD 234 (374)
Q Consensus 165 i~l~~~~~n~~~a~~~~~~a~~~~~~~--~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~ 234 (374)
.+.+...++...+...+...+...... .........+..+.++.+. ..|||.+|...+-++..--...|
T Consensus 271 a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~-~~g~~~~A~~~L~~al~~a~~~g 341 (355)
T cd05804 271 ALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAF-AEGNYATALELLGPVRDDLARIG 341 (355)
T ss_pred HHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHH-HcCCHHHHHHHHHHHHHHHHHhC
Confidence 666778888999998888876654321 1123345578899999999 99999999999999976554443
No 127
>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=81.82 E-value=3.8 Score=28.74 Aligned_cols=42 Identities=5% Similarity=0.181 Sum_probs=32.2
Q ss_pred HHHHHHHhh-ccccceeHHHHHhHhCCChHHHHHHHHHHhhcC
Q psy4083 283 LEQNLCRII-EPYSRVEVGFIAKSIKLDELAVEKKLSQMILDK 324 (374)
Q Consensus 283 re~~l~~~~-~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dg 324 (374)
|...+++++ +.=..|+.+.||+.||+|..-|.+.|..+-..|
T Consensus 1 R~~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 1 RQKQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 344555666 322339999999999999999999999998777
No 128
>KOG4234|consensus
Probab=81.73 E-value=13 Score=34.34 Aligned_cols=92 Identities=17% Similarity=0.127 Sum_probs=61.8
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHh---hHHHHHHHH
Q psy4083 44 LGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEE---RRTFLRQSL 120 (374)
Q Consensus 44 l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~---~r~~lr~~l 120 (374)
=+--+|..|+|++.+.-+..-...++..+. =+|.|+=.. ....-.++.-+..+|+.|+.. +-++-|+-.
T Consensus 101 EGN~~F~ngdyeeA~skY~~Ale~cp~~~~-----e~rsIly~N---raaa~iKl~k~e~aI~dcsKaiel~pty~kAl~ 172 (271)
T KOG4234|consen 101 EGNELFKNGDYEEANSKYQEALESCPSTST-----EERSILYSN---RAAALIKLRKWESAIEDCSKAIELNPTYEKALE 172 (271)
T ss_pred HHHHhhhcccHHHHHHHHHHHHHhCccccH-----HHHHHHHhh---hHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHH
Confidence 356688899999998888777777665533 234444322 122344566667778877633 233346655
Q ss_pred HHHHHHHHHhccCHHHHHHHHHHHH
Q psy4083 121 EARLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 121 ~~kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
|.|..|.+...|++|++-|..++
T Consensus 173 --RRAeayek~ek~eealeDyKki~ 195 (271)
T KOG4234|consen 173 --RRAEAYEKMEKYEEALEDYKKIL 195 (271)
T ss_pred --HHHHHHHhhhhHHHHHHHHHHHH
Confidence 77899999999999998887776
No 129
>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=81.43 E-value=39 Score=30.09 Aligned_cols=36 Identities=14% Similarity=0.228 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh
Q psy4083 36 AKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQI 71 (374)
Q Consensus 36 ~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~ 71 (374)
+..++...++.+|++.||.++..+.+...+.+....
T Consensus 34 sir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~ 69 (177)
T PF10602_consen 34 SIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSP 69 (177)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCH
Confidence 334666677999999999999988888777776554
No 130
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=81.02 E-value=2.7 Score=31.02 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=33.2
Q ss_pred HHHhhcc-ccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 287 LCRIIEP-YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 287 l~~~~~p-Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
++.+++- ..-++-..+|+.+|++.-.+..+|..|-.+|++.
T Consensus 5 Il~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 5 ILEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp HHHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred HHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 3444444 6779999999999999999999999999999885
No 131
>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=80.66 E-value=58 Score=34.76 Aligned_cols=120 Identities=15% Similarity=0.125 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHHHHHHH-hccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhcccc
Q psy4083 113 RTFLRQSLEARLIALYF-DTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSI 191 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~-~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~ 191 (374)
+...+.++ ++|.+++ ++.+++.|-..+++-+.-.++..--..++.+.+.-++++...+-.. +..++.++.+....
T Consensus 56 ~~ea~~~l--~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~- 131 (608)
T PF10345_consen 56 RQEARVRL--RLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSET- 131 (608)
T ss_pred HHHHHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhc-
Confidence 66667777 8999987 6689999977776554433332113345556666688887776655 88888876554322
Q ss_pred CCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchh
Q psy4083 192 YCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNH 237 (374)
Q Consensus 192 ~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~ 237 (374)
+++....-.++.+...+++ ..+|+..|...+-......+..|++.
T Consensus 132 ~~~~~w~~~frll~~~l~~-~~~d~~~Al~~L~~~~~~a~~~~d~~ 176 (608)
T PF10345_consen 132 YGHSAWYYAFRLLKIQLAL-QHKDYNAALENLQSIAQLANQRGDPA 176 (608)
T ss_pred cCchhHHHHHHHHHHHHHH-hcccHHHHHHHHHHHHHHhhhcCCHH
Confidence 2332222344445455555 44899999988766655444455543
No 132
>KOG1126|consensus
Probab=80.54 E-value=22 Score=37.89 Aligned_cols=92 Identities=17% Similarity=0.093 Sum_probs=52.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..|--++|++.|++++++.++ -|+..----.|+- .=+.....+.++..++.+|.. .+|+.=+..+
T Consensus 426 a~GNcfSLQkdh~~Aik~f~RAiQ-----ldp~faYayTLlG-hE~~~~ee~d~a~~~fr~Al~------~~~rhYnAwY 493 (638)
T KOG1126|consen 426 ALGNCFSLQKDHDTAIKCFKRAIQ-----LDPRFAYAYTLLG-HESIATEEFDKAMKSFRKALG------VDPRHYNAWY 493 (638)
T ss_pred HhcchhhhhhHHHHHHHHHHHhhc-----cCCccchhhhhcC-ChhhhhHHHHhHHHHHHhhhc------CCchhhHHHH
Confidence 568888778999999999988874 2221100000000 001233356777777776543 4555443333
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
-+ |.+|+ ..++|+.|--.|--|++
T Consensus 494 Gl-G~vy~-Kqek~e~Ae~~fqkA~~ 517 (638)
T KOG1126|consen 494 GL-GTVYL-KQEKLEFAEFHFQKAVE 517 (638)
T ss_pred hh-hhhee-ccchhhHHHHHHHhhhc
Confidence 32 45667 77777777777766654
No 133
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=80.05 E-value=34 Score=28.55 Aligned_cols=98 Identities=19% Similarity=0.105 Sum_probs=74.4
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+-..|+.++|+..|.+.+. .--+.....+..+.-...+..+|.+..+...++.+..- .+++...+.++
T Consensus 6 ~~A~a~d~~G~~~~Ai~~Y~~Al~---~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~----~p~~~~~~~l~ 78 (120)
T PF12688_consen 6 ELAWAHDSLGREEEAIPLYRRALA---AGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE----FPDDELNAALR 78 (120)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHH---cCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----CCCccccHHHH
Confidence 356677788999999999887764 11134455667777778888999999999999887543 25556677777
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...+.... ..+++++|.+.|+.++.
T Consensus 79 ~f~Al~L~-~~gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 79 VFLALALY-NLGRPKEALEWLLEALA 103 (120)
T ss_pred HHHHHHHH-HCCCHHHHHHHHHHHHH
Confidence 77777767 88999999999999864
No 134
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=79.93 E-value=29 Score=30.04 Aligned_cols=83 Identities=14% Similarity=0.125 Sum_probs=53.4
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHH
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQ 204 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~ 204 (374)
|.-.++.|+|.+|.+.++.|. .+.-.+...=...|..+..|+..++++.+.+.+..-.+.- ..||.+--.+ -.
T Consensus 17 a~~~l~~~~Y~~A~~~le~L~---~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh---P~hp~vdYa~-Y~ 89 (142)
T PF13512_consen 17 AQEALQKGNYEEAIKQLEALD---TRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH---PTHPNVDYAY-YM 89 (142)
T ss_pred HHHHHHhCCHHHHHHHHHHHH---hcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC---CCCCCccHHH-HH
Confidence 445667899999976665553 1223344444567778899999999999998888755542 2466654333 34
Q ss_pred HHHHhhccccc
Q psy4083 205 SGILHAADEQD 215 (374)
Q Consensus 205 ~G~~~~~~~rd 215 (374)
.|+.++ ....
T Consensus 90 ~gL~~~-~~~~ 99 (142)
T PF13512_consen 90 RGLSYY-EQDE 99 (142)
T ss_pred HHHHHH-HHhh
Confidence 566666 4433
No 135
>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=79.92 E-value=6 Score=28.80 Aligned_cols=52 Identities=15% Similarity=0.243 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
+.+++.++......-+.|=+.+ +...||+.||+|...+.+-+..|..+|-+.
T Consensus 3 ~~i~~~l~~~I~~g~~~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~ 55 (64)
T PF00392_consen 3 EQIYDQLRQAILSGRLPPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIE 55 (64)
T ss_dssp HHHHHHHHHHHHTTSS-TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHcCCCCCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEE
Confidence 4567777777777788888999 999999999999999999999999999774
No 136
>KOG1941|consensus
Probab=79.92 E-value=39 Score=33.94 Aligned_cols=111 Identities=16% Similarity=0.100 Sum_probs=73.8
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccC-CCh-------
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIY-CPP------- 195 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~-~~~------- 195 (374)
++.-++-.+-++++++.++..++-.+..+|...-+.||.--..+|...+|+.|+..+..+|-.+.++.- .+|
T Consensus 128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~ 207 (518)
T KOG1941|consen 128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM 207 (518)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence 566677777888888888888776666777777777777777788888888887777766655554421 222
Q ss_pred -----------------------------------hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccc
Q psy4083 196 -----------------------------------KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDH 235 (374)
Q Consensus 196 -----------------------------------~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~ 235 (374)
.++++=-.+.|.+|= ..+|-++|+..|=+|+.+-.+.|+
T Consensus 208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR-~~gd~e~af~rYe~Am~~m~~~gd 281 (518)
T KOG1941|consen 208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR-SRGDLERAFRRYEQAMGTMASLGD 281 (518)
T ss_pred HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH-hcccHhHHHHHHHHHHHHHhhhhh
Confidence 222333345555666 667777777776666666555555
No 137
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.75 E-value=49 Score=30.29 Aligned_cols=77 Identities=17% Similarity=0.147 Sum_probs=50.7
Q ss_pred HHHHHH-HhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHH
Q psy4083 104 CIEWAK-EERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLT 182 (374)
Q Consensus 104 ~i~~~~-~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~ 182 (374)
-++|+. ..+.--|+.-+..|||++.++.|++++|++.+..+- +.+..=-+.-..=.++..+||-..++..|.
T Consensus 111 qL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-------~~~w~~~~~elrGDill~kg~k~~Ar~ay~ 183 (207)
T COG2976 111 QLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-------EESWAAIVAELRGDILLAKGDKQEARAAYE 183 (207)
T ss_pred HHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-------cccHHHHHHHHhhhHHHHcCchHHHHHHHH
Confidence 355543 122344555555689999999999999987765442 111111122233457789999999999999
Q ss_pred HHHhh
Q psy4083 183 SARTT 187 (374)
Q Consensus 183 ~a~~~ 187 (374)
+|...
T Consensus 184 kAl~~ 188 (207)
T COG2976 184 KALES 188 (207)
T ss_pred HHHHc
Confidence 99876
No 138
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=79.54 E-value=1.1e+02 Score=34.10 Aligned_cols=136 Identities=18% Similarity=0.085 Sum_probs=97.1
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh-----hhH-HHHHHHHHHHHHhhccccchhhhHHHHHHHHHHH
Q psy4083 35 KAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQI-----SKA-KAAKLVRSLVDFFLDLETRTGMEVALCKECIEWA 108 (374)
Q Consensus 35 k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~-----~k~-~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~ 108 (374)
.+.=++++-.+=......++++...+|.++..+++.. ..- ...-.++.++..+. +..+.-.++.+..+...
T Consensus 412 ~~~P~Lvll~aW~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~---~~~e~a~~lar~al~~L 488 (894)
T COG2909 412 ASTPRLVLLQAWLLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNR---GDPEEAEDLARLALVQL 488 (894)
T ss_pred hhCchHHHHHHHHHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHhc
Confidence 3444566777888889999999999999999999762 111 23366777777663 33455566666666654
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCH
Q psy4083 109 KEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNL 174 (374)
Q Consensus 109 ~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~ 174 (374)
- ++.-+.|.-...-++....=.|++++|+.++....+-.++++.-.+-+=..+.++.+..++|..
T Consensus 489 ~-~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~ 553 (894)
T COG2909 489 P-EAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQV 553 (894)
T ss_pred c-cccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHH
Confidence 3 2234446555556788888889999999998888777777777667777778899999999933
No 139
>KOG0624|consensus
Probab=79.53 E-value=34 Score=34.14 Aligned_cols=142 Identities=17% Similarity=0.112 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHH-HHHHHHHHHhhccccch-hhhHHHHHHHHHHH-HHh-hHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAA-KLVRSLVDFFLDLETRT-GMEVALCKECIEWA-KEE-RRTF 115 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~-k~i~~ild~~~~~~~~~-~~~~~l~~e~i~~~-~~~-~r~~ 115 (374)
..|++.++++..|+.+.-+.-+....++-+.-.+.+.- |-++++...+....... +....-|.+.=+.. +++ ..+-
T Consensus 225 ~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ 304 (504)
T KOG0624|consen 225 GHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETM 304 (504)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccc
Confidence 46778999999999988766666666655554333322 44555544442211100 11122222221111 111 1244
Q ss_pred HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 116 LRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 116 lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
+|-+.-+.++..|-.-|++.+|+....++| +...--++++......|+....|..|-.-|.+|...
T Consensus 305 ir~~~~r~~c~C~~~d~~~~eAiqqC~evL------~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~ 370 (504)
T KOG0624|consen 305 IRYNGFRVLCTCYREDEQFGEAIQQCKEVL------DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL 370 (504)
T ss_pred eeeeeeheeeecccccCCHHHHHHHHHHHH------hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence 455544457777778899999987777776 333334667777778887777788777777777654
No 140
>PRK11189 lipoprotein NlpI; Provisional
Probab=79.38 E-value=60 Score=31.06 Aligned_cols=126 Identities=10% Similarity=-0.024 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQS 119 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~ 119 (374)
..+..+.++...|++++....+......-+..+.+..... .+.... +..+.-++.+..+++...+... ..
T Consensus 66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg--~~~~~~----g~~~~A~~~~~~Al~l~P~~~~----a~ 135 (296)
T PRK11189 66 LHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLG--IYLTQA----GNFDAAYEAFDSVLELDPTYNY----AY 135 (296)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHH--HHHHHC----CCHHHHHHHHHHHHHhCCCCHH----HH
Confidence 3456688888999999988777777766555533332211 111111 2223334444444443221222 22
Q ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 120 LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 120 l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
. .+|..+...|++++|++.+.+.++. .-++.. ...-..++...+++.++...+.++
T Consensus 136 ~--~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~-----~~~~~~l~~~~~~~~~A~~~l~~~ 191 (296)
T PRK11189 136 L--NRGIALYYGGRYELAQDDLLAFYQD--DPNDPY-----RALWLYLAESKLDPKQAKENLKQR 191 (296)
T ss_pred H--HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHH-----HHHHHHHHHccCCHHHHHHHHHHH
Confidence 3 4677888899999998888777641 011221 111112334556788888777554
No 141
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=78.91 E-value=55 Score=32.98 Aligned_cols=124 Identities=11% Similarity=0.032 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQS 119 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~ 119 (374)
+...++..+..+|++++..+.+.+-.+..-+- . +...++++. |+.....++.+...++|..++ - .
T Consensus 265 l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~------~-L~~~~~~l~--~~d~~~l~k~~e~~l~~h~~~-p-----~ 329 (400)
T COG3071 265 LVVAYAERLIRLGDHDEAQEIIEDALKRQWDP------R-LCRLIPRLR--PGDPEPLIKAAEKWLKQHPED-P-----L 329 (400)
T ss_pred HHHHHHHHHHHcCChHHHHHHHHHHHHhccCh------h-HHHHHhhcC--CCCchHHHHHHHHHHHhCCCC-h-----h
Confidence 34455555566666666555555444332222 1 333344442 232344455554445444322 1 1
Q ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q psy4083 120 LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSAR 185 (374)
Q Consensus 120 l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~ 185 (374)
+-..||.+++..+.|.+|-+.+...+ +..--.+-+..-..++-.+|+..++.+....+.
T Consensus 330 L~~tLG~L~~k~~~w~kA~~~leaAl-------~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L 388 (400)
T COG3071 330 LLSTLGRLALKNKLWGKASEALEAAL-------KLRPSASDYAELADALDQLGEPEEAEQVRREAL 388 (400)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHH-------hcCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence 12236666666666666643333222 111112233444455556666666655555544
No 142
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=78.67 E-value=1e+02 Score=35.17 Aligned_cols=90 Identities=9% Similarity=0.024 Sum_probs=64.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.++..+.+.|++++|+..+.+.++ .++ .-.+++..-..++...|++..+..++.++.... |. .+.++
T Consensus 648 nLG~aL~~~G~~eeAi~~l~~AL~-----l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~------P~-~a~i~ 714 (987)
T PRK09782 648 ALGYALWDSGDIAQSREMLERAHK-----GLP-DDPALIRQLAYVNQRLDDMAATQHYARLVIDDI------DN-QALIT 714 (987)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH-----hCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC------CC-Cchhh
Confidence 478889999999999988877764 122 223667777888899999999999999986542 32 24555
Q ss_pred HHHHHHhhcccccHHHHHHHHHHh
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
...|.+.. ...+|..|.+.+--.
T Consensus 715 ~~~g~~~~-~~~~~~~a~~~~~r~ 737 (987)
T PRK09782 715 PLTPEQNQ-QRFNFRRLHEEVGRR 737 (987)
T ss_pred hhhhHHHH-HHHHHHHHHHHHHHH
Confidence 66676666 667777777765544
No 143
>KOG1538|consensus
Probab=78.47 E-value=89 Score=33.79 Aligned_cols=149 Identities=16% Similarity=0.258 Sum_probs=79.0
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARL 124 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kL 124 (374)
+++.-+.|.-.-.+|+++.+|-| ..++..|. .++..++-.+++.--+||.+-+. -+.-
T Consensus 652 AklFk~~G~enRAlEmyTDlRMF----------D~aQE~~~-----~g~~~eKKmL~RKRA~WAr~~ke-------PkaA 709 (1081)
T KOG1538|consen 652 AKLFKRSGHENRALEMYTDLRMF----------DYAQEFLG-----SGDPKEKKMLIRKRADWARNIKE-------PKAA 709 (1081)
T ss_pred HHHHHHcCchhhHHHHHHHHHHH----------HHHHHHhh-----cCChHHHHHHHHHHHHHhhhcCC-------cHHH
Confidence 77777777777777777777633 11222222 23345555566666677763321 1124
Q ss_pred HHHHHhccCHHHHHHHHH-----HHHHHHHH-hc----cchhHHHHHH--------------------HHHHHHHHhCCH
Q psy4083 125 IALYFDTGEYTEALKLSS-----SLLKELKK-LD----DKNLLVEVLL--------------------LESKTYHALSNL 174 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~-----~ll~el~~-~d----d~~~~lev~l--------------------~ei~l~~~~~n~ 174 (374)
|+++...|+..+|+.++. +++-++.+ .+ +...++--++ ..++++...++|
T Consensus 710 AEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W 789 (1081)
T KOG1538|consen 710 AEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRW 789 (1081)
T ss_pred HHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccc
Confidence 556677788877766542 23333321 11 1111111111 223334444444
Q ss_pred HHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 175 STSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 175 ~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
+.|-++- -.+|+....++...|.... +...|.+|.+.|..|
T Consensus 790 ~eAFalA----------e~hPe~~~dVy~pyaqwLA-E~DrFeEAqkAfhkA 830 (1081)
T KOG1538|consen 790 DEAFALA----------EKHPEFKDDVYMPYAQWLA-ENDRFEEAQKAFHKA 830 (1081)
T ss_pred hHhHhhh----------hhCccccccccchHHHHhh-hhhhHHHHHHHHHHh
Confidence 4433221 1477777777777788766 777777777777655
No 144
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=78.44 E-value=79 Score=34.15 Aligned_cols=58 Identities=16% Similarity=0.102 Sum_probs=32.5
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~ 186 (374)
+...|.+.|++++|++++.++.+ .. -..-...+..-+..|...+++..++..+....+
T Consensus 296 li~~y~~~g~~~eA~~lf~~M~~----~g-~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~ 353 (697)
T PLN03081 296 MLAGYALHGYSEEALCLYYEMRD----SG-VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR 353 (697)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHH----cC-CCCCHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence 66677777888888666655532 10 000011344455666666666666666655443
No 145
>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=78.25 E-value=39 Score=28.26 Aligned_cols=81 Identities=23% Similarity=0.253 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhcc---
Q psy4083 113 RTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTAN--- 189 (374)
Q Consensus 113 r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~--- 189 (374)
..|+.... +++..+.+.|++++|+..+.+++. .+.- -=+++..-++.+...|+...|...|...+..-.
T Consensus 59 ~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~l~----~dP~--~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~el 130 (146)
T PF03704_consen 59 ELYLDALE--RLAEALLEAGDYEEALRLLQRALA----LDPY--DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREEL 130 (146)
T ss_dssp HHHHHHHH--HHHHHHHHTT-HHHHHHHHHHHHH----HSTT---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH--HHHHHHHhccCHHHHHHHHHHHHh----cCCC--CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHh
Confidence 34555444 789999999999999877766653 2222 224677788999999999999999988644321
Q ss_pred ccCCChhhhHHH
Q psy4083 190 SIYCPPKMQAAL 201 (374)
Q Consensus 190 ~~~~~~~~~~~i 201 (374)
.+-|.|.++..+
T Consensus 131 g~~Ps~~~~~l~ 142 (146)
T PF03704_consen 131 GIEPSPETRALY 142 (146)
T ss_dssp S----HHHHHHH
T ss_pred CcCcCHHHHHHH
Confidence 223455555443
No 146
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=78.24 E-value=40 Score=30.39 Aligned_cols=95 Identities=14% Similarity=0.091 Sum_probs=59.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHH-HHhhccccc--hhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLV-DFFLDLETR--TGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~il-d~~~~~~~~--~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
.+.++.++...|++++..+.+.......+.-+....... .++ ... +. .+.-.+++.+.++--- ....
T Consensus 76 w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA--~aL~~~~----g~~~~~~A~~~l~~al~~dP----~~~~ 145 (198)
T PRK10370 76 WALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALA--TVLYYQA----GQHMTPQTREMIDKALALDA----NEVT 145 (198)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH--HHHHHhc----CCCCcHHHHHHHHHHHHhCC----CChh
Confidence 456799999999999998888887777665433222211 111 111 11 1333555555554322 2233
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHH
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKE 147 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~e 147 (374)
... -||..+++.|+|++|+..+.++++.
T Consensus 146 al~--~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 146 ALM--LLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred HHH--HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 444 4788899999999999998888753
No 147
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=78.19 E-value=60 Score=30.37 Aligned_cols=126 Identities=10% Similarity=0.098 Sum_probs=76.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH----------------HHhCCHHHHHHHHHHHHh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTY----------------HALSNLSTSRASLTSART 186 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~----------------~~~~n~~~a~~~~~~a~~ 186 (374)
.+|..|+..|+|++|+..+.+.++.... +..++-.+...-++ ...+|...++.++..-.+
T Consensus 74 ~la~ayy~~~~y~~A~~~~e~fi~~~P~----~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~ 149 (243)
T PRK10866 74 DLIYAYYKNADLPLAQAAIDRFIRLNPT----HPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSK 149 (243)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHhCcC----CCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHH
Confidence 5888999999999998888877753322 22233222221111 122366666655555444
Q ss_pred hccccCCChh-----------hhH---HHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhc
Q psy4083 187 TANSIYCPPK-----------MQA---ALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIML 252 (374)
Q Consensus 187 ~~~~~~~~~~-----------~~~---~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~ 252 (374)
+.+ -+|+.. +++ .-...-|..++ ..++|..|...|-...++|... +...++|.+++-+-.-.
T Consensus 150 li~-~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~-~~~~y~AA~~r~~~v~~~Yp~t--~~~~eal~~l~~ay~~l 225 (243)
T PRK10866 150 LVR-GYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYT-KRGAYVAVVNRVEQMLRDYPDT--QATRDALPLMENAYRQL 225 (243)
T ss_pred HHH-HCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HcCchHHHHHHHHHHHHHCCCC--chHHHHHHHHHHHHHHc
Confidence 432 233321 111 22345677888 9999999999999999999754 44556777777665544
Q ss_pred CCch
Q psy4083 253 NTPE 256 (374)
Q Consensus 253 ~~~~ 256 (374)
+.++
T Consensus 226 g~~~ 229 (243)
T PRK10866 226 QLNA 229 (243)
T ss_pred CChH
Confidence 4433
No 148
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=77.79 E-value=11 Score=35.88 Aligned_cols=62 Identities=11% Similarity=0.126 Sum_probs=48.6
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~ 186 (374)
-.||.+|+..|+|++|+..+..+++. .-+....-+..+....++...|++..++..|.....
T Consensus 184 y~LG~~y~~~g~~~~A~~~f~~vv~~---yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~ 245 (263)
T PRK10803 184 YWLGQLNYNKGKKDDAAYYFASVVKN---YPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK 245 (263)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 37999999999999999888887743 334445556666677788899999999999987643
No 149
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=77.78 E-value=2.3 Score=25.91 Aligned_cols=25 Identities=36% Similarity=0.701 Sum_probs=21.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKE 147 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~e 147 (374)
++|..|...|++++|.+.+.+++..
T Consensus 5 ~~a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 5 RLARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHH
Confidence 5788999999999999888888754
No 150
>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=77.78 E-value=7.5 Score=29.91 Aligned_cols=49 Identities=12% Similarity=0.001 Sum_probs=37.0
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcc
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEI 345 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~ 345 (374)
.++...||+.+|+|+..+++.+..|...|-+...=-+ +|-....++++.
T Consensus 25 ~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~-~GGy~L~~~~~~ 73 (83)
T PF02082_consen 25 PVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGR-GGGYRLARPPEE 73 (83)
T ss_dssp -BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETST-TSEEEESS-CCG
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCC-CCceeecCCHHH
Confidence 3999999999999999999999999999988765444 444555455544
No 151
>PRK09954 putative kinase; Provisional
Probab=77.72 E-value=5.6 Score=39.31 Aligned_cols=55 Identities=16% Similarity=0.330 Sum_probs=46.2
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce---eecCCCCeEEE
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG---ILDQGEKVLIV 339 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a---kID~~~giv~~ 339 (374)
+.++.+++--.+++...||+.||++...|.+.|.+|..+|.+.+ .+|+..+++.+
T Consensus 6 ~~il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~vi 63 (362)
T PRK09954 6 KEILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVV 63 (362)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEE
Confidence 34566666667999999999999999999999999999998854 78888877654
No 152
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=77.69 E-value=10 Score=27.00 Aligned_cols=58 Identities=14% Similarity=0.209 Sum_probs=43.7
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 163 LESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 163 ~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...+.++..||+..+...+..+... +|. .......-|.++. ..++|.+|...|-++.+
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~------~P~-~~~a~~~lg~~~~-~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQ------DPD-NPEAWYLLGRILY-QQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCC------STT-HHHHHHHHHHHHH-HTT-HHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHH------CCC-CHHHHHHHHHHHH-HcCCHHHHHHHHHHHHH
Confidence 3457788999999999999887543 233 3455667788889 99999999988877754
No 153
>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=77.63 E-value=8 Score=27.49 Aligned_cols=50 Identities=8% Similarity=0.127 Sum_probs=38.6
Q ss_pred HHHHhhccccc--eeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCC
Q psy4083 286 NLCRIIEPYSR--VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEK 335 (374)
Q Consensus 286 ~l~~~~~pYs~--I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~g 335 (374)
.++.++..+.. ++...||+.++++..-+-+.+.+|+..|-+.-.-|..++
T Consensus 9 ~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D~ 60 (62)
T PF12802_consen 9 RVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGDR 60 (62)
T ss_dssp HHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSST
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCCC
Confidence 34455555555 999999999999999999999999999988766655443
No 154
>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=77.59 E-value=4.2 Score=24.88 Aligned_cols=24 Identities=29% Similarity=0.494 Sum_probs=19.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
.+|.+|+..|+|++|++.+.+.++
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 588999999999999988877764
No 155
>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=77.50 E-value=38 Score=31.67 Aligned_cols=81 Identities=22% Similarity=0.245 Sum_probs=48.0
Q ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHH
Q psy4083 97 EVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLST 176 (374)
Q Consensus 97 ~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~ 176 (374)
.++++..+++.-+..+..=+...+...+|+-|+..|+|++|++.+..+...+.+..=....-++...-.+-+...+|...
T Consensus 157 iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~ 236 (247)
T PF11817_consen 157 IIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVED 236 (247)
T ss_pred HHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHH
Confidence 36666666665543333333344444799999999999999999988865555432233333333333344445555554
Q ss_pred H
Q psy4083 177 S 177 (374)
Q Consensus 177 a 177 (374)
.
T Consensus 237 ~ 237 (247)
T PF11817_consen 237 Y 237 (247)
T ss_pred H
Confidence 3
No 156
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=77.40 E-value=46 Score=28.86 Aligned_cols=74 Identities=16% Similarity=0.159 Sum_probs=55.7
Q ss_pred ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 152 DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 152 dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
.........+......+...+++..+..++.++.+.. +++.-........|.++. ..++|..|...|-.+....
T Consensus 29 ~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~----~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~~~ 102 (172)
T PRK02603 29 NKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLE----EDPNDRSYILYNMGIIYA-SNGEHDKALEYYHQALELN 102 (172)
T ss_pred ccHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh----hccchHHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhC
Confidence 3445566678888899999999999999999887653 122112345666788888 8999999999999987643
No 157
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=77.29 E-value=22 Score=33.76 Aligned_cols=91 Identities=18% Similarity=0.195 Sum_probs=64.5
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
+++..+..|+|..|+..+.+. .....+.- +.+-..--.|...|++..++..|.+|.... ..+|.+.+-+
T Consensus 106 ~gk~~~~~g~~~~A~~~~rkA----~~l~p~d~--~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~---~~~p~~~nNl-- 174 (257)
T COG5010 106 QGKNQIRNGNFGEAVSVLRKA----ARLAPTDW--EAWNLLGAALDQLGRFDEARRAYRQALELA---PNEPSIANNL-- 174 (257)
T ss_pred HHHHHHHhcchHHHHHHHHHH----hccCCCCh--hhhhHHHHHHHHccChhHHHHHHHHHHHhc---cCCchhhhhH--
Confidence 577788889999996554443 33221111 234444556778999999999999998874 2456655543
Q ss_pred HHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
|+.++ -.+|+++|..++..+..
T Consensus 175 --gms~~-L~gd~~~A~~lll~a~l 196 (257)
T COG5010 175 --GMSLL-LRGDLEDAETLLLPAYL 196 (257)
T ss_pred --HHHHH-HcCCHHHHHHHHHHHHh
Confidence 67777 89999999999999954
No 158
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=77.25 E-value=4 Score=38.62 Aligned_cols=45 Identities=9% Similarity=0.091 Sum_probs=42.1
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
=|...|+.+++...+|+++.||+.||+|+.-+.+.|..|-..|.+
T Consensus 5 eR~~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l 49 (256)
T PRK10434 5 QRQAAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTV 49 (256)
T ss_pred HHHHHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCE
Confidence 388899999999999999999999999999999999999999865
No 159
>KOG2376|consensus
Probab=77.07 E-value=37 Score=35.94 Aligned_cols=106 Identities=15% Similarity=0.188 Sum_probs=71.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-hhhhh-HHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHh--hH
Q psy4083 38 EQNILQLGEKYKQEGKAIELAELIKKTRPFL-SQISK-AKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEE--RR 113 (374)
Q Consensus 38 e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~-~~~~k-~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~--~r 113 (374)
+.+++..+++.+..|+|+...+.+..++..+ +.+.. .+.--+|-.|......+.+ .+-..+++.++|+|-..+ +.
T Consensus 376 ~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~-~~~a~~vl~~Ai~~~~~~~t~s 454 (652)
T KOG2376|consen 376 KVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKD-NDSASAVLDSAIKWWRKQQTGS 454 (652)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccC-CccHHHHHHHHHHHHHHhcccc
Confidence 4567788999999999999988777555333 22222 2444667777776666554 344678899999996533 34
Q ss_pred HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy4083 114 TFLRQSLEARLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 114 ~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
.-++.-+ ..++.+-+..|.-++|...+.+++
T Consensus 455 ~~l~~~~-~~aa~f~lr~G~~~ea~s~leel~ 485 (652)
T KOG2376|consen 455 IALLSLM-REAAEFKLRHGNEEEASSLLEELV 485 (652)
T ss_pred hHHHhHH-HHHhHHHHhcCchHHHHHHHHHHH
Confidence 4444444 357888888899999955555444
No 160
>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=76.74 E-value=8.1 Score=27.50 Aligned_cols=51 Identities=16% Similarity=0.225 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhhcccccee-HHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 277 TLYDNMLEQNLCRIIEPYSRVE-VGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 277 ~L~~~ire~~l~~~~~pYs~I~-l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
.+++.++...+.....+-..+. ...||+.+|+|.+.+.+.|..|...|-+.
T Consensus 5 ~~~~~i~~~i~~~~~~~~~~~~~~~~la~~~~is~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 5 QIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVE 56 (66)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 4455555554444445555555 99999999999999999999999998764
No 161
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=76.74 E-value=30 Score=33.43 Aligned_cols=90 Identities=22% Similarity=0.193 Sum_probs=60.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHAL-SNLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~-~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
-||.+|...|+++.|+..|.... +..+++--+-.-+-|+-++..- .+..+++.++.++... .|..+++..
T Consensus 161 ~Lg~~ym~~~~~~~A~~AY~~A~----rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~-----D~~~iral~ 231 (287)
T COG4235 161 LLGRAYMALGRASDALLAYRNAL----RLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL-----DPANIRALS 231 (287)
T ss_pred HHHHHHHHhcchhHHHHHHHHHH----HhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc-----CCccHHHHH
Confidence 58999999999999988887665 3343333333334455555443 3688899999998665 344555554
Q ss_pred HHHHHHHhhcccccHHHHHHHHH
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFY 224 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~ 224 (374)
. -|.-.+ .++||+.|...+-
T Consensus 232 l--LA~~af-e~g~~~~A~~~Wq 251 (287)
T COG4235 232 L--LAFAAF-EQGDYAEAAAAWQ 251 (287)
T ss_pred H--HHHHHH-HcccHHHHHHHHH
Confidence 3 355556 8999999997653
No 162
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=76.57 E-value=3.8 Score=36.91 Aligned_cols=45 Identities=9% Similarity=0.043 Sum_probs=42.5
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
|.+.|+.++.-...+++..||+.||+|..-+.+.|..|-.+|.+.
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~~ 52 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELRE 52 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHHH
Confidence 888899999999999999999999999999999999999999774
No 163
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=75.95 E-value=7.5 Score=24.78 Aligned_cols=29 Identities=21% Similarity=0.353 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhh
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLS 69 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~ 69 (374)
+..|+.+|.+.|+|++..+++.....+..
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~ 30 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQALALAR 30 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence 56789999999999999998887654443
No 164
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=75.26 E-value=39 Score=29.69 Aligned_cols=94 Identities=11% Similarity=0.020 Sum_probs=66.4
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|..+++.|++++|.+.+.-+ ...|. .-.+.++.---++-.+|++.+|-..|..|-.... .+|+ -.
T Consensus 40 ~~A~~ly~~G~l~~A~~~f~~L----~~~Dp--~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~---ddp~----~~ 106 (157)
T PRK15363 40 RYAMQLMEVKEFAGAARLFQLL----TIYDA--WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI---DAPQ----AP 106 (157)
T ss_pred HHHHHHHHCCCHHHHHHHHHHH----HHhCc--ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CCch----HH
Confidence 5788899999999996665433 23332 2233444445556688999999999999877642 3333 34
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
...|..++ .-|+...|...|--+...-
T Consensus 107 ~~ag~c~L-~lG~~~~A~~aF~~Ai~~~ 133 (157)
T PRK15363 107 WAAAECYL-ACDNVCYAIKALKAVVRIC 133 (157)
T ss_pred HHHHHHHH-HcCCHHHHHHHHHHHHHHh
Confidence 57788888 8999999999998886543
No 165
>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=75.11 E-value=8.1 Score=23.70 Aligned_cols=24 Identities=33% Similarity=0.493 Sum_probs=20.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
.+|.+|.+.|++++|++.+.+.++
T Consensus 6 ~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 6 NLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHh
Confidence 578899999999999888877653
No 166
>PRK12370 invasion protein regulator; Provisional
Probab=74.69 E-value=1.2e+02 Score=31.96 Aligned_cols=92 Identities=9% Similarity=-0.052 Sum_probs=61.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|.++...|++++|...+.+.++ .+... .+.+..-..++...|++..|...+.+|..... .++.. .
T Consensus 343 ~lg~~~~~~g~~~~A~~~~~~Al~----l~P~~--~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P---~~~~~--~-- 409 (553)
T PRK12370 343 LLGLINTIHSEYIVGSLLFKQANL----LSPIS--ADIKYYYGWNLFMAGQLEEALQTINECLKLDP---TRAAA--G-- 409 (553)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHH----hCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC---CChhh--H--
Confidence 468888899999999888877763 22221 23455557788899999999999999876631 12211 1
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...+.++. ..++|.+|...|-++.+
T Consensus 410 ~~~~~~~~-~~g~~eeA~~~~~~~l~ 434 (553)
T PRK12370 410 ITKLWITY-YHTGIDDAIRLGDELRS 434 (553)
T ss_pred HHHHHHHH-hccCHHHHHHHHHHHHH
Confidence 11232345 56889999888877653
No 167
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=74.68 E-value=5.8 Score=31.85 Aligned_cols=47 Identities=11% Similarity=0.292 Sum_probs=39.5
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc---eeec
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH---GILD 331 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~---akID 331 (374)
+.++..+..-.+++...||+.+|+|+..+-+.+.+|..+|-+. +.+|
T Consensus 6 ~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~ 55 (108)
T smart00344 6 RKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVIN 55 (108)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeC
Confidence 4555666666789999999999999999999999999999775 4556
No 168
>KOG4414|consensus
Probab=74.60 E-value=23 Score=30.84 Aligned_cols=109 Identities=15% Similarity=0.193 Sum_probs=69.2
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHH
Q psy4083 165 SKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKY 244 (374)
Q Consensus 165 i~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY 244 (374)
.-.|+...|..-++-+..+ .+|.++..--+.+|.... .++-|..-+---||++..++=.+..+ ++
T Consensus 46 L~~Yf~~dD~dnARfLWKR---------IP~AIKe~k~El~aaWgi-GQkiWq~Df~GiYeaI~~~dWSeeak--~i--- 110 (197)
T KOG4414|consen 46 LAGYFLHDDCDNARFLWKR---------IPPAIKEAKPELGAAWGI-GQKIWQHDFAGIYEAINAHDWSEEAK--DI--- 110 (197)
T ss_pred HHHHHHhccchhHHHHHHh---------CCHHHhhcCchhhhhhhh-hHHHHhcccchHHHHHhhhcchHHHH--HH---
Confidence 3455666666666644433 244444444556666666 56656554555677766665433211 11
Q ss_pred HHHHHHhcCCchhHHHHHHHHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHH
Q psy4083 245 MLLSKIMLNTPEDVNQILSELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLS 318 (374)
Q Consensus 245 ~vL~~iL~~~~~~v~~ll~~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~ 318 (374)
+.-+.+.-|.+...-++..||+|.++.+|--+|+++++.-+.+.
T Consensus 111 ------------------------------maAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~il 154 (197)
T KOG4414|consen 111 ------------------------------MAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGIL 154 (197)
T ss_pred ------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 12344556778888888999999999999999999998776553
No 169
>KOG1585|consensus
Probab=74.36 E-value=83 Score=30.07 Aligned_cols=147 Identities=14% Similarity=0.114 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHH-HHH---HHHHHHhhccccchhhhHHHHHHHHHHH
Q psy4083 33 EVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAA-KLV---RSLVDFFLDLETRTGMEVALCKECIEWA 108 (374)
Q Consensus 33 ~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~-k~i---~~ild~~~~~~~~~~~~~~l~~e~i~~~ 108 (374)
.-|++|++ +-+..+...|.++.+++..-....-.-+.+-++ -.+ -++++.+ .++.-+++...++.-.
T Consensus 70 AAKayEqa----amLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv-----~Pd~AlqlYqralavv 140 (308)
T KOG1585|consen 70 AAKAYEQA----AMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENV-----KPDDALQLYQRALAVV 140 (308)
T ss_pred HHHHHHHH----HHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcC-----CHHHHHHHHHHHHHHH
Confidence 34788888 777777777888777776655555333332222 111 2233333 2455677777777777
Q ss_pred HHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 109 KEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 109 ~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
.+++|.-----+-.+.++++.....|.+|-..+.+..-...+.+.-...--.++-.|-+|+-..|+..++..+....+++
T Consensus 141 e~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip 220 (308)
T KOG1585|consen 141 EEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIP 220 (308)
T ss_pred hccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCc
Confidence 66666655444455778888888889988654433222222222222222345566677778889999998888876665
No 170
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=74.30 E-value=5 Score=37.62 Aligned_cols=46 Identities=9% Similarity=0.218 Sum_probs=41.7
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
=|...|+.+++....++...||+.||+|+.-+.+.|..|...|.+.
T Consensus 4 ~R~~~Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~ 49 (240)
T PRK10411 4 ARQQAIVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKIL 49 (240)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 3677889999999999999999999999999999999999987764
No 171
>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=74.29 E-value=60 Score=32.92 Aligned_cols=94 Identities=19% Similarity=0.103 Sum_probs=66.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|+++...++-.+|+..+.+.+++- ..-.++...+.+.+...+++..|.....+|-....+.+..|.
T Consensus 205 ~LA~v~l~~~~E~~AI~ll~~aL~~~------p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~------ 272 (395)
T PF09295_consen 205 LLARVYLLMNEEVEAIRLLNEALKEN------PQDSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWY------ 272 (395)
T ss_pred HHHHHHHhcCcHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHH------
Confidence 57888888888999988887777321 111677788999999999999998888777554322222222
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
.-+..|+ ..+||+.|. .-+.++.-+.
T Consensus 273 -~La~~Yi-~~~d~e~AL-laLNs~Pm~~ 298 (395)
T PF09295_consen 273 -QLAECYI-QLGDFENAL-LALNSCPMLT 298 (395)
T ss_pred -HHHHHHH-hcCCHHHHH-HHHhcCcCCC
Confidence 2355577 889999998 6677765443
No 172
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=74.11 E-value=8.3 Score=23.75 Aligned_cols=24 Identities=38% Similarity=0.598 Sum_probs=19.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
.+|..|...|++++|++.+.+.++
T Consensus 6 ~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 6 NLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCchHHHHHHHHHHH
Confidence 578899999999999998888764
No 173
>KOG1129|consensus
Probab=74.07 E-value=50 Score=32.81 Aligned_cols=160 Identities=13% Similarity=0.086 Sum_probs=93.1
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARL 124 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kL 124 (374)
++.|...|.+...-.++++-.+-++.+ .+--.+.++-..+++ ...-+.++.+-++.--.+ -++ + +..
T Consensus 230 gkCylrLgm~r~AekqlqssL~q~~~~---dTfllLskvY~ridQ----P~~AL~~~~~gld~fP~~-VT~-l----~g~ 296 (478)
T KOG1129|consen 230 GKCYLRLGMPRRAEKQLQSSLTQFPHP---DTFLLLSKVYQRIDQ----PERALLVIGEGLDSFPFD-VTY-L----LGQ 296 (478)
T ss_pred HHHHHHhcChhhhHHHHHHHhhcCCch---hHHHHHHHHHHHhcc----HHHHHHHHhhhhhcCCch-hhh-h----hhh
Confidence 899999998888776666555433332 333445555555532 233344554444322111 111 1 246
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHH
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQ 204 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~ 204 (374)
|+++...+++++|+++|..+++ -...-+|-+++..--|+.-+|...+..+|....+.- +..|++-.-|
T Consensus 297 ARi~eam~~~~~a~~lYk~vlk------~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG---~~speLf~Ni--- 364 (478)
T KOG1129|consen 297 ARIHEAMEQQEDALQLYKLVLK------LHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMG---AQSPELFCNI--- 364 (478)
T ss_pred HHHHHHHHhHHHHHHHHHHHHh------cCCccceeeeeeeeccccCCChHHHHHHHHHHHHhc---CCChHHHhhH---
Confidence 8899999999999999888773 122234445555555566666777777777766552 2455554333
Q ss_pred HHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 205 SGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 205 ~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
|.-++ .-..|.-+...|.-+..+-+
T Consensus 365 -gLCC~-yaqQ~D~~L~sf~RAlstat 389 (478)
T KOG1129|consen 365 -GLCCL-YAQQIDLVLPSFQRALSTAT 389 (478)
T ss_pred -HHHHH-hhcchhhhHHHHHHHHhhcc
Confidence 44445 56667777777776655443
No 174
>PRK12370 invasion protein regulator; Provisional
Probab=73.60 E-value=1.2e+02 Score=31.76 Aligned_cols=93 Identities=14% Similarity=-0.027 Sum_probs=60.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.+|.++...|++++|+..+.+.++ .+.... ........+++..+++..|...+.++.... +|.. ....
T Consensus 377 ~lg~~l~~~G~~~eAi~~~~~Al~----l~P~~~--~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-----~p~~-~~~~ 444 (553)
T PRK12370 377 YYGWNLFMAGQLEEALQTINECLK----LDPTRA--AAGITKLWITYYHTGIDDAIRLGDELRSQH-----LQDN-PILL 444 (553)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHh----cCCCCh--hhHHHHHHHHHhccCHHHHHHHHHHHHHhc-----cccC-HHHH
Confidence 478899999999999888777653 222111 112222334666889999988887765431 1111 1233
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
...|.++. ..|++.+|...|-....
T Consensus 445 ~~la~~l~-~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 445 SMQVMFLS-LKGKHELARKLTKEIST 469 (553)
T ss_pred HHHHHHHH-hCCCHHHHHHHHHHhhh
Confidence 45677777 89999999998866533
No 175
>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=73.58 E-value=8.6 Score=27.15 Aligned_cols=50 Identities=10% Similarity=0.171 Sum_probs=41.5
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCC
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEK 335 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~g 335 (374)
.++.++..+-.++...||+.++++..-+-+.+.+|+..|-|.-..|..++
T Consensus 7 ~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 7 RILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 45556666778999999999999999999999999999988877776554
No 176
>KOG2076|consensus
Probab=72.81 E-value=45 Score=36.90 Aligned_cols=155 Identities=19% Similarity=0.153 Sum_probs=92.6
Q ss_pred hHHHHHHHHHHHHHhhc--cccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHH
Q psy4083 73 KAKAAKLVRSLVDFFLD--LETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKK 150 (374)
Q Consensus 73 k~~~~k~i~~ild~~~~--~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~ 150 (374)
+.+.+.-++++|-.-.. .-+..+.-..+|.|.|+... + ..-..- .||.+|.+.||.++|+... ++. ..
T Consensus 132 ~~~l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp---~-~~~ay~--tL~~IyEqrGd~eK~l~~~--llA--AH 201 (895)
T KOG2076|consen 132 KSKLAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDP---R-NPIAYY--TLGEIYEQRGDIEKALNFW--LLA--AH 201 (895)
T ss_pred ccccCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCc---c-chhhHH--HHHHHHHHcccHHHHHHHH--HHH--Hh
Confidence 34555667777763321 22333444666667666443 2 222333 4899999999999886532 210 11
Q ss_pred hccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 151 LDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 151 ~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
...++. |+...-..+.-.++|+.+|+-+|++|.+.. |+..+-++ +- ..++- ..|++..|..-|...|.--
T Consensus 202 L~p~d~--e~W~~ladls~~~~~i~qA~~cy~rAI~~~-----p~n~~~~~-er-s~L~~-~~G~~~~Am~~f~~l~~~~ 271 (895)
T KOG2076|consen 202 LNPKDY--ELWKRLADLSEQLGNINQARYCYSRAIQAN-----PSNWELIY-ER-SSLYQ-KTGDLKRAMETFLQLLQLD 271 (895)
T ss_pred cCCCCh--HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-----CcchHHHH-HH-HHHHH-HhChHHHHHHHHHHHHhhC
Confidence 233444 888888888999999999999999987653 22222122 21 22333 4599999999999997633
Q ss_pred CcccchhHHHHHHHHHHH
Q psy4083 231 STVDHNHAMMSLKYMLLS 248 (374)
Q Consensus 231 ~~~~~~~~~~~LkY~vL~ 248 (374)
. ..+-.+...+.+.+.=
T Consensus 272 p-~~d~er~~d~i~~~~~ 288 (895)
T KOG2076|consen 272 P-PVDIERIEDLIRRVAH 288 (895)
T ss_pred C-chhHHHHHHHHHHHHH
Confidence 3 3334555555555443
No 177
>KOG4626|consensus
Probab=72.29 E-value=1.5e+02 Score=32.11 Aligned_cols=166 Identities=15% Similarity=0.194 Sum_probs=103.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQ 118 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~ 118 (374)
+++++|+-++.+.|.++....++..-..+++.++ ..-+++-..+.+ .+..+.-+.-.+++|+.. -+|--+
T Consensus 355 dam~NLgni~~E~~~~e~A~~ly~~al~v~p~~a-----aa~nNLa~i~kq-qgnl~~Ai~~YkealrI~----P~fAda 424 (966)
T KOG4626|consen 355 DAMNNLGNIYREQGKIEEATRLYLKALEVFPEFA-----AAHNNLASIYKQ-QGNLDDAIMCYKEALRIK----PTFADA 424 (966)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHHHhhChhhh-----hhhhhHHHHHHh-cccHHHHHHHHHHHHhcC----chHHHH
Confidence 5577889999999999998888877777777662 222222222211 233444455555665532 234333
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhh
Q psy4083 119 SLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQ 198 (374)
Q Consensus 119 ~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~ 198 (374)
-. .++..|-+.|+.+.|+.+|.+.++ -..---|-+..-.-+|-..||.+.|-..|..|.++... -+..-.
T Consensus 425 ~~--NmGnt~ke~g~v~~A~q~y~rAI~------~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD--fpdA~c 494 (966)
T KOG4626|consen 425 LS--NMGNTYKEMGDVSAAIQCYTRAIQ------INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD--FPDAYC 494 (966)
T ss_pred HH--hcchHHHHhhhHHHHHHHHHHHHh------cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC--Cchhhh
Confidence 33 589999999999999999887763 22223455666667788899999999999999887411 112234
Q ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 199 AALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 199 ~~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
+.+....-+ |+=-||.+-....+++.
T Consensus 495 Nllh~lq~v---cdw~D~d~~~~kl~siv 520 (966)
T KOG4626|consen 495 NLLHCLQIV---CDWTDYDKRMKKLVSIV 520 (966)
T ss_pred HHHHHHHHH---hcccchHHHHHHHHHHH
Confidence 444443322 24456666666666653
No 178
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=71.77 E-value=58 Score=29.16 Aligned_cols=63 Identities=13% Similarity=0.046 Sum_probs=47.1
Q ss_pred HhcChHHHhhHHHHH--HHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 265 LEDDTIVKAHIGTLY--DNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 265 l~~D~~l~~h~~~L~--~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
+..||.++..+..+. ..-... ++..+..-..++-+.||+.+|++...|.+.|..|-.+|-+..
T Consensus 4 ~~~~~~v~~~l~~~~~~~~~~~~-Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~ 68 (178)
T PRK06266 4 MLNNPLVQKVLFEIMEGDEEGFE-VLKALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLADY 68 (178)
T ss_pred hhcCHHHHHHHHHHhcCCccHhH-HHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 346787777666555 222222 334444557899999999999999999999999999998875
No 179
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=71.77 E-value=53 Score=28.29 Aligned_cols=74 Identities=11% Similarity=0.174 Sum_probs=57.4
Q ss_pred ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 152 DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 152 dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
.+.......++.....+...+++..+...+..|.... +++..........|.++. ..+++..|..+|-.+....
T Consensus 29 ~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~----~~~~~~~~~~~~lg~~~~-~~g~~~eA~~~~~~Al~~~ 102 (168)
T CHL00033 29 TSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLE----IDPYDRSYILYNIGLIHT-SNGEHTKALEYYFQALERN 102 (168)
T ss_pred CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc----ccchhhHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhC
Confidence 3455567778888889999999999999999987653 233333456677788999 9999999999998887643
No 180
>KOG0543|consensus
Probab=71.72 E-value=1.2e+02 Score=30.73 Aligned_cols=95 Identities=20% Similarity=0.254 Sum_probs=64.1
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.||-.++..++|.+|++....+|. .++ --+--.+..-+.+..++++..|+..+.++.+.. ..+..+++.|.
T Consensus 262 NlA~c~lKl~~~~~Ai~~c~kvLe-----~~~-~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~---P~Nka~~~el~ 332 (397)
T KOG0543|consen 262 NLAACYLKLKEYKEAIESCNKVLE-----LDP-NNVKALYRRGQALLALGEYDLARDDFQKALKLE---PSNKAARAELI 332 (397)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHh-----cCC-CchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC---CCcHHHHHHHH
Confidence 377789999999999988777763 221 112234567788999999999999999998774 23567777777
Q ss_pred HHHHHHhhcccccHHHHHHHHHH-hccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYE-AFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~e-af~~f~ 231 (374)
.|.-++ +.|......||- .|....
T Consensus 333 ~l~~k~-----~~~~~kekk~y~~mF~k~~ 357 (397)
T KOG0543|consen 333 KLKQKI-----REYEEKEKKMYANMFAKLA 357 (397)
T ss_pred HHHHHH-----HHHHHHHHHHHHHHhhccc
Confidence 766554 334444334443 355554
No 181
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=71.41 E-value=44 Score=25.59 Aligned_cols=49 Identities=14% Similarity=0.200 Sum_probs=39.1
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCC
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEK 335 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~g 335 (374)
++.++..-..++...||+.++++...+-+.|.+|...|-+...-|..++
T Consensus 15 il~~l~~~~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~ 63 (101)
T smart00347 15 VLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDR 63 (101)
T ss_pred HHHHHHHcCCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCC
Confidence 3444433446899999999999999999999999999999876665443
No 182
>KOG0547|consensus
Probab=70.72 E-value=29 Score=36.04 Aligned_cols=106 Identities=20% Similarity=0.160 Sum_probs=0.0
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
+|+-++..|+|++|++.|+..+.-++.. ==+|-...--|...|+|.++..-.++|..+ .+....+-++-
T Consensus 121 ~GN~~f~~kkY~eAIkyY~~AI~l~p~e------piFYsNraAcY~~lgd~~~Vied~TkALEl-----~P~Y~KAl~RR 189 (606)
T KOG0547|consen 121 KGNKFFRNKKYDEAIKYYTQAIELCPDE------PIFYSNRAACYESLGDWEKVIEDCTKALEL-----NPDYVKALLRR 189 (606)
T ss_pred hhhhhhhcccHHHHHHHHHHHHhcCCCC------chhhhhHHHHHHHHhhHHHHHHHHHHHhhc-----CcHHHHHHHHH
Q ss_pred HHHHHhhcccccHHHHHHHHHHh--ccCcCcccc-hhHHHHHH
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEA--FEGFSTVDH-NHAMMSLK 243 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~ea--f~~f~~~~~-~~~~~~Lk 243 (374)
.++-=.+ ++|.+|.-..--. +.+|+.... +....+|+
T Consensus 190 A~A~E~l---g~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lk 229 (606)
T KOG0547|consen 190 ASAHEQL---GKFDEALFDVTVLCILEGFQNASIEPMAERVLK 229 (606)
T ss_pred HHHHHhh---ccHHHHHHhhhHHHHhhhcccchhHHHHHHHHH
No 183
>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=70.70 E-value=23 Score=33.98 Aligned_cols=55 Identities=22% Similarity=0.298 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCC
Q psy4083 274 HIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQG 333 (374)
Q Consensus 274 h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~ 333 (374)
+++.+..++.++ +.--..|++..+|+.+++|.+++.+.+..-...+.|+|++|..
T Consensus 113 Yld~l~~Eine~-----Lqe~G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~~ 167 (272)
T PF09743_consen 113 YLDSLAEEINEK-----LQESGQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDGD 167 (272)
T ss_pred HHHHHHHHHHHH-----HHHcCeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeCC
Confidence 345555555443 2333889999999999999999998888889999999999988
No 184
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=70.64 E-value=9.8 Score=25.29 Aligned_cols=24 Identities=29% Similarity=0.263 Sum_probs=21.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
.||..|.+.|++++|.+.+.++++
T Consensus 6 ~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 6 ALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH
Confidence 589999999999999888887774
No 185
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=70.48 E-value=8.2 Score=24.56 Aligned_cols=28 Identities=32% Similarity=0.447 Sum_probs=21.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKK 150 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~ 150 (374)
.||..|...|++++|+.++.+.+.-.++
T Consensus 7 ~la~~~~~~g~~~~A~~~~~~al~~~~~ 34 (42)
T PF13374_consen 7 NLANAYRAQGRYEEALELLEEALEIRER 34 (42)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHhhhhcchhhHHHHHHHHHHHH
Confidence 5899999999999999888887754443
No 186
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=70.45 E-value=7 Score=36.85 Aligned_cols=46 Identities=11% Similarity=0.166 Sum_probs=41.5
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
=|.+.|+.+++....++...+|+.||+|+.-+.+.|..|-..|.+.
T Consensus 5 ~R~~~Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~ 50 (251)
T PRK13509 5 QRHQILLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLK 50 (251)
T ss_pred HHHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 3677789999999999999999999999999999999998888764
No 187
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=69.88 E-value=7.8 Score=36.61 Aligned_cols=46 Identities=7% Similarity=0.177 Sum_probs=42.5
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
-|...|+.+++-...+++..||+.|++|+..+.+.|..|-..|.+.
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 4778899999999999999999999999999999999999999763
No 188
>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=69.84 E-value=5.9 Score=27.11 Aligned_cols=23 Identities=22% Similarity=0.417 Sum_probs=18.8
Q ss_pred HHHHHHHhccCHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
.||..|.+.||++.|.+++.+++
T Consensus 4 dLA~ayie~Gd~e~Ar~lL~evl 26 (44)
T TIGR03504 4 DLARAYIEMGDLEGARELLEEVI 26 (44)
T ss_pred HHHHHHHHcCChHHHHHHHHHHH
Confidence 58999999999999966555554
No 189
>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=69.82 E-value=42 Score=26.17 Aligned_cols=68 Identities=9% Similarity=0.101 Sum_probs=53.1
Q ss_pred cceeHHHHHhHh-CCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHH
Q psy4083 295 SRVEVGFIAKSI-KLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKV 362 (374)
Q Consensus 295 s~I~l~~lA~~l-~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~ 362 (374)
...+++.|.+.+ |+|...+-+.|..|..+|-+.-+++...+.-+.+.-.+.......++..+.+|+.-
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 788899999999 89999999999999999999887776555444566666666677777777777653
No 190
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=69.68 E-value=13 Score=31.70 Aligned_cols=59 Identities=3% Similarity=-0.051 Sum_probs=46.0
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
++...+.....|=..++...||+.+|+|...+++.+..|...|-+..+=-...|+....
T Consensus 11 l~~~i~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~ 69 (141)
T PRK11014 11 LRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGK 69 (141)
T ss_pred HHHHHHHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecC
Confidence 33333444445545789999999999999999999999999999987777777766654
No 191
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=69.38 E-value=48 Score=28.10 Aligned_cols=60 Identities=18% Similarity=0.213 Sum_probs=46.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
.+|.++...|++++|+..+...+. .+. .-.+.+..-...+...|++..|...+..|....
T Consensus 63 ~lg~~~~~~g~~~~A~~~y~~Al~----l~p--~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~ 122 (144)
T PRK15359 63 ALAGTWMMLKEYTTAINFYGHALM----LDA--SHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS 122 (144)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHh----cCC--CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 488899999999999998888773 121 123455556667788999999999999987764
No 192
>KOG2300|consensus
Probab=69.15 E-value=1.5e+02 Score=30.97 Aligned_cols=214 Identities=14% Similarity=0.103 Sum_probs=106.0
Q ss_pred CCCchHHHHHHHHHHHHHHHHH--HHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhc-----------cccc
Q psy4083 27 EENHDEEVKAKEQNILQLGEKY--KQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLD-----------LETR 93 (374)
Q Consensus 27 ~~~~~~~~k~~e~~~~~l~~~~--~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~-----------~~~~ 93 (374)
+.-.+|..|+.=-+++.++..- .-+|-+++..+ .--+...+..|-+-+..+..++..+.= ..+.
T Consensus 262 ~~l~~wlpkeqicaLV~l~tv~hsm~~gy~~~~~K---~tDe~i~q~eklkq~d~~srilsm~km~~LE~iv~c~lv~~~ 338 (629)
T KOG2300|consen 262 PILFEWLPKEQICALVYLVTVIHSMPAGYFKKAQK---YTDEAIKQTEKLKQADLMSRILSMFKMILLEHIVMCRLVRGD 338 (629)
T ss_pred hHHHhhccHhhhHhhhhhhHHhhhhhhHHHHHHHH---HHHHHHHHHhhcccccchhHHHHHHHHHHHHHHHHHHHHhCC
Confidence 5567898887666666655433 12233333322 122222233333333333333332210 1111
Q ss_pred hhhhHHHHHHHHHHHHHh-hHHHHHHH---HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH
Q psy4083 94 TGMEVALCKECIEWAKEE-RRTFLRQS---LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYH 169 (374)
Q Consensus 94 ~~~~~~l~~e~i~~~~~~-~r~~lr~~---l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~ 169 (374)
...-++-+.+..+|++.- +++.+|.- +..-+|-+-...|-|++|..-+....+...+.| ...-+-+.-.-.|.
T Consensus 339 ~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~t~~~d---l~a~~nlnlAi~YL 415 (629)
T KOG2300|consen 339 YVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKLTESID---LQAFCNLNLAISYL 415 (629)
T ss_pred HHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHhhhHHH---HHHHHHHhHHHHHH
Confidence 222344445666777633 35555432 222244333455677788655544443332221 11112223333455
Q ss_pred HhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHH
Q psy4083 170 ALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLS 248 (374)
Q Consensus 170 ~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~ 248 (374)
..++..-....++..-......++...+++.++-..|...+ ..++|.+|....-|..+-- .+++..++....-++|.
T Consensus 416 ~~~~~ed~y~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf-~qn~lnEaK~~l~e~Lkma-naed~~rL~a~~LvLLs 492 (629)
T KOG2300|consen 416 RIGDAEDLYKALDLIGPLNTNSLSSQRLEASILYVYGLFAF-KQNDLNEAKRFLRETLKMA-NAEDLNRLTACSLVLLS 492 (629)
T ss_pred HhccHHHHHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHH-HhccHHHHHHHHHHHHhhc-chhhHHHHHHHHHHHHH
Confidence 55554444444433211101123556889999999999999 9999999998888887654 34554445444333333
No 193
>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=69.05 E-value=15 Score=25.00 Aligned_cols=42 Identities=17% Similarity=0.129 Sum_probs=33.4
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
|.+.+..+.+ ...+...||+.+|++...+-..|..|...|-+
T Consensus 4 R~~Il~~L~~--~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV 45 (47)
T PF01022_consen 4 RLRILKLLSE--GPLTVSELAEELGLSQSTVSHHLKKLREAGLV 45 (47)
T ss_dssp HHHHHHHHTT--SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHh--CCCchhhHHHhccccchHHHHHHHHHHHCcCe
Confidence 4444444554 77889999999999999999999999988855
No 194
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=68.93 E-value=17 Score=26.35 Aligned_cols=55 Identities=18% Similarity=0.166 Sum_probs=42.7
Q ss_pred HHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 166 KTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 166 ~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
++|...+++.++...+..+.... |. ........|.++. ..|+|..|...|-.+.+
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~------p~-~~~~~~~~a~~~~-~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELD------PD-DPELWLQRARCLF-QLGRYEEALEDLERALE 57 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhC------cc-cchhhHHHHHHHH-HhccHHHHHHHHHHHHH
Confidence 57889999999999999886652 22 2344556788888 99999999999888764
No 195
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=68.55 E-value=7.2 Score=36.79 Aligned_cols=42 Identities=10% Similarity=0.146 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhh
Q psy4083 281 NMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMIL 322 (374)
Q Consensus 281 ~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~ 322 (374)
.=|.+.|+.++.....|++..||+.||+|+.-+.+.|..|=.
T Consensus 6 ~eR~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le~ 47 (252)
T PRK10681 6 DERIGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHSA 47 (252)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhhc
Confidence 348889999999999999999999999999999999998553
No 196
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=68.53 E-value=8.2 Score=36.49 Aligned_cols=47 Identities=13% Similarity=0.241 Sum_probs=43.3
Q ss_pred HHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 281 NMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 281 ~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
.-|.+.|+++++.-..|+++.||+.||+|+.-+.+.|..|=..|.+.
T Consensus 4 ~eR~~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~ 50 (253)
T COG1349 4 EERHQKILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLL 50 (253)
T ss_pred HHHHHHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEE
Confidence 34888999999999999999999999999999999999999998664
No 197
>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=68.39 E-value=30 Score=24.63 Aligned_cols=43 Identities=12% Similarity=0.119 Sum_probs=36.2
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
++.+.+++.+|++...+.+.|..|...|-+...-+...+...+
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~ 63 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSL 63 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEe
Confidence 8999999999999999999999999999998765554444444
No 198
>KOG1173|consensus
Probab=68.28 E-value=1.7e+02 Score=31.09 Aligned_cols=179 Identities=15% Similarity=0.108 Sum_probs=115.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHH---------------HHHHHHHHHhhccccch-hh
Q psy4083 33 EVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAA---------------KLVRSLVDFFLDLETRT-GM 96 (374)
Q Consensus 33 ~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~---------------k~i~~ild~~~~~~~~~-~~ 96 (374)
+.+..=+++.+-++.++..+++.+..+....+..+.|.-+....- -+--++++..+..+-++ ..
T Consensus 239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aV 318 (611)
T KOG1173|consen 239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAV 318 (611)
T ss_pred hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhH
Confidence 344555788888999999999999888877776665443332222 33345556664433211 00
Q ss_pred h-HHHH-------HHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH
Q psy4083 97 E-VALC-------KECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTY 168 (374)
Q Consensus 97 ~-~~l~-------~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~ 168 (374)
- +-++ +.++--|+.=+++|=+.|+ ..|..|.-.|+.+.|+.+|...- +.+++.++=-+|+- -=|
T Consensus 319 g~YYl~i~k~seARry~SKat~lD~~fgpaWl--~fghsfa~e~EhdQAmaaY~tAa----rl~~G~hlP~LYlg--mey 390 (611)
T KOG1173|consen 319 GCYYLMIGKYSEARRYFSKATTLDPTFGPAWL--AFGHSFAGEGEHDQAMAAYFTAA----RLMPGCHLPSLYLG--MEY 390 (611)
T ss_pred HHHHHHhcCcHHHHHHHHHHhhcCccccHHHH--HHhHHhhhcchHHHHHHHHHHHH----HhccCCcchHHHHH--HHH
Confidence 0 1111 2333333322466668888 78988999999999988876553 44555554333321 124
Q ss_pred HHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 169 HALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 169 ~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
+..+|+..|..++..|..+.. .+|-+... .|++.. .-+.|.+|..+|-.+.
T Consensus 391 ~~t~n~kLAe~Ff~~A~ai~P---~Dplv~~E----lgvvay-~~~~y~~A~~~f~~~l 441 (611)
T KOG1173|consen 391 MRTNNLKLAEKFFKQALAIAP---SDPLVLHE----LGVVAY-TYEEYPEALKYFQKAL 441 (611)
T ss_pred HHhccHHHHHHHHHHHHhcCC---Ccchhhhh----hhheee-hHhhhHHHHHHHHHHH
Confidence 578999999999999987752 35655443 367777 7899999999998886
No 199
>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=68.10 E-value=10 Score=25.54 Aligned_cols=35 Identities=17% Similarity=0.388 Sum_probs=25.0
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
.|+..+.-=.+.+...||+.+|+|+..|-+-+.+|
T Consensus 7 ~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 7 KILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 34444444489999999999999999998877665
No 200
>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=68.07 E-value=11 Score=27.04 Aligned_cols=34 Identities=15% Similarity=0.095 Sum_probs=30.7
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
-.++...||+.+|++...+.+.+..|...|-|..
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 3589999999999999999999999999987754
No 201
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=67.58 E-value=8.6 Score=25.63 Aligned_cols=32 Identities=16% Similarity=0.144 Sum_probs=29.3
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
.++...||+.+|++.+.+.+.|..|...|-+.
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 36788999999999999999999999999875
No 202
>KOG2076|consensus
Probab=67.38 E-value=2.1e+02 Score=31.92 Aligned_cols=167 Identities=12% Similarity=0.072 Sum_probs=99.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHH-HHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAA-KLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~-k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
+.++..|-.+|..|++++..+.+. ....+.|++.++ ..+-.|-+... +.. +-+...+--|-.+...| -
T Consensus 140 ~~ll~eAN~lfarg~~eeA~~i~~---EvIkqdp~~~~ay~tL~~IyEqrG------d~e-K~l~~~llAAHL~p~d~-e 208 (895)
T KOG2076|consen 140 RQLLGEANNLFARGDLEEAEEILM---EVIKQDPRNPIAYYTLGEIYEQRG------DIE-KALNFWLLAAHLNPKDY-E 208 (895)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHH---HHHHhCccchhhHHHHHHHHHHcc------cHH-HHHHHHHHHHhcCCCCh-H
Confidence 345667788888899988755444 444566665554 44444444331 111 01112122222233333 4
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh-h
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPP-K 196 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~-~ 196 (374)
-|. +++++..+.|.+..|.-++.++++ ..+ ...+++...+.+|-..|+.+++-.-+.+.-.... ..++ +
T Consensus 209 ~W~--~ladls~~~~~i~qA~~cy~rAI~-----~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p--~~d~er 278 (895)
T KOG2076|consen 209 LWK--RLADLSEQLGNINQARYCYSRAIQ-----ANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP--PVDIER 278 (895)
T ss_pred HHH--HHHHHHHhcccHHHHHHHHHHHHh-----cCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC--chhHHH
Confidence 444 678899999999999999988874 222 2378999999999999999998777766554421 1222 2
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
+.+.++-..- ++. ..++=..|++.|.+++.
T Consensus 279 ~~d~i~~~~~-~~~-~~~~~e~a~~~le~~~s 308 (895)
T KOG2076|consen 279 IEDLIRRVAH-YFI-THNERERAAKALEGALS 308 (895)
T ss_pred HHHHHHHHHH-HHH-HhhHHHHHHHHHHHHHh
Confidence 3333333222 222 22333889988888865
No 203
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=67.29 E-value=1.3e+02 Score=32.59 Aligned_cols=87 Identities=14% Similarity=-0.013 Sum_probs=52.2
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
+.+.|.+.|++++|.+.+.+. . ..+. ..++-.-+..|...||+..++....+.... +|.-.+. +.
T Consensus 468 li~~l~r~G~~~eA~~~~~~~----~--~~p~--~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~------~p~~~~~-y~ 532 (697)
T PLN03081 468 MIELLGREGLLDEAYAMIRRA----P--FKPT--VNMWAALLTACRIHKNLELGRLAAEKLYGM------GPEKLNN-YV 532 (697)
T ss_pred HHHHHHhcCCHHHHHHHHHHC----C--CCCC--HHHHHHHHHHHHHcCCcHHHHHHHHHHhCC------CCCCCcc-hH
Confidence 677788888888886554322 1 1111 234555667777888888888776665322 2222222 23
Q ss_pred HHHHHhhcccccHHHHHHHHHHh
Q psy4083 204 QSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 204 ~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
+.+-++. ..|+|.+|...|-+.
T Consensus 533 ~L~~~y~-~~G~~~~A~~v~~~m 554 (697)
T PLN03081 533 VLLNLYN-SSGRQAEAAKVVETL 554 (697)
T ss_pred HHHHHHH-hCCCHHHHHHHHHHH
Confidence 3344566 789999988777554
No 204
>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=66.14 E-value=18 Score=21.94 Aligned_cols=29 Identities=28% Similarity=0.263 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFL 68 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~ 68 (374)
+.+.++..++..|+|++..+.+......-
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 46788999999999999988887766543
No 205
>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=65.96 E-value=8.5 Score=29.38 Aligned_cols=35 Identities=14% Similarity=0.051 Sum_probs=30.8
Q ss_pred ccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 292 EPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 292 ~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
..+...+...||+.+|+|+.-|...+..+...|.+
T Consensus 28 R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 28 REEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 45588899999999999999999999988877765
No 206
>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=65.92 E-value=92 Score=27.23 Aligned_cols=93 Identities=10% Similarity=0.009 Sum_probs=54.0
Q ss_pred hHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce-e-ecCCCCeEEE-ecCCcc
Q psy4083 269 TIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG-I-LDQGEKVLIV-FEGAEI 345 (374)
Q Consensus 269 ~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a-k-ID~~~giv~~-~~~~~~ 345 (374)
|.++..+..++..--...+-.++ +-+-++-+.||+.+|++...|-+.|..|-.+|-+.- + =|..+|.... +.. ..
T Consensus 2 ~~~~~~~~~~~g~~~v~Vl~aL~-~~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i-~~ 79 (158)
T TIGR00373 2 ELLNEVVGRAAEEEVGLVLFSLG-IKGEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRI-NY 79 (158)
T ss_pred hHHHHHHHHHcChhHHHHHHHHh-ccCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEe-CH
Confidence 44444444444333322333222 346799999999999999999999999999998843 2 2444454443 232 23
Q ss_pred hHHHHHHHHHHHHHHHHH
Q psy4083 346 DKTYEKALETITSMGKVI 363 (374)
Q Consensus 346 ~~~y~~~~~~i~~l~~~v 363 (374)
....+.....+..+...+
T Consensus 80 ~~i~d~Ik~~~~~~~~~l 97 (158)
T TIGR00373 80 EKALDVLKRKLEETAKKL 97 (158)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444333343333333
No 207
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=65.78 E-value=10 Score=36.12 Aligned_cols=47 Identities=6% Similarity=0.067 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 281 NMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 281 ~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
.-|...|+.+++...+|++..||+.||+|+.-+.+.|..|-..|.+.
T Consensus 16 ~eR~~~Il~~L~~~~~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~ 62 (269)
T PRK09802 16 SERREQIIQRLRQQGSVQVNDLSALYGVSTVTIRNDLAFLEKQGIAV 62 (269)
T ss_pred HHHHHHHHHHHHHcCCEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeE
Confidence 34788889999999999999999999999999999999998888775
No 208
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=65.61 E-value=1.4e+02 Score=29.88 Aligned_cols=121 Identities=14% Similarity=0.079 Sum_probs=70.9
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHH
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQ 204 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~ 204 (374)
|-+.+..|||+.|.+.+..-. +. .....-.++.-.+.....||+..+..++.++.... +++.+- ....
T Consensus 91 gl~a~~eGd~~~A~k~l~~~~----~~--~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~----~~~~~~--~~l~ 158 (398)
T PRK10747 91 ALLKLAEGDYQQVEKLMTRNA----DH--AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELA----DNDQLP--VEIT 158 (398)
T ss_pred HHHHHhCCCHHHHHHHHHHHH----hc--ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC----CcchHH--HHHH
Confidence 334555799999964443221 11 11122336677888899999999999999986542 233221 2223
Q ss_pred HHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCchhHHHHHH
Q psy4083 205 SGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILS 263 (374)
Q Consensus 205 ~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~ll~ 263 (374)
.+.+++ ..|+|..|...+-...+.. |+-..+++.+.-+-+-.+.+.+..+++.
T Consensus 159 ~a~l~l-~~g~~~~Al~~l~~~~~~~-----P~~~~al~ll~~~~~~~gdw~~a~~~l~ 211 (398)
T PRK10747 159 RVRIQL-ARNENHAARHGVDKLLEVA-----PRHPEVLRLAEQAYIRTGAWSSLLDILP 211 (398)
T ss_pred HHHHHH-HCCCHHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 377788 8999999998877765533 2222344344334444455544443333
No 209
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=65.41 E-value=13 Score=32.61 Aligned_cols=48 Identities=10% Similarity=0.205 Sum_probs=42.9
Q ss_pred HHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc---eeec
Q psy4083 284 EQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH---GILD 331 (374)
Q Consensus 284 e~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~---akID 331 (374)
.+.|+..+.-=.|++...||+.+|+|...+-+-+-+|..+|-|. +.+|
T Consensus 16 D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~ 66 (164)
T PRK11169 16 DRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLN 66 (164)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEEC
Confidence 56677788888999999999999999999999999999999885 4666
No 210
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=65.23 E-value=1.8e+02 Score=30.25 Aligned_cols=153 Identities=13% Similarity=0.061 Sum_probs=82.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhH-HHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHH
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKA-KAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLR 117 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~-~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr 117 (374)
.+-|-.+.-++..|++++....+..|....+ +| +...+.-.|.=...+ ...-.+.++..+.-- -+.-||+
T Consensus 307 aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P---~N~~~~~~~~~i~~~~nk----~~~A~e~~~kal~l~--P~~~~l~ 377 (484)
T COG4783 307 AAQYGRALQTYLAGQYDEALKLLQPLIAAQP---DNPYYLELAGDILLEANK----AKEAIERLKKALALD--PNSPLLQ 377 (484)
T ss_pred HHHHHHHHHHHHhcccchHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCC----hHHHHHHHHHHHhcC--CCccHHH
Confidence 3455556667777777776655555444333 32 222232222222211 111122232222211 1246666
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh-----------ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 118 QSLEARLIALYFDTGEYTEALKLSSSLLKELKKL-----------DDKNLLVEVLLLESKTYHALSNLSTSRASLTSART 186 (374)
Q Consensus 118 ~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~-----------dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~ 186 (374)
.+ +|..|++.|++.+|+..+.+.+.....- ..-....+-.+.....++..|++..+...+..|++
T Consensus 378 ~~----~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~ 453 (484)
T COG4783 378 LN----LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQ 453 (484)
T ss_pred HH----HHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 64 6999999999999976665554322210 11233455666777788888888888888888877
Q ss_pred hccccCCCh-hhhHHHHHH
Q psy4083 187 TANSIYCPP-KMQAALDLQ 204 (374)
Q Consensus 187 ~~~~~~~~~-~~~~~i~~~ 204 (374)
-....+++| +..++|+..
T Consensus 454 ~~~~~~~~~aR~dari~~~ 472 (484)
T COG4783 454 QVKLGFPDWARADARIDQL 472 (484)
T ss_pred hccCCcHHHHHHHHHHHHH
Confidence 643444444 345555443
No 211
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=65.15 E-value=20 Score=24.88 Aligned_cols=40 Identities=13% Similarity=0.059 Sum_probs=34.1
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCC
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQG 333 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~ 333 (374)
-..+++..|++.+|++...+-+.|..|...|-+.-.-+..
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~ 47 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGK 47 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCC
Confidence 4568899999999999999999999999999887544433
No 212
>PRK14574 hmsH outer membrane protein; Provisional
Probab=64.98 E-value=2.4e+02 Score=31.60 Aligned_cols=96 Identities=13% Similarity=0.105 Sum_probs=68.8
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHH-Hh--------ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCC
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELK-KL--------DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYC 193 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~-~~--------dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~ 193 (374)
+|..-|.+.++|++|...+.++.+... .. ....-=.+.....++.+...||++.|.+.+++....+ ..
T Consensus 372 ~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a---P~ 448 (822)
T PRK14574 372 DLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA---PA 448 (822)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CC
Confidence 678889999999999776666654322 11 0122334889999999999999999999999876553 34
Q ss_pred ChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 194 PPKMQAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 194 ~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
++.++. ..+-+.. ..+.+.+|...+-.+
T Consensus 449 n~~l~~----~~A~v~~-~Rg~p~~A~~~~k~a 476 (822)
T PRK14574 449 NQNLRI----ALASIYL-ARDLPRKAEQELKAV 476 (822)
T ss_pred CHHHHH----HHHHHHH-hcCCHHHHHHHHHHH
Confidence 555543 5566677 788888888888433
No 213
>KOG3785|consensus
Probab=64.55 E-value=69 Score=32.19 Aligned_cols=56 Identities=27% Similarity=0.332 Sum_probs=37.8
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
.+|.-++..|||++|+..|.-+.. .++....+.+.|.-... .+|-+..|+++..+|
T Consensus 62 Wia~C~fhLgdY~~Al~~Y~~~~~----~~~~~~el~vnLAcc~F--yLg~Y~eA~~~~~ka 117 (557)
T KOG3785|consen 62 WIAHCYFHLGDYEEALNVYTFLMN----KDDAPAELGVNLACCKF--YLGQYIEAKSIAEKA 117 (557)
T ss_pred HHHHHHHhhccHHHHHHHHHHHhc----cCCCCcccchhHHHHHH--HHHHHHHHHHHHhhC
Confidence 456678889999999988876653 45666666776655544 455567776655544
No 214
>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=64.44 E-value=55 Score=26.61 Aligned_cols=50 Identities=12% Similarity=0.132 Sum_probs=42.0
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCe
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKV 336 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~gi 336 (374)
++..+.....++...||+.+|++...+-+.+-+|...|-|...-|..++-
T Consensus 33 iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R 82 (118)
T TIGR02337 33 ILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQR 82 (118)
T ss_pred HHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCC
Confidence 44444445679999999999999999999999999999999888776653
No 215
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=64.24 E-value=2.5e+02 Score=31.70 Aligned_cols=128 Identities=19% Similarity=0.123 Sum_probs=69.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHH-H------------HHHHHhhccccchhhhHHHHHHHHHH
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLV-R------------SLVDFFLDLETRTGMEVALCKECIEW 107 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i-~------------~ild~~~~~~~~~~~~~~l~~e~i~~ 107 (374)
...|+..+...|+++++.+.+.......+.-...+....+ . ++++.+..-+. . ..++-+-.++..
T Consensus 34 ~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~-~-~~ve~~~~~i~~ 111 (906)
T PRK14720 34 LDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLK-W-AIVEHICDKILL 111 (906)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccc-h-hHHHHHHHHHHh
Confidence 3344899999999999988888766666544343332222 0 22222211000 0 112222233333
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 108 AKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDD-KNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 108 ~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd-~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
.-.++. .+ ..||..|-..|++++|...+.++++ .|. ....+.-++ ..+... |+.+|..++.+|
T Consensus 112 ~~~~k~-----Al-~~LA~~Ydk~g~~~ka~~~yer~L~----~D~~n~~aLNn~A---Y~~ae~-dL~KA~~m~~KA 175 (906)
T PRK14720 112 YGENKL-----AL-RTLAEAYAKLNENKKLKGVWERLVK----ADRDNPEIVKKLA---TSYEEE-DKEKAITYLKKA 175 (906)
T ss_pred hhhhhH-----HH-HHHHHHHHHcCChHHHHHHHHHHHh----cCcccHHHHHHHH---HHHHHh-hHHHHHHHHHHH
Confidence 322211 12 3589999999999999988888874 232 222222221 222222 788888777776
No 216
>KOG3677|consensus
Probab=63.97 E-value=53 Score=33.50 Aligned_cols=183 Identities=12% Similarity=0.119 Sum_probs=97.5
Q ss_pred HHhccCHHHHHHHHHHHHHHHHHhcc----chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHH
Q psy4083 128 YFDTGEYTEALKLSSSLLKELKKLDD----KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDL 203 (374)
Q Consensus 128 ~~~~g~~~~Al~~~~~ll~el~~~dd----~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~ 203 (374)
|+=+|.|++|.+.+..+|-.++++.. .++..|++-. .+..+-.++.-+..+-. --.|..+...+.+
T Consensus 282 yLmmrryadai~~F~niLlyIqrtks~~~~~~y~~d~inK---------q~eqm~~llai~l~~yP-q~iDESi~s~l~E 351 (525)
T KOG3677|consen 282 YLMMRRYADAIRVFLNILLYIQRTKSMFSRTTYQYDMINK---------QNEQMHHLLAICLSMYP-QMIDESIHSQLAE 351 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhhHhhhhh---------hHHHHHHHHHHHHHhCc-hhhhHHHHHHHHH
Confidence 44556788888888777776665421 2333333221 12222222322322210 0123456667777
Q ss_pred HHHH--HhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCchhHHHHHHHHhcChHHHhhHHHHHHH
Q psy4083 204 QSGI--LHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILSELEDDTIVKAHIGTLYDN 281 (374)
Q Consensus 204 ~~G~--~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~ll~~l~~D~~l~~h~~~L~~~ 281 (374)
|.|. ++| ..||-..=-+.|+=++.-|...-.+....+ +...-.+|++++ +..+.+.
T Consensus 352 k~~d~ml~m-qng~~q~~ks~f~y~cpkflsp~~~~~dgv--------------------~~~y~kePl~~q-lq~fld~ 409 (525)
T KOG3677|consen 352 KYGDKMLPM-QNGDPQVFKSLFSYLCPKFLSPVVPNYDGV--------------------LPNYHKEPLLQQ-LQVFLDE 409 (525)
T ss_pred Hhcchhhhh-hcCChHHHHHHHHHcCccccCCCCcccccc--------------------cccccccHHHHH-HHHHhHH
Confidence 7776 333 333322222233333333333222221111 112345665544 3334455
Q ss_pred HHHH----HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhh-----------cCccceeec-CCCCeEEEecC
Q psy4083 282 MLEQ----NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMIL-----------DKKFHGILD-QGEKVLIVFEG 342 (374)
Q Consensus 282 ire~----~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~-----------dgkl~akID-~~~giv~~~~~ 342 (374)
++.+ .+++|++-|+.....-+|.-++++.++=++.+.+|+. +|.....++ ++..-|-|+-.
T Consensus 410 v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~~dk~li~Ll~~khkm~nlv~~sg~s~~d~~f~~~s~idfyid 486 (525)
T KOG3677|consen 410 VSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQERDKFLIQLLVFKHKMKNLVWTSGPSDLDDAFFSRSEIDFYID 486 (525)
T ss_pred HhhhccchHHHHHHHHHHhccHHHhhhccCCchhhhhhhHHHHHHHHHHHHHHHHhcCCccccccccCcceeeEEec
Confidence 5544 6888899999999999999999999888888888774 455556666 44445555433
No 217
>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=62.47 E-value=18 Score=30.50 Aligned_cols=44 Identities=9% Similarity=0.056 Sum_probs=36.5
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.++.+.||+.+++|...+++.+..|...|-+..+=....|..-.
T Consensus 25 ~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~ 68 (135)
T TIGR02010 25 PVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLG 68 (135)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEecc
Confidence 59999999999999999999999999999887644444454443
No 218
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=61.77 E-value=19 Score=31.36 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=37.3
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
..++...||+..|+|...+++.+..|...|-+...=-...|..-.
T Consensus 23 ~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La 67 (153)
T PRK11920 23 KLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLG 67 (153)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCeeec
Confidence 458999999999999999999999999999887655555554444
No 219
>KOG1130|consensus
Probab=61.49 E-value=48 Score=33.92 Aligned_cols=100 Identities=12% Similarity=0.084 Sum_probs=53.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHH-
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAAL- 201 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i- 201 (374)
.|+..|+-.|||+.|+..=+.-|.-.+...|+..--.-+...---|+.++|++-|-.+|..+...+.. +.+....++-
T Consensus 200 nLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAie-lg~r~vEAQsc 278 (639)
T KOG1130|consen 200 NLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIE-LGNRTVEAQSC 278 (639)
T ss_pred ccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHH-hcchhHHHHHH
Confidence 36777888899998875533222222233444333333444444556777888887777776554321 2343343332
Q ss_pred HHHHHHHhhcccccHHHHHHHHHH
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYE 225 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~e 225 (374)
+.++.-+ . --++|.+|..||.-
T Consensus 279 YSLgNty-t-ll~e~~kAI~Yh~r 300 (639)
T KOG1130|consen 279 YSLGNTY-T-LLKEVQKAITYHQR 300 (639)
T ss_pred HHhhhHH-H-HHHHHHHHHHHHHH
Confidence 2222222 2 35677888877753
No 220
>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=60.92 E-value=12 Score=27.88 Aligned_cols=43 Identities=12% Similarity=0.139 Sum_probs=35.4
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecC
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEG 342 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~ 342 (374)
.++.+.||..+|++.+.+-+.|..|..+|-|. ...|.+.+.++
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~----~~~~~i~I~d~ 70 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRILKRLKDEGIIE----VKRGKIIILDP 70 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE----EETTEEEESSH
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EcCCEEEECCH
Confidence 46789999999999999999999999999554 55667776543
No 221
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=60.77 E-value=1.6e+02 Score=28.10 Aligned_cols=131 Identities=18% Similarity=0.210 Sum_probs=80.1
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhH-HHH-------------------------HHHHH
Q psy4083 29 NHDEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKA-KAA-------------------------KLVRS 82 (374)
Q Consensus 29 ~~~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~-~~~-------------------------k~i~~ 82 (374)
.++|. +++++.++..+++.++++.....+..+..++|+-+-. ++- ..++.
T Consensus 66 ~s~~~----~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~ 141 (254)
T COG4105 66 FSPYS----EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKE 141 (254)
T ss_pred CCccc----HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHH
Confidence 46775 6788899999999999999998888887777655322 111 22333
Q ss_pred HHHHhhccccchhhh--HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHH
Q psy4083 83 LVDFFLDLETRTGME--VALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEV 160 (374)
Q Consensus 83 ild~~~~~~~~~~~~--~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev 160 (374)
+++.+++++-..+.+ +..+++. .-.+ +...+++|++.|.|-.|..-..+++.. ..+..+.-|-
T Consensus 142 ~i~ryPnS~Ya~dA~~~i~~~~d~----------LA~~--Em~IaryY~kr~~~~AA~nR~~~v~e~---y~~t~~~~ea 206 (254)
T COG4105 142 LVQRYPNSRYAPDAKARIVKLNDA----------LAGH--EMAIARYYLKRGAYVAAINRFEEVLEN---YPDTSAVREA 206 (254)
T ss_pred HHHHCCCCcchhhHHHHHHHHHHH----------HHHH--HHHHHHHHHHhcChHHHHHHHHHHHhc---cccccchHHH
Confidence 333332222111111 1111110 0123 336899999999999998777766643 4445555565
Q ss_pred HHHHHHHHHHhCCHHHHH
Q psy4083 161 LLLESKTYHALSNLSTSR 178 (374)
Q Consensus 161 ~l~ei~l~~~~~n~~~a~ 178 (374)
...-...|..+|-...+.
T Consensus 207 L~~l~eaY~~lgl~~~a~ 224 (254)
T COG4105 207 LARLEEAYYALGLTDEAK 224 (254)
T ss_pred HHHHHHHHHHhCChHHHH
Confidence 566667777787766665
No 222
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=60.65 E-value=16 Score=31.65 Aligned_cols=47 Identities=17% Similarity=0.094 Sum_probs=39.5
Q ss_pred cccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 293 PYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 293 pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
...-++++.||+..|+|+..+++.+..|...|-+..+=-...|..-.
T Consensus 22 ~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~La 68 (150)
T COG1959 22 GGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLA 68 (150)
T ss_pred CCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCC
Confidence 33478999999999999999999999999999988766666665544
No 223
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=60.50 E-value=72 Score=26.42 Aligned_cols=75 Identities=17% Similarity=0.188 Sum_probs=51.3
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee--ecCCCC-eEEEecCCcc-----------hHHHHHHHHHHHHHH
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI--LDQGEK-VLIVFEGAEI-----------DKTYEKALETITSMG 360 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak--ID~~~g-iv~~~~~~~~-----------~~~y~~~~~~i~~l~ 360 (374)
..|+|+.||+.|..|.--+-..|-+|...|-|.=+ .-+++. .+.+..+++. ...|+.+++.+....
T Consensus 18 ~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~~~~~~~~~~~~~~l~~g~~~~a~~ll~~~~ 97 (115)
T PF12793_consen 18 VEVTLDELAELLFCSRRNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLKSPEELLEQQAEELLEQGKYEQALQLLDFDQ 97 (115)
T ss_pred cceeHHHHHHHhCCCHHHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEeeCHHHHHHHHHHHHHHcCCHHHHHHHHHhCH
Confidence 57899999999999999999999999999988533 333333 4555443321 123445555666666
Q ss_pred HHHHHHHHH
Q psy4083 361 KVIDTLYQK 369 (374)
Q Consensus 361 ~~vd~l~~~ 369 (374)
..+..++..
T Consensus 98 ~~~~~lL~~ 106 (115)
T PF12793_consen 98 RQLAQLLQQ 106 (115)
T ss_pred HHHHHHHHH
Confidence 666666543
No 224
>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=60.22 E-value=14 Score=30.79 Aligned_cols=44 Identities=18% Similarity=0.085 Sum_probs=36.1
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLI 338 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~ 338 (374)
..++...||+.+|+|...+.+.+..|...|-+...-....|...
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~ggy~l 67 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGGYTL 67 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCChhh
Confidence 46899999999999999999999999999998765433344333
No 225
>KOG1156|consensus
Probab=60.10 E-value=92 Score=33.48 Aligned_cols=59 Identities=24% Similarity=0.350 Sum_probs=46.2
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
|+.+|-..|+++.|+..+...+ +-..-++|.|+...|++.-.|+++.|-..+..|+...
T Consensus 377 laqh~D~~g~~~~A~~yId~AI------dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD 435 (700)
T KOG1156|consen 377 LAQHYDKLGDYEVALEYIDLAI------DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD 435 (700)
T ss_pred HHHHHHHcccHHHHHHHHHHHh------ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence 6777778888888877666554 5566788888888888888888888888888887664
No 226
>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=59.92 E-value=71 Score=28.69 Aligned_cols=64 Identities=11% Similarity=0.108 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
.+.+++.+++..+..-+.|=.+++-..||+.||+|...|-+-|..|-.+|-+.- -+..|+.+..
T Consensus 13 ~~~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~--~~~~G~~V~~ 76 (212)
T TIGR03338 13 TTLVQDEIERAILSGELPPGAKLNESDIAARLGVSRGPVREAFRALEEAGLVRN--EKNRGVFVRE 76 (212)
T ss_pred HHHHHHHHHHHHHcCCCCCCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEE--ecCCCeEEec
Confidence 356788999999999999999999999999999999999999999999998853 4456776664
No 227
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.70 E-value=1.4e+02 Score=27.47 Aligned_cols=102 Identities=15% Similarity=0.083 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
-..| .+|.-+.+.|++++|...+.-.+ ...-|...+-=.-+.-.++.+.++-+..+...+.. +.++.
T Consensus 90 laaL--~lAk~~ve~~~~d~A~aqL~~~l---~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t--------~~~~~ 156 (207)
T COG2976 90 LAAL--ELAKAEVEANNLDKAEAQLKQAL---AQTKDENLKALAALRLARVQLQQKKADAALKTLDT--------IKEES 156 (207)
T ss_pred HHHH--HHHHHHHhhccHHHHHHHHHHHH---ccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhc--------ccccc
Confidence 3445 58889999999999964443332 12223323322334445666677777766655532 34566
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
-.+++-+.-|.+.+ ..||=..|...|-.+...+.+
T Consensus 157 w~~~~~elrGDill-~kg~k~~Ar~ay~kAl~~~~s 191 (207)
T COG2976 157 WAAIVAELRGDILL-AKGDKQEARAAYEKALESDAS 191 (207)
T ss_pred HHHHHHHHhhhHHH-HcCchHHHHHHHHHHHHccCC
Confidence 67788899999999 999999999999888776643
No 228
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=59.45 E-value=62 Score=24.80 Aligned_cols=49 Identities=6% Similarity=0.043 Sum_probs=38.8
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCC
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEK 335 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~g 335 (374)
++.++..-..++++.|.+.+|++...+-+.|..|...|=+..+-....+
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 4555555688999999999999999999999999999999876555544
No 229
>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=58.49 E-value=18 Score=23.00 Aligned_cols=30 Identities=17% Similarity=0.105 Sum_probs=24.0
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
++-..||..+|++.+-|-+.+.+|-.+|-|
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 456789999999999999999999888753
No 230
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=57.35 E-value=27 Score=30.79 Aligned_cols=45 Identities=13% Similarity=0.117 Sum_probs=38.6
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
..++++.||+.+|+|...+++.+..|-..|-+...=....|..-.
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~La 68 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLG 68 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeecc
Confidence 569999999999999999999999999999988755666665544
No 231
>KOG2047|consensus
Probab=57.32 E-value=1.1e+02 Score=33.01 Aligned_cols=128 Identities=12% Similarity=0.103 Sum_probs=79.2
Q ss_pred CchHHHHHHHHH-------HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhH--HHHHHHHHHHHHhhccccch-hhhH
Q psy4083 29 NHDEEVKAKEQN-------ILQLGEKYKQEGKAIELAELIKKTRPFLSQISKA--KAAKLVRSLVDFFLDLETRT-GMEV 98 (374)
Q Consensus 29 ~~~~~~k~~e~~-------~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~--~~~k~i~~ild~~~~~~~~~-~~~~ 98 (374)
-.+|..+.+++- .-+.+..+.+.++|++..+.+..+.+-=..++|. ....+-....|.+++-|+-. +.++
T Consensus 153 lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnv 232 (835)
T KOG2047|consen 153 LPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNV 232 (835)
T ss_pred ChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCH
Confidence 347888777654 3467889999999999999888887655445442 34477788888887766411 2223
Q ss_pred HHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHH
Q psy4083 99 ALC-KECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVL 161 (374)
Q Consensus 99 ~l~-~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~ 161 (374)
+-+ +.-|.--+. -|..-+. -||++|...|.+++|-..+.+-++.+-..-|-+...|.|
T Consensus 233 daiiR~gi~rftD---q~g~Lw~--SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Y 291 (835)
T KOG2047|consen 233 DAIIRGGIRRFTD---QLGFLWC--SLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAY 291 (835)
T ss_pred HHHHHhhcccCcH---HHHHHHH--HHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHH
Confidence 322 222221121 1222333 589999999999999888777765443333444444433
No 232
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=57.11 E-value=20 Score=30.89 Aligned_cols=47 Identities=9% Similarity=0.073 Sum_probs=38.5
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc---eeecC
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH---GILDQ 332 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~---akID~ 332 (374)
.|+..+.-=.|++...||+.+|+|+..|-+-+-+|..+|-|. +.+|+
T Consensus 13 ~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 13 GILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 333444334899999999999999999999999999999985 46673
No 233
>KOG3250|consensus
Probab=56.68 E-value=22 Score=32.92 Aligned_cols=64 Identities=14% Similarity=0.115 Sum_probs=44.6
Q ss_pred hHhCC-ChHHHHHHHHHHhhcCccceeecCCCCeEEEecC---CcchHHHHHHHHHHHHHHHHHHHHH
Q psy4083 304 KSIKL-DELAVEKKLSQMILDKKFHGILDQGEKVLIVFEG---AEIDKTYEKALETITSMGKVIDTLY 367 (374)
Q Consensus 304 ~~l~l-s~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~---~~~~~~y~~~~~~i~~l~~~vd~l~ 367 (374)
..+.+ ++-++|+.+.+.+-.+-+.|||||-+.++++.=. +-+...-.+...++.+|-..-.+++
T Consensus 117 ~~l~~~nvrelEd~iieamya~IlrGkldqr~q~leV~faigRdlr~k~i~nm~~TL~~w~~~cenvL 184 (258)
T KOG3250|consen 117 RLLPSRNVRELEDLIIEAMYADILRGKLDQRNQTLEVDFAIGRDLRSKDIDNMKYTLDEWCEGCENVL 184 (258)
T ss_pred hhccCCchhHHHHHHHHHHHHHHHHhhHHhhcceEeechhhcccccHhHHHHHHHHHHHHHHHHHHHH
Confidence 33444 3568999999999999999999999999998422 2233444555566777765555443
No 234
>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=56.48 E-value=31 Score=23.87 Aligned_cols=32 Identities=16% Similarity=0.269 Sum_probs=28.1
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
..+++..||+.+|+|...+-+.|..|...|-+
T Consensus 17 ~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 17 GPLTLSEIARALGLPKSTVHRLLQTLVEEGYV 48 (52)
T ss_dssp SCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCe
Confidence 44899999999999999999999999988854
No 235
>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=55.49 E-value=19 Score=27.99 Aligned_cols=34 Identities=18% Similarity=0.174 Sum_probs=30.1
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHH
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L 317 (374)
|..-|+.++.- .++++..+|+.+|+|..-|-+.|
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 66778888888 99999999999999999998755
No 236
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=55.48 E-value=27 Score=26.78 Aligned_cols=44 Identities=9% Similarity=0.077 Sum_probs=36.5
Q ss_pred HHHHHhhccc-cceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 285 QNLCRIIEPY-SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 285 ~~l~~~~~pY-s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
..++.++.-. ..+++..||+.+|+|...+.+.|..|...|-+..
T Consensus 8 ~~Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 8 LAVLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 3445555545 4699999999999999999999999999998865
No 237
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=55.40 E-value=55 Score=29.77 Aligned_cols=63 Identities=10% Similarity=0.113 Sum_probs=54.8
Q ss_pred HHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+.+++.|++..+..-+.|=.+++-..||+.||+|...|-+-|..|..+|-+.- -+..|+.+.
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 466899999999999999999999999999999999999999999999998864 345565554
No 238
>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=53.97 E-value=4.3 Score=33.37 Aligned_cols=51 Identities=22% Similarity=0.240 Sum_probs=34.6
Q ss_pred HHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeec
Q psy4083 281 NMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILD 331 (374)
Q Consensus 281 ~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID 331 (374)
+.+...+.+++.|=.+=.|.+++-.--=-...||..|.+|...|+|.++||
T Consensus 32 e~~~~iL~qiLt~eAreRL~rI~lvkPe~A~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 32 EQRRAILRQILTPEARERLNRIKLVKPEKARQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HCCHHHHHTCB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHcCHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 345566777777766666666654432223589999999999999999987
No 239
>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=53.66 E-value=33 Score=24.83 Aligned_cols=36 Identities=17% Similarity=0.111 Sum_probs=30.8
Q ss_pred ccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 292 EPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 292 ~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
+.=..|+...||+.||++++-|-+.+.+|-..|-+.
T Consensus 18 ~~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 18 EEGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp HCTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred cCCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 455789999999999999999999999999988653
No 240
>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=53.64 E-value=29 Score=25.67 Aligned_cols=32 Identities=19% Similarity=0.190 Sum_probs=26.7
Q ss_pred ceeHHHHHhHhCCC-hHHHHHHHHHHhhcCccc
Q psy4083 296 RVEVGFIAKSIKLD-ELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 296 ~I~l~~lA~~l~ls-~~~vE~~L~~lI~dgkl~ 327 (374)
.-++..||+.||++ ..-|...|..|...|-|.
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 35899999999996 999999999999998764
No 241
>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=53.45 E-value=22 Score=23.51 Aligned_cols=30 Identities=13% Similarity=0.130 Sum_probs=24.4
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCccceee
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGIL 330 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akI 330 (374)
+++..+|+.||++...+. +++.+|.|.+..
T Consensus 2 lt~~e~a~~lgis~~ti~----~~~~~g~i~~~~ 31 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVY----RLIHEGELPAYR 31 (49)
T ss_pred CCHHHHHHHHCCCHHHHH----HHHHcCCCCeEE
Confidence 468899999999988877 556789998843
No 242
>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=53.31 E-value=37 Score=20.54 Aligned_cols=30 Identities=17% Similarity=0.148 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 159 EVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 159 ev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
+++....++|..+||+..+..++.++..+.
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~ 31 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALELN 31 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 467778899999999999999999987763
No 243
>KOG2114|consensus
Probab=53.16 E-value=2.2e+02 Score=31.68 Aligned_cols=32 Identities=19% Similarity=0.129 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q psy4083 37 KEQNILQLGEKYKQEGKAIELAELIKKTRPFL 68 (374)
Q Consensus 37 ~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~ 68 (374)
.+.+..+.|..+|..|++++...++....++.
T Consensus 367 ~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l 398 (933)
T KOG2114|consen 367 LAEIHRKYGDYLYGKGDFDEATDQYIETIGFL 398 (933)
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC
Confidence 34667778999999999999977776666554
No 244
>KOG1173|consensus
Probab=53.05 E-value=2.9e+02 Score=29.38 Aligned_cols=139 Identities=15% Similarity=0.082 Sum_probs=87.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhh---------------HHHHHHHHHHHHHhhccccchh-----------
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKTRPFLSQISK---------------AKAAKLVRSLVDFFLDLETRTG----------- 95 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k---------------~~~~k~i~~ild~~~~~~~~~~----------- 95 (374)
+.++..+.-.|..|.....+..-..+++.... .-+.+...+.+...+.-|=-..
T Consensus 350 l~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~ 429 (611)
T KOG1173|consen 350 LAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEE 429 (611)
T ss_pred HHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhh
Confidence 34566777777777776666655555522211 2344666666666643221000
Q ss_pred --hhHHHH---HHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHH
Q psy4083 96 --MEVALC---KECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHA 170 (374)
Q Consensus 96 --~~~~l~---~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~ 170 (374)
.-...+ ++.|+...++.+.|--... -||..+-..+.|++|+..++..|. -...-.+.|...--+|..
T Consensus 430 y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~--NLGH~~Rkl~~~~eAI~~~q~aL~------l~~k~~~~~asig~iy~l 501 (611)
T KOG1173|consen 430 YPEALKYFQKALEVIKSVLNEKIFWEPTLN--NLGHAYRKLNKYEEAIDYYQKALL------LSPKDASTHASIGYIYHL 501 (611)
T ss_pred hHHHHHHHHHHHHHhhhccccccchhHHHH--hHHHHHHHHhhHHHHHHHHHHHHH------cCCCchhHHHHHHHHHHH
Confidence 001111 1223333334344777666 599999999999999988877763 223345677888889999
Q ss_pred hCCHHHHHHHHHHHHhhc
Q psy4083 171 LSNLSTSRASLTSARTTA 188 (374)
Q Consensus 171 ~~n~~~a~~~~~~a~~~~ 188 (374)
+||+.+|-..+.+|..+.
T Consensus 502 lgnld~Aid~fhKaL~l~ 519 (611)
T KOG1173|consen 502 LGNLDKAIDHFHKALALK 519 (611)
T ss_pred hcChHHHHHHHHHHHhcC
Confidence 999999999999997764
No 245
>KOG2376|consensus
Probab=53.03 E-value=3.2e+02 Score=29.30 Aligned_cols=62 Identities=11% Similarity=0.187 Sum_probs=40.1
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHh----ccc--hhHHHHHHHHHHHHH---HhCCHHHHHHHHHHHHh
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKL----DDK--NLLVEVLLLESKTYH---ALSNLSTSRASLTSART 186 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~----dd~--~~~lev~l~ei~l~~---~~~n~~~a~~~~~~a~~ 186 (374)
|-++...|+|++|++++...++-+++. |.. ...-|+-...+|+.+ ..|.-..+.++|....+
T Consensus 182 Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~ 252 (652)
T KOG2376|consen 182 ACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIK 252 (652)
T ss_pred HHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence 446778899999999998887666543 222 233344444444444 66788888887766433
No 246
>KOG0551|consensus
Probab=52.82 E-value=87 Score=31.12 Aligned_cols=90 Identities=20% Similarity=0.235 Sum_probs=67.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
.-|+-|+...+|..|..+|++-|+ ++.+|+....-+|....-..+.+|||..+..=..+|++.. +..+.+.|+
T Consensus 86 eeGN~~fK~Kryk~A~~~Yt~Glk--~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~-----P~h~Ka~~R 158 (390)
T KOG0551|consen 86 EEGNEYFKEKRYKDAVESYTEGLK--KKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLK-----PTHLKAYIR 158 (390)
T ss_pred HHhHHHHHhhhHHHHHHHHHHHHh--hcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcC-----cchhhhhhh
Confidence 457788888899999999987764 3557888888899999999999999999988888887763 445677776
Q ss_pred HHHHHHhhcccccHHHHHHH
Q psy4083 203 LQSGILHAADEQDFKTAFSY 222 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~ 222 (374)
-....+.+ ..|..|...
T Consensus 159 ~Akc~~eL---e~~~~a~nw 175 (390)
T KOG0551|consen 159 GAKCLLEL---ERFAEAVNW 175 (390)
T ss_pred hhHHHHHH---HHHHHHHHH
Confidence 55554433 444444433
No 247
>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=52.67 E-value=35 Score=24.50 Aligned_cols=40 Identities=10% Similarity=0.233 Sum_probs=31.2
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
.|.-.++.++---..++++.+|+.+|+|...+...+..+=
T Consensus 5 ~rq~~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~~L~ 44 (59)
T PF08280_consen 5 KRQLKLLELLLKNKWITLKELAKKLNISERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4555566665447889999999999999999999988774
No 248
>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=52.31 E-value=32 Score=24.61 Aligned_cols=40 Identities=13% Similarity=0.182 Sum_probs=32.9
Q ss_pred HhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 289 RIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 289 ~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
+.+..-...+...||+.+|++...+-..|..|...|-+..
T Consensus 17 ~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 17 RLLASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 3335568899999999999999999999999998886653
No 249
>PRK03837 transcriptional regulator NanR; Provisional
Probab=51.99 E-value=49 Score=30.39 Aligned_cols=63 Identities=10% Similarity=0.041 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+.+++.|++..+..-+.|=.++ +...||+.||+|...|.+-|..|-.+|-+.-+ +..|+.+.
T Consensus 15 ~~~v~~~l~~~I~~g~l~pG~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~~--~~~G~~V~ 78 (241)
T PRK03837 15 SEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQIS--HGERARVS 78 (241)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--cCCceeEe
Confidence 35688999999999999999999 89999999999999999999999999988653 55576665
No 250
>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=51.99 E-value=72 Score=28.81 Aligned_cols=44 Identities=9% Similarity=0.147 Sum_probs=37.5
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
.++.++.....++...||+.+|++..-|-+.|..|...|-+.-+
T Consensus 5 ~IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 5 DILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 44555555577999999999999999999999999999998654
No 251
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=51.98 E-value=27 Score=29.66 Aligned_cols=46 Identities=15% Similarity=0.331 Sum_probs=38.2
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc---eeecC
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH---GILDQ 332 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~---akID~ 332 (374)
++++++-=.++++..||+.+|+|+..+-+-+-+|..+|-|. +.+|.
T Consensus 13 IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 13 ILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred HHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 44444444669999999999999999999999999999774 57775
No 252
>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=51.92 E-value=59 Score=23.26 Aligned_cols=48 Identities=8% Similarity=0.102 Sum_probs=35.0
Q ss_pred HHHhhc-cccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCC
Q psy4083 287 LCRIIE-PYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGE 334 (374)
Q Consensus 287 l~~~~~-pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~ 334 (374)
++..+. ....+++..||+.++++...+-+.|-+|+..|-+.=.-|..+
T Consensus 8 vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d 56 (68)
T PF13463_consen 8 VLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHD 56 (68)
T ss_dssp HHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSC
T ss_pred HHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCc
Confidence 344444 789999999999999999999999999999998854444433
No 253
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=51.72 E-value=91 Score=22.65 Aligned_cols=51 Identities=24% Similarity=0.296 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh
Q psy4083 98 VALCKECIEWAKEERRTFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL 151 (374)
Q Consensus 98 ~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~ 151 (374)
++-+.+.++..+.. |-=+...+ ....-|.+.|++++|.+.+.++..+++..
T Consensus 6 ~~~~~~~~~~lR~~-RHD~~NhL--qvI~gllqlg~~~~a~eYi~~~~~~~~~~ 56 (62)
T PF14689_consen 6 LEELEELIDSLRAQ-RHDFLNHL--QVIYGLLQLGKYEEAKEYIKELSKDLQQE 56 (62)
T ss_dssp HHHHHHHHHHHHHH-HHHHHHHH--HHHHHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH-hHHHHHHH--HHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 44444555555533 44455556 35667999999999999888888776653
No 254
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=51.50 E-value=73 Score=29.18 Aligned_cols=63 Identities=13% Similarity=0.199 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+.+|+.+++.-+..-+.|=++++-..||+.||+|...|-+-|.+|-.+|-+.-. +..|.++.
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 4667899999999999999999999999999999999999999999999988655 55566655
No 255
>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=51.33 E-value=48 Score=24.17 Aligned_cols=44 Identities=9% Similarity=0.049 Sum_probs=36.8
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
+.+..++ .....+...||+.+|+|...|.+.|.+|...|-+.-.
T Consensus 12 ~vy~~Ll-~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~ 55 (68)
T PF01978_consen 12 KVYLALL-KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVERE 55 (68)
T ss_dssp HHHHHHH-HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHH-HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 3444444 6788999999999999999999999999999987543
No 256
>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=51.19 E-value=22 Score=19.74 Aligned_cols=23 Identities=35% Similarity=0.534 Sum_probs=18.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
.+|..+...|++++|...+...+
T Consensus 6 ~~a~~~~~~~~~~~a~~~~~~~~ 28 (34)
T smart00028 6 NLGNAYLKLGDYDEALEYYEKAL 28 (34)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHH
Confidence 57888999999999987776655
No 257
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=51.06 E-value=1.1e+02 Score=23.83 Aligned_cols=61 Identities=20% Similarity=0.232 Sum_probs=42.4
Q ss_pred HhccCHHHHHHHHHHHHHHHHHhccch---hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhcc
Q psy4083 129 FDTGEYTEALKLSSSLLKELKKLDDKN---LLVEVLLLESKTYHALSNLSTSRASLTSARTTAN 189 (374)
Q Consensus 129 ~~~g~~~~Al~~~~~ll~el~~~dd~~---~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~ 189 (374)
...|||.+|++.+.+...-........ ..---.+....++...|++..|...+..|..++.
T Consensus 9 ~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Ar 72 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLAR 72 (94)
T ss_pred HHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 456999999887777664333333322 2333456678889999999999988888877653
No 258
>PHA02943 hypothetical protein; Provisional
Probab=50.90 E-value=1.2e+02 Score=26.55 Aligned_cols=73 Identities=11% Similarity=0.186 Sum_probs=50.3
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHH-HHHHHHHHHHHHH
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEK-ALETITSMGKVID 364 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~-~~~~i~~l~~~vd 364 (374)
-++.++ -.-.-+.+.||+.+|+|-.+++-.|--|=.+|++.- +-++...+-.-.++ .|.+ +.+...++-+.|.
T Consensus 15 eILE~L-k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~d----ay~~~v~~~~Relwrlv~ 88 (165)
T PHA02943 15 KTLRLL-ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDED----AYTNLVFEIKRELWRLVC 88 (165)
T ss_pred HHHHHH-hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEEChH----HHHHHHHHHHHHHHHHHH
Confidence 355555 567788999999999999999999999999999875 44555555544443 3332 3345555555543
No 259
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=50.26 E-value=42 Score=21.03 Aligned_cols=29 Identities=21% Similarity=0.373 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFL 68 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~ 68 (374)
++.+++..|...|+|++..+++.......
T Consensus 4 ~~~~la~~~~~~g~~~~A~~~~~~al~~~ 32 (42)
T PF13374_consen 4 ALNNLANAYRAQGRYEEALELLEEALEIR 32 (42)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhcchhhHHHHHHHHHH
Confidence 46788999999999999988888776554
No 260
>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=50.19 E-value=45 Score=30.64 Aligned_cols=63 Identities=13% Similarity=0.150 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+..++.|++.-+..-+.|=.++ +-..||+.||+|...|-.-|..|-.+|-+. +-+..|+.+.
T Consensus 8 ~~~v~~~l~~~I~~g~l~pG~~LpsE~~La~~lgVSRtpVREAL~~Le~eGlV~--~~~~~G~~V~ 71 (235)
T TIGR02812 8 AGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLT--IQHGKPTKVN 71 (235)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE--EeCCCccEec
Confidence 35678889999999999999999 899999999999999999999999999886 3445576665
No 261
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=50.08 E-value=52 Score=30.71 Aligned_cols=64 Identities=11% Similarity=0.114 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
.+.+++.|++..+..-+.|=.++ +-..||+.||+|...|-+-|..|-.+|-+. +.+..|+.+..
T Consensus 11 ~~~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~~gVSRtpVREAL~~L~~eGlV~--~~~~~G~~V~~ 75 (257)
T PRK10225 11 YQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVE--VRRGAGIYVLD 75 (257)
T ss_pred HHHHHHHHHHHHHhCCCCCCCcCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE--EecCCEEEEeC
Confidence 56788999999999999999999 699999999999999999999999999886 34456776653
No 262
>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=49.75 E-value=44 Score=22.78 Aligned_cols=28 Identities=14% Similarity=0.317 Sum_probs=23.7
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
|...++..+|+.+|+|...|-....+.+
T Consensus 18 ~~~~t~~eIa~~lg~s~~~V~~~~~~al 45 (50)
T PF04545_consen 18 FEGLTLEEIAERLGISRSTVRRILKRAL 45 (50)
T ss_dssp TST-SHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCcHHHHHHHHHHHH
Confidence 7788899999999999999988877655
No 263
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 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 C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=48.87 E-value=1.9e+02 Score=29.63 Aligned_cols=97 Identities=21% Similarity=0.231 Sum_probs=56.8
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHh--cc------chhHHHHH---HHHHHHHHHhCCH-----HHHHHHHHHHHh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKL--DD------KNLLVEVL---LLESKTYHALSNL-----STSRASLTSART 186 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~--dd------~~~~lev~---l~ei~l~~~~~n~-----~~a~~~~~~a~~ 186 (374)
+.|.=++..|++++|+..+..+|..+.-. ++ -..+|+++ ..-+++-...+.. ...++.++.|--
T Consensus 209 k~gyk~~t~gKF~eA~~~Fr~iL~~i~l~vv~~~~E~~e~~eli~icrEYilgl~iEl~Rr~l~~~~~~~~kR~lELAAY 288 (422)
T PF06957_consen 209 KEGYKLFTAGKFEEAIEIFRSILHSIPLLVVESREEEDEAKELIEICREYILGLSIELERRELPKDPVEDQKRNLELAAY 288 (422)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHC--BSSCHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-TTTHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHhheeeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhhHHHHHHHHHH
Confidence 45656778899999999999999776532 22 33455542 3334444444443 345666666655
Q ss_pred hccccCCChhhhHHHHHHHHHHhhcccccHHHHHH
Q psy4083 187 TANSIYCPPKMQAALDLQSGILHAADEQDFKTAFS 221 (374)
Q Consensus 187 ~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~ 221 (374)
++.--..++-+...++..++.. + .-+||.+|++
T Consensus 289 FThc~LQp~H~~LaLr~AM~~~-~-K~KNf~tAa~ 321 (422)
T PF06957_consen 289 FTHCKLQPSHLILALRSAMSQA-F-KLKNFITAAS 321 (422)
T ss_dssp HCCS---HHHHHHHHHHHHHHC-C-CTTBHHHHHH
T ss_pred HhcCCCcHHHHHHHHHHHHHHH-H-HhccHHHHHH
Confidence 4322222334445677777764 4 6899999974
No 264
>KOG0553|consensus
Probab=48.82 E-value=1.8e+02 Score=28.42 Aligned_cols=90 Identities=17% Similarity=0.196 Sum_probs=62.2
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHH
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQ 204 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~ 204 (374)
+.=+.+.++|.+|+..|...+. ++++.- =+|......|+.++.+..|-.-...|..+ ||.- .+-+.-
T Consensus 88 GN~~m~~~~Y~eAv~kY~~AI~----l~P~nA--VyycNRAAAy~~Lg~~~~AVkDce~Al~i------Dp~y-skay~R 154 (304)
T KOG0553|consen 88 GNKLMKNKDYQEAVDKYTEAIE----LDPTNA--VYYCNRAAAYSKLGEYEDAVKDCESALSI------DPHY-SKAYGR 154 (304)
T ss_pred HHHHHHhhhHHHHHHHHHHHHh----cCCCcc--hHHHHHHHHHHHhcchHHHHHHHHHHHhc------ChHH-HHHHHH
Confidence 4445667899999988887763 232221 14678899999999999887666665443 3322 233344
Q ss_pred HHHHhhcccccHHHHHHHHHHhcc
Q psy4083 205 SGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 205 ~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.|..++ ..++|..|...|--+.+
T Consensus 155 LG~A~~-~~gk~~~A~~aykKaLe 177 (304)
T KOG0553|consen 155 LGLAYL-ALGKYEEAIEAYKKALE 177 (304)
T ss_pred HHHHHH-ccCcHHHHHHHHHhhhc
Confidence 588888 89999999998877755
No 265
>PF13518 HTH_28: Helix-turn-helix domain
Probab=48.71 E-value=51 Score=22.27 Aligned_cols=36 Identities=14% Similarity=0.137 Sum_probs=29.5
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecC
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQ 332 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~ 332 (374)
..++..+|+.||++...|..++..+=..| +.|-.+.
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 44899999999999999999999988777 5554443
No 266
>KOG1070|consensus
Probab=48.66 E-value=3.5e+02 Score=32.09 Aligned_cols=119 Identities=12% Similarity=0.096 Sum_probs=65.8
Q ss_pred HhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q psy4083 50 QEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIALYF 129 (374)
Q Consensus 50 ~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~~~~ 129 (374)
.-|.-+.+.+.+...+.++... .+-.-+..|.+...+ .+.-.++++.+++--.+...+|+ +.+++++
T Consensus 1509 ~yG~eesl~kVFeRAcqycd~~---~V~~~L~~iy~k~ek----~~~A~ell~~m~KKF~q~~~vW~------~y~~fLl 1575 (1710)
T KOG1070|consen 1509 AYGTEESLKKVFERACQYCDAY---TVHLKLLGIYEKSEK----NDEADELLRLMLKKFGQTRKVWI------MYADFLL 1575 (1710)
T ss_pred hhCcHHHHHHHHHHHHHhcchH---HHHHHHHHHHHHhhc----chhHHHHHHHHHHHhcchhhHHH------HHHHHHh
Confidence 3455666666666666555444 223344455554432 23334445455554443345554 3566677
Q ss_pred hccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q psy4083 130 DTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSAR 185 (374)
Q Consensus 130 ~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~ 185 (374)
...+=++|..++.+.|+-+ .+..-++++..-+++-+..||.++.|.++.-..
T Consensus 1576 ~~ne~~aa~~lL~rAL~~l----Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll 1627 (1710)
T KOG1070|consen 1576 RQNEAEAARELLKRALKSL----PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLL 1627 (1710)
T ss_pred cccHHHHHHHHHHHHHhhc----chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHH
Confidence 7666666755555555433 334556777777777777777777776665543
No 267
>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=48.05 E-value=54 Score=19.86 Aligned_cols=29 Identities=24% Similarity=0.315 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPF 67 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~ 67 (374)
++.+.++..+...|++++..+.++.-...
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 35678899999999999998887766544
No 268
>PRK04239 hypothetical protein; Provisional
Probab=47.62 E-value=16 Score=30.11 Aligned_cols=52 Identities=21% Similarity=0.225 Sum_probs=37.9
Q ss_pred HHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeec
Q psy4083 280 DNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILD 331 (374)
Q Consensus 280 ~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID 331 (374)
...+...+.+++.|=.+=+|++|+=.=-=-...||..|.+|...|+|.++||
T Consensus 36 e~qk~~iL~qiLt~eAreRL~rI~lvkPe~A~~VE~~liqlAq~G~i~~ki~ 87 (110)
T PRK04239 36 EAQKQAILRQILTPEARERLNRIKLVKPEFAEQVEQQLIQLAQSGRIQGPID 87 (110)
T ss_pred HHHHHHHHHHHCCHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 4567777889998876666666542110012589999999999999999987
No 269
>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=47.45 E-value=47 Score=21.80 Aligned_cols=27 Identities=15% Similarity=0.255 Sum_probs=23.8
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
...+...+|+.+|++...+.+.+.+..
T Consensus 25 ~~~~~~~ia~~~~~s~~~i~~~~~~~~ 51 (55)
T cd06171 25 EGLSYEEIAEILGISRSTVRQRLHRAL 51 (55)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 788999999999999999988887654
No 270
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=47.21 E-value=48 Score=28.02 Aligned_cols=43 Identities=7% Similarity=0.210 Sum_probs=37.5
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
.-|+.+...--++++..|+..+|++...+++.+.+|+..|.|.
T Consensus 15 ~rIvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 15 ARIVELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeE
Confidence 3445556667899999999999999999999999999999885
No 271
>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=46.18 E-value=63 Score=22.82 Aligned_cols=54 Identities=9% Similarity=0.024 Sum_probs=38.0
Q ss_pred HHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCc
Q psy4083 169 HALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 169 ~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f 230 (374)
+..||+..|...+.++.... |. ...+...-|.+++ ..|+|.+|...|-......
T Consensus 2 l~~~~~~~A~~~~~~~l~~~------p~-~~~~~~~la~~~~-~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRN------PD-NPEARLLLAQCYL-KQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHT------TT-SHHHHHHHHHHHH-HTT-HHHHHHHHHCCHGGG
T ss_pred hhccCHHHHHHHHHHHHHHC------CC-CHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHHC
Confidence 46789999999999886542 21 2234445677888 9999999998887765433
No 272
>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=46.07 E-value=2.2e+02 Score=29.36 Aligned_cols=87 Identities=21% Similarity=0.228 Sum_probs=58.3
Q ss_pred cCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhc
Q psy4083 132 GEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAA 211 (374)
Q Consensus 132 g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~ 211 (374)
++.+.| .++|.+....-.++.+ +.+.+.|++...||...|-..+..|....+ .=+.+.....---|..|+
T Consensus 247 ~~~~~a----~~lL~~~~~~yP~s~l--fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~---~~~Ql~~l~~~El~w~~~- 316 (468)
T PF10300_consen 247 VPLEEA----EELLEEMLKRYPNSAL--FLFFEGRLERLKGNLEEAIESFERAIESQS---EWKQLHHLCYFELAWCHM- 316 (468)
T ss_pred CCHHHH----HHHHHHHHHhCCCcHH--HHHHHHHHHHHhcCHHHHHHHHHHhccchh---hHHhHHHHHHHHHHHHHH-
Confidence 456667 4555544443233222 466789999999999999999997653221 123444444445567788
Q ss_pred ccccHHHHHHHHHHhcc
Q psy4083 212 DEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 212 ~~rdy~~A~~~F~eaf~ 228 (374)
...||++|+.+|....+
T Consensus 317 ~~~~w~~A~~~f~~L~~ 333 (468)
T PF10300_consen 317 FQHDWEEAAEYFLRLLK 333 (468)
T ss_pred HHchHHHHHHHHHHHHh
Confidence 89999999999988744
No 273
>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=46.06 E-value=23 Score=29.45 Aligned_cols=42 Identities=19% Similarity=0.105 Sum_probs=34.8
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeE
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVL 337 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv 337 (374)
.++.+.||+.+|+|...+.+.+..|...|-+...-....|..
T Consensus 25 ~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~ 66 (132)
T TIGR00738 25 PVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYR 66 (132)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCcc
Confidence 689999999999999999999999999998865433333433
No 274
>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=45.94 E-value=66 Score=25.46 Aligned_cols=47 Identities=15% Similarity=0.083 Sum_probs=39.1
Q ss_pred cccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEec
Q psy4083 293 PYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFE 341 (374)
Q Consensus 293 pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~ 341 (374)
.-..++-..||+.+|++.+-|-+.|.+|...|-|. .+...|.+-++.
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 45678889999999999999999999999999885 345567777654
No 275
>KOG2471|consensus
Probab=45.79 E-value=88 Score=32.74 Aligned_cols=71 Identities=18% Similarity=0.188 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHh--hccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 160 VLLLESKTYHALSNLSTSRASLTSART--TANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 160 v~l~ei~l~~~~~n~~~a~~~~~~a~~--~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
-.++.++.++..||+++|-..+..+-- .+-..+++.-....+.--.|.+|+ .-+.|.-++.+|..|..++.
T Consensus 242 ~l~LKsq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~-~~~~y~~~~~~F~kAL~N~c 314 (696)
T KOG2471|consen 242 ALLLKSQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHY-QLGCYQASSVLFLKALRNSC 314 (696)
T ss_pred HHHHHHHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEee-ehhhHHHHHHHHHHHHHHHH
Confidence 457889999999999999877765311 000111222223344455688899 89999999999999987543
No 276
>PF13730 HTH_36: Helix-turn-helix domain
Probab=45.77 E-value=31 Score=23.94 Aligned_cols=28 Identities=11% Similarity=0.169 Sum_probs=25.8
Q ss_pred eHHHHHhHhCCChHHHHHHHHHHhhcCc
Q psy4083 298 EVGFIAKSIKLDELAVEKKLSQMILDKK 325 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~L~~lI~dgk 325 (374)
+.+.||+.+|++...|.+.+.+|+..|-
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~ 54 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGL 54 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcC
Confidence 7899999999999999999999988774
No 277
>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=45.66 E-value=39 Score=24.80 Aligned_cols=37 Identities=16% Similarity=0.185 Sum_probs=28.0
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHH
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQ 319 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~ 319 (374)
|.++..-|.++=-.|.+..||+.||++...|.++=++
T Consensus 9 rdkA~e~y~~~~g~i~lkdIA~~Lgvs~~tIr~WK~~ 45 (60)
T PF10668_consen 9 RDKAFEIYKESNGKIKLKDIAEKLGVSESTIRKWKSR 45 (60)
T ss_pred HHHHHHHHHHhCCCccHHHHHHHHCCCHHHHHHHhhh
Confidence 3445555555556899999999999999998876554
No 278
>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=45.52 E-value=79 Score=29.87 Aligned_cols=59 Identities=10% Similarity=0.145 Sum_probs=46.7
Q ss_pred HHhhHHHHHHHHHHHHHHHhhc---ccc-----------------ceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 271 VKAHIGTLYDNMLEQNLCRIIE---PYS-----------------RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 271 l~~h~~~L~~~ire~~l~~~~~---pYs-----------------~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
++...+.+-.+.|.++..|+.- +|| +++-..||+.+|+|...+-+-+..|-..|-|..+
T Consensus 153 lr~~~~~iEee~Rkka~Vq~Ai~tLSySEleAv~~IL~~L~~~egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 153 LRAQAEEIEEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHHHhccccccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 4444566667777777777632 365 8999999999999999999999999999988764
No 279
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=44.80 E-value=1.1e+02 Score=31.40 Aligned_cols=85 Identities=18% Similarity=0.329 Sum_probs=50.3
Q ss_pred ccccHHHHHHHHHHhccCcCc--ccchhHHHHHHHHHHHHHhcCCc-hh---------------HHHHHH-----HHhcC
Q psy4083 212 DEQDFKTAFSYFYEAFEGFST--VDHNHAMMSLKYMLLSKIMLNTP-ED---------------VNQILS-----ELEDD 268 (374)
Q Consensus 212 ~~rdy~~A~~~F~eaf~~f~~--~~~~~~~~~LkY~vL~~iL~~~~-~~---------------v~~ll~-----~l~~D 268 (374)
..++|..-+..|-.+|+-..- .-+|..... .|+=|+-||..+. .+ |..++. .+..|
T Consensus 74 ~~kdf~~n~~ffQ~vFEIgRRYKIMNPekMRt-tYGKLmYmLQDs~~p~i~~~LgF~lvkpIkTV~~~L~~~~~l~lL~D 152 (458)
T PF09418_consen 74 EDKDFSDNAEFFQDVFEIGRRYKIMNPEKMRT-TYGKLMYMLQDSQLPEIQELLGFSLVKPIKTVYSFLEEKGALDLLQD 152 (458)
T ss_pred cCCChHHHHHHHHHHHHHHHHHhhhCHHHHHH-HHHHHHHHHHhccchHHHHHhCCceeeeeeeHHHHHHhCChhhhhCC
Confidence 668888877777666654321 223444432 4888888887662 12 233333 67888
Q ss_pred hHHHhhHHHH----------HHHH--HHHHHHHhhccccce
Q psy4083 269 TIVKAHIGTL----------YDNM--LEQNLCRIIEPYSRV 297 (374)
Q Consensus 269 ~~l~~h~~~L----------~~~i--re~~l~~~~~pYs~I 297 (374)
|-+......+ .+.+ .+.++-.+.+-|++-
T Consensus 153 ~~l~~At~~I~p~~k~R~~iq~~ik~KE~Aie~L~~kYss~ 193 (458)
T PF09418_consen 153 PLLETATMEISPEGKSRSQIQREIKQKERAIEELAKKYSSS 193 (458)
T ss_pred CCHHHHHHHhCccCCCHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 8887655444 2223 456777778777663
No 280
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=44.71 E-value=54 Score=21.58 Aligned_cols=32 Identities=19% Similarity=0.306 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQI 71 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~ 71 (374)
+.+.++..+...|++++..+.+.......+.-
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~ 34 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALALDPDD 34 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 45678999999999999988888777766554
No 281
>KOG3431|consensus
Probab=44.58 E-value=20 Score=30.07 Aligned_cols=53 Identities=17% Similarity=0.182 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeec
Q psy4083 279 YDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILD 331 (374)
Q Consensus 279 ~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID 331 (374)
-++++...|.|++++=-+=+|++||=.=-=-..-||..|.+|+.-|.+.+||+
T Consensus 38 q~e~r~~~lsQvLdqqAr~RLsrlAlvkpekAq~VE~~lirma~~gQvs~Kis 90 (129)
T KOG3431|consen 38 QEEMRQSMLSQVLDQQARERLSRLALVKPEKAQAVENYLIRMAQTGQVSHKIS 90 (129)
T ss_pred HHHHHHhHHHHHhhHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHhCCcccccc
Confidence 46788888889998888777777763221123579999999999999999886
No 282
>KOG2235|consensus
Probab=42.82 E-value=1.6e+02 Score=31.55 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=47.0
Q ss_pred hhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 273 AHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 273 ~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+|+.+.++++++- .-=..|++..||+.+++|.+.+...|.+=.+..-+.|++|- |++.+
T Consensus 115 ~Y~d~iaeEinekL-----qE~gqvtiaeLakq~dl~sellqs~l~ek~lg~iikgr~dg--gviyT 174 (776)
T KOG2235|consen 115 EYVDRIAEEINEKL-----QEQGQVTIAELAKQWDLPSELLQSLLIEKLLGSIIKGRVDG--GVIYT 174 (776)
T ss_pred HHHHHHHHHHHHHH-----HHhcchHHHHHHHhcCCcHHHHHHHHHHHhhccceeeeecC--CEEee
Confidence 44566666666653 22388999999999999999999999888777788888887 76665
No 283
>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=42.37 E-value=48 Score=23.31 Aligned_cols=25 Identities=28% Similarity=0.339 Sum_probs=20.3
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHH
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLS 318 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~ 318 (374)
...|+=..||+.+|++...|.+.+|
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 4789999999999999999998875
No 284
>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=42.30 E-value=43 Score=24.43 Aligned_cols=25 Identities=8% Similarity=0.159 Sum_probs=18.4
Q ss_pred HhCCChHHHHHHHHHHhhcCcccee
Q psy4083 305 SIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 305 ~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
.++++.++++..|.+++.+|+|.+.
T Consensus 30 ~~~~s~~eL~~fL~~lv~e~~L~~~ 54 (60)
T PF08672_consen 30 GYDISLEELQEFLDRLVEEGKLECS 54 (60)
T ss_dssp -TT--HHHHHHHHHHHHHTTSEE--
T ss_pred CCCCCHHHHHHHHHHHHHCCcEEec
Confidence 3567889999999999999998764
No 285
>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=42.22 E-value=4.5e+02 Score=27.98 Aligned_cols=112 Identities=17% Similarity=0.183 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCCh
Q psy4083 116 LRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPP 195 (374)
Q Consensus 116 lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~ 195 (374)
+|-..+.-|+.+|.+.+... |++.+.+.+..+.........--+-+..+.++...+|+..|...+......++. -.+|
T Consensus 98 ~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~-~~d~ 175 (608)
T PF10345_consen 98 LKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQ-RGDP 175 (608)
T ss_pred HHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhh-cCCH
Confidence 34454556899999988877 988888888766654333344445555677776668999999999887776642 3788
Q ss_pred hhhHHHHHHHHHHhhcccccHHHHHHHHHHh---ccCc
Q psy4083 196 KMQAALDLQSGILHAADEQDFKTAFSYFYEA---FEGF 230 (374)
Q Consensus 196 ~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea---f~~f 230 (374)
.+........|.+|+ ..+...++....-.+ ...+
T Consensus 176 ~~~v~~~l~~~~l~l-~~~~~~d~~~~l~~~~~~~~~~ 212 (608)
T PF10345_consen 176 AVFVLASLSEALLHL-RRGSPDDVLELLQRAIAQARSL 212 (608)
T ss_pred HHHHHHHHHHHHHHh-cCCCchhHHHHHHHHHHHHhhc
Confidence 888888888999999 878676666555444 4544
No 286
>KOG4648|consensus
Probab=41.73 E-value=51 Score=32.91 Aligned_cols=23 Identities=30% Similarity=0.495 Sum_probs=19.8
Q ss_pred HHHHHHHhccCHHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
..|+-|+..|+|++|+.||.+-+
T Consensus 102 E~GN~yFKQgKy~EAIDCYs~~i 124 (536)
T KOG4648|consen 102 ERGNTYFKQGKYEEAIDCYSTAI 124 (536)
T ss_pred HhhhhhhhccchhHHHHHhhhhh
Confidence 46888999999999999997665
No 287
>PHA00738 putative HTH transcription regulator
Probab=41.46 E-value=1.1e+02 Score=25.12 Aligned_cols=70 Identities=10% Similarity=0.041 Sum_probs=46.3
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecCCcchHHHHHHHHHHHHHHHHH
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEGAEIDKTYEKALETITSMGKVI 363 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~~~~~~~y~~~~~~i~~l~~~v 363 (374)
-.......|++.|+++.+-|-+.|.-|-..|-+..+-+-..-.....+..+.-.....-++-.++++...
T Consensus 24 ~e~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~~~~~l~~~~~~~~~~~~~~~ 93 (108)
T PHA00738 24 NYILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENSKEIQILNSELEGFKKLSENT 93 (108)
T ss_pred cCCccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCccHHHHHhhHHHHHHhhccCc
Confidence 3357888999999999999999999999999888765544434444333322222333344555555444
No 288
>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=41.24 E-value=1.3e+02 Score=21.32 Aligned_cols=33 Identities=6% Similarity=-0.101 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQI 71 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~ 71 (374)
+.+|-++--+++.|+|+....++..+...-|.-
T Consensus 2 d~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N 34 (53)
T PF14853_consen 2 DCLYYLAIGHYKLGEYEKARRYCDALLEIEPDN 34 (53)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-
T ss_pred hhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCc
Confidence 467889999999999999999988888776555
No 289
>KOG2063|consensus
Probab=41.14 E-value=5.7e+02 Score=28.84 Aligned_cols=65 Identities=15% Similarity=0.232 Sum_probs=46.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHH
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAK 109 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~ 109 (374)
+..|+.+|...|++++++++++.+...-++ +.+........+++++.+.. +....++.++-+|.-
T Consensus 507 y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~-~d~~~~~~~e~ii~YL~~l~---~~~~~Li~~y~~wvl 571 (877)
T KOG2063|consen 507 YRELIELYATKGMHEKALQLLRDLVDEDSD-TDSFQLDGLEKIIEYLKKLG---AENLDLILEYADWVL 571 (877)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHhccccc-cccchhhhHHHHHHHHHHhc---ccchhHHHHHhhhhh
Confidence 678899999999999998888877765432 23445566666888886543 333567778888864
No 290
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=40.79 E-value=78 Score=29.04 Aligned_cols=62 Identities=13% Similarity=0.123 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
+.+++.|++..+..-+.|=.++ +-..||+.||+|...|-+-|..|..+|-+.- -+..|+.+.
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 4567888888888888998999 7999999999999999999999999998874 455576665
No 291
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=40.69 E-value=97 Score=23.42 Aligned_cols=43 Identities=9% Similarity=-0.007 Sum_probs=32.2
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
.......+|+...|++...+.+.|..|+..|-+ ....+.....
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI----~~~~~~Y~lT 59 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLI----KKKDGKYRLT 59 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSE----EEETTEEEE-
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCe----eCCCCEEEEC
Confidence 577889999999999999999999999999988 3355566654
No 292
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=40.68 E-value=88 Score=21.23 Aligned_cols=38 Identities=11% Similarity=0.080 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 280 DNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 280 ~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
.++....+....+. .++..+|+.+|+|.+.|.+.+-+.
T Consensus 14 ~~~~~~i~~~~~~~---~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 14 KRLEQYILKLLRES---RSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred HHHHHHHHHHHhhc---CCHHHHHHHHCCCHHHHHHHHHhh
Confidence 34444444444433 789999999999999999877553
No 293
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=40.63 E-value=2.1e+02 Score=26.54 Aligned_cols=55 Identities=7% Similarity=0.048 Sum_probs=45.4
Q ss_pred HHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecC
Q psy4083 288 CRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEG 342 (374)
Q Consensus 288 ~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~ 342 (374)
+-.+.-...|+...||+.+|++..-+-+.|.+|-..|-+.-..|.....+...+.
T Consensus 13 lg~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTek 67 (217)
T PRK14165 13 LGAVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITEK 67 (217)
T ss_pred HhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHH
Confidence 3344445679999999999999999999999999999999988876666666443
No 294
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=40.58 E-value=2.2e+02 Score=23.89 Aligned_cols=45 Identities=11% Similarity=0.137 Sum_probs=40.1
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
..++...||+.+|++..-+-+.|-+|...|-|.-..|..++....
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 569999999999999999999999999999999888877775444
No 295
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=39.88 E-value=3.4e+02 Score=25.84 Aligned_cols=107 Identities=16% Similarity=0.271 Sum_probs=69.6
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH-----HhCCHHHHHHHHHHHHhhccccCCChh-
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYH-----ALSNLSTSRASLTSARTTANSIYCPPK- 196 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~-----~~~n~~~a~~~~~~a~~~~~~~~~~~~- 196 (374)
.++..++..|+|+.|+..+.+-++-...+.+-.+..=+ ....++ ..+|...+++++...+++.. -+|+.+
T Consensus 76 ~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl---kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~-ryPnS~Y 151 (254)
T COG4105 76 DLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL---KGLSYFFQIDDVTRDQSAARAAFAAFKELVQ-RYPNSRY 151 (254)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH---HHHHHhccCCccccCHHHHHHHHHHHHHHHH-HCCCCcc
Confidence 57778899999999988887776543333332222111 111122 34477778888877666542 234432
Q ss_pred -------------hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCccc
Q psy4083 197 -------------MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVD 234 (374)
Q Consensus 197 -------------~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~ 234 (374)
..+.....-|.+++ ..+.|..|...|-+..++|....
T Consensus 152 a~dA~~~i~~~~d~LA~~Em~IaryY~-kr~~~~AA~nR~~~v~e~y~~t~ 201 (254)
T COG4105 152 APDAKARIVKLNDALAGHEMAIARYYL-KRGAYVAAINRFEEVLENYPDTS 201 (254)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH-HhcChHHHHHHHHHHHhcccccc
Confidence 22244567788999 99999999999999999987643
No 296
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=39.58 E-value=1.3e+02 Score=27.31 Aligned_cols=62 Identities=10% Similarity=0.115 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLI 338 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~ 338 (374)
.+.+++.|++..+..-+.|=.++.-..||+.||+|...|-+-|..|..+|-+.-+ +..|+.+
T Consensus 13 ~e~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVREAL~~L~~eGLV~~~--~~~g~~v 74 (221)
T PRK11414 13 TLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVA--PAQAFTV 74 (221)
T ss_pred HHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHCCCchhHHHHHHHHHHCCCEEec--CCCceee
Confidence 3568899999999999999999999999999999999999999999999988643 3345544
No 297
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=39.54 E-value=2.3e+02 Score=23.82 Aligned_cols=38 Identities=21% Similarity=0.244 Sum_probs=32.7
Q ss_pred hhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccc
Q psy4083 290 IIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFH 327 (374)
Q Consensus 290 ~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ 327 (374)
+.+.-..++++.||+.+|++.+.|-..|.+|...|-+.
T Consensus 16 l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 16 LIEEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred HHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEE
Confidence 44444667899999999999999999999999999775
No 298
>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=39.48 E-value=91 Score=28.16 Aligned_cols=45 Identities=11% Similarity=0.081 Sum_probs=36.7
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceee
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGIL 330 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akI 330 (374)
.++.++.....+++..+|+.+|+|..-+-+.|..|...|-+.-.-
T Consensus 147 ~IL~~l~~~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~ 191 (203)
T TIGR01884 147 KVLEVLKAEGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKG 191 (203)
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 344444444679999999999999999999999999999886543
No 299
>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=39.23 E-value=2e+02 Score=23.03 Aligned_cols=44 Identities=11% Similarity=0.138 Sum_probs=38.4
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLI 338 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~ 338 (374)
..++...||+.++++..-+-+.+.+|...|-|.-.-|..++...
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~ 85 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKV 85 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeE
Confidence 56999999999999999999999999999999877776666433
No 300
>PF14493 HTH_40: Helix-turn-helix domain
Probab=38.99 E-value=39 Score=26.42 Aligned_cols=33 Identities=21% Similarity=0.245 Sum_probs=30.2
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCc-cc
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKK-FH 327 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgk-l~ 327 (374)
.-.+++.||+.-|+++.-|...|++++..|. ++
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 4678999999999999999999999999998 54
No 301
>PF12728 HTH_17: Helix-turn-helix domain
Probab=38.77 E-value=44 Score=22.81 Aligned_cols=38 Identities=13% Similarity=0.032 Sum_probs=27.7
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
++.+.+|+.||+|...+. +++..|.|.+- ...+...+.
T Consensus 2 lt~~e~a~~l~is~~tv~----~~~~~g~i~~~--~~g~~~~~~ 39 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVY----RWIRQGKIPPF--KIGRKWRIP 39 (51)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHcCCCCeE--EeCCEEEEe
Confidence 467899999999988877 66678999775 244444443
No 302
>PRK13266 Thf1-like protein; Reviewed
Probab=38.34 E-value=3.4e+02 Score=25.37 Aligned_cols=74 Identities=18% Similarity=0.150 Sum_probs=40.6
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhH-HHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 156 LLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQA-ALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 156 ~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~-~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
.++|+||+..+.-+.. |.--+..+.+.-.... .+|.|+.-+. .+..++.-... +-..|+.-+....+...+.+.
T Consensus 33 LLVElHLl~~n~~F~y-DplfAlGlvt~fd~fm-~GY~Pee~~~~IF~Alc~a~~~-dp~~~r~dA~~l~~~a~~~s~ 107 (225)
T PRK13266 33 LLVELHLLSVNSDFKY-DPLFALGLVTVFDRFM-QGYRPEEHKDSIFNALCQAVGF-DPEQLRQDAERLLELAKGKSL 107 (225)
T ss_pred HHHHHHHHHhccCcee-CchHHhhHHHHHHHHH-cCCCChHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHhcCCH
Confidence 4566666654443322 2222444444444444 4566655444 44555555566 777788777777776665543
No 303
>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=37.93 E-value=5.4e+02 Score=27.64 Aligned_cols=77 Identities=14% Similarity=0.039 Sum_probs=55.9
Q ss_pred hccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH---HhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 151 LDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA---RTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 151 ~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a---~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
..+......-.|+.|.-+.-.++|..||.++-.+ .++.++.+...-+-++--.+-|+-.+ ..|...+|...+.|.+
T Consensus 449 ~~~~~~r~rA~Lc~IY~~AL~d~~~~ARDllLmShlqe~I~~~D~~tQILyNR~~vQLGLcAF-R~G~I~eah~~L~el~ 527 (595)
T PF05470_consen 449 DGDERLRTRAMLCHIYHHALHDRYYEARDLLLMSHLQESIQHSDISTQILYNRAMVQLGLCAF-RAGLIKEAHQCLSELC 527 (595)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhHHHHhhhccCHHHHHHHhHHHHHHHHHHH-HcCCHHHHHHHHHHHH
Confidence 3456677778889997777888999999988775 22322211222334466788899888 8999999999999986
Q ss_pred c
Q psy4083 228 E 228 (374)
Q Consensus 228 ~ 228 (374)
.
T Consensus 528 ~ 528 (595)
T PF05470_consen 528 S 528 (595)
T ss_pred c
Confidence 5
No 304
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=37.24 E-value=1.1e+02 Score=28.56 Aligned_cols=63 Identities=10% Similarity=0.138 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+.+++.|+...+..-+.|=.++ +-..||+.||+|...|-+-|..|-..|-+.-+ +..|+.+..
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 5678888888888889999999 68999999999999999999999999988744 456776653
No 305
>KOG1070|consensus
Probab=37.21 E-value=8e+02 Score=29.38 Aligned_cols=130 Identities=16% Similarity=0.147 Sum_probs=71.6
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHH
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLE 121 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~ 121 (374)
.+|.++|-+-+.+++..+++....+.++|-. ++-..-.+++-.-.. .+.-=.++.++++.....+.+-+=
T Consensus 1534 ~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~-----~vW~~y~~fLl~~ne-~~aa~~lL~rAL~~lPk~eHv~~I---- 1603 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKKFGQTR-----KVWIMYADFLLRQNE-AEAARELLKRALKSLPKQEHVEFI---- 1603 (1710)
T ss_pred HHHHHHHHHhhcchhHHHHHHHHHHHhcchh-----hHHHHHHHHHhcccH-HHHHHHHHHHHHhhcchhhhHHHH----
Confidence 3456666666677777666666666666441 222222333321111 112233444555544322222221
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.+-|.+-++.||=+.+-.++..++.... -..|++.-=+.+-...++...++.+++++-..
T Consensus 1604 skfAqLEFk~GDaeRGRtlfEgll~ayP------KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l 1663 (1710)
T KOG1070|consen 1604 SKFAQLEFKYGDAERGRTLFEGLLSAYP------KRTDLWSVYIDMEIKHGDIKYVRDLFERVIEL 1663 (1710)
T ss_pred HHHHHHHhhcCCchhhHHHHHHHHhhCc------cchhHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence 2557777888887777666666664221 24566666677777788888888888776544
No 306
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=37.18 E-value=1.5e+02 Score=22.40 Aligned_cols=42 Identities=21% Similarity=0.323 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHh
Q psy4083 38 EQNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFF 87 (374)
Q Consensus 38 e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~ 87 (374)
|++++++....-+.-.++++.+++..++...+.. ++.+++.+
T Consensus 4 ErA~LE~l~~~p~~~s~e~a~~l~egL~nLrp~~--------lq~LL~~C 45 (69)
T PF11459_consen 4 ERAILELLSEVPKRQSFEEADELMEGLRNLRPRV--------LQELLEHC 45 (69)
T ss_pred HHHHHHHHHhCCccCCHHHHHHHHHHHhhcCHHH--------HHHHHHHC
Confidence 6777777777777777777777777776555443 66777766
No 307
>KOG1585|consensus
Probab=37.16 E-value=3.9e+02 Score=25.70 Aligned_cols=99 Identities=12% Similarity=0.115 Sum_probs=62.8
Q ss_pred HHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHH
Q psy4083 128 YFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGI 207 (374)
Q Consensus 128 ~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~ 207 (374)
.++.-+-++|+.+|++.+.-+...+....-.|++-.-.+++...+-+..+-..+.+-...... ++.---+.+......+
T Consensus 120 ~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~-~~~y~~~~k~~va~il 198 (308)
T KOG1585|consen 120 ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADK-CDAYNSQCKAYVAAIL 198 (308)
T ss_pred HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHH-HhhcccHHHHHHHHHH
Confidence 334456778888888777555554555667788888888888877776665444332111100 0111223445556667
Q ss_pred HhhcccccHHHHHHHHHHhcc
Q psy4083 208 LHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 208 ~~~~~~rdy~~A~~~F~eaf~ 228 (374)
+|+ +..||..|-..|-++..
T Consensus 199 v~L-~~~Dyv~aekc~r~~~q 218 (308)
T KOG1585|consen 199 VYL-YAHDYVQAEKCYRDCSQ 218 (308)
T ss_pred HHh-hHHHHHHHHHHhcchhc
Confidence 889 99999999999999844
No 308
>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=37.09 E-value=80 Score=21.63 Aligned_cols=27 Identities=19% Similarity=0.361 Sum_probs=20.2
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
+...+...+|+.+|+|+..|...+.+-
T Consensus 24 ~~g~s~~eIa~~l~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 24 FQGMSYAEIAEILGISESTVKRRLRRA 50 (54)
T ss_dssp TS---HHHHHHHCTS-HHHHHHHHHHH
T ss_pred HHCcCHHHHHHHHCcCHHHHHHHHHHH
Confidence 466779999999999999999988764
No 309
>PRK10870 transcriptional repressor MprA; Provisional
Probab=37.03 E-value=2e+02 Score=25.38 Aligned_cols=44 Identities=0% Similarity=-0.023 Sum_probs=38.9
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEE
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLI 338 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~ 338 (374)
..++...||+.+|++..-+-+.+-+|...|-+.-.-|..++...
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~ 113 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRCL 113 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCee
Confidence 45888999999999999999999999999999988888876443
No 310
>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=36.80 E-value=43 Score=23.40 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=19.6
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHH
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQ 319 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~ 319 (374)
.+++..+|+.+|+++.++=+.|..
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 578999999999999999888843
No 311
>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=36.78 E-value=84 Score=22.34 Aligned_cols=33 Identities=12% Similarity=0.207 Sum_probs=26.5
Q ss_pred HhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 289 RIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 289 ~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
-|+..=..++++.+|+.||+|..-+...|.+..
T Consensus 16 GYfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 16 GYFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 345544899999999999999998888776543
No 312
>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=36.32 E-value=5.4e+02 Score=27.11 Aligned_cols=86 Identities=19% Similarity=0.232 Sum_probs=59.6
Q ss_pred chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 154 KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 154 ~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
++.++=++....+.|-..|++.+|..++.+|...+ |.+ -.++..-|.++- +.||+..|+...=+| ..-|..
T Consensus 190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht------Pt~-~ely~~KarilK-h~G~~~~Aa~~~~~A-r~LD~~ 260 (517)
T PF12569_consen 190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT------PTL-VELYMTKARILK-HAGDLKEAAEAMDEA-RELDLA 260 (517)
T ss_pred chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC------CCc-HHHHHHHHHHHH-HCCCHHHHHHHHHHH-HhCChh
Confidence 45567778888999999999999999999875442 332 367788888888 999999999765444 333322
Q ss_pred cchhHHHHHHHHHHH
Q psy4083 234 DHNHAMMSLKYMLLS 248 (374)
Q Consensus 234 ~~~~~~~~LkY~vL~ 248 (374)
+----..+.||++=+
T Consensus 261 DRyiNsK~aKy~LRa 275 (517)
T PF12569_consen 261 DRYINSKCAKYLLRA 275 (517)
T ss_pred hHHHHHHHHHHHHHC
Confidence 211122567777644
No 313
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=35.98 E-value=46 Score=22.50 Aligned_cols=29 Identities=14% Similarity=0.090 Sum_probs=18.9
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcC
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDK 324 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dg 324 (374)
-.+...+|+.||+|...|.+++.+.-..|
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 67899999999999999999988876555
No 314
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=35.61 E-value=3.7e+02 Score=25.02 Aligned_cols=45 Identities=9% Similarity=0.192 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhh---HHHHHHHHHHHH
Q psy4083 41 ILQLGEKYKQEGKAIELAELIKKTRPFLSQISK---AKAAKLVRSLVD 85 (374)
Q Consensus 41 ~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k---~~~~k~i~~ild 85 (374)
++.++++.-++|+|++|.+.+..+....+.++. +-..-..++++.
T Consensus 4 li~~Aklaeq~eRy~dmv~~mk~~~~~~~eLt~eERnLlsvayKn~i~ 51 (236)
T PF00244_consen 4 LIYLAKLAEQAERYDDMVEYMKQLIEMNPELTEEERNLLSVAYKNVIG 51 (236)
T ss_dssp HHHHHHHHHHTTHHHHHHHHHHHHHHTSS---HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhccc
Confidence 567899999999999999999999888766653 333344444444
No 315
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=35.59 E-value=6.3e+02 Score=27.69 Aligned_cols=99 Identities=7% Similarity=0.017 Sum_probs=70.2
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
.+++ -++.++.+.+.+++|+..+.+++. -.....+.+.........+|.+..|-.+|.++.. ++|.
T Consensus 121 ~a~~--~~a~~L~~~~~~eeA~~~~~~~l~------~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~------~~p~ 186 (694)
T PRK15179 121 EAFI--LMLRGVKRQQGIEAGRAEIELYFS------GGSSSAREILLEAKSWDEIGQSEQADACFERLSR------QHPE 186 (694)
T ss_pred HHHH--HHHHHHHHhccHHHHHHHHHHHhh------cCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHh------cCCC
Confidence 4445 478889999999999988877763 2223345566667777899999999999999864 2222
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
- .....--|..++ ..|+..+|...|-.+++-+.
T Consensus 187 ~-~~~~~~~a~~l~-~~G~~~~A~~~~~~a~~~~~ 219 (694)
T PRK15179 187 F-ENGYVGWAQSLT-RRGALWRARDVLQAGLDAIG 219 (694)
T ss_pred c-HHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhhC
Confidence 1 122233466677 78999999999988877664
No 316
>COG2118 DNA-binding protein [General function prediction only]
Probab=35.48 E-value=35 Score=28.29 Aligned_cols=51 Identities=20% Similarity=0.226 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhccccceeHHHHHhHhCCC--hHHHHHHHHHHhhcCccceeecC
Q psy4083 280 DNMLEQNLCRIIEPYSRVEVGFIAKSIKLD--ELAVEKKLSQMILDKKFHGILDQ 332 (374)
Q Consensus 280 ~~ire~~l~~~~~pYs~I~l~~lA~~l~ls--~~~vE~~L~~lI~dgkl~akID~ 332 (374)
+.-+...+.+++.|=-+=.|.++.= -=| .+.||..|.+|...|+|..+||-
T Consensus 39 eaqkqaiLrqiLtpeAreRL~~irL--vRPe~AeavE~qLi~LaqtGri~~~I~e 91 (116)
T COG2118 39 EAQKQAILRQILTPEARERLARVRL--VRPELAEAVENQLIQLAQTGRITHKIDE 91 (116)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHhhh--cCHHHHHHHHHHHHHHHHcCCCCCCCCH
Confidence 4566778889999976655555431 112 25789999999999999999984
No 317
>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=35.34 E-value=60 Score=29.07 Aligned_cols=40 Identities=15% Similarity=0.121 Sum_probs=33.5
Q ss_pred eeHHHHHhHhCCC-hHHHHHHHHHHhhcCccceeecCCCCe
Q psy4083 297 VEVGFIAKSIKLD-ELAVEKKLSQMILDKKFHGILDQGEKV 336 (374)
Q Consensus 297 I~l~~lA~~l~ls-~~~vE~~L~~lI~dgkl~akID~~~gi 336 (374)
.+...||+.+|++ ..-+-+.|..|...|-|...-.+..|+
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~~~~~~~ 66 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIERDPGKPRAI 66 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCCCCCCeE
Confidence 7899999999998 999999999999999887654444433
No 318
>KOG1156|consensus
Probab=35.34 E-value=6.1e+02 Score=27.51 Aligned_cols=83 Identities=19% Similarity=0.212 Sum_probs=60.3
Q ss_pred chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcc
Q psy4083 154 KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 154 ~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
++.++=....-++-+-..|+++.+..++..|- .|-..+-.+...-+++.. |-|+..+|+..|=++ .+.
T Consensus 367 PttllWt~y~laqh~D~~g~~~~A~~yId~AI-------dHTPTliEly~~KaRI~k-H~G~l~eAa~~l~ea----~el 434 (700)
T KOG1156|consen 367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI-------DHTPTLIELYLVKARIFK-HAGLLDEAAAWLDEA----QEL 434 (700)
T ss_pred chHHHHHHHHHHHHHHHcccHHHHHHHHHHHh-------ccCchHHHHHHHHHHHHH-hcCChHHHHHHHHHH----Hhc
Confidence 46777788888899999999999999998763 333333466667778888 889999988666555 233
Q ss_pred cc-hhHH--HHHHHHHHH
Q psy4083 234 DH-NHAM--MSLKYMLLS 248 (374)
Q Consensus 234 ~~-~~~~--~~LkY~vL~ 248 (374)
+. .+++ .|.||++.+
T Consensus 435 D~aDR~INsKcAKYmLrA 452 (700)
T KOG1156|consen 435 DTADRAINSKCAKYMLRA 452 (700)
T ss_pred cchhHHHHHHHHHHHHHc
Confidence 33 2444 589999877
No 319
>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=35.31 E-value=45 Score=28.66 Aligned_cols=39 Identities=10% Similarity=0.094 Sum_probs=29.6
Q ss_pred Hhhccccc--eeHHHHHhHhCCChHHHHHHHHHHhhcCccceeec
Q psy4083 289 RIIEPYSR--VEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILD 331 (374)
Q Consensus 289 ~~~~pYs~--I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID 331 (374)
.|+.-+-. -++..+++..|+|++.|. ++|.+|+|.-.-+
T Consensus 37 ~yLr~~p~~~ati~eV~e~tgVs~~~I~----~~IreGRL~~~~~ 77 (137)
T TIGR03826 37 KFLRKHENRQATVSEIVEETGVSEKLIL----KFIREGRLQLKHF 77 (137)
T ss_pred HHHHHCCCCCCCHHHHHHHHCcCHHHHH----HHHHcCCeeccCC
Confidence 34444544 899999999999988776 7888999875443
No 320
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=35.30 E-value=85 Score=29.15 Aligned_cols=45 Identities=11% Similarity=0.217 Sum_probs=38.9
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
..|+-+++-=..++...||+.||++..-|-+.|-.|..+|-+...
T Consensus 14 ~~il~lL~~~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~ 58 (218)
T COG2345 14 ERILELLKKSGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVE 58 (218)
T ss_pred HHHHHHHhccCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee
Confidence 445556666688999999999999999999999999999988765
No 321
>PLN03077 Protein ECB2; Provisional
Probab=35.24 E-value=6.6e+02 Score=27.81 Aligned_cols=26 Identities=15% Similarity=-0.017 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTR 65 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~ 65 (374)
+...++..|.++|+++++.+.+..+.
T Consensus 426 ~~n~Li~~y~k~g~~~~A~~vf~~m~ 451 (857)
T PLN03077 426 VANALIEMYSKCKCIDKALEVFHNIP 451 (857)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence 34568999999999999988877654
No 322
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=35.15 E-value=41 Score=31.61 Aligned_cols=63 Identities=16% Similarity=0.188 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHH
Q psy4083 158 VEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFS 221 (374)
Q Consensus 158 lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~ 221 (374)
-+..+.---=|+..||+..|+..+++|.....+.+..+..++.++..-|.... ..+.|.+|.+
T Consensus 35 a~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~-A~e~YrkAls 97 (250)
T COG3063 35 AKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDL-ADESYRKALS 97 (250)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhh-HHHHHHHHHh
Confidence 33444444456789999999999999988866655566778888877777777 6666666654
No 323
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=35.04 E-value=1.4e+02 Score=30.73 Aligned_cols=60 Identities=15% Similarity=0.039 Sum_probs=45.7
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhH-H-HHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLL-V-EVLLLESKTYHALSNLSTSRASLTSARTT 187 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~-l-ev~l~ei~l~~~~~n~~~a~~~~~~a~~~ 187 (374)
.++..|+..|+|++|+.++.+.+. .++..- . ..+......|..++++..|...+.+|...
T Consensus 80 NLG~AL~~lGryeEAIa~f~rALe-----L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 80 NLGLSLFSKGRVKDALAQFETALE-----LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHh-----hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 378889999999999998887763 222211 1 24677788888999999999999998765
No 324
>PRK15331 chaperone protein SicA; Provisional
Probab=34.68 E-value=3.3e+02 Score=24.17 Aligned_cols=93 Identities=13% Similarity=-0.029 Sum_probs=65.2
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
+.|.-+++.|++++|.+.+. -|...|--. -+.++--.-++-.++++.+|-..|..|-.... .+|+- -
T Consensus 42 ~~Ay~~y~~Gk~~eA~~~F~----~L~~~d~~n--~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~---~dp~p----~ 108 (165)
T PRK15331 42 AHAYEFYNQGRLDEAETFFR----FLCIYDFYN--PDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK---NDYRP----V 108 (165)
T ss_pred HHHHHHHHCCCHHHHHHHHH----HHHHhCcCc--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---CCCCc----c
Confidence 46767889999999965554 333333221 23455556667788999999999988766532 34433 3
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
-..|.-++ .-|+-..|...|--+...
T Consensus 109 f~agqC~l-~l~~~~~A~~~f~~a~~~ 134 (165)
T PRK15331 109 FFTGQCQL-LMRKAAKARQCFELVNER 134 (165)
T ss_pred chHHHHHH-HhCCHHHHHHHHHHHHhC
Confidence 46788888 899999999999888773
No 325
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=34.60 E-value=89 Score=20.88 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=24.4
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
+...+...+|+.+|+|...|...+.++.
T Consensus 16 ~~g~s~~eia~~l~is~~tv~~~~~~~~ 43 (58)
T smart00421 16 AEGLTNKEIAERLGISEKTVKTHLSNIM 43 (58)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3567899999999999999999988764
No 326
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=34.56 E-value=84 Score=29.17 Aligned_cols=63 Identities=10% Similarity=0.094 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+.+++.+++..+..-+.|=.++ +-..||+.||+|...|-+-|..|-..|-+.-+ +..|+.+..
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 5678888888888889999999 89999999999999999999999999988754 456766653
No 327
>KOG0553|consensus
Probab=34.02 E-value=90 Score=30.40 Aligned_cols=86 Identities=14% Similarity=0.137 Sum_probs=48.7
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHH---HhhHHHHHHHHH
Q psy4083 45 GEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAK---EERRTFLRQSLE 121 (374)
Q Consensus 45 ~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~---~~~r~~lr~~l~ 121 (374)
+--..+.++|++..+.++.-..+.+ ++.+--.-|. ..-.++..+..+|++|. .-+--+.|++.
T Consensus 88 GN~~m~~~~Y~eAv~kY~~AI~l~P---~nAVyycNRA----------AAy~~Lg~~~~AVkDce~Al~iDp~yskay~- 153 (304)
T KOG0553|consen 88 GNKLMKNKDYQEAVDKYTEAIELDP---TNAVYYCNRA----------AAYSKLGEYEDAVKDCESALSIDPHYSKAYG- 153 (304)
T ss_pred HHHHHHhhhHHHHHHHHHHHHhcCC---CcchHHHHHH----------HHHHHhcchHHHHHHHHHHHhcChHHHHHHH-
Confidence 4445566677777666655544432 2211111000 01122333445555554 12356778877
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHH
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
||+..|+..|++.+|++.|.+.|
T Consensus 154 -RLG~A~~~~gk~~~A~~aykKaL 176 (304)
T KOG0553|consen 154 -RLGLAYLALGKYEEAIEAYKKAL 176 (304)
T ss_pred -HHHHHHHccCcHHHHHHHHHhhh
Confidence 78989999999999988776665
No 328
>KOG4340|consensus
Probab=33.96 E-value=2e+02 Score=28.41 Aligned_cols=89 Identities=22% Similarity=0.353 Sum_probs=50.7
Q ss_pred HHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHH
Q psy4083 128 YFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGI 207 (374)
Q Consensus 128 ~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~ 207 (374)
+++.|-+.+|+....-+. |.....=++.-++.-+-+..+|++-++.++.+--. ...-.+.++ .|-
T Consensus 88 LY~A~i~ADALrV~~~~~------D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~-------en~Ad~~in--~gC 152 (459)
T KOG4340|consen 88 LYKACIYADALRVAFLLL------DNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS-------ENEADGQIN--LGC 152 (459)
T ss_pred HHHhcccHHHHHHHHHhc------CCHHHHHHHHHHHHHHhcccccCcchHHHHHhccC-------CCccchhcc--chh
Confidence 445566666654332221 22222333444556666667788888877765210 111112232 255
Q ss_pred HhhcccccHHHHHHHHHHh--ccCcCc
Q psy4083 208 LHAADEQDFKTAFSYFYEA--FEGFST 232 (374)
Q Consensus 208 ~~~~~~rdy~~A~~~F~ea--f~~f~~ 232 (374)
+.. .+++|+.|...|-++ |.+|..
T Consensus 153 lly-kegqyEaAvqkFqaAlqvsGyqp 178 (459)
T KOG4340|consen 153 LLY-KEGQYEAAVQKFQAALQVSGYQP 178 (459)
T ss_pred eee-ccccHHHHHHHHHHHHhhcCCCc
Confidence 556 789999999999999 777875
No 329
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=33.70 E-value=1.3e+02 Score=28.04 Aligned_cols=63 Identities=13% Similarity=0.134 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHHHHhhcccccee-HHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRVE-VGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I~-l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+.+++.|+...+..-+.|=.++. -..||+.||+|...|.+-|..|-..|-+.- -+..|+.+.
T Consensus 10 ~~~v~~~l~~~I~~g~l~pG~~LpsE~eLae~~gVSRtpVREAL~~L~~eGlV~~--~~~~G~~V~ 73 (253)
T PRK11523 10 YQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEV--RKGSGIHVV 73 (253)
T ss_pred HHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ecCCeeEEe
Confidence 456788888888888999999994 789999999999999999999999998863 334566554
No 330
>PRK06771 hypothetical protein; Provisional
Probab=33.31 E-value=26 Score=27.95 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=25.1
Q ss_pred eeHHHHHhHhCCChH--HHHHHHHHHhhcCc
Q psy4083 297 VEVGFIAKSIKLDEL--AVEKKLSQMILDKK 325 (374)
Q Consensus 297 I~l~~lA~~l~ls~~--~vE~~L~~lI~dgk 325 (374)
..++.|++.+|++.. .+.+.+.+++.+|+
T Consensus 37 ~~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gk 67 (93)
T PRK06771 37 DRLQLITKEMGIVDREPPVNKELRQLMEEGQ 67 (93)
T ss_pred HHHHHHHHHcCCCCCcccccHHHHHHHHcCC
Confidence 358999999999876 78899999999985
No 331
>KOG1129|consensus
Probab=33.17 E-value=3.5e+02 Score=27.08 Aligned_cols=95 Identities=16% Similarity=0.160 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhh
Q psy4083 119 SLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQ 198 (374)
Q Consensus 119 ~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~ 198 (374)
|+...+++-|+..|-+.+|.+.++.-| .....+|.+++-+++|-.......+...+...... . +..+
T Consensus 224 wWk~Q~gkCylrLgm~r~AekqlqssL-------~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~---f--P~~V- 290 (478)
T KOG1129|consen 224 WWKQQMGKCYLRLGMPRRAEKQLQSSL-------TQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS---F--PFDV- 290 (478)
T ss_pred HHHHHHHHHHHHhcChhhhHHHHHHHh-------hcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc---C--Cchh-
Confidence 344467999999999999965554443 33456889999999999998888777666554321 1 1111
Q ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 199 AALDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 199 ~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
.+..-.+.+|- .-+++.+|.+++-++.+
T Consensus 291 -T~l~g~ARi~e-am~~~~~a~~lYk~vlk 318 (478)
T KOG1129|consen 291 -TYLLGQARIHE-AMEQQEDALQLYKLVLK 318 (478)
T ss_pred -hhhhhhHHHHH-HHHhHHHHHHHHHHHHh
Confidence 11111222333 44677788888877654
No 332
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=33.04 E-value=1.6e+02 Score=22.87 Aligned_cols=35 Identities=26% Similarity=0.329 Sum_probs=28.9
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLL 157 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~ 157 (374)
.+|.+....|++++|+..+.+.++-.+...|...+
T Consensus 46 ~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~l 80 (94)
T PF12862_consen 46 NLAELHRRFGHYEEALQALEEAIRLARENGDRRCL 80 (94)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHHH
Confidence 58888999999999999999998877777665443
No 333
>KOG4340|consensus
Probab=32.96 E-value=5e+02 Score=25.73 Aligned_cols=160 Identities=14% Similarity=0.130 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQS 119 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~ 119 (374)
.+-.++..|+...+|....+++.++...+++.++=+. --.+++-..+ ++...-..+.++.+ +.-.....
T Consensus 46 gLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrl-Y~AQSLY~A~--i~ADALrV~~~~~D--------~~~L~~~~ 114 (459)
T KOG4340|consen 46 GLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRL-YQAQSLYKAC--IYADALRVAFLLLD--------NPALHSRV 114 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHH-HHHHHHHHhc--ccHHHHHHHHHhcC--------CHHHHHHH
Confidence 4566788899999999999999999988888865311 1112222211 12111111111111 01111111
Q ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhH
Q psy4083 120 LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQA 199 (374)
Q Consensus 120 l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~ 199 (374)
+ +--+.+.+..+|+..+ ..++..+....+. ++...+-.+-+.-+++..+-.-+..|..+ +++.+ -
T Consensus 115 l-qLqaAIkYse~Dl~g~----rsLveQlp~en~A----d~~in~gCllykegqyEaAvqkFqaAlqv--sGyqp-l--- 179 (459)
T KOG4340|consen 115 L-QLQAAIKYSEGDLPGS----RSLVEQLPSENEA----DGQINLGCLLYKEGQYEAAVQKFQAALQV--SGYQP-L--- 179 (459)
T ss_pred H-HHHHHHhcccccCcch----HHHHHhccCCCcc----chhccchheeeccccHHHHHHHHHHHHhh--cCCCc-h---
Confidence 1 1234466677777777 4444433322222 22233334445666777666666666555 23222 1
Q ss_pred HHHHHHHHHhhcccccHHHHHHHHHHhc
Q psy4083 200 ALDLQSGILHAADEQDFKTAFSYFYEAF 227 (374)
Q Consensus 200 ~i~~~~G~~~~~~~rdy~~A~~~F~eaf 227 (374)
+----+..|. ..|+|..|..+-.|..
T Consensus 180 -lAYniALaHy-~~~qyasALk~iSEIi 205 (459)
T KOG4340|consen 180 -LAYNLALAHY-SSRQYASALKHISEII 205 (459)
T ss_pred -hHHHHHHHHH-hhhhHHHHHHHHHHHH
Confidence 1112244566 6777777777777663
No 334
>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=32.70 E-value=1.6e+02 Score=24.37 Aligned_cols=37 Identities=14% Similarity=0.100 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhh
Q psy4083 35 KAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQI 71 (374)
Q Consensus 35 k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~ 71 (374)
..+-.++..++..+...|+++.+...+..+...-|.-
T Consensus 59 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~ 95 (146)
T PF03704_consen 59 ELYLDALERLAEALLEAGDYEEALRLLQRALALDPYD 95 (146)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCC
Confidence 4455667777888888999999988888776655443
No 335
>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=32.62 E-value=66 Score=26.00 Aligned_cols=37 Identities=22% Similarity=0.182 Sum_probs=34.2
Q ss_pred hhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 290 IIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 290 ~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
+-++..+|+.+.+|++-|++.+.|.+.+..||..|-|
T Consensus 48 ~nKk~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 48 WNKKMDRISNSQIAEMTGLSRDHVSKALNELIRRGVI 84 (100)
T ss_pred CCCccceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 3467799999999999999999999999999999988
No 336
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=32.18 E-value=3.1e+02 Score=25.35 Aligned_cols=98 Identities=19% Similarity=0.210 Sum_probs=63.5
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALD 202 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~ 202 (374)
+|+.-..+.|++.+|...|+..+..+- .+|. -+.|-..+..+..+++..+...++..-... ...-.|. =.
T Consensus 94 rLa~al~elGr~~EA~~hy~qalsG~f-A~d~----a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~-pa~r~pd----~~ 163 (251)
T COG4700 94 RLANALAELGRYHEAVPHYQQALSGIF-AHDA----AMLLGLAQAQFAIQEFAAAQQTLEDLMEYN-PAFRSPD----GH 163 (251)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHhcccc-CCCH----HHHHHHHHHHHhhccHHHHHHHHHHHhhcC-CccCCCC----ch
Confidence 788888889999999777765542111 1233 245566778889999999988887743321 1111111 12
Q ss_pred HHHHHHhhcccccHHHHHHHHHHhccCcC
Q psy4083 203 LQSGILHAADEQDFKTAFSYFYEAFEGFS 231 (374)
Q Consensus 203 ~~~G~~~~~~~rdy~~A~~~F~eaf~~f~ 231 (374)
..-|.... ..+.|.+|-+.|--+...|.
T Consensus 164 Ll~aR~la-a~g~~a~Aesafe~a~~~yp 191 (251)
T COG4700 164 LLFARTLA-AQGKYADAESAFEVAISYYP 191 (251)
T ss_pred HHHHHHHH-hcCCchhHHHHHHHHHHhCC
Confidence 24455555 68899999998888877775
No 337
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=32.13 E-value=8e+02 Score=27.87 Aligned_cols=31 Identities=13% Similarity=0.116 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q psy4083 38 EQNILQLGEKYKQEGKAIELAELIKKTRPFL 68 (374)
Q Consensus 38 e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~ 68 (374)
+.+++.+|..|-+.|++++....+..+..+-
T Consensus 116 k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D 146 (906)
T PRK14720 116 KLALRTLAEAYAKLNENKKLKGVWERLVKAD 146 (906)
T ss_pred hHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence 4688888888888899988887777776654
No 338
>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=32.07 E-value=51 Score=21.72 Aligned_cols=27 Identities=19% Similarity=0.306 Sum_probs=21.8
Q ss_pred HHHHHHHHhhcccccHHHHHHHHHHhcc
Q psy4083 201 LDLQSGILHAADEQDFKTAFSYFYEAFE 228 (374)
Q Consensus 201 i~~~~G~~~~~~~rdy~~A~~~F~eaf~ 228 (374)
+...-|-+.+ ...+|..|...|..|.+
T Consensus 3 v~~~Lgeisl-e~e~f~qA~~D~~~aL~ 29 (38)
T PF10516_consen 3 VYDLLGEISL-ENENFEQAIEDYEKALE 29 (38)
T ss_pred HHHHHHHHHH-HhccHHHHHHHHHHHHH
Confidence 3455678889 99999999999988843
No 339
>TIGR01716 RGG_Cterm transcriptional activator, Rgg/GadR/MutR family, C-terminal domain. This model describes the whole, except for a 60 residue N-terminal helix-turn-helix DNA-binding domain (PFAM pfam01381) of the family of proteins related to the transcriptional regulator Rgg, also called RopB. Rgg is required for secretion of several proteins, including a cysteine proteinase associated with virulence. GadR is a positive regulator of a glutamate-dependent acid resistance mechanism. MutR is a transcriptional activator for mutacin biosynthesis genes in Streptococcus mutans. This family appears restricted to the low-GC Gram-positive bacteria, including at least eight members in Lactococcus lactis.
Probab=31.71 E-value=3.8e+02 Score=23.94 Aligned_cols=135 Identities=12% Similarity=0.064 Sum_probs=72.8
Q ss_pred HHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q psy4083 47 KYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEARLIA 126 (374)
Q Consensus 47 ~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~kLa~ 126 (374)
-.+..+|.+++.+++.....-.... -..-+.+|..++..++.....+....+.+.+.+-.. ..|-...+ .|..
T Consensus 20 ~a~~~~Di~~L~~l~~~~~~~~~~~-~~~~~~li~~~l~~l~~~~~~~~~~~~~l~~yL~~i----~~W~~~eL--~Lf~ 92 (220)
T TIGR01716 20 EAFYSNDIVGLKSLLSKISETKETY-NRLNKAVIKARLHTLDHSYILSEEEVEFLTDYLFNI----EEWTYYEL--YLFG 92 (220)
T ss_pred HHHHhcCHHHHHHHHHHhhcchhHH-HHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHhhhh----hhhhHHHH--HHHH
Confidence 3456688888877777632211111 112335577777766543221222233333333311 23443333 2333
Q ss_pred HHHhccCHHHHHHHHHHHHHHHHHhc----cchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc
Q psy4083 127 LYFDTGEYTEALKLSSSLLKELKKLD----DKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA 188 (374)
Q Consensus 127 ~~~~~g~~~~Al~~~~~ll~el~~~d----d~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~ 188 (374)
.-...=+.+.....+.++++..+... .......+++.-+-+++..+++..|..++...++.+
T Consensus 93 n~~~~l~~~~~~~l~~~il~~~~~~~~~~~~~~~i~~il~N~~~~~i~~~~~~~a~~~l~~l~~l~ 158 (220)
T TIGR01716 93 NTMSILNSEDLEFLGKELLERLKRYRELNRYRRRVIQLLLNIAVLLIEKNEFSYAQYFLEKLEKIL 158 (220)
T ss_pred hHHHHcCHHHHHHHHHHHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHh
Confidence 32223344455444456665544331 245567788888888889999999999999887764
No 340
>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=31.71 E-value=67 Score=18.60 Aligned_cols=22 Identities=32% Similarity=0.552 Sum_probs=17.4
Q ss_pred HHHHHHhccCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll 145 (374)
+.+.|.+.|++++|.+.+.++.
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~ 27 (31)
T PF01535_consen 6 LISGYCKMGQFEEALEVFDEMR 27 (31)
T ss_pred HHHHHHccchHHHHHHHHHHHh
Confidence 6678899999999977666554
No 341
>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=31.67 E-value=80 Score=18.39 Aligned_cols=23 Identities=22% Similarity=0.304 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIK 62 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~ 62 (374)
+.+.++..+...|++++....+.
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 45678999999999999876653
No 342
>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=31.56 E-value=91 Score=24.08 Aligned_cols=36 Identities=22% Similarity=0.196 Sum_probs=25.9
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
.+++.+.-=.-|+...||..+|.++++|...|..+=
T Consensus 28 ~LLr~LA~G~PVt~~~LA~a~g~~~e~v~~~L~~~p 63 (77)
T PF12324_consen 28 PLLRLLAKGQPVTVEQLAAALGWPVEEVRAALAAMP 63 (77)
T ss_dssp HHHHHHTTTS-B-HHHHHHHHT--HHHHHHHHHH-T
T ss_pred HHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHHhCC
Confidence 355566667889999999999999999999998873
No 343
>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=31.33 E-value=1.1e+02 Score=20.54 Aligned_cols=29 Identities=17% Similarity=0.149 Sum_probs=24.5
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhh
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMIL 322 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~ 322 (374)
+...+...+|+.+|+|+..++..+.++..
T Consensus 13 ~~~~s~~eia~~l~~s~~tv~~~~~~~~~ 41 (57)
T cd06170 13 AEGKTNKEIADILGISEKTVKTHLRNIMR 41 (57)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 35679999999999999999999876643
No 344
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=31.28 E-value=1.1e+02 Score=28.31 Aligned_cols=63 Identities=5% Similarity=0.046 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.+.+++.|++..+..-+.|=.++ +-..||+.||+|...|.+-|..|-.+|-+.-+- ..|+.+.
T Consensus 9 ~~~v~~~i~~~I~~g~l~pG~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~--~~G~~V~ 72 (251)
T PRK09990 9 ADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQ--GRGSFVA 72 (251)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC--CCeeEEe
Confidence 35678888888888899999999 899999999999999999999999999886443 3566655
No 345
>KOG4521|consensus
Probab=31.19 E-value=5.2e+02 Score=30.16 Aligned_cols=175 Identities=15% Similarity=0.147 Sum_probs=79.3
Q ss_pred HHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccc------cchhhhHHHHHHHHHHHHHhh--HHHHHHH
Q psy4083 48 YKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLE------TRTGMEVALCKECIEWAKEER--RTFLRQS 119 (374)
Q Consensus 48 ~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~------~~~~~~~~l~~e~i~~~~~~~--r~~lr~~ 119 (374)
.-..|.|+.+.+++..+.|....+...++----.+++.++.+.- +..+..+++-..+|+.+..++ .--+++
T Consensus 947 ~Sg~ge~~aL~~lv~~~~p~~~sv~dG~t~s~e~t~lhYYlkv~rlle~hn~~E~vcQlA~~AIe~l~dd~ps~a~~~t- 1025 (1480)
T KOG4521|consen 947 LSGFGEGNALRKLVYFLLPKRFSVADGKTPSEELTALHYYLKVVRLLEEHNHAEEVCQLAVKAIENLPDDNPSVALIST- 1025 (1480)
T ss_pred hhccccHHHHHHHHHHhcCCCCchhcCCCCCchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcchhHHHHHH-
Confidence 33346777777777666665544443322111111222222110 112333344344454332111 122233
Q ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH----H-HhCCHHHHHHHHHHHHhhccccCCC
Q psy4083 120 LEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTY----H-ALSNLSTSRASLTSARTTANSIYCP 194 (374)
Q Consensus 120 l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~----~-~~~n~~~a~~~~~~a~~~~~~~~~~ 194 (374)
-..++.++.|.|.+|.+.+-+.-.+-.+.+.-.+++=+.+.--++- + ..+--.+....+..++.- ..
T Consensus 1026 ---~vFnhhldlgh~~qAy~ai~~npdserrrdcLRqlvivLfecg~l~~L~~fpfigl~~eve~~l~esaaR-----s~ 1097 (1480)
T KOG4521|consen 1026 ---TVFNHHLDLGHWFQAYKAILRNPDSERRRDCLRQLVIVLFECGELEALATFPFIGLEQEVEDFLRESAAR-----SS 1097 (1480)
T ss_pred ---HHHHhhhchhhHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhccchHHHhhCCccchHHHHHHHHHHHHhh-----cC
Confidence 4688899999999998766433211111111122222211111110 1 111222233322222111 23
Q ss_pred hhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 195 PKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 195 ~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
|-.+..+++.-=-+|+ ..+||.+|+...||=-..+..
T Consensus 1098 ~~mk~nyYelLYAfh~-~RhN~RkaatvMYEyamrl~s 1134 (1480)
T KOG4521|consen 1098 PSMKKNYYELLYAFHV-ARHNFRKAATVMYEYAMRLES 1134 (1480)
T ss_pred ccccccHHHHHHHHHH-hhcchhHHHHHHHHHHHHhcc
Confidence 4444455555555688 999999999999997444433
No 346
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=30.59 E-value=83 Score=21.93 Aligned_cols=39 Identities=13% Similarity=0.104 Sum_probs=29.8
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
.++.++.+..-=...+...+|..||++...+-+.+...+
T Consensus 6 ~d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 6 EDQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HHHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 345555555555778899999999999999888877665
No 347
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.27 E-value=1.2e+02 Score=28.94 Aligned_cols=59 Identities=20% Similarity=0.259 Sum_probs=42.3
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSA 184 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a 184 (374)
.|++.++..|+|++|...+..+.+++.+..- .=|..+..-.....++|...|+..+...
T Consensus 183 WLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~K---ApdallKlg~~~~~l~~~d~A~atl~qv 241 (262)
T COG1729 183 WLGESLYAQGDYEDAAYIFARVVKDYPKSPK---APDALLKLGVSLGRLGNTDEACATLQQV 241 (262)
T ss_pred HHHHHHHhcccchHHHHHHHHHHHhCCCCCC---ChHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence 5899999999999998888888776654421 0133344444456788999999888774
No 348
>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=30.12 E-value=1.1e+02 Score=21.11 Aligned_cols=36 Identities=33% Similarity=0.421 Sum_probs=28.3
Q ss_pred HHHHHHHHhhccc-cceeHHHHHhHhCCChHHHHHHHHH
Q psy4083 282 MLEQNLCRIIEPY-SRVEVGFIAKSIKLDELAVEKKLSQ 319 (374)
Q Consensus 282 ire~~l~~~~~pY-s~I~l~~lA~~l~ls~~~vE~~L~~ 319 (374)
+.+..+.. .|| +.=++..||..+|++...|..+...
T Consensus 14 ~Le~~f~~--~~~P~~~~~~~la~~~~l~~~qV~~WF~n 50 (59)
T cd00086 14 ELEKEFEK--NPYPSREEREELAKELGLTERQVKIWFQN 50 (59)
T ss_pred HHHHHHHh--CCCCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 44445544 667 8888999999999999999988654
No 349
>KOG1586|consensus
Probab=30.07 E-value=4.9e+02 Score=24.81 Aligned_cols=193 Identities=15% Similarity=0.145 Sum_probs=107.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhh-hHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHH
Q psy4083 31 DEEVKAKEQNILQLGEKYKQEGKAIELAELIKKTRPFLSQIS-KAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAK 109 (374)
Q Consensus 31 ~~~~k~~e~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~-k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~ 109 (374)
|..-.-+.++ +..|.=+++|+.....+-....+....+ |--++-.--..-..+-+. .+..-++.+..+|+.-+
T Consensus 31 eeAadl~~~A----an~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~--~~~eAv~cL~~aieIyt 104 (288)
T KOG1586|consen 31 EEAAELYERA----ANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKV--DPEEAVNCLEKAIEIYT 104 (288)
T ss_pred HHHHHHHHHH----HHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcc--ChHHHHHHHHHHHHHHH
Confidence 3334444454 7777777888888777776666653332 211111111111122211 12334555556666555
Q ss_pred HhhHHHHHHHHHHHHHHHHHhc-cCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHH-HHhh
Q psy4083 110 EERRTFLRQSLEARLIALYFDT-GEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTS-ARTT 187 (374)
Q Consensus 110 ~~~r~~lr~~l~~kLa~~~~~~-g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~-a~~~ 187 (374)
.-||.=.-++--.-+|++|+.. .++++|+..|+..-..++-....+.-=-.++...++....+.++++-..|.. ++..
T Consensus 105 ~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s 184 (288)
T KOG1586|consen 105 DMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSS 184 (288)
T ss_pred hhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444333222222589999876 8999999888776544443322222223455556666777889998888776 3332
Q ss_pred ccccCCChhhhHHH---HHHHHHHhhc--ccccHHHHHHHHHHhccCcCcc
Q psy4083 188 ANSIYCPPKMQAAL---DLQSGILHAA--DEQDFKTAFSYFYEAFEGFSTV 233 (374)
Q Consensus 188 ~~~~~~~~~~~~~i---~~~~G~~~~~--~~rdy~~A~~~F~eaf~~f~~~ 233 (374)
. .++-++=.. -.-.|+-|+| +.=+-..|...|-+.+++|...
T Consensus 185 ~----~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~ds 231 (288)
T KOG1586|consen 185 L----DNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDS 231 (288)
T ss_pred c----cchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCccccc
Confidence 2 344333222 2345677772 2334566788888888888643
No 350
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=29.85 E-value=1e+02 Score=26.64 Aligned_cols=46 Identities=11% Similarity=0.024 Sum_probs=32.7
Q ss_pred hhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 273 AHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 273 ~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
..+..|-...++-.++.+++ -.+.+.||+.+|+|+.-|...+.+..
T Consensus 125 ~~l~~L~~~~r~i~~l~~~~---g~s~~eIA~~lgis~~tV~~~l~Rar 170 (179)
T PRK12514 125 ACLEELEKDRAAAVRRAYLE---GLSYKELAERHDVPLNTMRTWLRRSL 170 (179)
T ss_pred HHHHhCCHHHHHHHHHHHHc---CCCHHHHHHHHCCChHHHHHHHHHHH
Confidence 33444545555555666654 45699999999999999998887643
No 351
>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=29.71 E-value=1.5e+02 Score=22.54 Aligned_cols=42 Identities=7% Similarity=-0.001 Sum_probs=34.7
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
..+..+..- +++++.+-+..|++.+.+=-.|++|-..|.|.-
T Consensus 9 ~IL~~ls~~--c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 9 KILIILSKR--CCTLEELEEKTGISKNTLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHHHhc--cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeee
Confidence 333444433 999999999999999999999999999998854
No 352
>PRK15481 transcriptional regulatory protein PtsJ; Provisional
Probab=29.70 E-value=1e+02 Score=31.06 Aligned_cols=54 Identities=9% Similarity=0.161 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
..+++.++.......+.|=.++ +...||+.||+|...|.+-+.+|..+|-+.++
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 4567777777777778888888 78999999999999999999999999988753
No 353
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=29.41 E-value=97 Score=27.97 Aligned_cols=46 Identities=9% Similarity=0.032 Sum_probs=37.8
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecC
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQ 332 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~ 332 (374)
+.-+.+.++-.+...||+.+|+|+.-|++++..+...|.+...++-
T Consensus 168 l~~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~~ 213 (225)
T PRK10046 168 RKLFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIVH 213 (225)
T ss_pred HHHHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEeec
Confidence 3344454555789999999999999999999999999999877764
No 354
>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=29.31 E-value=1.6e+02 Score=28.26 Aligned_cols=52 Identities=15% Similarity=0.218 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecC
Q psy4083 278 LYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQ 332 (374)
Q Consensus 278 L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~ 332 (374)
-.+....-.+..+.+| +.++.+.+.+|++...+-..+.+||..|.+.|+|--
T Consensus 177 r~ka~iRG~l~a~T~P---t~l~~l~~~~~~~~~l~~~il~~Li~~~~l~G~i~G 228 (272)
T PF09743_consen 177 RQKARIRGALSAITRP---TPLSSLLKRYGFEEKLFQSILEELIKSGELPGSIVG 228 (272)
T ss_pred HHHHHHHHHHhcCccc---eEHHHHHHHhCCcHHHHHHHHHHHHhcCcceEEEEC
Confidence 3444555566666665 889999999999999999999999999999998866
No 355
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=29.26 E-value=1.7e+02 Score=26.61 Aligned_cols=64 Identities=8% Similarity=0.118 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+..+.+.++++....-+.|=+.+ +=..||+.||+|..-|.+-|..|+.+|-|..+ ++.|+.+..
T Consensus 10 y~~i~~~l~~~I~~g~~~~G~~LPsE~eLa~~~~VSR~TvR~Al~~L~~eGli~r~--~G~GtfV~~ 74 (238)
T TIGR02325 10 WRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAE--QGRGTFVAA 74 (238)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCCEEEECC
Confidence 34455556665555555666677 77899999999999999999999999988765 667777753
No 356
>COG2378 Predicted transcriptional regulator [Transcription]
Probab=29.19 E-value=1e+02 Score=30.13 Aligned_cols=48 Identities=6% Similarity=0.088 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCc
Q psy4083 278 LYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKK 325 (374)
Q Consensus 278 L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgk 325 (374)
..+..|.-.+++++....+++...||+.|++|...+.+.+..+=..|-
T Consensus 4 ~~ka~RL~~ii~~L~~~~~vta~~lA~~~~VS~RTi~RDi~~L~~~gv 51 (311)
T COG2378 4 MRKAERLLQIIQILRAKETVTAAELADEFEVSVRTIYRDIATLRAAGV 51 (311)
T ss_pred hhHHHHHHHHHHHHHhCccchHHHHHHhcCCCHHHHHHHHHHHHHCCC
Confidence 346678889999999999999999999999999999999998888774
No 357
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=28.88 E-value=4.1e+02 Score=25.22 Aligned_cols=46 Identities=22% Similarity=0.190 Sum_probs=36.7
Q ss_pred HHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 283 LEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 283 re~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
+-+.|.-+...--++.-+.||+.+|++++-|-..+-+||.+|-+.-
T Consensus 12 ~fqIL~ei~~~qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~ 57 (260)
T COG1497 12 RFQILSEIAVRQPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK 57 (260)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee
Confidence 3444444444447899999999999999999999999999996543
No 358
>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=28.55 E-value=2.3e+02 Score=20.51 Aligned_cols=36 Identities=19% Similarity=0.235 Sum_probs=28.5
Q ss_pred hhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCc
Q psy4083 290 IIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKK 325 (374)
Q Consensus 290 ~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgk 325 (374)
.+-.+-+.++..|.+..++|.+.|.+-|+-||.-|-
T Consensus 21 ~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~ 56 (62)
T PF08221_consen 21 VLLSRGRLTLREIVRRTGLSPKQVKKALVVLIQHNL 56 (62)
T ss_dssp HHHHC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTS
T ss_pred HHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence 344578999999999999999999999999997653
No 359
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=28.52 E-value=1.4e+02 Score=27.26 Aligned_cols=63 Identities=13% Similarity=0.132 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 276 GTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 276 ~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
..+.+.++.+....-+.|=+.+ +-..||+.||+|..-|-+-|..|+.+|-|.-+ +..|+.+..
T Consensus 4 ~qi~~~l~~~I~~g~~~~g~~LPsE~eLa~~~~VSR~TVR~Al~~L~~eGli~r~--~G~GtfV~~ 67 (230)
T TIGR02018 4 QRIKQDILERIRSGEWPPGHRIPSEHELVAQYGCSRMTVNRALRELTDAGLLERR--QGVGTFVAE 67 (230)
T ss_pred HHHHHHHHHHHHhCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCCEEEEcc
Confidence 4455666666666666777888 88899999999999999999999999987543 455666653
No 360
>PF10428 SOG2: RAM signalling pathway protein; InterPro: IPR019487 The RAM signalling pathway regulates Ace2p transcription factor activity and cellular morphogenesis in Saccharomyces cerevisiae (Baker's yeast), and is thought to be conserved amongst eukaryotes []. This entry is found in one of the components of this pathway, the leucine-rich repeat-containing protein SOG2.
Probab=28.24 E-value=6.1e+02 Score=26.10 Aligned_cols=82 Identities=17% Similarity=0.173 Sum_probs=60.1
Q ss_pred HHHHHhCCHHHHHHHHHHHHhhccccCCCh-hhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccchhHHHHHHH
Q psy4083 166 KTYHALSNLSTSRASLTSARTTANSIYCPP-KMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDHNHAMMSLKY 244 (374)
Q Consensus 166 ~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~-~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~~~~~~~LkY 244 (374)
.+|-...++..+...+++.....+...+++ ..++.++.|.-.+. -|+.....+-+-++.|-..+|+.++..|--
T Consensus 61 vly~a~~hi~~L~~~Le~~d~~~~~~~~~~~~~~~v~~~c~t~i~-----af~~i~~~L~~n~~~~v~~~D~ryiRtlll 135 (445)
T PF10428_consen 61 VLYNANSHIDQLVEALERFDSSSREDEPSPRVNENVIRACQTCIS-----AFKHICSLLRKNLDVFVDNGDVRYIRTLLL 135 (445)
T ss_pred HHhhHHhhHHHHHHHHHHHhcccccCCcchhhHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHhcCChhHHHHHHH
Confidence 567777788889999998877654432333 34567777766554 478888888888888888899999999877
Q ss_pred HHHHHHhc
Q psy4083 245 MLLSKIML 252 (374)
Q Consensus 245 ~vL~~iL~ 252 (374)
+++++++.
T Consensus 136 ~lygS~~E 143 (445)
T PF10428_consen 136 MLYGSIME 143 (445)
T ss_pred HHHHHHHH
Confidence 77777664
No 361
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=28.13 E-value=3.2e+02 Score=21.94 Aligned_cols=27 Identities=15% Similarity=0.188 Sum_probs=23.4
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
+.-.+...+|+.+|+|+..|...+.+.
T Consensus 124 ~~g~s~~eIA~~l~~s~~~v~~~~~~~ 150 (158)
T TIGR02937 124 LEGLSYKEIAEILGISVGTVKRRLKRA 150 (158)
T ss_pred hcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 367789999999999999999888764
No 362
>PF12213 Dpoe2NT: DNA polymerases epsilon N terminal; InterPro: IPR024639 This domain is found in the N-terminal of DNA polymerase epsilon subunit B proteins. It contains a single completely conserved phenylalanine residue that may be functionally important. It forms a primarily alpha helical structure in which four helices are arranged in two hairpins with connecting loops containing beta strands which form a short parallel sheet. DNA polymerase epsilon is required in DNA replication for synthesis of the leading strand. The N-terminal domain has close structural relation to AAA+ protein C-terminal domains [].; PDB: 2V6Z_M.
Probab=28.09 E-value=1.4e+02 Score=22.70 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=22.5
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccc
Q psy4083 59 ELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLE 91 (374)
Q Consensus 59 ~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~ 91 (374)
+..+.+...+..++.....+.+.+|+|.+++-|
T Consensus 23 eA~~~l~~~l~~~~~~e~e~~l~~Ii~~v~kq~ 55 (73)
T PF12213_consen 23 EASKYLAEQLQSLSEEEREDWLDKIIDAVQKQP 55 (73)
T ss_dssp HHHHHHHHHTTTS-TTTHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHccCCHHHHHHHHHHHHHHHhcCC
Confidence 345666666666777777888888888887754
No 363
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=28.05 E-value=61 Score=25.74 Aligned_cols=23 Identities=22% Similarity=0.206 Sum_probs=21.1
Q ss_pred cceeHHHHHhHhCCChHHHHHHH
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L 317 (374)
+.++++.+|..||+|++.+|+.|
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL 44 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVL 44 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHH
Confidence 78899999999999999999766
No 364
>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=27.94 E-value=2.3e+02 Score=26.33 Aligned_cols=78 Identities=18% Similarity=0.094 Sum_probs=54.5
Q ss_pred HHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccc-hhHHHHHHHHHHHHHhcCCch
Q psy4083 178 RASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDH-NHAMMSLKYMLLSKIMLNTPE 256 (374)
Q Consensus 178 ~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~-~~~~~~LkY~vL~~iL~~~~~ 256 (374)
-.++.+|...- +.....++...+....|.-|+ ..++|.+|..+|-.+...|...|= .-...+|..+.-|.-..+++.
T Consensus 158 I~lL~~A~~~f-~~~~~~R~~~~l~~~~A~ey~-~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~ 235 (247)
T PF11817_consen 158 IELLEKAYEQF-KKYGQNRMASYLSLEMAEEYF-RLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVE 235 (247)
T ss_pred HHHHHHHHHHH-HHhccchHHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHH
Confidence 34445543322 223457888888889999999 999999999999888777765443 334466777777877776655
Q ss_pred h
Q psy4083 257 D 257 (374)
Q Consensus 257 ~ 257 (374)
+
T Consensus 236 ~ 236 (247)
T PF11817_consen 236 D 236 (247)
T ss_pred H
Confidence 4
No 365
>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=27.56 E-value=1.2e+02 Score=19.56 Aligned_cols=28 Identities=11% Similarity=0.154 Sum_probs=21.6
Q ss_pred eHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 298 EVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
++..+|+.+|++...+.+++. .|.+.+.
T Consensus 2 s~~e~a~~lgvs~~tl~~~~~----~g~~~~~ 29 (49)
T cd04762 2 TTKEAAELLGVSPSTLRRWVK----EGKLKAI 29 (49)
T ss_pred CHHHHHHHHCcCHHHHHHHHH----cCCCCce
Confidence 578899999999888885554 5777653
No 366
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=27.49 E-value=3.6e+02 Score=22.42 Aligned_cols=44 Identities=11% Similarity=0.041 Sum_probs=37.9
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
.++...||+.+|++..-+-+.+.+|...|-+.-.-|..++....
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~ 89 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKR 89 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCeee
Confidence 36789999999999999999999999999998888777764433
No 367
>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=27.47 E-value=90 Score=25.72 Aligned_cols=40 Identities=10% Similarity=0.197 Sum_probs=33.3
Q ss_pred HHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhc
Q psy4083 284 EQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILD 323 (374)
Q Consensus 284 e~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~d 323 (374)
...|..+++-+..+++..+|+.||++..-+-..|-+|=..
T Consensus 59 ~~~L~~~v~~~pd~tl~Ela~~l~Vs~~ti~~~Lkrlg~t 98 (119)
T PF01710_consen 59 RDELKALVEENPDATLRELAERLGVSPSTIWRALKRLGIT 98 (119)
T ss_pred HHHHHHHHHHCCCcCHHHHHHHcCCCHHHHHHHHHHcCch
Confidence 3457788888999999999999999999998888766433
No 368
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=27.30 E-value=1.7e+02 Score=26.61 Aligned_cols=48 Identities=19% Similarity=0.101 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHhhcccc--ceeHHHHHhHhCCChHHHHHHHHHHhhcC
Q psy4083 277 TLYDNMLEQNLCRIIEPYS--RVEVGFIAKSIKLDELAVEKKLSQMILDK 324 (374)
Q Consensus 277 ~L~~~ire~~l~~~~~pYs--~I~l~~lA~~l~ls~~~vE~~L~~lI~dg 324 (374)
.+.+.=|-..+++.+.... +|+.+.||+.+|+++..+.+.|..+=..|
T Consensus 11 ~~~r~~~~~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~~l~~~G 60 (213)
T PRK05472 11 TIKRLPLYYRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLSYFGEFG 60 (213)
T ss_pred HHHHhHHHHHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHHHHHhcC
Confidence 3445566677888888887 99999999999999999999998884443
No 369
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.19 E-value=67 Score=25.42 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=21.8
Q ss_pred ccceeHHHHHhHhCCChHHHHHHH
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L 317 (374)
-++++.+.+|+.||+++..+|+.|
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHH
Confidence 378899999999999999999877
No 370
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=27.12 E-value=1.5e+02 Score=27.40 Aligned_cols=64 Identities=16% Similarity=0.217 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+..+.+.++.+-...-+.|=..+ +=..||+.||+|..-|-+-|..|+.+|-|.-+ ++.|+.+..
T Consensus 7 y~qi~~~L~~~I~~g~~~~G~~LPsE~eL~~~~~VSR~TvR~Al~~L~~eGli~r~--~G~GtfV~~ 71 (240)
T PRK09764 7 YRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESI--QGSGTYVKE 71 (240)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCceeEEcc
Confidence 34566666666666677888888 67999999999999999999999999988653 456777653
No 371
>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=27.03 E-value=1e+02 Score=18.06 Aligned_cols=22 Identities=36% Similarity=0.439 Sum_probs=17.0
Q ss_pred HHHHHHhccCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll 145 (374)
+...|.+.|++++|.+.+.++.
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~ 27 (35)
T TIGR00756 6 LIDGLCKAGRVEEALELFKEML 27 (35)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 5667889999999977766654
No 372
>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=26.80 E-value=80 Score=25.25 Aligned_cols=35 Identities=20% Similarity=0.093 Sum_probs=26.9
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
...++-+.||+.+|++..++.+.|..|-.+|-+..
T Consensus 25 ~~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~ 59 (105)
T PF02002_consen 25 KGELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSY 59 (105)
T ss_dssp H--B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EE
T ss_pred cCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEE
Confidence 45688899999999999999999999999998855
No 373
>PF12854 PPR_1: PPR repeat
Probab=26.74 E-value=76 Score=19.85 Aligned_cols=20 Identities=35% Similarity=0.468 Sum_probs=15.9
Q ss_pred HHHHHHHhccCHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSS 142 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~ 142 (374)
-|..-|.+.|++++|.+++.
T Consensus 12 ~lI~~~Ck~G~~~~A~~l~~ 31 (34)
T PF12854_consen 12 TLIDGYCKAGRVDEAFELFD 31 (34)
T ss_pred HHHHHHHHCCCHHHHHHHHH
Confidence 36778999999999966554
No 374
>PF13041 PPR_2: PPR repeat family
Probab=26.50 E-value=94 Score=20.85 Aligned_cols=22 Identities=41% Similarity=0.622 Sum_probs=17.7
Q ss_pred HHHHHHhccCHHHHHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll 145 (374)
+...|.+.|++++|.+++.++.
T Consensus 9 li~~~~~~~~~~~a~~l~~~M~ 30 (50)
T PF13041_consen 9 LISGYCKAGKFEEALKLFKEMK 30 (50)
T ss_pred HHHHHHHCcCHHHHHHHHHHHH
Confidence 6678899999999977776664
No 375
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=26.20 E-value=3.3e+02 Score=30.27 Aligned_cols=46 Identities=15% Similarity=0.226 Sum_probs=37.6
Q ss_pred hccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 291 IEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 291 ~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
+.--..|++..+|+.|++|.+++.+.|+.- +.+.|+|++| .|.+++
T Consensus 129 LqE~G~isI~eLa~~~~Lpsefl~~~l~~r-lG~iI~g~~~--g~~lyT 174 (803)
T PLN03083 129 LQECSQIALAELARQLQVGSELVTSMLEPR-LGTIVKARLE--GGQLYT 174 (803)
T ss_pred HHHcCcChHHHHHHhcCChHHHHHHHHHHH-hccceEEEec--CCEEec
Confidence 444688999999999999999999999887 5578899993 455544
No 376
>PRK14999 histidine utilization repressor; Provisional
Probab=26.13 E-value=1.5e+02 Score=27.22 Aligned_cols=64 Identities=9% Similarity=0.194 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHhhccccce-eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEe
Q psy4083 275 IGTLYDNMLEQNLCRIIEPYSRV-EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVF 340 (374)
Q Consensus 275 ~~~L~~~ire~~l~~~~~pYs~I-~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~ 340 (374)
+..+.+.++.+-...-+.|=.++ +=..||+.||+|..-|-+-|..|+.+|-|.-+ ++.|+.+..
T Consensus 14 y~qi~~~i~~~I~~g~~~~G~~LPsE~eLa~~~gVSR~TVR~Al~~L~~eGli~r~--~GkGTfV~~ 78 (241)
T PRK14999 14 YETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRL--QGVGTFVAE 78 (241)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCcEEEECC
Confidence 44556666666666677788888 88999999999999999999999999988543 556777653
No 377
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=26.06 E-value=75 Score=25.91 Aligned_cols=65 Identities=20% Similarity=0.280 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh-hhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRPFL-SQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEW 107 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~~~-~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~ 107 (374)
-..+++.+|+..|.++++.+++..+..-- +...-....+.-..|++++.+.++ ..++++.+.-+|
T Consensus 41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~~~~~~~~~~~~~~~~~~iv~yL~~L~~---~~~dLI~~~s~W 106 (108)
T PF10366_consen 41 KYQELVDLYQGKGLHRKALELLKKLADEEDSDEEDPFLSGVKETIVQYLQKLGN---EDLDLIFEYSDW 106 (108)
T ss_pred CHHHHHHHHHccCccHHHHHHHHHHhcccccccccccccCchhHHHHHHHhCCh---hhhHHHHHhccc
Confidence 35678999999999999998888877620 000001111222336788876653 345666666555
No 378
>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=26.02 E-value=72 Score=25.94 Aligned_cols=44 Identities=20% Similarity=0.393 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhhccc--cceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 277 TLYDNMLEQNLCRIIEPY--SRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 277 ~L~~~ire~~l~~~~~pY--s~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
++|..+.+..-.++++.| .-.+++.||+.+|+|..-|-+.+-+.
T Consensus 12 d~Yg~LLT~kQ~~~l~lyy~eDlSlsEIAe~~~iSRqaV~d~ikr~ 57 (101)
T PF04297_consen 12 DFYGELLTEKQREILELYYEEDLSLSEIAEELGISRQAVYDSIKRA 57 (101)
T ss_dssp HHHGGGS-HHHHHHHHHHCTS---HHHHHHHCTS-HHHHHHHHHHH
T ss_pred HHHHHHCCHHHHHHHHHHHccCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 445556666666666665 78999999999999999888777654
No 379
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=25.99 E-value=3.2e+02 Score=21.27 Aligned_cols=36 Identities=17% Similarity=0.219 Sum_probs=34.2
Q ss_pred HHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCC
Q psy4083 300 GFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEK 335 (374)
Q Consensus 300 ~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~g 335 (374)
..||+.++++..-+-+.+-+|...|-+.=..|..++
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 999999999999999999999999999988888886
No 380
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=25.75 E-value=4.9e+02 Score=23.35 Aligned_cols=52 Identities=10% Similarity=-0.109 Sum_probs=42.0
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeE
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVL 337 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv 337 (374)
.++.++.....++...||+.++++..-+-+.+.+|...|=|.-..|..++..
T Consensus 49 ~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~ 100 (185)
T PRK13777 49 HILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKRN 100 (185)
T ss_pred HHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCe
Confidence 4444555556799999999999999999999999999999987766666643
No 381
>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=25.74 E-value=2e+02 Score=21.37 Aligned_cols=51 Identities=14% Similarity=0.210 Sum_probs=41.1
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
+-+++..-...+++.|++..|++..++-.-|.=|..+++|. +++.+|.+.+
T Consensus 13 Vw~~L~~~~~~s~~el~k~~~l~~~~~~~AiGWLarE~KI~--~~~~~~~~~v 63 (65)
T PF10771_consen 13 VWQLLNENGEWSVSELKKATGLSDKEVYLAIGWLARENKIE--FEEKNGELYV 63 (65)
T ss_dssp HHHHHCCSSSEEHHHHHHHCT-SCHHHHHHHHHHHCTTSEE--EEEETTEEEE
T ss_pred HHHHHhhCCCcCHHHHHHHhCcCHHHHHHHHHHHhccCcee--EEeeCCEEEE
Confidence 55667777889999999999999999999999999999994 4466665554
No 382
>KOG2908|consensus
Probab=25.52 E-value=6.9e+02 Score=25.02 Aligned_cols=98 Identities=15% Similarity=0.260 Sum_probs=53.7
Q ss_pred hhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Q psy4083 69 SQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERR--TFLRQSLEARLIALYFDTGEYTEALKLSSSLLK 146 (374)
Q Consensus 69 ~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r--~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~ 146 (374)
++++.-...++.-.+.+.++ + .+.-++.+.+.++.....+. -..+.-. ..++++++.||..++ .+++.
T Consensus 70 ~kINplslvei~l~~~~~~~---D-~~~al~~Le~i~~~~~~~~e~~av~~~~t--~~~r~~L~i~DLk~~----kk~ld 139 (380)
T KOG2908|consen 70 TKINPLSLVEILLVVSEQIS---D-KDEALEFLEKIIEKLKEYKEPDAVIYILT--EIARLKLEINDLKEI----KKLLD 139 (380)
T ss_pred hccChHHHHHHHHHHHHHhc---c-HHHHHHHHHHHHHHHHhhccchhHHHHHH--HHHHHHHhcccHHHH----HHHHH
Confidence 44544444444444444442 2 23334444333333321111 2222222 467788899999999 55555
Q ss_pred HHHHh----ccch--hHHHHHHHHHHHHHHhCCHHH
Q psy4083 147 ELKKL----DDKN--LLVEVLLLESKTYHALSNLST 176 (374)
Q Consensus 147 el~~~----dd~~--~~lev~l~ei~l~~~~~n~~~ 176 (374)
++++. ++-. ----+|..-+++|-..+|+.-
T Consensus 140 d~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~ 175 (380)
T KOG2908|consen 140 DLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDFAS 175 (380)
T ss_pred HHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhHHH
Confidence 55553 3322 333488889999999998874
No 383
>KOG1126|consensus
Probab=25.50 E-value=3.3e+02 Score=29.36 Aligned_cols=93 Identities=10% Similarity=0.000 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChh
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPK 196 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~ 196 (374)
++|- -||-+|++.++++.|.--+++.+. .......+=+ .-.+++...|...+|..++.+|-.... .+
T Consensus 490 nAwY--GlG~vy~Kqek~e~Ae~~fqkA~~----INP~nsvi~~--~~g~~~~~~k~~d~AL~~~~~A~~ld~---kn-- 556 (638)
T KOG1126|consen 490 NAWY--GLGTVYLKQEKLEFAEFHFQKAVE----INPSNSVILC--HIGRIQHQLKRKDKALQLYEKAIHLDP---KN-- 556 (638)
T ss_pred HHHH--hhhhheeccchhhHHHHHHHhhhc----CCccchhHHh--hhhHHHHHhhhhhHHHHHHHHHHhcCC---CC--
Confidence 4444 577788888888888655544431 1122222222 345677788899999999999866531 12
Q ss_pred hhHHHHHHHHHHhhcccccHHHHHHHHHH
Q psy4083 197 MQAALDLQSGILHAADEQDFKTAFSYFYE 225 (374)
Q Consensus 197 ~~~~i~~~~G~~~~~~~rdy~~A~~~F~e 225 (374)
...+++ .|.+.. .-++|.+|...|=|
T Consensus 557 ~l~~~~--~~~il~-~~~~~~eal~~LEe 582 (638)
T KOG1126|consen 557 PLCKYH--RASILF-SLGRYVEALQELEE 582 (638)
T ss_pred chhHHH--HHHHHH-hhcchHHHHHHHHH
Confidence 222332 233444 56787887766533
No 384
>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=25.38 E-value=1.1e+02 Score=22.68 Aligned_cols=44 Identities=9% Similarity=-0.044 Sum_probs=28.1
Q ss_pred HHHHHhhccc-cceeHHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 285 QNLCRIIEPY-SRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 285 ~~l~~~~~pY-s~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
++..++..-+ ..-+...||+.+|++++++...+...-.-.-++.
T Consensus 8 ~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~~~~~~Sl~~ 52 (78)
T PF04539_consen 8 RARRELEQELGREPTDEEIAEELGISVEEVRELLQASRRPVSLDL 52 (78)
T ss_dssp HHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHHHHSCCEESSH
T ss_pred HHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHHhCCCCeEEee
Confidence 3444444444 5678999999999999999988876544333443
No 385
>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=25.35 E-value=79 Score=21.22 Aligned_cols=21 Identities=24% Similarity=0.282 Sum_probs=16.3
Q ss_pred eeHHHHHhHhCCChHHHHHHH
Q psy4083 297 VEVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L 317 (374)
.++..||+.||+|..-|-+.+
T Consensus 22 ~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 22 MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp --HHHHHHHTTS-HHHHHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHH
Confidence 789999999999999888766
No 386
>KOG1174|consensus
Probab=25.33 E-value=7.8e+02 Score=25.53 Aligned_cols=89 Identities=20% Similarity=0.308 Sum_probs=46.4
Q ss_pred HHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHH
Q psy4083 127 LYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSG 206 (374)
Q Consensus 127 ~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G 206 (374)
+.++..+|..||..-++.++ -..--++-+++.=++....+....|-..++.|...+. -+++.|.|
T Consensus 309 ~l~~~K~~~rAL~~~eK~I~------~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap---------~rL~~Y~G 373 (564)
T KOG1174|consen 309 LLYDEKKFERALNFVEKCID------SEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAP---------YRLEIYRG 373 (564)
T ss_pred hhhhhhhHHHHHHHHHHHhc------cCcccchHHHhccHHHHhccchHHHHHHHHHHHhcch---------hhHHHHHH
Confidence 45556778888766555542 1112233444444555555555555555555544321 25677888
Q ss_pred HHhhc-ccccHHHHHHHHHHhccCc
Q psy4083 207 ILHAA-DEQDFKTAFSYFYEAFEGF 230 (374)
Q Consensus 207 ~~~~~-~~rdy~~A~~~F~eaf~~f 230 (374)
.+|.- ..+.+++|--.=-++++.|
T Consensus 374 L~hsYLA~~~~kEA~~~An~~~~~~ 398 (564)
T KOG1174|consen 374 LFHSYLAQKRFKEANALANWTIRLF 398 (564)
T ss_pred HHHHHHhhchHHHHHHHHHHHHHHh
Confidence 87630 4566666544333344433
No 387
>PRK11050 manganese transport regulator MntR; Provisional
Probab=25.20 E-value=4.4e+02 Score=22.59 Aligned_cols=36 Identities=17% Similarity=0.071 Sum_probs=31.7
Q ss_pred ccceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 294 YSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 294 Ys~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
-..+++..||+.|+++...+-+.+.+|...|-|.-+
T Consensus 49 ~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~ 84 (152)
T PRK11050 49 VGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMR 84 (152)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 356899999999999999999999999999876543
No 388
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=25.13 E-value=6.3e+02 Score=24.38 Aligned_cols=82 Identities=15% Similarity=0.107 Sum_probs=54.5
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhc---cccCCChhhhH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTA---NSIYCPPKMQA 199 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~---~~~~~~~~~~~ 199 (374)
+|++.+...|.++.+.+.+++++. .+.... ..+..-++.|...|+...+...|....+.- -.+-+.|+...
T Consensus 158 ~lae~~~~~~~~~~~~~~l~~Li~----~dp~~E--~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~ 231 (280)
T COG3629 158 KLAEALIACGRADAVIEHLERLIE----LDPYDE--PAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA 231 (280)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHh----cCccch--HHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence 688889999999999776666652 222111 367777889999999999999998865521 12324456666
Q ss_pred HHHHHHHHHhh
Q psy4083 200 ALDLQSGILHA 210 (374)
Q Consensus 200 ~i~~~~G~~~~ 210 (374)
.+.+.-+...+
T Consensus 232 ~y~~~~~~~~~ 242 (280)
T COG3629 232 LYEEILRQDPL 242 (280)
T ss_pred HHHHHhccccc
Confidence 66555444333
No 389
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=25.08 E-value=5.6e+02 Score=23.76 Aligned_cols=26 Identities=27% Similarity=0.244 Sum_probs=21.3
Q ss_pred cceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
..-+.+.||+.+|++++++...+...
T Consensus 135 ~~pt~~elA~~l~~~~e~v~~~~~~~ 160 (254)
T TIGR02850 135 KEPTVSEIAKELKVPQEEVVFALDAI 160 (254)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHhc
Confidence 44579999999999999998776543
No 390
>KOG2062|consensus
Probab=25.01 E-value=8.4e+02 Score=27.13 Aligned_cols=143 Identities=19% Similarity=0.249 Sum_probs=74.7
Q ss_pred HHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHH---HHHHHHHHHHHHHhccCHHH
Q psy4083 60 LIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFL---RQSLEARLIALYFDTGEYTE 136 (374)
Q Consensus 60 ~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~l---r~~l~~kLa~~~~~~g~~~~ 136 (374)
.+..|+.-.+.+ |-.+..-++.++|.+ |......+. .|+..- ++..|= -+.| -.+++|+-.|+|++
T Consensus 9 lialL~e~~~~l-k~~Al~~in~vVd~~---WpEIsd~l~----~IE~ly-ed~~F~er~~AaL--~~SKVyy~Lgeye~ 77 (929)
T KOG2062|consen 9 LIALLREPEPSL-KVHALFKINNVVDQF---WPEISDSLP----KIESLY-EDETFPERQLAAL--LASKVYYYLGEYED 77 (929)
T ss_pred HHHHHhCCchHH-HHHHHHHHHHHHHHh---hHHhhhhHH----HHHHHh-ccCCCchhHHHHH--HHHHHHHHHHHHHH
Confidence 344555555666 667777888888866 321111121 222211 223333 1222 36788999999999
Q ss_pred HHHHHHHHHHHHHH--hccc-hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhccc
Q psy4083 137 ALKLSSSLLKELKK--LDDK-NLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADE 213 (374)
Q Consensus 137 Al~~~~~ll~el~~--~dd~-~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~ 213 (374)
|++. .|.-=.. .+++ .+.--+.+.-|.+|..+ +-..|..-. .....||++.+.+.-.-|+ ++ ..
T Consensus 78 Al~y---AL~ag~~F~Vd~~S~y~etivak~id~yi~~-----~~~~~~~~~---~~~~iD~rL~~iv~rmi~k-cl-~d 144 (929)
T KOG2062|consen 78 ALEY---ALRAGDDFDVDENSDYVETIVAKCIDMYIET-----ASETYKNPE---QKSPIDQRLRDIVERMIQK-CL-DD 144 (929)
T ss_pred HHHH---HHcCCccccccCccchhhHHHHHHHHHHHHH-----HHHHhcCcc---ccCCCCHHHHHHHHHHHHH-hh-hh
Confidence 9753 1110000 1222 23333333334444322 111111111 1223589999988777777 45 67
Q ss_pred ccHHHHHHHHHHh
Q psy4083 214 QDFKTAFSYFYEA 226 (374)
Q Consensus 214 rdy~~A~~~F~ea 226 (374)
++|+.|...-+|+
T Consensus 145 ~e~~~aiGia~E~ 157 (929)
T KOG2062|consen 145 NEYKQAIGIAFET 157 (929)
T ss_pred hHHHHHHhHHhhh
Confidence 8999999888876
No 391
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=24.99 E-value=1.3e+02 Score=26.59 Aligned_cols=42 Identities=12% Similarity=0.143 Sum_probs=33.4
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEec
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFE 341 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~ 341 (374)
.++-..||+.+|++.+.+-+.+.+|-.+|.|. ...+.|.+.+
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 57779999999999999999999999999663 2344455543
No 392
>PF11264 ThylakoidFormat: Thylakoid formation protein; InterPro: IPR017499 Psp29, originally designated sll1414 (P73956 from SWISSPROT) in Synechocystis sp. (strain PCC 6803), is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.; GO: 0010027 thylakoid membrane organization, 0015979 photosynthesis, 0009523 photosystem II
Probab=24.95 E-value=5.6e+02 Score=23.75 Aligned_cols=74 Identities=19% Similarity=0.139 Sum_probs=40.5
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhh-hHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 156 LLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKM-QAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 156 ~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~-~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
.++|+||+..+..+.. |.--+....+.=..+. .+|+++.- ...+..++.=..+ +-..|+.-+....+..++.+.
T Consensus 28 LLVe~HLl~~n~~F~y-D~lfalG~vt~fd~fm-~GY~p~~~~~~If~Alc~a~~~-dp~~~r~dA~~l~~~a~~~s~ 102 (216)
T PF11264_consen 28 LLVELHLLSVNKDFQY-DPLFALGLVTVFDRFM-QGYPPEEDKDSIFNALCQALGF-DPEQYRQDAEKLEEWAKGKSI 102 (216)
T ss_pred HHHHHHHHHhccCcee-CchHHhhHHHHHHHHh-cCCCChhHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHcCCH
Confidence 5566666655544322 2222344444444444 45655544 4455555555666 777777777777776665543
No 393
>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=24.93 E-value=58 Score=21.92 Aligned_cols=25 Identities=16% Similarity=0.173 Sum_probs=21.1
Q ss_pred hccccceeHHHHHhHhCCChHHHHH
Q psy4083 291 IEPYSRVEVGFIAKSIKLDELAVEK 315 (374)
Q Consensus 291 ~~pYs~I~l~~lA~~l~ls~~~vE~ 315 (374)
-++|..+++..+|+..|++...+-.
T Consensus 11 ~~G~~~~s~~~Ia~~~gvs~~~~y~ 35 (47)
T PF00440_consen 11 EKGYEAVSIRDIARRAGVSKGSFYR 35 (47)
T ss_dssp HHHTTTSSHHHHHHHHTSCHHHHHH
T ss_pred HhCHHhCCHHHHHHHHccchhhHHH
Confidence 3569999999999999999876643
No 394
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=24.57 E-value=1.5e+02 Score=17.53 Aligned_cols=24 Identities=13% Similarity=0.158 Sum_probs=19.6
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHh
Q psy4083 43 QLGEKYKQEGKAIELAELIKKTRP 66 (374)
Q Consensus 43 ~l~~~~~~~~~~~~l~~~l~~l~~ 66 (374)
.+.+.+++.|+++...+.+.....
T Consensus 6 ~ll~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 6 ALLRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH
Confidence 458889999999998888777654
No 395
>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=24.49 E-value=78 Score=20.55 Aligned_cols=19 Identities=16% Similarity=-0.018 Sum_probs=14.8
Q ss_pred eHHHHHhHhCCChHHHHHH
Q psy4083 298 EVGFIAKSIKLDELAVEKK 316 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~ 316 (374)
++..||+.+|++.+++.+.
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 396
>KOG3617|consensus
Probab=24.47 E-value=1.1e+03 Score=26.88 Aligned_cols=28 Identities=18% Similarity=0.144 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 198 QAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 198 ~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
+-.+-++-|-.++ .+|+|..|.+.|-.|
T Consensus 1144 R~~vLeqvae~c~-qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1144 RKQVLEQVAELCL-QQGAYHAATKKFTQA 1171 (1416)
T ss_pred HHHHHHHHHHHHH-hccchHHHHHHHhhh
Confidence 3356677888888 999999999988655
No 397
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=24.45 E-value=2.5e+02 Score=24.68 Aligned_cols=50 Identities=6% Similarity=0.201 Sum_probs=38.7
Q ss_pred hHHHHHH-HHhcChHHHhhHHHHHHHHHHHHHHHhhccccceeHHHHHhHhCCChHHHHHH
Q psy4083 257 DVNQILS-ELEDDTIVKAHIGTLYDNMLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKK 316 (374)
Q Consensus 257 ~v~~ll~-~l~~D~~l~~h~~~L~~~ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~ 316 (374)
|+.++|. .++.|.-|+..++.+.+.|.. -++++.+|+..||+|+-++.-.
T Consensus 91 DLsdii~i~f~~deel~~~~e~i~~~v~~----------Gn~Sl~~lsr~l~~sp~firgl 141 (160)
T PF09824_consen 91 DLSDIIYIAFMSDEELRDYVEKIEKEVEA----------GNTSLSDLSRKLGISPVFIRGL 141 (160)
T ss_pred HHHHHHheeecCHHHHHHHHHHHHHHHHc----------CCCcHHHHHHHhCCCHHHHHHH
Confidence 5677777 688898888777766655543 6789999999999998887643
No 398
>PHA02591 hypothetical protein; Provisional
Probab=24.33 E-value=74 Score=24.63 Aligned_cols=23 Identities=22% Similarity=0.176 Sum_probs=19.6
Q ss_pred eeHHHHHhHhCCChHHHHHHHHH
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQ 319 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~ 319 (374)
.+.+.+|+.||++.+.|-+.+..
T Consensus 60 lSqeqIA~~LGVsqetVrKYL~~ 82 (83)
T PHA02591 60 FTVEKIASLLGVSVRKVRRYLES 82 (83)
T ss_pred CCHHHHHHHhCCCHHHHHHHHhc
Confidence 45789999999999999988754
No 399
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=24.25 E-value=82 Score=28.73 Aligned_cols=42 Identities=14% Similarity=0.139 Sum_probs=30.5
Q ss_pred HHHHHHHHH-HhhccccceeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 280 DNMLEQNLC-RIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 280 ~~ire~~l~-~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
.++...++. -|+++=.++++..||+.|||+..-+...|.+..
T Consensus 161 ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 161 LEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred HHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 334444443 355555999999999999999998887776643
No 400
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=23.81 E-value=2.4e+02 Score=22.08 Aligned_cols=50 Identities=10% Similarity=0.040 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhh
Q psy4083 39 QNILQLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFL 88 (374)
Q Consensus 39 ~~~~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~ 88 (374)
++.+.++..+...|++++..+.+-.+...-.......+-|.+-.+++.+.
T Consensus 23 ~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg 72 (90)
T PF14561_consen 23 DARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLG 72 (90)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcC
Confidence 45677799999999999998877776666566656677788878888774
No 401
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=23.54 E-value=3.5e+02 Score=26.56 Aligned_cols=42 Identities=26% Similarity=0.298 Sum_probs=29.9
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHh
Q psy4083 43 QLGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFF 87 (374)
Q Consensus 43 ~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~ 87 (374)
.+++.|...|.|++..++..+.+.+....|. ..+|+.+.+.+
T Consensus 111 ~Lm~~ci~~g~y~eALel~~~~~~L~~~~~~---~~lv~~i~~ev 152 (338)
T PF04124_consen 111 QLMDTCIRNGNYSEALELSAHVRRLQSRFPN---IPLVKSIAQEV 152 (338)
T ss_pred HHHHHHHhcccHhhHHHHHHHHHHHHHhccC---chhHHHHHHHH
Confidence 5678899999999999988888877766655 33444444433
No 402
>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=23.38 E-value=1.6e+02 Score=19.36 Aligned_cols=28 Identities=11% Similarity=-0.044 Sum_probs=22.1
Q ss_pred eHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 298 EVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
+++.+|+.+|+++..+..+ +..|.+.+.
T Consensus 2 ~~~e~a~~~gv~~~tlr~~----~~~g~l~~~ 29 (49)
T cd04761 2 TIGELAKLTGVSPSTLRYY----ERIGLLSPA 29 (49)
T ss_pred cHHHHHHHHCcCHHHHHHH----HHCCCCCCC
Confidence 5788999999999988866 566766643
No 403
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=23.32 E-value=1.2e+02 Score=26.62 Aligned_cols=43 Identities=9% Similarity=0.053 Sum_probs=35.0
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEEecC
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIVFEG 342 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~~~~ 342 (374)
.++-..||..+|++.+.|-+.|.+|-.+|-| +...|.|.+.+.
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I----~~~~~~i~I~d~ 191 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYI----RSGYGKIQLLDL 191 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCE----EcCCCEEEEECH
Confidence 4678899999999999999999999999865 445566776544
No 404
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=23.11 E-value=59 Score=20.43 Aligned_cols=16 Identities=44% Similarity=0.937 Sum_probs=14.0
Q ss_pred HHHHHHHhccCHHHHH
Q psy4083 123 RLIALYFDTGEYTEAL 138 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al 138 (374)
.||.+|...|++++|.
T Consensus 18 nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 18 NLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHCcCHHhhc
Confidence 5888999999999984
No 405
>KOG2047|consensus
Probab=22.87 E-value=1e+03 Score=26.08 Aligned_cols=180 Identities=16% Similarity=0.156 Sum_probs=100.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHh-hh-----hhhhhHHHH---HHHHHHHHHhhccccch--hhhHHHHHHHHHHH
Q psy4083 40 NILQLGEKYKQEGKAIELAELIKKTRP-FL-----SQISKAKAA---KLVRSLVDFFLDLETRT--GMEVALCKECIEWA 108 (374)
Q Consensus 40 ~~~~l~~~~~~~~~~~~l~~~l~~l~~-~~-----~~~~k~~~~---k~i~~ild~~~~~~~~~--~~~~~l~~e~i~~~ 108 (374)
+..-||+.|.+.|.+|...+.+..-.. .+ .++=-++++ ..++.+|+.-++..++. +..+++-....+..
T Consensus 250 Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~l 329 (835)
T KOG2047|consen 250 LWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESL 329 (835)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHH
Confidence 566789999999999999887653221 11 222223333 67777777221111211 12222221222211
Q ss_pred HHh-----hHHHHHHH---HHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhcc---chhHHHHHHHHHHHHHHhCCHHHH
Q psy4083 109 KEE-----RRTFLRQS---LEARLIALYFDTGEYTEALKLSSSLLKELKKLDD---KNLLVEVLLLESKTYHALSNLSTS 177 (374)
Q Consensus 109 ~~~-----~r~~lr~~---l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~dd---~~~~lev~l~ei~l~~~~~n~~~a 177 (374)
-+- +-.-||++ ++..+-+.-+..|+..+-...+++.++- .+. .+..=.+...=.++|-..++...+
T Consensus 330 m~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~---vdP~ka~Gs~~~Lw~~faklYe~~~~l~~a 406 (835)
T KOG2047|consen 330 MNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT---VDPKKAVGSPGTLWVEFAKLYENNGDLDDA 406 (835)
T ss_pred HhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc---cCcccCCCChhhHHHHHHHHHHhcCcHHHH
Confidence 100 12233332 2222333344456666666666655532 222 112223344446888899999999
Q ss_pred HHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 178 RASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 178 ~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
+..+++|-+++ ++.-.=.+.+.+.-|-+.+ ...+|+.|.+..-.|
T Consensus 407 Rvifeka~~V~---y~~v~dLa~vw~~waemEl-rh~~~~~Al~lm~~A 451 (835)
T KOG2047|consen 407 RVIFEKATKVP---YKTVEDLAEVWCAWAEMEL-RHENFEAALKLMRRA 451 (835)
T ss_pred HHHHHHhhcCC---ccchHHHHHHHHHHHHHHH-hhhhHHHHHHHHHhh
Confidence 99999986653 2222234677777788889 899999999887776
No 406
>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=22.73 E-value=3.4e+02 Score=22.15 Aligned_cols=49 Identities=6% Similarity=0.142 Sum_probs=40.4
Q ss_pred hccccceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 291 IEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 291 ~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
+..|+-|+-..+|+.|++...-..+.|-+|-..|.|.-..-.....|.+
T Consensus 54 V~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~kG~Ik~V~k~~~~~IYt 102 (105)
T PF03297_consen 54 VPKMKLITPSVLSERLKINGSLARKALRELESKGLIKPVSKHHRQRIYT 102 (105)
T ss_dssp CTTSSCECHHHHHHHHCCSCHHHHHHHHHHHHCCSSEEEECCTTCEEEE
T ss_pred hccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHCCCEEEEeccCCeEEEe
Confidence 3458999999999999999999999999999999998764444444444
No 407
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=22.52 E-value=2e+02 Score=20.86 Aligned_cols=29 Identities=10% Similarity=0.068 Sum_probs=26.0
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHhhcCc
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMILDKK 325 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI~dgk 325 (374)
++...||+.||+|...|.+.+..|-..|-
T Consensus 14 ~~~~eLa~~l~vS~~tv~~~l~~L~~~g~ 42 (69)
T TIGR00122 14 FSGEKLGEALGMSRTAVNKHIQTLREWGV 42 (69)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 45899999999999999999999977765
No 408
>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=22.43 E-value=3.1e+02 Score=22.71 Aligned_cols=42 Identities=14% Similarity=0.017 Sum_probs=35.5
Q ss_pred HHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcccee
Q psy4083 286 NLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGI 329 (374)
Q Consensus 286 ~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~ak 329 (374)
.|+.+... ..++..+|..+++|...+.=.++.|+..|.+...
T Consensus 47 ~Il~lC~~--~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 47 AILELCRR--PLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred HHHHHHCC--CccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEe
Confidence 45555555 7889999999999999999999999999987653
No 409
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=22.14 E-value=1.7e+02 Score=23.26 Aligned_cols=42 Identities=12% Similarity=0.049 Sum_probs=32.9
Q ss_pred HHHHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhhcCcc
Q psy4083 285 QNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMILDKKF 326 (374)
Q Consensus 285 ~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl 326 (374)
..|++.+.-+-.=.-..||..+++|.++|+..+-.|..-|-|
T Consensus 10 ~~IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLl 51 (92)
T PF10007_consen 10 LKILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLEEMGLL 51 (92)
T ss_pred HHHHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCe
Confidence 345555555555556789999999999999999999998854
No 410
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=22.13 E-value=4.5e+02 Score=24.82 Aligned_cols=87 Identities=15% Similarity=0.146 Sum_probs=48.6
Q ss_pred HHHHhccCcCcccchhHHHHHHHHHHHHHhcCCchhHHHHHHHHhcCh--HHHhhHHHHHHHHHHHHHHHhhccc-ccee
Q psy4083 222 YFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILSELEDDT--IVKAHIGTLYDNMLEQNLCRIIEPY-SRVE 298 (374)
Q Consensus 222 ~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~ll~~l~~D~--~l~~h~~~L~~~ire~~l~~~~~pY-s~I~ 298 (374)
-|++|.+.||..-.. .+..|++.|- ..+++..|.... .+.+.+....+.+ ..+.-++..-+ ..-+
T Consensus 61 GLi~Aieryd~~kg~---kF~tyA~~~I--------~Gei~d~LR~~~~v~vpR~~~~~~~~i-~~~~~~l~~el~r~pt 128 (247)
T COG1191 61 GLIKAIERYDPSKGT---KFSTYAVRRI--------RGEILDYLRKNDSVKVPRSLRELGRRI-EEAIDELEQELGREPT 128 (247)
T ss_pred HHHHHHHHcCcccCc---chHHHHHHHH--------HHHHHHHHHhCCCccCcHHHHHHHHHH-HHHHHHHHHHhCCCCc
Confidence 378889999864333 3445666651 122232444433 3333333332222 22333333333 4667
Q ss_pred HHHHHhHhCCChHHHHHHHHHH
Q psy4083 299 VGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 299 l~~lA~~l~ls~~~vE~~L~~l 320 (374)
...||+.+|++.+++-..+...
T Consensus 129 ~~EIA~~L~i~~ee~~~~~~~~ 150 (247)
T COG1191 129 DEEIAEELGIDKEEYIEALLAI 150 (247)
T ss_pred HHHHHHHhCCCHHHHHHHHHHh
Confidence 8999999999999887777655
No 411
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=22.07 E-value=1.1e+02 Score=20.46 Aligned_cols=24 Identities=21% Similarity=0.267 Sum_probs=16.7
Q ss_pred cceeHHHHHhHhCCChHHHHHHHH
Q psy4083 295 SRVEVGFIAKSIKLDELAVEKKLS 318 (374)
Q Consensus 295 s~I~l~~lA~~l~ls~~~vE~~L~ 318 (374)
.-.++..||+.||.+..-|-++|-
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 668899999999999999888774
No 412
>KOG2316|consensus
Probab=21.99 E-value=63 Score=30.18 Aligned_cols=49 Identities=22% Similarity=0.319 Sum_probs=36.7
Q ss_pred HhhccccceeHHHHHhHhCC-Ch-----HHHHHHHHHHhhcCccceeecCCCCeEE
Q psy4083 289 RIIEPYSRVEVGFIAKSIKL-DE-----LAVEKKLSQMILDKKFHGILDQGEKVLI 338 (374)
Q Consensus 289 ~~~~pYs~I~l~~lA~~l~l-s~-----~~vE~~L~~lI~dgkl~akID~~~giv~ 338 (374)
.|+-.|.|++.+.++++||+ +. .+=+..|.+||.+| ++|+|=.++-+--
T Consensus 115 AIlS~YQr~RVEnVC~RL~L~~Ls~LW~rdQ~~LL~eMi~~g-~~AiiiKVAAigL 169 (277)
T KOG2316|consen 115 AILSDYQRTRVENVCSRLGLVSLSYLWQRDQEELLQEMILSG-LDAIIIKVAAIGL 169 (277)
T ss_pred hhHhHHHHHHHHHHHhhhCceeehHHHhccHHHHHHHHHHcC-CCeEEEEEeeccc
Confidence 35567888888888888886 32 34578999999998 8887776665443
No 413
>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=21.91 E-value=1.8e+02 Score=20.88 Aligned_cols=36 Identities=17% Similarity=0.269 Sum_probs=29.0
Q ss_pred HHHhhccccceeHHHHHhHhCCChHHHHHHHHHHhh
Q psy4083 287 LCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQMIL 322 (374)
Q Consensus 287 l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~lI~ 322 (374)
+..++-..=-|+...+|+.+|++..-+.+.+.++-.
T Consensus 4 Lidll~~~P~Vsa~mva~~L~vT~~~A~~li~eLg~ 39 (54)
T PF11972_consen 4 LIDLLLSRPLVSAPMVAKELGVTPQAAQRLIAELGL 39 (54)
T ss_pred HHHHHHhCccccHHHHHHHhCCCHHHHHHHHHHhhc
Confidence 344555556688999999999999999999888766
No 414
>PRK10548 flagellar biosynthesis protein FliT; Provisional
Probab=21.63 E-value=4.1e+02 Score=22.19 Aligned_cols=35 Identities=20% Similarity=0.054 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHH--HHHHhCCHHHHHHHHHHHHhhh
Q psy4083 34 VKAKEQNILQLGE--KYKQEGKAIELAELIKKTRPFL 68 (374)
Q Consensus 34 ~k~~e~~~~~l~~--~~~~~~~~~~l~~~l~~l~~~~ 68 (374)
|..|++++.-=.+ -.++.|+||++.++=..+....
T Consensus 8 l~~Yq~I~~lS~~ML~aA~~g~Wd~Li~lE~~y~~~V 44 (121)
T PRK10548 8 LSAWQQILTLSQSMLRLATEGQWDELIEQEVAYVQAV 44 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
Confidence 4555554222222 3466799999877655554433
No 415
>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=21.39 E-value=1e+02 Score=23.32 Aligned_cols=26 Identities=19% Similarity=0.313 Sum_probs=21.2
Q ss_pred HHHHHhHhCCChHHHHHHHHHHhhcCccce
Q psy4083 299 VGFIAKSIKLDELAVEKKLSQMILDKKFHG 328 (374)
Q Consensus 299 l~~lA~~l~ls~~~vE~~L~~lI~dgkl~a 328 (374)
+..+|+.+|++..++ -+|+.+|+|.+
T Consensus 47 ~~~lAk~~G~t~~~l----~~~~~~Gkit~ 72 (75)
T TIGR02675 47 LQALAKAMGVTRGEL----RKMLSDGKLTA 72 (75)
T ss_pred HHHHHHHhCCCHHHH----HHHHHCCCCcc
Confidence 568899999997765 58888998875
No 416
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=21.39 E-value=31 Score=36.35 Aligned_cols=95 Identities=16% Similarity=0.104 Sum_probs=0.0
Q ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHHHh-ccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSSSLLKELKKL-DDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~~ll~el~~~-dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
.-++.|.+.|++..| ..++.++... -......+..++..++....++...+...+..... . -.++..+.++
T Consensus 29 ~Aa~a~l~~g~~~~A----~~ll~~l~~~~L~~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~~---~-~l~~~~~~~~ 100 (536)
T PF04348_consen 29 LAARALLQEGDWAQA----QALLNQLDPQQLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDL---W-QLPPEQQARY 100 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHhCCCHHHH----HHHHHhcccccCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCc---c-cCCHHHHHHH
Confidence 446678999999999 5555555532 34567788999999999999999999988865211 1 1345666778
Q ss_pred HHHHHHHhhcccccHHHHHHHHHHh
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~ea 226 (374)
....+.++- ..+++..|+...+..
T Consensus 101 ~~l~A~a~~-~~~~~l~Aa~~~i~l 124 (536)
T PF04348_consen 101 HQLRAQAYE-QQGDPLAAARERIAL 124 (536)
T ss_dssp -------------------------
T ss_pred HHHHHHHHH-hcCCHHHHHHHHHHH
Confidence 888888877 888999988877665
No 417
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481
Probab=21.31 E-value=1.3e+02 Score=23.69 Aligned_cols=38 Identities=16% Similarity=0.121 Sum_probs=31.5
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCC
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGE 334 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~ 334 (374)
..++.+.|+.||+|..-+.+++.++-.+| ..|-.|+.+
T Consensus 25 g~~~a~aA~~~gVS~~Ta~kW~~Ryra~G-~~GL~DRSS 62 (85)
T PF13011_consen 25 GWPVAHAAAEFGVSRRTAYKWLARYRAEG-EAGLQDRSS 62 (85)
T ss_pred CCcHHHHHHHhCCCHHHHHHHHHHHHHcC-cccccccCC
Confidence 45689999999999999999999999987 455666544
No 418
>PRK13184 pknD serine/threonine-protein kinase; Reviewed
Probab=21.27 E-value=1.3e+03 Score=26.46 Aligned_cols=55 Identities=11% Similarity=0.015 Sum_probs=36.0
Q ss_pred CChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCcccc--hhHHHHHHHHHHHHHhc
Q psy4083 193 CPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFSTVDH--NHAMMSLKYMLLSKIML 252 (374)
Q Consensus 193 ~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~~~~--~~~~~~LkY~vL~~iL~ 252 (374)
.++..+..+..+....|+ -.+||++|...+ .+|++... ..-..++-|++.-.+-.
T Consensus 798 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 854 (932)
T PRK13184 798 SEEERHDHLLVYEIQAHL-WNRDLKKAYKLL----NRYPLDLLLDEYSEAFVLYGCYLALTE 854 (932)
T ss_pred CChhhhhhhhHHHHHHHH-HhccHHHHHHHH----HhCChhhhccccchHHHHHHHHHHhcC
Confidence 455666788888899999 999999998776 34554211 22334455766654443
No 419
>TIGR02885 spore_sigF RNA polymerase sigma-F factor. Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore.
Probab=21.25 E-value=6.2e+02 Score=22.89 Aligned_cols=25 Identities=8% Similarity=0.127 Sum_probs=19.9
Q ss_pred ceeHHHHHhHhCCChHHHHHHHHHH
Q psy4083 296 RVEVGFIAKSIKLDELAVEKKLSQM 320 (374)
Q Consensus 296 ~I~l~~lA~~l~ls~~~vE~~L~~l 320 (374)
.-+...+|+.+|++++++...+...
T Consensus 113 ~pt~~ela~~l~~~~~~v~~~~~~~ 137 (231)
T TIGR02885 113 EPTINELAEALGVSPEEIVMALESA 137 (231)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHc
Confidence 3468899999999999998766543
No 420
>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=21.20 E-value=4.4e+02 Score=27.77 Aligned_cols=28 Identities=36% Similarity=0.408 Sum_probs=23.3
Q ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHH
Q psy4083 122 ARLIALYFDTGEYTEALKLSSSLLKELK 149 (374)
Q Consensus 122 ~kLa~~~~~~g~~~~Al~~~~~ll~el~ 149 (374)
++||...-+.|+..+|++.+.+++++..
T Consensus 263 rRLAmCarklGr~~EAIk~~rdLlke~p 290 (539)
T PF04184_consen 263 RRLAMCARKLGRLREAIKMFRDLLKEFP 290 (539)
T ss_pred HHHHHHHHHhCChHHHHHHHHHHHhhCC
Confidence 4688888899999999999888887543
No 421
>PLN03077 Protein ECB2; Provisional
Probab=21.15 E-value=1.1e+03 Score=25.93 Aligned_cols=23 Identities=13% Similarity=0.014 Sum_probs=17.6
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHH
Q psy4083 42 LQLGEKYKQEGKAIELAELIKKT 64 (374)
Q Consensus 42 ~~l~~~~~~~~~~~~l~~~l~~l 64 (374)
-.+.+.|.++|++++..+.+...
T Consensus 528 naLi~~y~k~G~~~~A~~~f~~~ 550 (857)
T PLN03077 528 NALLDLYVRCGRMNYAWNQFNSH 550 (857)
T ss_pred hHHHHHHHHcCCHHHHHHHHHhc
Confidence 36788999999999887665543
No 422
>KOG2034|consensus
Probab=21.01 E-value=1.5e+02 Score=33.13 Aligned_cols=57 Identities=14% Similarity=0.212 Sum_probs=44.5
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 165 SKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 165 i~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
-++|...|.|.+|.++- + ..|+-...+..-.+..++ .+++|..||+.+=++.+.|.+
T Consensus 365 Wk~yLd~g~y~kAL~~a-------r---~~p~~le~Vl~~qAdf~f-~~k~y~~AA~~yA~t~~~FEE 421 (911)
T KOG2034|consen 365 WKTYLDKGEFDKALEIA-------R---TRPDALETVLLKQADFLF-QDKEYLRAAEIYAETLSSFEE 421 (911)
T ss_pred HHHHHhcchHHHHHHhc-------c---CCHHHHHHHHHHHHHHHH-hhhHHHHHHHHHHHhhhhHHH
Confidence 47788888888776332 1 347777788888888899 999999999999888777765
No 423
>KOG1128|consensus
Probab=20.97 E-value=5.1e+02 Score=28.50 Aligned_cols=106 Identities=19% Similarity=0.118 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHh-----ccchhHHH-HHHHHH------HHHHHhCCHHHHHHHH
Q psy4083 114 TFLRQSLEARLIALYFDTGEYTEALKLSSSLLKELKKL-----DDKNLLVE-VLLLES------KTYHALSNLSTSRASL 181 (374)
Q Consensus 114 ~~lr~~l~~kLa~~~~~~g~~~~Al~~~~~ll~el~~~-----dd~~~~le-v~l~ei------~l~~~~~n~~~a~~~~ 181 (374)
+|.-++. +++++...|=...|+.++.++-..-.+. -+...+.| +...++ ++|...||+.+=-.+|
T Consensus 397 ~Wq~q~~---laell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~y 473 (777)
T KOG1128|consen 397 IWQLQRL---LAELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLY 473 (777)
T ss_pred cchHHHH---HHHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHH
Confidence 4555555 8889999998888888777664443332 12233333 333333 4788888888877888
Q ss_pred HHHHhhccccCCChhhhHHHHHHHHHHhhcccccHHHHHHHHHHhccC
Q psy4083 182 TSARTTANSIYCPPKMQAALDLQSGILHAADEQDFKTAFSYFYEAFEG 229 (374)
Q Consensus 182 ~~a~~~~~~~~~~~~~~~~i~~~~G~~~~~~~rdy~~A~~~F~eaf~~ 229 (374)
++|-.+.| .+.++=+.+-|..+. ..+||..|...|=.+++-
T Consensus 474 EkawElsn------~~sarA~r~~~~~~~-~~~~fs~~~~hle~sl~~ 514 (777)
T KOG1128|consen 474 EKAWELSN------YISARAQRSLALLIL-SNKDFSEADKHLERSLEI 514 (777)
T ss_pred HHHHHHhh------hhhHHHHHhhccccc-cchhHHHHHHHHHHHhhc
Confidence 87755432 233333344444455 568888888888777653
No 424
>PRK00215 LexA repressor; Validated
Probab=20.68 E-value=1.5e+02 Score=26.52 Aligned_cols=43 Identities=16% Similarity=0.085 Sum_probs=34.7
Q ss_pred ceeHHHHHhHhCC-ChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 296 RVEVGFIAKSIKL-DELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 296 ~I~l~~lA~~l~l-s~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
..++..||+.+|+ +..-+-+.|..|...|-|...-+. ...+.+
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 3689999999999 999999999999999999655444 334444
No 425
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=20.61 E-value=1.6e+02 Score=23.10 Aligned_cols=27 Identities=26% Similarity=0.377 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHH
Q psy4083 117 RQSLEARLIALYFDTGEYTEALKLSSSLL 145 (374)
Q Consensus 117 r~~l~~kLa~~~~~~g~~~~Al~~~~~ll 145 (374)
..+. .||..+...|++++|++.+-.++
T Consensus 23 ~ar~--~lA~~~~~~g~~e~Al~~Ll~~v 49 (90)
T PF14561_consen 23 DARY--ALADALLAAGDYEEALDQLLELV 49 (90)
T ss_dssp HHHH--HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHH--HHHHHHHHCCCHHHHHHHHHHHH
Confidence 4455 68999999999999987665554
No 426
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=20.56 E-value=7.8e+02 Score=26.21 Aligned_cols=93 Identities=15% Similarity=0.021 Sum_probs=65.0
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHHHHH
Q psy4083 125 IALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAALDLQ 204 (374)
Q Consensus 125 a~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i~~~ 204 (374)
++.+.+.|+.+.| ..++.++.+.-......+.-+++.++....+++..|..++.+...- --++.-+.++...
T Consensus 70 a~al~~e~k~~qA----~~Ll~ql~~~Ltd~Q~~~~~LL~ael~la~~q~~~Al~~L~~~~~~----~ls~~Qq~Ry~q~ 141 (604)
T COG3107 70 ARALVEEGKTAQA----QALLNQLPQELTDAQRAEKSLLAAELALAQKQPAAALQQLAKLLPA----DLSQNQQARYYQA 141 (604)
T ss_pred HHHHHHcCChHHH----HHHHHhccccCCHHHHHHHHHHHHHHHHhccChHHHHHHHhhcchh----hcCHHHHHHHHHH
Confidence 3457788999999 6777777665556789999999999999999999999888764221 1233335666665
Q ss_pred HHHHhhcccccHHHHHHHHHHh
Q psy4083 205 SGILHAADEQDFKTAFSYFYEA 226 (374)
Q Consensus 205 ~G~~~~~~~rdy~~A~~~F~ea 226 (374)
.....- ..++--+|...+...
T Consensus 142 ~a~a~e-a~~~~~~a~rari~~ 162 (604)
T COG3107 142 RADALE-ARGDSIDAARARIAQ 162 (604)
T ss_pred HHHHHh-cccchHHHHHHHHHh
Confidence 555544 444555666666554
No 427
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed
Probab=20.55 E-value=6e+02 Score=23.69 Aligned_cols=86 Identities=9% Similarity=0.130 Sum_probs=43.8
Q ss_pred HHHHHhccCcCcccchhHHHHHHHHHHHHHhcCCchhHHHHHHHHhcChHHHhhHHHHHHHHHHHHHHHhhccc-cceeH
Q psy4083 221 SYFYEAFEGFSTVDHNHAMMSLKYMLLSKIMLNTPEDVNQILSELEDDTIVKAHIGTLYDNMLEQNLCRIIEPY-SRVEV 299 (374)
Q Consensus 221 ~~F~eaf~~f~~~~~~~~~~~LkY~vL~~iL~~~~~~v~~ll~~l~~D~~l~~h~~~L~~~ire~~l~~~~~pY-s~I~l 299 (374)
--++++.+.|+..........+.+.+=..|+. .+..-..+-.|+......+.. +...+.+.+ ..-+.
T Consensus 62 igL~~ai~~fd~~~g~~F~tya~~~Ir~~i~~-----------~lr~~~~~pr~~~~~~~~l~~-~~~~l~~~~gr~pt~ 129 (257)
T PRK05911 62 EGLVRAVERFDPEKSRRFEGYALFLIKAAIID-----------DLRKQDWVPRSVHQKANKLAD-AMDSLRQSLGKEPTD 129 (257)
T ss_pred HHHHHHHHhcCCccCCCHHHHHHHHHHHHHHH-----------HHHhcCCCCHHHHHHHHHHHH-HHHHHHHHHCcCCCH
Confidence 34778888888644333333333333233331 222212233344333333321 222222222 33468
Q ss_pred HHHHhHhCCChHHHHHHHH
Q psy4083 300 GFIAKSIKLDELAVEKKLS 318 (374)
Q Consensus 300 ~~lA~~l~ls~~~vE~~L~ 318 (374)
+.||+.+|+++++++..+.
T Consensus 130 ~eiA~~l~i~~~~v~~~~~ 148 (257)
T PRK05911 130 GELCEYLNISQQELSGWFS 148 (257)
T ss_pred HHHHHHhCcCHHHHHHHHH
Confidence 8999999999999988754
No 428
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.54 E-value=7.9e+02 Score=23.84 Aligned_cols=112 Identities=19% Similarity=0.186 Sum_probs=65.2
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHHHhhHHHHHHHHHHH
Q psy4083 44 LGEKYKQEGKAIELAELIKKTRPFLSQISKAKAAKLVRSLVDFFLDLETRTGMEVALCKECIEWAKEERRTFLRQSLEAR 123 (374)
Q Consensus 44 l~~~~~~~~~~~~l~~~l~~l~~~~~~~~k~~~~k~i~~ild~~~~~~~~~~~~~~l~~e~i~~~~~~~r~~lr~~l~~k 123 (374)
|++.|...|+++.....+..-..+.+.-+ ..--..-.++-+-.. +.-...--+++++.++ -+..-+|... =
T Consensus 162 Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~--~~~~g~aeaL~~~a~-~~~ta~a~~ll~~al~----~D~~~iral~--l 232 (287)
T COG4235 162 LGRAYMALGRASDALLAYRNALRLAGDNP--EILLGLAEALYYQAG-QQMTAKARALLRQALA----LDPANIRALS--L 232 (287)
T ss_pred HHHHHHHhcchhHHHHHHHHHHHhCCCCH--HHHHHHHHHHHHhcC-CcccHHHHHHHHHHHh----cCCccHHHHH--H
Confidence 59999999999998777765554443321 111112222222210 0001112334444443 2345566665 5
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhccchhHHHHHHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDDKNLLVEVLLLE 164 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd~~~~lev~l~e 164 (374)
||--+++.|+|.+|...++.++..+...+....+|+-...+
T Consensus 233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie~~ia~ 273 (287)
T COG4235 233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIERSIAR 273 (287)
T ss_pred HHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHHHHHHH
Confidence 88889999999999999998886555555566666655433
No 429
>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones [].; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.
Probab=20.26 E-value=1.9e+02 Score=18.58 Aligned_cols=20 Identities=25% Similarity=0.544 Sum_probs=15.3
Q ss_pred HHHHHHHhccCHHHHHHHHH
Q psy4083 123 RLIALYFDTGEYTEALKLSS 142 (374)
Q Consensus 123 kLa~~~~~~g~~~~Al~~~~ 142 (374)
.+|-.+...|+|++|.+.++
T Consensus 6 ~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 6 GLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHhhHHHHHHHHH
Confidence 46778889999999987744
No 430
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=20.20 E-value=2.5e+02 Score=20.16 Aligned_cols=35 Identities=14% Similarity=0.063 Sum_probs=26.1
Q ss_pred HHHHHHHHhhccccceeHHHHHhHhCCChHHHHHHHHH
Q psy4083 282 MLEQNLCRIIEPYSRVEVGFIAKSIKLDELAVEKKLSQ 319 (374)
Q Consensus 282 ire~~l~~~~~pYs~I~l~~lA~~l~ls~~~vE~~L~~ 319 (374)
+++++..-|++ -.++..||+.||++..-|-.+..+
T Consensus 2 ~k~~A~~LY~~---G~~~~eIA~~Lg~~~~TV~~W~~r 36 (58)
T PF06056_consen 2 VKEQARSLYLQ---GWSIKEIAEELGVPRSTVYSWKDR 36 (58)
T ss_pred HHHHHHHHHHc---CCCHHHHHHHHCCChHHHHHHHHh
Confidence 45555555654 556899999999999888877654
No 431
>KOG0550|consensus
Probab=20.17 E-value=9.7e+02 Score=24.75 Aligned_cols=97 Identities=15% Similarity=0.127 Sum_probs=70.6
Q ss_pred HHHHHHhccCHHHHHHHHHHHHHHHHHhcc--chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhccccCCChhhhHHH
Q psy4083 124 LIALYFDTGEYTEALKLSSSLLKELKKLDD--KNLLVEVLLLESKTYHALSNLSTSRASLTSARTTANSIYCPPKMQAAL 201 (374)
Q Consensus 124 La~~~~~~g~~~~Al~~~~~ll~el~~~dd--~~~~lev~l~ei~l~~~~~n~~~a~~~~~~a~~~~~~~~~~~~~~~~i 201 (374)
-++-.+..|.|.+|-++|++.|. .|. +.-..-+|.....+.+.+|+...+-.-.+.|.++. +..+.+-+
T Consensus 255 ~gN~~fk~G~y~~A~E~Yteal~----idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-----~syikall 325 (486)
T KOG0550|consen 255 RGNDAFKNGNYRKAYECYTEALN----IDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-----SSYIKALL 325 (486)
T ss_pred hhhhHhhccchhHHHHHHHHhhc----CCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-----HHHHHHHH
Confidence 46677888999999888887763 232 44556788899999999998888877777765552 33444433
Q ss_pred HHHHHHHhhcccccHHHHHHHHHHhccCcCc
Q psy4083 202 DLQSGILHAADEQDFKTAFSYFYEAFEGFST 232 (374)
Q Consensus 202 ~~~~G~~~~~~~rdy~~A~~~F~eaf~~f~~ 232 (374)
..|.-|+ .-++|..|..+|-.+.++=..
T Consensus 326 --~ra~c~l-~le~~e~AV~d~~~a~q~~~s 353 (486)
T KOG0550|consen 326 --RRANCHL-ALEKWEEAVEDYEKAMQLEKD 353 (486)
T ss_pred --HHHHHHH-HHHHHHHHHHHHHHHHhhccc
Confidence 3466677 789999999999888765443
No 432
>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=20.16 E-value=1.2e+02 Score=19.83 Aligned_cols=20 Identities=15% Similarity=0.159 Sum_probs=15.4
Q ss_pred eHHHHHhHhCCChHHHHHHH
Q psy4083 298 EVGFIAKSIKLDELAVEKKL 317 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~L 317 (374)
++..+|+.+|+++..+..+=
T Consensus 1 ti~e~A~~~gvs~~tlR~ye 20 (38)
T PF00376_consen 1 TIGEVAKLLGVSPRTLRYYE 20 (38)
T ss_dssp EHHHHHHHHTS-HHHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHHH
Confidence 57899999999998876543
No 433
>PF12964 DUF3853: Protein of unknown function (DUF3853); InterPro: IPR024363 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=20.11 E-value=96 Score=24.96 Aligned_cols=38 Identities=16% Similarity=0.091 Sum_probs=30.9
Q ss_pred eHHHHHhHhCCChHHHHHHHHHHhhcCccceeecCCCCeEEE
Q psy4083 298 EVGFIAKSIKLDELAVEKKLSQMILDKKFHGILDQGEKVLIV 339 (374)
Q Consensus 298 ~l~~lA~~l~ls~~~vE~~L~~lI~dgkl~akID~~~giv~~ 339 (374)
-+.-||+.||.|++-+- ++-.+|+|+.-|=|+.+.+++
T Consensus 47 G~~GlAklfgcSv~Ta~----RiK~sG~id~AI~Q~Gr~Iiv 84 (96)
T PF12964_consen 47 GLKGLAKLFGCSVPTAN----RIKKSGKIDPAITQIGRKIIV 84 (96)
T ss_pred hHHHHHHHhCCCchhHH----HHHhcCCccHHHHHcCCEEEE
Confidence 47889999999999876 455668888877788777777
No 434
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=20.07 E-value=1.3e+02 Score=21.76 Aligned_cols=25 Identities=4% Similarity=0.166 Sum_probs=21.6
Q ss_pred eeHHHHHhHhCCChHHHHHHHHHHh
Q psy4083 297 VEVGFIAKSIKLDELAVEKKLSQMI 321 (374)
Q Consensus 297 I~l~~lA~~l~ls~~~vE~~L~~lI 321 (374)
++++.||+.+|++...+.+.+.+..
T Consensus 2 ~~~~~la~~~~~s~~~l~~~f~~~~ 26 (84)
T smart00342 2 LTLEDLAEALGMSPRHLQRLFKKET 26 (84)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHh
Confidence 6789999999999999988887654
Done!