Query 016653
Match_columns 385
No_of_seqs 185 out of 779
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 08:47:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016653hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0687 26S proteasome regulat 100.0 1.9E-92 4.1E-97 649.8 38.3 384 1-385 9-393 (393)
2 COG5187 RPN7 26S proteasome re 100.0 3E-72 6.4E-77 509.3 34.0 382 1-383 13-405 (412)
3 KOG0686 COP9 signalosome, subu 100.0 3.9E-70 8.4E-75 515.4 32.9 364 11-377 47-433 (466)
4 KOG2758 Translation initiation 100.0 2.1E-45 4.5E-50 337.8 27.7 355 8-383 15-421 (432)
5 PF10602 RPN7: 26S proteasome 100.0 1.9E-43 4.2E-48 312.9 20.2 174 62-235 1-177 (177)
6 KOG1463 26S proteasome regulat 100.0 4.4E-36 9.5E-41 278.5 20.3 270 101-382 132-411 (411)
7 KOG1464 COP9 signalosome, subu 100.0 8.4E-32 1.8E-36 244.2 20.7 274 100-382 148-434 (440)
8 COG5159 RPN6 26S proteasome re 100.0 1E-30 2.3E-35 238.2 25.7 264 101-369 129-403 (421)
9 KOG1498 26S proteasome regulat 99.9 4.2E-20 9.1E-25 175.3 23.1 277 75-361 107-405 (439)
10 COG5071 RPN5 26S proteasome re 99.8 2.9E-17 6.4E-22 151.2 21.4 296 76-381 108-425 (439)
11 PF01399 PCI: PCI domain; Int 99.8 4.3E-18 9.3E-23 137.5 12.3 104 250-353 1-104 (105)
12 KOG1497 COP9 signalosome, subu 99.7 3.9E-15 8.5E-20 138.2 20.6 275 93-381 99-385 (399)
13 smart00088 PINT motif in prote 99.5 4E-14 8.6E-19 111.0 9.4 74 286-359 1-74 (88)
14 smart00753 PAM PCI/PINT associ 99.5 4E-14 8.6E-19 111.0 9.4 74 286-359 1-74 (88)
15 KOG2908 26S proteasome regulat 99.4 1.2E-09 2.6E-14 102.9 32.0 258 107-375 85-360 (380)
16 KOG2581 26S proteasome regulat 99.2 3.1E-08 6.6E-13 95.5 28.3 232 138-377 213-452 (493)
17 KOG2582 COP9 signalosome, subu 98.8 8.5E-07 1.8E-11 84.6 21.7 278 100-383 105-392 (422)
18 PF09440 eIF3_N: eIF3 subunit 98.6 6E-07 1.3E-11 75.4 10.6 79 8-89 11-90 (133)
19 KOG2753 Uncharacterized conser 98.5 2.7E-05 5.8E-10 73.6 19.2 217 132-358 122-343 (378)
20 KOG1076 Translation initiation 98.4 0.0014 3.1E-08 67.6 30.3 194 173-369 529-777 (843)
21 PF14938 SNAP: Soluble NSF att 98.1 0.00044 9.6E-09 65.9 18.9 194 94-294 72-280 (282)
22 KOG2688 Transcription-associat 97.5 0.0044 9.5E-08 61.0 16.1 232 113-357 132-387 (394)
23 PF09976 TPR_21: Tetratricopep 97.5 0.0042 9E-08 52.9 14.3 104 90-200 41-144 (145)
24 PF10075 PCI_Csn8: COP9 signal 97.2 0.0019 4E-08 55.2 8.9 78 252-333 44-121 (143)
25 PF10255 Paf67: RNA polymerase 97.1 0.0093 2E-07 59.3 12.9 185 136-331 124-343 (404)
26 COG5600 Transcription-associat 97.1 0.32 6.9E-06 47.5 22.6 235 111-357 144-406 (413)
27 PF13424 TPR_12: Tetratricopep 96.8 0.015 3.3E-07 43.6 9.3 71 95-165 3-77 (78)
28 PF09756 DDRGK: DDRGK domain; 96.6 0.0039 8.5E-08 55.4 5.3 73 298-371 102-174 (188)
29 TIGR02795 tol_pal_ybgF tol-pal 96.5 0.037 8E-07 44.3 10.3 104 98-204 3-106 (119)
30 KOG2072 Translation initiation 96.4 0.073 1.6E-06 56.3 14.2 82 272-353 410-492 (988)
31 PF03399 SAC3_GANP: SAC3/GANP/ 96.4 0.082 1.8E-06 47.5 12.8 64 253-321 139-204 (204)
32 PF14938 SNAP: Soluble NSF att 96.2 0.45 9.7E-06 45.3 17.6 151 75-230 92-251 (282)
33 cd00189 TPR Tetratricopeptide 96.1 0.054 1.2E-06 39.9 8.9 94 99-201 2-95 (100)
34 KOG1840 Kinesin light chain [C 96.0 0.83 1.8E-05 47.1 19.3 130 73-202 257-395 (508)
35 PF12688 TPR_5: Tetratrico pep 95.8 0.16 3.5E-06 41.9 11.0 101 98-201 2-102 (120)
36 PF09012 FeoC: FeoC like trans 95.8 0.018 3.9E-07 42.7 4.6 49 299-347 4-52 (69)
37 PF13414 TPR_11: TPR repeat; P 95.7 0.065 1.4E-06 38.9 7.5 63 98-163 4-67 (69)
38 PF13176 TPR_7: Tetratricopept 95.6 0.023 5E-07 36.2 4.2 33 99-131 1-33 (36)
39 PRK02603 photosystem I assembl 95.4 0.18 3.8E-06 44.1 10.5 68 96-163 34-101 (172)
40 COG3063 PilF Tfp pilus assembl 95.4 1.2 2.7E-05 40.9 15.7 165 94-277 32-202 (250)
41 PRK15331 chaperone protein Sic 95.2 0.3 6.5E-06 42.5 10.9 103 91-202 31-133 (165)
42 PF13432 TPR_16: Tetratricopep 95.1 0.15 3.3E-06 36.5 7.6 59 101-162 1-59 (65)
43 TIGR02521 type_IV_pilW type IV 94.9 0.47 1E-05 41.8 12.1 99 97-202 65-163 (234)
44 PF13525 YfiO: Outer membrane 94.9 1.2 2.6E-05 40.1 14.6 124 95-220 40-185 (203)
45 CHL00033 ycf3 photosystem I as 94.9 0.28 6.1E-06 42.5 10.2 108 96-203 34-142 (168)
46 PRK10866 outer membrane biogen 94.9 1.7 3.6E-05 40.5 15.9 129 94-224 66-223 (243)
47 PF12895 Apc3: Anaphase-promot 94.5 0.28 6.1E-06 37.2 8.2 81 110-198 2-82 (84)
48 PF08220 HTH_DeoR: DeoR-like h 94.4 0.12 2.6E-06 36.7 5.4 53 296-352 1-53 (57)
49 KOG0548 Molecular co-chaperone 94.4 4.2 9.1E-05 41.6 17.9 145 100-259 361-508 (539)
50 PF12895 Apc3: Anaphase-promot 94.4 0.17 3.7E-06 38.5 6.6 59 98-160 26-84 (84)
51 KOG1586 Protein required for f 94.3 4.3 9.4E-05 37.5 19.0 192 97-295 54-280 (288)
52 TIGR02552 LcrH_SycD type III s 94.2 0.49 1.1E-05 39.0 9.8 96 98-202 18-113 (135)
53 TIGR00990 3a0801s09 mitochondr 94.1 7.6 0.00016 41.1 20.7 61 98-161 366-426 (615)
54 KOG2796 Uncharacterized conser 94.1 4.9 0.00011 37.8 16.4 156 43-205 116-283 (366)
55 PRK10803 tol-pal system protei 94.1 0.36 7.8E-06 45.6 9.4 87 74-163 160-246 (263)
56 KOG1840 Kinesin light chain [C 94.0 8.6 0.00019 39.8 20.2 240 92-335 194-458 (508)
57 PRK15363 pathogenicity island 93.9 0.69 1.5E-05 40.0 10.1 102 92-202 29-131 (157)
58 TIGR03302 OM_YfiO outer membra 93.9 0.77 1.7E-05 41.9 11.3 111 95-205 68-197 (235)
59 TIGR02917 PEP_TPR_lipo putativ 93.8 5.9 0.00013 42.7 19.6 103 98-203 602-732 (899)
60 KOG3054 Uncharacterized conser 93.7 0.17 3.7E-06 46.2 6.1 55 300-354 205-259 (299)
61 PF13174 TPR_6: Tetratricopept 93.6 0.13 2.8E-06 31.3 3.8 31 98-128 1-31 (33)
62 KOG1174 Anaphase-promoting com 93.4 1.4 3.1E-05 43.8 12.3 196 97-303 232-494 (564)
63 PF07719 TPR_2: Tetratricopept 93.4 0.19 4.2E-06 30.8 4.4 30 98-127 2-31 (34)
64 TIGR02795 tol_pal_ybgF tol-pal 93.2 0.53 1.2E-05 37.4 8.0 67 97-163 39-105 (119)
65 KOG2003 TPR repeat-containing 93.2 7.3 0.00016 39.3 16.9 130 81-220 507-637 (840)
66 KOG1125 TPR repeat-containing 93.2 0.9 2E-05 46.7 11.0 131 98-239 431-567 (579)
67 PRK10370 formate-dependent nit 93.1 1.5 3.3E-05 39.4 11.4 113 75-202 57-172 (198)
68 KOG1861 Leucine permease trans 93.0 6.1 0.00013 39.9 16.1 139 135-325 349-494 (540)
69 PF13525 YfiO: Outer membrane 92.6 1.7 3.6E-05 39.2 11.0 67 97-163 5-71 (203)
70 PF13181 TPR_8: Tetratricopept 92.6 0.32 7E-06 29.9 4.5 30 98-127 2-31 (34)
71 PRK11788 tetratricopeptide rep 92.5 1.3 2.8E-05 43.5 11.2 96 98-201 181-276 (389)
72 KOG3677 RNA polymerase I-assoc 92.5 1.1 2.5E-05 44.3 10.2 235 135-381 236-514 (525)
73 PF00515 TPR_1: Tetratricopept 92.2 0.35 7.6E-06 29.8 4.4 30 98-127 2-31 (34)
74 PRK15431 ferrous iron transpor 92.1 0.24 5.2E-06 37.4 4.0 51 300-350 7-57 (78)
75 smart00345 HTH_GNTR helix_turn 92.0 0.44 9.4E-06 33.3 5.3 49 292-340 2-51 (60)
76 COG4105 ComL DNA uptake lipopr 92.0 4.5 9.8E-05 37.7 13.1 126 74-206 54-199 (254)
77 TIGR02917 PEP_TPR_lipo putativ 91.9 21 0.00045 38.4 24.1 100 93-201 121-220 (899)
78 PRK15359 type III secretion sy 91.5 1.7 3.8E-05 36.8 9.4 93 100-201 27-119 (144)
79 PLN03088 SGT1, suppressor of 91.3 1.7 3.6E-05 42.9 10.3 94 100-202 5-98 (356)
80 TIGR02521 type_IV_pilW type IV 91.2 9.5 0.00021 33.3 20.2 98 96-202 30-127 (234)
81 TIGR03302 OM_YfiO outer membra 91.1 2.1 4.5E-05 38.9 10.2 105 97-204 33-145 (235)
82 COG1849 Uncharacterized protei 91.0 3 6.6E-05 32.3 9.0 56 68-123 5-67 (90)
83 PF09976 TPR_21: Tetratricopep 91.0 7.9 0.00017 32.5 12.9 96 101-199 15-110 (145)
84 PF08279 HTH_11: HTH domain; 90.7 0.73 1.6E-05 32.0 5.2 48 297-347 2-50 (55)
85 cd00189 TPR Tetratricopeptide 90.7 1.9 4.2E-05 31.1 8.0 61 98-161 35-95 (100)
86 PF13428 TPR_14: Tetratricopep 90.7 0.57 1.2E-05 31.0 4.4 32 98-129 2-33 (44)
87 COG4235 Cytochrome c biogenesi 90.5 2.6 5.6E-05 40.1 10.1 115 73-201 138-257 (287)
88 PF13429 TPR_15: Tetratricopep 90.5 2 4.4E-05 40.4 9.7 119 75-202 124-242 (280)
89 PF13374 TPR_10: Tetratricopep 90.4 0.66 1.4E-05 29.6 4.5 31 97-127 2-32 (42)
90 TIGR00990 3a0801s09 mitochondr 90.1 28 0.00061 36.8 22.9 100 94-202 328-427 (615)
91 KOG3081 Vesicle coat complex C 89.9 18 0.00039 34.2 15.8 137 72-229 87-257 (299)
92 PF14559 TPR_19: Tetratricopep 89.7 0.68 1.5E-05 33.2 4.5 52 108-162 2-53 (68)
93 PRK11189 lipoprotein NlpI; Pro 89.4 5.2 0.00011 38.2 11.7 94 98-200 65-158 (296)
94 KOG0547 Translocase of outer m 89.4 1.4 3E-05 44.6 7.7 62 99-163 117-178 (606)
95 smart00420 HTH_DEOR helix_turn 88.9 0.93 2E-05 30.6 4.5 41 301-341 6-46 (53)
96 KOG1585 Protein required for f 88.9 20 0.00044 33.5 16.1 195 75-272 49-251 (308)
97 cd05804 StaR_like StaR_like; a 88.7 3.5 7.6E-05 39.9 10.1 100 97-201 114-213 (355)
98 PF13512 TPR_18: Tetratricopep 88.5 6 0.00013 33.7 9.9 58 100-157 13-70 (142)
99 KOG2376 Signal recognition par 88.1 37 0.0008 35.5 19.6 125 74-200 89-250 (652)
100 PRK11447 cellulose synthase su 87.9 38 0.00082 38.9 19.1 100 97-202 303-413 (1157)
101 PF13371 TPR_9: Tetratricopept 87.9 2.1 4.5E-05 31.1 6.2 58 103-163 1-58 (73)
102 PF00392 GntR: Bacterial regul 87.9 2.2 4.8E-05 30.7 6.1 52 289-340 3-55 (64)
103 PF13429 TPR_15: Tetratricopep 87.9 6.5 0.00014 36.9 11.1 181 98-295 79-261 (280)
104 COG4700 Uncharacterized protei 87.7 18 0.00038 32.5 12.6 133 84-227 76-208 (251)
105 PF09743 DUF2042: Uncharacteri 87.5 4.1 8.9E-05 38.6 9.3 144 182-353 18-172 (272)
106 PF08784 RPA_C: Replication pr 87.4 0.61 1.3E-05 37.1 3.2 39 307-345 63-101 (102)
107 PRK10803 tol-pal system protei 86.7 8.9 0.00019 36.2 11.1 105 98-205 143-248 (263)
108 PF09295 ChAPs: ChAPs (Chs5p-A 86.7 19 0.00041 36.1 13.9 118 31-158 169-292 (395)
109 PF14559 TPR_19: Tetratricopep 86.1 4.2 9.1E-05 28.9 6.9 33 97-129 25-57 (68)
110 PF12862 Apc5: Anaphase-promot 86.1 3.8 8.3E-05 32.0 7.0 63 107-169 8-76 (94)
111 PF12569 NARP1: NMDA receptor- 85.7 48 0.001 34.5 20.9 130 93-231 190-320 (517)
112 PF04733 Coatomer_E: Coatomer 85.4 2.5 5.4E-05 40.5 6.8 55 100-162 105-159 (290)
113 KOG4414 COP9 signalosome, subu 85.0 4 8.8E-05 34.6 6.9 77 252-332 79-155 (197)
114 PRK12370 invasion protein regu 84.8 54 0.0012 34.3 20.0 96 97-201 338-433 (553)
115 CHL00033 ycf3 photosystem I as 84.8 9.9 0.00021 32.7 9.8 70 97-166 72-145 (168)
116 KOG0624 dsRNA-activated protei 84.5 43 0.00094 32.9 17.4 204 76-322 18-221 (504)
117 COG2976 Uncharacterized protei 84.5 28 0.0006 31.4 12.3 108 89-203 81-188 (207)
118 PF13412 HTH_24: Winged helix- 84.4 2.8 6E-05 28.2 4.9 40 300-339 8-47 (48)
119 PF14853 Fis1_TPR_C: Fis1 C-te 84.3 3.6 7.7E-05 28.8 5.4 37 97-133 1-37 (53)
120 PF13424 TPR_12: Tetratricopep 84.1 5.9 0.00013 29.1 7.1 68 134-201 5-73 (78)
121 PLN03098 LPA1 LOW PSII ACCUMUL 84.0 5.4 0.00012 40.3 8.6 20 320-339 389-408 (453)
122 PRK14574 hmsH outer membrane p 83.9 71 0.0015 35.3 17.8 94 99-201 36-129 (822)
123 PF03704 BTAD: Bacterial trans 83.8 13 0.00028 31.0 9.9 72 96-170 61-134 (146)
124 KOG0548 Molecular co-chaperone 83.7 15 0.00032 37.8 11.4 155 102-277 7-161 (539)
125 TIGR03504 FimV_Cterm FimV C-te 83.5 1.5 3.3E-05 29.4 3.1 26 100-125 2-27 (44)
126 PRK10049 pgaA outer membrane p 83.4 9 0.00019 41.8 10.9 98 97-203 359-456 (765)
127 KOG1155 Anaphase-promoting com 83.3 23 0.00051 36.0 12.5 102 59-162 428-535 (559)
128 PRK11189 lipoprotein NlpI; Pro 83.0 12 0.00026 35.7 10.5 30 98-127 133-162 (296)
129 PRK15359 type III secretion sy 82.7 8.1 0.00018 32.6 8.2 64 97-163 58-121 (144)
130 PRK10434 srlR DNA-bindng trans 82.7 1.9 4.2E-05 40.4 4.7 45 295-339 5-49 (256)
131 PRK12370 invasion protein regu 82.3 21 0.00044 37.4 12.6 98 97-202 372-469 (553)
132 PF08631 SPO22: Meiosis protei 82.2 38 0.00082 32.0 13.4 105 93-202 31-149 (278)
133 PRK04424 fatty acid biosynthes 82.1 1.7 3.6E-05 38.8 3.8 44 296-339 8-51 (185)
134 PRK10049 pgaA outer membrane p 82.1 83 0.0018 34.4 18.5 170 101-282 276-461 (765)
135 KOG3060 Uncharacterized conser 82.1 31 0.00066 32.5 11.9 43 81-125 140-182 (289)
136 PF10668 Phage_terminase: Phag 82.0 2.3 5E-05 30.5 3.7 37 296-332 9-45 (60)
137 COG1729 Uncharacterized protei 81.9 5.4 0.00012 37.5 7.2 102 100-205 144-246 (262)
138 KOG0553 TPR repeat-containing 81.7 15 0.00032 35.2 10.0 86 60-166 112-198 (304)
139 PRK10411 DNA-binding transcrip 81.6 2.4 5.1E-05 39.4 4.8 46 295-340 4-49 (240)
140 PRK11014 transcriptional repre 81.6 4.3 9.3E-05 34.3 6.0 62 294-355 10-71 (141)
141 PRK04841 transcriptional regul 81.4 39 0.00084 37.3 15.1 106 94-200 528-638 (903)
142 KOG2002 TPR-containing nuclear 81.1 68 0.0015 35.5 15.8 100 97-203 270-371 (1018)
143 smart00550 Zalpha Z-DNA-bindin 80.9 3.6 7.9E-05 30.2 4.7 42 300-341 11-54 (68)
144 PF10345 Cohesin_load: Cohesin 80.8 57 0.0012 34.6 15.5 102 98-200 101-205 (608)
145 PRK10866 outer membrane biogen 80.8 22 0.00048 33.0 11.0 60 100-159 178-237 (243)
146 smart00028 TPR Tetratricopepti 80.7 3.4 7.4E-05 23.3 3.8 28 98-125 2-29 (34)
147 PF13432 TPR_16: Tetratricopep 80.4 3.9 8.6E-05 28.9 4.7 32 96-127 30-61 (65)
148 KOG0551 Hsp90 co-chaperone CNS 80.4 10 0.00022 36.9 8.5 72 92-163 76-148 (390)
149 cd07377 WHTH_GntR Winged helix 80.3 6.4 0.00014 27.7 5.8 51 290-340 5-56 (66)
150 COG1349 GlpR Transcriptional r 80.2 2.5 5.5E-05 39.6 4.5 46 295-340 5-50 (253)
151 PF07721 TPR_4: Tetratricopept 80.1 2.9 6.4E-05 24.2 3.2 24 98-121 2-25 (26)
152 TIGR02552 LcrH_SycD type III s 79.9 11 0.00023 30.8 7.8 64 97-163 51-114 (135)
153 PF01022 HTH_5: Bacterial regu 79.9 5.6 0.00012 26.7 5.0 43 295-339 3-45 (47)
154 PF02064 MAS20: MAS20 protein 79.4 3.8 8.1E-05 33.9 4.7 78 61-138 23-104 (121)
155 cd05804 StaR_like StaR_like; a 79.2 8.5 0.00018 37.1 8.1 65 97-161 148-213 (355)
156 PF11817 Foie-gras_1: Foie gra 79.0 38 0.00082 31.4 12.0 82 74-155 155-239 (247)
157 KOG2002 TPR-containing nuclear 78.9 52 0.0011 36.4 14.0 137 14-157 218-365 (1018)
158 KOG1155 Anaphase-promoting com 78.8 25 0.00053 35.8 10.9 99 97-199 432-532 (559)
159 PF01047 MarR: MarR family; I 78.8 5.6 0.00012 27.8 5.0 48 301-348 9-56 (59)
160 KOG0495 HAT repeat protein [RN 78.8 40 0.00087 35.9 12.7 166 31-202 618-845 (913)
161 PRK11447 cellulose synthase su 78.6 20 0.00044 41.1 11.9 96 98-202 604-699 (1157)
162 PF13431 TPR_17: Tetratricopep 78.5 1.9 4.1E-05 26.9 2.1 21 97-117 13-33 (34)
163 PF04703 FaeA: FaeA-like prote 78.4 3.7 8E-05 29.7 3.9 40 301-340 6-46 (62)
164 PRK10906 DNA-binding transcrip 78.3 3.4 7.3E-05 38.7 4.7 45 295-339 5-49 (252)
165 PRK13509 transcriptional repre 78.1 3.6 7.9E-05 38.4 4.9 45 296-340 6-50 (251)
166 PRK09802 DNA-binding transcrip 77.9 3.5 7.5E-05 39.0 4.7 47 294-340 16-62 (269)
167 KOG4555 TPR repeat-containing 77.7 32 0.00069 29.1 9.6 95 100-200 46-141 (175)
168 PF02082 Rrf2: Transcriptional 77.5 14 0.00029 28.1 7.1 47 309-356 25-71 (83)
169 KOG1586 Protein required for f 77.5 62 0.0013 30.2 13.7 126 75-206 91-230 (288)
170 PRK10681 DNA-binding transcrip 77.4 3.1 6.7E-05 38.9 4.2 41 294-334 6-46 (252)
171 PF13518 HTH_28: Helix-turn-he 77.2 6.9 0.00015 26.4 4.9 45 296-344 2-46 (52)
172 KOG0543 FKBP-type peptidyl-pro 76.6 12 0.00025 37.3 7.9 96 101-202 212-319 (397)
173 PF01984 dsDNA_bind: Double-st 76.4 0.99 2.1E-05 36.5 0.5 52 293-344 31-82 (107)
174 KOG1127 TPR repeat-containing 76.2 1.4E+02 0.003 33.5 19.2 100 92-201 487-589 (1238)
175 PRK15174 Vi polysaccharide exp 76.1 25 0.00054 37.7 11.1 94 99-201 286-379 (656)
176 PRK14574 hmsH outer membrane p 75.9 1.3E+02 0.0029 33.2 17.0 94 98-203 103-198 (822)
177 KOG2003 TPR repeat-containing 75.7 12 0.00025 37.9 7.7 109 98-220 593-701 (840)
178 PLN03088 SGT1, suppressor of 75.6 14 0.0003 36.4 8.5 63 98-163 37-99 (356)
179 KOG1156 N-terminal acetyltrans 75.5 28 0.00062 36.7 10.6 123 94-227 368-493 (700)
180 KOG4340 Uncharacterized conser 75.1 45 0.00097 32.2 11.0 120 7-129 290-446 (459)
181 TIGR02844 spore_III_D sporulat 75.1 4.4 9.5E-05 30.9 3.7 34 296-330 7-40 (80)
182 KOG4234 TPR repeat-containing 74.8 24 0.00051 32.1 8.7 63 100-162 98-162 (271)
183 KOG3252 Uncharacterized conser 74.6 29 0.00063 30.8 9.0 87 252-352 101-188 (217)
184 PRK04841 transcriptional regul 74.3 57 0.0012 36.0 13.7 105 98-202 492-601 (903)
185 TIGR02787 codY_Gpos GTP-sensin 74.0 16 0.00035 33.9 7.6 60 283-342 152-231 (251)
186 TIGR03826 YvyF flagellar opero 73.9 3.9 8.3E-05 34.6 3.4 42 300-345 35-78 (137)
187 PRK10747 putative protoheme IX 73.9 99 0.0021 30.8 16.8 58 103-163 159-216 (398)
188 PF13371 TPR_9: Tetratricopept 73.7 5.8 0.00013 28.6 4.1 34 97-130 29-62 (73)
189 PLN03218 maturation of RBCL 1; 73.6 1.7E+02 0.0037 33.4 25.8 171 100-288 617-795 (1060)
190 PRK02603 photosystem I assembl 73.4 29 0.00064 29.9 9.2 55 97-154 72-126 (172)
191 KOG3431 Apoptosis-related prot 73.4 3.1 6.7E-05 34.0 2.5 53 292-344 38-90 (129)
192 cd00090 HTH_ARSR Arsenical Res 73.2 23 0.0005 25.1 7.3 44 310-353 21-64 (78)
193 KOG1126 DNA-binding cell divis 72.5 79 0.0017 33.5 13.0 178 98-298 422-607 (638)
194 KOG1173 Anaphase-promoting com 72.4 20 0.00044 37.2 8.6 96 97-202 312-408 (611)
195 PF09295 ChAPs: ChAPs (Chs5p-A 72.3 31 0.00068 34.5 10.0 95 99-204 202-297 (395)
196 PRK11788 tetratricopeptide rep 72.2 99 0.0021 30.0 27.3 101 97-202 107-208 (389)
197 KOG2076 RNA polymerase III tra 72.2 72 0.0016 35.0 13.0 72 89-162 406-477 (895)
198 PRK15179 Vi polysaccharide bio 71.5 40 0.00087 36.4 11.3 48 75-128 70-117 (694)
199 TIGR00540 hemY_coli hemY prote 71.5 1.1E+02 0.0025 30.4 16.7 97 97-199 263-360 (409)
200 KOG2076 RNA polymerase III tra 71.5 17 0.00038 39.5 8.3 89 98-190 450-542 (895)
201 PRK15174 Vi polysaccharide exp 71.4 29 0.00062 37.2 10.2 96 97-201 246-345 (656)
202 smart00419 HTH_CRP helix_turn_ 71.3 7.5 0.00016 25.6 3.8 32 309-340 8-39 (48)
203 PF12802 MarR_2: MarR family; 71.2 12 0.00025 26.3 5.1 39 309-347 21-59 (62)
204 KOG2114 Vacuolar assembly/sort 71.1 50 0.0011 36.0 11.4 59 92-150 363-433 (933)
205 PF10300 DUF3808: Protein of u 71.0 87 0.0019 32.1 13.2 97 100-201 270-374 (468)
206 smart00344 HTH_ASNC helix_turn 70.7 8.6 0.00019 30.5 4.7 46 300-345 8-56 (108)
207 KOG1129 TPR repeat-containing 70.4 40 0.00087 32.9 9.6 87 110-202 337-423 (478)
208 PF08281 Sigma70_r4_2: Sigma-7 70.2 11 0.00023 25.9 4.5 46 286-334 6-51 (54)
209 PRK09782 bacteriophage N4 rece 70.2 2E+02 0.0043 32.7 20.3 95 97-204 44-138 (987)
210 PRK04239 hypothetical protein; 69.9 4.1 8.9E-05 33.0 2.6 53 292-344 35-87 (110)
211 PF09986 DUF2225: Uncharacteri 69.0 21 0.00045 32.6 7.4 64 64-127 125-195 (214)
212 PRK10857 DNA-binding transcrip 68.9 12 0.00026 32.6 5.6 58 296-353 12-69 (164)
213 PLN03081 pentatricopeptide (PP 68.4 89 0.0019 33.6 13.3 25 100-124 262-286 (697)
214 KOG2235 Uncharacterized conser 68.0 31 0.00066 36.2 8.8 62 285-353 114-175 (776)
215 TIGR00985 3a0801s04tom mitocho 67.5 78 0.0017 27.1 10.0 41 100-140 93-134 (148)
216 KOG1126 DNA-binding cell divis 67.5 18 0.00039 38.1 7.2 113 98-226 490-602 (638)
217 KOG1173 Anaphase-promoting com 67.4 79 0.0017 33.0 11.6 101 59-163 410-518 (611)
218 smart00418 HTH_ARSR helix_turn 66.7 19 0.00042 24.7 5.5 44 307-350 8-51 (66)
219 TIGR03338 phnR_burk phosphonat 66.6 57 0.0012 29.1 9.8 64 288-353 13-76 (212)
220 PRK11534 DNA-binding transcrip 66.1 18 0.00038 32.9 6.4 64 287-352 8-71 (224)
221 PF12840 HTH_20: Helix-turn-he 66.1 21 0.00045 25.2 5.4 51 290-341 6-56 (61)
222 COG5010 TadD Flp pilus assembl 66.0 55 0.0012 30.7 9.4 92 101-201 70-161 (257)
223 PRK09954 putative kinase; Prov 65.7 16 0.00036 35.8 6.5 53 300-352 8-63 (362)
224 PF10300 DUF3808: Protein of u 65.5 95 0.0021 31.8 12.2 108 111-229 247-355 (468)
225 smart00351 PAX Paired Box doma 65.4 15 0.00033 30.4 5.2 46 293-341 20-65 (125)
226 PF06163 DUF977: Bacterial pro 65.3 10 0.00022 31.4 4.0 40 300-339 17-56 (127)
227 cd00092 HTH_CRP helix_turn_hel 65.3 11 0.00024 26.8 3.9 34 308-341 24-57 (67)
228 KOG4626 O-linked N-acetylgluco 65.2 35 0.00076 36.1 8.6 93 98-201 321-415 (966)
229 PF12862 Apc5: Anaphase-promot 65.1 62 0.0013 25.0 9.0 33 95-127 39-71 (94)
230 TIGR03879 near_KaiC_dom probab 64.8 7.6 0.00016 29.1 2.9 33 307-339 30-62 (73)
231 PF13384 HTH_23: Homeodomain-l 64.6 7.5 0.00016 26.1 2.8 40 295-337 6-45 (50)
232 COG5010 TadD Flp pilus assembl 64.4 81 0.0018 29.6 10.2 97 97-202 100-196 (257)
233 TIGR02010 IscR iron-sulfur clu 64.4 23 0.00049 29.6 6.2 46 308-353 24-69 (135)
234 PRK03837 transcriptional regul 64.0 21 0.00046 32.6 6.6 64 288-353 15-79 (241)
235 PF13404 HTH_AsnC-type: AsnC-t 64.0 14 0.00031 24.3 3.9 34 300-333 8-41 (42)
236 COG1802 GntR Transcriptional r 63.8 19 0.00041 32.9 6.1 65 287-353 17-81 (230)
237 PRK09782 bacteriophage N4 rece 63.4 61 0.0013 36.6 10.9 21 180-200 683-703 (987)
238 COG4783 Putative Zn-dependent 63.1 1.1E+02 0.0025 31.2 11.7 70 97-166 374-457 (484)
239 cd00131 PAX Paired Box domain 62.8 19 0.0004 30.0 5.3 47 292-341 19-65 (128)
240 KOG0624 dsRNA-activated protei 62.6 1.7E+02 0.0036 29.0 13.6 103 92-200 101-215 (504)
241 PRK15363 pathogenicity island 62.5 82 0.0018 27.3 9.3 68 94-164 66-133 (157)
242 COG2118 DNA-binding protein [G 62.4 7.9 0.00017 31.4 2.8 54 292-345 38-91 (116)
243 COG3063 PilF Tfp pilus assembl 62.3 1.3E+02 0.0029 27.9 12.0 149 37-198 42-197 (250)
244 KOG3785 Uncharacterized conser 62.3 61 0.0013 32.0 9.2 67 90-159 50-116 (557)
245 TIGR02812 fadR_gamma fatty aci 62.1 29 0.00063 31.7 7.1 64 288-353 8-72 (235)
246 PRK10225 DNA-binding transcrip 62.1 36 0.00078 31.5 7.8 64 288-353 11-75 (257)
247 PF09339 HTH_IclR: IclR helix- 61.9 21 0.00045 24.4 4.6 40 300-339 8-48 (52)
248 smart00346 HTH_ICLR helix_turn 61.8 19 0.00041 27.3 4.9 46 296-341 6-52 (91)
249 COG3355 Predicted transcriptio 61.6 94 0.002 25.9 9.9 82 299-380 32-115 (126)
250 KOG1130 Predicted G-alpha GTPa 61.4 34 0.00074 34.4 7.5 89 75-163 166-264 (639)
251 PF04967 HTH_10: HTH DNA bindi 61.2 16 0.00034 25.6 3.8 34 301-334 15-48 (53)
252 PF01865 PhoU_div: Protein of 61.1 59 0.0013 29.2 8.8 79 251-336 26-104 (214)
253 PF13545 HTH_Crp_2: Crp-like h 60.5 17 0.00037 26.6 4.3 44 308-355 27-70 (76)
254 PF13463 HTH_27: Winged helix 60.4 42 0.00092 23.7 6.4 48 301-348 9-57 (68)
255 KOG0396 Uncharacterized conser 60.1 1.8E+02 0.004 28.7 13.1 121 74-199 92-216 (389)
256 COG1959 Predicted transcriptio 59.2 25 0.00054 30.1 5.6 59 295-353 11-69 (150)
257 PRK11179 DNA-binding transcrip 59.0 20 0.00044 30.6 5.1 46 300-345 14-62 (153)
258 KOG1070 rRNA processing protei 58.9 3.1E+02 0.0068 32.1 15.0 98 99-205 1460-1561(1710)
259 TIGR01764 excise DNA binding d 58.8 18 0.00038 23.6 3.8 31 310-344 2-32 (49)
260 PF01325 Fe_dep_repress: Iron 58.5 28 0.00061 24.8 4.9 35 306-340 19-53 (60)
261 PF04545 Sigma70_r4: Sigma-70, 58.3 32 0.0007 23.0 5.1 29 307-335 18-46 (50)
262 PRK11920 rirA iron-responsive 58.1 30 0.00065 29.7 6.0 48 306-353 21-68 (153)
263 PF05843 Suf: Suppressor of fo 58.1 84 0.0018 29.7 9.6 83 77-165 56-138 (280)
264 PF12854 PPR_1: PPR repeat 58.0 18 0.00038 22.4 3.4 25 99-123 9-33 (34)
265 TIGR02337 HpaR homoprotocatech 57.9 51 0.0011 26.5 7.1 43 306-348 39-81 (118)
266 PRK10747 putative protoheme IX 57.9 2E+02 0.0044 28.5 14.1 80 111-200 308-387 (398)
267 PRK10370 formate-dependent nit 57.5 31 0.00067 30.9 6.2 66 97-165 107-175 (198)
268 TIGR00373 conserved hypothetic 57.4 1.3E+02 0.0027 26.0 10.3 47 305-351 24-72 (158)
269 KOG2047 mRNA splicing factor [ 57.3 1.4E+02 0.003 31.9 11.3 103 63-165 350-456 (835)
270 PF01726 LexA_DNA_bind: LexA D 57.3 19 0.00041 26.2 3.9 32 309-340 25-57 (65)
271 PRK11169 leucine-responsive tr 57.3 24 0.00051 30.6 5.3 49 298-346 17-68 (164)
272 PF00325 Crp: Bacterial regula 57.0 23 0.00051 21.9 3.7 30 310-339 3-32 (32)
273 PLN03077 Protein ECB2; Provisi 56.6 3.1E+02 0.0067 30.3 17.1 16 261-276 704-719 (857)
274 PF09613 HrpB1_HrpK: Bacterial 56.4 40 0.00086 29.3 6.3 66 130-201 6-71 (160)
275 KOG2300 Uncharacterized conser 56.2 1.1E+02 0.0024 31.5 10.2 122 98-226 368-495 (629)
276 PF13512 TPR_18: Tetratricopep 55.9 1.1E+02 0.0024 26.0 8.9 47 97-144 47-93 (142)
277 PF13730 HTH_36: Helix-turn-he 55.7 20 0.00043 24.5 3.7 28 311-338 27-54 (55)
278 PF13041 PPR_2: PPR repeat fam 55.6 24 0.00051 23.6 4.0 33 99-131 5-37 (50)
279 PRK06266 transcription initiat 55.4 1.4E+02 0.0031 26.3 9.9 64 279-343 5-70 (178)
280 PHA02943 hypothetical protein; 55.3 1.4E+02 0.003 25.8 9.4 66 287-356 5-70 (165)
281 PF11207 DUF2989: Protein of u 55.1 1.3E+02 0.0028 27.2 9.6 61 92-153 136-197 (203)
282 PF04010 DUF357: Protein of un 55.1 27 0.00058 26.3 4.5 29 95-123 33-61 (75)
283 COG2956 Predicted N-acetylgluc 54.9 1.1E+02 0.0024 30.0 9.5 98 97-200 141-240 (389)
284 TIGR00756 PPR pentatricopeptid 54.7 25 0.00055 20.6 3.8 28 100-127 3-30 (35)
285 PRK09464 pdhR transcriptional 54.5 35 0.00075 31.6 6.3 64 288-353 12-76 (254)
286 PRK11414 colanic acid/biofilm 54.3 32 0.0007 31.1 5.9 62 288-351 13-74 (221)
287 PF13812 PPR_3: Pentatricopept 54.0 32 0.0007 20.3 4.2 27 100-126 4-30 (34)
288 TIGR02944 suf_reg_Xantho FeS a 53.9 43 0.00093 27.6 6.1 42 307-348 23-64 (130)
289 PF12487 DUF3703: Protein of u 53.8 1.2E+02 0.0026 24.7 8.3 63 101-163 13-76 (112)
290 PF13011 LZ_Tnp_IS481: leucine 53.6 20 0.00044 27.6 3.6 38 309-347 25-62 (85)
291 PF01535 PPR: PPR repeat; Int 53.4 21 0.00046 20.6 3.1 26 100-125 3-28 (31)
292 COG3071 HemY Uncharacterized e 53.0 2.5E+02 0.0054 28.1 13.7 126 7-159 261-386 (400)
293 KOG1127 TPR repeat-containing 52.9 1.6E+02 0.0035 33.1 11.4 129 76-228 993-1122(1238)
294 PRK15481 transcriptional regul 52.9 32 0.0007 34.5 6.2 55 288-342 7-62 (431)
295 COG1729 Uncharacterized protei 52.9 1.4E+02 0.0031 28.1 9.9 68 96-163 177-244 (262)
296 PRK14165 winged helix-turn-hel 52.8 1E+02 0.0022 28.2 8.8 54 301-354 13-66 (217)
297 COG2956 Predicted N-acetylgluc 52.6 2.4E+02 0.0051 27.7 11.9 63 97-162 214-277 (389)
298 COG4649 Uncharacterized protei 52.6 1.7E+02 0.0037 26.1 11.2 99 97-202 94-195 (221)
299 cd02680 MIT_calpain7_2 MIT: do 52.4 47 0.001 25.0 5.4 26 104-129 13-38 (75)
300 PF13414 TPR_11: TPR repeat; P 52.0 52 0.0011 23.1 5.6 29 97-125 37-66 (69)
301 COG2378 Predicted transcriptio 51.6 26 0.00057 33.8 5.1 54 292-348 5-58 (311)
302 TIGR00153 conserved hypothetic 51.3 1.9E+02 0.004 26.1 10.4 76 252-334 30-105 (216)
303 COG2345 Predicted transcriptio 50.9 38 0.00083 31.0 5.7 44 299-342 15-58 (218)
304 KOG0553 TPR repeat-containing 50.6 99 0.0021 29.7 8.5 94 100-202 84-177 (304)
305 PF09743 DUF2042: Uncharacteri 50.4 48 0.001 31.4 6.5 57 289-345 172-228 (272)
306 TIGR02561 HrpB1_HrpK type III 50.2 57 0.0012 28.1 6.2 67 130-202 6-72 (153)
307 PRK11753 DNA-binding transcrip 50.0 1.5E+02 0.0033 26.0 9.5 42 309-354 168-209 (211)
308 PF01476 LysM: LysM domain; I 50.0 17 0.00036 23.5 2.4 19 311-329 8-26 (44)
309 PLN03218 maturation of RBCL 1; 49.6 4.5E+02 0.0098 30.1 26.5 62 98-161 508-569 (1060)
310 PLN03083 E3 UFM1-protein ligas 49.6 94 0.002 34.0 9.1 61 285-353 115-175 (803)
311 PF06971 Put_DNA-bind_N: Putat 49.6 24 0.00052 24.3 3.2 25 307-331 26-50 (50)
312 PRK04984 fatty acid metabolism 49.2 49 0.0011 30.2 6.3 63 289-353 10-73 (239)
313 PF14561 TPR_20: Tetratricopep 49.1 88 0.0019 24.2 6.8 46 76-127 7-52 (90)
314 PF13601 HTH_34: Winged helix 48.9 1.1E+02 0.0023 23.1 7.0 49 300-348 5-53 (80)
315 PF14947 HTH_45: Winged helix- 48.8 56 0.0012 24.4 5.5 59 307-382 17-75 (77)
316 PF08280 HTH_Mga: M protein tr 48.5 42 0.0009 23.7 4.5 39 296-334 6-44 (59)
317 PF04184 ST7: ST7 protein; In 48.5 3.3E+02 0.0072 28.2 12.6 62 99-161 261-322 (539)
318 KOG0550 Molecular chaperone (D 48.5 1.7E+02 0.0037 29.6 10.0 97 100-202 252-349 (486)
319 PRK09990 DNA-binding transcrip 48.2 51 0.0011 30.4 6.3 64 288-353 9-73 (251)
320 PF12739 TRAPPC-Trs85: ER-Golg 47.8 1.5E+02 0.0033 29.7 10.1 110 92-201 203-327 (414)
321 PRK06771 hypothetical protein; 47.7 14 0.0003 28.9 2.0 30 309-338 36-67 (93)
322 KOG1130 Predicted G-alpha GTPa 47.4 1.9E+02 0.004 29.4 10.0 77 82-158 220-299 (639)
323 PLN03081 pentatricopeptide (PP 47.3 3.9E+02 0.0084 28.7 17.2 58 98-161 361-418 (697)
324 KOG3617 WD40 and TPR repeat-co 47.3 4.5E+02 0.0096 29.3 14.3 106 95-200 856-993 (1416)
325 KOG0495 HAT repeat protein [RN 47.1 2.3E+02 0.0049 30.5 11.0 86 72-162 561-646 (913)
326 smart00347 HTH_MARR helix_turn 47.0 86 0.0019 23.7 6.6 46 302-347 17-62 (101)
327 KOG2908 26S proteasome regulat 46.9 2.9E+02 0.0064 27.1 11.4 81 44-125 55-143 (380)
328 PRK14720 transcript cleavage f 46.9 1.8E+02 0.0038 32.6 10.8 173 89-271 215-403 (906)
329 PRK15179 Vi polysaccharide bio 46.7 4.1E+02 0.009 28.8 15.3 65 97-164 154-218 (694)
330 KOG2300 Uncharacterized conser 46.1 3.6E+02 0.0079 28.0 15.6 29 96-124 6-36 (629)
331 KOG3060 Uncharacterized conser 45.8 2.7E+02 0.0058 26.4 12.8 92 64-159 19-111 (289)
332 PLN03077 Protein ECB2; Provisi 45.6 2.5E+02 0.0054 31.0 12.2 17 184-200 364-380 (857)
333 PRK11523 DNA-binding transcrip 45.3 60 0.0013 30.0 6.3 64 288-353 10-74 (253)
334 PF10516 SHNi-TPR: SHNi-TPR; 45.2 49 0.0011 21.3 3.9 28 98-125 2-29 (38)
335 cd06171 Sigma70_r4 Sigma70, re 45.0 59 0.0013 21.0 4.8 27 308-334 25-51 (55)
336 PRK10421 DNA-binding transcrip 44.9 63 0.0014 29.8 6.4 64 288-353 4-68 (253)
337 PRK09391 fixK transcriptional 44.9 1.5E+02 0.0033 26.8 8.9 42 309-354 179-221 (230)
338 KOG4340 Uncharacterized conser 44.4 3.1E+02 0.0067 26.7 11.4 105 97-201 44-171 (459)
339 PF01978 TrmB: Sugar-specific 44.3 65 0.0014 23.1 5.1 42 300-342 14-55 (68)
340 KOG0547 Translocase of outer m 43.8 3E+02 0.0065 28.6 11.0 115 95-225 324-438 (606)
341 PF10345 Cohesin_load: Cohesin 43.5 4.3E+02 0.0092 28.0 21.1 102 97-201 59-166 (608)
342 PF03297 Ribosomal_S25: S25 ri 43.4 1.3E+02 0.0028 24.2 7.0 50 304-353 54-103 (105)
343 PF07720 TPR_3: Tetratricopept 43.3 51 0.0011 20.8 3.8 24 98-121 2-25 (36)
344 PF03374 ANT: Phage antirepres 43.3 52 0.0011 26.2 4.9 35 298-332 13-47 (111)
345 TIGR00738 rrf2_super rrf2 fami 43.2 69 0.0015 26.2 5.8 35 308-342 24-58 (132)
346 KOG3785 Uncharacterized conser 43.2 2.4E+02 0.0053 28.0 9.9 98 93-200 355-454 (557)
347 PF10007 DUF2250: Uncharacteri 43.2 21 0.00045 28.0 2.3 76 300-375 12-91 (92)
348 COG2963 Transposase and inacti 41.7 65 0.0014 25.9 5.2 48 291-340 8-56 (116)
349 KOG2376 Signal recognition par 41.7 3.9E+02 0.0085 28.3 11.7 62 94-155 172-245 (652)
350 TIGR02018 his_ut_repres histid 41.5 82 0.0018 28.6 6.5 63 289-353 4-67 (230)
351 PF12324 HTH_15: Helix-turn-he 41.4 51 0.0011 24.9 4.1 34 300-333 29-62 (77)
352 COG2976 Uncharacterized protei 41.4 2.3E+02 0.0049 25.7 8.8 82 77-164 105-189 (207)
353 TIGR02702 SufR_cyano iron-sulf 41.0 73 0.0016 28.5 6.0 43 300-342 6-48 (203)
354 COG1522 Lrp Transcriptional re 40.9 51 0.0011 27.7 4.7 44 302-345 15-61 (154)
355 PF01527 HTH_Tnp_1: Transposas 40.8 50 0.0011 24.0 4.1 43 290-334 6-48 (76)
356 TIGR01884 cas_HTH CRISPR locus 40.5 89 0.0019 28.0 6.4 42 301-342 149-190 (203)
357 PRK14999 histidine utilization 40.5 81 0.0017 28.9 6.3 64 288-353 14-78 (241)
358 PRK14720 transcript cleavage f 40.5 5.6E+02 0.012 28.8 13.4 114 263-380 343-471 (906)
359 COG4105 ComL DNA uptake lipopr 40.2 2.9E+02 0.0063 25.9 9.8 61 101-165 171-231 (254)
360 PRK11161 fumarate/nitrate redu 40.0 1.9E+02 0.0042 25.9 8.8 41 309-353 184-224 (235)
361 KOG3250 COP9 signalosome, subu 39.9 1.3E+02 0.0029 27.5 7.1 93 251-353 61-154 (258)
362 PRK09764 DNA-binding transcrip 39.8 85 0.0018 28.8 6.4 64 288-353 7-71 (240)
363 PF06056 Terminase_5: Putative 39.3 58 0.0013 23.1 4.0 35 295-332 2-36 (58)
364 COG4259 Uncharacterized protei 39.3 1.1E+02 0.0024 24.5 5.8 65 74-139 50-114 (121)
365 KOG4626 O-linked N-acetylgluco 39.1 5.2E+02 0.011 27.9 12.1 85 75-162 365-450 (966)
366 smart00342 HTH_ARAC helix_turn 39.0 1.1E+02 0.0023 22.0 5.8 41 291-332 33-74 (84)
367 COG1497 Predicted transcriptio 38.9 59 0.0013 30.2 4.9 45 296-340 12-56 (260)
368 PRK10153 DNA-binding transcrip 38.7 2.2E+02 0.0048 29.6 9.8 61 98-162 421-481 (517)
369 PF14549 P22_Cro: DNA-binding 38.3 52 0.0011 23.5 3.6 19 311-329 11-29 (60)
370 smart00421 HTH_LUXR helix_turn 38.2 81 0.0018 20.8 4.6 29 307-335 16-44 (58)
371 PF13542 HTH_Tnp_ISL3: Helix-t 38.1 1E+02 0.0022 20.6 5.0 38 293-333 14-51 (52)
372 PF09182 PuR_N: Bacterial puri 38.0 69 0.0015 23.7 4.2 36 295-330 4-41 (70)
373 PF12728 HTH_17: Helix-turn-he 37.9 48 0.001 22.2 3.3 38 310-353 2-39 (51)
374 PF14493 HTH_40: Helix-turn-he 37.9 46 0.00099 25.6 3.6 33 308-340 12-45 (91)
375 KOG0276 Vesicle coat complex C 37.9 5.3E+02 0.012 27.5 13.5 158 99-300 616-777 (794)
376 PF08721 Tn7_Tnp_TnsA_C: TnsA 37.8 39 0.00084 24.8 3.1 43 299-341 31-77 (79)
377 cd06170 LuxR_C_like C-terminal 37.7 84 0.0018 20.9 4.7 29 307-335 13-41 (57)
378 KOG1941 Acetylcholine receptor 37.5 3.4E+02 0.0074 27.1 10.0 101 98-199 247-359 (518)
379 PF10078 DUF2316: Uncharacteri 36.9 38 0.00082 26.4 2.9 23 308-330 22-44 (89)
380 PF01710 HTH_Tnp_IS630: Transp 36.5 51 0.0011 26.9 3.9 43 294-340 6-48 (119)
381 TIGR01716 RGG_Cterm transcript 36.4 1.6E+02 0.0034 26.3 7.5 62 132-193 126-187 (220)
382 PF14502 HTH_41: Helix-turn-he 36.4 63 0.0014 22.1 3.5 30 311-340 8-37 (48)
383 COG3413 Predicted DNA binding 36.1 45 0.00097 30.2 3.8 34 301-334 170-203 (215)
384 cd04761 HTH_MerR-SF Helix-Turn 36.0 73 0.0016 20.8 4.0 27 311-341 2-28 (49)
385 PF01710 HTH_Tnp_IS630: Transp 35.9 42 0.00091 27.4 3.2 35 299-333 61-95 (119)
386 TIGR02675 tape_meas_nterm tape 35.9 44 0.00095 25.0 3.1 26 312-341 47-72 (75)
387 COG4565 CitB Response regulato 35.9 3.5E+02 0.0075 24.8 9.2 46 300-345 163-209 (224)
388 cd00086 homeodomain Homeodomai 35.5 76 0.0017 21.6 4.2 28 305-332 22-50 (59)
389 TIGR03697 NtcA_cyano global ni 35.5 2E+02 0.0043 24.8 7.8 42 309-354 143-184 (193)
390 TIGR02859 spore_sigH RNA polym 35.5 81 0.0018 27.5 5.3 46 286-334 145-190 (198)
391 PF10771 DUF2582: Protein of u 35.4 1E+02 0.0023 22.4 4.8 51 300-352 13-63 (65)
392 PF00376 MerR: MerR family reg 35.4 40 0.00088 21.6 2.4 20 311-330 1-20 (38)
393 PF04760 IF2_N: Translation in 35.3 40 0.00086 23.2 2.6 22 309-330 3-24 (54)
394 COG3629 DnrI DNA-binding trans 35.2 4E+02 0.0088 25.4 10.6 75 96-173 152-228 (280)
395 PF13936 HTH_38: Helix-turn-he 35.2 48 0.001 21.8 2.9 25 308-332 19-43 (44)
396 KOG2471 TPR repeat-containing 35.0 1.9E+02 0.0041 30.0 8.1 125 76-206 221-367 (696)
397 KOG3877 NADH:ubiquinone oxidor 34.7 2.4E+02 0.0053 27.1 8.3 67 258-331 151-236 (393)
398 PRK10219 DNA-binding transcrip 34.6 1.1E+02 0.0024 23.9 5.5 39 292-333 7-45 (107)
399 PF09986 DUF2225: Uncharacteri 34.5 3E+02 0.0065 25.0 8.9 69 95-163 116-194 (214)
400 PF13551 HTH_29: Winged helix- 34.4 69 0.0015 25.0 4.3 36 308-344 10-46 (112)
401 KOG1585 Protein required for f 34.1 4.1E+02 0.0089 25.1 14.6 114 92-205 86-223 (308)
402 PF08765 Mor: Mor transcriptio 34.0 2E+02 0.0043 22.9 6.8 53 277-332 43-95 (108)
403 KOG1156 N-terminal acetyltrans 34.0 6.2E+02 0.013 27.2 12.6 98 95-200 141-245 (700)
404 TIGR00498 lexA SOS regulatory 33.9 57 0.0012 29.0 4.1 33 310-342 26-59 (199)
405 TIGR02404 trehalos_R_Bsub treh 33.4 1.3E+02 0.0029 27.2 6.5 62 290-353 4-66 (233)
406 COG1747 Uncharacterized N-term 33.3 5.9E+02 0.013 26.7 17.1 224 31-271 136-385 (711)
407 PRK05472 redox-sensing transcr 33.3 1E+02 0.0022 27.7 5.7 45 293-337 14-60 (213)
408 KOG0545 Aryl-hydrocarbon recep 33.0 2.9E+02 0.0062 26.1 8.3 96 99-202 180-292 (329)
409 PF08221 HTH_9: RNA polymerase 32.7 1.4E+02 0.0031 21.2 5.2 40 300-339 18-57 (62)
410 PRK06759 RNA polymerase factor 32.6 1.1E+02 0.0024 25.4 5.5 46 287-335 103-148 (154)
411 PF13959 DUF4217: Domain of un 32.6 1.7E+02 0.0038 21.0 5.7 20 303-322 39-58 (65)
412 PF14689 SPOB_a: Sensor_kinase 32.6 1.8E+02 0.004 20.6 6.9 28 100-127 26-53 (62)
413 PF12688 TPR_5: Tetratrico pep 32.5 2.8E+02 0.006 22.7 10.8 38 90-127 31-68 (120)
414 PRK03902 manganese transport t 32.5 2.9E+02 0.0063 22.9 9.3 42 300-341 13-54 (142)
415 PRK09334 30S ribosomal protein 32.4 1.3E+02 0.0029 23.2 5.2 37 306-342 38-74 (86)
416 KOG4648 Uncharacterized conser 32.2 2.4E+02 0.0053 27.9 8.1 48 101-148 101-152 (536)
417 PF14276 DUF4363: Domain of un 32.0 2.7E+02 0.0059 22.4 9.7 62 104-165 35-108 (121)
418 cd04762 HTH_MerR-trunc Helix-T 32.0 54 0.0012 21.1 2.8 28 311-342 2-29 (49)
419 PF08672 APC2: Anaphase promot 31.5 48 0.001 23.7 2.5 25 318-342 30-54 (60)
420 TIGR01610 phage_O_Nterm phage 31.5 2.5E+02 0.0054 21.8 8.8 48 306-355 44-91 (95)
421 TIGR02325 C_P_lyase_phnF phosp 31.4 1.4E+02 0.0031 27.0 6.4 64 288-353 10-74 (238)
422 PRK11512 DNA-binding transcrip 31.3 3E+02 0.0066 22.8 8.0 44 307-350 52-95 (144)
423 PRK10141 DNA-binding transcrip 31.3 2.9E+02 0.0063 22.5 9.7 64 288-352 10-73 (117)
424 KOG1128 Uncharacterized conser 30.6 3.4E+02 0.0074 29.4 9.4 105 92-201 393-512 (777)
425 PF05402 PqqD: Coenzyme PQQ sy 30.5 58 0.0013 23.2 2.9 24 312-335 36-59 (68)
426 PRK12534 RNA polymerase sigma 30.1 96 0.0021 26.9 4.9 44 288-334 135-178 (187)
427 COG1516 FliS Flagellin-specifi 30.0 3.2E+02 0.0069 23.0 7.4 51 115-165 5-62 (132)
428 KOG0543 FKBP-type peptidyl-pro 29.8 5.7E+02 0.012 25.6 10.4 63 98-163 258-320 (397)
429 TIGR00122 birA_repr_reg BirA b 29.6 1.4E+02 0.0031 21.3 4.9 29 310-338 14-42 (69)
430 PRK12537 RNA polymerase sigma 29.5 1.2E+02 0.0025 26.4 5.2 46 286-334 129-174 (182)
431 PRK12514 RNA polymerase sigma 29.3 1E+02 0.0023 26.5 4.9 45 287-334 126-170 (179)
432 PRK09642 RNA polymerase sigma 29.1 1.3E+02 0.0027 25.3 5.3 47 285-334 101-147 (160)
433 KOG1941 Acetylcholine receptor 29.1 5.4E+02 0.012 25.8 9.9 131 73-203 138-275 (518)
434 KOG3364 Membrane protein invol 29.0 2E+02 0.0044 24.5 6.1 50 73-126 51-100 (149)
435 PRK03573 transcriptional regul 29.0 2.9E+02 0.0064 22.8 7.5 41 309-349 46-86 (144)
436 PF13613 HTH_Tnp_4: Helix-turn 28.9 91 0.002 21.3 3.5 28 307-334 17-44 (53)
437 cd02681 MIT_calpain7_1 MIT: do 28.9 2.5E+02 0.0055 21.0 7.2 28 100-127 9-36 (76)
438 PF11972 HTH_13: HTH DNA bindi 28.7 90 0.0019 21.9 3.4 36 300-335 4-39 (54)
439 PRK00215 LexA repressor; Valid 28.5 86 0.0019 27.9 4.3 34 309-342 23-57 (205)
440 PF04053 Coatomer_WDAD: Coatom 28.5 6.5E+02 0.014 25.7 11.5 164 66-273 263-427 (443)
441 PF00244 14-3-3: 14-3-3 protei 28.5 3.4E+02 0.0074 25.0 8.4 75 47-127 123-199 (236)
442 PF04733 Coatomer_E: Coatomer 28.5 3.5E+02 0.0075 25.8 8.6 119 99-229 133-251 (290)
443 PRK12547 RNA polymerase sigma 28.2 1.4E+02 0.003 25.4 5.4 48 285-335 107-154 (164)
444 PF00046 Homeobox: Homeobox do 28.1 70 0.0015 21.9 2.9 25 308-332 26-50 (57)
445 PF02796 HTH_7: Helix-turn-hel 27.8 67 0.0014 21.2 2.6 21 310-330 22-42 (45)
446 smart00342 HTH_ARAC helix_turn 27.7 80 0.0017 22.7 3.4 25 310-334 2-26 (84)
447 COG4367 Uncharacterized protei 27.4 69 0.0015 24.8 2.8 23 308-330 22-44 (97)
448 PRK10870 transcriptional repre 27.2 3E+02 0.0066 23.9 7.5 43 308-350 70-112 (176)
449 cd00569 HTH_Hin_like Helix-tur 27.2 1.3E+02 0.0028 17.1 3.9 21 309-329 21-41 (42)
450 PF04348 LppC: LppC putative l 26.9 21 0.00046 37.3 0.0 101 97-200 24-124 (536)
451 PF00440 TetR_N: Bacterial reg 26.9 52 0.0011 21.8 2.0 22 305-326 12-33 (47)
452 PRK06305 DNA polymerase III su 26.8 6.9E+02 0.015 25.4 11.6 46 101-147 252-297 (451)
453 smart00101 14_3_3 14-3-3 homol 26.6 2.3E+02 0.005 26.4 6.8 34 94-127 166-201 (244)
454 PRK14584 hmsS hemin storage sy 26.5 1.9E+02 0.0041 24.9 5.7 59 290-354 81-139 (153)
455 KOG3617 WD40 and TPR repeat-co 26.5 1.8E+02 0.0039 32.1 6.6 87 98-200 1081-1171(1416)
456 PF10475 DUF2450: Protein of u 26.3 5.6E+02 0.012 24.2 21.0 81 110-201 73-154 (291)
457 PF07106 TBPIP: Tat binding pr 26.3 3.5E+02 0.0076 23.3 7.7 46 305-352 15-60 (169)
458 PF07079 DUF1347: Protein of u 26.1 4E+02 0.0088 27.4 8.6 90 104-199 13-104 (549)
459 KOG3616 Selective LIM binding 25.8 9.3E+02 0.02 26.6 12.8 36 84-122 651-686 (1636)
460 TIGR03362 VI_chp_7 type VI sec 25.8 3.1E+02 0.0067 26.4 7.7 70 102-171 218-289 (301)
461 COG3415 Transposase and inacti 25.6 1.4E+02 0.0031 25.2 4.8 46 292-339 6-51 (138)
462 smart00389 HOX Homeodomain. DN 25.5 76 0.0017 21.4 2.7 25 308-332 26-50 (56)
463 PF04492 Phage_rep_O: Bacterio 25.4 2E+02 0.0044 22.8 5.4 37 303-339 48-84 (100)
464 TIGR00331 hrcA heat shock gene 25.1 1.4E+02 0.003 29.2 5.3 43 297-339 9-53 (337)
465 PF07889 DUF1664: Protein of u 25.1 3.3E+02 0.0072 22.6 6.8 58 64-121 57-116 (126)
466 TIGR02899 spore_safA spore coa 25.0 75 0.0016 19.9 2.5 17 311-327 6-22 (44)
467 COG1191 FliA DNA-directed RNA 24.9 5.7E+02 0.012 23.8 9.8 29 307-335 210-238 (247)
468 PRK09413 IS2 repressor TnpA; R 24.9 1.9E+02 0.0041 23.5 5.4 42 294-337 16-57 (121)
469 PRK10046 dpiA two-component re 24.8 1.7E+02 0.0036 26.2 5.6 41 305-345 173-213 (225)
470 PRK12530 RNA polymerase sigma 24.6 1.4E+02 0.0031 26.1 4.9 46 286-334 130-175 (189)
471 PF00165 HTH_AraC: Bacterial r 24.6 1.1E+02 0.0023 19.6 3.1 25 307-331 6-30 (42)
472 PF02259 FAT: FAT domain; Int 24.5 6E+02 0.013 24.0 10.9 70 93-162 142-212 (352)
473 PRK12526 RNA polymerase sigma 24.3 1.7E+02 0.0036 26.1 5.4 45 287-334 150-194 (206)
474 PRK09047 RNA polymerase factor 24.3 1.8E+02 0.0038 24.3 5.3 45 287-334 103-147 (161)
475 PRK11511 DNA-binding transcrip 24.1 2.1E+02 0.0045 23.4 5.5 27 307-333 23-49 (127)
476 PF12244 DUF3606: Protein of u 24.1 91 0.002 22.0 2.8 26 307-332 18-43 (57)
477 PF10579 Rapsyn_N: Rapsyn N-te 24.0 3.3E+02 0.0072 20.8 8.8 55 103-157 12-66 (80)
478 TIGR02943 Sig70_famx1 RNA poly 23.9 1.8E+02 0.0038 25.4 5.4 41 290-333 131-171 (188)
479 TIGR02952 Sig70_famx2 RNA poly 23.8 1.8E+02 0.004 24.4 5.4 44 289-335 121-164 (170)
480 TIGR00635 ruvB Holliday juncti 23.8 4.5E+02 0.0097 24.7 8.6 32 309-340 255-287 (305)
481 TIGR02954 Sig70_famx3 RNA poly 23.7 1.7E+02 0.0037 24.8 5.1 46 286-334 115-160 (169)
482 COG1283 NptA Na+/phosphate sym 23.7 8.7E+02 0.019 25.5 14.0 72 45-118 342-423 (533)
483 KOG4056 Translocase of outer m 23.6 4.3E+02 0.0093 22.4 7.1 75 61-136 35-120 (143)
484 COG4806 RhaA L-rhamnose isomer 23.3 2.2E+02 0.0047 27.2 5.9 39 33-71 371-409 (419)
485 PRK09652 RNA polymerase sigma 23.2 1.6E+02 0.0034 25.0 4.9 27 307-333 142-168 (182)
486 PF11817 Foie-gras_1: Foie gra 23.1 2.7E+02 0.0059 25.6 6.7 78 151-228 155-233 (247)
487 PRK09392 ftrB transcriptional 23.1 3.3E+02 0.0071 24.5 7.2 38 312-354 176-213 (236)
488 PF10366 Vps39_1: Vacuolar sor 23.1 1E+02 0.0022 24.8 3.3 26 100-125 42-67 (108)
489 TIGR02937 sigma70-ECF RNA poly 23.0 1.9E+02 0.0041 23.2 5.2 28 307-334 124-151 (158)
490 smart00671 SEL1 Sel1-like repe 22.9 1.7E+02 0.0036 17.3 3.7 27 98-124 2-32 (36)
491 PRK11050 manganese transport r 22.8 4.7E+02 0.01 22.1 10.6 36 307-342 49-84 (152)
492 PF03081 Exo70: Exo70 exocyst 22.8 84 0.0018 30.8 3.4 54 279-333 318-371 (371)
493 TIGR02997 Sig70-cyanoRpoD RNA 22.4 6.7E+02 0.014 23.7 10.7 36 309-344 177-212 (298)
494 COG1846 MarR Transcriptional r 22.4 3E+02 0.0066 21.2 6.2 36 313-348 40-75 (126)
495 PRK12523 RNA polymerase sigma 22.4 2.1E+02 0.0046 24.4 5.5 47 286-335 115-161 (172)
496 PRK12529 RNA polymerase sigma 22.3 2E+02 0.0043 24.8 5.4 47 285-334 122-168 (178)
497 PRK12533 RNA polymerase sigma 22.2 1.4E+02 0.0029 27.1 4.4 43 288-333 132-174 (216)
498 PF07304 SRA1: Steroid recepto 22.1 5.1E+02 0.011 22.3 10.0 50 71-124 68-117 (157)
499 TIGR00540 hemY_coli hemY prote 22.0 7.8E+02 0.017 24.3 23.5 182 103-293 159-381 (409)
500 PRK10402 DNA-binding transcrip 22.0 5.2E+02 0.011 23.1 8.3 40 310-353 170-209 (226)
No 1
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.9e-92 Score=649.84 Aligned_cols=384 Identities=60% Similarity=1.011 Sum_probs=375.7
Q ss_pred CCCCCCCCcchhHhHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q 016653 1 MDSEGTQQAHLVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESVLEMDQSVLDSMRTKIEDELKKL 80 (385)
Q Consensus 1 ~~~~~~~~p~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~~D~~~~~~~~~~~~~~l~~L 80 (385)
++++++++||+.++++.|+++||..+. +.++++..+++.|+.++|+|||+.+|+...|..|.+.+++|.++|++++++|
T Consensus 9 ~~e~~~~~p~le~sq~~FlLt~p~~~~-~~~~~~e~l~~~Ird~~Map~Ye~lce~~~i~~D~~~l~~m~~~neeki~el 87 (393)
T KOG0687|consen 9 EEETLMRVPDLELSQLRFLLTHPEVLG-QKAAAREKLLAAIRDEDMAPLYEYLCESLVIKLDQDLLNSMKKANEEKIKEL 87 (393)
T ss_pred cccccccCcchhHHHHHHHHcCccccC-cCHHHHHHHHHHHHhcccchHHHHHHhhcceeccHHHHHHHHHhhHHHHHHH
Confidence 467888999999999999999998876 5678888899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHH
Q 016653 81 DDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKA 160 (385)
Q Consensus 81 e~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka 160 (385)
++++.++++|+|+.++|.|+.++|+||+++||.++|++++.+..++.++.|+++|+.+.+||++++++|...+.+.+.||
T Consensus 88 d~~iedaeenlGE~ev~ea~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~ieka 167 (393)
T KOG0687|consen 88 DEKIEDAEENLGESEVREAMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKA 167 (393)
T ss_pred HHHHHHHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCCh
Q 016653 161 KSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAP 240 (385)
Q Consensus 161 ~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~ 240 (385)
+.++++||||+|+||+|+|.|++.|+.|||++||.+|+|+++||+++|+++|.++++|+++|++++++|.+|+++|+++|
T Consensus 168 k~liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~ 247 (393)
T KOG0687|consen 168 KSLIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCP 247 (393)
T ss_pred HHHHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHh-HHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHh
Q 016653 241 EILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGL-TEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAF 319 (385)
Q Consensus 241 e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~-~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~f 319 (385)
|++.+++..|.++++++++|+|+|+.|+..|... .+.+..|.|+++|.++++++||.++|.|+++||++++|++||++|
T Consensus 248 Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aF 327 (393)
T KOG0687|consen 248 EVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAF 327 (393)
T ss_pred HHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999666 888999999999999999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhhhhhcC
Q 016653 320 GVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRVIDL 385 (385)
Q Consensus 320 g~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~~~~~~ 385 (385)
|||+++++++|.+||.+|+|+||||++||+|++|+||.+|.+|+.+|++||.|+|||||++++|++
T Consensus 328 gVSVefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~KN~qyq~vikqGd~LLnriQK~~rvi~~ 393 (393)
T KOG0687|consen 328 GVSVEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDEKNAQYQAVIKQGDLLLNRIQKLSRVINL 393 (393)
T ss_pred CchHHHHHhHHHHhhccCceeeeeecccceeecCCccccchHHHHHHhhhHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999999999999999999999999975
No 2
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3e-72 Score=509.30 Aligned_cols=382 Identities=35% Similarity=0.638 Sum_probs=358.7
Q ss_pred CCCCCCCCcchhHhHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcC-------CCCCHHHHHHHHHHH
Q 016653 1 MDSEGTQQAHLVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESV-------LEMDQSVLDSMRTKI 73 (385)
Q Consensus 1 ~~~~~~~~p~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~-------~~~D~~~~~~~~~~~ 73 (385)
|++.....|++.+.+.+|++..+.....+..++. -+...|+..+|+|+|+.+|++.+ +..|.+.++++-++|
T Consensus 13 ~~~~~~~vp~l~vs~~~fll~~~kl~n~~~ka~e-~l~~~i~d~~maplYkyL~E~~n~kt~a~~ikfD~~~~n~l~kkn 91 (412)
T COG5187 13 PMDFDFQVPTLLVSDAIFLLHGTKLGNPESKALE-HLERLIIDKCMAPLYKYLAEKGNPKTSASVIKFDRGRMNTLLKKN 91 (412)
T ss_pred cCchhccCCceehhhHHHHhcccccCChhhHHHH-HHHHHHHHhhhhHHHHHHHhccCCcccchheehhhHHHHHHHHhh
Confidence 5677889999999999999998765544444555 48899999999999999999864 567888999999999
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHH
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLI 153 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~ 153 (385)
++++++|++.+++.++-.|+.++..|+..+|+||+++||.+++.+...+.....++.+-|+|+.+.++|++++.||-..|
T Consensus 92 eeki~Elde~i~~~eedngE~e~~ea~~n~aeyY~qi~D~~ng~~~~~~~~~~a~stg~KiDv~l~kiRlg~~y~d~~vV 171 (412)
T COG5187 92 EEKIEELDERIREKEEDNGETEGSEADRNIAEYYCQIMDIQNGFEWMRRLMRDAMSTGLKIDVFLCKIRLGLIYGDRKVV 171 (412)
T ss_pred HHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcccchhhHHHHHHHHHhhccHHHH
Confidence 99999999999999888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHH
Q 016653 154 SKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLK 233 (385)
Q Consensus 154 ~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk 233 (385)
.+.+++++.++++||||+|+||+|+|.|++.|..|+|++|+.+|.++++||+++|+++|.++++|+++|++++++|.++|
T Consensus 172 ~e~lE~~~~~iEkGgDWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~dik 251 (412)
T COG5187 172 EESLEVADDIIEKGGDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRDIK 251 (412)
T ss_pred HHHHHHHHHHHHhCCCHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCChHHHHHhcCcch---HHHHHHHHHhccHHHHHHHHH-HhHHHhhhchhHhHhHHHHHHHHHHHHHHHhcccccc
Q 016653 234 QKVVDAPEILTVIGKIPY---LSEFLNSLYDCQYKSFFSAFA-GLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKS 309 (385)
Q Consensus 234 ~~v~~~~e~~~~l~~~p~---~~~li~~f~~~~y~~~~~~L~-~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~ 309 (385)
++|+++||++.++++... +..+++++|.|||+++|..|. .+.+.|..|.|+..|++.|+++||.++|.|.+++|+.
T Consensus 252 tki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~ 331 (412)
T COG5187 252 TKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRL 331 (412)
T ss_pred hhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999876554 578899999999997666555 4588999999999999999999999999999999999
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhhhhh
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRVI 383 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~~~~ 383 (385)
.+|++||+.||+|++.+++.|..||.+|+|+|+||++||+|++++||.+|.+|+.++++||+|++|+||....|
T Consensus 332 lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~vVkqGd~ll~klqKy~atv 405 (412)
T COG5187 332 LSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSVVKQGDDLLRKLQKYVATV 405 (412)
T ss_pred hhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHHHhcchHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998776
No 3
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=3.9e-70 Score=515.40 Aligned_cols=364 Identities=22% Similarity=0.317 Sum_probs=342.1
Q ss_pred hhHhHHhHhhcCCCCccchHHhHHHHHHHHHHh-CCCHHHHHHHHH--hc----C-------------CCCCHHHHHHHH
Q 016653 11 LVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKA-HDMASFYETLVA--ES----V-------------LEMDQSVLDSMR 70 (385)
Q Consensus 11 l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~-~~m~~~y~~~~~--~~----~-------------~~~D~~~~~~~~ 70 (385)
..|-|+.|++.| ||+++.++++. +++.+|+ |-++..|.+++. ++ + .+.|..|+++..
T Consensus 47 ~~i~RllfIA~~--cp~Lr~~Al~~-Ai~~vk~~t~nv~ly~~l~~~~k~~~~L~~~~~~~~~~~~e~~~~D~~WvE~~~ 123 (466)
T KOG0686|consen 47 NRILRLLFIARH--CPDLRVEALRM-AIDEVKEDTYNVDLYQELFNASKIQGELGRAPFKNPQLGFEGYLLDEKWVETNN 123 (466)
T ss_pred HHHHHHHHHHHh--CchHHHHHHHH-HHHHHHhcCcchhHHHHHHHHHHhcchhhcCCCCCccccccccccchHHHHHhh
Confidence 467899999999 78999999998 8899999 999999999999 43 1 568999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCH
Q 016653 71 TKIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDF 150 (385)
Q Consensus 71 ~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~ 150 (385)
.+..+++++|+.+|+.|++|+|+||||+|+.++|+||.+||++++|+++|.++|+|||+.+|.++||+++|+++|..|||
T Consensus 124 ~~a~~~le~L~~eLk~yK~n~iKEsiRra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw 203 (466)
T KOG0686|consen 124 KKAVLKLEKLDNELKSYKDNLIKESIRRALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNW 203 (466)
T ss_pred HHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhHHHHHHHHHhcCC--ChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc-cCCcCccCCHhHHHHHHHHHHHhhC
Q 016653 151 DLISKSIDKAKSLFEEGG--DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS-TFTTYELFPYDTFIFYTVLTSIISL 227 (385)
Q Consensus 151 ~~~~~~i~ka~~~~~~~~--~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~-t~~~~e~~~~~~~~~Y~~l~al~s~ 227 (385)
.||..++++|++.++... .++...+++|+.|+.++..|+|+.|+.+|+.+.. +.++.+++++.|+++|++||||+++
T Consensus 204 ~hv~sy~~~A~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtf 283 (466)
T KOG0686|consen 204 GHVLSYISKAESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATF 283 (466)
T ss_pred hhhhhHHHHHHhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccC
Confidence 999999999999874321 2345689999999999999999999999999854 3456799999999999999999999
Q ss_pred ChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhcccc
Q 016653 228 DRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESY 307 (385)
Q Consensus 228 ~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY 307 (385)
+|.+|+..|++|..|+.|++.+|.+++++.+||+++|+.|++.|.+.++.+..|+||++||+.++..||.+++.||+.||
T Consensus 284 dr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py 363 (466)
T KOG0686|consen 284 DRQDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPY 363 (466)
T ss_pred CHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQ 377 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q 377 (385)
+++++++||.+||+|+.++|++|-++|.+|+|+||||+.+|++.+...+++++.++++.-.|+....+..
T Consensus 364 ~s~~m~~mA~af~~sv~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~~~~~~~k 433 (466)
T KOG0686|consen 364 SSADMSKMAEAFNTSVAILESELLELILEGKISGRIDSHNKILYARDADSENATFERVLPMGKRSQLEAK 433 (466)
T ss_pred ccchHHHHHHHhcccHHHHHHHHHHHHHccchheeeccccceeeecccccccchhhhcchhhHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999988876555443
No 4
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.1e-45 Score=337.79 Aligned_cols=355 Identities=17% Similarity=0.226 Sum_probs=300.2
Q ss_pred CcchhHhHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcCCCCC-HHHHHHHHHHHHHHHHHHHHHHHH
Q 016653 8 QAHLVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESVLEMD-QSVLDSMRTKIEDELKKLDDRIAD 86 (385)
Q Consensus 8 ~p~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~~D-~~~~~~~~~~~~~~l~~Le~~l~~ 86 (385)
..||.+|.|.|+.....+++ .++.++.++++++|||++|..++.+.++...| |.-+.+.+...-+++++|+++...
T Consensus 15 DrHLifPLlEFl~~r~iy~~---keLle~k~~ll~~TNMiDy~md~~k~l~~sed~p~a~~ekr~~Vla~lkeLe~ev~p 91 (432)
T KOG2758|consen 15 DRHLIFPLLEFLSLRQIYDE---KELLEAKLQLLNKTNMIDYVMDTYKNLHTSEDMPNALVEKRTEVLAELKELEEEVAP 91 (432)
T ss_pred hhHHHHHHHHHhhhhccCCH---HHHHHHHHHHHcccchHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999987 45666799999999999999999998876666 666677777788888888887665
Q ss_pred H---------------------------HHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh-HHHhHH
Q 016653 87 A---------------------------EENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ-KMDLVF 138 (385)
Q Consensus 87 ~---------------------------~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~-~id~~l 138 (385)
. +...++.+..++++++|+|.|+||+|+.|..+++..|..|..++. .++..|
T Consensus 92 iv~~le~Pd~~~~~~~~k~~~~~l~~L~e~ynf~~e~i~~lykyakfqyeCGNY~gAs~yLY~~r~l~~~~d~n~lsalw 171 (432)
T KOG2758|consen 92 IVKVLENPDLIAALRSDKDRVQNLQHLQEHYNFTPERIETLYKYAKFQYECGNYSGASDYLYFYRALVSDPDRNYLSALW 171 (432)
T ss_pred HHHHHcCHHHHHHHHhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCcccHHHHHHHHHHhcCCcchhhHHHHH
Confidence 4 244577888899999999999999999999999999999977665 899999
Q ss_pred HHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhcc---------ccCC----
Q 016653 139 YTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI---------STFT---- 205 (385)
Q Consensus 139 ~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~---------~t~~---- 205 (385)
|.+...|+..||+.+.+.+.|.++.+++.. +-....++.+|.|..+|++|.-.- +-|.
T Consensus 172 GKlASEIL~qnWd~A~edL~rLre~IDs~~---------f~~~~~~l~qRtWLiHWslfv~fnhpkgrd~iid~fly~p~ 242 (432)
T KOG2758|consen 172 GKLASEILTQNWDGALEDLTRLREYIDSKS---------FSTSAQQLQQRTWLIHWSLFVFFNHPKGRDTIIDMFLYQPP 242 (432)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHcccc---------cccHHHHHHHHHHHHHHHHHhhccCCChhhHHHHHHccCHH
Confidence 999999999999999999999999998643 223456789999999999986421 1122
Q ss_pred --cCccCCHhHHHHHHHHHHHhhCC--hhHHHhhccCChHHHHHhcCcc-----hHHHHHHHHH-hccHHHHHHHHHHhH
Q 016653 206 --TYELFPYDTFIFYTVLTSIISLD--RVSLKQKVVDAPEILTVIGKIP-----YLSEFLNSLY-DCQYKSFFSAFAGLT 275 (385)
Q Consensus 206 --~~e~~~~~~~~~Y~~l~al~s~~--R~~lk~~v~~~~e~~~~l~~~p-----~~~~li~~f~-~~~y~~~~~~L~~~~ 275 (385)
..-..+++++++|+..+.+.+.. |+.|| ++.+++.++. ++.+++.|.| +-||.+.+..|.+|+
T Consensus 243 YLNaIQt~cPhllRYLatAvvtnk~~rr~~lk-------dlvkVIqqE~ysYkDPiteFl~clyvn~DFdgAq~kl~eCe 315 (432)
T KOG2758|consen 243 YLNAIQTSCPHLLRYLATAVVTNKRRRRNRLK-------DLVKVIQQESYSYKDPITEFLECLYVNYDFDGAQKKLRECE 315 (432)
T ss_pred HHHHHHhhCHHHHHHHHHHhhcchHhhHHHHH-------HHHHHHHHhccccCCcHHHHHHHHhhccchHHHHHHHHHHH
Confidence 23456889999999887776632 34454 4556665544 3555666543 459999999999999
Q ss_pred HHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCC
Q 016653 276 EQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 355 (385)
Q Consensus 276 ~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~ 355 (385)
.++.+|+||....+.|.++.|..+++.||+.|+||+++.+|.+++|+++++|+|++++|++.||+||||+..|.|.|..+
T Consensus 316 eVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg~~ 395 (432)
T KOG2758|consen 316 EVLVNDFFLVALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMGHP 395 (432)
T ss_pred HHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeecCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999977
Q ss_pred CchhHHHHHHHHhhHHHHHHHHHhhhhh
Q 016653 356 DAKNALYQATIKQGDFLLNRIQKLSRVI 383 (385)
Q Consensus 356 d~~~~~y~~~i~~g~~l~~r~q~l~~~~ 383 (385)
..+.||++|+++++|..|.|.|+..+
T Consensus 396 --~~s~~qQ~ie~tksLS~rsq~la~~l 421 (432)
T KOG2758|consen 396 --TVSPHQQLIEKTKSLSFRSQNLAQQL 421 (432)
T ss_pred --CCCHHHHHHHhccccchhHHHHHHHH
Confidence 45899999999999999999998765
No 5
>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=100.00 E-value=1.9e-43 Score=312.91 Aligned_cols=174 Identities=42% Similarity=0.713 Sum_probs=171.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHH
Q 016653 62 DQSVLDSMRTKIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTL 141 (385)
Q Consensus 62 D~~~~~~~~~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i 141 (385)
|++|+++++++|++++++|+.+|++|++|+|++|||+++.++|+||+++||+++|+++|.+++++|++++|++||++++|
T Consensus 1 D~~w~~~~~~~~~~~~~~Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~i 80 (177)
T PF10602_consen 1 DEEWIEETKAKNAEELEKLEAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVI 80 (177)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCc---CccCCHhHHHHH
Q 016653 142 QLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTT---YELFPYDTFIFY 218 (385)
Q Consensus 142 ~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~---~e~~~~~~~~~Y 218 (385)
|++++.+||.+|.++++||+.+++.++||+++||+++|.|+++|.+|+|+.|++.|+++.+||++ .++++|+|+++|
T Consensus 81 rv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y 160 (177)
T PF10602_consen 81 RVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIY 160 (177)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999987 899999999999
Q ss_pred HHHHHHhhCChhHHHhh
Q 016653 219 TVLTSIISLDRVSLKQK 235 (385)
Q Consensus 219 ~~l~al~s~~R~~lk~~ 235 (385)
++|||++|++|++||++
T Consensus 161 ~~l~aLat~~R~eLk~K 177 (177)
T PF10602_consen 161 GGLCALATLDRSELKKK 177 (177)
T ss_pred HHHHHHHhCCHHHHccC
Confidence 99999999999999864
No 6
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.4e-36 Score=278.53 Aligned_cols=270 Identities=18% Similarity=0.234 Sum_probs=246.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--------CCChhh
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--------GGDWER 172 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--------~~~~~~ 172 (385)
-+|...|++.++|.+|+.....+.... .++|....++.+.++.+...+...++.||++.+.+ .++|..
T Consensus 132 arli~Ly~d~~~YteAlaL~~~L~rEl----KKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPql 207 (411)
T KOG1463|consen 132 ARLIRLYNDTKRYTEALALINDLLREL----KKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQL 207 (411)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHH----HhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHH
Confidence 468889999999999999998876443 57888888999999999999999999999998764 478999
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCcc-CCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhc-Ccc
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYEL-FPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG-KIP 250 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~-~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~-~~p 250 (385)
++.++..+|+.+..+|||++|.++|+|+|++|++... ..+-..++|+.||.||-+.+.++.. ++.++..+++-+ ...
T Consensus 208 Qa~lDLqSGIlha~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMln~~ddv~~-lls~K~~l~y~g~~i~ 286 (411)
T KOG1463|consen 208 QATLDLQSGILHAAEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIMLNLPDDVAA-LLSAKLALKYAGRDID 286 (411)
T ss_pred HHHHHHhccceeecccccchHHHHHHHHHccccccCCcHHHHHHHHHHHHHHHHhcCHHHHHH-HHhhHHHHhccCcchH
Confidence 9999999999999999999999999999999987654 5677889999999999999999965 888888888643 334
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHH
Q 016653 251 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 251 ~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
.|+.+..+|.+++...|..+|.+++.+|..|++++.|...+++++-.+.+.+.++||++|.|+++|+.+|+++..+|+.|
T Consensus 287 AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~~VEkKL 366 (411)
T KOG1463|consen 287 AMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVPQVEKKL 366 (411)
T ss_pred HHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhhhh
Q 016653 331 SRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRV 382 (385)
Q Consensus 331 ~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~~~ 382 (385)
++||.|+++.|.+|+.+|++......+.+++|+.++++ |+.|+.|
T Consensus 367 sqMILDKkf~G~LDQg~g~Liv~~e~~~d~~y~~aLet-------I~~m~kV 411 (411)
T KOG1463|consen 367 SQMILDKKFYGTLDQGEGCLIVFEEPPADNTYDAALET-------IQNMGKV 411 (411)
T ss_pred HHHHHHHHhhcccccCCCeEEEeCCCCcchHHHHHHHH-------HHhccCC
Confidence 99999999999999999999999888899999999998 6766643
No 7
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=8.4e-32 Score=244.19 Aligned_cols=274 Identities=16% Similarity=0.196 Sum_probs=234.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccc---------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAV---------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDW 170 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~---------~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~ 170 (385)
..+||++|++.|+|.+-.+.+.+++..|.+. .+.++++-..|+++....|....+....++-..-.+-+.|
T Consensus 148 NtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHP 227 (440)
T KOG1464|consen 148 NTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHP 227 (440)
T ss_pred cchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCch
Confidence 5689999999999999999999999999542 3466788888888888888888888888776665666889
Q ss_pred hhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcc
Q 016653 171 ERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP 250 (385)
Q Consensus 171 ~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p 250 (385)
...+.++.|+|.++|.+|.|.+|...|+++|.+|+.++.-.--.+++|+||+.|+..+ + .++++++|.+.|. .+|
T Consensus 228 lImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS--~--iNPFDsQEAKPyK-NdP 302 (440)
T KOG1464|consen 228 LIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKS--G--INPFDSQEAKPYK-NDP 302 (440)
T ss_pred HHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHc--C--CCCCcccccCCCC-CCH
Confidence 9999999999999999999999999999999988644333333889999999998743 3 3589999988875 667
Q ss_pred h---HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHH
Q 016653 251 Y---LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFID 327 (385)
Q Consensus 251 ~---~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE 327 (385)
+ |.+++.+|.+.+..+|.++|...++.++.|||++.|+..++++||.+++...++||++|.|..+++.+++++.+++
T Consensus 303 EIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~ 382 (440)
T KOG1464|consen 303 EILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVE 382 (440)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHH
Confidence 5 7899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCccceEEecCCCEEEEcCCCchhHH-HHHHHHhhHHHHHHHHHhhhh
Q 016653 328 VELSRFIAAGKLHCKIDKVAGVLETNRPDAKNAL-YQATIKQGDFLLNRIQKLSRV 382 (385)
Q Consensus 328 ~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~-y~~~i~~g~~l~~r~q~l~~~ 382 (385)
..||.+|.|.+|+|+||.+++.++..+.....+. |..+=+ -.++++.|...
T Consensus 383 ~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~~k~~~al~k----W~~ql~Sl~~~ 434 (440)
T KOG1464|consen 383 SLLVSCILDDTIDGRIDEVNQYLELDKSKNSGSKLYKALDK----WNNQLKSLQSN 434 (440)
T ss_pred HHHHHHHhccccccchHHhhhHhccCccCCcchHHHHHHHH----HHHHHHHHHHH
Confidence 9999999999999999999999999866543333 444333 34566665543
No 8
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1e-30 Score=238.19 Aligned_cols=264 Identities=17% Similarity=0.250 Sum_probs=236.6
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--------CCChhh
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--------GGDWER 172 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--------~~~~~~ 172 (385)
-+++..+|+.|.|.+|+..+..+.... +++|...+++.+.++.+..-+...++.|+++.+.+ .|+|..
T Consensus 129 ~Kli~l~y~~~~YsdalalIn~ll~El----Kk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpql 204 (421)
T COG5159 129 CKLIYLLYKTGKYSDALALINPLLHEL----KKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQL 204 (421)
T ss_pred HHHHHHHHhcccHHHHHHHHHHHHHHH----HhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHH
Confidence 467888999999999999998876433 56777788888888888888888888888876653 588999
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCc-cCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcC--c
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYE-LFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGK--I 249 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e-~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~--~ 249 (385)
++.++..+|+.+...|||++|.++|+|++++|+... -..+-..++|+.|+.|+.+.|++++. ++.++..++.... .
T Consensus 205 qa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN~~~evk~-vl~~K~t~~~y~~r~I 283 (421)
T COG5159 205 QAQLDLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLNRREEVKA-VLRNKNTLKHYDDRMI 283 (421)
T ss_pred HHHHHHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHhhHHHHHH-HHccchhHhhhhhhhH
Confidence 999999999999999999999999999999997532 23445778999999999999999976 8999888775533 3
Q ss_pred chHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHH
Q 016653 250 PYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVE 329 (385)
Q Consensus 250 p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~ 329 (385)
..|+.+.++|-|++...|..+|+.+++++..|+|++.|...+++.+-.+.+.+.++||++|.++++|+.+|+++..+|..
T Consensus 284 ~am~avaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgK 363 (421)
T COG5159 284 RAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGK 363 (421)
T ss_pred HHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHH
Confidence 45889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhh
Q 016653 330 LSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQG 369 (385)
Q Consensus 330 L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g 369 (385)
|++||.|+-+.|..|+.+|++.....+..+++|..++++.
T Consensus 364 LsqMILDKifyG~LDqg~gcLivy~ep~qd~tyd~ale~v 403 (421)
T COG5159 364 LSQMILDKIFYGTLDQGDGCLIVYGEPAQDNTYDEALEQV 403 (421)
T ss_pred HHHHHHHHHHHhhhccCCceEEEeCCccccchHHHHHHHH
Confidence 9999999999999999999999999888999999999983
No 9
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=4.2e-20 Score=175.32 Aligned_cols=277 Identities=16% Similarity=0.241 Sum_probs=212.5
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHH--HHHHHHHHHHhCCHHHHHHHHHHHH-hhh--ccchhHHHhHHHHHHHHHHhcC
Q 016653 75 DELKKLDDRIADAEENLGESEVREA--HLAKSLFYIQIGDKEKALEQLKVTE-SKT--VAVGQKMDLVFYTLQLGFFYMD 149 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a--~~~la~~~~~~Gd~~~A~~~~~~~~-~~~--~~~~~~id~~l~~i~~~i~~~~ 149 (385)
....+|.+.|+.+++|.|..|+.+| .-.|++.+.++||..+|+..+..+. +.. +..+.++.+.|.++|+++..+|
T Consensus 107 ~~k~~li~tLr~VtegkIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D 186 (439)
T KOG1498|consen 107 ETKIKLIETLRTVTEGKIYVEVERARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLD 186 (439)
T ss_pred hhHHHHHHHHHHhhcCceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhh
Confidence 3455678889999999999999999 6689999999999999999999887 444 4457799999999999999999
Q ss_pred HHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHH--hccccCCHHHHHHHHHhccccCCcC----ccCCHhHHHHHHHHHH
Q 016653 150 FDLISKSIDKAKSLFEEGGDWERKNRLKVYEGL--YCMSTRNFKKAASLFLDSISTFTTY----ELFPYDTFIFYTVLTS 223 (385)
Q Consensus 150 ~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl--~~l~~r~~~~Aa~~f~e~~~t~~~~----e~~~~~~~~~Y~~l~a 223 (385)
|..+.....|++.-.-...+ ...-|+++|.-+ ..++.|.|..+++++-.+..+-.-. .++.-.-.+.+.++.|
T Consensus 187 ~vra~i~skKI~~K~F~~~~-~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~~LA 265 (439)
T KOG1498|consen 187 YVRAQIISKKINKKFFEKPD-VQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFCVLA 265 (439)
T ss_pred HHHHHHHHHHhhHHhcCCcc-HHHHHHHHHHHHHHhcccccchhhHHHHHHHHhcccccccChhhhhhhhhhheeEEeec
Confidence 99999999998876533222 345688888655 5678999999999998876543211 1122122233334445
Q ss_pred HhhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhH-----------hHhHHHHH
Q 016653 224 IISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYL-----------YPHFRYYM 292 (385)
Q Consensus 224 l~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l-----------~~h~~~l~ 292 (385)
.....++++-.++..+.. ++..|...+++..|.+...-.+-..-+.+.+.+..+.|+ .-+.+.+-
T Consensus 266 p~dneQsdll~~is~dKk----L~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiE 341 (439)
T KOG1498|consen 266 PHDNEQSDLLARISNDKK----LSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIE 341 (439)
T ss_pred CCCcHHHHHHHHHhcccc----cccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHH
Confidence 555667787777665544 678899999999999986665554445555555544222 23455677
Q ss_pred HHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHH
Q 016653 293 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNAL 361 (385)
Q Consensus 293 ~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~ 361 (385)
+|+|. ++.| |++|++.+||..+|+|++++|+.|+.|+..|.+.||||+++|+|.+..+...+..
T Consensus 342 HNiRi--iA~y---YSrIt~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~~~ 405 (439)
T KOG1498|consen 342 HNIRI--IAKY---YSRITLKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSNEI 405 (439)
T ss_pred HHHHH--HHHH---HhhccHHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCCCceEEEEecccHHHH
Confidence 77776 8899 9999999999999999999999999999999999999999999999988654443
No 10
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.78 E-value=2.9e-17 Score=151.18 Aligned_cols=296 Identities=13% Similarity=0.154 Sum_probs=211.7
Q ss_pred HHHHHHHHHHHHHHhhCHHHHHHH--HHHHHHHHHHhCCHHHHHHHHHHHH-hhh--ccchhHHHhHHHHHHHHHHhcCH
Q 016653 76 ELKKLDDRIADAEENLGESEVREA--HLAKSLFYIQIGDKEKALEQLKVTE-SKT--VAVGQKMDLVFYTLQLGFFYMDF 150 (385)
Q Consensus 76 ~l~~Le~~l~~~~~n~~~~~ir~a--~~~la~~~~~~Gd~~~A~~~~~~~~-~~~--~~~~~~id~~l~~i~~~i~~~~~ 150 (385)
...-+.+.|+++++|.|..|+.++ ...|.+.+..+||...|...+.... +.. ...+.++...+.++|+++..+||
T Consensus 108 t~i~~ietlr~VtEgkIFvEvERariT~~L~~ikee~Gdi~sA~Dilcn~pVETygs~~~Sekv~fiLEQ~rL~vl~~Dy 187 (439)
T COG5071 108 TKINLIETLRTVTEGKIFVEVERARLTQLLSQIKEEQGDIKSAQDILCNEPVETYGSFDLSEKVAFILEQVRLFLLRSDY 187 (439)
T ss_pred chHhHHHHHHHHhcCceEEehhHHHHHHHHHHHHHHhcchhHHHHHHhcCchhhccchhHHHHHHHHHHHHHHHHhccch
Confidence 345566788899999999888888 6789999999999999999998765 333 34577999999999999999999
Q ss_pred HHHHhHHHHHHHHHhcCCChhhhhhhhHHHHH--hccccCCHHHHHHHHHhccccCC--cCccCCH--hHHHHHHHHHHH
Q 016653 151 DLISKSIDKAKSLFEEGGDWERKNRLKVYEGL--YCMSTRNFKKAASLFLDSISTFT--TYELFPY--DTFIFYTVLTSI 224 (385)
Q Consensus 151 ~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl--~~l~~r~~~~Aa~~f~e~~~t~~--~~e~~~~--~~~~~Y~~l~al 224 (385)
..|..+..|+..-.-+..| ...-+++.|.=+ .++++|.|..++.++-++..|.. ..+..-+ ...+.|+++...
T Consensus 188 ~~A~~~~kKI~KK~Fe~~d-~~slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~t~~~~~d~Akwk~VLS~~v~F~iLtp 266 (439)
T COG5071 188 YMASTYTKKINKKFFEKED-VQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDTAVVQEDPAKWKEVLSNVVCFALLTP 266 (439)
T ss_pred HHHHHHHHHHHHHHhcccc-HHHHHHHHHHHhheeecccHHHHHHHHHHHHHHHHHHhccCcccccchhhcceeeEEecc
Confidence 9999999998876433222 335688888766 57889999999999988765431 1111111 112244444455
Q ss_pred hhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhhchh-Hh-----HhHH-----HHHH
Q 016653 225 ISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRY-LY-----PHFR-----YYMR 293 (385)
Q Consensus 225 ~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~-l~-----~h~~-----~l~~ 293 (385)
......+|-.++-++-. +...|...+++.+|....+-.---.=..+.+.+..|.| +. .|.+ .+-+
T Consensus 267 y~neq~dlvhKi~~d~k----l~sl~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEH 342 (439)
T COG5071 267 YDNEQADLLHKINADHK----LNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEH 342 (439)
T ss_pred cccHHHHHHHHhhhhhh----hccchhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHh
Confidence 55566676655533322 33567777888888776554433333334555555533 21 3333 3445
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHH
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLL 373 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~ 373 (385)
++|. ++.| ||+|+..++...+++|++++|+.|+.|+..|-+.|||++++|+|.+.+|.....+..+.-...+.++
T Consensus 343 N~Rv--I~~y---YSrI~~~rl~~lld~~~s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n~~~~lneW~~NV~ell 417 (439)
T COG5071 343 NIRV--IANY---YSRIHCSRLGVLLDMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELL 417 (439)
T ss_pred hHhH--HHHH---hhhhhHHHHHHHHcCCHHHHHHHHHHHHhcCcEEEEecCccceEEeeccccHHHHHHHhcccHHHHH
Confidence 5554 8899 9999999999999999999999999999999999999999999999988554444444444556666
Q ss_pred HHHHHhhh
Q 016653 374 NRIQKLSR 381 (385)
Q Consensus 374 ~r~q~l~~ 381 (385)
.++-+..-
T Consensus 418 gklek~~H 425 (439)
T COG5071 418 GKLEKVRH 425 (439)
T ss_pred HHHHHHhH
Confidence 66665543
No 11
>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=99.77 E-value=4.3e-18 Score=137.53 Aligned_cols=104 Identities=25% Similarity=0.360 Sum_probs=99.0
Q ss_pred chHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHH
Q 016653 250 PYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVE 329 (385)
Q Consensus 250 p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~ 329 (385)
|++.+++++|..++|..|.+.+..+...+..|+++..|++.+.+.+|.+++.+++.||++|+++.||+.|+++.+++|.+
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~~vE~~ 80 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEEEVESI 80 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHHHHHHH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchHHHHHH
Confidence 78999999999999999999999998889999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCccceEEecCCCEEEEc
Q 016653 330 LSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 330 L~~lI~~g~l~akID~~~giv~~~ 353 (385)
++++|.+|.|+|+||+++|+|+++
T Consensus 81 l~~~I~~~~i~~~ID~~~~~v~~~ 104 (105)
T PF01399_consen 81 LIDLISNGLIKAKIDQVNGVVVFS 104 (105)
T ss_dssp HHHHHHTTSSEEEEETTTTEEEE-
T ss_pred HHHHHHCCCEEEEEECCCCEEEec
Confidence 999999999999999999999986
No 12
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.69 E-value=3.9e-15 Score=138.18 Aligned_cols=275 Identities=16% Similarity=0.126 Sum_probs=192.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh----hccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC
Q 016653 93 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESK----TVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG 168 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~----~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~ 168 (385)
.+.+.-....||.+|.+-|++..|...+.-+--. -.+.+.++..|+.+.|+.+..+|...+..+++|+.-+.....
T Consensus 99 eEqv~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~ 178 (399)
T KOG1497|consen 99 EEQVASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESS 178 (399)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhccc
Confidence 3455666899999999999999999998765321 234577899999999999999999999999999998876567
Q ss_pred ChhhhhhhhHHHHHhccccCCHHHHHHHHHhcccc--CCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHh
Q 016653 169 DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST--FTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVI 246 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t--~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l 246 (385)
++..+-..|+|.+...-..|.|.+||..+++...+ -+..+..++..-+.-+++.|.++-.|+.+...++.++..++
T Consensus 179 Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~-- 256 (399)
T KOG1497|consen 179 NEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQRKIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQK-- 256 (399)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCccccc--
Confidence 88889999999999999999999999999986432 11222333333444555556666778877776766654322
Q ss_pred cCcchHHHHHHHHHhcc------HHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhC
Q 016653 247 GKIPYLSEFLNSLYDCQ------YKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFG 320 (385)
Q Consensus 247 ~~~p~~~~li~~f~~~~------y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg 320 (385)
.|. ..++..+|-.+ ...|...|..+...-..|.-.-.-...+-+|+ ...+++ |.+|+++.+++.|+
T Consensus 257 --l~~-y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgssil~ra~~EhNl--ls~Skl---y~nisf~~Lg~ll~ 328 (399)
T KOG1497|consen 257 --LPA-YGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSSILDRAVIEHNL--LSASKL---YNNISFEELGALLK 328 (399)
T ss_pred --ccc-hHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcchhhhhHHHHHhH--HHHHHH---HHhccHHHHHHHhC
Confidence 232 36666666533 34444444433322111111111111333444 347788 99999999999999
Q ss_pred CChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhhh
Q 016653 321 VTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSR 381 (385)
Q Consensus 321 ~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~~ 381 (385)
++++.+|+..++||..||++|-||+.+|+|++... +.|++.=++.-+|.+-+.|++.
T Consensus 329 i~~ekaekiaa~MI~qeRmng~IDQ~egiihFe~~----e~l~~wdkqi~sl~~qvNki~~ 385 (399)
T KOG1497|consen 329 IDAEKAEKIAAQMITQERMNGSIDQIEGIIHFEDR----EELPQWDKQIQSLCNQVNKILD 385 (399)
T ss_pred CCHHHHHHHHHHHHhHHHhccchHhhcceEeecch----hhhhhhhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999853 3344444444444454544443
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=4e-14 Score=111.03 Aligned_cols=74 Identities=27% Similarity=0.462 Sum_probs=70.9
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchh
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKN 359 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~ 359 (385)
+|++.+.+.+|.+++.+|++||++|+++.||+.|+++.+++|.+|+++|.+|.|+|+||+.+|+|.+.++++|.
T Consensus 1 ~~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~ 74 (88)
T smart00088 1 QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR 74 (88)
T ss_pred ChHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh
Confidence 47899999999999999999999999999999999999999999999999999999999999999999887763
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=99.54 E-value=4e-14 Score=111.03 Aligned_cols=74 Identities=27% Similarity=0.462 Sum_probs=70.9
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchh
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKN 359 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~ 359 (385)
+|++.+.+.+|.+++.+|++||++|+++.||+.|+++.+++|.+|+++|.+|.|+|+||+.+|+|.+.++++|.
T Consensus 1 ~~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~ 74 (88)
T smart00753 1 QLVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR 74 (88)
T ss_pred ChHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh
Confidence 47899999999999999999999999999999999999999999999999999999999999999999887763
No 15
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=1.2e-09 Score=102.89 Aligned_cols=258 Identities=17% Similarity=0.191 Sum_probs=198.3
Q ss_pred HHHhCCHHHHHHHHHHHHhhh---ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhhhhhhHHHH
Q 016653 107 YIQIGDKEKALEQLKVTESKT---VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERKNRLKVYEG 181 (385)
Q Consensus 107 ~~~~Gd~~~A~~~~~~~~~~~---~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~~~~~~l~~~~g 181 (385)
..+++|.++|++.+.++.+.. ..++.++-+...+.|+.+..||...+++.+...++.+++ +.++...+..-..+.
T Consensus 85 ~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lss 164 (380)
T KOG2908|consen 85 SEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSS 164 (380)
T ss_pred HHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHH
Confidence 457889999999999998665 344567778888899999999999999999999998876 334445565555566
Q ss_pred HhccccCCHHHHHHH---HHhccccCCcCccCCHh--HHHHHHHHHHHhhC---ChhHHHhhccCChHHHHHhc-CcchH
Q 016653 182 LYCMSTRNFKKAASL---FLDSISTFTTYELFPYD--TFIFYTVLTSIISL---DRVSLKQKVVDAPEILTVIG-KIPYL 252 (385)
Q Consensus 182 l~~l~~r~~~~Aa~~---f~e~~~t~~~~e~~~~~--~~~~Y~~l~al~s~---~R~~lk~~v~~~~e~~~~l~-~~p~~ 252 (385)
.++=..|+|....+. |+.+.+ ..+..... +.+.-++++|+++- .=.+|. .-|-+.+..+ +..++
T Consensus 165 qYyk~~~d~a~yYr~~L~YL~~~d---~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL----~HPilesL~gT~~eWL 237 (380)
T KOG2908|consen 165 QYYKKIGDFASYYRHALLYLGCSD---IDDLSESEKQDLAFDLSLAALLGENIYNFGELL----AHPILESLKGTNREWL 237 (380)
T ss_pred HHHHHHHhHHHHHHHHHHHhcccc---ccccCHHHHHHHHHHHHHHHHhccccccHHHHH----hhHHHHHhcCCcHHHH
Confidence 777777787665543 333322 12222233 78889999999973 223332 2233333333 34579
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccc----cccccHHHHHHHhCCChHHHHH
Q 016653 253 SEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLES----YKSVTIEAMAKAFGVTVEFIDV 328 (385)
Q Consensus 253 ~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~p----Y~~I~l~~mA~~fg~s~~~iE~ 328 (385)
.+++.+|-.+|+..|++.-.. ...-|-|..|.+.+.+.||..++...+-. -+.|+++.+|++..+|.+++|-
T Consensus 238 ~dll~Afn~Gdl~~f~~l~~~----~~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eVE~ 313 (380)
T KOG2908|consen 238 KDLLIAFNSGDLKRFESLKGV----WGKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEVEL 313 (380)
T ss_pred HHHHHHhccCCHHHHHHHHHH----hccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHHHH
Confidence 999999999999999765444 45578889999999999999999886542 6889999999999999999999
Q ss_pred HHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHH
Q 016653 329 ELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNR 375 (385)
Q Consensus 329 ~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r 375 (385)
.+.+.+.-|-|.|.||+++|+|++...-||.-.-+++.++++.+-..
T Consensus 314 LVMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W 360 (380)
T KOG2908|consen 314 LVMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEW 360 (380)
T ss_pred HHHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHH
Confidence 99999999999999999999999998888888888998888777543
No 16
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=3.1e-08 Score=95.47 Aligned_cols=232 Identities=14% Similarity=0.157 Sum_probs=161.2
Q ss_pred HHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHh-HHH
Q 016653 138 FYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYD-TFI 216 (385)
Q Consensus 138 l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~-~~~ 216 (385)
-.++|..+..+-++.+...+.|+.- ++...+ ...+|.-.|.|...+-+.+|..|.++|+.+.---+....+.+. .+-
T Consensus 213 N~LLr~yL~n~lydqa~~lvsK~~~-pe~~sn-ne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~ 290 (493)
T KOG2581|consen 213 NLLLRNYLHNKLYDQADKLVSKSVY-PEAASN-NEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVN 290 (493)
T ss_pred HHHHHHHhhhHHHHHHHHHhhcccC-cccccc-HHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHH
Confidence 3357888888888887777666431 232222 2457788999999999999999999999986221112233333 566
Q ss_pred HHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHH
Q 016653 217 FYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVR 296 (385)
Q Consensus 217 ~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR 296 (385)
+.+++..++..+=.+.. +|.-|..++-+ -++.++-++.-.+|.+.|.+.+..+.+.+..|--..-.+ .+-+|+.
T Consensus 291 k~~ivv~ll~geiPers--~F~Qp~~~ksL---~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~Liv-RLR~NVI 364 (493)
T KOG2581|consen 291 KLMIVVELLLGEIPERS--VFRQPGMRKSL---RPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIV-RLRHNVI 364 (493)
T ss_pred HHHHHHHHHcCCCcchh--hhcCccHHHHH---HHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHH-HHHHHHH
Confidence 77777777775543321 44444433322 234577777778999999999999999888876544433 3555555
Q ss_pred HHHHHHhccccccccHHHHHHHhCCC-hHHHHHHHHHHHhCCccceEEecCCCEEEEc------CCCchhHHHHHHHHhh
Q 016653 297 TVVYSQFLESYKSVTIEAMAKAFGVT-VEFIDVELSRFIAAGKLHCKIDKVAGVLETN------RPDAKNALYQATIKQG 369 (385)
Q Consensus 297 ~~~~~qy~~pY~~I~l~~mA~~fg~s-~~~iE~~L~~lI~~g~l~akID~~~giv~~~------~~d~~~~~y~~~i~~g 369 (385)
...+.++--+||+|++..+|+.+|++ ++++|--+++.|++|-|+|+||..+|.+... +++.....|..-|.-+
T Consensus 365 kTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fC 444 (493)
T KOG2581|consen 365 KTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFC 444 (493)
T ss_pred HHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHH
Confidence 55666676789999999999999995 4559999999999999999999999977654 3444445566656555
Q ss_pred HHHHHHHH
Q 016653 370 DFLLNRIQ 377 (385)
Q Consensus 370 ~~l~~r~q 377 (385)
=.|-|-.+
T Consensus 445 l~LhN~~v 452 (493)
T KOG2581|consen 445 LQLHNEAV 452 (493)
T ss_pred HHHHHHHH
Confidence 44544443
No 17
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.84 E-value=8.5e-07 Score=84.62 Aligned_cols=278 Identities=12% Similarity=0.125 Sum_probs=177.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh-ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH---hcCCChhhhhh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKT-VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF---EEGGDWERKNR 175 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~-~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~---~~~~~~~~~~~ 175 (385)
-..++++..+.++---..+.+.++.++. .++++.-.+...++.+++..+++..+..+++---.-+ +..-+|..--.
T Consensus 105 c~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~ 184 (422)
T KOG2582|consen 105 CHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLL 184 (422)
T ss_pred HHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhhHHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHH
Confidence 4566777776666555556666665554 3344555566677888888888877765544222112 11112222222
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCc-CccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHh-cCcchHH
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLDSISTFTT-YELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVI-GKIPYLS 253 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~-~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l-~~~p~~~ 253 (385)
.-.|+|.+++..++|..|.-.|..++.+... ...+--+-.-+|+.+.-|.+..-.+|-+ -.|+.+.++. ...|++.
T Consensus 185 Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa~~vs~~hlEaYkkylLvsLI~~GK~~ql~k--~ts~~~~r~~K~ms~pY~ 262 (422)
T KOG2582|consen 185 YLYYGGMICIGLKRFERALYLLEICVTTPAMAVSHIHLEAYKKYLLVSLILTGKVFQLPK--NTSQNAGRFFKPMSNPYH 262 (422)
T ss_pred HHHhcceeeeccccHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhcCceeeccc--cchhhhHHhcccCCchHH
Confidence 3345889999999999998888777643221 0111112223555554444432222211 2334444443 3467899
Q ss_pred HHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCC-ChHHHHHHHHH
Q 016653 254 EFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELSR 332 (385)
Q Consensus 254 ~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~-s~~~iE~~L~~ 332 (385)
+++++|.+..-.+......+..+.+..|-=.. -+......+-.+.+.++-+-|.+++|+.||+.-.+ +.+++|++|.+
T Consensus 263 ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~-l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilq 341 (422)
T KOG2582|consen 263 EFLNVYLKDSSTELRTLVKKHSERFTKDNNTG-LAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQ 341 (422)
T ss_pred HHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHH-HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHH
Confidence 99999999888887666677777777665433 23344555555667777778999999999996555 66899999999
Q ss_pred HHhCCccceEEecCCCEEEEcC---CCchhHHHHHHHHhhHHHHHHHHHhhhhh
Q 016653 333 FIAAGKLHCKIDKVAGVLETNR---PDAKNALYQATIKQGDFLLNRIQKLSRVI 383 (385)
Q Consensus 333 lI~~g~l~akID~~~giv~~~~---~d~~~~~y~~~i~~g~~l~~r~q~l~~~~ 383 (385)
||.+|++.++|| |.|.+.. ++...+.++.=+.....|..++.++-..|
T Consensus 342 mie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~nk~~~~~~L~e~l~~~e~si 392 (422)
T KOG2582|consen 342 MIEDGEIFASIN---GMVFFTDNPEKYNSPEMHENKIDLCIQLIEALKAMEESI 392 (422)
T ss_pred HhccCceEEEec---ceEEEecCcccCCCHHHHhhHHHHHHHHHHHHHhcchhe
Confidence 999999999999 8877753 33455677776777777777777665443
No 18
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=98.57 E-value=6e-07 Score=75.40 Aligned_cols=79 Identities=22% Similarity=0.255 Sum_probs=61.5
Q ss_pred CcchhHhHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcCCCC-CHHHHHHHHHHHHHHHHHHHHHHHH
Q 016653 8 QAHLVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESVLEM-DQSVLDSMRTKIEDELKKLDDRIAD 86 (385)
Q Consensus 8 ~p~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~~-D~~~~~~~~~~~~~~l~~Le~~l~~ 86 (385)
.+||.+|.|.|+....+++. ..+.++.++++++|||++|..++.++++... .|+-+.+.++.+.+++++|+++...
T Consensus 11 DrHLvfPLLeFl~~~~iy~~---~dl~~akl~LL~~TnMvDy~~d~~~~l~~~~e~p~e~~~kr~~Vl~~l~~l~~~~~~ 87 (133)
T PF09440_consen 11 DRHLVFPLLEFLSDKGIYDE---EDLLKAKLDLLKKTNMVDYAMDLYKELYPDDEVPAELAEKREEVLAELKELEEETEP 87 (133)
T ss_pred hHHHHHHHHHHHhhcccccH---HHHHHHHHHHHHhccchHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999998886 5567779999999999999999999885332 3566666666666677777666655
Q ss_pred HHH
Q 016653 87 AEE 89 (385)
Q Consensus 87 ~~~ 89 (385)
..+
T Consensus 88 v~~ 90 (133)
T PF09440_consen 88 VLE 90 (133)
T ss_pred HHH
Confidence 443
No 19
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=98.45 E-value=2.7e-05 Score=73.63 Aligned_cols=217 Identities=11% Similarity=0.172 Sum_probs=146.0
Q ss_pred hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHh--ccccCCHHHHHHHHHhccccCCcCcc
Q 016653 132 QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLY--CMSTRNFKKAASLFLDSISTFTTYEL 209 (385)
Q Consensus 132 ~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~--~l~~r~~~~Aa~~f~e~~~t~~~~e~ 209 (385)
-...++...+.++...+-...+-.++.+...-+..-+ .....+-..+..++ ......-..+.+-|.+-+.||+....
T Consensus 122 aR~~Vy~~lv~la~~~~~~~~i~~~lk~~~~~lkew~-~~vedqrel~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dna 200 (378)
T KOG2753|consen 122 ARYQVYMSLVTLAASCKLIEYIVPNLKQLDDWLKEWN-ISVEDQRELLRAVHKALKDNKSVDESSKVMTELLGTYTEDNA 200 (378)
T ss_pred HHHHHHHHHHHHHhhcceeeeecccHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccch
Confidence 4556677777777777666666667777776664311 11111112222221 22223356677778888888887666
Q ss_pred CCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhcc---HHHHHHHHHHhHHHhhhchhHhH
Q 016653 210 FPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQ---YKSFFSAFAGLTEQIKLDRYLYP 286 (385)
Q Consensus 210 ~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~---y~~~~~~L~~~~~~l~~D~~l~~ 286 (385)
..+.+=++=++.-++.+-.- =+=..+++=|-+ ++++..+ +.+++.=|.... |.+|...-..+.+..+ +.+
T Consensus 201 s~AredA~rcV~~av~dP~~-F~fD~Ll~L~pV-~qLE~d~-i~qLL~IF~s~~L~aYveF~~~N~~Fvqs~g---l~~- 273 (378)
T KOG2753|consen 201 SEAREDAMRCVVEAVKDPKI-FLFDHLLTLPPV-KQLEGDL-IHQLLKIFVSGKLDAYVEFVAANSGFVQSQG---LVH- 273 (378)
T ss_pred hHHHHHHHHHHHHHHcCCce-eccchhccCchH-HHhccch-HHHHHHHHHhcchHHHHHHHHhChHHHHHhc---ccH-
Confidence 67777777778877765211 000112333444 3365555 789999998865 5555544444333222 212
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCch
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAK 358 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~ 358 (385)
+..+..||..-+.+.-++-..|+++.||+.+.+..+++|-|+++.|..|-+.||||+.+.+|+..+.-.|
T Consensus 274 --E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~~~~viVs~~~hR 343 (378)
T KOG2753|consen 274 --EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQMNRTVIVSSSTHR 343 (378)
T ss_pred --HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhhcceEEeehhhhh
Confidence 3789999999999999999999999999999999999999999999999999999999999998765444
No 20
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.36 E-value=0.0014 Score=67.61 Aligned_cols=194 Identities=16% Similarity=0.203 Sum_probs=124.7
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhcccc------------------CCc-------CccCCHh-----HH--HHHHH
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSIST------------------FTT-------YELFPYD-----TF--IFYTV 220 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t------------------~~~-------~e~~~~~-----~~--~~Y~~ 220 (385)
-||.-+.-||..+.+|--.+|...+.+...| ++. .-.+++- ++ ++|+
T Consensus 529 ~NRtmvQLGLCAFR~Gmi~EaH~~L~dl~st~r~kELLgQgv~~~~~he~t~eQe~~eR~rQlPyHmHINLELlEcVyL- 607 (843)
T KOG1076|consen 529 FNRTMVQLGLCAFRQGMIKEAHQCLSDLQSTGRVKELLGQGVLQRRQHEKTAEQEKIERRRQLPYHMHINLELLECVYL- 607 (843)
T ss_pred HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcchHHHHHhhhhhhhhhhccChhhHHHHHhhcCchhhhccHHHHHHHHH-
Confidence 4888889999999999999999888775433 110 0012221 22 2454
Q ss_pred HHHHhh-CC-----hhHHHhhccCChHHHHHhcC-------cch------HHHHHHHHHhccHHHHHHHHHHhHHHhh--
Q 016653 221 LTSIIS-LD-----RVSLKQKVVDAPEILTVIGK-------IPY------LSEFLNSLYDCQYKSFFSAFAGLTEQIK-- 279 (385)
Q Consensus 221 l~al~s-~~-----R~~lk~~v~~~~e~~~~l~~-------~p~------~~~li~~f~~~~y~~~~~~L~~~~~~l~-- 279 (385)
.|||+- -+ -.+.+.++ -++.|+..|+. -|+ +.....++..++|..|++.+...-+++.
T Consensus 608 tcaMLlEIP~MAA~~~d~Rrr~-iSk~frr~Le~serqsf~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lf 686 (843)
T KOG1076|consen 608 TCAMLLEIPYMAAHESDARRRM-ISKSFRRQLEHSERQSFTGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDLF 686 (843)
T ss_pred HHHHHHhhhHHhhhhhhhhccc-ccHHHHHHHHHHhhccccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhc
Confidence 466542 11 12333333 34566666652 232 3445567889999999996655333322
Q ss_pred --hchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCc
Q 016653 280 --LDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDA 357 (385)
Q Consensus 280 --~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~ 357 (385)
.|..+.--++.+-++--..-+-.|-..|.+|++..||+.|.+|+..+-.-|++||.+.-|+|..|+++++|.+.+..
T Consensus 687 pn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hrvE- 765 (843)
T KOG1076|consen 687 PNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHRVE- 765 (843)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEeecc-
Confidence 34444333333333332223334445688999999999999999999999999999999999999999999998843
Q ss_pred hhHHHHHHHHhh
Q 016653 358 KNALYQATIKQG 369 (385)
Q Consensus 358 ~~~~y~~~i~~g 369 (385)
.+..-.-+++..
T Consensus 766 ~srlq~La~qL~ 777 (843)
T KOG1076|consen 766 PSRLQSLAVQLS 777 (843)
T ss_pred chHHHHHHHHHH
Confidence 444444455443
No 21
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=98.07 E-value=0.00044 Score=65.91 Aligned_cols=194 Identities=13% Similarity=0.147 Sum_probs=125.1
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh---HHHhHHHHHHHHHHh-cCHHHHHhHHHHHHHHHhcCCC
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ---KMDLVFYTLQLGFFY-MDFDLISKSIDKAKSLFEEGGD 169 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~---~id~~l~~i~~~i~~-~~~~~~~~~i~ka~~~~~~~~~ 169 (385)
.+...++...|..|-+. ++++|.++|.+..+.++..|. ....+-.+-++.-.. |+++.+..+..+|-...+..+.
T Consensus 72 ~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~ 150 (282)
T PF14938_consen 72 FEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGS 150 (282)
T ss_dssp HHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence 34455566766666555 888999998888766544333 223344444444444 6999999999999999887666
Q ss_pred hhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccC--CHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhc
Q 016653 170 WERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELF--PYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG 247 (385)
Q Consensus 170 ~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~--~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~ 247 (385)
+...+....--|-.+...++|.+|.+.|-+....+....++ +..+...-.+||-|+..+-...+. .+..+.+
T Consensus 151 ~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~------~~~~~~~ 224 (282)
T PF14938_consen 151 PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARK------ALERYCS 224 (282)
T ss_dssp HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHH------HHHHHGT
T ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHH------HHHHHHh
Confidence 65556555556667888899999999998776544333333 445666677889998866433322 2223333
Q ss_pred Ccc---------hHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHH
Q 016653 248 KIP---------YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMRE 294 (385)
Q Consensus 248 ~~p---------~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ 294 (385)
..| -+.+++.+|-+.|-..|.+.+.++...-.+|+|...-+..+-+.
T Consensus 225 ~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w~~~~l~~~k~~ 280 (282)
T PF14938_consen 225 QDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNWKTKMLLKIKKK 280 (282)
T ss_dssp TSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HHHHHHHHHHHHH
T ss_pred hCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHHHHHHHHHHHhh
Confidence 333 26899999999999999999999999999999976655544433
No 22
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=97.52 E-value=0.0044 Score=60.95 Aligned_cols=232 Identities=16% Similarity=0.138 Sum_probs=145.6
Q ss_pred HHHHHHHHHHHHhhhccc-------hhHHHh---HHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-CCCh--hhhhhhhHH
Q 016653 113 KEKALEQLKVTESKTVAV-------GQKMDL---VFYTLQLGFFYMDFDLISKSIDKAKSLFEE-GGDW--ERKNRLKVY 179 (385)
Q Consensus 113 ~~~A~~~~~~~~~~~~~~-------~~~id~---~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~-~~~~--~~~~~l~~~ 179 (385)
+++|.+...+....|.+. +.+.-+ .-...+++.-.+..... +++-||-..... ..++ ...-..+.|
T Consensus 132 le~~s~~i~~~f~~cl~d~~~~~~~~kk~~~~~i~n~lf~Iyfri~~~~L~-k~l~ra~~~~~~~~~~~~l~~~v~y~Yy 210 (394)
T KOG2688|consen 132 LEAASRTISRLFSSCLSDRRADLEESKKVAMLYIVNQLFQIYFRIEKLLLC-KNLIRAFDQSGSDISDFPLAQLVVYHYY 210 (394)
T ss_pred HHHHHHHHHHHHHHHhCccccccccchhhHHHHHHHHHHHHHHHHhhHHHh-HHHHHHhhccccchhhcccccceeeeee
Confidence 677777777777777443 222222 22223334333443333 333333222100 0111 123455667
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcc--hHHHHHH
Q 016653 180 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP--YLSEFLN 257 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p--~~~~li~ 257 (385)
-|...|.+.||..|...+-++|..-...-+....-+++|++-+++.... . ....+++..+ .+..++.
T Consensus 211 lGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n~~~iliylip~~~llg~----------~-Pt~~lL~~~~~~~~~~lv~ 279 (394)
T KOG2688|consen 211 LGRYAMFESDFLNAFLQLNEAFRLCPDLLLKNKRLILIYLIPTGLLLGR----------I-PTKELLDFYTLDKYSPLVQ 279 (394)
T ss_pred eeeehhhhhhHHHHHHHHHHHHHhCcHHHHhhhhhHHHHHhHHHHHhcc----------C-cchhhHhHhhHHhHHHHHH
Confidence 8999999999999999988887543222223455688999998887643 0 1122333333 5778888
Q ss_pred HHHhccHHHHHHHHHHhHHH-hhhchhHh--HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCC------ChHHHHH
Q 016653 258 SLYDCQYKSFFSAFAGLTEQ-IKLDRYLY--PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV------TVEFIDV 328 (385)
Q Consensus 258 ~f~~~~y~~~~~~L~~~~~~-l~~D~~l~--~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~------s~~~iE~ 328 (385)
+.-.+++..|-.+|+..+.. ++.-.|+. ..--..++++-.+++ +++--=+.++++.+-.++.. +.+++|-
T Consensus 280 aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~lv~yrnL~kkv~-~~~~~~~~lpls~~~~al~~~~~~~~~~devec 358 (394)
T KOG2688|consen 280 AVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYRNLFKKVI-QLWGKTSQLPLSRFLTALQFSGVTDVDLDEVEC 358 (394)
T ss_pred HHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHHHHHHHHH-HHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHH
Confidence 99999999999999998754 33444432 222245555544443 34312278888888888865 3589999
Q ss_pred HHHHHHhCCccceEEecCCCEEEEcCCCc
Q 016653 329 ELSRFIAAGKLHCKIDKVAGVLETNRPDA 357 (385)
Q Consensus 329 ~L~~lI~~g~l~akID~~~giv~~~~~d~ 357 (385)
-|+++|..|+|.|-|+.+...+++.+.++
T Consensus 359 iLa~lI~~G~ikgYish~~~~~V~sK~~p 387 (394)
T KOG2688|consen 359 ILANLIDLGRIKGYISHQLQTLVFSKKDP 387 (394)
T ss_pred HHHhhhhhccccchhchhhheEEEecCCC
Confidence 99999999999999999999998877654
No 23
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.52 E-value=0.0042 Score=52.93 Aligned_cols=104 Identities=12% Similarity=0.021 Sum_probs=80.5
Q ss_pred hhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCC
Q 016653 90 NLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGD 169 (385)
Q Consensus 90 n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~ 169 (385)
+....--..+.+.+|+.+++.|++++|.+.|..+.+...++.-+--..+.+.++.+..|+++.+...+..+. +
T Consensus 41 ~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-------~ 113 (145)
T PF09976_consen 41 YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIP-------D 113 (145)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc-------C
Confidence 333345578899999999999999999999999988765554455567788899999999999988775521 2
Q ss_pred hhhhhhhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 170 WERKNRLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 170 ~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
+..........|-.++..|++.+|...|-.+
T Consensus 114 ~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 114 EAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 2224445567899999999999999888654
No 24
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=97.25 E-value=0.0019 Score=55.19 Aligned_cols=78 Identities=14% Similarity=0.283 Sum_probs=58.7
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHH
Q 016653 252 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 252 ~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
+..+.+.+.+|+|..|...+... .-.+.+.+.+..|.+.+|.++..-.=..|++|+++.+|+.+|++.+++++.+.
T Consensus 44 i~~l~~~L~~~~~~~~~~~~~~~----~~~~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~ 119 (143)
T PF10075_consen 44 IWSLGQALWEGDYSKFWQALRSN----PWSPDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIK 119 (143)
T ss_dssp HHHHHHHHHTT-HHHHHHHS-TT--------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHhc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHH
Confidence 45677788899999999877654 12246678888999999999999999999999999999999999777777666
Q ss_pred HH
Q 016653 332 RF 333 (385)
Q Consensus 332 ~l 333 (385)
+.
T Consensus 120 ~~ 121 (143)
T PF10075_consen 120 SR 121 (143)
T ss_dssp HH
T ss_pred Hc
Confidence 63
No 25
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=97.07 E-value=0.0093 Score=59.30 Aligned_cols=185 Identities=15% Similarity=0.211 Sum_probs=102.9
Q ss_pred hHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCC------cC
Q 016653 136 LVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFT------TY 207 (385)
Q Consensus 136 ~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~------~~ 207 (385)
.+.+++|+..+.||+..+.+.+.-+.-.-.+ ..-+.-.-.+-.|-|..+|.-|+|.+|.+.|-.++.... ..
T Consensus 124 SligLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~ 203 (404)
T PF10255_consen 124 SLIGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQ 203 (404)
T ss_pred HHHHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 4578899999999999987655433221000 011222344556799999999999999999988752211 01
Q ss_pred ccCCHhHHH-----HHH--HHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhh-
Q 016653 208 ELFPYDTFI-----FYT--VLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIK- 279 (385)
Q Consensus 208 e~~~~~~~~-----~Y~--~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~- 279 (385)
..-.+..+. .|. ++|-.++..| ++. .+...+.+ .+.+=......++...|.+......|-+-
T Consensus 204 ~~~q~d~i~K~~eqMyaLlAic~~l~p~~-------lde-~i~~~lke--ky~ek~~kmq~gd~~~f~elF~~acPKFIs 273 (404)
T PF10255_consen 204 RSYQYDQINKKNEQMYALLAICLSLCPQR-------LDE-SISSQLKE--KYGEKMEKMQRGDEEAFEELFSFACPKFIS 273 (404)
T ss_pred ccchhhHHHhHHHHHHHHHHHHHHhCCCC-------CCH-HHHHHHHH--HHHHHHHHHHccCHHHHHHHHHhhCCCccC
Confidence 111111111 233 2333333222 111 11111111 12222333334455555554444433210
Q ss_pred ---------------hchhHhHhHHHHHHHHHHH----HHHHhccccccccHHHHHHHhCCChHHHHHHHH
Q 016653 280 ---------------LDRYLYPHFRYYMREVRTV----VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 280 ---------------~D~~l~~h~~~l~~~iR~~----~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
.|++ ..|.+.|+++++.+ .+..|++-|++|+++.+|+-++++++.+-.+|.
T Consensus 274 p~~pp~~~~~~~~~~~e~~-~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 274 PVSPPDYDGPSQNKNKEPY-RRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred CCCCCCcccccchhhhhHH-HHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 0333 34566666666544 567788889999999999999999998776663
No 26
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.32 Score=47.47 Aligned_cols=235 Identities=14% Similarity=0.148 Sum_probs=144.7
Q ss_pred CCHHHHHHHHHHHHhhhccc-------hhHHH-hHH-H-HHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh-----hhhhh
Q 016653 111 GDKEKALEQLKVTESKTVAV-------GQKMD-LVF-Y-TLQLGFFYMDFDLISKSIDKAKSLFEEGGDW-----ERKNR 175 (385)
Q Consensus 111 Gd~~~A~~~~~~~~~~~~~~-------~~~id-~~l-~-~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~-----~~~~~ 175 (385)
-..+++.+.+.++...|.++ +.+.- .++ + ...+++-.+.+...+ ++-||....+ ..|- +..-.
T Consensus 144 d~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~-n~lka~~~vs-~~Di~~~~~sq~v~ 221 (413)
T COG5600 144 DNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCE-NFLKASKEVS-MPDISEYQKSQVVV 221 (413)
T ss_pred hhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHH-HHHHhccccc-ccccchhhhcceee
Confidence 45778888888888777432 22221 111 1 123444456665554 3444443321 1111 11245
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcc---hH
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP---YL 252 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p---~~ 252 (385)
...|-|.+++.+++|.+|.-.|-++|..-.....-.-.-++-|.+-++++..... -++.+++..+ .+
T Consensus 222 f~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~----------Ptk~~L~r~~~~s~~ 291 (413)
T COG5600 222 FHYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFP----------PTKDLLERFKRCSVY 291 (413)
T ss_pred hhhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCC----------CchHHHHhccccchh
Confidence 6789999999999999999888887643211111122355678888888875432 1233455444 35
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHh-hhchhH--hHhHH-HHHHHHHHHHHHHhccccc-cccHHHHHHHhCCC-----
Q 016653 253 SEFLNSLYDCQYKSFFSAFAGLTEQI-KLDRYL--YPHFR-YYMREVRTVVYSQFLESYK-SVTIEAMAKAFGVT----- 322 (385)
Q Consensus 253 ~~li~~f~~~~y~~~~~~L~~~~~~l-~~D~~l--~~h~~-~l~~~iR~~~~~qy~~pY~-~I~l~~mA~~fg~s----- 322 (385)
.-++.+.-.++++.|-..|+..+.-+ ..-.++ ..|.+ .+++++-.+...--.+.=+ .+++-..+.++..+
T Consensus 292 ~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~ 371 (413)
T COG5600 292 SPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHS 371 (413)
T ss_pred HHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccC
Confidence 56777788899999999998887542 233332 33333 4455554444433333322 35566666666543
Q ss_pred hHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCc
Q 016653 323 VEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDA 357 (385)
Q Consensus 323 ~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~ 357 (385)
.+++|--++.+|..|.|.|-|-....+|+..+.|+
T Consensus 372 ~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk~~p 406 (413)
T COG5600 372 FKEVECILVTLIGLGLLRGYISHSRRTVVFSKKDP 406 (413)
T ss_pred hHHHHHHHHHHHhhhhhhheecccceEEEEecCCC
Confidence 68999999999999999999999999999987765
No 27
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=96.79 E-value=0.015 Score=43.56 Aligned_cols=71 Identities=14% Similarity=0.114 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc--c--chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTV--A--VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~--~--~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
++..++..+|..|...|++++|.++|.+..+.+. + ....+..+.++-.+....|+++.+.++..++-++.+
T Consensus 3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~~ 77 (78)
T PF13424_consen 3 DTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIFE 77 (78)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhc
Confidence 4667899999999999999999999999876542 2 223567777788888888999999999999877643
No 28
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=96.56 E-value=0.0039 Score=55.44 Aligned_cols=73 Identities=18% Similarity=0.303 Sum_probs=43.0
Q ss_pred HHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHH
Q 016653 298 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDF 371 (385)
Q Consensus 298 ~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~ 371 (385)
..++.|++..+.|.|..||..||+++.++-+-|-.|..+|+|.|.||--.+.|++.... -.++-.-+-++|+.
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 44788999999999999999999999999999999999999999999987788876432 22333334445544
No 29
>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=0.037 Score=44.29 Aligned_cols=104 Identities=12% Similarity=0.095 Sum_probs=76.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
+.++.+|..+.+.|++++|.+.|.++.....+.....+..+...++....|++..+...+.++-..-.. ++ ......
T Consensus 3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--~~-~~~~~~ 79 (119)
T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK--SP-KAPDAL 79 (119)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC--CC-cccHHH
Confidence 457899999999999999999999988765444444567788888888999999999988887664211 11 111223
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccC
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSISTF 204 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~t~ 204 (385)
...|..+...+++..|...|-+.+..+
T Consensus 80 ~~~~~~~~~~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 80 LKLGMSLQELGDKEKAKATLQQVIKRY 106 (119)
T ss_pred HHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence 445667778999999998887776544
No 30
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.43 E-value=0.073 Score=56.27 Aligned_cols=82 Identities=11% Similarity=0.064 Sum_probs=70.6
Q ss_pred HHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhC-CChHHHHHHHHHHHhCCccceEEecCCCEE
Q 016653 272 AGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFG-VTVEFIDVELSRFIAAGKLHCKIDKVAGVL 350 (385)
Q Consensus 272 ~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg-~s~~~iE~~L~~lI~~g~l~akID~~~giv 350 (385)
+.+-..+..-+...+++..|-..+-.+++.|.-..|.+|+++++-+.-- ++.-++|+-|++....+-+..+||...++|
T Consensus 410 q~ll~~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v 489 (988)
T KOG2072|consen 410 QPLLDKLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSV 489 (988)
T ss_pred HHHHHHHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEecccccee
Confidence 3333345666666889999999999999999999999999999887644 588899999999999999999999999999
Q ss_pred EEc
Q 016653 351 ETN 353 (385)
Q Consensus 351 ~~~ 353 (385)
.+.
T Consensus 490 ~Fg 492 (988)
T KOG2072|consen 490 SFG 492 (988)
T ss_pred eec
Confidence 997
No 31
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=96.35 E-value=0.082 Score=47.53 Aligned_cols=64 Identities=20% Similarity=0.472 Sum_probs=48.2
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHH-HHHHHHHHHHHHHhcccccc-ccHHHHHHHhCC
Q 016653 253 SEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFR-YYMREVRTVVYSQFLESYKS-VTIEAMAKAFGV 321 (385)
Q Consensus 253 ~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~-~l~~~iR~~~~~qy~~pY~~-I~l~~mA~~fg~ 321 (385)
.++..++.+++|..|++.... ...+++..++- .+...+|.+++.....+|.+ |+++.+++.||.
T Consensus 139 l~l~~a~~~gny~~ff~l~~~-----~~~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 139 LELCRALMEGNYVRFFRLYRS-----KSAPYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHHH--TTHHHHHHHHT------TTS-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHcCCHHHHHHHHhc-----cCCChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 467789999999999997722 34555555544 49999999999999999999 999999998873
No 32
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.21 E-value=0.45 Score=45.25 Aligned_cols=151 Identities=12% Similarity=0.069 Sum_probs=96.2
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHhhhccchh---HHHhHHHHHHHHHHhcCH
Q 016653 75 DELKKLDDRIADAEENLGESEVREAHLAKSLFYIQI-GDKEKALEQLKVTESKTVAVGQ---KMDLVFYTLQLGFFYMDF 150 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~-Gd~~~A~~~~~~~~~~~~~~~~---~id~~l~~i~~~i~~~~~ 150 (385)
.-++-++.-+.-|.++.-....-+.+..+|++|.+. ||+++|.++|.+..+.....+. ..+....+..+.+..|+|
T Consensus 92 ~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y 171 (282)
T PF14938_consen 92 EAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRY 171 (282)
T ss_dssp HHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCH
Confidence 345566666777777776777788899999999999 9999999999999887754333 345667788889999999
Q ss_pred HHHHhHHHHHHHHH-hcC-CChhhhhhhhHHHHHhccccCCHHHHHHHHHh---ccccCCcCccCCHhHHHHHHHHHHHh
Q 016653 151 DLISKSIDKAKSLF-EEG-GDWERKNRLKVYEGLYCMSTRNFKKAASLFLD---SISTFTTYELFPYDTFIFYTVLTSII 225 (385)
Q Consensus 151 ~~~~~~i~ka~~~~-~~~-~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e---~~~t~~~~e~~~~~~~~~Y~~l~al~ 225 (385)
..+.+...++-... +.. ..+. -.+.-...+|.+|..+|+..|...|=+ ..++|.. |.+--+...++-|.=
T Consensus 172 ~~A~~~~e~~~~~~l~~~l~~~~-~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~----s~E~~~~~~l~~A~~ 246 (282)
T PF14938_consen 172 EEAIEIYEEVAKKCLENNLLKYS-AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFAS----SREYKFLEDLLEAYE 246 (282)
T ss_dssp HHHHHHHHHHHHTCCCHCTTGHH-HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTT----SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhcccccchh-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC----cHHHHHHHHHHHHHH
Confidence 99999888765542 211 1121 122334478899999999777665543 3455542 333334444444444
Q ss_pred hCChh
Q 016653 226 SLDRV 230 (385)
Q Consensus 226 s~~R~ 230 (385)
..+..
T Consensus 247 ~~D~e 251 (282)
T PF14938_consen 247 EGDVE 251 (282)
T ss_dssp TT-CC
T ss_pred hCCHH
Confidence 44433
No 33
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=96.14 E-value=0.054 Score=39.88 Aligned_cols=94 Identities=16% Similarity=0.170 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
+++.+|..++..|++++|.+.+.++........ ........+....+++..+...+.++-..... ++ ....
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~ 72 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNA---DAYYNLAAAYYKLGKYEEALEDYEKALELDPD--NA----KAYY 72 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--ch----hHHH
Confidence 467889999999999999999998876654322 44555666666778888888777766554211 11 2234
Q ss_pred HHHHhccccCCHHHHHHHHHhcc
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
..|..+...+++..|...|..+.
T Consensus 73 ~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 73 NLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHH
Confidence 45667778889999988887654
No 34
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=96.01 E-value=0.83 Score=47.11 Aligned_cols=130 Identities=14% Similarity=0.159 Sum_probs=98.9
Q ss_pred HHHHHHHHHHHHHHHHHhhCH--HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-----ccchhHHHhHHHHHHHHH
Q 016653 73 IEDELKKLDDRIADAEENLGE--SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT-----VAVGQKMDLVFYTLQLGF 145 (385)
Q Consensus 73 ~~~~l~~Le~~l~~~~~n~~~--~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~-----~~~~~~id~~l~~i~~~i 145 (385)
..+-..-++.-|...++..|. +.+...+.+||..|+..|++.+|..++.++.+-. ++.+.+.....++..+.-
T Consensus 257 ~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~ 336 (508)
T KOG1840|consen 257 YDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQ 336 (508)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHH
Confidence 345555666666666666666 4455559999999999999999999998875432 445556667777777777
Q ss_pred HhcCHHHHHhHHHHHHHHHhc--CCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 146 FYMDFDLISKSIDKAKSLFEE--GGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 146 ~~~~~~~~~~~i~ka~~~~~~--~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
..+.++.+..++.++-.++.. +.+.-.-++++.--|-.+...|+|.+|.+.|-+++.
T Consensus 337 ~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~ 395 (508)
T KOG1840|consen 337 SMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ 395 (508)
T ss_pred HhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 889999999999999988763 223224577777788889999999999999988763
No 35
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=95.83 E-value=0.16 Score=41.95 Aligned_cols=101 Identities=15% Similarity=0.079 Sum_probs=82.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
.+++.+|..+-..|+.++|...|.+..+...+........++.-...-..|+.+.+...+.++.. ..++.+....++
T Consensus 2 ~~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~---~~p~~~~~~~l~ 78 (120)
T PF12688_consen 2 RALYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE---EFPDDELNAALR 78 (120)
T ss_pred chHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCccccHHHH
Confidence 36788999999999999999999999876555556667888888788888999999888876644 334444567788
Q ss_pred HHHHHhccccCCHHHHHHHHHhcc
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
+..++.....|++++|.+.|+.++
T Consensus 79 ~f~Al~L~~~gr~~eAl~~~l~~l 102 (120)
T PF12688_consen 79 VFLALALYNLGRPKEALEWLLEAL 102 (120)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHH
Confidence 889999999999999999999875
No 36
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=95.76 E-value=0.018 Score=42.67 Aligned_cols=49 Identities=18% Similarity=0.333 Sum_probs=38.7
Q ss_pred HHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC
Q 016653 299 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 347 (385)
Q Consensus 299 ~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~ 347 (385)
.+.+|++-...+++..||..||+|++.+|..|..+|.-|+|.-.-+...
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 3567788899999999999999999999999999999999985444443
No 37
>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=95.72 E-value=0.065 Score=38.93 Aligned_cols=63 Identities=21% Similarity=0.189 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhc-CHHHHHhHHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYM-DFDLISKSIDKAKSL 163 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~-~~~~~~~~i~ka~~~ 163 (385)
..+..+|..+++.|++++|.++|.+..+...+ -.....++-.+....| ++..+..+..++-++
T Consensus 4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~---~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN---NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT---HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 56889999999999999999999999987643 3457777777788888 699999988887653
No 38
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=95.64 E-value=0.023 Score=36.19 Aligned_cols=33 Identities=27% Similarity=0.162 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG 131 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~ 131 (385)
++..||++|.+.|++++|.++|.+......++.
T Consensus 1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~~~~ 33 (36)
T PF13176_consen 1 ALNNLGRIYRQQGDYEKAIEYYEQALALARDPE 33 (36)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHCT
T ss_pred CHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence 467899999999999999999999765544433
No 39
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=95.41 E-value=0.18 Score=44.09 Aligned_cols=68 Identities=10% Similarity=-0.041 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
-..+++.+|..+...|++++|..+|.+..............+..+..+....|+++.+...+.++-..
T Consensus 34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 35568999999999999999999999987655433334566777777888889999999988887764
No 40
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.37 E-value=1.2 Score=40.85 Aligned_cols=165 Identities=19% Similarity=0.106 Sum_probs=104.2
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 173 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~ 173 (385)
.+...+...||-=|++.||+..|.+.+.+..+--. ...+..+...-+.--.|..+.+.+...||-++--..|| .-
T Consensus 32 ~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~DP---s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~Gd--VL 106 (250)
T COG3063 32 NEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDP---SYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGD--VL 106 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc---ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccc--hh
Confidence 45677799999999999999999999999876432 22333333333444558999999999988776322222 11
Q ss_pred hhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHH----hhCChhHHHhhccCChHHHHHhcCc
Q 016653 174 NRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSI----ISLDRVSLKQKVVDAPEILTVIGKI 249 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al----~s~~R~~lk~~v~~~~e~~~~l~~~ 249 (385)
| = -|-+.+.+|.|.+|-..|-.++....+.+ +.+..-=.++|++ ....+..++..+-- ..+.
T Consensus 107 N---N-YG~FLC~qg~~~eA~q~F~~Al~~P~Y~~---~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~-------dp~~ 172 (250)
T COG3063 107 N---N-YGAFLCAQGRPEEAMQQFERALADPAYGE---PSDTLENLGLCALKAGQFDQAEEYLKRALEL-------DPQF 172 (250)
T ss_pred h---h-hhHHHHhCCChHHHHHHHHHHHhCCCCCC---cchhhhhhHHHHhhcCCchhHHHHHHHHHHh-------CcCC
Confidence 1 2 35567889999999999999876544433 2344445778888 33333344332211 1222
Q ss_pred c-hHHHHHH-HHHhccHHHHHHHHHHhHHH
Q 016653 250 P-YLSEFLN-SLYDCQYKSFFSAFAGLTEQ 277 (385)
Q Consensus 250 p-~~~~li~-~f~~~~y~~~~~~L~~~~~~ 277 (385)
| ...++.. .|...+|......++.+...
T Consensus 173 ~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~ 202 (250)
T COG3063 173 PPALLELARLHYKAGDYAPARLYLERYQQR 202 (250)
T ss_pred ChHHHHHHHHHHhcccchHHHHHHHHHHhc
Confidence 3 2445554 35567888887766666443
No 41
>PRK15331 chaperone protein SicA; Provisional
Probab=95.24 E-value=0.3 Score=42.52 Aligned_cols=103 Identities=13% Similarity=0.058 Sum_probs=80.6
Q ss_pred hCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh
Q 016653 91 LGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDW 170 (385)
Q Consensus 91 ~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~ 170 (385)
.+.++..++.+..|--+|..|++++|.+.|.-+.-+-. .--+.++++-.+.=..++|..+......|-.+-. .||
T Consensus 31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~---~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~--~dp 105 (165)
T PRK15331 31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDF---YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK--NDY 105 (165)
T ss_pred CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--CCC
Confidence 46778889999999999999999999999976654322 2245778888888888999999888877766522 232
Q ss_pred hhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 171 ERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 171 ~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
. .-.+.|..++..|+-..|...|-.+..
T Consensus 106 ~----p~f~agqC~l~l~~~~~A~~~f~~a~~ 133 (165)
T PRK15331 106 R----PVFFTGQCQLLMRKAAKARQCFELVNE 133 (165)
T ss_pred C----ccchHHHHHHHhCCHHHHHHHHHHHHh
Confidence 2 136899999999999999999988765
No 42
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=95.09 E-value=0.15 Score=36.50 Aligned_cols=59 Identities=12% Similarity=0.092 Sum_probs=48.7
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
+.+|..+++.|++++|.++|.++.+... ...+..+..-++....|++..+...+.++-.
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P---~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDP---DNPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCST---THHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4689999999999999999999886652 3567888888888899999999988887754
No 43
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=94.94 E-value=0.47 Score=41.85 Aligned_cols=99 Identities=18% Similarity=0.133 Sum_probs=71.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..++..+|..|...|++++|.+.+.+..+..... .+.......+....|+++.+...+.++-........+ ..
T Consensus 65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~---~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~ 137 (234)
T TIGR02521 65 YLAYLALALYYQQLGELEKAEDSFRRALTLNPNN---GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPA----RS 137 (234)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccch----HH
Confidence 4678889999999999999999999888765332 2455566667777899999998888876542211111 12
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
...-|..+...|++..|...|-.+..
T Consensus 138 ~~~l~~~~~~~g~~~~A~~~~~~~~~ 163 (234)
T TIGR02521 138 LENAGLCALKAGDFDKAEKYLTRALQ 163 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 22356777889999999999888754
No 44
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=94.91 E-value=1.2 Score=40.09 Aligned_cols=124 Identities=14% Similarity=0.087 Sum_probs=73.1
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHH--------hcCHHHHHhHHHHHHHHHhc
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFF--------YMDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~--------~~~~~~~~~~i~ka~~~~~~ 166 (385)
-...+.+.+|.-|+..||+.+|...+.++.....+....-+....+..+... ..|-..+..-+...+.++..
T Consensus 40 ~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~ 119 (203)
T PF13525_consen 40 YAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKR 119 (203)
T ss_dssp THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHH
Confidence 3567899999999999999999999999987775554443333322222221 23334444455555555555
Q ss_pred CCChh-----------hh---hhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHH
Q 016653 167 GGDWE-----------RK---NRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTV 220 (385)
Q Consensus 167 ~~~~~-----------~~---~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~ 220 (385)
.++-. .+ ++-..+-|..++..|.|..|...|-.++..|..+. ...+.+.+++
T Consensus 120 yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~--~~~~al~~l~ 185 (203)
T PF13525_consen 120 YPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTP--AAEEALARLA 185 (203)
T ss_dssp -TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSH--HHHHHHHHHH
T ss_pred CcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCc--hHHHHHHHHH
Confidence 33311 11 22233467788999999999999999888775432 3344444433
No 45
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=94.90 E-value=0.28 Score=42.54 Aligned_cols=108 Identities=7% Similarity=-0.079 Sum_probs=73.5
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC-Chhhhh
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG-DWERKN 174 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~-~~~~~~ 174 (385)
-...++.+|..+...|++++|...|.+.......+........++-.+....|+++.+...+.++-......+ .+...+
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la 113 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA 113 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence 3566899999999999999999999998766433333344666666777788999999999988876532111 111223
Q ss_pred hhhHHHHHhccccCCHHHHHHHHHhcccc
Q 016653 175 RLKVYEGLYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 175 ~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t 203 (385)
.+-...|......|+|..|...|-++...
T Consensus 114 ~i~~~~~~~~~~~g~~~~A~~~~~~a~~~ 142 (168)
T CHL00033 114 VICHYRGEQAIEQGDSEIAEAWFDQAAEY 142 (168)
T ss_pred HHHHHhhHHHHHcccHHHHHHHHHHHHHH
Confidence 33333455556788888777777665443
No 46
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=94.89 E-value=1.7 Score=40.49 Aligned_cols=129 Identities=8% Similarity=-0.037 Sum_probs=84.0
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHH---------------hcCHHHHHhHHH
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFF---------------YMDFDLISKSID 158 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~---------------~~~~~~~~~~i~ 158 (385)
.....+.+.+|..|++.|+|++|...+.++....++....-.+...+.-+... ..|...+...+.
T Consensus 66 ~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~ 145 (243)
T PRK10866 66 PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFR 145 (243)
T ss_pred hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHH
Confidence 56678899999999999999999999999987776554433333322222111 125566666667
Q ss_pred HHHHHHhcCCCh----h-------hhhhh---hHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHH
Q 016653 159 KAKSLFEEGGDW----E-------RKNRL---KVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSI 224 (385)
Q Consensus 159 ka~~~~~~~~~~----~-------~~~~l---~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al 224 (385)
..+..++..++- + .+++| ..+-|.+++..|.|..|...|-.++..|..+ ...++.+.+++-+-.
T Consensus 146 ~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t--~~~~eal~~l~~ay~ 223 (243)
T PRK10866 146 DFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDT--QATRDALPLMENAYR 223 (243)
T ss_pred HHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCC--chHHHHHHHHHHHHH
Confidence 777777664431 1 12222 2336677888999999999998888777533 345566666555443
No 47
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=94.52 E-value=0.28 Score=37.24 Aligned_cols=81 Identities=9% Similarity=0.070 Sum_probs=40.5
Q ss_pred hCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCC
Q 016653 110 IGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRN 189 (385)
Q Consensus 110 ~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~ 189 (385)
.|+|++|+..+.++.+...+.. .....+.+..+.+..|+|..+...+.+ .. .+. . ........|..++..|+
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~~~-~----~~~~~~l~a~~~~~l~~ 73 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK-LK-LDP-S----NPDIHYLLARCLLKLGK 73 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC-HT-HHH-C----HHHHHHHHHHHHHHTT-
T ss_pred CccHHHHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH-hC-CCC-C----CHHHHHHHHHHHHHhCC
Confidence 4666666666666665543211 333445555566666666666665555 11 110 0 01222334666666666
Q ss_pred HHHHHHHHH
Q 016653 190 FKKAASLFL 198 (385)
Q Consensus 190 ~~~Aa~~f~ 198 (385)
|.+|.+.|-
T Consensus 74 y~eAi~~l~ 82 (84)
T PF12895_consen 74 YEEAIKALE 82 (84)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 666666553
No 48
>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=94.41 E-value=0.12 Score=36.66 Aligned_cols=53 Identities=23% Similarity=0.337 Sum_probs=43.7
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEE
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~ 352 (385)
|...+.+|++....++++.+|+.||+|+.-+-+.|..|-..|. |.++.|-+..
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 4556788889899999999999999999999999999999886 4445554443
No 49
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=94.37 E-value=4.2 Score=41.60 Aligned_cols=145 Identities=12% Similarity=0.094 Sum_probs=93.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 179 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~ 179 (385)
-...|.=+++.|||.+|.+.|.++...-.+.. -.+-+...+.+-.|++..+.....++.++ ..+|. +--..
T Consensus 361 ~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da---~lYsNRAac~~kL~~~~~aL~Da~~~ieL---~p~~~---kgy~R 431 (539)
T KOG0548|consen 361 EREKGNEAFKKGDYPEAVKHYTEAIKRDPEDA---RLYSNRAACYLKLGEYPEALKDAKKCIEL---DPNFI---KAYLR 431 (539)
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHHhcCCchh---HHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CchHH---HHHHH
Confidence 34458999999999999999999876543221 13344455666678888888775555444 23332 22234
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHh---hCChhHHHhhccCChHHHHHhcCcchHHHHH
Q 016653 180 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSII---SLDRVSLKQKVVDAPEILTVIGKIPYLSEFL 256 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~---s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li 256 (385)
.|..+-..++|..|...|.+....-. +...++.-..=|..+ ..+..+++.+...+|+++.++ +.|.++.++
T Consensus 432 Kg~al~~mk~ydkAleay~eale~dp-----~~~e~~~~~~rc~~a~~~~~~~ee~~~r~~~dpev~~il-~d~~m~~~l 505 (539)
T KOG0548|consen 432 KGAALRAMKEYDKALEAYQEALELDP-----SNAEAIDGYRRCVEAQRGDETPEETKRRAMADPEVQAIL-QDPAMRQIL 505 (539)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCc-----hhHHHHHHHHHHHHHhhcCCCHHHHHHhhccCHHHHHHH-cCHHHHHHH
Confidence 68888899999999999998764211 111222222223333 334568888899999998887 667776544
Q ss_pred HHH
Q 016653 257 NSL 259 (385)
Q Consensus 257 ~~f 259 (385)
...
T Consensus 506 ~q~ 508 (539)
T KOG0548|consen 506 EQM 508 (539)
T ss_pred HHH
Confidence 443
No 50
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=94.36 E-value=0.17 Score=38.47 Aligned_cols=59 Identities=19% Similarity=0.182 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKA 160 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka 160 (385)
..++.+|..|++.|+|.+|.+.+.+ .... + ...+..+...++.+..|+|+.+.+.+.++
T Consensus 26 ~~~~~la~~~~~~~~y~~A~~~~~~-~~~~--~-~~~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 26 AYLYNLAQCYFQQGKYEEAIELLQK-LKLD--P-SNPDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHC-HTHH--H-CHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHH-hCCC--C-CCHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 3577799999999999999999987 2221 1 23566666789999999999999888775
No 51
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.33 E-value=4.3 Score=37.51 Aligned_cols=192 Identities=12% Similarity=0.190 Sum_probs=107.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH----------
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF---------- 164 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~--~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~---------- 164 (385)
-.+..+.|+++.+.|+..+|...|..+..-. ..+..-++.+-.-|.+....|++..+-++--.+-++.
T Consensus 54 G~aflkaA~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~eka 133 (288)
T KOG1586|consen 54 GDAFLKAADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKA 133 (288)
T ss_pred HHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHH
Confidence 4668888999999988777777766554211 2444555555555666666666655433222222222
Q ss_pred ----hcCCCh-------hhhhhhhHHHHHhccccCCHHHHHHHHHhccc-cCCcCccC--CHhHHHHHHHHHHHhhCChh
Q 016653 165 ----EEGGDW-------ERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS-TFTTYELF--PYDTFIFYTVLTSIISLDRV 230 (385)
Q Consensus 165 ----~~~~~~-------~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~-t~~~~e~~--~~~~~~~Y~~l~al~s~~R~ 230 (385)
+..++| ...|+--.=-+-+.-.-+.|..|..-|-++.. +.. ..++ +..+...=.+||-+..-+--
T Consensus 134 I~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~-n~LLKys~KdyflkAgLChl~~~D~v 212 (288)
T KOG1586|consen 134 IAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLD-NNLLKYSAKDYFLKAGLCHLCKADEV 212 (288)
T ss_pred HHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-chHHHhHHHHHHHHHHHHhHhcccHH
Confidence 222222 11222111122233345566666666654421 111 1122 33455555677777643211
Q ss_pred HHHhhccCChHHHHHhcCcch---------HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHH
Q 016653 231 SLKQKVVDAPEILTVIGKIPY---------LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREV 295 (385)
Q Consensus 231 ~lk~~v~~~~e~~~~l~~~p~---------~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~i 295 (385)
..+ .-+.++.+..|. +++|+.+....+-..|-+...++.+.-++|.|...++-.+-+.|
T Consensus 213 ~a~------~ALeky~~~dP~F~dsREckflk~L~~aieE~d~e~fte~vkefDsisrLD~W~ttiLlkiK~si 280 (288)
T KOG1586|consen 213 NAQ------RALEKYQELDPAFTDSRECKFLKDLLDAIEEQDIEKFTEVVKEFDSISRLDQWKTTILLKIKKSI 280 (288)
T ss_pred HHH------HHHHHHHhcCCcccccHHHHHHHHHHHHHhhhhHHHHHHHHHhhhccchHHHHHHHHHHHHHHHH
Confidence 111 123344445552 67888888889999999999999999999999888876655544
No 52
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=94.25 E-value=0.49 Score=38.95 Aligned_cols=96 Identities=13% Similarity=0.008 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
.+++.+|..++..|++++|.+.+.++....+. ..++...+..+....|+++.+...+.++-..-. .+ ....
T Consensus 18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p--~~----~~~~ 88 (135)
T TIGR02552 18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY---NSRYWLGLAACCQMLKEYEEAIDAYALAAALDP--DD----PRPY 88 (135)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--CC----hHHH
Confidence 56889999999999999999999888765432 245566666777778999999888887655421 11 2233
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
...|..++..|+|..|...|-.++.
T Consensus 89 ~~la~~~~~~g~~~~A~~~~~~al~ 113 (135)
T TIGR02552 89 FHAAECLLALGEPESALKALDLAIE 113 (135)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 5578888899999999999877654
No 53
>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=94.13 E-value=7.6 Score=41.10 Aligned_cols=61 Identities=20% Similarity=0.309 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
.++..+|..+...|++++|...|.++.+.... ..+.+.....+....|++..+...+.++-
T Consensus 366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~kal 426 (615)
T TIGR00990 366 QSYIKRASMNLELGDPDKAEEDFDKALKLNSE---DPDIYYHRAQLHFIKGEFAQAGKDYQKSI 426 (615)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 44555555555555555555555555433211 12334444444445555555555555543
No 54
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.08 E-value=4.9 Score=37.83 Aligned_cols=156 Identities=11% Similarity=0.132 Sum_probs=97.2
Q ss_pred hCCCHHHHHHHHHh-----cCCCCC-HHHHHHHHHHHHHHHHHHHHHHHH-HHHhhCHHHHHHHHHHHHHHHHHhCCHHH
Q 016653 43 AHDMASFYETLVAE-----SVLEMD-QSVLDSMRTKIEDELKKLDDRIAD-AEENLGESEVREAHLAKSLFYIQIGDKEK 115 (385)
Q Consensus 43 ~~~m~~~y~~~~~~-----~~~~~D-~~~~~~~~~~~~~~l~~Le~~l~~-~~~n~~~~~ir~a~~~la~~~~~~Gd~~~ 115 (385)
.+.|+||-..+... +|.|.. =.-+..++.-+.+.+..++..... ---++.+--....++-++.++...|.|+-
T Consensus 116 rGSmVPFsmR~lhAe~~~~lgnpqesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~i 195 (366)
T KOG2796|consen 116 RGSMVPFSMRILHAELQQYLGNPQESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVL 195 (366)
T ss_pred cCccccHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhh
Confidence 46788876655443 343322 223334444444444444432110 00111111112347788899999999999
Q ss_pred HHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH---HHhcCCChhhhhhhhHH--HHHhccccCCH
Q 016653 116 ALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS---LFEEGGDWERKNRLKVY--EGLYCMSTRNF 190 (385)
Q Consensus 116 A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~---~~~~~~~~~~~~~l~~~--~gl~~l~~r~~ 190 (385)
...++.+++++.. .++-...-.+.|++...||.+.+..+..+++. .++. .+++..+. .+..++.+.||
T Consensus 196 S~d~~~~vi~~~~--e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~-----~q~~~~V~~n~a~i~lg~nn~ 268 (366)
T KOG2796|consen 196 SVDAYHSVIKYYP--EQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDG-----LQGKIMVLMNSAFLHLGQNNF 268 (366)
T ss_pred hHHHHHHHHHhCC--cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhc-----cchhHHHHhhhhhheecccch
Confidence 9999999998653 34445566778888999999999988776553 2332 23444443 55678889999
Q ss_pred HHHHHHHHhccccCC
Q 016653 191 KKAASLFLDSISTFT 205 (385)
Q Consensus 191 ~~Aa~~f~e~~~t~~ 205 (385)
..|...|-+++.+-+
T Consensus 269 a~a~r~~~~i~~~D~ 283 (366)
T KOG2796|consen 269 AEAHRFFTEILRMDP 283 (366)
T ss_pred HHHHHHHhhccccCC
Confidence 999999988876543
No 55
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=94.07 E-value=0.36 Score=45.56 Aligned_cols=87 Identities=9% Similarity=-0.010 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHH
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLI 153 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~ 153 (385)
.+-...++.=++.|-++ .-...+++.+|..|+..|++++|...|.++..........-|..+.+..+....|+++.+
T Consensus 160 ~~Ai~af~~fl~~yP~s---~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A 236 (263)
T PRK10803 160 DDAIVAFQNFVKKYPDS---TYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKA 236 (263)
T ss_pred HHHHHHHHHHHHHCcCC---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHH
Confidence 33344444444444332 223567888999999999999999998888877666666777777777777778888888
Q ss_pred HhHHHHHHHH
Q 016653 154 SKSIDKAKSL 163 (385)
Q Consensus 154 ~~~i~ka~~~ 163 (385)
...+.++-..
T Consensus 237 ~~~~~~vi~~ 246 (263)
T PRK10803 237 KAVYQQVIKK 246 (263)
T ss_pred HHHHHHHHHH
Confidence 8777765443
No 56
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=94.02 E-value=8.6 Score=39.78 Aligned_cols=240 Identities=12% Similarity=0.024 Sum_probs=133.8
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchh---HHHhHHH-HHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQ---KMDLVFY-TLQLGFFYMDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~-~~~~~~~~---~id~~l~-~i~~~i~~~~~~~~~~~i~ka~~~~~~ 166 (385)
+......+...+|..|...|+|++|...+.+.. ..|...+. .+...+. .-.+....+++.++...+.+|-+..++
T Consensus 194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~ 273 (508)
T KOG1840|consen 194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE 273 (508)
T ss_pred CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 344555566679999999999999999999875 33333222 2233333 455566678999999999999998764
Q ss_pred --CCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhC--ChhHHHhhccCChHH
Q 016653 167 --GGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISL--DRVSLKQKVVDAPEI 242 (385)
Q Consensus 167 --~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~--~R~~lk~~v~~~~e~ 242 (385)
|.+-..-+-.-.--|..+..+|+|.+|..++-.+..-+.-....+.+++...+.-.+.... ++-+--.+++. ..
T Consensus 274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q--~a 351 (508)
T KOG1840|consen 274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQ--KA 351 (508)
T ss_pred hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHH--HH
Confidence 3322222222222344568899999999998777543322233466677655544444432 22221111211 11
Q ss_pred HHHhc-----Ccc---hH-HHHHHHHH-hccHHHHHHHHHHhHHHh-----hhchhHhHhHHHHHHHH-HHHHHHHhccc
Q 016653 243 LTVIG-----KIP---YL-SEFLNSLY-DCQYKSFFSAFAGLTEQI-----KLDRYLYPHFRYYMREV-RTVVYSQFLES 306 (385)
Q Consensus 243 ~~~l~-----~~p---~~-~~li~~f~-~~~y~~~~~~L~~~~~~l-----~~D~~l~~h~~~l~~~i-R~~~~~qy~~p 306 (385)
.+.+. ..| .+ -++...|+ .++|.+..+...+.-... ..|.+...++..+-... +.+.+..-.+.
T Consensus 352 l~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l 431 (508)
T KOG1840|consen 352 LKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQL 431 (508)
T ss_pred HHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHH
Confidence 11111 121 22 35666654 468888777776664432 34667666665444333 11111111111
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
|. ..+.=| +.+|.+-..++-...+|+.
T Consensus 432 ~~-~~~~i~-~~~g~~~~~~~~~~~nL~~ 458 (508)
T KOG1840|consen 432 FE-EAKDIM-KLCGPDHPDVTYTYLNLAA 458 (508)
T ss_pred HH-HHHHHH-HHhCCCCCchHHHHHHHHH
Confidence 21 122234 7788877777777777665
No 57
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=93.95 E-value=0.69 Score=40.02 Aligned_cols=102 Identities=6% Similarity=-0.045 Sum_probs=80.0
Q ss_pred CH-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh
Q 016653 92 GE-SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDW 170 (385)
Q Consensus 92 ~~-~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~ 170 (385)
+. ++..+..|.+|..+++.|++++|.+.|.-+..+- -...+.++++--+.=..|+|..+.....+|-.+-- .||
T Consensus 29 ~~~~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D---p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~--ddp 103 (157)
T PRK15363 29 DDVTQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD---AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI--DAP 103 (157)
T ss_pred CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCc
Confidence 44 5677889999999999999999999997665432 23457778888888888999999999998877621 232
Q ss_pred hhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 171 ERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 171 ~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+.-.+.|..++..|+-..|.+.|-.++.
T Consensus 104 ----~~~~~ag~c~L~lG~~~~A~~aF~~Ai~ 131 (157)
T PRK15363 104 ----QAPWAAAECYLACDNVCYAIKALKAVVR 131 (157)
T ss_pred ----hHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 2236789999999999999999987653
No 58
>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=93.93 E-value=0.77 Score=41.86 Aligned_cols=111 Identities=10% Similarity=0.073 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHh--------cCHHHHHhHHHHHHHHHhc
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFY--------MDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~--------~~~~~~~~~i~ka~~~~~~ 166 (385)
....+++.+|..|+..|++++|.+.|.++.+...+........+..-.+.... |++..+.+.+.++-...-.
T Consensus 68 ~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~ 147 (235)
T TIGR03302 68 YAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN 147 (235)
T ss_pred hHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC
Confidence 45678999999999999999999999999877755444323222222222221 5566666666555433110
Q ss_pred C-CChhhhhh----------hhHHHHHhccccCCHHHHHHHHHhccccCC
Q 016653 167 G-GDWERKNR----------LKVYEGLYCMSTRNFKKAASLFLDSISTFT 205 (385)
Q Consensus 167 ~-~~~~~~~~----------l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~ 205 (385)
. ..+..... -....|..++..|+|..|...|-.....+.
T Consensus 148 ~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p 197 (235)
T TIGR03302 148 SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYP 197 (235)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCC
Confidence 0 00111111 112356677889999999988888766554
No 59
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=93.83 E-value=5.9 Score=42.66 Aligned_cols=103 Identities=15% Similarity=0.098 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-----------
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE----------- 166 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~----------- 166 (385)
.++..+|..|...|++++|.++|.++.+.... .......+..+....|++..+...+.++-..-..
T Consensus 602 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~ 678 (899)
T TIGR02917 602 EAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD---SALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQL 678 (899)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 45677777777777777777777776544321 1223344444555556666666666555432100
Q ss_pred ---CCChhh--------------hhhhhHHHHHhccccCCHHHHHHHHHhcccc
Q 016653 167 ---GGDWER--------------KNRLKVYEGLYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 167 ---~~~~~~--------------~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t 203 (385)
.++++. ........|..+...|+|..|...|-.++..
T Consensus 679 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~ 732 (899)
T TIGR02917 679 LLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR 732 (899)
T ss_pred HHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence 011100 1112233566667788888888888776543
No 60
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.75 E-value=0.17 Score=46.23 Aligned_cols=55 Identities=18% Similarity=0.333 Sum_probs=52.0
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
|++|++--++|.|..||..||+.....-..|-.|+.+|.|.|.||--.+.|++..
T Consensus 205 Fv~YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~ 259 (299)
T KOG3054|consen 205 FVEYIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISM 259 (299)
T ss_pred HHHHHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecH
Confidence 7889999999999999999999988888899999999999999999999999874
No 61
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=93.60 E-value=0.13 Score=31.28 Aligned_cols=31 Identities=19% Similarity=0.290 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTV 128 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~ 128 (385)
+|++.+|..|.+.|++++|.+.|.++.+..+
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 4789999999999999999999999876553
No 62
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=93.44 E-value=1.4 Score=43.78 Aligned_cols=196 Identities=17% Similarity=0.151 Sum_probs=109.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh---h-----------------ccchhHHHhHHHHH-----------HHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESK---T-----------------VAVGQKMDLVFYTL-----------QLGF 145 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~---~-----------------~~~~~~id~~l~~i-----------~~~i 145 (385)
...+..+|+.++-+||+.+|.-.|.+++-. . .......+..|++. .+..
T Consensus 232 vhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~ 311 (564)
T KOG1174|consen 232 EHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLY 311 (564)
T ss_pred HHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhh
Confidence 456788999999999999999998876521 1 11122233334333 2233
Q ss_pred HhcCHHHHHhHHHHHHHHHh--------cC------CChh------------hhhhhhHHHHH--hccccCCHHHHHHHH
Q 016653 146 FYMDFDLISKSIDKAKSLFE--------EG------GDWE------------RKNRLKVYEGL--YCMSTRNFKKAASLF 197 (385)
Q Consensus 146 ~~~~~~~~~~~i~ka~~~~~--------~~------~~~~------------~~~~l~~~~gl--~~l~~r~~~~Aa~~f 197 (385)
...++..++.+..|+-..-+ +| +.+. +.-+|++|.|+ .++..+.+++|--.=
T Consensus 312 ~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~A 391 (564)
T KOG1174|consen 312 DEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALA 391 (564)
T ss_pred hhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence 45678888888777654211 11 1111 12578999999 467899998886544
Q ss_pred HhccccCCcCccCCHhHHHHHH-HHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHH-----HHHhccHHHHHHHH
Q 016653 198 LDSISTFTTYELFPYDTFIFYT-VLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLN-----SLYDCQYKSFFSAF 271 (385)
Q Consensus 198 ~e~~~t~~~~e~~~~~~~~~Y~-~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~-----~f~~~~y~~~~~~L 271 (385)
-++..+|.. ++..+-..+ .+|..-...|..-|+ ..++ -+...|.+...+. +..+..|+.....|
T Consensus 392 n~~~~~~~~----sA~~LtL~g~~V~~~dp~~rEKAKk-f~ek-----~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL 461 (564)
T KOG1174|consen 392 NWTIRLFQN----SARSLTLFGTLVLFPDPRMREKAKK-FAEK-----SLKINPIYTPAVNLIAELCQVEGPTKDIIKLL 461 (564)
T ss_pred HHHHHHhhc----chhhhhhhcceeeccCchhHHHHHH-HHHh-----hhccCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence 444444321 222222222 222222222222211 2221 1345675443333 23456788777777
Q ss_pred HHhHHHhhhchhHhHhHHHHHHH--HHHHHHHHh
Q 016653 272 AGLTEQIKLDRYLYPHFRYYMRE--VRTVVYSQF 303 (385)
Q Consensus 272 ~~~~~~l~~D~~l~~h~~~l~~~--iR~~~~~qy 303 (385)
...-.. ..|.-||.|+..++.. .-..++.+|
T Consensus 462 e~~L~~-~~D~~LH~~Lgd~~~A~Ne~Q~am~~y 494 (564)
T KOG1174|consen 462 EKHLII-FPDVNLHNHLGDIMRAQNEPQKAMEYY 494 (564)
T ss_pred HHHHhh-ccccHHHHHHHHHHHHhhhHHHHHHHH
Confidence 665433 5678889998887764 455667777
No 63
>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=93.39 E-value=0.19 Score=30.75 Aligned_cols=30 Identities=27% Similarity=0.290 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
.+++.+|..|+..|++++|.++|.+.....
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 468899999999999999999999987654
No 64
>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=93.23 E-value=0.53 Score=37.36 Aligned_cols=67 Identities=12% Similarity=-0.049 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
..+++.+|..+++.|+++.|.++|.++.....+.....+..+....+....+++..+...+.++...
T Consensus 39 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 39 PNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 4678899999999999999999999988766544444566777777777889999998888876665
No 65
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=93.20 E-value=7.3 Score=39.28 Aligned_cols=130 Identities=15% Similarity=0.105 Sum_probs=87.4
Q ss_pred HHHHHHHHHhh-CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 016653 81 DDRIADAEENL-GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 159 (385)
Q Consensus 81 e~~l~~~~~n~-~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~k 159 (385)
+..++.|++-+ .+.|...|++..|--+...|++++|+++|.+++.-.... .+++..+.-++=...|...+.+.+..
T Consensus 507 dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn---~evl~qianiye~led~aqaie~~~q 583 (840)
T KOG2003|consen 507 DKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNN---AEVLVQIANIYELLEDPAQAIELLMQ 583 (840)
T ss_pred HHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence 33344444333 356788899999999999999999999999887554322 33444444444455677777777777
Q ss_pred HHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHH
Q 016653 160 AKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTV 220 (385)
Q Consensus 160 a~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~ 220 (385)
+.+++- .||..-.+|. =.+-++|+-..|.++.+++...|.+ .+-+-+|++-|.+
T Consensus 584 ~~slip--~dp~ilskl~----dlydqegdksqafq~~ydsyryfp~-nie~iewl~ayyi 637 (840)
T KOG2003|consen 584 ANSLIP--NDPAILSKLA----DLYDQEGDKSQAFQCHYDSYRYFPC-NIETIEWLAAYYI 637 (840)
T ss_pred hcccCC--CCHHHHHHHH----HHhhcccchhhhhhhhhhcccccCc-chHHHHHHHHHHH
Confidence 777763 4665544432 2456789999999999999877754 3334567766654
No 66
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=93.19 E-value=0.9 Score=46.65 Aligned_cols=131 Identities=14% Similarity=0.171 Sum_probs=85.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcC-HHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMD-FDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~-~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
+.+.-||-+|+-.|+|+.|.+||..+...-.+. ...|+.+-..+.-|+ ...|.+.+++|..+-=. - .|.
T Consensus 431 dvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd----~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~----y--VR~ 500 (579)
T KOG1125|consen 431 DVQSGLGVLYNLSGEFDRAVDCFEAALQVKPND----YLLWNRLGATLANGNRSEEAISAYNRALQLQPG----Y--VRV 500 (579)
T ss_pred hHHhhhHHHHhcchHHHHHHHHHHHHHhcCCch----HHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC----e--eee
Confidence 446778999999999999999999876443221 245776666666655 45666777777765211 1 122
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccc----cCCcCccCC-HhHHHHHHHHHHHhhCChhHHHhhccCC
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSIS----TFTTYELFP-YDTFIFYTVLTSIISLDRVSLKQKVVDA 239 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~----t~~~~e~~~-~~~~~~Y~~l~al~s~~R~~lk~~v~~~ 239 (385)
+.=.|+.+|..|.|++|+++|+.++. +.+..+..- ...+.-++= .++..+.|.|+......+
T Consensus 501 RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR-~als~~~~~D~l~~a~~~ 567 (579)
T KOG1125|consen 501 RYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLR-LALSAMNRSDLLQEAAPS 567 (579)
T ss_pred ehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHH-HHHHHcCCchHHHHhccc
Confidence 34479999999999999999999863 222223322 233434433 567777888854434333
No 67
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=93.06 E-value=1.5 Score=39.40 Aligned_cols=113 Identities=16% Similarity=0.144 Sum_probs=74.8
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHH-HHhcC--HH
Q 016653 75 DELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLG-FFYMD--FD 151 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~-i~~~~--~~ 151 (385)
+.+..++..++.--++ ..++..||..|...|++++|..+|.+....... ..+...+...+- .-.|+ ..
T Consensus 57 ~~i~~l~~~L~~~P~~------~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~---~~~~~~~lA~aL~~~~g~~~~~ 127 (198)
T PRK10370 57 AQLQALQDKIRANPQN------SEQWALLGEYYLWRNDYDNALLAYRQALQLRGE---NAELYAALATVLYYQAGQHMTP 127 (198)
T ss_pred HHHHHHHHHHHHCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHhcCCCCcH
Confidence 3444455544432222 468999999999999999999999998876543 334445444432 23355 36
Q ss_pred HHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 152 LISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 152 ~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.+...+.++-..-- .+ .......|..++..|+|.+|...|-.++.
T Consensus 128 ~A~~~l~~al~~dP--~~----~~al~~LA~~~~~~g~~~~Ai~~~~~aL~ 172 (198)
T PRK10370 128 QTREMIDKALALDA--NE----VTALMLLASDAFMQADYAQAIELWQKVLD 172 (198)
T ss_pred HHHHHHHHHHHhCC--CC----hhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 77777776655421 11 12335678888999999999999887654
No 68
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=92.98 E-value=6.1 Score=39.88 Aligned_cols=139 Identities=14% Similarity=0.209 Sum_probs=89.7
Q ss_pred HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhH
Q 016653 135 DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDT 214 (385)
Q Consensus 135 d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~ 214 (385)
+++-.=.|++++.||..+-...-++++.+...+.. ..+.+
T Consensus 349 eVYEtHARIALEkGD~~EfNQCQtQLk~LY~egip----------------------------------------g~~~E 388 (540)
T KOG1861|consen 349 EVYETHARIALEKGDLEEFNQCQTQLKALYSEGIP----------------------------------------GAYLE 388 (540)
T ss_pred eeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCC----------------------------------------Cchhh
Confidence 45555678888888888877777777776643221 11345
Q ss_pred HHHHHHHHHHhhCChhHHHhhccCC--hHHHHHhcCcchH---HHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHh-H
Q 016653 215 FIFYTVLTSIISLDRVSLKQKVVDA--PEILTVIGKIPYL---SEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPH-F 288 (385)
Q Consensus 215 ~~~Y~~l~al~s~~R~~lk~~v~~~--~e~~~~l~~~p~~---~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h-~ 288 (385)
++-|-+|--|++.++.++-. ++.+ +| +...|.+ .++-.+....+|-.||..-.. =|-+..| +
T Consensus 389 F~AYriLY~i~tkN~~di~s-ll~~lt~E----~ked~~V~hAL~vR~A~~~GNY~kFFrLY~~-------AP~M~~yLm 456 (540)
T KOG1861|consen 389 FTAYRILYYIFTKNYPDILS-LLRDLTEE----DKEDEAVAHALEVRSAVTLGNYHKFFRLYLT-------APNMSGYLM 456 (540)
T ss_pred HHHHHHHHHHHhcCchHHHH-HHHhccHh----hccCHHHHHHHHHHHHHHhccHHHHHHHHhh-------cccchhHHH
Confidence 55556666666655554432 2211 11 1123333 344456677899999874332 2333444 5
Q ss_pred HHHHHHHHHHHHHHhccccc-cccHHHHHHHhCCChHH
Q 016653 289 RYYMREVRTVVYSQFLESYK-SVTIEAMAKAFGVTVEF 325 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~-~I~l~~mA~~fg~s~~~ 325 (385)
+.|++..|.+++.-.|++|. +|+++.+++.|.+...+
T Consensus 457 dlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~~e 494 (540)
T KOG1861|consen 457 DLFLERERKKALTIICKSYRPTITVDFIASELAFDSME 494 (540)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhchHH
Confidence 78899999999999999999 99999999999886544
No 69
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=92.58 E-value=1.7 Score=39.18 Aligned_cols=67 Identities=16% Similarity=0.086 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
-.+++..|.-+++.|+|.+|.+.|.++.....+....-+..+.+..+....|++..+...+.+--..
T Consensus 5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~ 71 (203)
T PF13525_consen 5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL 71 (203)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 3568999999999999999999999999888777777888899999999999999998777764443
No 70
>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=92.56 E-value=0.32 Score=29.86 Aligned_cols=30 Identities=33% Similarity=0.351 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
.+++.+|..|.+.|++++|.++|.+..+..
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 468899999999999999999999987654
No 71
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.55 E-value=1.3 Score=43.46 Aligned_cols=96 Identities=9% Similarity=-0.014 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
..+..+|..+++.|++++|.+++.++.+.... .....+.+.++....|++..+...+.++-.. +|.......
T Consensus 181 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~ 252 (389)
T PRK11788 181 HFYCELAQQALARGDLDAARALLKKALAADPQ---CVRASILLGDLALAQGDYAAAIEALERVEEQ-----DPEYLSEVL 252 (389)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-----ChhhHHHHH
Confidence 34567777777888888888877776654322 1234455556666677777777777766543 111000000
Q ss_pred HHHHHhccccCCHHHHHHHHHhcc
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
..-+..+...|++.+|...|-.+.
T Consensus 253 ~~l~~~~~~~g~~~~A~~~l~~~~ 276 (389)
T PRK11788 253 PKLMECYQALGDEAEGLEFLRRAL 276 (389)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH
Confidence 112233445667777766665544
No 72
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=92.54 E-value=1.1 Score=44.32 Aligned_cols=235 Identities=15% Similarity=0.244 Sum_probs=124.0
Q ss_pred HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhcccc-------C---
Q 016653 135 DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST-------F--- 204 (385)
Q Consensus 135 d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t-------~--- 204 (385)
=.++|++|+.++.||+..+.+++.--...+- +.-| .-++..+-|.++|..|+|.+|.+.|++++.. |
T Consensus 236 fsL~GLlR~H~lLgDhQat~q~idi~pk~iy-~t~p--~c~VTY~VGFayLmmrryadai~~F~niLlyIqrtks~~~~~ 312 (525)
T KOG3677|consen 236 FSLLGLLRMHILLGDHQATSQILDIMPKEIY-GTEP--MCRVTYQVGFAYLMMRRYADAIRVFLNILLYIQRTKSMFSRT 312 (525)
T ss_pred HHHHHHHHHHHHhhhhHhhhhhhhcCchhhc-Cccc--ceeEeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 3678999999999996654444432222111 1112 2234467899999999999999999987521 1
Q ss_pred Cc-CccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcC------------cch-HHHHHHHHHhc-c-HHHHH
Q 016653 205 TT-YELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGK------------IPY-LSEFLNSLYDC-Q-YKSFF 268 (385)
Q Consensus 205 ~~-~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~------------~p~-~~~li~~f~~~-~-y~~~~ 268 (385)
++ .+.++...=..+-+++-..+.-. ..+ + ..+..++.+ .|. ++++.. +.| . ...+.
T Consensus 313 ~y~~d~inKq~eqm~~llai~l~~yP-q~i----D-ESi~s~l~Ek~~d~ml~mqng~~q~~ks~f~--y~cpkflsp~~ 384 (525)
T KOG3677|consen 313 TYQYDMINKQNEQMHHLLAICLSMYP-QMI----D-ESIHSQLAEKYGDKMLPMQNGDPQVFKSLFS--YLCPKFLSPVV 384 (525)
T ss_pred hhhHhhhhhhHHHHHHHHHHHHHhCc-hhh----h-HHHHHHHHHHhcchhhhhhcCChHHHHHHHH--HcCccccCCCC
Confidence 11 12233222223333322222111 111 1 112222211 111 111110 111 0 11111
Q ss_pred HHHHHhHHHhhhchhHhHhHHHHHHHHHHH----HHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh---------
Q 016653 269 SAFAGLTEQIKLDRYLYPHFRYYMREVRTV----VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA--------- 335 (385)
Q Consensus 269 ~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~----~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~--------- 335 (385)
..+...-+....+|+++. +..|...++.+ .+.+|++-|+......+|.-++++.++=++-++.|+.
T Consensus 385 ~~~dgv~~~y~kePl~~q-lq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~~dk~li~Ll~~khkm~nlv 463 (525)
T KOG3677|consen 385 PNYDGVLPNYHKEPLLQQ-LQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQERDKFLIQLLVFKHKMKNLV 463 (525)
T ss_pred cccccccccccccHHHHH-HHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCchhhhhhhHHHHHHHHHHHHHHH
Confidence 222222233455666654 24555555554 4677888899999999999999999988888888874
Q ss_pred --CCccceEEecCCC-EEEEcCCCchhH-HHHHH-HHhhHHHHHHHHHhhh
Q 016653 336 --AGKLHCKIDKVAG-VLETNRPDAKNA-LYQAT-IKQGDFLLNRIQKLSR 381 (385)
Q Consensus 336 --~g~l~akID~~~g-iv~~~~~d~~~~-~y~~~-i~~g~~l~~r~q~l~~ 381 (385)
+|..+.+++...+ .|-+.-.+.... .-+++ -+.||.+...++|+..
T Consensus 464 ~~sg~s~~d~~f~~~s~idfyid~dmi~iaDtkv~r~~gd~fir~i~kf~E 514 (525)
T KOG3677|consen 464 WTSGPSDLDDAFFSRSEIDFYIDKDMIHIADTKVARRYGDIFIRQIHKFEE 514 (525)
T ss_pred HhcCCccccccccCcceeeEEechhHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 5666777774444 343332221211 22222 2367878777777543
No 73
>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=92.23 E-value=0.35 Score=29.76 Aligned_cols=30 Identities=33% Similarity=0.318 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
.+++.+|..|...|++++|.++|.+..+..
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~ 31 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALELD 31 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence 578999999999999999999999987653
No 74
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=92.12 E-value=0.24 Score=37.40 Aligned_cols=51 Identities=14% Similarity=0.206 Sum_probs=41.1
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEE
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 350 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv 350 (385)
+.+|+.-+.++++..+|..|++|++-+|..|..++.-||+.-.-...+|..
T Consensus 7 lRd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv~~~~~gC~ 57 (78)
T PRK15431 7 VRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRIQEEPDGCL 57 (78)
T ss_pred HHHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEeeccCCCCCC
Confidence 445666699999999999999999999999999999999864432333433
No 75
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=92.03 E-value=0.44 Score=33.30 Aligned_cols=49 Identities=22% Similarity=0.274 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 292 MREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
++.++.......+.|-..+ +...||+.||+|...+.+.+..|...|-|.
T Consensus 2 ~~~l~~~i~~~~~~~~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 2 AERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQ 51 (60)
T ss_pred HHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 4566676677777787788 899999999999999999999999988764
No 76
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=92.00 E-value=4.5 Score=37.74 Aligned_cols=126 Identities=15% Similarity=0.190 Sum_probs=86.2
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHH------h
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFF------Y 147 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~------~ 147 (385)
....+.++.+ ...+..+ +.+++.++--+++.|+|+.|.....+.....++... +|...-+.-++-+ .
T Consensus 54 ~~~fe~l~~~-----~p~s~~~-~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~~~i~~~~ 126 (254)
T COG4105 54 IKYFEALDSR-----HPFSPYS-EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYFFQIDDVT 126 (254)
T ss_pred HHHHHHHHHc-----CCCCccc-HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhccCCccc
Confidence 3445555542 4444444 899999999999999999999999998876644332 3433322222222 2
Q ss_pred cCHHHHHhHHHHHHHHHhcCCCh----h----------hhhhhhHHHHHhccccCCHHHHHHHHHhccccCCc
Q 016653 148 MDFDLISKSIDKAKSLFEEGGDW----E----------RKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTT 206 (385)
Q Consensus 148 ~~~~~~~~~i~ka~~~~~~~~~~----~----------~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~ 206 (385)
.|...+...+...++.+...++. + ..+.....-|.+++..|.|..|+..|-+++.+|..
T Consensus 127 rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~ 199 (254)
T COG4105 127 RDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYPD 199 (254)
T ss_pred cCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhcccc
Confidence 56778888888888888765432 1 12333444677889999999999999999888753
No 77
>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=91.89 E-value=21 Score=38.43 Aligned_cols=100 Identities=17% Similarity=0.112 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 016653 93 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 172 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~ 172 (385)
......++..+|..|...|++++|.+.|.++.+.... ..+..+....+....|++..+...+.++.... |.
T Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-----~~- 191 (899)
T TIGR02917 121 DEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPR---SLYAKLGLAQLALAENRFDEARALIDEVLTAD-----PG- 191 (899)
T ss_pred chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---ChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhC-----CC-
Confidence 3445667888999999999999999999888765432 24566777888888899999888888765431 11
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
........|..+...|+|..|...|-.+.
T Consensus 192 ~~~~~~~~~~~~~~~g~~~~A~~~~~~a~ 220 (899)
T TIGR02917 192 NVDALLLKGDLLLSLGNIELALAAYRKAI 220 (899)
T ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 11223445666777888888888877664
No 78
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=91.54 E-value=1.7 Score=36.76 Aligned_cols=93 Identities=12% Similarity=-0.056 Sum_probs=71.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 179 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~ 179 (385)
++.+|..+...|++++|.++|.++..... ...+...+.-.+....|++..+...+.++-..-- .++ .....
T Consensus 27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P---~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p--~~~----~a~~~ 97 (144)
T PRK15359 27 VYASGYASWQEGDYSRAVIDFSWLVMAQP---WSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA--SHP----EPVYQ 97 (144)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCC---CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCc----HHHHH
Confidence 55678999999999999999998775532 2356677777788888999999999998877521 121 22345
Q ss_pred HHHhccccCCHHHHHHHHHhcc
Q 016653 180 EGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.|..+...|++.+|...|-.++
T Consensus 98 lg~~l~~~g~~~eAi~~~~~Al 119 (144)
T PRK15359 98 TGVCLKMMGEPGLAREAFQTAI 119 (144)
T ss_pred HHHHHHHcCCHHHHHHHHHHHH
Confidence 7888889999999999998875
No 79
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=91.33 E-value=1.7 Score=42.89 Aligned_cols=94 Identities=15% Similarity=0.042 Sum_probs=70.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 179 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~ 179 (385)
+...|.-.+..|+|.+|+++|.++.....+. ...+.....+.+..|++..+...+.++-.+-- .+ ......
T Consensus 5 l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~~---~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P--~~----~~a~~~ 75 (356)
T PLN03088 5 LEDKAKEAFVDDDFALAVDLYTQAIDLDPNN---AELYADRAQANIKLGNFTEAVADANKAIELDP--SL----AKAYLR 75 (356)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CC----HHHHHH
Confidence 4566888899999999999999988765432 35667777788888999999988888766421 11 122344
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 016653 180 EGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.|..++..|+|..|...|-.++.
T Consensus 76 lg~~~~~lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 76 KGTACMKLEEYQTAKAALEKGAS 98 (356)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHH
Confidence 68888899999999999877653
No 80
>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=91.22 E-value=9.5 Score=33.28 Aligned_cols=98 Identities=15% Similarity=0.116 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhh
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 175 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~ 175 (385)
...++..+|..|...|++++|.+.+.+..+.... ..........+....|+++.+...+.++-.... .++ .
T Consensus 30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~--~~~----~ 100 (234)
T TIGR02521 30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPD---DYLAYLALALYYQQLGELEKAEDSFRRALTLNP--NNG----D 100 (234)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--CCH----H
Confidence 3567888999999999999999999988765322 235556667788888999999999888776521 111 2
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.....|..++..|+|..|.+.|-.+..
T Consensus 101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~ 127 (234)
T TIGR02521 101 VLNNYGTFLCQQGKYEQAMQQFEQAIE 127 (234)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence 233457777889999999999988764
No 81
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=91.13 E-value=2.1 Score=38.95 Aligned_cols=105 Identities=13% Similarity=0.066 Sum_probs=71.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
...++.+|.-++..|++++|...+.++...........+..+....+....|+|..+...+.++-..-.. ++... ..
T Consensus 33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~--~~~~~-~a 109 (235)
T TIGR03302 33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN--HPDAD-YA 109 (235)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC--CCchH-HH
Confidence 4568999999999999999999999987665444444456677777888889999999988887665321 12110 01
Q ss_pred hHHHHHhccc--------cCCHHHHHHHHHhccccC
Q 016653 177 KVYEGLYCMS--------TRNFKKAASLFLDSISTF 204 (385)
Q Consensus 177 ~~~~gl~~l~--------~r~~~~Aa~~f~e~~~t~ 204 (385)
-...|..+.. .+++..|.+.|-.++..+
T Consensus 110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~ 145 (235)
T TIGR03302 110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY 145 (235)
T ss_pred HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC
Confidence 1223333332 367888888877765443
No 82
>COG1849 Uncharacterized protein conserved in archaea [Function unknown]
Probab=91.00 E-value=3 Score=32.28 Aligned_cols=56 Identities=18% Similarity=0.373 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC-------HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 016653 68 SMRTKIEDELKKLDDRIADAEENLG-------ESEVREAHLAKSLFYIQIGDKEKALEQLKVT 123 (385)
Q Consensus 68 ~~~~~~~~~l~~Le~~l~~~~~n~~-------~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~ 123 (385)
.+.++..+=++.+++.|+..+.-.+ ..++..+++.=|+||++.||+..|+.++.-.
T Consensus 5 ~l~ekiekYi~~leeaL~~~k~~~~~~s~ae~~~~ma~~Y~~Dakyf~ekGD~vtAfa~~sYa 67 (90)
T COG1849 5 ELAEKIEKYIELLEEALKEIKSRPGDRSAAEDFVDMAESYFEDAKYFLEKGDYVTAFAALSYA 67 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence 4455556667777777777766555 2334455888899999999999999887543
No 83
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=90.97 E-value=7.9 Score=32.51 Aligned_cols=96 Identities=15% Similarity=0.101 Sum_probs=73.0
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHH
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYE 180 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~ 180 (385)
+.-+.-....|+...+.+.+..+.....+..-.....|.+..+.+..|+++.+...+.++-. ...++..+...+..-
T Consensus 15 y~~~~~~~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~---~~~d~~l~~~a~l~L 91 (145)
T PF09976_consen 15 YEQALQALQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA---NAPDPELKPLARLRL 91 (145)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHH
Confidence 33334444799999999999998877665555566777788888899999999988887655 335666666666667
Q ss_pred HHhccccCCHHHHHHHHHh
Q 016653 181 GLYCMSTRNFKKAASLFLD 199 (385)
Q Consensus 181 gl~~l~~r~~~~Aa~~f~e 199 (385)
+..++..++|..|...+-.
T Consensus 92 A~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 92 ARILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHHcCCHHHHHHHHHh
Confidence 7888999999999988733
No 84
>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=90.70 E-value=0.73 Score=32.01 Aligned_cols=48 Identities=21% Similarity=0.293 Sum_probs=34.7
Q ss_pred HHHHHHhc-cccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC
Q 016653 297 TVVYSQFL-ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 347 (385)
Q Consensus 297 ~~~~~qy~-~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~ 347 (385)
..-+.+++ +.-..|+.+.||+.||+|..-+.+.|..+-..| ..|.+..
T Consensus 2 ~~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~---~~I~~~~ 50 (55)
T PF08279_consen 2 QKQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELREWG---IPIESKR 50 (55)
T ss_dssp HHHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT----EEEEET
T ss_pred HHHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCC---CeEEeeC
Confidence 34455555 444459999999999999999999999998877 4444433
No 85
>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=90.67 E-value=1.9 Score=31.12 Aligned_cols=61 Identities=15% Similarity=0.111 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
.++..+|..+...|++++|.+++.+......... +..+.+..+....|++..+...+.++.
T Consensus 35 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 35 DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA---KAYYNLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch---hHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 6688999999999999999999998876553322 555666667777788888877766554
No 86
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=90.65 E-value=0.57 Score=31.00 Aligned_cols=32 Identities=22% Similarity=0.219 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVA 129 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~ 129 (385)
.+++.+|..|.+.|++++|.++|.++.+...+
T Consensus 2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~ 33 (44)
T PF13428_consen 2 AAWLALARAYRRLGQPDEAERLLRRALALDPD 33 (44)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 46789999999999999999999999877654
No 87
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=90.53 E-value=2.6 Score=40.11 Aligned_cols=115 Identities=17% Similarity=0.247 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHH
Q 016653 73 IEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDL 152 (385)
Q Consensus 73 ~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~ 152 (385)
.+.....|+..|. .|-++ ..++.-||..|...|+++.|..+|.+..... +...+..++..++-.+..+-.
T Consensus 138 ~~~l~a~Le~~L~---~nP~d---~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~---g~n~~~~~g~aeaL~~~a~~~- 207 (287)
T COG4235 138 MEALIARLETHLQ---QNPGD---AEGWDLLGRAYMALGRASDALLAYRNALRLA---GDNPEILLGLAEALYYQAGQQ- 207 (287)
T ss_pred HHHHHHHHHHHHH---hCCCC---chhHHHHHHHHHHhcchhHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhcCCc-
Confidence 3444555555555 33332 4689999999999999999999999987764 345677777777766664422
Q ss_pred HHhHHHHHHHHHhc--CCChhhhhhhhHHHHHhccccCCHHHHHHH---HHhcc
Q 016653 153 ISKSIDKAKSLFEE--GGDWERKNRLKVYEGLYCMSTRNFKKAASL---FLDSI 201 (385)
Q Consensus 153 ~~~~i~ka~~~~~~--~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~---f~e~~ 201 (385)
...+++.++.+ ..||. .-+-..|-|...+.+|+|..|+.. ++++.
T Consensus 208 ---~ta~a~~ll~~al~~D~~-~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l 257 (287)
T COG4235 208 ---MTAKARALLRQALALDPA-NIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL 257 (287)
T ss_pred ---ccHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence 11233333322 12221 122346788889999999988765 45543
No 88
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=90.51 E-value=2 Score=40.37 Aligned_cols=119 Identities=13% Similarity=0.084 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHH
Q 016653 75 DELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLIS 154 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~ 154 (385)
...++++.-++.+....-...-...+..+|.++.+.|+..+|.++|.+..+..+.... +....+-+.+..|+...+.
T Consensus 124 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~---~~~~l~~~li~~~~~~~~~ 200 (280)
T PF13429_consen 124 GDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPD---ARNALAWLLIDMGDYDEAR 200 (280)
T ss_dssp T-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HH---HHHHHHHHHCTTCHHHHHH
T ss_pred hHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHH---HHHHHHHHHHHCCChHHHH
Confidence 3344444444444422111112456888999999999999999999998877654332 3344455667778888877
Q ss_pred hHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 155 KSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 155 ~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
..+........ .++.. -..-|..++..|++..|...|-.+..
T Consensus 201 ~~l~~~~~~~~--~~~~~----~~~la~~~~~lg~~~~Al~~~~~~~~ 242 (280)
T PF13429_consen 201 EALKRLLKAAP--DDPDL----WDALAAAYLQLGRYEEALEYLEKALK 242 (280)
T ss_dssp HHHHHHHHH-H--TSCCH----CHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHCc--CHHHH----HHHHHHHhcccccccccccccccccc
Confidence 77777666642 23222 23447777888999999999988654
No 89
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=90.36 E-value=0.66 Score=29.58 Aligned_cols=31 Identities=26% Similarity=0.112 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
..++..+|..|...|++++|.+++.++.+.+
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~~ 32 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEALEIR 32 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHHHHH
Confidence 3568899999999999999999999887654
No 90
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=90.06 E-value=28 Score=36.78 Aligned_cols=100 Identities=17% Similarity=0.077 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 173 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~ 173 (385)
.....++..+|.+|+..|++++|.+.|.++.+.... ..+.++....+....|++..+...+.++-..- ..++
T Consensus 328 ~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~---~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~--p~~~--- 399 (615)
T TIGR00990 328 EKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR---VTQSYIKRASMNLELGDPDKAEEDFDKALKLN--SEDP--- 399 (615)
T ss_pred hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCH---
Confidence 344577999999999999999999999998765432 33455666667778899999999999885541 1122
Q ss_pred hhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 174 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.+....|..+...|+|..|...|-.++.
T Consensus 400 -~~~~~lg~~~~~~g~~~~A~~~~~kal~ 427 (615)
T TIGR00990 400 -DIYYHRAQLHFIKGEFAQAGKDYQKSID 427 (615)
T ss_pred -HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 2334577788889999999999988764
No 91
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.86 E-value=18 Score=34.18 Aligned_cols=137 Identities=16% Similarity=0.196 Sum_probs=76.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHH
Q 016653 72 KIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFD 151 (385)
Q Consensus 72 ~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~ 151 (385)
..+..+.++.+.+-+.+.+. .--.+..=|.+|.+.|++++|++..... .-++.....+.+.+-....+
T Consensus 87 ~~~~~~~~l~E~~a~~~~~s----n~i~~l~aa~i~~~~~~~deAl~~~~~~--------~~lE~~Al~VqI~lk~~r~d 154 (299)
T KOG3081|consen 87 NKKSILASLYELVADSTDGS----NLIDLLLAAIIYMHDGDFDEALKALHLG--------ENLEAAALNVQILLKMHRFD 154 (299)
T ss_pred hhHHHHHHHHHHHHhhccch----hHHHHHHhhHHhhcCCChHHHHHHHhcc--------chHHHHHHHHHHHHHHHHHH
Confidence 44555666666655543321 1223555688999999999999988652 12222222333333333333
Q ss_pred HHHhHHHHHHHHH---------------hcC-------------------CChhhhhhhhHHHHHhccccCCHHHHHHHH
Q 016653 152 LISKSIDKAKSLF---------------EEG-------------------GDWERKNRLKVYEGLYCMSTRNFKKAASLF 197 (385)
Q Consensus 152 ~~~~~i~ka~~~~---------------~~~-------------------~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f 197 (385)
.+...+.+..+.- -.| +.|...+ -.+..+|+.|+|.+|-+.+
T Consensus 155 ~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~lln----G~Av~~l~~~~~eeAe~lL 230 (299)
T KOG3081|consen 155 LAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLN----GQAVCHLQLGRYEEAESLL 230 (299)
T ss_pred HHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHc----cHHHHHHHhcCHHHHHHHH
Confidence 3333333322210 011 1122211 2345789999999999999
Q ss_pred HhccccCCcCccCCHhHHHHHHHHHHHhhCCh
Q 016653 198 LDSISTFTTYELFPYDTFIFYTVLTSIISLDR 229 (385)
Q Consensus 198 ~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R 229 (385)
.+++.... ..++.+.-+++|+.....-
T Consensus 231 ~eaL~kd~-----~dpetL~Nliv~a~~~Gkd 257 (299)
T KOG3081|consen 231 EEALDKDA-----KDPETLANLIVLALHLGKD 257 (299)
T ss_pred HHHHhccC-----CCHHHHHHHHHHHHHhCCC
Confidence 99876432 3367777788888876544
No 92
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=89.70 E-value=0.68 Score=33.23 Aligned_cols=52 Identities=13% Similarity=0.161 Sum_probs=38.8
Q ss_pred HHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 108 IQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 108 ~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
.+.|++++|.+.|.++...... ..++.+.+.++.+..|+++.+...+.++..
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD---NPEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT---SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred hhccCHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 5678999999999888766532 456777888888888988888777765544
No 93
>PRK11189 lipoprotein NlpI; Provisional
Probab=89.44 E-value=5.2 Score=38.18 Aligned_cols=94 Identities=14% Similarity=0.093 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
..++.+|..|.+.|+++.|...|.+..+.-.. ..+.....-.+....|+++.+.....++-.+- +++. ...
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~---P~~~---~a~ 135 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDFSQALALRPD---MADAYNYLGIYLTQAGNFDAAYEAFDSVLELD---PTYN---YAY 135 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCH---HHH
Confidence 44555566666666666666655555443221 12333444444455556665555555544321 1100 001
Q ss_pred HHHHHhccccCCHHHHHHHHHhc
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
...|..+...|+|.+|.+.|-.+
T Consensus 136 ~~lg~~l~~~g~~~eA~~~~~~a 158 (296)
T PRK11189 136 LNRGIALYYGGRYELAQDDLLAF 158 (296)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
Confidence 22344445555565555555443
No 94
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.44 E-value=1.4 Score=44.64 Aligned_cols=62 Identities=11% Similarity=-0.057 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
++-.+|+.++..|.|++|+++|....+.|.+. --.+-+...+..-.|||+.|.+.-.||-++
T Consensus 117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~e---piFYsNraAcY~~lgd~~~Vied~TkALEl 178 (606)
T KOG0547|consen 117 ALKTKGNKFFRNKKYDEAIKYYTQAIELCPDE---PIFYSNRAACYESLGDWEKVIEDCTKALEL 178 (606)
T ss_pred HHHhhhhhhhhcccHHHHHHHHHHHHhcCCCC---chhhhhHHHHHHHHhhHHHHHHHHHHHhhc
Confidence 46778999999999999999999999999653 123445566777789999999888887665
No 95
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=88.86 E-value=0.93 Score=30.63 Aligned_cols=41 Identities=24% Similarity=0.362 Sum_probs=33.7
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
.+++.....++...||+.||++...+.+.|..|...|.+..
T Consensus 6 l~~l~~~~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 6 LELLAQQGKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred HHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 33433345689999999999999999999999999987753
No 96
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.85 E-value=20 Score=33.48 Aligned_cols=195 Identities=12% Similarity=0.048 Sum_probs=102.8
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc--cchhHHHhHHHHHHHHHHhcCHHH
Q 016653 75 DELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTV--AVGQKMDLVFYTLQLGFFYMDFDL 152 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~--~~~~~id~~l~~i~~~i~~~~~~~ 152 (385)
+.-.-|..-.+.|++|..-=--..++..-|.+.-+...+.++..+|.+...... +.-+...|.++...=.++.-+.+.
T Consensus 49 KakdcLlkA~~~yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~ 128 (308)
T KOG1585|consen 49 KAKDCLLKASKGYENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDD 128 (308)
T ss_pred HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHH
Confidence 334466666667777643322233344444444555667777777776543321 222345566666666677777778
Q ss_pred HHhHHHHHHHHHhcCCChhhhh-hhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhH
Q 016653 153 ISKSIDKAKSLFEEGGDWERKN-RLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVS 231 (385)
Q Consensus 153 ~~~~i~ka~~~~~~~~~~~~~~-~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~ 231 (385)
+.....++-..++.++ ..++. .+---.|..+..-+.|.+|+.-|+.-..-. .+.-++++..+-.+-.-|+-+.+.+
T Consensus 129 AlqlYqralavve~~d-r~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~--~~~~~y~~~~k~~va~ilv~L~~~D 205 (308)
T KOG1585|consen 129 ALQLYQRALAVVEEDD-RDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAA--DKCDAYNSQCKAYVAAILVYLYAHD 205 (308)
T ss_pred HHHHHHHHHHHHhccc-hHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHH--HHHhhcccHHHHHHHHHHHHhhHHH
Confidence 8887877777766432 22221 111123445667788888888876532110 1122333333333333344455554
Q ss_pred HHh--hccCC-hHHHHHhcC--cchHHHHHHHHHhccHHHHHHHHH
Q 016653 232 LKQ--KVVDA-PEILTVIGK--IPYLSEFLNSLYDCQYKSFFSAFA 272 (385)
Q Consensus 232 lk~--~v~~~-~e~~~~l~~--~p~~~~li~~f~~~~y~~~~~~L~ 272 (385)
.+. +.+.. ..+-.|... .-.+.+++++|-..|-..+...+.
T Consensus 206 yv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kvl~ 251 (308)
T KOG1585|consen 206 YVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKVLS 251 (308)
T ss_pred HHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHHHc
Confidence 432 12211 111122222 224788999999998888765443
No 97
>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=88.67 E-value=3.5 Score=39.85 Aligned_cols=100 Identities=8% Similarity=-0.052 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..++..+|..+...|++++|.+.+.+..+..... .........+....|+++.+...+.++-..... ++......
T Consensus 114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~---~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~~ 188 (355)
T cd05804 114 WYLLGMLAFGLEEAGQYDRAEEAARRALELNPDD---AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGHN 188 (355)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHHH
Confidence 3456678889999999999999999988765332 334455566777889999999988887665321 22222223
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
-...|..++..|++..|...|-...
T Consensus 189 ~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 189 WWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 3356788999999999998887653
No 98
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=88.50 E-value=6 Score=33.68 Aligned_cols=58 Identities=12% Similarity=0.031 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSI 157 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i 157 (385)
++.-|.-.++.|+|.+|.+.+..+..........-..-+.++-+....+++..+...+
T Consensus 13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~ 70 (142)
T PF13512_consen 13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAY 70 (142)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHH
Confidence 3444444444455555555554444433333333333444444444444444444333
No 99
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.11 E-value=37 Score=35.53 Aligned_cols=125 Identities=15% Similarity=0.190 Sum_probs=81.7
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc------------------------
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVA------------------------ 129 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~------------------------ 129 (385)
.-++.++++-|+.++ +.-+.. +....=.|.+.|+.|+|++|++.|.++......
T Consensus 89 ~Yrlnk~Dealk~~~-~~~~~~-~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~ 166 (652)
T KOG2376|consen 89 EYRLNKLDEALKTLK-GLDRLD-DKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS 166 (652)
T ss_pred HHHcccHHHHHHHHh-cccccc-hHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence 445666777777666 222222 445666799999999999999999887321100
Q ss_pred ----chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH----HHHhc--CCChhhh---hhhhHHHHHhccccCCHHHHHHH
Q 016653 130 ----VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK----SLFEE--GGDWERK---NRLKVYEGLYCMSTRNFKKAASL 196 (385)
Q Consensus 130 ----~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~----~~~~~--~~~~~~~---~~l~~~~gl~~l~~r~~~~Aa~~ 196 (385)
+..-.+.+++..=+.+..|+|..+.+.+.+|. +.++. .++.+.. +.+++..+-.+...|+-.+|.+.
T Consensus 167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i 246 (652)
T KOG2376|consen 167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI 246 (652)
T ss_pred ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence 11234577777777888899999999999993 33322 2223333 45555556666778888888776
Q ss_pred HHhc
Q 016653 197 FLDS 200 (385)
Q Consensus 197 f~e~ 200 (385)
+.+.
T Consensus 247 y~~~ 250 (652)
T KOG2376|consen 247 YVDI 250 (652)
T ss_pred HHHH
Confidence 6554
No 100
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=87.94 E-value=38 Score=38.92 Aligned_cols=100 Identities=16% Similarity=0.134 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh--HH---------HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ--KM---------DLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~--~i---------d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
..++..+|..|...|++++|.++|.++.+....... +. ...+..-.+.+..|+++.+...+.++-..--
T Consensus 303 ~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P 382 (1157)
T PRK11447 303 SEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN 382 (1157)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence 467899999999999999999999998766543221 11 1122233455677899999888888776521
Q ss_pred cCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 166 EGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 166 ~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.++ .....-|..++..|+|.+|.+.|-.++.
T Consensus 383 --~~~----~a~~~Lg~~~~~~g~~~eA~~~y~~aL~ 413 (1157)
T PRK11447 383 --TDS----YAVLGLGDVAMARKDYAAAERYYQQALR 413 (1157)
T ss_pred --CCH----HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 111 1122356678889999999999988764
No 101
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=87.90 E-value=2.1 Score=31.09 Aligned_cols=58 Identities=21% Similarity=0.201 Sum_probs=41.4
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 103 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 103 la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
|+..|.+.|++++|.+++.++....+. -....+..-.+....|+|..+...++++-+.
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALELDPD---DPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHhCcc---cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 356788888888888888887765432 3455566666777778888888777776543
No 102
>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=87.88 E-value=2.2 Score=30.69 Aligned_cols=52 Identities=19% Similarity=0.290 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 289 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
..+++.++..+...-+.|=+.+ +...||+.||+|..-+-+-+..|...|-+.
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 4677888888888889999999 999999999999999999999999999764
No 103
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=87.87 E-value=6.5 Score=36.88 Aligned_cols=181 Identities=13% Similarity=0.029 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
..+..++.+ +..|++.+|.+++.+..+... .-+.....+.+....++|+.+...+.++........ ...+-
T Consensus 79 ~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~----~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~----~~~~~ 149 (280)
T PF13429_consen 79 QDYERLIQL-LQDGDPEEALKLAEKAYERDG----DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPD----SARFW 149 (280)
T ss_dssp --------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-----HHHH
T ss_pred ccccccccc-ccccccccccccccccccccc----ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCC----CHHHH
Confidence 346677888 799999999999877655432 234445567778888999999999998775332111 23334
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHH-HHH
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLS-EFL 256 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~-~li 256 (385)
...|..+...|++..|.+.|-.++..... -.++...++..-+-..+..+++. ++.. .....+..|.+. .+.
T Consensus 150 ~~~a~~~~~~G~~~~A~~~~~~al~~~P~-----~~~~~~~l~~~li~~~~~~~~~~-~l~~--~~~~~~~~~~~~~~la 221 (280)
T PF13429_consen 150 LALAEIYEQLGDPDKALRDYRKALELDPD-----DPDARNALAWLLIDMGDYDEARE-ALKR--LLKAAPDDPDLWDALA 221 (280)
T ss_dssp HHHHHHHHHCCHHHHHHHHHHHHHHH-TT------HHHHHHHHHHHCTTCHHHHHHH-HHHH--HHHH-HTSCCHCHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCCC-----CHHHHHHHHHHHHHCCChHHHHH-HHHH--HHHHCcCHHHHHHHHH
Confidence 55777888999999999998777643211 11232222222222233333332 2211 112224556653 344
Q ss_pred HHHH-hccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHH
Q 016653 257 NSLY-DCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREV 295 (385)
Q Consensus 257 ~~f~-~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~i 295 (385)
.++. -.++...+..+......-..|+-...|.-.++...
T Consensus 222 ~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~ 261 (280)
T PF13429_consen 222 AAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQA 261 (280)
T ss_dssp HHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT--
T ss_pred HHhccccccccccccccccccccccccccccccccccccc
Confidence 4443 46888888888888777778888887776655443
No 104
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=87.75 E-value=18 Score=32.54 Aligned_cols=133 Identities=12% Similarity=0.119 Sum_probs=88.5
Q ss_pred HHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 84 IADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 84 l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
++.+.+..-.-....-.++||.-..+.|++.+|...|.+...=.- -+--.+.++..+..+..+++..+...+++.-+.
T Consensus 76 ~Rea~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~f--A~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~ 153 (251)
T COG4700 76 LREATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIF--AHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY 153 (251)
T ss_pred HHHHHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcccc--CCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Confidence 333333333344456689999999999999999999988652111 123457899999999999999888877766554
Q ss_pred HhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhC
Q 016653 164 FEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISL 227 (385)
Q Consensus 164 ~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~ 227 (385)
.-.+-.|+- ...-|..+-..|.+..|-+.|--+.+.++ .+.-.+.|+...+-.+.
T Consensus 154 ~pa~r~pd~----~Ll~aR~laa~g~~a~Aesafe~a~~~yp-----g~~ar~~Y~e~La~qgr 208 (251)
T COG4700 154 NPAFRSPDG----HLLFARTLAAQGKYADAESAFEVAISYYP-----GPQARIYYAEMLAKQGR 208 (251)
T ss_pred CCccCCCCc----hHHHHHHHHhcCCchhHHHHHHHHHHhCC-----CHHHHHHHHHHHHHhcc
Confidence 322211211 12345556678899988888877665443 35567889887665553
No 105
>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=87.54 E-value=4.1 Score=38.63 Aligned_cols=144 Identities=17% Similarity=0.177 Sum_probs=88.2
Q ss_pred HhccccCCHHHHHHHHH-----hccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHH
Q 016653 182 LYCMSTRNFKKAASLFL-----DSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFL 256 (385)
Q Consensus 182 l~~l~~r~~~~Aa~~f~-----e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li 256 (385)
...+.+||.-+-...+. +.+.|-+..|.+++.++- .+++.-+..+ -+.. .+.++-
T Consensus 18 ~~rLSErnciEiv~kL~~~~~ldli~T~dGkeyiT~~~L~-------------~EI~~el~~~------gGRv-~~~dL~ 77 (272)
T PF09743_consen 18 SQRLSERNCIEIVNKLIEKKLLDLIHTTDGKEYITPEQLE-------------KEIKDELYVH------GGRV-NLVDLA 77 (272)
T ss_pred hhhcchhhHHHHHHHHHHcCCeeEEEECCCCEEECHHHHH-------------HHHHHHHHHc------CCce-EHHHHH
Confidence 34566777655555443 445566667788886653 2333211111 0110 011211
Q ss_pred HHHHhccHHHHHHHHHHhHHH------hhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHH
Q 016653 257 NSLYDCQYKSFFSAFAGLTEQ------IKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 257 ~~f~~~~y~~~~~~L~~~~~~------l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
.-.+=|+..+...+..+... ...+.+-..+++.+.+++..+. |= -..|+++.+|+.|++|.+++-+.+
T Consensus 78 -~~LnVd~~~ie~~~~~i~~~~~~~~l~~gelit~~Yld~l~~Eine~L--qe---~G~vsi~eLa~~~~Lp~efl~~~l 151 (272)
T PF09743_consen 78 -QALNVDLDHIERRAQEIVKSDKSLQLVQGELITDSYLDSLAEEINEKL--QE---SGQVSISELAKQYDLPSEFLKEEL 151 (272)
T ss_pred -HhcCcCHHHHHHHHHHHHhCCCcEEEECCEEccHHHHHHHHHHHHHHH--HH---cCeEeHHHHHHhcCCcHHHHHHHH
Confidence 22333455554444443221 2344555677888888887743 22 489999999999999999999888
Q ss_pred HHHHhCCccceEEecCCCEEEEc
Q 016653 331 SRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 331 ~~lI~~g~l~akID~~~giv~~~ 353 (385)
..-...+.|+|++|.. ++++.
T Consensus 152 i~~~lg~~I~g~~d~~--~lyT~ 172 (272)
T PF09743_consen 152 ISKRLGKIIKGRLDGD--VLYTE 172 (272)
T ss_pred hhhhcCcceeEEEeCC--EEecH
Confidence 8889999999999998 66553
No 106
>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=87.36 E-value=0.61 Score=37.13 Aligned_cols=39 Identities=18% Similarity=0.346 Sum_probs=35.0
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
=.=|.++.|++.||++.+++++.|-.|+.+|.|...||-
T Consensus 63 ~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 63 EEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred CCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecccCC
Confidence 346999999999999999999999999999999998883
No 107
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=86.71 E-value=8.9 Score=36.17 Aligned_cols=105 Identities=9% Similarity=0.056 Sum_probs=72.8
Q ss_pred HHHHHHHHH-HHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 98 EAHLAKSLF-YIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 98 ~a~~~la~~-~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
...|..|.- +.+.|+|++|...|..+..........-+..+-+-.+.+-.|++..+.....++-...-. ..+....
T Consensus 143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~-s~~~~dA-- 219 (263)
T PRK10803 143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPK-SPKAADA-- 219 (263)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CcchhHH--
Confidence 445666654 477899999999999998877665555566677777788889999998887776554211 1111111
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccCC
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSISTFT 205 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~ 205 (385)
....|..+...+++..|...|-.++..|.
T Consensus 220 l~klg~~~~~~g~~~~A~~~~~~vi~~yP 248 (263)
T PRK10803 220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYP 248 (263)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 12246666788999999998877766554
No 108
>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=86.69 E-value=19 Score=36.11 Aligned_cols=118 Identities=14% Similarity=0.102 Sum_probs=66.9
Q ss_pred HhHHHHHHHHHHhCCCHHHHHHHHHhcCCCCCHHHHHHHHH---HHHHH---HHHHHHHHHHHHHhhCHHHHHHHHHHHH
Q 016653 31 VGLKGEVFSMVKAHDMASFYETLVAESVLEMDQSVLDSMRT---KIEDE---LKKLDDRIADAEENLGESEVREAHLAKS 104 (385)
Q Consensus 31 ~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~~D~~~~~~~~~---~~~~~---l~~Le~~l~~~~~n~~~~~ir~a~~~la 104 (385)
.-|-..++..++.+........+++++.-. ||++.--+-+ ...++ +.-+.+.++ ++--. -..+.-.|
T Consensus 169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~-~pev~~~LA~v~l~~~~E~~AI~ll~~aL~---~~p~d---~~LL~~Qa 241 (395)
T PF09295_consen 169 NYLVDTLLKYLSLTQRYDEAIELLEKLRER-DPEVAVLLARVYLLMNEEVEAIRLLNEALK---ENPQD---SELLNLQA 241 (395)
T ss_pred hHHHHHHHHHHhhcccHHHHHHHHHHHHhc-CCcHHHHHHHHHHhcCcHHHHHHHHHHHHH---hCCCC---HHHHHHHH
Confidence 345556777777777777777777765422 2333221111 11111 222222222 11111 23466678
Q ss_pred HHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHH
Q 016653 105 LFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSID 158 (385)
Q Consensus 105 ~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ 158 (385)
+|+.+.|+++.|+++..++.+... ..++....+.++++..|+|+.|+..++
T Consensus 242 ~fLl~k~~~~lAL~iAk~av~lsP---~~f~~W~~La~~Yi~~~d~e~ALlaLN 292 (395)
T PF09295_consen 242 EFLLSKKKYELALEIAKKAVELSP---SEFETWYQLAECYIQLGDFENALLALN 292 (395)
T ss_pred HHHHhcCCHHHHHHHHHHHHHhCc---hhHHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 888888888888888777665543 245666677778888888887765544
No 109
>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=86.09 E-value=4.2 Score=28.93 Aligned_cols=33 Identities=24% Similarity=0.252 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVA 129 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~ 129 (385)
..+++.+|..|.+.|++++|.+.+.++.....+
T Consensus 25 ~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 25 PEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 566889999999999999999999988776544
No 110
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=86.06 E-value=3.8 Score=31.97 Aligned_cols=63 Identities=17% Similarity=0.191 Sum_probs=48.4
Q ss_pred HHHhCCHHHHHHHHHHHHhhhccchh------HHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCC
Q 016653 107 YIQIGDKEKALEQLKVTESKTVAVGQ------KMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGD 169 (385)
Q Consensus 107 ~~~~Gd~~~A~~~~~~~~~~~~~~~~------~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~ 169 (385)
..+.|||.+|.+.+.+..+++..... .--..++...+....|+++.+...+..|-.+-.+.+|
T Consensus 8 ~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D 76 (94)
T PF12862_consen 8 ALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGD 76 (94)
T ss_pred HHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCC
Confidence 35789999999999999998854332 2235677777888889999999888888877655555
No 111
>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=85.75 E-value=48 Score=34.50 Aligned_cols=130 Identities=15% Similarity=0.097 Sum_probs=92.6
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 016653 93 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 172 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~ 172 (385)
......+++=+|.+|...|++++|++++.+..+.+++ .+|.++...|+.-..||+..+...++.|+.+-. .| |
T Consensus 190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt---~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~--~D--R 262 (517)
T PF12569_consen 190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT---LVELYMTKARILKHAGDLKEAAEAMDEARELDL--AD--R 262 (517)
T ss_pred chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh--hh--H
Confidence 3455678999999999999999999999999887644 579999999999999999999999999998621 12 1
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhcc-ccCCcCccCCHhHHHHHHHHHHHhhCChhH
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSI-STFTTYELFPYDTFIFYTVLTSIISLDRVS 231 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~-~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~ 231 (385)
- |-.-.+.+.+..+...+|...+---. +..+...-+.--++..|.+=||-+-..+.+
T Consensus 263 y--iNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~ 320 (517)
T PF12569_consen 263 Y--INSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD 320 (517)
T ss_pred H--HHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence 1 11335678889999988865432110 111111122223778888888887765443
No 112
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=85.42 E-value=2.5 Score=40.50 Aligned_cols=55 Identities=22% Similarity=0.281 Sum_probs=42.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
..-.|.+|...|++++|++.+.+. ..++.....+.+.+..+..+.+.+.+.+.+.
T Consensus 105 ~~~~A~i~~~~~~~~~AL~~l~~~--------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~ 159 (290)
T PF04733_consen 105 QLLAATILFHEGDYEEALKLLHKG--------GSLELLALAVQILLKMNRPDLAEKELKNMQQ 159 (290)
T ss_dssp HHHHHHHHCCCCHHHHHHCCCTTT--------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred HHHHHHHHHHcCCHHHHHHHHHcc--------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 455677888999999999877542 3467777888889999999999988877764
No 113
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=85.05 E-value=4 Score=34.61 Aligned_cols=77 Identities=9% Similarity=0.171 Sum_probs=57.7
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHH
Q 016653 252 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 252 ~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
...+-+.....||.+..+.+..+.-.=. ..+-+..|-+.-|.|++.-.+..|++|.+..+|.-+|+++++.-+-+.
T Consensus 79 aWgiGQkiWq~Df~GiYeaI~~~dWSee----ak~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~il 154 (197)
T KOG4414|consen 79 AWGIGQKIWQHDFAGIYEAINAHDWSEE----AKDIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGIL 154 (197)
T ss_pred hhhhhHHHHhcccchHHHHHhhhcchHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 3456667788889888888776522111 123455677778889999999999999999999999999998766554
Q ss_pred H
Q 016653 332 R 332 (385)
Q Consensus 332 ~ 332 (385)
+
T Consensus 155 E 155 (197)
T KOG4414|consen 155 E 155 (197)
T ss_pred H
Confidence 4
No 114
>PRK12370 invasion protein regulator; Provisional
Probab=84.83 E-value=54 Score=34.27 Aligned_cols=96 Identities=10% Similarity=-0.068 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..++..+|..+...|++++|.++|.++.+...+.. +.......+....|+++.+...+.++-.+-- .++..
T Consensus 338 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~---~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P--~~~~~---- 408 (553)
T PRK12370 338 PQALGLLGLINTIHSEYIVGSLLFKQANLLSPISA---DIKYYYGWNLFMAGQLEEALQTINECLKLDP--TRAAA---- 408 (553)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCH---HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--CChhh----
Confidence 45678889999999999999999998887764322 3345555667778999999888888766521 11111
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
....+..+...|+|.+|...|-.+.
T Consensus 409 ~~~~~~~~~~~g~~eeA~~~~~~~l 433 (553)
T PRK12370 409 GITKLWITYYHTGIDDAIRLGDELR 433 (553)
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHH
Confidence 1122333445678888888776653
No 115
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=84.80 E-value=9.9 Score=32.68 Aligned_cols=70 Identities=14% Similarity=0.092 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch----hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG----QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~----~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~ 166 (385)
..++..+|..|...|++++|.++|.++...-.... ....+....-++.+..|++..+.....++......
T Consensus 72 ~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~ 145 (168)
T CHL00033 72 SYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQ 145 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHH
Confidence 45799999999999999999999998875432211 12233444445556889999998888888776544
No 116
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=84.52 E-value=43 Score=32.91 Aligned_cols=204 Identities=13% Similarity=0.131 Sum_probs=123.2
Q ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHh
Q 016653 76 ELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISK 155 (385)
Q Consensus 76 ~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~ 155 (385)
-+--|+.-+..++......++ .-++.+|+-++-.|++..|+..|-...+--. .....++.-.-+.+.+|.-..+..
T Consensus 18 ~Lvll~~~~e~a~~~~~~adv-ekhlElGk~lla~~Q~sDALt~yHaAve~dp---~~Y~aifrRaT~yLAmGksk~al~ 93 (504)
T KOG0624|consen 18 VLVLLELFLEGAESTASPADV-EKHLELGKELLARGQLSDALTHYHAAVEGDP---NNYQAIFRRATVYLAMGKSKAALQ 93 (504)
T ss_pred HHHHHHHHHHHHHhcCCHHHH-HHHHHHHHHHHHhhhHHHHHHHHHHHHcCCc---hhHHHHHHHHHHHhhhcCCccchh
Confidence 344566666677776666664 5689999999999999999999987766432 233445555667777888777777
Q ss_pred HHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhh
Q 016653 156 SIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQK 235 (385)
Q Consensus 156 ~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~ 235 (385)
.+.++-++ .+| -. --+...|..+|-+|.+..|...|-.++..-.+.+.. .+...+
T Consensus 94 Dl~rVlel---KpD--F~-~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~-------------------~eaqsk 148 (504)
T KOG0624|consen 94 DLSRVLEL---KPD--FM-AARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLV-------------------LEAQSK 148 (504)
T ss_pred hHHHHHhc---Ccc--HH-HHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchh-------------------HHHHHH
Confidence 77765554 122 11 113457889999999999999998776543222210 011111
Q ss_pred ccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHH
Q 016653 236 VVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAM 315 (385)
Q Consensus 236 v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~m 315 (385)
+.-..+-+ -....+.++|-+.|+....+.+..+ |.--+| +.=++.+|.++|+.-=+|-+.|.==+.
T Consensus 149 l~~~~e~~------~l~~ql~s~~~~GD~~~ai~~i~~l---lEi~~W-----da~l~~~Rakc~i~~~e~k~AI~Dlk~ 214 (504)
T KOG0624|consen 149 LALIQEHW------VLVQQLKSASGSGDCQNAIEMITHL---LEIQPW-----DASLRQARAKCYIAEGEPKKAIHDLKQ 214 (504)
T ss_pred HHhHHHHH------HHHHHHHHHhcCCchhhHHHHHHHH---HhcCcc-----hhHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence 11001100 1134555566677777666555443 223333 444667788888777777766654445
Q ss_pred HHHhCCC
Q 016653 316 AKAFGVT 322 (385)
Q Consensus 316 A~~fg~s 322 (385)
|+.+.-+
T Consensus 215 askLs~D 221 (504)
T KOG0624|consen 215 ASKLSQD 221 (504)
T ss_pred HHhcccc
Confidence 5555443
No 117
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.48 E-value=28 Score=31.37 Aligned_cols=108 Identities=16% Similarity=0.113 Sum_probs=79.2
Q ss_pred HhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC
Q 016653 89 ENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG 168 (385)
Q Consensus 89 ~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~ 168 (385)
.|.....-..+.+.+|+-+.++|++++|...+........+..-+.=.-+.+-|+-+..+.++.+++.+..... .
T Consensus 81 ~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-----~ 155 (207)
T COG2976 81 ANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKE-----E 155 (207)
T ss_pred hccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-----c
Confidence 44444555678899999999999999999999988877766555666777888888889988888765543222 2
Q ss_pred ChhhhhhhhHHHHHhccccCCHHHHHHHHHhcccc
Q 016653 169 DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t 203 (385)
+| .++.-...|=.++..|+=.+|...|-.+...
T Consensus 156 ~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 156 SW--AAIVAELRGDILLAKGDKQEARAAYEKALES 188 (207)
T ss_pred cH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence 33 3444456677788888888888877666544
No 118
>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=84.43 E-value=2.8 Score=28.18 Aligned_cols=40 Identities=15% Similarity=0.327 Sum_probs=33.1
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
+..++.--..++...+|+.+|+|...+-+.|-+|+..|-|
T Consensus 8 Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 8 ILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 4466666778999999999999999999999999998865
No 119
>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=84.34 E-value=3.6 Score=28.76 Aligned_cols=37 Identities=16% Similarity=0.045 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQK 133 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~ 133 (385)
|+.++-+|--+++.|+|++|.++...+.+.-+...+.
T Consensus 1 Rd~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa 37 (53)
T PF14853_consen 1 RDCLYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQA 37 (53)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred ChhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence 5678889999999999999999999888765554443
No 120
>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=84.06 E-value=5.9 Score=29.10 Aligned_cols=68 Identities=12% Similarity=0.023 Sum_probs=50.2
Q ss_pred HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh-hhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 134 MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER-KNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 134 id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~-~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
...+.++-.+....|+|+.+..+.+++-......++... ......--|..+...|+|.+|.++|-.++
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 456677777888899999999999999998655554322 23333446678888999999999987764
No 121
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=83.99 E-value=5.4 Score=40.32 Aligned_cols=20 Identities=5% Similarity=-0.175 Sum_probs=12.9
Q ss_pred CCChHHHHHHHHHHHhCCcc
Q 016653 320 GVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 320 g~s~~~iE~~L~~lI~~g~l 339 (385)
-+++++-++||.+.+.+..+
T Consensus 389 pv~~~~W~~wi~~q~~~~gv 408 (453)
T PLN03098 389 VVSPAEWERWIRDQQESEGV 408 (453)
T ss_pred ecchHHHHHHHHHHHHhcCC
Confidence 35667778888876654433
No 122
>PRK14574 hmsH outer membrane protein; Provisional
Probab=83.88 E-value=71 Score=35.31 Aligned_cols=94 Identities=12% Similarity=0.078 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
..+..|-+.++.||+..|+..|.++.+.-.....-+. .++.+....|+...+..+++|+- +....| .....
T Consensus 36 ~~y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~---dll~l~~~~G~~~~A~~~~eka~---~p~n~~---~~~ll 106 (822)
T PRK14574 36 TQYDSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVD---DWLQIAGWAGRDQEVIDVYERYQ---SSMNIS---SRGLA 106 (822)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH---HHHHHHHHcCCcHHHHHHHHHhc---cCCCCC---HHHHH
Confidence 3444555566666666666666655543322110111 33344444466666655555544 110111 11111
Q ss_pred HHHHhccccCCHHHHHHHHHhcc
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
..|..+...|+|..|...|-.++
T Consensus 107 alA~ly~~~gdyd~Aiely~kaL 129 (822)
T PRK14574 107 SAARAYRNEKRWDQALALWQSSL 129 (822)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHH
Confidence 22334455566666665555544
No 123
>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=83.75 E-value=13 Score=30.99 Aligned_cols=72 Identities=13% Similarity=-0.027 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCCh
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDW 170 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~ 170 (385)
...+...++..+...|++++|.+.+.+....... --.++...|++....|+...+.....+.+..+.. |.+|
T Consensus 61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~---~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~P 134 (146)
T PF03704_consen 61 YLDALERLAEALLEAGDYEEALRLLQRALALDPY---DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEP 134 (146)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS---
T ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCC---CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCc
Confidence 3566788999999999999999999988765432 2346778899999999999999999999988753 4444
No 124
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=83.74 E-value=15 Score=37.82 Aligned_cols=155 Identities=13% Similarity=0.122 Sum_probs=91.5
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHH
Q 016653 102 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 181 (385)
Q Consensus 102 ~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~g 181 (385)
..|+--++.|||+.|..+|........+ .|++ +-+-.......|+|..+.+.-.|...+ .++|.-. -.-.|
T Consensus 7 ~kgnaa~s~~d~~~ai~~~t~ai~l~p~-nhvl--ySnrsaa~a~~~~~~~al~da~k~~~l---~p~w~kg---y~r~G 77 (539)
T KOG0548|consen 7 EKGNAAFSSGDFETAIRLFTEAIMLSPT-NHVL--YSNRSAAYASLGSYEKALKDATKTRRL---NPDWAKG---YSRKG 77 (539)
T ss_pred HHHHhhcccccHHHHHHHHHHHHccCCC-ccch--hcchHHHHHHHhhHHHHHHHHHHHHhc---CCchhhH---HHHhH
Confidence 4577789999999999999998876644 4442 344555666778888887766665554 4677421 12267
Q ss_pred HhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHh
Q 016653 182 LYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYD 261 (385)
Q Consensus 182 l~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~ 261 (385)
-.++..|+|.+|...|-+.+..-.+ .-..+.++.-.-.-++.. ...+.+|.|..-+...|..+.++ ..
T Consensus 78 aa~~~lg~~~eA~~ay~~GL~~d~~-------n~~L~~gl~~a~~~~~~~--~~~~~~p~~~~~l~~~p~t~~~~---~~ 145 (539)
T KOG0548|consen 78 AALFGLGDYEEAILAYSEGLEKDPS-------NKQLKTGLAQAYLEDYAA--DQLFTKPYFHEKLANLPLTNYSL---SD 145 (539)
T ss_pred HHHHhcccHHHHHHHHHHHhhcCCc-------hHHHHHhHHHhhhHHHHh--hhhccCcHHHHHhhcChhhhhhh---cc
Confidence 7889999999999999887643222 222233332222111111 33566666665555554433222 23
Q ss_pred ccHHHHHHHHHHhHHH
Q 016653 262 CQYKSFFSAFAGLTEQ 277 (385)
Q Consensus 262 ~~y~~~~~~L~~~~~~ 277 (385)
..|...++.+......
T Consensus 146 ~~~~~~l~~~~~~p~~ 161 (539)
T KOG0548|consen 146 PAYVKILEIIQKNPTS 161 (539)
T ss_pred HHHHHHHHHhhcCcHh
Confidence 3455555555544333
No 125
>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=83.47 E-value=1.5 Score=29.36 Aligned_cols=26 Identities=35% Similarity=0.379 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
.++||+-|.+.||++.|.+.+.++..
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~ 27 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIE 27 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHH
Confidence 47899999999999999999998874
No 126
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=83.44 E-value=9 Score=41.83 Aligned_cols=98 Identities=12% Similarity=-0.022 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..++..+|.++...|++++|.+.+.++..... ++ .++.+....+....|++..+...+.++...- |+. ..+
T Consensus 359 ~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P--~n-~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-----Pd~-~~l 429 (765)
T PRK10049 359 LQGQSLLSQVAKYSNDLPQAEMRARELAYNAP--GN-QGLRIDYASVLQARGWPRAAENELKKAEVLE-----PRN-INL 429 (765)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-----CCC-hHH
Confidence 35678899999999999999999999876643 33 5677888888888899999999988877752 221 236
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcccc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~t 203 (385)
.+..|...+..++|..|-..+-++...
T Consensus 430 ~~~~a~~al~~~~~~~A~~~~~~ll~~ 456 (765)
T PRK10049 430 EVEQAWTALDLQEWRQMDVLTDDVVAR 456 (765)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 678888999999999999888776543
No 127
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=83.28 E-value=23 Score=35.95 Aligned_cols=102 Identities=15% Similarity=0.128 Sum_probs=71.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh---hcc-chh
Q 016653 59 LEMDQSVLDSMRTKIEDELKKLDDRIADAEEN--LGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESK---TVA-VGQ 132 (385)
Q Consensus 59 ~~~D~~~~~~~~~~~~~~l~~Le~~l~~~~~n--~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~---~~~-~~~ 132 (385)
-|-|+-....+-+=. .++.++++.++-|+.- .++.+ -.++..||++|.+.+|+++|..+|.+..+. ++. .++
T Consensus 428 kPnDsRlw~aLG~CY-~kl~~~~eAiKCykrai~~~dte-~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~ 505 (559)
T KOG1155|consen 428 KPNDSRLWVALGECY-EKLNRLEEAIKCYKRAILLGDTE-GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDE 505 (559)
T ss_pred CCCchHHHHHHHHHH-HHhccHHHHHHHHHHHHhccccc-hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchH
Confidence 467877777776555 7788888888888743 22322 377999999999999999999999987653 232 233
Q ss_pred HHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 133 KMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 133 ~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
.+..++=+.+-.+-.+||+.+..+.+++..
T Consensus 506 t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 506 TIKARLFLAEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence 555555555555566888888777666544
No 128
>PRK11189 lipoprotein NlpI; Provisional
Probab=83.02 E-value=12 Score=35.66 Aligned_cols=30 Identities=20% Similarity=0.067 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
.++..+|..++..|++++|.+.+.+.....
T Consensus 133 ~a~~~lg~~l~~~g~~~eA~~~~~~al~~~ 162 (296)
T PRK11189 133 YAYLNRGIALYYGGRYELAQDDLLAFYQDD 162 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 456666666666667777766666665544
No 129
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=82.75 E-value=8.1 Score=32.59 Aligned_cols=64 Identities=13% Similarity=0.048 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
..++..+|..+...|++++|..+|.+....... -.+..+++-.+....|++..+...+.++-..
T Consensus 58 ~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~---~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~ 121 (144)
T PRK15359 58 WRAHIALAGTWMMLKEYTTAINFYGHALMLDAS---HPEPVYQTGVCLKMMGEPGLAREAFQTAIKM 121 (144)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC---CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 577899999999999999999999998875432 3466677777777889999999988887664
No 130
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=82.69 E-value=1.9 Score=40.42 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=42.1
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
=|...+.++++.+..|+++.+|+.||+|++-+-+.|..|-..|.+
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 388889999999999999999999999999999999999999866
No 131
>PRK12370 invasion protein regulator; Provisional
Probab=82.29 E-value=21 Score=37.41 Aligned_cols=98 Identities=11% Similarity=0.027 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..+++.+|..+...|++++|.+.+.+..+...... ........+.+..|+++.+...+.++-.... ..++. .
T Consensus 372 ~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~---~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~-p~~~~----~ 443 (553)
T PRK12370 372 ADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRA---AAGITKLWITYYHTGIDDAIRLGDELRSQHL-QDNPI----L 443 (553)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCh---hhHHHHHHHHHhccCHHHHHHHHHHHHHhcc-ccCHH----H
Confidence 45789999999999999999999999887654322 1122233345667888888877766543311 11222 2
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
....|..+...|++.+|...|-...+
T Consensus 444 ~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 444 LSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 24467777889999999998876543
No 132
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=82.23 E-value=38 Score=31.98 Aligned_cols=105 Identities=10% Similarity=0.081 Sum_probs=66.3
Q ss_pred HHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHhhhccc-----------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHH
Q 016653 93 ESEVREAHLAKSLFYIQIG-DKEKALEQLKVTESKTVAV-----------GQKMDLVFYTLQLGFFYMDFDLISKSIDKA 160 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~G-d~~~A~~~~~~~~~~~~~~-----------~~~id~~l~~i~~~i~~~~~~~~~~~i~ka 160 (385)
-+++.+..|..|.-.++.+ ++++|.+.+.+..+.|..+ ..++.++..+++..+..++.+.+.+..+-+
T Consensus 31 ~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l 110 (278)
T PF08631_consen 31 AEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNAL 110 (278)
T ss_pred HHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHH
Confidence 3567778999999999999 9999999999999886331 224455666666777777776665544444
Q ss_pred HHHHhcCCC-hhhh-hhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 161 KSLFEEGGD-WERK-NRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 161 ~~~~~~~~~-~~~~-~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+.+-...++ +... -++++..+ ..+...+.+.+...+.
T Consensus 111 ~~l~~e~~~~~~~~~L~l~il~~-----~~~~~~~~~~L~~mi~ 149 (278)
T PF08631_consen 111 RLLESEYGNKPEVFLLKLEILLK-----SFDEEEYEEILMRMIR 149 (278)
T ss_pred HHHHHhCCCCcHHHHHHHHHHhc-----cCChhHHHHHHHHHHH
Confidence 444333343 3332 45555444 4555555555554443
No 133
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=82.13 E-value=1.7 Score=38.75 Aligned_cols=44 Identities=20% Similarity=0.291 Sum_probs=41.4
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
|...+..++.-+..+++..+|+.||+|.+-+-+.|..|-..|.+
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 77888999999999999999999999999999999999999866
No 134
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=82.06 E-value=83 Score=34.37 Aligned_cols=170 Identities=6% Similarity=-0.119 Sum_probs=91.7
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccc-hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH-hc-------CCChh
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAV-GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF-EE-------GGDWE 171 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~-~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~-~~-------~~~~~ 171 (385)
..+|..|+..|++++|.+.|.++...-... ....+....+..+.+..++++.+...+.++.... .. ...|+
T Consensus 276 ~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~ 355 (765)
T PRK10049 276 RWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPN 355 (765)
T ss_pred HHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCC
Confidence 336888888899999988888876432111 1112333444445567788888888877766541 10 00111
Q ss_pred -hhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHh-hCChhHHHhhccCChHHHHHhcCc
Q 016653 172 -RKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSII-SLDRVSLKQKVVDAPEILTVIGKI 249 (385)
Q Consensus 172 -~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~-s~~R~~lk~~v~~~~e~~~~l~~~ 249 (385)
.........|..+...+++.+|...|-++..... .+.-.+..++.+. ...+.+--. ..+.+.++..
T Consensus 356 ~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P-------~n~~l~~~lA~l~~~~g~~~~A~-----~~l~~al~l~ 423 (765)
T PRK10049 356 DDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAP-------GNQGLRIDYASVLQARGWPRAAE-----NELKKAEVLE 423 (765)
T ss_pred chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-------CCHHHHHHHHHHHHhcCCHHHHH-----HHHHHHHhhC
Confidence 1112334466677788999999988877654321 1111222233332 122211000 1233334444
Q ss_pred ch-----HHHHHHHHHhccHHHHHHHHHHhHHHhhhch
Q 016653 250 PY-----LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDR 282 (385)
Q Consensus 250 p~-----~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~ 282 (385)
|. +.....+.-..+|......+.........|+
T Consensus 424 Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~ 461 (765)
T PRK10049 424 PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDP 461 (765)
T ss_pred CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence 53 2333344456688888888888776666665
No 135
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.06 E-value=31 Score=32.45 Aligned_cols=43 Identities=21% Similarity=0.112 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 81 DDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 81 e~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
-.+|+.|.+...- =-+|+..||++|...|+|.+|.-||.++.-
T Consensus 140 Ik~ln~YL~~F~~--D~EAW~eLaeiY~~~~~f~kA~fClEE~ll 182 (289)
T KOG3060|consen 140 IKELNEYLDKFMN--DQEAWHELAEIYLSEGDFEKAAFCLEELLL 182 (289)
T ss_pred HHHHHHHHHHhcC--cHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence 3456666654332 257899999999999999999999998753
No 136
>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=82.00 E-value=2.3 Score=30.53 Aligned_cols=37 Identities=24% Similarity=0.340 Sum_probs=32.3
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHH
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
|.+|+.-|.+.=-.+++..||+.||+|...|-+|=++
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 6788888888778999999999999999998887654
No 137
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.89 E-value=5.4 Score=37.46 Aligned_cols=102 Identities=11% Similarity=0.040 Sum_probs=59.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH-HHHhcCCChhhhhhhhH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK-SLFEEGGDWERKNRLKV 178 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~-~~~~~~~~~~~~~~l~~ 178 (385)
.|+.|-=++..|||.+|...|...........-.-+..+-+-++.+-.||+..+..+..++- ...+....|+-.-||
T Consensus 144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl-- 221 (262)
T COG1729 144 LYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL-- 221 (262)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH--
Confidence 66667777777777777777777766554443333444445556666777766665444433 334433334433333
Q ss_pred HHHHhccccCCHHHHHHHHHhccccCC
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSISTFT 205 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~~t~~ 205 (385)
|+..-..++=.+|+..|-++...|.
T Consensus 222 --g~~~~~l~~~d~A~atl~qv~k~YP 246 (262)
T COG1729 222 --GVSLGRLGNTDEACATLQQVIKRYP 246 (262)
T ss_pred --HHHHHHhcCHHHHHHHHHHHHHHCC
Confidence 3333456666777777777666654
No 138
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=81.75 E-value=15 Score=35.17 Aligned_cols=86 Identities=19% Similarity=0.206 Sum_probs=61.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHH
Q 016653 60 EMDQSVLDSMRTKIEDELKKLDDRIADAEEN-LGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVF 138 (385)
Q Consensus 60 ~~D~~~~~~~~~~~~~~l~~Le~~l~~~~~n-~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l 138 (385)
|.|+-++ ..++.+--+|.+-+.-+++.+.- .++..--+++-+||..|+..|++.+|.+.|.+..+.-
T Consensus 112 P~nAVyy-cNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeld----------- 179 (304)
T KOG0553|consen 112 PTNAVYY-CNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELD----------- 179 (304)
T ss_pred CCcchHH-HHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccC-----------
Confidence 3444444 55556666777777777776543 3667778889999999999999999999988877643
Q ss_pred HHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 016653 139 YTLQLGFFYMDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 139 ~~i~~~i~~~~~~~~~~~i~ka~~~~~~ 166 (385)
-+|+.+++++..|+..+.+
T Consensus 180 ---------P~Ne~~K~nL~~Ae~~l~e 198 (304)
T KOG0553|consen 180 ---------PDNESYKSNLKIAEQKLNE 198 (304)
T ss_pred ---------CCcHHHHHHHHHHHHHhcC
Confidence 4566777778888777654
No 139
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=81.57 E-value=2.4 Score=39.44 Aligned_cols=46 Identities=28% Similarity=0.368 Sum_probs=41.8
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
-|.+.+.+++..+..++.+.||+.||+|+.-+.+.|..|-..|.+.
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 4777789999999999999999999999999999999999977764
No 140
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=81.56 E-value=4.3 Score=34.29 Aligned_cols=62 Identities=16% Similarity=0.273 Sum_probs=49.9
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCC
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 355 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~ 355 (385)
.+|..++.....|=..++.+.||+.+|+|...+.+-+..|-..|=+..+=-...|+.....|
T Consensus 10 Al~~~i~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~ 71 (141)
T PRK11014 10 GLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPA 71 (141)
T ss_pred HHHHHHHHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCH
Confidence 45666666666776789999999999999999999999999999887766666676655544
No 141
>PRK04841 transcriptional regulator MalT; Provisional
Probab=81.38 E-value=39 Score=37.35 Aligned_cols=106 Identities=10% Similarity=-0.037 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh---H--HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ---K--MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG 168 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~---~--id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~ 168 (385)
.....++..+|..++..|+++.|...+.+..+.+...+. . .-.......+....|+++.+...+.++-......+
T Consensus 528 ~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~ 607 (903)
T PRK04841 528 HYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQ 607 (903)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccC
Confidence 334456788999999999999999999988776533211 1 11223344556677999999988888877655433
Q ss_pred ChhhhhhhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 169 DWERKNRLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
++. ........|..++..|++..|...+-.+
T Consensus 608 ~~~-~~~~~~~la~~~~~~G~~~~A~~~l~~a 638 (903)
T PRK04841 608 PQQ-QLQCLAMLAKISLARGDLDNARRYLNRL 638 (903)
T ss_pred chH-HHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 221 1222233566777889998888776554
No 142
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=81.14 E-value=68 Score=35.53 Aligned_cols=100 Identities=11% Similarity=-0.016 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
.+++..||.+||.-|||+.+......+...+....-+.+.++.+-|+.=-.||++.+..+.-.+...-.. +-+
T Consensus 270 P~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d-------~~~ 342 (1018)
T KOG2002|consen 270 PVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADND-------NFV 342 (1018)
T ss_pred cHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCC-------Ccc
Confidence 5678899999999999999999998887776555556678888999999999999998888776654221 111
Q ss_pred hHHHH--HhccccCCHHHHHHHHHhcccc
Q 016653 177 KVYEG--LYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 177 ~~~~g--l~~l~~r~~~~Aa~~f~e~~~t 203 (385)
--+-| -++++.+++..|.-.|-.+..+
T Consensus 343 l~~~GlgQm~i~~~dle~s~~~fEkv~k~ 371 (1018)
T KOG2002|consen 343 LPLVGLGQMYIKRGDLEESKFCFEKVLKQ 371 (1018)
T ss_pred ccccchhHHHHHhchHHHHHHHHHHHHHh
Confidence 22334 4778899999998888766544
No 143
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=80.93 E-value=3.6 Score=30.16 Aligned_cols=42 Identities=24% Similarity=0.264 Sum_probs=35.9
Q ss_pred HHHhcccccc--ccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 300 YSQFLESYKS--VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 300 ~~qy~~pY~~--I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
+.+++..... ++...||+.+|++...+.+.|..|...|.+..
T Consensus 11 IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 11 ILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 4556665555 99999999999999999999999999998744
No 144
>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=80.82 E-value=57 Score=34.60 Aligned_cols=102 Identities=14% Similarity=0.153 Sum_probs=78.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc-hhHHHhHHHHHHHHHH--hcCHHHHHhHHHHHHHHHhcCCChhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV-GQKMDLVFYTLQLGFF--YMDFDLISKSIDKAKSLFEEGGDWERKN 174 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~-~~~id~~l~~i~~~i~--~~~~~~~~~~i~ka~~~~~~~~~~~~~~ 174 (385)
.+..-++++|.+.|-.. |.+.+.+..+++.+. ..-.-.++..+++.+. .+|+..|..++.++...-...+||....
T Consensus 101 ~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v 179 (608)
T PF10345_consen 101 RCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFV 179 (608)
T ss_pred HHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHH
Confidence 34556799999999998 999999988887553 3345566666666544 3699999999999988877778999888
Q ss_pred hhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 175 RLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 175 ~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
-+....|+.++..+...++.+..-.+
T Consensus 180 ~~~l~~~~l~l~~~~~~d~~~~l~~~ 205 (608)
T PF10345_consen 180 LASLSEALLHLRRGSPDDVLELLQRA 205 (608)
T ss_pred HHHHHHHHHHhcCCCchhHHHHHHHH
Confidence 88888999999988776666555443
No 145
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=80.78 E-value=22 Score=32.97 Aligned_cols=60 Identities=8% Similarity=-0.061 Sum_probs=51.9
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 159 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~k 159 (385)
-+..|++|++.|.|..|..-+..+.+...+....-+....+++.....|..+.+.+....
T Consensus 178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~ 237 (243)
T PRK10866 178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI 237 (243)
T ss_pred HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence 357799999999999999999999988888888889999999999999988888765543
No 146
>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=80.71 E-value=3.4 Score=23.26 Aligned_cols=28 Identities=29% Similarity=0.366 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
.++..+|..+...|++++|..++.+...
T Consensus 2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 2 EALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 3578899999999999999999987654
No 147
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=80.44 E-value=3.9 Score=28.91 Aligned_cols=32 Identities=19% Similarity=0.065 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
-..+++.+|..+++.|++++|...|.++.+..
T Consensus 30 ~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~ 61 (65)
T PF13432_consen 30 NPEAWYLLGRILYQQGRYDEALAYYERALELD 61 (65)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 36889999999999999999999999887544
No 148
>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=80.40 E-value=10 Score=36.89 Aligned_cols=72 Identities=13% Similarity=0.021 Sum_probs=62.5
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~-~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
-..++..-+-+=|+.|++..+|..|..+|++-. ..|..++-.+-.+.+-..+.++.||+..+.+...+|...
T Consensus 76 ep~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~ 148 (390)
T KOG0551|consen 76 EPHEQAENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKL 148 (390)
T ss_pred ChHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344566778888999999999999999999965 889888888889999999999999999999988888765
No 149
>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=80.34 E-value=6.4 Score=27.72 Aligned_cols=51 Identities=18% Similarity=0.236 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhcccccccc-HHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 290 YYMREVRTVVYSQFLESYKSVT-IEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I~-l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
.+.+.++...+...+.+-..+. ...||+.||+|...+.+.|..|...|-|.
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 4455555544444445555555 99999999999999999999999988653
No 150
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=80.19 E-value=2.5 Score=39.58 Aligned_cols=46 Identities=26% Similarity=0.343 Sum_probs=42.8
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
-|.+.+.++++....|+++.+|+.||+|++-+-+.|..|=..|.|.
T Consensus 5 eR~~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~ 50 (253)
T COG1349 5 ERHQKILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLL 50 (253)
T ss_pred HHHHHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEE
Confidence 3888899999999999999999999999999999999999988774
No 151
>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=80.10 E-value=2.9 Score=24.25 Aligned_cols=24 Identities=29% Similarity=0.344 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLK 121 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~ 121 (385)
.+++.+|..+...||.++|...+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 357889999999999999998764
No 152
>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=79.94 E-value=11 Score=30.78 Aligned_cols=64 Identities=11% Similarity=0.050 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
..++..+|..++..|++++|.+++.+....... ..+.....-.+....|++..+...+.++-..
T Consensus 51 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 51 SRYWLGLAACCQMLKEYEEAIDAYALAAALDPD---DPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC---ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 467788899999999999999999887654422 2344455555677778998888888776665
No 153
>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=79.89 E-value=5.6 Score=26.67 Aligned_cols=43 Identities=19% Similarity=0.353 Sum_probs=35.3
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
.|.+++....+ ...+...+|+.+|+|...+-..|..|...|-+
T Consensus 3 ~R~~Il~~L~~--~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV 45 (47)
T PF01022_consen 3 TRLRILKLLSE--GPLTVSELAEELGLSQSTVSHHLKKLREAGLV 45 (47)
T ss_dssp HHHHHHHHHTT--SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHh--CCCchhhHHHhccccchHHHHHHHHHHHCcCe
Confidence 46666666655 77899999999999999999999999988855
No 154
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=79.40 E-value=3.8 Score=33.91 Aligned_cols=78 Identities=12% Similarity=0.118 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHh
Q 016653 61 MDQSVLDSMRTKIEDELKK----LDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDL 136 (385)
Q Consensus 61 ~D~~~~~~~~~~~~~~l~~----Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~ 136 (385)
-||++-.+++++..++... -...+.+.++..-.+..=+-...+|+-+...|++.+|..++.++..-|..+.+.+.+
T Consensus 23 ~dP~frkkL~~rrk~~~~~~~~~~~~~~~~~~d~~~~e~~Fl~qV~lGE~L~~~G~~~~aa~hf~nAl~V~~qP~~LL~i 102 (121)
T PF02064_consen 23 SDPDFRKKLRERRKKQAKAQEQAKSEKLPDPNDPEEMERFFLQQVQLGEQLLAQGDYEEAAEHFYNALKVCPQPAELLQI 102 (121)
T ss_dssp --------------------------SSSHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTSSSHHHHHHH
T ss_pred cChHHHHHHHHHHHHHHHHHhhhhcccccCcCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHH
Confidence 3666666666544333322 011111112222223333446789999999999999999999999999888877655
Q ss_pred HH
Q 016653 137 VF 138 (385)
Q Consensus 137 ~l 138 (385)
+=
T Consensus 103 ~q 104 (121)
T PF02064_consen 103 YQ 104 (121)
T ss_dssp HH
T ss_pred HH
Confidence 44
No 155
>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=79.15 E-value=8.5 Score=37.13 Aligned_cols=65 Identities=8% Similarity=-0.137 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-cchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTV-AVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~-~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
..++..+|..|++.|++++|..++.+..+... .+...+...+...++.+..|+++.+...+.++.
T Consensus 148 ~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 148 AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 45688899999999999999999999876553 234445677888899999999999999998874
No 156
>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=79.00 E-value=38 Score=31.42 Aligned_cols=82 Identities=15% Similarity=0.085 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-c--chhHHHhHHHHHHHHHHhcCH
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTV-A--VGQKMDLVFYTLQLGFFYMDF 150 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~-~--~~~~id~~l~~i~~~i~~~~~ 150 (385)
..-++-|+.-...++...-.--.......+|+.|+..||+++|++.|..+..... . ..-.-++++...+++...||.
T Consensus 155 ~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~ 234 (247)
T PF11817_consen 155 KLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDV 234 (247)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCH
Confidence 4456666666666665544333334478999999999999999999998843221 1 122336777777788888887
Q ss_pred HHHHh
Q 016653 151 DLISK 155 (385)
Q Consensus 151 ~~~~~ 155 (385)
..+..
T Consensus 235 ~~~l~ 239 (247)
T PF11817_consen 235 EDYLT 239 (247)
T ss_pred HHHHH
Confidence 66544
No 157
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=78.87 E-value=52 Score=36.42 Aligned_cols=137 Identities=13% Similarity=-0.037 Sum_probs=74.1
Q ss_pred hHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcC-----CCCCHHHHHHHHHHH------HHHHHHHHH
Q 016653 14 AHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESV-----LEMDQSVLDSMRTKI------EDELKKLDD 82 (385)
Q Consensus 14 ~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~-----~~~D~~~~~~~~~~~------~~~l~~Le~ 82 (385)
+.+-|..-....| ..+.++-. +-..-...++..-|+..+..+. -+.+|..+.-+.... ..-+.--+.
T Consensus 218 a~~a~~ralqLdp-~~v~alv~-L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ 295 (1018)
T KOG2002|consen 218 ALLAFERALQLDP-TCVSALVA-LGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEH 295 (1018)
T ss_pred HHHHHHHHHhcCh-hhHHHHHH-HHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHH
Confidence 3344444443222 33444442 4444445677777776666543 345666666554321 122222222
Q ss_pred HHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHH
Q 016653 83 RIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSI 157 (385)
Q Consensus 83 ~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i 157 (385)
.++ ++-.+..+-.+.|.+|+-|...|||++|.++|........ ++-+=-.+++.++.|..|+........
T Consensus 296 ai~---~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~--d~~~l~~~GlgQm~i~~~dle~s~~~f 365 (1018)
T KOG2002|consen 296 AIK---NTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADN--DNFVLPLVGLGQMYIKRGDLEESKFCF 365 (1018)
T ss_pred HHH---hhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCC--CCccccccchhHHHHHhchHHHHHHHH
Confidence 222 2223334457799999999999999999999998775432 222233445555555555544444333
No 158
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=78.82 E-value=25 Score=35.81 Aligned_cols=99 Identities=14% Similarity=0.035 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERKN 174 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~~~~~ 174 (385)
.+.+..||+.|.+.+..++|.+||.++.....+. -+.++.+..+.=..++...+..+..|--...+. ..+++ .-
T Consensus 432 sRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte---~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~-t~ 507 (559)
T KOG1155|consen 432 SRLWVALGECYEKLNRLEEAIKCYKRAILLGDTE---GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDE-TI 507 (559)
T ss_pred hHHHHHHHHHHHHhccHHHHHHHHHHHHhccccc---hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchH-HH
Confidence 4668899999999999999999999887654322 245566666666667777777766665554322 12221 22
Q ss_pred hhhHHHHHhccccCCHHHHHHHHHh
Q 016653 175 RLKVYEGLYCMSTRNFKKAASLFLD 199 (385)
Q Consensus 175 ~l~~~~gl~~l~~r~~~~Aa~~f~e 199 (385)
+..++-+.+....++|.+|..+-..
T Consensus 508 ka~~fLA~~f~k~~~~~~As~Ya~~ 532 (559)
T KOG1155|consen 508 KARLFLAEYFKKMKDFDEASYYATL 532 (559)
T ss_pred HHHHHHHHHHHhhcchHHHHHHHHH
Confidence 3334455566666777666655433
No 159
>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=78.81 E-value=5.6 Score=27.76 Aligned_cols=48 Identities=15% Similarity=0.194 Sum_probs=39.9
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
..++..+..+++..||+.+|++...+-+.+.+|+..|-|.-..|+.++
T Consensus 9 L~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 9 LRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 344455677999999999999999999999999999999887776654
No 160
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=78.78 E-value=40 Score=35.86 Aligned_cols=166 Identities=14% Similarity=0.084 Sum_probs=107.7
Q ss_pred HhHHHHHHHHHHhCCCHHHHHHHHHhcC--CCCCHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHH
Q 016653 31 VGLKGEVFSMVKAHDMASFYETLVAESV--LEMDQSVLDSMR-----TKIEDELKKLDDRIADAEENLGESEVREAHLAK 103 (385)
Q Consensus 31 ~~~~~~~~~~ik~~~m~~~y~~~~~~~~--~~~D~~~~~~~~-----~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~l 103 (385)
+++..++..+.-+++-.+-.+.++.+.. -|...-|+.... .++++.+.-|++-|+.|.. .-.-++.+
T Consensus 618 eeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~------f~Kl~lml 691 (913)
T KOG0495|consen 618 EEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPD------FHKLWLML 691 (913)
T ss_pred HHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCc------hHHHHHHH
Confidence 5677777777777777777777776532 233445554433 3445556666666665432 24457777
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccc-------------------------------hhHHHhHHHHHHHHHHhcCHHH
Q 016653 104 SLFYIQIGDKEKALEQLKVTESKTVAV-------------------------------GQKMDLVFYTLQLGFFYMDFDL 152 (385)
Q Consensus 104 a~~~~~~Gd~~~A~~~~~~~~~~~~~~-------------------------------~~~id~~l~~i~~~i~~~~~~~ 152 (385)
|.++.+.|+.+.|.+.|..-...|... -....+++..||+.+-.||.+.
T Consensus 692 GQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~ 771 (913)
T KOG0495|consen 692 GQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQ 771 (913)
T ss_pred hHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHH
Confidence 788888888888877776554444321 1123578889999999999999
Q ss_pred HHhHHHHHHHHHh-cCC----------Chhhh-------------hhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 153 ISKSIDKAKSLFE-EGG----------DWERK-------------NRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 153 ~~~~i~ka~~~~~-~~~----------~~~~~-------------~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+...+.||-+-.. +|- .+.++ ..+-+.-|.....++.|.+|.+.|.-++.
T Consensus 772 a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk 845 (913)
T KOG0495|consen 772 AELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK 845 (913)
T ss_pred HHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 9998888866422 221 11111 23444456677789999999999988764
No 161
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=78.62 E-value=20 Score=41.11 Aligned_cols=96 Identities=13% Similarity=0.049 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
.+++.+|..|.+.|++++|.++|.++.+.... ..+..+++.++....|++..+...+.++-..- ..++.. .
T Consensus 604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~---~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~~~~~----~ 674 (1157)
T PRK11447 604 RIDLTLADWAQQRGDYAAARAAYQRVLTREPG---NADARLGLIEVDIAQGDLAAARAQLAKLPATA--NDSLNT----Q 674 (1157)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCChHH----H
Confidence 45688999999999999999999998876432 35778888888889999999998888665431 111211 2
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
...|..+...|++.+|.+.|-.+..
T Consensus 675 ~~la~~~~~~g~~~eA~~~~~~al~ 699 (1157)
T PRK11447 675 RRVALAWAALGDTAAAQRTFNRLIP 699 (1157)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHhh
Confidence 2345566788999999988877754
No 162
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=78.51 E-value=1.9 Score=26.92 Aligned_cols=21 Identities=33% Similarity=0.422 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKAL 117 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~ 117 (385)
-.+++.||.+|...|++++|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 578999999999999999986
No 163
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=78.40 E-value=3.7 Score=29.69 Aligned_cols=40 Identities=15% Similarity=0.326 Sum_probs=33.1
Q ss_pred HHhccc-cccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 301 SQFLES-YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 301 ~qy~~p-Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
..|++- +..++=..+|+++|+|.-.+-.+|..|-.+|++.
T Consensus 6 l~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 6 LEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp HHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred HHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 445544 7889999999999999999999999999999884
No 164
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=78.31 E-value=3.4 Score=38.73 Aligned_cols=45 Identities=18% Similarity=0.279 Sum_probs=41.8
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
-|...+..+++-...+++..+|+.||+|++-+-+.|..|-..|.+
T Consensus 5 ~R~~~Il~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l 49 (252)
T PRK10906 5 QRHDAIIELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKI 49 (252)
T ss_pred HHHHHHHHHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCE
Confidence 477788899999999999999999999999999999999999877
No 165
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=78.09 E-value=3.6 Score=38.44 Aligned_cols=45 Identities=20% Similarity=0.375 Sum_probs=41.1
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
|...+..+++.+..++.+.+|+.||+|+.-+.++|..|-..|.+.
T Consensus 6 R~~~Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~ 50 (251)
T PRK13509 6 RHQILLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLK 50 (251)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 667788999999999999999999999999999999998887773
No 166
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=77.89 E-value=3.5 Score=39.02 Aligned_cols=47 Identities=21% Similarity=0.203 Sum_probs=42.9
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
.-|...+.++++....|+...+|+.||+|+.-+-+.|..|=..|.+.
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 45888899999999999999999999999999999999998888775
No 167
>KOG4555 consensus TPR repeat-containing protein [Function unknown]
Probab=77.69 E-value=32 Score=29.13 Aligned_cols=95 Identities=21% Similarity=0.061 Sum_probs=63.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhh-hhH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR-LKV 178 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~-l~~ 178 (385)
+...|-...+.|+++.|++.|.+....|... .+.+-+-....-+.|+...+...++||-++- |+..+... --+
T Consensus 46 LEl~~valaE~g~Ld~AlE~F~qal~l~P~r---aSayNNRAQa~RLq~~~e~ALdDLn~AleLa---g~~trtacqa~v 119 (175)
T KOG4555|consen 46 LELKAIALAEAGDLDGALELFGQALCLAPER---ASAYNNRAQALRLQGDDEEALDDLNKALELA---GDQTRTACQAFV 119 (175)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHhcccc---hHhhccHHHHHHHcCChHHHHHHHHHHHHhc---CccchHHHHHHH
Confidence 4445666789999999999999999888543 3444455555556799999999999987764 33222221 123
Q ss_pred HHHHhccccCCHHHHHHHHHhc
Q 016653 179 YEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
..|+.+--.|+-..|...|-.+
T Consensus 120 QRg~lyRl~g~dd~AR~DFe~A 141 (175)
T KOG4555|consen 120 QRGLLYRLLGNDDAARADFEAA 141 (175)
T ss_pred HHHHHHHHhCchHHHHHhHHHH
Confidence 3677666666666666666543
No 168
>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=77.49 E-value=14 Score=28.06 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=35.1
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPD 356 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d 356 (385)
.++...+|+.+|+|+..+++-+..|...|-+..+=- .+|-....++.
T Consensus 25 ~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G-~~GGy~L~~~~ 71 (83)
T PF02082_consen 25 PVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRG-RGGGYRLARPP 71 (83)
T ss_dssp -BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETS-TTSEEEESS-C
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCC-CCCceeecCCH
Confidence 399999999999999999999999999998765433 34444444443
No 169
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.45 E-value=62 Score=30.16 Aligned_cols=126 Identities=15% Similarity=0.107 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHH---HHHHHHHHHHh-CCHHHHHHHHHHHHhhhccchhHHHhHHHHHHH---HHHh
Q 016653 75 DELKKLDDRIADAEENLGESEVREA---HLAKSLFYIQI-GDKEKALEQLKVTESKTVAVGQKMDLVFYTLQL---GFFY 147 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a---~~~la~~~~~~-Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~---~i~~ 147 (385)
.-..-|+..+.-++.-.-. ++| +..+|++|..- -|+++|+.+|...-++..+...+-..--..+.+ +-..
T Consensus 91 eAv~cL~~aieIyt~~Grf---~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~l 167 (288)
T KOG1586|consen 91 EAVNCLEKAIEIYTDMGRF---TMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQL 167 (288)
T ss_pred HHHHHHHHHHHHHHhhhHH---HHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHH
Confidence 3455566665555543222 222 66889999876 899999999999999886554444332223333 3333
Q ss_pred cCHHHHHhHHHHH-HHHHhcCCChhhhhhhhHH---HHHhccccCCH---HHHHHHHHhccccCCc
Q 016653 148 MDFDLISKSIDKA-KSLFEEGGDWERKNRLKVY---EGLYCMSTRNF---KKAASLFLDSISTFTT 206 (385)
Q Consensus 148 ~~~~~~~~~i~ka-~~~~~~~~~~~~~~~l~~~---~gl~~l~~r~~---~~Aa~~f~e~~~t~~~ 206 (385)
+.++.+....+++ +..++ ++..+--.|-| .|+.+|...|- ..|.+.|-+..|+|+.
T Consensus 168 eqY~~Ai~iyeqva~~s~~---n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~d 230 (288)
T KOG1586|consen 168 EQYSKAIDIYEQVARSSLD---NNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTD 230 (288)
T ss_pred HHHHHHHHHHHHHHHHhcc---chHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccc
Confidence 4555444333222 22221 22222222222 67888876654 4567788888898864
No 170
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=77.38 E-value=3.1 Score=38.91 Aligned_cols=41 Identities=20% Similarity=0.178 Sum_probs=37.4
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
+=|...+.+++..+..|+.+.||+.||+|++-+-+.|..|=
T Consensus 6 ~eR~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le 46 (252)
T PRK10681 6 DERIGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHS 46 (252)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhh
Confidence 34888899999999999999999999999999999999754
No 171
>PF13518 HTH_28: Helix-turn-helix domain
Probab=77.15 E-value=6.9 Score=26.40 Aligned_cols=45 Identities=18% Similarity=0.358 Sum_probs=34.7
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
|..++..|.+ ..++..+|..||+|...+..|+..+=..| ++|-.+
T Consensus 2 r~~iv~~~~~---g~s~~~~a~~~gis~~tv~~w~~~y~~~G-~~~l~~ 46 (52)
T PF13518_consen 2 RLQIVELYLE---GESVREIAREFGISRSTVYRWIKRYREGG-IEGLKP 46 (52)
T ss_pred HHHHHHHHHc---CCCHHHHHHHHCCCHhHHHHHHHHHHhcC-HHHhcc
Confidence 3456667754 44999999999999999999999988776 444333
No 172
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=76.64 E-value=12 Score=37.27 Aligned_cols=96 Identities=10% Similarity=0.039 Sum_probs=68.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhh---hccc---------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESK---TVAV---------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG 168 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~---~~~~---------~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~ 168 (385)
..-|+.|++.|+|..|...|.++..+ +.+. .-++-..+++..+.+-.+.|..+....+++-++- .
T Consensus 212 ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~---~ 288 (397)
T KOG0543|consen 212 KERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD---P 288 (397)
T ss_pred HHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC---C
Confidence 34588999999999999999986433 3221 2244577777888888889998877777655431 1
Q ss_pred ChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 169 DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+ .. |--+-.|-+++..++|..|...|..+..
T Consensus 289 ~-N~--KALyRrG~A~l~~~e~~~A~~df~ka~k 319 (397)
T KOG0543|consen 289 N-NV--KALYRRGQALLALGEYDLARDDFQKALK 319 (397)
T ss_pred C-ch--hHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence 1 11 1123478899999999999999988764
No 173
>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=76.44 E-value=0.99 Score=36.49 Aligned_cols=52 Identities=19% Similarity=0.263 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 293 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 293 ~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
++.+..++.+++.|=..=.|++++-.-.=-...||..|.+|...|+|.++||
T Consensus 31 ee~~~~iL~qiLt~eAreRL~rI~lvkPe~A~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 31 EEQRRAILRQILTPEARERLNRIKLVKPEKARQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HHCCHHHHHTCB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 4456667888888888888888777554455689999999999999999987
No 174
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=76.16 E-value=1.4e+02 Score=33.54 Aligned_cols=100 Identities=11% Similarity=0.055 Sum_probs=71.1
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-Hhc--CC
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-FEE--GG 168 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~-~~~--~~ 168 (385)
.+.+..-|+--||++|.+.-|...|.+||.+.++.-.+ -.+..-.....+....+|+.|....-++.+. ... .-
T Consensus 487 ld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat---daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~ 563 (1238)
T KOG1127|consen 487 LDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT---DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKE 563 (1238)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch---hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHh
Confidence 45566677889999999999999999999999876432 2233445566777889999887653322221 111 12
Q ss_pred ChhhhhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 169 DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
+|- ..|++++..+++..|...|-.++
T Consensus 564 nW~-------~rG~yyLea~n~h~aV~~fQsAL 589 (1238)
T KOG1127|consen 564 NWV-------QRGPYYLEAHNLHGAVCEFQSAL 589 (1238)
T ss_pred hhh-------hccccccCccchhhHHHHHHHHh
Confidence 342 37899999999999999988765
No 175
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=76.10 E-value=25 Score=37.68 Aligned_cols=94 Identities=13% Similarity=0.021 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
++..+|..+...|++++|...+.++.+..... .+.......+....|+++.+...+.++-.. +|.. .....
T Consensus 286 a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~---~~a~~~La~~l~~~G~~~eA~~~l~~al~~-----~P~~-~~~~~ 356 (656)
T PRK15174 286 IVTLYADALIRTGQNEKAIPLLQQSLATHPDL---PYVRAMYARALRQVGQYTAASDEFVQLARE-----KGVT-SKWNR 356 (656)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----Cccc-hHHHH
Confidence 44455555555555555555555544432211 122223333444445555555544433322 1111 01122
Q ss_pred HHHHhccccCCHHHHHHHHHhcc
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
..|..+...|++.+|...|-.+.
T Consensus 357 ~~a~al~~~G~~deA~~~l~~al 379 (656)
T PRK15174 357 YAAAALLQAGKTSEAESVFEHYI 379 (656)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHH
Confidence 34555667788888887776654
No 176
>PRK14574 hmsH outer membrane protein; Provisional
Probab=75.93 E-value=1.3e+02 Score=33.22 Aligned_cols=94 Identities=13% Similarity=-0.009 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
.++..+|..|...|++++|++.|.++.+.-.+. .+...+++.+....++...+...+.++... +|. ..
T Consensus 103 ~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n---~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~-----dp~----~~ 170 (822)
T PRK14574 103 RGLASAARAYRNEKRWDQALALWQSSLKKDPTN---PDLISGMIMTQADAGRGGVVLKQATELAER-----DPT----VQ 170 (822)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHhhcCCHHHHHHHHHHhccc-----Ccc----hH
Confidence 445666889999999999999999998776544 345567777777788888887777766554 222 11
Q ss_pred HHHHHhccc--cCCHHHHHHHHHhcccc
Q 016653 178 VYEGLYCMS--TRNFKKAASLFLDSIST 203 (385)
Q Consensus 178 ~~~gl~~l~--~r~~~~Aa~~f~e~~~t 203 (385)
.+.++.++. .+++.+|...|-..+..
T Consensus 171 ~~l~layL~~~~~~~~~AL~~~ekll~~ 198 (822)
T PRK14574 171 NYMTLSYLNRATDRNYDALQASSEAVRL 198 (822)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence 223333333 44554477777665543
No 177
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=75.68 E-value=12 Score=37.88 Aligned_cols=109 Identities=16% Similarity=0.066 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
..+-+||++|-+.||.+.|+.|++....|...+-..++. +..-+|..+=|+.+..+++||.-.--....|..+
T Consensus 593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iew---l~ayyidtqf~ekai~y~ekaaliqp~~~kwqlm---- 665 (840)
T KOG2003|consen 593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEW---LAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLM---- 665 (840)
T ss_pred HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHH---HHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHH----
Confidence 447889999999999999999999988887665544432 2234555667888888998876542222344322
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHH
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTV 220 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~ 220 (385)
-+-..-..|+|..|...+-++-.-|. +- .++++++|
T Consensus 666 --iasc~rrsgnyqka~d~yk~~hrkfp--ed---ldclkflv 701 (840)
T KOG2003|consen 666 --IASCFRRSGNYQKAFDLYKDIHRKFP--ED---LDCLKFLV 701 (840)
T ss_pred --HHHHHHhcccHHHHHHHHHHHHHhCc--cc---hHHHHHHH
Confidence 12223357899999999988755443 22 25666654
No 178
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=75.60 E-value=14 Score=36.39 Aligned_cols=63 Identities=11% Similarity=0.093 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
.+++.+|..|...|++++|+..+.++.+.... ....++..-.+....|++..+...+.++-.+
T Consensus 37 ~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~---~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 37 ELYADRAQANIKLGNFTEAVADANKAIELDPS---LAKAYLRKGTACMKLEEYQTAKAALEKGASL 99 (356)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC---CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 56788888889999999999988888766532 2334555666677778888888888877764
No 179
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=75.46 E-value=28 Score=36.68 Aligned_cols=123 Identities=16% Similarity=0.157 Sum_probs=83.0
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 173 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~ 173 (385)
.-+...++-++.+|...|+++.|.+++....+.|++ .++.++...|+.-..|+.+.+...+..++++-. ++|-
T Consensus 368 ttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPT---liEly~~KaRI~kH~G~l~eAa~~l~ea~elD~----aDR~ 440 (700)
T KOG1156|consen 368 TTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPT---LIELYLVKARIFKHAGLLDEAAAWLDEAQELDT----ADRA 440 (700)
T ss_pred hHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCch---HHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc----hhHH
Confidence 345566899999999999999999999999998864 789999999999999999999999998888521 1111
Q ss_pred hhhhHHHHHhccccCCHHHHH---HHHHhccccCCcCccCCHhHHHHHHHHHHHhhC
Q 016653 174 NRLKVYEGLYCMSTRNFKKAA---SLFLDSISTFTTYELFPYDTFIFYTVLTSIISL 227 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~~~Aa---~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~ 227 (385)
|..-.+.+.+....-.+|. +.|.- ..++..+-+.--++..|.+=|+-+-.
T Consensus 441 --INsKcAKYmLrAn~i~eA~~~~skFTr--~~~~~~~~L~~mqcmWf~~E~g~ay~ 493 (700)
T KOG1156|consen 441 --INSKCAKYMLRANEIEEAEEVLSKFTR--EGFGAVNNLAEMQCMWFQLEDGEAYL 493 (700)
T ss_pred --HHHHHHHHHHHccccHHHHHHHHHhhh--cccchhhhHHHhhhHHHhHhhhHHHH
Confidence 1122344444444444443 33432 12222222233366777777776543
No 180
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.08 E-value=45 Score=32.18 Aligned_cols=120 Identities=13% Similarity=0.191 Sum_probs=65.4
Q ss_pred CCcchhHhHHhHhhcCCCCccchHHhHHHH------------HHHHHHhCCCHHHH------HHHHHhc-CCCCCHHH--
Q 016653 7 QQAHLVLAHKRFLLTHPDVQDIEKVGLKGE------------VFSMVKAHDMASFY------ETLVAES-VLEMDQSV-- 65 (385)
Q Consensus 7 ~~p~l~l~~l~~~~~~~~~~~~~~~~~~~~------------~~~~ik~~~m~~~y------~~~~~~~-~~~~D~~~-- 65 (385)
.-|.-.+..|.|++...++|+ +....- +.+.+-++-...|| -++.+.+ ..|..|+.
T Consensus 290 ~~p~~g~~KLqFLL~~nPfP~---ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~ 366 (459)
T KOG4340|consen 290 ARPTEGFEKLQFLLQQNPFPP---ETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAF 366 (459)
T ss_pred CCccccHHHHHHHHhcCCCCh---HHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHH
Confidence 346677888889988877775 223321 22333333332222 1122211 12333332
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHH--------------HHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 016653 66 --LDSMRTKIEDELKKLDDRIADAEENLGESEVREAH--------------LAKSLFYIQIGDKEKALEQLKVTESKTVA 129 (385)
Q Consensus 66 --~~~~~~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~--------------~~la~~~~~~Gd~~~A~~~~~~~~~~~~~ 129 (385)
++.+...-..++-++-.+++..+.+.-++++|++. ...|.+|.+..||..+-+.+....++|..
T Consensus 367 KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~YLPVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC~e 446 (459)
T KOG4340|consen 367 KKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKYLPVLMAQAKIYWNLEDYPMVEKIFRKSVEFCND 446 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHhhhcc
Confidence 22333333445555556666666666667777663 34566777777777777777777777743
No 181
>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=75.07 E-value=4.4 Score=30.93 Aligned_cols=34 Identities=21% Similarity=0.437 Sum_probs=30.2
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHH
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
|...+.+++.- ..+++..+|+.||+|..-+-..|
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 77778899999 99999999999999999877754
No 182
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=74.82 E-value=24 Score=32.10 Aligned_cols=63 Identities=10% Similarity=-0.007 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHH--HHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVF--YTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l--~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
+-.=|+=++..|+|.+|..-|..+.+.|.+...+.-.++ +-...-|-.+.|..+...-.||-.
T Consensus 98 lK~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie 162 (271)
T KOG4234|consen 98 LKKEGNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE 162 (271)
T ss_pred HHHHHHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh
Confidence 344478899999999999999999999977655543222 222233344556655555444443
No 183
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.60 E-value=29 Score=30.81 Aligned_cols=87 Identities=14% Similarity=0.202 Sum_probs=62.4
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCC-ChHHHHHHH
Q 016653 252 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVEL 330 (385)
Q Consensus 252 ~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~-s~~~iE~~L 330 (385)
+.++-.-+..|+|..|-+..++. +-+-+|+.-|-+.+|.-+---.=-.|+.|+=.-+|+++|- +..++|.|+
T Consensus 101 ii~L~~~LEt~~Fq~FW~~~~~N-------~~mle~itGFedsvr~yachvv~iTyQkI~k~lLaellG~~sDs~le~~~ 173 (217)
T KOG3252|consen 101 IIDLGDYLETCRFQQFWQEADEN-------RDMLEGITGFEDSVRKYACHVVGITYQKIDKWLLAELLGGLSDSQLEVWM 173 (217)
T ss_pred HHhHHHHHhhchHHHHhhhhccc-------hHHhcCCCcHHHHHHHHHHHheechHhhchHHHHHHhhCcccHHHHHHHH
Confidence 33444456789999998666654 5556677788888877443333446999999999999985 666899998
Q ss_pred HHHHhCCccceEEecCCCEEEE
Q 016653 331 SRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 331 ~~lI~~g~l~akID~~~giv~~ 352 (385)
.+ .|-+-..+|.|..
T Consensus 174 ~~-------~GW~a~e~G~ifv 188 (217)
T KOG3252|consen 174 TK-------YGWIADESGQIFV 188 (217)
T ss_pred HH-------ccceecCCceEEE
Confidence 87 5666667775544
No 184
>PRK04841 transcriptional regulator MalT; Provisional
Probab=74.28 E-value=57 Score=36.05 Aligned_cols=105 Identities=13% Similarity=-0.015 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch---hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh--h
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG---QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE--R 172 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~---~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~--~ 172 (385)
.+...+|..+...|++++|...+.+........+ ...........+.+..|++..+...+.++.......+.+. .
T Consensus 492 ~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~ 571 (903)
T PRK04841 492 VATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPM 571 (903)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccH
Confidence 4567788899999999999999988876543322 2233444556677788999999999999888765533211 1
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
...+....|..+...|+|..|...+-++..
T Consensus 572 ~~~~~~~la~~~~~~G~~~~A~~~~~~al~ 601 (903)
T PRK04841 572 HEFLLRIRAQLLWEWARLDEAEQCARKGLE 601 (903)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence 222234456667788999999888877654
No 185
>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=74.01 E-value=16 Score=33.90 Aligned_cols=60 Identities=22% Similarity=0.289 Sum_probs=48.7
Q ss_pred hHhHhHHHHHHHHHHHHHHHh-cc--ccc-----------------cccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 283 YLYPHFRYYMREVRTVVYSQF-LE--SYK-----------------SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 283 ~l~~h~~~l~~~iR~~~~~qy-~~--pY~-----------------~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
.|+...+.+-++.|.++..|. +. +|| +++-..||+.+|+|..-+-+-+.+|-..|-|..+
T Consensus 152 ilr~~~~~iEee~Rkka~Vq~Ai~tLSySEleAv~~IL~~L~~~egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 152 LLRAQAEEIEEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHHHhccccccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 345566777888888888776 22 466 8899999999999999999999999999887664
No 186
>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=73.93 E-value=3.9 Score=34.60 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=32.5
Q ss_pred HHHhcccccc--ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 300 YSQFLESYKS--VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 300 ~~qy~~pY~~--I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
+.+|++-+.. .++..+|++.|||++. |-++|.+|||.-.-++
T Consensus 35 V~~yLr~~p~~~ati~eV~e~tgVs~~~----I~~~IreGRL~~~~~~ 78 (137)
T TIGR03826 35 VYKFLRKHENRQATVSEIVEETGVSEKL----ILKFIREGRLQLKHFP 78 (137)
T ss_pred HHHHHHHCCCCCCCHHHHHHHHCcCHHH----HHHHHHcCCeeccCCC
Confidence 4567776666 9999999999999876 5667888999765443
No 187
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=73.87 E-value=99 Score=30.76 Aligned_cols=58 Identities=3% Similarity=-0.089 Sum_probs=42.7
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 103 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 103 la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
.++++...|+++.|.+.+.+..+..+... .......++.+..|||+.+...++++...
T Consensus 159 ~a~l~l~~g~~~~Al~~l~~~~~~~P~~~---~al~ll~~~~~~~gdw~~a~~~l~~l~k~ 216 (398)
T PRK10747 159 RVRIQLARNENHAARHGVDKLLEVAPRHP---EVLRLAEQAYIRTGAWSSLLDILPSMAKA 216 (398)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhcCCCCH---HHHHHHHHHHHHHHhHHHHHHHHHHHHHc
Confidence 48888889999999998888877654332 44444566677778998888777777764
No 188
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=73.66 E-value=5.8 Score=28.62 Aligned_cols=34 Identities=26% Similarity=0.269 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV 130 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~ 130 (385)
..++..+|..|+..|++++|.+.+.++.+.+.+.
T Consensus 29 ~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~ 62 (73)
T PF13371_consen 29 PELWLQRARCLFQLGRYEEALEDLERALELSPDD 62 (73)
T ss_pred chhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence 5678999999999999999999999998877543
No 189
>PLN03218 maturation of RBCL 1; Provisional
Probab=73.61 E-value=1.7e+02 Score=33.40 Aligned_cols=171 Identities=19% Similarity=0.159 Sum_probs=75.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 179 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~ 179 (385)
+..+...|.+.|++++|.+.|.++......++. ..+-.++..+...|+++.+...+..... .+..|.. ..|
T Consensus 617 ynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~--~TynsLI~a~~k~G~~eeA~~l~~eM~k---~G~~pd~----~ty 687 (1060)
T PLN03218 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE--VFFSALVDVAGHAGDLDKAFEILQDARK---QGIKLGT----VSY 687 (1060)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhCCCHHHHHHHHHHHHH---cCCCCCH----HHH
Confidence 444445555555555555555555443322221 1233334444445555555554444332 1222221 123
Q ss_pred HHH--hccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhh-CChhHHHhhccCChHHHHHhcCcch---HH
Q 016653 180 EGL--YCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS-LDRVSLKQKVVDAPEILTVIGKIPY---LS 253 (385)
Q Consensus 180 ~gl--~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s-~~R~~lk~~v~~~~e~~~~l~~~p~---~~ 253 (385)
..+ .+...|++.+|...|-+.... + +. ++...|..+..... ..+-+--..+++ +.+. .+-.|. +.
T Consensus 688 nsLI~ay~k~G~~eeA~~lf~eM~~~----g-~~-PdvvtyN~LI~gy~k~G~~eeAlelf~--eM~~-~Gi~Pd~~Ty~ 758 (1060)
T PLN03218 688 SSLMGACSNAKNWKKALELYEDIKSI----K-LR-PTVSTMNALITALCEGNQLPKALEVLS--EMKR-LGLCPNTITYS 758 (1060)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHc----C-CC-CCHHHHHHHHHHHHHCCCHHHHHHHHH--HHHH-cCCCCCHHHHH
Confidence 333 344567777777777664321 1 11 23444444433332 211110001111 0000 112232 55
Q ss_pred HHHHHHHh-ccHHHHHHHHHHhHHH-hhhchhHhHhH
Q 016653 254 EFLNSLYD-CQYKSFFSAFAGLTEQ-IKLDRYLYPHF 288 (385)
Q Consensus 254 ~li~~f~~-~~y~~~~~~L~~~~~~-l~~D~~l~~h~ 288 (385)
.++.++.. .++....+.+...... +..|.+....+
T Consensus 759 sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsL 795 (1060)
T PLN03218 759 ILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795 (1060)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 66666653 5777777777777443 56666554443
No 190
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=73.43 E-value=29 Score=29.88 Aligned_cols=55 Identities=11% Similarity=-0.040 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLIS 154 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~ 154 (385)
..++..+|..|...|++++|.++|.+........ .........+....|+...+.
T Consensus 72 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~~lg~~~~~~g~~~~a~ 126 (172)
T PRK02603 72 SYILYNMGIIYASNGEHDKALEYYHQALELNPKQ---PSALNNIAVIYHKRGEKAEEA 126 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc---HHHHHHHHHHHHHcCChHhHh
Confidence 4578999999999999999999999887654321 233333344444444444333
No 191
>KOG3431 consensus Apoptosis-related protein/predicted DNA-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.38 E-value=3.1 Score=34.04 Aligned_cols=53 Identities=21% Similarity=0.259 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
-+++|..+++|++.+-..-.|+++|=.=-=...-+|..|.+|+.-|.+.+||+
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 67889999999999988888888875333334479999999999999999986
No 192
>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=73.24 E-value=23 Score=25.10 Aligned_cols=44 Identities=14% Similarity=0.255 Sum_probs=36.6
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
++.+.+|+.+|++...+-+.+..|...|-+...-+...+....+
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~ 64 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLT 64 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeC
Confidence 99999999999999999999999999999988666544443333
No 193
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=72.54 E-value=79 Score=33.47 Aligned_cols=178 Identities=12% Similarity=0.102 Sum_probs=96.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERKNR 175 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~~~~~~ 175 (385)
.++-.+|+.|-=.+|++.|++++.++...-. +-.. .+-+.|-=..+.+...+|...... +.||.--
T Consensus 422 esWca~GNcfSLQkdh~~Aik~f~RAiQldp--~faY--------ayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhY-- 489 (638)
T KOG1126|consen 422 ESWCALGNCFSLQKDHDTAIKCFKRAIQLDP--RFAY--------AYTLLGHESIATEEFDKAMKSFRKALGVDPRHY-- 489 (638)
T ss_pred HHHHHhcchhhhhhHHHHHHHHHHHhhccCC--ccch--------hhhhcCChhhhhHHHHhHHHHHHhhhcCCchhh--
Confidence 4588899999999999999999998754321 1000 111223223333444444444322 2333221
Q ss_pred hhHH--HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhh-CChhHHHhhccCChHHHHHhc-Ccc-
Q 016653 176 LKVY--EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS-LDRVSLKQKVVDAPEILTVIG-KIP- 250 (385)
Q Consensus 176 l~~~--~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s-~~R~~lk~~v~~~~e~~~~l~-~~p- 250 (385)
.++ .|+.++-+++|..|--.|-.++.. .|...++-+.+..+.. +.+.+---.+++-.- .++ ..|
T Consensus 490 -nAwYGlG~vy~Kqek~e~Ae~~fqkA~~I-------NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~---~ld~kn~l 558 (638)
T KOG1126|consen 490 -NAWYGLGTVYLKQEKLEFAEFHFQKAVEI-------NPSNSVILCHIGRIQHQLKRKDKALQLYEKAI---HLDPKNPL 558 (638)
T ss_pred -HHHHhhhhheeccchhhHHHHHHHhhhcC-------CccchhHHhhhhHHHHHhhhhhHHHHHHHHHH---hcCCCCch
Confidence 133 567899999999999999887642 3333322222222222 112211000111000 011 122
Q ss_pred -hHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHH
Q 016653 251 -YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTV 298 (385)
Q Consensus 251 -~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~ 298 (385)
-+...---|...+|.+++..|++++.....+-..+.-.-.+++.++..
T Consensus 559 ~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~ 607 (638)
T KOG1126|consen 559 CKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNT 607 (638)
T ss_pred hHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccc
Confidence 233333345667999999999999888777776665555666666553
No 194
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=72.39 E-value=20 Score=37.16 Aligned_cols=96 Identities=17% Similarity=0.114 Sum_probs=69.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHH-HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKM-DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 175 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~i-d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~ 175 (385)
.-.++..|-||+.+|.+++|.++|++.-. .+... ...++.--..-..+..+.+.....+|..++.+..-|
T Consensus 312 a~sW~aVg~YYl~i~k~seARry~SKat~----lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP----- 382 (611)
T KOG1173|consen 312 ALSWFAVGCYYLMIGKYSEARRYFSKATT----LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLP----- 382 (611)
T ss_pred CcchhhHHHHHHHhcCcHHHHHHHHHHhh----cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcch-----
Confidence 34589999999999999999999987532 11111 112222222334577888999999999888754334
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
..|-|+.++..++++.|-+.|.++..
T Consensus 383 -~LYlgmey~~t~n~kLAe~Ff~~A~a 408 (611)
T KOG1173|consen 383 -SLYLGMEYMRTNNLKLAEKFFKQALA 408 (611)
T ss_pred -HHHHHHHHHHhccHHHHHHHHHHHHh
Confidence 36899999999999999999998754
No 195
>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=72.35 E-value=31 Score=34.54 Aligned_cols=95 Identities=16% Similarity=0.192 Sum_probs=68.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-HhcCCChhhhhhhh
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-FEEGGDWERKNRLK 177 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~-~~~~~~~~~~~~l~ 177 (385)
+..-+|+.+...++-.+|.+.+.+.....+. -.+++..+.+..+..++++.|.....++-.+ ++....|
T Consensus 202 v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~---d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W------- 271 (395)
T PF09295_consen 202 VAVLLARVYLLMNEEVEAIRLLNEALKENPQ---DSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETW------- 271 (395)
T ss_pred HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHH-------
Confidence 3456899999999999999999888754432 2667777788888889999888887777665 3322334
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccC
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSISTF 204 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~t~ 204 (385)
..-+..++..++|+.|. .-+++.|-+
T Consensus 272 ~~La~~Yi~~~d~e~AL-laLNs~Pm~ 297 (395)
T PF09295_consen 272 YQLAECYIQLGDFENAL-LALNSCPML 297 (395)
T ss_pred HHHHHHHHhcCCHHHHH-HHHhcCcCC
Confidence 23455788899999998 455555544
No 196
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=72.24 E-value=99 Score=30.01 Aligned_cols=101 Identities=10% Similarity=0.003 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh-hhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE-RKNR 175 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~-~~~~ 175 (385)
..++..+|..|...|++++|.++|.++.+... ........++.+....|+|..+...+.++...-. .++. ....
T Consensus 107 ~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~ 181 (389)
T PRK11788 107 LLALQELGQDYLKAGLLDRAEELFLQLVDEGD---FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGG--DSLRVEIAH 181 (389)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc---chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcC--CcchHHHHH
Confidence 35688999999999999999999999876522 2345666777888888999999888777554311 1111 1122
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+....|..++..+++.+|...|-+++.
T Consensus 182 ~~~~la~~~~~~~~~~~A~~~~~~al~ 208 (389)
T PRK11788 182 FYCELAQQALARGDLDAARALLKKALA 208 (389)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence 223356667789999999999988764
No 197
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=72.16 E-value=72 Score=35.00 Aligned_cols=72 Identities=14% Similarity=0.029 Sum_probs=53.0
Q ss_pred HhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 89 ENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 89 ~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
.|...++..+-++++|+.|.++|.|.+|++++..+...-+ -+...+++.+.|+....+.+++|.....|+-.
T Consensus 406 ~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~--~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~ 477 (895)
T KOG2076|consen 406 DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREG--YQNAFVWYKLARCYMELGEYEEAIEFYEKVLI 477 (895)
T ss_pred hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcc--ccchhhhHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence 4555667777788888888888888888888887763321 12366777778888888888888887777654
No 198
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=71.50 E-value=40 Score=36.43 Aligned_cols=48 Identities=8% Similarity=-0.007 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc
Q 016653 75 DELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTV 128 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~ 128 (385)
+.+-++..-.++|... .++++-||+...+.|.+++|...+..+.+.+.
T Consensus 70 ~~~~~~~~~~~~~~~~------~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~P 117 (694)
T PRK15179 70 AALPELLDYVRRYPHT------ELFQVLVARALEAAHRSDEGLAVWRGIHQRFP 117 (694)
T ss_pred hhHHHHHHHHHhcccc------HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence 4444455444444432 46677777777777777777777777776664
No 199
>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=71.48 E-value=1.1e+02 Score=30.41 Aligned_cols=97 Identities=18% Similarity=0.064 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHH-HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKM-DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 175 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~i-d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~ 175 (385)
......+|..+.+.|++++|.+.+.+..+...+..... ..+..... +.-+|...+...++++...- ..+|. ..
T Consensus 263 ~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~--l~~~~~~~~~~~~e~~lk~~--p~~~~--~~ 336 (409)
T TIGR00540 263 IALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPR--LKPEDNEKLEKLIEKQAKNV--DDKPK--CC 336 (409)
T ss_pred HHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhh--cCCCChHHHHHHHHHHHHhC--CCChh--HH
Confidence 45678889999999999999999999887654432211 11111111 12355555555554443321 12221 23
Q ss_pred hhHHHHHhccccCCHHHHHHHHHh
Q 016653 176 LKVYEGLYCMSTRNFKKAASLFLD 199 (385)
Q Consensus 176 l~~~~gl~~l~~r~~~~Aa~~f~e 199 (385)
+...-|..++..|+|.+|.++|-.
T Consensus 337 ll~sLg~l~~~~~~~~~A~~~le~ 360 (409)
T TIGR00540 337 INRALGQLLMKHGEFIEAADAFKN 360 (409)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHH
Confidence 445677888999999999998773
No 200
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=71.46 E-value=17 Score=39.50 Aligned_cols=89 Identities=12% Similarity=0.101 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh----cCCChhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE----EGGDWERK 173 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~----~~~~~~~~ 173 (385)
..++.+|..|-+.|.++.|.++|.++..... .-+|....+-.+....|+.+.+.+.+.... ..+ .++.|...
T Consensus 450 ~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p---~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~-~~D~~~~e~~a~~~e 525 (895)
T KOG2076|consen 450 FVWYKLARCYMELGEYEEAIEFYEKVLILAP---DNLDARITLASLYQQLGNHEKALETLEQII-NPDGRNAEACAWEPE 525 (895)
T ss_pred hhhHHHHHHHHHHhhHHHHHHHHHHHHhcCC---CchhhhhhHHHHHHhcCCHHHHHHHHhccc-CCCccchhhccccHH
Confidence 3599999999999999999999999987643 246777888888888999997766655432 112 23455555
Q ss_pred hhhhHHHHHhccccCCH
Q 016653 174 NRLKVYEGLYCMSTRNF 190 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~ 190 (385)
.||.+-.--.+...|+.
T Consensus 526 ~ri~~~r~d~l~~~gk~ 542 (895)
T KOG2076|consen 526 RRILAHRCDILFQVGKR 542 (895)
T ss_pred HHHHHHHHHHHHHhhhH
Confidence 55554333333444544
No 201
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=71.43 E-value=29 Score=37.22 Aligned_cols=96 Identities=9% Similarity=-0.010 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHHHhCCHHH----HHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 016653 97 REAHLAKSLFYIQIGDKEK----ALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 172 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~----A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~ 172 (385)
..++..+|..|...|++++ |...|.++.....+ ..........+....|+++.+...+.++-..- ..++
T Consensus 246 ~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~---~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~--P~~~-- 318 (656)
T PRK15174 246 AALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD---NVRIVTLYADALIRTGQNEKAIPLLQQSLATH--PDLP-- 318 (656)
T ss_pred HHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCH--
Confidence 3557778999999999886 78888887765532 23566666777778899999998888877641 1112
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.....-|..+...|+|.+|...|-.+.
T Consensus 319 --~a~~~La~~l~~~G~~~eA~~~l~~al 345 (656)
T PRK15174 319 --YVRAMYARALRQVGQYTAASDEFVQLA 345 (656)
T ss_pred --HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 223345777888999999998887664
No 202
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=71.34 E-value=7.5 Score=25.56 Aligned_cols=32 Identities=25% Similarity=0.392 Sum_probs=29.4
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
.++...||+.+|+|...+-+.|..|...|-+.
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 47889999999999999999999999998874
No 203
>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=71.16 E-value=12 Score=26.25 Aligned_cols=39 Identities=15% Similarity=0.223 Sum_probs=32.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 347 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~ 347 (385)
.++...+|+.+|++...+-+.+.+|+..|=+.-.-|..+
T Consensus 21 ~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D 59 (62)
T PF12802_consen 21 ELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGD 59 (62)
T ss_dssp GEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSS
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCC
Confidence 399999999999999999999999999998876666544
No 204
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.06 E-value=50 Score=35.98 Aligned_cols=59 Identities=17% Similarity=0.093 Sum_probs=39.8
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc------------chhHHHhHHHHHHHHHHhcCH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVA------------VGQKMDLVFYTLQLGFFYMDF 150 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~------------~~~~id~~l~~i~~~i~~~~~ 150 (385)
..+-++..+.+.|+|.|+.||+++|...|-+.....-. ..+..+.++.+++-++...|.
T Consensus 363 d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dh 433 (933)
T KOG2114|consen 363 DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSEVIKKFLDAQRIKNLTSYLEALHKKGLANSDH 433 (933)
T ss_pred CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHHHHHHhcCHHHHHHHHHHHHHHHHcccccchh
Confidence 33445566889999999999999999999776543211 233445666666666555553
No 205
>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=71.03 E-value=87 Score=32.13 Aligned_cols=97 Identities=14% Similarity=0.095 Sum_probs=69.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHH-hHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMD-LVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id-~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
+.-.|+++.-.|+.++|.+.|.+..+......+.-. .+|.+.=..+..+||..+..+..+... ..+|. ++-...
T Consensus 270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~----~s~WS-ka~Y~Y 344 (468)
T PF10300_consen 270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLK----ESKWS-KAFYAY 344 (468)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHh----ccccH-HHHHHH
Confidence 677799999999999999999986643323333222 455556667788999999888776555 25775 555555
Q ss_pred HHHHhccccCCH-------HHHHHHHHhcc
Q 016653 179 YEGLYCMSTRNF-------KKAASLFLDSI 201 (385)
Q Consensus 179 ~~gl~~l~~r~~-------~~Aa~~f~e~~ 201 (385)
..|..+...++- ++|.++|-++.
T Consensus 345 ~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp 374 (468)
T PF10300_consen 345 LAAACLLMLGREEEAKEHKKEAEELFRKVP 374 (468)
T ss_pred HHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence 677777777766 77778887764
No 206
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=70.68 E-value=8.6 Score=30.51 Aligned_cols=46 Identities=15% Similarity=0.286 Sum_probs=38.2
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc---eEEec
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDK 345 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~---akID~ 345 (385)
+..++....+++.+.||+.+|+|+..+-+.+.+|..+|-+. +.+|.
T Consensus 8 il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~~ 56 (108)
T smart00344 8 ILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVINP 56 (108)
T ss_pred HHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeCH
Confidence 44555556789999999999999999999999999999765 45564
No 207
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=70.40 E-value=40 Score=32.91 Aligned_cols=87 Identities=15% Similarity=0.115 Sum_probs=49.8
Q ss_pred hCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCC
Q 016653 110 IGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRN 189 (385)
Q Consensus 110 ~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~ 189 (385)
.|+-+-|+.+|.++..-..... +...++--+++.-+.++.++..+.+|-++.+.. +..+-+=.--|-.....||
T Consensus 337 ~~~PE~AlryYRRiLqmG~~sp---eLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~---~~aaDvWYNlg~vaV~iGD 410 (478)
T KOG1129|consen 337 DNNPEMALRYYRRILQMGAQSP---ELFCNIGLCCLYAQQIDLVLPSFQRALSTATQP---GQAADVWYNLGFVAVTIGD 410 (478)
T ss_pred CCChHHHHHHHHHHHHhcCCCh---HHHhhHHHHHHhhcchhhhHHHHHHHHhhccCc---chhhhhhhccceeEEeccc
Confidence 3444445554444443332222 234455556777788888888888888776532 1111111224555667888
Q ss_pred HHHHHHHHHhccc
Q 016653 190 FKKAASLFLDSIS 202 (385)
Q Consensus 190 ~~~Aa~~f~e~~~ 202 (385)
|..|.++|--++.
T Consensus 411 ~nlA~rcfrlaL~ 423 (478)
T KOG1129|consen 411 FNLAKRCFRLALT 423 (478)
T ss_pred hHHHHHHHHHHhc
Confidence 8888888876653
No 208
>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=70.22 E-value=11 Score=25.87 Aligned_cols=46 Identities=11% Similarity=0.275 Sum_probs=31.0
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.++..+-..-|.-....| +...+...+|+.+|+|+..+..++.+-.
T Consensus 6 ~~l~~L~~~~r~i~~l~~---~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 6 QALAQLPERQREIFLLRY---FQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHCS-HHHHHHHHHHH---TS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHCCCHHHHHHHHHHH---HHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 344444555566666677 7888999999999999999999987643
No 209
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=70.22 E-value=2e+02 Score=32.66 Aligned_cols=95 Identities=13% Similarity=0.079 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
...++..|..+...||+++|+..|.++.+.-+.. ..+.+.+.+..+..|+.+.+...+.++-..-. .+....
T Consensus 44 ~~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~n---~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP--~n~~~~--- 115 (987)
T PRK09782 44 IYPRLDKALKAQKNNDEATAIREFEYIHQQVPDN---IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHP--GDARLE--- 115 (987)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc--ccHHHH---
Confidence 3557888888999999999999999988765433 66779999999999999999988887766411 121111
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccC
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSISTF 204 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~t~ 204 (385)
..+..+ ++|.+|+..+-+....+
T Consensus 116 ---~~La~i--~~~~kA~~~ye~l~~~~ 138 (987)
T PRK09782 116 ---RSLAAI--PVEVKSVTTVEELLAQQ 138 (987)
T ss_pred ---HHHHHh--ccChhHHHHHHHHHHhC
Confidence 112222 99999998887776544
No 210
>PRK04239 hypothetical protein; Provisional
Probab=69.89 E-value=4.1 Score=33.01 Aligned_cols=53 Identities=13% Similarity=0.209 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
.+..+..++.|++.|=..=.|++++=.=-=-...||..|.+|...|+|.++||
T Consensus 35 ~e~qk~~iL~qiLt~eAreRL~rI~lvkPe~A~~VE~~liqlAq~G~i~~ki~ 87 (110)
T PRK04239 35 AEAQKQAILRQILTPEARERLNRIKLVKPEFAEQVEQQLIQLAQSGRIQGPID 87 (110)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 45677778999999977777766654211123379999999999999999887
No 211
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=69.03 E-value=21 Score=32.55 Aligned_cols=64 Identities=13% Similarity=0.020 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCH-------HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 64 SVLDSMRTKIEDELKKLDDRIADAEENLGE-------SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 64 ~~~~~~~~~~~~~l~~Le~~l~~~~~n~~~-------~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
+|+=....+.+++..-|+.-+..+++.... .+--..++-+|+++++.|++++|.+.|.++...-
T Consensus 125 AWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~ 195 (214)
T PF09986_consen 125 AWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSK 195 (214)
T ss_pred HHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence 555444444555555666666655433211 1223568889999999999999999999987443
No 212
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=68.88 E-value=12 Score=32.60 Aligned_cols=58 Identities=12% Similarity=0.211 Sum_probs=42.9
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
|...+..+...-..++++.||+.+|+|..++++-+..|-..|=+...=....|..-..
T Consensus 12 ~~l~~lA~~~~~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar 69 (164)
T PRK10857 12 TAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGK 69 (164)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccC
Confidence 3333344444446799999999999999999999999999998887445555544433
No 213
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=68.37 E-value=89 Score=33.57 Aligned_cols=25 Identities=24% Similarity=0.108 Sum_probs=14.0
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTE 124 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~ 124 (385)
+..|.+.|.++|++++|.+.|.++.
T Consensus 262 ~n~Li~~y~k~g~~~~A~~vf~~m~ 286 (697)
T PLN03081 262 SCALIDMYSKCGDIEDARCVFDGMP 286 (697)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhCC
Confidence 4445555666666666665555543
No 214
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.03 E-value=31 Score=36.20 Aligned_cols=62 Identities=21% Similarity=0.276 Sum_probs=52.5
Q ss_pred hHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 285 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 285 ~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
..+++.+-++|+.+.-.+ ..|+++.+|+.|+++.+++...|..=....-+.|++|. |++.+.
T Consensus 114 e~Y~d~iaeEinekLqE~-----gqvtiaeLakq~dl~sellqs~l~ek~lg~iikgr~dg--gviyT~ 175 (776)
T KOG2235|consen 114 EEYVDRIAEEINEKLQEQ-----GQVTIAELAKQWDLPSELLQSLLIEKLLGSIIKGRVDG--GVIYTS 175 (776)
T ss_pred HHHHHHHHHHHHHHHHHh-----cchHHHHHHHhcCCcHHHHHHHHHHHhhccceeeeecC--CEEeeH
Confidence 466778888888865444 78999999999999999999999988777778999998 888875
No 215
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=67.52 E-value=78 Score=27.13 Aligned_cols=41 Identities=7% Similarity=-0.041 Sum_probs=34.6
Q ss_pred HHHHHHHHHHhC-CHHHHHHHHHHHHhhhccchhHHHhHHHH
Q 016653 100 HLAKSLFYIQIG-DKEKALEQLKVTESKTVAVGQKMDLVFYT 140 (385)
Q Consensus 100 ~~~la~~~~~~G-d~~~A~~~~~~~~~~~~~~~~~id~~l~~ 140 (385)
...+|+-+...| +..+|..++.+...-|..+...+.++=..
T Consensus 93 eV~~GE~L~~~g~~~~ega~hf~nAl~Vc~qP~~LL~iyq~t 134 (148)
T TIGR00985 93 EVQLGEELMAQGTNVDEGAVHFYNALKVYPQPQQLLSIYQQT 134 (148)
T ss_pred HHHHHHHHHhCCCchHHHHHHHHHHHHhCCCHHHHHHHHHhh
Confidence 678999999999 99999999999999998888776555433
No 216
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=67.46 E-value=18 Score=38.06 Aligned_cols=113 Identities=12% Similarity=-0.035 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
+|+|-+|..|.+.|.++.|.-.|.++.+-..... ++-.+.+.+ .-..|..+.+...+++|-.+-. .++.. +
T Consensus 490 nAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~ns-vi~~~~g~~--~~~~k~~d~AL~~~~~A~~ld~--kn~l~----~ 560 (638)
T KOG1126|consen 490 NAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNS-VILCHIGRI--QHQLKRKDKALQLYEKAIHLDP--KNPLC----K 560 (638)
T ss_pred HHHHhhhhheeccchhhHHHHHHHhhhcCCccch-hHHhhhhHH--HHHhhhhhHHHHHHHHHHhcCC--CCchh----H
Confidence 5789999999999999999999999887664433 333333333 3334666667777776655421 12221 2
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhh
Q 016653 178 VYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS 226 (385)
Q Consensus 178 ~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s 226 (385)
+..|......++|.+|...|=+. +.+.|.+..+|..+..+.-
T Consensus 561 ~~~~~il~~~~~~~eal~~LEeL-------k~~vP~es~v~~llgki~k 602 (638)
T KOG1126|consen 561 YHRASILFSLGRYVEALQELEEL-------KELVPQESSVFALLGKIYK 602 (638)
T ss_pred HHHHHHHHhhcchHHHHHHHHHH-------HHhCcchHHHHHHHHHHHH
Confidence 44677777888899888776543 3456677777777766653
No 217
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=67.38 E-value=79 Score=32.98 Aligned_cols=101 Identities=13% Similarity=0.064 Sum_probs=65.6
Q ss_pred CCCCHHHHHHHH------HHHHHHHHHHHHHHHHHHHhhCHHHHHH--HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc
Q 016653 59 LEMDQSVLDSMR------TKIEDELKKLDDRIADAEENLGESEVRE--AHLAKSLFYIQIGDKEKALEQLKVTESKTVAV 130 (385)
Q Consensus 59 ~~~D~~~~~~~~------~~~~~~l~~Le~~l~~~~~n~~~~~ir~--a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~ 130 (385)
.|.||=...++- +...+-..-++..+...++.+. +.++. .+..||+.|.++|.+.+|+.+|.+....++.
T Consensus 410 ~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~-e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k- 487 (611)
T KOG1173|consen 410 APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLN-EKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK- 487 (611)
T ss_pred CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccc-cccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC-
Confidence 455664444332 2333444444544444444433 33222 2788999999999999999999998877743
Q ss_pred hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 131 GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 131 ~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
-.+..-.+--+....||.+.|.++..|+-.+
T Consensus 488 --~~~~~asig~iy~llgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 488 --DASTHASIGYIYHLLGNLDKAIDHFHKALAL 518 (611)
T ss_pred --chhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 2344455555677889999999999887654
No 218
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=66.72 E-value=19 Score=24.66 Aligned_cols=44 Identities=11% Similarity=0.188 Sum_probs=35.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEE
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 350 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv 350 (385)
-..+++..+++.+|+|...+-+.|..|...|-+...-+...+..
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~ 51 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYY 51 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEE
Confidence 46789999999999999999999999999998875544333333
No 219
>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=66.56 E-value=57 Score=29.09 Aligned_cols=64 Identities=17% Similarity=0.186 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.||.+++..-+.|=..++-..+|+.||||..-+-+-|..|-.+|-+.- -+..|+....
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 357889999999999999999999999999999999999999999999998853 4556776655
No 220
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=66.14 E-value=18 Score=32.85 Aligned_cols=64 Identities=9% Similarity=0.079 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEE
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~ 352 (385)
-.+.+++.||..++..-+.|=..++-..||+.||+|..-+-+-|..|..+|-+.- -+..|+...
T Consensus 8 ~~~~vy~~i~~~I~~g~l~pG~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~--~~~~G~~V~ 71 (224)
T PRK11534 8 TALDGYRWLKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTV--VNQKGYRVA 71 (224)
T ss_pred hhHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEE--eCCCceEeC
Confidence 3567899999999999999999999999999999999999999999999998854 455565544
No 221
>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=66.07 E-value=21 Score=25.23 Aligned_cols=51 Identities=18% Similarity=0.330 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 290 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
.+.+..|.+++ +++......+...+|+.+|++...+-..|..|...|-|..
T Consensus 6 aL~~p~R~~Il-~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 6 ALSDPTRLRIL-RLLASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHTSHHHHHHH-HHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HhCCHHHHHHH-HHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 33444555444 3446678899999999999999999999999999887654
No 222
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=66.00 E-value=55 Score=30.68 Aligned_cols=92 Identities=16% Similarity=0.107 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHH
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYE 180 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~ 180 (385)
..++.-++-.||=..++.+..+...+.++.. +....+.+..+-.||+..+...+.|+-..- ..||+.. ...
T Consensus 70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~---~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--p~d~~~~----~~l 140 (257)
T COG5010 70 AKLATALYLRGDADSSLAVLQKSAIAYPKDR---ELLAAQGKNQIRNGNFGEAVSVLRKAARLA--PTDWEAW----NLL 140 (257)
T ss_pred HHHHHHHHhcccccchHHHHhhhhccCcccH---HHHHHHHHHHHHhcchHHHHHHHHHHhccC--CCChhhh----hHH
Confidence 4445555555555555555555332222111 111224444555555555555555544431 1233321 133
Q ss_pred HHhccccCCHHHHHHHHHhcc
Q 016653 181 GLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 181 gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
|..+...|++..|...|..++
T Consensus 141 gaaldq~Gr~~~Ar~ay~qAl 161 (257)
T COG5010 141 GAALDQLGRFDEARRAYRQAL 161 (257)
T ss_pred HHHHHHccChhHHHHHHHHHH
Confidence 444555555555555554443
No 223
>PRK09954 putative kinase; Provisional
Probab=65.70 E-value=16 Score=35.76 Aligned_cols=53 Identities=6% Similarity=0.139 Sum_probs=44.3
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc---eEEecCCCEEEE
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDKVAGVLET 352 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~---akID~~~giv~~ 352 (385)
+..+++-..+++.+.||+.||+|...+-+.|.+|...|.+. ..+|...+++.+
T Consensus 8 il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~vi 63 (362)
T PRK09954 8 ILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVV 63 (362)
T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEE
Confidence 44555566799999999999999999999999999999884 478888777644
No 224
>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=65.52 E-value=95 Score=31.84 Aligned_cols=108 Identities=18% Similarity=0.256 Sum_probs=67.8
Q ss_pred CCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH-HHHhccccCC
Q 016653 111 GDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY-EGLYCMSTRN 189 (385)
Q Consensus 111 Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~-~gl~~l~~r~ 189 (385)
++...|.+++...+...+.. .=..+..-|+....||.+.+...++++-.. ...|..-..+-.+ .|..++...+
T Consensus 247 ~~~~~a~~lL~~~~~~yP~s---~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~---q~~~~Ql~~l~~~El~w~~~~~~~ 320 (468)
T PF10300_consen 247 VPLEEAEELLEEMLKRYPNS---ALFLFFEGRLERLKGNLEEAIESFERAIES---QSEWKQLHHLCYFELAWCHMFQHD 320 (468)
T ss_pred CCHHHHHHHHHHHHHhCCCc---HHHHHHHHHHHHHhcCHHHHHHHHHHhccc---hhhHHhHHHHHHHHHHHHHHHHch
Confidence 56777888888877665421 224566677888888888888877765532 2234332223333 6788999999
Q ss_pred HHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCCh
Q 016653 190 FKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDR 229 (385)
Q Consensus 190 ~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R 229 (385)
|.+|+.+|...... + .+ ..-+-.|+.-|+.....+
T Consensus 321 w~~A~~~f~~L~~~--s-~W--Ska~Y~Y~~a~c~~~l~~ 355 (468)
T PF10300_consen 321 WEEAAEYFLRLLKE--S-KW--SKAFYAYLAAACLLMLGR 355 (468)
T ss_pred HHHHHHHHHHHHhc--c-cc--HHHHHHHHHHHHHHhhcc
Confidence 99999999887542 1 11 234455655555555444
No 225
>smart00351 PAX Paired Box domain.
Probab=65.40 E-value=15 Score=30.38 Aligned_cols=46 Identities=15% Similarity=0.197 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 293 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 293 ~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
...|.+++.-| -.-.+...+|+.||+|...+-+|+.++-..|.+..
T Consensus 20 ~~~R~riv~~~---~~G~s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~p 65 (125)
T smart00351 20 DEERQRIVELA---QNGVRPCDISRQLCVSHGCVSKILGRYYETGSIRP 65 (125)
T ss_pred HHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCC
Confidence 45677777666 35678899999999999999999999999987554
No 226
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=65.30 E-value=10 Score=31.40 Aligned_cols=40 Identities=18% Similarity=0.313 Sum_probs=36.7
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
+..+++.+-++|+..|+..+|++...+.+.+.+|+..|.|
T Consensus 17 IvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l 56 (127)
T PF06163_consen 17 IVELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDL 56 (127)
T ss_pred HHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCe
Confidence 3456677999999999999999999999999999999988
No 227
>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=65.25 E-value=11 Score=26.76 Aligned_cols=34 Identities=21% Similarity=0.272 Sum_probs=30.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
..++...+|+.+|+|...+.+.|..|...|-|..
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 4589999999999999999999999999987754
No 228
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=65.16 E-value=35 Score=36.11 Aligned_cols=93 Identities=11% Similarity=-0.034 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 177 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~ 177 (385)
+|+..+|.-.-+.|+..+|..+|.+...+|.. ..|..-++--+.-+.|+++.+.....+|-+..-. ..+
T Consensus 321 ~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~---hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-----~aa--- 389 (966)
T KOG4626|consen 321 DAYNNLANALKDKGSVTEAVDCYNKALRLCPN---HADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-----FAA--- 389 (966)
T ss_pred HHHhHHHHHHHhccchHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-----hhh---
Confidence 56667777777778888888888877777753 2344444444555667777777666666554211 000
Q ss_pred HH--HHHhccccCCHHHHHHHHHhcc
Q 016653 178 VY--EGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 178 ~~--~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.+ -|..+-++|++.+|..++-+++
T Consensus 390 a~nNLa~i~kqqgnl~~Ai~~Ykeal 415 (966)
T KOG4626|consen 390 AHNNLASIYKQQGNLDDAIMCYKEAL 415 (966)
T ss_pred hhhhHHHHHHhcccHHHHHHHHHHHH
Confidence 11 2344557899999988887764
No 229
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=65.14 E-value=62 Score=24.98 Aligned_cols=33 Identities=21% Similarity=0.155 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
...-+...+|.++...|++++|.+.+.+.....
T Consensus 39 ~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~A 71 (94)
T PF12862_consen 39 GLAYALLNLAELHRRFGHYEEALQALEEAIRLA 71 (94)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 466789999999999999999999999887665
No 230
>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=64.80 E-value=7.6 Score=29.06 Aligned_cols=33 Identities=24% Similarity=0.218 Sum_probs=30.0
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
+.-.+...+|+.+|+|+..+..++.++...|.+
T Consensus 30 ~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 30 EAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 688999999999999999999999988887765
No 231
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=64.60 E-value=7.5 Score=26.14 Aligned_cols=40 Identities=20% Similarity=0.293 Sum_probs=23.0
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCC
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAG 337 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g 337 (385)
.|..++..+. .-.+...+|+.||+|...+-+|+.++-..|
T Consensus 6 ~R~~ii~l~~---~G~s~~~ia~~lgvs~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 6 RRAQIIRLLR---EGWSIREIAKRLGVSRSTVYRWIKRYREEG 45 (50)
T ss_dssp ----HHHHHH---HT--HHHHHHHHTS-HHHHHHHHT------
T ss_pred HHHHHHHHHH---CCCCHHHHHHHHCcCHHHHHHHHHHccccc
Confidence 3555566663 378899999999999999999998876655
No 232
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=64.45 E-value=81 Score=29.57 Aligned_cols=97 Identities=16% Similarity=0.051 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
+..+..+|+-....|+|..|...+.+......+... . ....--+.--.|+++.+..-+.++-++. +.+|...|-
T Consensus 100 ~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~-~--~~~lgaaldq~Gr~~~Ar~ay~qAl~L~--~~~p~~~nN- 173 (257)
T COG5010 100 RELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWE-A--WNLLGAALDQLGRFDEARRAYRQALELA--PNEPSIANN- 173 (257)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChh-h--hhHHHHHHHHccChhHHHHHHHHHHHhc--cCCchhhhh-
Confidence 344555899999999999999999988765543322 2 1222223334599999999999988874 234443332
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
-|..++-.|++.+|..+++....
T Consensus 174 ---lgms~~L~gd~~~A~~lll~a~l 196 (257)
T COG5010 174 ---LGMSLLLRGDLEDAETLLLPAYL 196 (257)
T ss_pred ---HHHHHHHcCCHHHHHHHHHHHHh
Confidence 46678889999999999998643
No 233
>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=64.41 E-value=23 Score=29.58 Aligned_cols=46 Identities=13% Similarity=0.263 Sum_probs=37.1
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
..++.+.||+.+|+|+.++++-+..|...|=+..+=....|..-..
T Consensus 24 ~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~ 69 (135)
T TIGR02010 24 GPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGR 69 (135)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccC
Confidence 4699999999999999999999999999998876444444544333
No 234
>PRK03837 transcriptional regulator NanR; Provisional
Probab=64.05 E-value=21 Score=32.63 Aligned_cols=64 Identities=9% Similarity=0.050 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.|+.+++...+.|=..+ +...||+.||||..-+-+-|..|-..|-+.- -+..|+....
T Consensus 15 ~~~v~~~l~~~I~~g~l~pG~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~--~~~~G~~V~~ 79 (241)
T PRK03837 15 SEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQI--SHGERARVSR 79 (241)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEE--ecCCceeEec
Confidence 46789999999999999999999 8999999999999999999999999998755 3555766554
No 235
>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=64.02 E-value=14 Score=24.28 Aligned_cols=34 Identities=12% Similarity=0.258 Sum_probs=24.0
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
+...++.-.+.+...+|+.+|+|+..+-+-+.+|
T Consensus 8 Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 8 ILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 3344444589999999999999999988777654
No 236
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=63.75 E-value=19 Score=32.86 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
-.+.+++.+|..++..-+.|=+.++-..||+.||+|..-|-+-|.+|-.+|-+.-. +..|.++..
T Consensus 17 ~~~~vy~~Lr~~Il~g~l~pG~~l~e~~La~~~gvSrtPVReAL~rL~~eGlv~~~--p~rG~~V~~ 81 (230)
T COG1802 17 LADQVYEELREAILSGELAPGERLSEEELAEELGVSRTPVREALRRLEAEGLVEIE--PNRGAFVAP 81 (230)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCccHHHHHHHhCCCCccHHHHHHHHHHCCCeEec--CCCCCeeCC
Confidence 45678999999999999999999999999999999999999999999999987654 666766654
No 237
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=63.39 E-value=61 Score=36.64 Aligned_cols=21 Identities=0% Similarity=-0.224 Sum_probs=11.3
Q ss_pred HHHhccccCCHHHHHHHHHhc
Q 016653 180 EGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
-|..+...|++.+|...|-.+
T Consensus 683 LA~al~~lGd~~eA~~~l~~A 703 (987)
T PRK09782 683 LAYVNQRLDDMAATQHYARLV 703 (987)
T ss_pred HHHHHHHCCCHHHHHHHHHHH
Confidence 444555555555555555444
No 238
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=63.07 E-value=1.1e+02 Score=31.21 Aligned_cols=70 Identities=9% Similarity=0.002 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh--------------hccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESK--------------TVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~--------------~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
+-..+.+|+.|.+.|++++|.+.+.+.... |...+.........-+...+.|+|..+...+.+++.
T Consensus 374 ~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~ 453 (484)
T COG4783 374 PLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQ 453 (484)
T ss_pred cHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 556788899999999999999988765321 222344555666666677788999999999998888
Q ss_pred HHhc
Q 016653 163 LFEE 166 (385)
Q Consensus 163 ~~~~ 166 (385)
....
T Consensus 454 ~~~~ 457 (484)
T COG4783 454 QVKL 457 (484)
T ss_pred hccC
Confidence 7754
No 239
>cd00131 PAX Paired Box domain
Probab=62.84 E-value=19 Score=30.02 Aligned_cols=47 Identities=11% Similarity=0.190 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
-...|.+++.-| ..-.+...+|..||+|...+-+|+.++-..|.+..
T Consensus 19 S~d~R~rIv~~~---~~G~s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~p 65 (128)
T cd00131 19 PDSIRQRIVELA---QSGIRPCDISRQLRVSHGCVSKILNRYYETGSIRP 65 (128)
T ss_pred CHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCC
Confidence 345777887666 46789999999999999999999999999998764
No 240
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=62.59 E-value=1.7e+02 Score=29.02 Aligned_cols=103 Identities=13% Similarity=0.149 Sum_probs=67.2
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHH------------hHHHHHHHHHHhcCHHHHHhHHHH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMD------------LVFYTLQLGFFYMDFDLISKSIDK 159 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id------------~~l~~i~~~i~~~~~~~~~~~i~k 159 (385)
.|.+-..|....|.++.+.|.++.|..=|..+.....+.+...+ ....++...+-.||...|...++.
T Consensus 101 lKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~ 180 (504)
T KOG0624|consen 101 LKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITH 180 (504)
T ss_pred cCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHH
Confidence 34556678889999999999999999999988866554433222 122334445556777777776665
Q ss_pred HHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 160 AKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 160 a~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
+-++ +.|+ +.|..+.+..+..++.-+.|...+-.+
T Consensus 181 llEi----~~Wd--a~l~~~Rakc~i~~~e~k~AI~Dlk~a 215 (504)
T KOG0624|consen 181 LLEI----QPWD--ASLRQARAKCYIAEGEPKKAIHDLKQA 215 (504)
T ss_pred HHhc----Ccch--hHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 4332 4675 334455555667777777776665543
No 241
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=62.49 E-value=82 Score=27.28 Aligned_cols=68 Identities=3% Similarity=-0.129 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF 164 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~ 164 (385)
....+.++.||-.+-..|+|++|+.+|.+....-.+ --...++.-.+.+..||...+.+....|-..-
T Consensus 66 p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d---dp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~ 133 (157)
T PRK15363 66 AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID---APQAPWAAAECYLACDNVCYAIKALKAVVRIC 133 (157)
T ss_pred cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 445788999999999999999999999987654321 12345666667778899998888888777665
No 242
>COG2118 DNA-binding protein [General function prediction only]
Probab=62.35 E-value=7.9 Score=31.37 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
.+.-+..++.|++.|=.+=.|.+++=.=-==.+.+|..|..|+..|+|..+||-
T Consensus 38 ~eaqkqaiLrqiLtpeAreRL~~irLvRPe~AeavE~qLi~LaqtGri~~~I~e 91 (116)
T COG2118 38 EEAQKQAILRQILTPEARERLARVRLVRPELAEAVENQLIQLAQTGRITHKIDE 91 (116)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHcCCCCCCCCH
Confidence 455677778889888766555555431111134688999999999999999983
No 243
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=62.33 E-value=1.3e+02 Score=27.86 Aligned_cols=149 Identities=13% Similarity=0.047 Sum_probs=87.4
Q ss_pred HHHHHHhCCCHHHHHHHHHhcCCCCCHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHH
Q 016653 37 VFSMVKAHDMASFYETLVAESVLEMDQSVLDSMRT-------KIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQ 109 (385)
Q Consensus 37 ~~~~ik~~~m~~~y~~~~~~~~~~~D~~~~~~~~~-------~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~ 109 (385)
.+..+..+++..-=..+-+.+....+....-...+ .++.--+.-+.-++-...| -+.+...|-|+|.
T Consensus 42 al~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~------GdVLNNYG~FLC~ 115 (250)
T COG3063 42 ALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNN------GDVLNNYGAFLCA 115 (250)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCc------cchhhhhhHHHHh
Confidence 55777777776655555444432222111111222 2233333333333332232 3458889999999
Q ss_pred hCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCC
Q 016653 110 IGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRN 189 (385)
Q Consensus 110 ~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~ 189 (385)
.|.+++|...|.+....- .-++.-+...+..=+++-.|+.+.+..++.++-...-. .++.+ .-..-.++..|+
T Consensus 116 qg~~~eA~q~F~~Al~~P-~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~-----l~~a~~~~~~~~ 188 (250)
T COG3063 116 QGRPEEAMQQFERALADP-AYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPAL-----LELARLHYKAGD 188 (250)
T ss_pred CCChHHHHHHHHHHHhCC-CCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHH-----HHHHHHHHhccc
Confidence 999999999998876432 22345566677777788889999999999987765321 11111 112334667888
Q ss_pred HHHHHHHHH
Q 016653 190 FKKAASLFL 198 (385)
Q Consensus 190 ~~~Aa~~f~ 198 (385)
|-.|..+|-
T Consensus 189 y~~Ar~~~~ 197 (250)
T COG3063 189 YAPARLYLE 197 (250)
T ss_pred chHHHHHHH
Confidence 877755443
No 244
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.27 E-value=61 Score=32.01 Aligned_cols=67 Identities=21% Similarity=0.228 Sum_probs=41.4
Q ss_pred hhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 016653 90 NLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 159 (385)
Q Consensus 90 n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~k 159 (385)
|..+||=-....-+|.-|+..|||++|+..|.-+.+....++ .+.+. +.=+.++.|-+..++....|
T Consensus 50 ~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~-el~vn--LAcc~FyLg~Y~eA~~~~~k 116 (557)
T KOG3785|consen 50 NLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPA-ELGVN--LACCKFYLGQYIEAKSIAEK 116 (557)
T ss_pred ccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCc-ccchh--HHHHHHHHHHHHHHHHHHhh
Confidence 344444334566678899999999999999998876443332 33332 22334455666666554444
No 245
>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=62.14 E-value=29 Score=31.67 Aligned_cols=64 Identities=14% Similarity=0.135 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+..++.||..++..-+.|=..+ +-..||+.||||-.-+-.-|..|-..|-+. +-+..|+.+..
T Consensus 8 ~~~v~~~l~~~I~~g~l~pG~~LpsE~~La~~lgVSRtpVREAL~~Le~eGlV~--~~~~~G~~V~~ 72 (235)
T TIGR02812 8 AGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLT--IQHGKPTKVNN 72 (235)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE--EeCCCccEecC
Confidence 35678999999999999999999 899999999999999999999999999886 44556766654
No 246
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=62.09 E-value=36 Score=31.55 Aligned_cols=64 Identities=13% Similarity=0.178 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.||..++..-+.|=..+ +-..||+.||||..-+-+-|..|-..|-+. +-+..|+.+..
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 57889999999999999999999 699999999999999999999999999886 44456766654
No 247
>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=61.86 E-value=21 Score=24.36 Aligned_cols=40 Identities=18% Similarity=0.305 Sum_probs=31.5
Q ss_pred HHHhccccc-cccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 300 YSQFLESYK-SVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 300 ~~qy~~pY~-~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
+..++.... .+++..+|+.+|++..-+-+.|..|...|-+
T Consensus 8 iL~~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 8 ILEALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYV 48 (52)
T ss_dssp HHHCHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCe
Confidence 344444444 4899999999999999999999999988855
No 248
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=61.82 E-value=19 Score=27.34 Aligned_cols=46 Identities=15% Similarity=0.191 Sum_probs=37.8
Q ss_pred HHHHHHHhcccc-ccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 296 RTVVYSQFLESY-KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 296 R~~~~~qy~~pY-~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
|...+..++.-. ..++++.||+.+|+|...+-+.|..|...|-+.-
T Consensus 6 r~~~Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 6 RGLAVLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred HHHHHHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 334455666555 5799999999999999999999999999988854
No 249
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=61.61 E-value=94 Score=25.87 Aligned_cols=82 Identities=20% Similarity=0.323 Sum_probs=65.3
Q ss_pred HHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce-EEe-cCCCEEEEcCCCchhHHHHHHHHhhHHHHHHH
Q 016653 299 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC-KID-KVAGVLETNRPDAKNALYQATIKQGDFLLNRI 376 (385)
Q Consensus 299 ~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a-kID-~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~ 376 (385)
+|..++++-.-.+.+.+|+.+|.+..-+.+-|-+|+..|-+.= ++- ..-|-.+.+.|-+.+.+.+.+.+.-+....++
T Consensus 32 v~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~ 111 (126)
T COG3355 32 VYKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKM 111 (126)
T ss_pred HHHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHH
Confidence 4555666778899999999999999999999999999997743 332 55678888888888888888888877777777
Q ss_pred HHhh
Q 016653 377 QKLS 380 (385)
Q Consensus 377 q~l~ 380 (385)
.++.
T Consensus 112 ~~~i 115 (126)
T COG3355 112 KQLI 115 (126)
T ss_pred HHHH
Confidence 6554
No 250
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=61.44 E-value=34 Score=34.39 Aligned_cols=89 Identities=17% Similarity=0.109 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHhhCH-------HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHH---HhHHHHHHHH
Q 016653 75 DELKKLDDRIADAEENLGE-------SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKM---DLVFYTLQLG 144 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~~~-------~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~i---d~~l~~i~~~ 144 (385)
+-.+.|+...+-|.+|+-- -..-+++-.||+-||=.|||+.|+..-..-.+....-+.+. -..-++--+.
T Consensus 166 ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~h 245 (639)
T KOG1130|consen 166 EVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCH 245 (639)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhh
Confidence 3344445555555555321 22334577788889999999999887654333222222222 2344555678
Q ss_pred HHhcCHHHHHhHHHHHHHH
Q 016653 145 FFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 145 i~~~~~~~~~~~i~ka~~~ 163 (385)
|+.|+++.+.++..++-.+
T Consensus 246 iflg~fe~A~ehYK~tl~L 264 (639)
T KOG1130|consen 246 IFLGNFELAIEHYKLTLNL 264 (639)
T ss_pred hhhcccHhHHHHHHHHHHH
Confidence 8889998888888776665
No 251
>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=61.23 E-value=16 Score=25.56 Aligned_cols=34 Identities=18% Similarity=0.380 Sum_probs=28.7
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.-|+..=+.++++.+|+.||+|...+...|.+..
T Consensus 15 ~GYfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 15 LGYFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred cCCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3588877999999999999999998888776644
No 252
>PF01865 PhoU_div: Protein of unknown function DUF47; InterPro: IPR018445 This family includes prokaryotic proteins of unknown function, as well as a protein annotated as the pit accessory protein from Rhizobium meliloti (Sinorhizobium meliloti) (O30498 from SWISSPROT). However, the function of this protein is also unknown (Pit stands for Phosphate transport) [].; PDB: 2OLT_C 2IIU_C 3L39_A.
Probab=61.12 E-value=59 Score=29.17 Aligned_cols=79 Identities=16% Similarity=0.299 Sum_probs=59.4
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHH
Q 016653 251 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 251 ~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
.+.+++.++.+++|..+...+.++... -+..+.+.++++......++-|+.+-++-.++..++--.+.++.-.
T Consensus 26 ~~~e~l~~~~~~~~~~~~~~~~~i~~l-------E~~aD~i~~~i~~~L~~~fitP~dRedi~~L~~~lD~I~d~i~~~a 98 (214)
T PF01865_consen 26 LLAELLEAYLEGDYEDVEELLEEIKEL-------EHEADEIKREIREELYKSFITPFDREDILRLISSLDDIADYIEDAA 98 (214)
T ss_dssp CHHHHHHHHCTT-CHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH-SS-SS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 367888888888877766665555332 4568899999999999999999999999999999988788888777
Q ss_pred HHHHhC
Q 016653 331 SRFIAA 336 (385)
Q Consensus 331 ~~lI~~ 336 (385)
..+..-
T Consensus 99 ~~l~~~ 104 (214)
T PF01865_consen 99 KRLSLY 104 (214)
T ss_dssp HHHHHH
T ss_pred HHHHHh
Confidence 766553
No 253
>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=60.46 E-value=17 Score=26.59 Aligned_cols=44 Identities=25% Similarity=0.317 Sum_probs=36.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCC
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 355 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~ 355 (385)
-.++.+.||..+|+|...+-+.|..|..+|-|. ...|.+...++
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~----~~~~~i~I~d~ 70 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIE----VKRGKIIILDP 70 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE----EETTEEEESSH
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EcCCEEEECCH
Confidence 347899999999999999999999999988664 56667776644
No 254
>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=60.36 E-value=42 Score=23.74 Aligned_cols=48 Identities=15% Similarity=0.169 Sum_probs=35.4
Q ss_pred HHhcc-ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 301 SQFLE-SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 301 ~qy~~-pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
..++. ....+++..+|+.+|++...+-+.|-+|+..|=+.=.=|..++
T Consensus 9 L~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~ 57 (68)
T PF13463_consen 9 LRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDK 57 (68)
T ss_dssp HHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCT
T ss_pred HHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcC
Confidence 33444 7899999999999999999999999999999988555444443
No 255
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.08 E-value=1.8e+02 Score=28.70 Aligned_cols=121 Identities=11% Similarity=0.051 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchhHHHhHHH--HHHHHHHhcC
Q 016653 74 EDELKKLDDRIADAE-ENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQKMDLVFY--TLQLGFFYMD 149 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~-~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~-~~~~~~~~~id~~l~--~i~~~i~~~~ 149 (385)
...++.+.++++.-. .|..+=+.-....=.++|...+|-++.|.....+.. +...+ +|++.+ .|+-+|..|+
T Consensus 92 ksRid~m~e~~~~d~~~~~~~w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD----~Dv~~~~~~I~~sll~~~ 167 (389)
T KOG0396|consen 92 KSRIDFMHEEISSDTPANSRKWPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVD----SDVYKRAYGIRDSLLAGE 167 (389)
T ss_pred HHHHHHHHHHhcccCchHHHHhHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHh----HHHHHHHHHHHHHHHhcc
Confidence 344555554444333 333333333345567899999998888887775543 22222 234433 3777899999
Q ss_pred HHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHh
Q 016653 150 FDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLD 199 (385)
Q Consensus 150 ~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e 199 (385)
...+....+.-+..+.+.+. .....++...-+-.+..++|.+|..++-.
T Consensus 168 l~~~Lswc~ehk~~LkK~~S-~lEf~lRlQefIELi~~~~~~~Ai~~akk 216 (389)
T KOG0396|consen 168 LEPALSWCKEHKVELKKEES-SLEFQLRLQEFIELIKVDNYDKAIAFAKK 216 (389)
T ss_pred hHHHHHHHHHHHHHHHhccc-hhhhHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 99999888887777654221 33455566667777888899988766443
No 256
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=59.15 E-value=25 Score=30.14 Aligned_cols=59 Identities=20% Similarity=0.309 Sum_probs=44.0
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
+|..++..-...-.-++++.+|+..|+|+.++++-+..|-..|-+..+=-+.-|..-..
T Consensus 11 l~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~Lar 69 (150)
T COG1959 11 LRALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLAR 69 (150)
T ss_pred HHHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCCC
Confidence 34434444434445799999999999999999999999999998877666555554433
No 257
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=58.98 E-value=20 Score=30.58 Aligned_cols=46 Identities=22% Similarity=0.327 Sum_probs=38.8
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc---eEEec
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDK 345 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~---akID~ 345 (385)
+...++-=.+.+.+.+|+.+|+|+..+-+-+.+|..+|-|. |.+|.
T Consensus 14 Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 14 ILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred HHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 44444445899999999999999999999999999999885 56774
No 258
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=58.91 E-value=3.1e+02 Score=32.15 Aligned_cols=98 Identities=15% Similarity=0.118 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~--~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
.+.++-.|+.+.++.++|.+...++.... .....++++|...+-+..++|.-+.+++..++|....+ + +
T Consensus 1460 ~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd----~-----~ 1530 (1710)
T KOG1070|consen 1460 LWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCD----A-----Y 1530 (1710)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcc----h-----H
Confidence 37888999999999999999999987543 56788999999999999999998999999998887653 2 2
Q ss_pred hHHHHHhc--cccCCHHHHHHHHHhccccCC
Q 016653 177 KVYEGLYC--MSTRNFKKAASLFLDSISTFT 205 (385)
Q Consensus 177 ~~~~gl~~--l~~r~~~~Aa~~f~e~~~t~~ 205 (385)
++|..|.- --...|.+|.++|-..+..|.
T Consensus 1531 ~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~ 1561 (1710)
T KOG1070|consen 1531 TVHLKLLGIYEKSEKNDEADELLRLMLKKFG 1561 (1710)
T ss_pred HHHHHHHHHHHHhhcchhHHHHHHHHHHHhc
Confidence 34433322 234467889998888877764
No 259
>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=58.84 E-value=18 Score=23.65 Aligned_cols=31 Identities=29% Similarity=0.410 Sum_probs=24.5
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
+++..+|+.||+|...+. ++|.+|++.+...
T Consensus 2 lt~~e~a~~lgis~~ti~----~~~~~g~i~~~~~ 32 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVY----RLIHEGELPAYRV 32 (49)
T ss_pred CCHHHHHHHHCCCHHHHH----HHHHcCCCCeEEe
Confidence 578899999999988755 4567899988543
No 260
>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=58.51 E-value=28 Score=24.77 Aligned_cols=35 Identities=20% Similarity=0.278 Sum_probs=30.6
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 306 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 306 pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
.=..|+...+|+.||+++.-+-+.+.+|-..|-+.
T Consensus 19 ~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 19 EGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp CTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 56889999999999999999999999999988664
No 261
>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=58.30 E-value=32 Score=23.04 Aligned_cols=29 Identities=21% Similarity=0.450 Sum_probs=24.1
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
|...+++.+|+.+|+|.+.+-....+.+.
T Consensus 18 ~~~~t~~eIa~~lg~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 18 FEGLTLEEIAERLGISRSTVRRILKRALK 46 (50)
T ss_dssp TST-SHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCcHHHHHHHHHHHHH
Confidence 78889999999999999998887776553
No 262
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=58.11 E-value=30 Score=29.67 Aligned_cols=48 Identities=25% Similarity=0.286 Sum_probs=38.1
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 306 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 306 pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
+-..++.+.||+..|+|+.++++-+..|...|=+...=-..-|..-..
T Consensus 21 ~~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La~ 68 (153)
T PRK11920 21 DGKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLGR 68 (153)
T ss_pred CCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCeeecC
Confidence 335689999999999999999999999999998876554444444443
No 263
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=58.07 E-value=84 Score=29.69 Aligned_cols=83 Identities=17% Similarity=0.156 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhH
Q 016653 77 LKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKS 156 (385)
Q Consensus 77 l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~ 156 (385)
..-+|.-++.+..+ ..-+..+.+|..+.||.++|...|.+....+....+.-.++-.+++.....||.+.+.+.
T Consensus 56 ~~Ife~glk~f~~~------~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v 129 (280)
T PF05843_consen 56 RKIFERGLKKFPSD------PDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKV 129 (280)
T ss_dssp HHHHHHHHHHHTT-------HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHH
T ss_pred HHHHHHHHHHCCCC------HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 44455555544443 344677789999999999999999998877655444556777889999999999999988
Q ss_pred HHHHHHHHh
Q 016653 157 IDKAKSLFE 165 (385)
Q Consensus 157 i~ka~~~~~ 165 (385)
..++.+...
T Consensus 130 ~~R~~~~~~ 138 (280)
T PF05843_consen 130 EKRAEELFP 138 (280)
T ss_dssp HHHHHHHTT
T ss_pred HHHHHHHhh
Confidence 888887754
No 264
>PF12854 PPR_1: PPR repeat
Probab=58.02 E-value=18 Score=22.40 Aligned_cols=25 Identities=16% Similarity=0.072 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVT 123 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~ 123 (385)
.+..+-+-|++.|+.++|.+.+.++
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 4667788899999999999999875
No 265
>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=57.93 E-value=51 Score=26.53 Aligned_cols=43 Identities=12% Similarity=0.008 Sum_probs=38.3
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 306 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 306 pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
-...++.+.||+.+|++...+-..|.+|...|-|...-|..++
T Consensus 39 ~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~ 81 (118)
T TIGR02337 39 EQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQ 81 (118)
T ss_pred HcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCC
Confidence 3567999999999999999999999999999999888877665
No 266
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=57.88 E-value=2e+02 Score=28.51 Aligned_cols=80 Identities=14% Similarity=-0.093 Sum_probs=44.4
Q ss_pred CCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCH
Q 016653 111 GDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNF 190 (385)
Q Consensus 111 Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~ 190 (385)
|+.+++++.+.+..+.-. +-.+..+..-++++..++|..+.+++.++-+.- ++...- ..-+..+-..|+-
T Consensus 308 ~~~~~al~~~e~~lk~~P---~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~---P~~~~~----~~La~~~~~~g~~ 377 (398)
T PRK10747 308 NNPEQLEKVLRQQIKQHG---DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR---PDAYDY----AWLADALDRLHKP 377 (398)
T ss_pred CChHHHHHHHHHHHhhCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CCHHHH----HHHHHHHHHcCCH
Confidence 777777777766654432 223455666677777777777777777665541 111110 1233334455555
Q ss_pred HHHHHHHHhc
Q 016653 191 KKAASLFLDS 200 (385)
Q Consensus 191 ~~Aa~~f~e~ 200 (385)
.+|..++-+.
T Consensus 378 ~~A~~~~~~~ 387 (398)
T PRK10747 378 EEAAAMRRDG 387 (398)
T ss_pred HHHHHHHHHH
Confidence 5555555443
No 267
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=57.51 E-value=31 Score=30.86 Aligned_cols=66 Identities=15% Similarity=0.139 Sum_probs=48.7
Q ss_pred HHHHHHHHHH-HHHhCC--HHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 97 REAHLAKSLF-YIQIGD--KEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 97 r~a~~~la~~-~~~~Gd--~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
...+..+|.. |+..|+ +.+|.+++.++...-.+ -.+..+.+--.....|+++.+.....++-....
T Consensus 107 ~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~---~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~ 175 (198)
T PRK10370 107 AELYAALATVLYYQAGQHMTPQTREMIDKALALDAN---EVTALMLLASDAFMQADYAQAIELWQKVLDLNS 175 (198)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 4567888885 577787 58999999888765432 234556666667788999999999998877654
No 268
>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=57.42 E-value=1.3e+02 Score=26.02 Aligned_cols=47 Identities=21% Similarity=0.217 Sum_probs=37.3
Q ss_pred cccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEE--ecCCCEEE
Q 016653 305 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI--DKVAGVLE 351 (385)
Q Consensus 305 ~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akI--D~~~giv~ 351 (385)
-.++.++-+.||+.+|++...+-+-|-.|-.+|=+.-+= |..+|...
T Consensus 24 ~~~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~ 72 (158)
T TIGR00373 24 GIKGEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYE 72 (158)
T ss_pred hccCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEE
Confidence 356789999999999999999999999999999884422 44445443
No 269
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=57.33 E-value=1.4e+02 Score=31.93 Aligned_cols=103 Identities=8% Similarity=0.083 Sum_probs=74.5
Q ss_pred HHHHHHHH---HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchhHHHhHH
Q 016653 63 QSVLDSMR---TKIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQKMDLVF 138 (385)
Q Consensus 63 ~~~~~~~~---~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~-~~~~~~~~~id~~l 138 (385)
++|...++ .+..++..--.+-++...-..---+....+-.+|++|...||++.|...+.+.. .-..+.++...+..
T Consensus 350 ~eW~kRV~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~ 429 (835)
T KOG2047|consen 350 EEWHKRVKLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWC 429 (835)
T ss_pred HHHHhhhhhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHH
Confidence 56765543 123444444444444433333333456778999999999999999999999876 33466677788888
Q ss_pred HHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 139 YTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 139 ~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
.+..+.+-..+++.+.+.+.+|...+.
T Consensus 430 ~waemElrh~~~~~Al~lm~~A~~vP~ 456 (835)
T KOG2047|consen 430 AWAEMELRHENFEAALKLMRRATHVPT 456 (835)
T ss_pred HHHHHHHhhhhHHHHHHHHHhhhcCCC
Confidence 999999999999999999998887653
No 270
>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=57.31 E-value=19 Score=26.19 Aligned_cols=32 Identities=19% Similarity=0.352 Sum_probs=26.4
Q ss_pred cccHHHHHHHhCCC-hHHHHHHHHHHHhCCccc
Q 016653 309 SVTIEAMAKAFGVT-VEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 309 ~I~l~~mA~~fg~s-~~~iE~~L~~lI~~g~l~ 340 (385)
.-++..||+.||++ +.-+...|..|...|-|.
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 35999999999995 999999999999988763
No 271
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=57.25 E-value=24 Score=30.58 Aligned_cols=49 Identities=10% Similarity=0.060 Sum_probs=41.5
Q ss_pred HHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc---eEEecC
Q 016653 298 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDKV 346 (385)
Q Consensus 298 ~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~---akID~~ 346 (385)
+.+...++-=.+++...+|+.+|+|+..+-+-+.+|..+|-|. |.+|..
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~p~ 68 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLNPH 68 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEECHH
Confidence 3355677778999999999999999999999999999999884 566743
No 272
>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=57.04 E-value=23 Score=21.95 Aligned_cols=30 Identities=23% Similarity=0.336 Sum_probs=23.7
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
++-..||+.+|++++-+-+.+.+|-.+|-|
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 456789999999999999999999887743
No 273
>PLN03077 Protein ECB2; Provisional
Probab=56.62 E-value=3.1e+02 Score=30.26 Aligned_cols=16 Identities=6% Similarity=0.069 Sum_probs=10.1
Q ss_pred hccHHHHHHHHHHhHH
Q 016653 261 DCQYKSFFSAFAGLTE 276 (385)
Q Consensus 261 ~~~y~~~~~~L~~~~~ 276 (385)
..++.+..+.....+.
T Consensus 704 ~g~~~~a~~vr~~M~~ 719 (857)
T PLN03077 704 AGKWDEVARVRKTMRE 719 (857)
T ss_pred CCChHHHHHHHHHHHH
Confidence 4577777666666644
No 274
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=56.37 E-value=40 Score=29.32 Aligned_cols=66 Identities=15% Similarity=0.159 Sum_probs=46.7
Q ss_pred chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 130 VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 130 ~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
++..+.-.+.++.+++..++...+...+.-.+-+ .|. ...+..+.|..++..|+|.+|...|-+..
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvL-----RP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l~ 71 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVL-----RPE-FPELDLFDGWLHIVRGDWDDALRLLRELE 71 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHh-----CCC-chHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence 4566777778888888888777776666655543 111 23456788888888999998888888764
No 275
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.24 E-value=1.1e+02 Score=31.47 Aligned_cols=122 Identities=12% Similarity=0.065 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-----CCChhh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE-----GGDWER 172 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~-----~~~~~~ 172 (385)
+.++-+|-+-...|-+++|...+......+.+.+-..-.-++..-+++-.++-+ .+.++-+.+.. .+....
T Consensus 368 ~ih~LlGlys~sv~~~enAe~hf~~a~k~t~~~dl~a~~nlnlAi~YL~~~~~e----d~y~~ld~i~p~nt~s~ssq~l 443 (629)
T KOG2300|consen 368 QIHMLLGLYSHSVNCYENAEFHFIEATKLTESIDLQAFCNLNLAISYLRIGDAE----DLYKALDLIGPLNTNSLSSQRL 443 (629)
T ss_pred HHHHHHhhHhhhcchHHHHHHHHHHHHHhhhHHHHHHHHHHhHHHHHHHhccHH----HHHHHHHhcCCCCCCcchHHHH
Confidence 335556666667777777777666555444222222222222222233333322 22222222211 112245
Q ss_pred hhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHH-HHHHHHHHHhh
Q 016653 173 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTF-IFYTVLTSIIS 226 (385)
Q Consensus 173 ~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~-~~Y~~l~al~s 226 (385)
++-+....|+..+.+++|.+|-....+++..-+ ......+ +-|++|.+.+.
T Consensus 444 ~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkman---aed~~rL~a~~LvLLs~v~ 495 (629)
T KOG2300|consen 444 EASILYVYGLFAFKQNDLNEAKRFLRETLKMAN---AEDLNRLTACSLVLLSHVF 495 (629)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcc---hhhHHHHHHHHHHHHHHHH
Confidence 788888999999999999999988888764321 1112222 35666666554
No 276
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=55.92 E-value=1.1e+02 Score=26.01 Aligned_cols=47 Identities=21% Similarity=0.276 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLG 144 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~ 144 (385)
..+.++||.-|++.|++..|...+.++.....+.. .++..+-..-++
T Consensus 47 ~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp-~vdYa~Y~~gL~ 93 (142)
T PF13512_consen 47 EQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP-NVDYAYYMRGLS 93 (142)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC-CccHHHHHHHHH
Confidence 57899999999999999999999999988775433 355555444433
No 277
>PF13730 HTH_36: Helix-turn-helix domain
Probab=55.73 E-value=20 Score=24.55 Aligned_cols=28 Identities=21% Similarity=0.362 Sum_probs=26.0
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHHhCCc
Q 016653 311 TIEAMAKAFGVTVEFIDVELSRFIAAGK 338 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~L~~lI~~g~ 338 (385)
+.+.||+.+|++...+.+.|.+|+..|-
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 7999999999999999999999998774
No 278
>PF13041 PPR_2: PPR repeat family
Probab=55.60 E-value=24 Score=23.56 Aligned_cols=33 Identities=18% Similarity=0.137 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG 131 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~ 131 (385)
.+..+-+.|.+.|++++|.+.|.++.+.-..++
T Consensus 5 ~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~ 37 (50)
T PF13041_consen 5 TYNTLISGYCKAGKFEEALKLFKEMKKRGIKPD 37 (50)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCC
Confidence 456677889999999999999999987654443
No 279
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=55.41 E-value=1.4e+02 Score=26.30 Aligned_cols=64 Identities=19% Similarity=0.072 Sum_probs=46.9
Q ss_pred hhchhHhHhHHHHH--HHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEE
Q 016653 279 KLDRYLYPHFRYYM--REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI 343 (385)
Q Consensus 279 ~~D~~l~~h~~~l~--~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akI 343 (385)
..|+.+...+..++ ..-..+++ ..+..+..++-+.||..+|++...+-+-|..|-.+|-+..+-
T Consensus 5 ~~~~~v~~~l~~~~~~~~~~~~Vl-~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r 70 (178)
T PRK06266 5 LNNPLVQKVLFEIMEGDEEGFEVL-KALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKR 70 (178)
T ss_pred hcCHHHHHHHHHHhcCCccHhHHH-HHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEee
Confidence 35566655555555 32233333 345567889999999999999999999999999999887544
No 280
>PHA02943 hypothetical protein; Provisional
Probab=55.34 E-value=1.4e+02 Score=25.81 Aligned_cols=66 Identities=12% Similarity=0.066 Sum_probs=48.8
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCC
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPD 356 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d 356 (385)
+.+.+.+.+.. +..|+ -.-+-+.+.+|+++|+|..+++--|--|=.+|.+.- +-...-.+-.-.+|
T Consensus 5 ~sd~v~~R~~e--ILE~L-k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~d 70 (165)
T PHA02943 5 MSDTVHTRMIK--TLRLL-ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDED 70 (165)
T ss_pred hhHHHHHHHHH--HHHHH-hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEEChH
Confidence 44555555554 77787 778899999999999999999999999999998854 33344444444443
No 281
>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=55.07 E-value=1.3e+02 Score=27.24 Aligned_cols=61 Identities=15% Similarity=0.119 Sum_probs=44.5
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc-hhHHHhHHHHHHHHHHhcCHHHH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV-GQKMDLVFYTLQLGFFYMDFDLI 153 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~-~~~id~~l~~i~~~i~~~~~~~~ 153 (385)
...+.....+.||.||.+ .|-++|...|.++.+..... .--.++..+++-+..-.++++.+
T Consensus 136 ~~l~t~elq~aLAtyY~k-rD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A 197 (203)
T PF11207_consen 136 PELETAELQYALATYYTK-RDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA 197 (203)
T ss_pred CCCCCHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence 333445668899999885 49999999999998877544 33456777777777777776654
No 282
>PF04010 DUF357: Protein of unknown function (DUF357); InterPro: IPR023140 This domain is found in a family of proteins, which have no known function.; PDB: 2OO2_A 2PMR_A.
Probab=55.07 E-value=27 Score=26.26 Aligned_cols=29 Identities=24% Similarity=0.417 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVT 123 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~ 123 (385)
++..+++.=|++|++.||+.+|+.++.-.
T Consensus 33 ~mA~~Y~~D~~~fl~~gD~v~Ala~~sYa 61 (75)
T PF04010_consen 33 EMAESYLEDGKYFLEKGDYVNALACFSYA 61 (75)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 34566888999999999999999988643
No 283
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=54.93 E-value=1.1e+02 Score=29.96 Aligned_cols=98 Identities=14% Similarity=0.026 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc--chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVA--VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKN 174 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~--~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~ 174 (385)
+.|+..|..+|-...++.+|.+.-.++...... .-.....+-++.......+|.+.+...+.||-+.--+. .
T Consensus 141 ~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~c------v 214 (389)
T COG2956 141 EGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKC------V 214 (389)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccc------e
Confidence 456778888888888888888877665433211 11223445555555666677777777777665532111 2
Q ss_pred hhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 175 RLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 175 ~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
|-.+..|-..+..|+|..|.+.+-.+
T Consensus 215 RAsi~lG~v~~~~g~y~~AV~~~e~v 240 (389)
T COG2956 215 RASIILGRVELAKGDYQKAVEALERV 240 (389)
T ss_pred ehhhhhhHHHHhccchHHHHHHHHHH
Confidence 22356788889999998887765443
No 284
>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=54.74 E-value=25 Score=20.62 Aligned_cols=28 Identities=21% Similarity=0.019 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
+..+-.-|.+.|++++|.+.|.++....
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g 30 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLERG 30 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence 3455677899999999999999987643
No 285
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=54.48 E-value=35 Score=31.58 Aligned_cols=64 Identities=16% Similarity=0.199 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.+|..++..-+.|=..+ +-..||+.||||..-+-+-|..|-..|-|.-+ +..|+....
T Consensus 12 ~~~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~lgVSRtpVREAL~~L~~eGlv~~~--~~~G~~V~~ 76 (254)
T PRK09464 12 SDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRR--QGGGTFVQS 76 (254)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--cCceeEEec
Confidence 35788999999999999999999 89999999999999999999999999988754 456766554
No 286
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=54.28 E-value=32 Score=31.07 Aligned_cols=62 Identities=10% Similarity=0.135 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEE
Q 016653 288 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 351 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~ 351 (385)
.+.+++.||.+++..-+.|=..++-..||+.||||..-+-+-|..|...|-+.-+ +..|+..
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 4678999999999999999999999999999999999999999999999988643 3345443
No 287
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=54.03 E-value=32 Score=20.31 Aligned_cols=27 Identities=19% Similarity=0.129 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESK 126 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~ 126 (385)
+..+.+-+.+.|+.+.|.+++..+.+.
T Consensus 4 y~~ll~a~~~~g~~~~a~~~~~~M~~~ 30 (34)
T PF13812_consen 4 YNALLRACAKAGDPDAALQLFDEMKEQ 30 (34)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 456677889999999999999988764
No 288
>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=53.87 E-value=43 Score=27.56 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=35.2
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
=..++...||+.+|+|...+.+-+..|...|-+...-....|
T Consensus 23 ~~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~gg 64 (130)
T TIGR02944 23 SQPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGG 64 (130)
T ss_pred CCCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCC
Confidence 357999999999999999999999999999988764333334
No 289
>PF12487 DUF3703: Protein of unknown function (DUF3703) ; InterPro: IPR022172 This family of proteins is found in bacteria. Proteins in this family are typically between 113 and 135 amino acids in length.
Probab=53.80 E-value=1.2e+02 Score=24.70 Aligned_cols=63 Identities=11% Similarity=0.002 Sum_probs=48.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhh-ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKT-VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~-~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
+..|+..++.||++.|...+++.+... ..+..-.-.-|..++.++-.+|+.++.--+-++-..
T Consensus 13 l~~a~~a~~~~~~~~aw~hLErAHIlgQ~~~~~H~~~H~~ML~~a~r~rd~rEv~GQ~~Rl~~a 76 (112)
T PF12487_consen 13 LEAAREALAAGDLQQAWRHLERAHILGQPYPWLHTRVHWAMLRFALRQRDRREVLGQLLRLIVA 76 (112)
T ss_pred HHHHHHHHHcCCHHHHHHHHHhhHHhcCCchhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 344566678899999999999988665 334445667888999999999999998766665443
No 290
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481
Probab=53.59 E-value=20 Score=27.65 Aligned_cols=38 Identities=24% Similarity=0.265 Sum_probs=31.0
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 347 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~ 347 (385)
..++...|+.||||..-+-+|+.++-.+|. .|-.|.-+
T Consensus 25 g~~~a~aA~~~gVS~~Ta~kW~~Ryra~G~-~GL~DRSS 62 (85)
T PF13011_consen 25 GWPVAHAAAEFGVSRRTAYKWLARYRAEGE-AGLQDRSS 62 (85)
T ss_pred CCcHHHHHHHhCCCHHHHHHHHHHHHHcCc-ccccccCC
Confidence 467899999999999999999999999874 44555443
No 291
>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=53.35 E-value=21 Score=20.58 Aligned_cols=26 Identities=23% Similarity=0.175 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
+..+-+.|.+.|++++|.+.+.++.+
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhH
Confidence 34566789999999999999998865
No 292
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=53.04 E-value=2.5e+02 Score=28.08 Aligned_cols=126 Identities=10% Similarity=-0.065 Sum_probs=75.8
Q ss_pred CCcchhHhHHhHhhcCCCCccchHHhHHHHHHHHHHhCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 016653 7 QQAHLVLAHKRFLLTHPDVQDIEKVGLKGEVFSMVKAHDMASFYETLVAESVLEMDQSVLDSMRTKIEDELKKLDDRIAD 86 (385)
Q Consensus 7 ~~p~l~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~~D~~~~~~~~~~~~~~l~~Le~~l~~ 86 (385)
..|.+.+.-..++..... .+++.+-+.+.+|+..+..++.. ...+. |.|++ ..++.+|.-++.
T Consensus 261 ~~p~l~~~~a~~li~l~~-----~~~A~~~i~~~Lk~~~D~~L~~~-~~~l~-~~d~~----------~l~k~~e~~l~~ 323 (400)
T COG3071 261 NDPELVVAYAERLIRLGD-----HDEAQEIIEDALKRQWDPRLCRL-IPRLR-PGDPE----------PLIKAAEKWLKQ 323 (400)
T ss_pred cChhHHHHHHHHHHHcCC-----hHHHHHHHHHHHHhccChhHHHH-HhhcC-CCCch----------HHHHHHHHHHHh
Confidence 357888888888777532 24455558889999888875443 23333 33432 222333444443
Q ss_pred HHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 016653 87 AEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 159 (385)
Q Consensus 87 ~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~k 159 (385)
+.++ ...++.||.++++.+.+.+|.+++.....+-++.. .+...-.+.-..|+..++...-+.
T Consensus 324 h~~~------p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~----~~~~la~~~~~~g~~~~A~~~r~e 386 (400)
T COG3071 324 HPED------PLLLSTLGRLALKNKLWGKASEALEAALKLRPSAS----DYAELADALDQLGEPEEAEQVRRE 386 (400)
T ss_pred CCCC------hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChh----hHHHHHHHHHHcCChHHHHHHHHH
Confidence 3333 26789999999999999999999997766544322 223333333344555555444333
No 293
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=52.89 E-value=1.6e+02 Score=33.07 Aligned_cols=129 Identities=17% Similarity=0.089 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHh
Q 016653 76 ELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISK 155 (385)
Q Consensus 76 ~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~ 155 (385)
...-|+.++..-+.|. +--++|++++..|++++|-......-. ...+...+.--..++.+++....+
T Consensus 993 liglLe~k~d~sqynv-------ak~~~gRL~lslgefe~A~~a~~~~~~------evdEdi~gt~l~lFfkndf~~sl~ 1059 (1238)
T KOG1127|consen 993 LIGLLELKLDESQYNV-------AKPDAGRLELSLGEFESAKKASWKEWM------EVDEDIRGTDLTLFFKNDFFSSLE 1059 (1238)
T ss_pred HHHHHHHHHhhhhhhh-------hhhhhhhhhhhhcchhhHhhhhcccch------hHHHHHhhhhHHHHHHhHHHHHHH
Confidence 3444555544444442 556789999999999998877654321 122222222222277899999999
Q ss_pred HHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHH-HHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCC
Q 016653 156 SIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKK-AASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLD 228 (385)
Q Consensus 156 ~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~-Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~ 228 (385)
...+|-++.++..|- -+-++.+++.+..-+-+. |...++++. ..++.+...-+.||++...+
T Consensus 1060 ~fe~aLsis~se~d~----vvLl~kva~~~g~~~~k~~A~~lLfe~~-------~ls~~~~~sll~L~A~~ild 1122 (1238)
T KOG1127|consen 1060 FFEQALSISNSESDK----VVLLCKVAVCMGLARQKNDAQFLLFEVK-------SLSKVQASSLLPLPAVYILD 1122 (1238)
T ss_pred HHHHHhhhcccccch----hhhhHHHHHHHhhcccchHHHHHHHHHH-------HhCccchhhHHHHHHHHHHh
Confidence 999998887654331 122445555565444444 445666653 23555666667788877654
No 294
>PRK15481 transcriptional regulatory protein PtsJ; Provisional
Probab=52.87 E-value=32 Score=34.53 Aligned_cols=55 Identities=16% Similarity=0.300 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
...+++.|+..+....+.|=..+ +...||+.||+|..-+.+-+..|..+|-|.++
T Consensus 7 ~~~~~~~i~~~i~~g~l~~g~~lps~r~la~~~~vsr~tv~~a~~~L~~~g~i~~~ 62 (431)
T PRK15481 7 ANEIFDSIRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQ 62 (431)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 45778889999999999999998 89999999999999999999999999988653
No 295
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.85 E-value=1.4e+02 Score=28.12 Aligned_cols=68 Identities=10% Similarity=-0.146 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
+-+|++=||+.+|..|||+.|...|..+.........-=|+.|-+-.+....|+.+.+...+..+-..
T Consensus 177 ~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~ 244 (262)
T COG1729 177 TPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR 244 (262)
T ss_pred cchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 45789999999999999999999999987655554555588888888888889999888777765443
No 296
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=52.75 E-value=1e+02 Score=28.16 Aligned_cols=54 Identities=9% Similarity=0.077 Sum_probs=45.6
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
.-.+.-...++.+.||+.+|+|...+-+.|.+|-..|-+.-++|.....|..+.
T Consensus 13 lg~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTe 66 (217)
T PRK14165 13 LGAVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITE 66 (217)
T ss_pred HhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECH
Confidence 344555668999999999999999999999999999999988888666666663
No 297
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=52.64 E-value=2.4e+02 Score=27.71 Aligned_cols=63 Identities=14% Similarity=0.005 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHH-HHHHHHhcCHHHHHhHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYT-LQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~-i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
.+|..-+|+++...|+|+.|.+.+..+.+... ..+..++.. ..++-..|+.......+.++-+
T Consensus 214 vRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~---~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~ 277 (389)
T COG2956 214 VRASIILGRVELAKGDYQKAVEALERVLEQNP---EYLSEVLEMLYECYAQLGKPAEGLNFLRRAME 277 (389)
T ss_pred eehhhhhhHHHHhccchHHHHHHHHHHHHhCh---HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 56777899999999999999999988765321 222223332 2333344666655555555444
No 298
>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.61 E-value=1.7e+02 Score=26.10 Aligned_cols=99 Identities=19% Similarity=0.248 Sum_probs=65.9
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHh---cCHHHHHhHHHHHHHHHhcCCChhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFY---MDFDLISKSIDKAKSLFEEGGDWERK 173 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~---~~~~~~~~~i~ka~~~~~~~~~~~~~ 173 (385)
.-+.++-|.+..+-||-..|...|.++-.-...+.---| +.-+|.++.. |.|+.|.+ +++.+- ..++|. +
T Consensus 94 vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd--~ARlraa~lLvD~gsy~dV~s---rvepLa-~d~n~m-R 166 (221)
T COG4649 94 VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRD--LARLRAAYLLVDNGSYDDVSS---RVEPLA-GDGNPM-R 166 (221)
T ss_pred HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhH--HHHHHHHHHHhccccHHHHHH---Hhhhcc-CCCChh-H
Confidence 467888899999999999999999998755543332212 2334544444 55555543 333332 223443 3
Q ss_pred hhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 174 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
.--+..-|+.....|+|..|.+.|.....
T Consensus 167 ~sArEALglAa~kagd~a~A~~~F~qia~ 195 (221)
T COG4649 167 HSAREALGLAAYKAGDFAKAKSWFVQIAN 195 (221)
T ss_pred HHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence 34456789999999999999999988754
No 299
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=52.44 E-value=47 Score=24.96 Aligned_cols=26 Identities=15% Similarity=0.123 Sum_probs=20.8
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhcc
Q 016653 104 SLFYIQIGDKEKALEQLKVTESKTVA 129 (385)
Q Consensus 104 a~~~~~~Gd~~~A~~~~~~~~~~~~~ 129 (385)
|---=..|+|++|+++|....++|..
T Consensus 13 A~~eD~~gny~eA~~lY~~ale~~~~ 38 (75)
T cd02680 13 AFDEDEKGNAEEAIELYTEAVELCIN 38 (75)
T ss_pred HHHhhHhhhHHHHHHHHHHHHHHHHH
Confidence 33344689999999999999999854
No 300
>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=52.01 E-value=52 Score=23.14 Aligned_cols=29 Identities=31% Similarity=0.468 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhC-CHHHHHHHHHHHHh
Q 016653 97 REAHLAKSLFYIQIG-DKEKALEQLKVTES 125 (385)
Q Consensus 97 r~a~~~la~~~~~~G-d~~~A~~~~~~~~~ 125 (385)
..+++.+|..|...| ++.+|.+.+.++.+
T Consensus 37 ~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 37 AEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 458999999999999 79999999988764
No 301
>COG2378 Predicted transcriptional regulator [Transcription]
Probab=51.64 E-value=26 Score=33.84 Aligned_cols=54 Identities=28% Similarity=0.346 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
....|...+.+++..+.+++...||+.||+|...+.+.+..|=..|-= |+...|
T Consensus 5 ~ka~RL~~ii~~L~~~~~vta~~lA~~~~VS~RTi~RDi~~L~~~gvP---I~~e~G 58 (311)
T COG2378 5 RKAERLLQIIQILRAKETVTAAELADEFEVSVRTIYRDIATLRAAGVP---IEGERG 58 (311)
T ss_pred hHHHHHHHHHHHHHhCccchHHHHHHhcCCCHHHHHHHHHHHHHCCCC---eEeecC
Confidence 345678889999999999999999999999999999999988776632 555555
No 302
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=51.31 E-value=1.9e+02 Score=26.12 Aligned_cols=76 Identities=9% Similarity=-0.002 Sum_probs=58.7
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHH
Q 016653 252 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 252 ~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
+.+++++|.+.++..+.....++.. +-+..+.+.++++......++-|+.+=+|-.+++.++-=.+.++.-..
T Consensus 30 L~~~~~~~~~~~~~~~~~~~~~I~~-------lE~eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD~I~D~i~~~a~ 102 (216)
T TIGR00153 30 LIKSFELLKSGNNEKDEELRKEIIE-------IEHEADEIKREIRLNLEKGAFLPNDRRDLLELAELLDEILDSLEHAAM 102 (216)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888888888776555555433 245678999999999999999999999999999998766666666665
Q ss_pred HHH
Q 016653 332 RFI 334 (385)
Q Consensus 332 ~lI 334 (385)
.+.
T Consensus 103 ~l~ 105 (216)
T TIGR00153 103 LYE 105 (216)
T ss_pred HHh
Confidence 554
No 303
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=50.93 E-value=38 Score=30.96 Aligned_cols=44 Identities=16% Similarity=0.281 Sum_probs=39.8
Q ss_pred HHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 299 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 299 ~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
.|.-+|.-...++...||+.+|+|+..+-+.|-.|..+|-+...
T Consensus 15 ~il~lL~~~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~ 58 (218)
T COG2345 15 RILELLKKSGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVE 58 (218)
T ss_pred HHHHHHhccCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee
Confidence 35566777899999999999999999999999999999988887
No 304
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=50.56 E-value=99 Score=29.68 Aligned_cols=94 Identities=10% Similarity=0.038 Sum_probs=62.0
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 179 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~ 179 (385)
+-.-|+=+.+.|+|++|+..|.+..++..+.- + ++-+...+..-.|.++.+-+...+|-.+ ||. -.|.-.-
T Consensus 84 LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nA--V-yycNRAAAy~~Lg~~~~AVkDce~Al~i-----Dp~-yskay~R 154 (304)
T KOG0553|consen 84 LKNEGNKLMKNKDYQEAVDKYTEAIELDPTNA--V-YYCNRAAAYSKLGEYEDAVKDCESALSI-----DPH-YSKAYGR 154 (304)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcc--h-HHHHHHHHHHHhcchHHHHHHHHHHHhc-----ChH-HHHHHHH
Confidence 44457778899999999999999988764321 1 2223444555667777776555544443 221 1222233
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 016653 180 EGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 180 ~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
-|+.++..|+|.+|.+.|-.++.
T Consensus 155 LG~A~~~~gk~~~A~~aykKaLe 177 (304)
T KOG0553|consen 155 LGLAYLALGKYEEAIEAYKKALE 177 (304)
T ss_pred HHHHHHccCcHHHHHHHHHhhhc
Confidence 78999999999999999876654
No 305
>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=50.42 E-value=48 Score=31.42 Aligned_cols=57 Identities=14% Similarity=0.281 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 289 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
..|+...+.++-.-+...=+-+.++.+.+.+|++...+-.-+.+||.+|++.|+|-.
T Consensus 172 ~ayv~r~ka~iRG~l~a~T~Pt~l~~l~~~~~~~~~l~~~il~~Li~~~~l~G~i~G 228 (272)
T PF09743_consen 172 EAYVARQKARIRGALSAITRPTPLSSLLKRYGFEEKLFQSILEELIKSGELPGSIVG 228 (272)
T ss_pred HHHHHHHHHHHHHHHhcCccceEHHHHHHHhCCcHHHHHHHHHHHHhcCcceEEEEC
Confidence 344444444433334444566999999999999999999999999999999999877
No 306
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=50.21 E-value=57 Score=28.07 Aligned_cols=67 Identities=15% Similarity=0.182 Sum_probs=46.0
Q ss_pred chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccc
Q 016653 130 VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 130 ~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
++..+.-....+.+++...+.+.+...+...+-+- |. ...+..+.|..++..|+|.+|.+.|-+...
T Consensus 6 s~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLr-----P~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~ 72 (153)
T TIGR02561 6 SNRLLGGLIEVLMYALRSADPYDAQAMLDALRVLR-----PN-LKELDMFDGWLLIARGNYDEAARILRELLS 72 (153)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-----CC-ccccchhHHHHHHHcCCHHHHHHHHHhhhc
Confidence 34556666777777887777777766666555541 11 234557888888999999999988887643
No 307
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=50.03 E-value=1.5e+02 Score=26.03 Aligned_cols=42 Identities=12% Similarity=0.196 Sum_probs=33.8
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
.++-..||+.+|++.+.+-+.+.+|-.+|-|. ...+.|...+
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 68889999999999999999999999988663 3345555553
No 308
>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=49.99 E-value=17 Score=23.54 Aligned_cols=19 Identities=26% Similarity=0.408 Sum_probs=14.9
Q ss_pred cHHHHHHHhCCChHHHHHH
Q 016653 311 TIEAMAKAFGVTVEFIDVE 329 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~ 329 (385)
++..+|++||++.+++.++
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 5789999999999988764
No 309
>PLN03218 maturation of RBCL 1; Provisional
Probab=49.65 E-value=4.5e+02 Score=30.11 Aligned_cols=62 Identities=15% Similarity=-0.060 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
..+..+...|.+.|++++|.+.|.++......++ ...+-.+|..+...|+++.+...+....
T Consensus 508 vTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD--~vTYnsLI~a~~k~G~~deA~~lf~eM~ 569 (1060)
T PLN03218 508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD--RVVFNALISACGQSGAVDRAFDVLAEMK 569 (1060)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4577778888888888888888888776544443 2344555666666677777776666554
No 310
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=49.63 E-value=94 Score=34.00 Aligned_cols=61 Identities=15% Similarity=0.223 Sum_probs=46.9
Q ss_pred hHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 285 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 285 ~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
..+++.+.++|..+ .| --..|+++.+|+.|+++.+++-+.|..- ..+.|+|+++ .|++++.
T Consensus 115 ~~Yld~iaeEIne~--Lq---E~G~isI~eLa~~~~Lpsefl~~~l~~r-lG~iI~g~~~--g~~lyT~ 175 (803)
T PLN03083 115 QSYWDSIAEEINER--LQ---ECSQIALAELARQLQVGSELVTSMLEPR-LGTIVKARLE--GGQLYTP 175 (803)
T ss_pred hHHHHHHHHHHHHH--HH---HcCcChHHHHHHhcCChHHHHHHHHHHH-hccceEEEec--CCEEecH
Confidence 45566777777552 22 2589999999999999999999999877 5578899993 5777664
No 311
>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=49.56 E-value=24 Score=24.29 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=19.8
Q ss_pred cccccHHHHHHHhCCChHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
...|+-..||+.+|+++..+-+.++
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 4689999999999999999988874
No 312
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=49.24 E-value=49 Score=30.20 Aligned_cols=63 Identities=13% Similarity=0.120 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 289 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
+..++.|+.++...-+.|=..+ +-..||+.||||-.-+-+-|..|..+|-|.. -+..|+++..
T Consensus 10 ~~~~~~l~~~I~~g~l~pG~~LPsE~eLae~~gVSRt~VReAL~~L~~eGlv~~--~~g~G~~V~~ 73 (239)
T PRK04984 10 GFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTI--QHGKPTKVNN 73 (239)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--eCCCeeEeCC
Confidence 5678899999999999999999 7999999999999999999999999998864 3455766643
No 313
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=49.12 E-value=88 Score=24.16 Aligned_cols=46 Identities=26% Similarity=0.331 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 76 ELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 76 ~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
.++.|+..+. .|-.+ ..+.+.+|..+...|++++|++.+-.+...-
T Consensus 7 ~~~al~~~~a---~~P~D---~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~d 52 (90)
T PF14561_consen 7 DIAALEAALA---ANPDD---LDARYALADALLAAGDYEEALDQLLELVRRD 52 (90)
T ss_dssp HHHHHHHHHH---HSTT----HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred cHHHHHHHHH---cCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 4555666655 33333 3789999999999999999999998876443
No 314
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=48.88 E-value=1.1e+02 Score=23.15 Aligned_cols=49 Identities=14% Similarity=0.194 Sum_probs=40.0
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
+..++..-..++++.+.+.+|+|...+-+.|..|..+|=+..+-....+
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 4556666789999999999999999999999999999999887776655
No 315
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=48.85 E-value=56 Score=24.35 Aligned_cols=59 Identities=12% Similarity=0.177 Sum_probs=42.2
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhhhh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRV 382 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~~~ 382 (385)
....+...++..-|+|...+.+.|..|+..|=+ ....+....+ ++|..+++.++++.+.
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI----~~~~~~Y~lT-------------ekG~~~l~~l~~~~~~ 75 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLI----KKKDGKYRLT-------------EKGKEFLEELEELIEL 75 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSE----EEETTEEEE--------------HHHHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCe----eCCCCEEEEC-------------ccHHHHHHHHHHHHHH
Confidence 578889999999999999999999999999988 3355555554 2377777777776554
No 316
>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=48.55 E-value=42 Score=23.66 Aligned_cols=39 Identities=18% Similarity=0.304 Sum_probs=29.1
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
|..-+..++---..++++.+|+.+|+|.-.+-..|..+=
T Consensus 6 rq~~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLKNKWITLKELAKKLNISERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333344444447899999999999999999999888764
No 317
>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=48.54 E-value=3.3e+02 Score=28.23 Aligned_cols=62 Identities=6% Similarity=0.017 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
+..+||....+.|...+|.+.+.++..... ......+.-+++...++.+.+..++..+.|=.
T Consensus 261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p-~~~~l~IrenLie~LLelq~Yad~q~lL~kYd 322 (539)
T PF04184_consen 261 AKRRLAMCARKLGRLREAIKMFRDLLKEFP-NLDNLNIRENLIEALLELQAYADVQALLAKYD 322 (539)
T ss_pred hHHHHHHHHHHhCChHHHHHHHHHHHhhCC-ccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence 367799999999999999999999875543 33456677888889999999999988887754
No 318
>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=48.45 E-value=1.7e+02 Score=29.55 Aligned_cols=97 Identities=8% Similarity=-0.008 Sum_probs=64.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhcc-chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKTVA-VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~-~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
+..-|+-.++.|.|..|.++|.+....-.+ .+...-.+++...+.+-.|....+...-+.|-.+ |+.- .+--.
T Consensus 252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i-----D~sy-ikall 325 (486)
T KOG0550|consen 252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI-----DSSY-IKALL 325 (486)
T ss_pred HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc-----CHHH-HHHHH
Confidence 444577789999999999999998765433 2233456677777777777776666555554443 1110 11112
Q ss_pred HHHHhccccCCHHHHHHHHHhccc
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
..|..++.-++|..|.+.|-.+..
T Consensus 326 ~ra~c~l~le~~e~AV~d~~~a~q 349 (486)
T KOG0550|consen 326 RRANCHLALEKWEEAVEDYEKAMQ 349 (486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 266778888999999999987764
No 319
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=48.18 E-value=51 Score=30.37 Aligned_cols=64 Identities=8% Similarity=0.154 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.|+..++..-+.|=..+ +-..||+.||||-.-+-+-|..|-..|-+..+ +..|+.+..
T Consensus 9 ~~~v~~~i~~~I~~g~l~pG~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~--~~~G~~V~~ 73 (251)
T PRK09990 9 ADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETA--QGRGSFVAR 73 (251)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--CCCeeEEec
Confidence 46788999999999999999999 89999999999999999999999999988643 345665543
No 320
>PF12739 TRAPPC-Trs85: ER-Golgi trafficking TRAPP I complex 85 kDa subunit; InterPro: IPR024420 This entry represents Trs85, a subunit of the TRAPP III complex []. Trs85 is a multimeric guanine nucleotide-exchange factor for Ypt1, required for membrane expansion during autophagy and the CVT pathway. It directs Ypt1 to the phagophore assembly site [, , , ].
Probab=47.84 E-value=1.5e+02 Score=29.72 Aligned_cols=110 Identities=9% Similarity=-0.049 Sum_probs=67.3
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc--hhHHHhHHHHHHHHHHhcCHH--------HHHhHHHHHH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV--GQKMDLVFYTLQLGFFYMDFD--------LISKSIDKAK 161 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~--~~~id~~l~~i~~~i~~~~~~--------~~~~~i~ka~ 161 (385)
..+++...+.+||++.+=.|||+-|...|.-++...... -..+.-+.+++.++++.+... .+..++..|-
T Consensus 203 ~~~S~E~q~R~LAD~aFml~Dy~~A~s~Y~~~k~Df~~Dkaw~~~A~~~Em~alsl~~~~~~~~~k~~~~~~~~~le~A~ 282 (414)
T PF12739_consen 203 SADSPEAQMRRLADLAFMLRDYELAYSTYRLLKKDFKNDKAWKYLAGAQEMAALSLLMQGQSISAKIRKDEIEPYLENAY 282 (414)
T ss_pred CCCChHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHhhchhHHHHHhHHHHHHHHHHhcCCCCccccccccHHHHHHHHH
Confidence 345777789999999999999999999999888554322 123356677777888876543 4455666655
Q ss_pred HHHhcCCC-----hhhhhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 162 SLFEEGGD-----WERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 162 ~~~~~~~~-----~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
......+. +.-..|.-+..+-.....+.|.+|+..++...
T Consensus 283 ~~Y~~~~~~~~~~~~~a~R~~ll~~ell~~~~~~~~a~~~~~~~~ 327 (414)
T PF12739_consen 283 YTYLKSALPRCSLPYYALRCALLLAELLKSRGGYWEAADQLIRWT 327 (414)
T ss_pred HHHHhhhccccccccchHHHHHHHHHHHHhcCccHHHHHHHHHHH
Confidence 55443111 11111222223334455666667666665543
No 321
>PRK06771 hypothetical protein; Provisional
Probab=47.72 E-value=14 Score=28.92 Aligned_cols=30 Identities=17% Similarity=0.410 Sum_probs=26.1
Q ss_pred cccHHHHHHHhCCChH--HHHHHHHHHHhCCc
Q 016653 309 SVTIEAMAKAFGVTVE--FIDVELSRFIAAGK 338 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~--~iE~~L~~lI~~g~ 338 (385)
...++.+++.+|++.. .+.+++.+|+.+|+
T Consensus 36 e~~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gk 67 (93)
T PRK06771 36 EDRLQLITKEMGIVDREPPVNKELRQLMEEGQ 67 (93)
T ss_pred HHHHHHHHHHcCCCCCcccccHHHHHHHHcCC
Confidence 4578999999999877 68899999999986
No 322
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=47.35 E-value=1.9e+02 Score=29.39 Aligned_cols=77 Identities=18% Similarity=0.126 Sum_probs=52.2
Q ss_pred HHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhH---HHhHHHHHHHHHHhcCHHHHHhHHH
Q 016653 82 DRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQK---MDLVFYTLQLGFFYMDFDLISKSID 158 (385)
Q Consensus 82 ~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~---id~~l~~i~~~i~~~~~~~~~~~i~ 158 (385)
..|.-+++-.-+-+.|+|+-.+|+-|.=.|+++.|.+.|....-.....+.+ ..+|..+--...+..++..+..|-.
T Consensus 220 ~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~ 299 (639)
T KOG1130|consen 220 LRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQ 299 (639)
T ss_pred HHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 3344445666677889999999999999999999999999876555433332 3455555555555555555544443
No 323
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=47.31 E-value=3.9e+02 Score=28.66 Aligned_cols=58 Identities=12% Similarity=-0.130 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 161 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~ 161 (385)
..+..|.+.|.++|++++|.+.|.++.+.. +..+-.+|......|+++.|.+...+..
T Consensus 361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d------~~t~n~lI~~y~~~G~~~~A~~lf~~M~ 418 (697)
T PLN03081 361 VANTALVDLYSKWGRMEDARNVFDRMPRKN------LISWNALIAGYGNHGRGTKAVEMFERMI 418 (697)
T ss_pred eehHHHHHHHHHCCCHHHHHHHHHhCCCCC------eeeHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 346788888999999999999888775421 1233344555556677777777776644
No 324
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=47.27 E-value=4.5e+02 Score=29.33 Aligned_cols=106 Identities=16% Similarity=0.126 Sum_probs=61.1
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-----------hhhccchhHH-----HhHHHHHHHHHHh-cCHHHHHhHH
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTE-----------SKTVAVGQKM-----DLVFYTLQLGFFY-MDFDLISKSI 157 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~-----------~~~~~~~~~i-----d~~l~~i~~~i~~-~~~~~~~~~i 157 (385)
-.|..++.+|.++...||.+.|+++|.+.. ++..+..+.+ ..+|.|---+++. |+.+.+..+.
T Consensus 856 HLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y 935 (1416)
T KOG3617|consen 856 HLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFY 935 (1416)
T ss_pred ehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHH
Confidence 357779999999999999999999998652 1111111111 1334444444544 6777777787
Q ss_pred HHHHHHHhc------CCC--------hhhhhhhhHH-HHHhccccCCHHHHHHHHHhc
Q 016653 158 DKAKSLFEE------GGD--------WERKNRLKVY-EGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 158 ~ka~~~~~~------~~~--------~~~~~~l~~~-~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
.+|+.-... .|. .+..++-.|| -|.++=..|++-+|..-|.-+
T Consensus 936 ~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrA 993 (1416)
T KOG3617|consen 936 SSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRA 993 (1416)
T ss_pred HHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence 777765431 011 0112233333 344555566666666655543
No 325
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=47.10 E-value=2.3e+02 Score=30.55 Aligned_cols=86 Identities=17% Similarity=0.125 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHH
Q 016653 72 KIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFD 151 (385)
Q Consensus 72 ~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~ 151 (385)
++--.+++|+.=|+.+-..--+.++.- +-.|+-+...||...|...+..+.++.. +..++.|..+++.+....++
T Consensus 561 k~hgt~Esl~Allqkav~~~pkae~lw--lM~ake~w~agdv~~ar~il~~af~~~p---nseeiwlaavKle~en~e~e 635 (913)
T KOG0495|consen 561 KSHGTRESLEALLQKAVEQCPKAEILW--LMYAKEKWKAGDVPAARVILDQAFEANP---NSEEIWLAAVKLEFENDELE 635 (913)
T ss_pred HhcCcHHHHHHHHHHHHHhCCcchhHH--HHHHHHHHhcCCcHHHHHHHHHHHHhCC---CcHHHHHHHHHHhhccccHH
Confidence 444557777877777777766666544 4456677777999999999999988754 46788999999999999999
Q ss_pred HHHhHHHHHHH
Q 016653 152 LISKSIDKAKS 162 (385)
Q Consensus 152 ~~~~~i~ka~~ 162 (385)
.+...+.||++
T Consensus 636 raR~llakar~ 646 (913)
T KOG0495|consen 636 RARDLLAKARS 646 (913)
T ss_pred HHHHHHHHHhc
Confidence 99999999988
No 326
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=46.99 E-value=86 Score=23.65 Aligned_cols=46 Identities=17% Similarity=0.221 Sum_probs=37.4
Q ss_pred HhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC
Q 016653 302 QFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 347 (385)
Q Consensus 302 qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~ 347 (385)
..+.....++.+.+|+.++++...+-+.|.+|...|-+...-|..+
T Consensus 17 ~~l~~~~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~ 62 (101)
T smart00347 17 RILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPED 62 (101)
T ss_pred HHHHHcCCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCC
Confidence 3333345699999999999999999999999999999987666443
No 327
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=46.88 E-value=2.9e+02 Score=27.14 Aligned_cols=81 Identities=15% Similarity=0.147 Sum_probs=53.6
Q ss_pred CCCHHHHHHHHHhcCCCCCHHH--------HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHH
Q 016653 44 HDMASFYETLVAESVLEMDQSV--------LDSMRTKIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEK 115 (385)
Q Consensus 44 ~~m~~~y~~~~~~~~~~~D~~~--------~~~~~~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~ 115 (385)
+-+.++|..++.++....+|=- .+++. +.++-++-|+.-.+.......++.|.......|+++..+||+.+
T Consensus 55 ~~~l~lY~NFvsefe~kINplslvei~l~~~~~~~-D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~ 133 (380)
T KOG2908|consen 55 DLLLQLYLNFVSEFETKINPLSLVEILLVVSEQIS-DKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKE 133 (380)
T ss_pred hHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHhc-cHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHH
Confidence 3567899998888764444311 12222 23344444444444444444456788888899999999999999
Q ss_pred HHHHHHHHHh
Q 016653 116 ALEQLKVTES 125 (385)
Q Consensus 116 A~~~~~~~~~ 125 (385)
+-+.+.+...
T Consensus 134 ~kk~ldd~~~ 143 (380)
T KOG2908|consen 134 IKKLLDDLKS 143 (380)
T ss_pred HHHHHHHHHH
Confidence 9999987765
No 328
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=46.87 E-value=1.8e+02 Score=32.59 Aligned_cols=173 Identities=15% Similarity=0.107 Sum_probs=95.9
Q ss_pred HhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHH-hcCHHHHHhHHHHHHHHHhcC
Q 016653 89 ENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFF-YMDFDLISKSIDKAKSLFEEG 167 (385)
Q Consensus 89 ~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~-~~~~~~~~~~i~ka~~~~~~~ 167 (385)
...++.-+...+..+=++|.+..|++++.+.+..+.++-+++..- ..+++++... +++.+....++.... + +
T Consensus 215 ~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a---~~~l~~~y~~kY~~~~~~ee~l~~s~--l--~ 287 (906)
T PRK14720 215 GHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKA---REELIRFYKEKYKDHSLLEDYLKMSD--I--G 287 (906)
T ss_pred hhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhh---HHHHHHHHHHHccCcchHHHHHHHhc--c--c
Confidence 333455566778888899999999999999999999887554322 3344443331 234444444333211 1 1
Q ss_pred CChh-hhhhhhHHHHHhccccCCHHHHHHHHHhcc---------ccCCcCccCCHhHHHHHHHHHHHhhCChhHHHh-hc
Q 016653 168 GDWE-RKNRLKVYEGLYCMSTRNFKKAASLFLDSI---------STFTTYELFPYDTFIFYTVLTSIISLDRVSLKQ-KV 236 (385)
Q Consensus 168 ~~~~-~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~---------~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~-~v 236 (385)
..|. ...-+.-+.=.+++..|+|--+.+.-+--+ -.|. +... -++..=+++.+|-.+++..+.. +.
T Consensus 288 ~~~~~~~~~i~~fek~i~f~~G~yv~H~~WGvG~I~~v~~~~i~IdF~--~k~g-h~ms~~~A~~sL~pL~~dHi~v~k~ 364 (906)
T PRK14720 288 NNRKPVKDCIADFEKNIVFDTGNFVYHRTWGVGKITSISDNGIFVDFV--SKRG-HKLSIQMAITALKPLKRDHIWVLKA 364 (906)
T ss_pred cCCccHHHHHHHHHHHeeecCCCEEEEcCCCCceeeEEcCCceEEEec--cCCC-CcCCHHHHHHhcCcCChhheehhHh
Confidence 1221 123333344556667776632222211111 1121 1101 1333346677888888888776 56
Q ss_pred cCChH-HHHHhcCcch--HHHHHHHHHh-ccHHHHHHHH
Q 016653 237 VDAPE-ILTVIGKIPY--LSEFLNSLYD-CQYKSFFSAF 271 (385)
Q Consensus 237 ~~~~e-~~~~l~~~p~--~~~li~~f~~-~~y~~~~~~L 271 (385)
+.+++ +.+.....|. ++.++.+|-+ +.-....+.|
T Consensus 365 ~~~~~~l~~~~~~dp~~~ik~~lks~~~~~t~~~ik~eL 403 (906)
T PRK14720 365 VEPKEELVDKFKKDIPWALKTIIKSYDNRMDLKDIKSEL 403 (906)
T ss_pred hCCHHHHHHHHHhCHHHHHHHHHHhcCCccCHHHHHHHH
Confidence 66665 4444445554 7899999977 6666655554
No 329
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=46.74 E-value=4.1e+02 Score=28.82 Aligned_cols=65 Identities=9% Similarity=-0.126 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF 164 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~ 164 (385)
..+++.+|..+-+.|++++|..+|.++....+. --++.++.--+-...|+.+.+...+.+|-+..
T Consensus 154 ~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~---~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~ 218 (694)
T PRK15179 154 AREILLEAKSWDEIGQSEQADACFERLSRQHPE---FENGYVGWAQSLTRRGALWRARDVLQAGLDAI 218 (694)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCC---cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence 677999999999999999999999998862221 12344444444445577777777666665543
No 330
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.06 E-value=3.6e+02 Score=27.95 Aligned_cols=29 Identities=24% Similarity=0.243 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHhC--CHHHHHHHHHHHH
Q 016653 96 VREAHLAKSLFYIQIG--DKEKALEQLKVTE 124 (385)
Q Consensus 96 ir~a~~~la~~~~~~G--d~~~A~~~~~~~~ 124 (385)
+-.|+.-+|+++...| +...+.+|+..+.
T Consensus 6 va~aLlGlAe~~rt~~PPkIkk~IkClqA~~ 36 (629)
T KOG2300|consen 6 VAEALLGLAEHFRTSGPPKIKKCIKCLQAIF 36 (629)
T ss_pred HHHHHHHHHHHHhhcCChhHHHHHHHHHHHh
Confidence 4455556666666666 5666666655443
No 331
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.76 E-value=2.7e+02 Score=26.36 Aligned_cols=92 Identities=7% Similarity=0.016 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHH
Q 016653 64 SVLDSMRTKIEDELKKLDDRIA-DAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQ 142 (385)
Q Consensus 64 ~~~~~~~~~~~~~l~~Le~~l~-~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~ 142 (385)
.|.+... .|-+++-++..++. ..+.+....++-..+...+---.++|...-|.+|+.++++...++..+.- +.-++
T Consensus 19 ~wr~~~~-rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~--lkam~ 95 (289)
T KOG3060|consen 19 KWREETV-RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGK--LKAML 95 (289)
T ss_pred HHHhccc-cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHH--HHHHH
Confidence 5533333 34444444544444 44555355667788888888888999999999999999887744333222 22222
Q ss_pred HHHHhcCHHHHHhHHHH
Q 016653 143 LGFFYMDFDLISKSIDK 159 (385)
Q Consensus 143 ~~i~~~~~~~~~~~i~k 159 (385)
+.. .|+|..+.++++.
T Consensus 96 lEa-~~~~~~A~e~y~~ 111 (289)
T KOG3060|consen 96 LEA-TGNYKEAIEYYES 111 (289)
T ss_pred HHH-hhchhhHHHHHHH
Confidence 221 2677777766654
No 332
>PLN03077 Protein ECB2; Provisional
Probab=45.58 E-value=2.5e+02 Score=31.03 Aligned_cols=17 Identities=12% Similarity=-0.142 Sum_probs=10.1
Q ss_pred ccccCCHHHHHHHHHhc
Q 016653 184 CMSTRNFKKAASLFLDS 200 (385)
Q Consensus 184 ~l~~r~~~~Aa~~f~e~ 200 (385)
+...|++.+|.+.|-+.
T Consensus 364 ~~~~g~~~~A~~lf~~M 380 (857)
T PLN03077 364 YEKNGLPDKALETYALM 380 (857)
T ss_pred HHhCCCHHHHHHHHHHH
Confidence 34556666666666554
No 333
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=45.32 E-value=60 Score=30.00 Aligned_cols=64 Identities=9% Similarity=0.102 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.||..++..-+.|=..+ +-..||+.||||..-+-+-|..|-..|-+.- -+..|+.+..
T Consensus 10 ~~~v~~~l~~~I~~g~l~pG~~LpsE~eLae~~gVSRtpVREAL~~L~~eGlV~~--~~~~G~~V~~ 74 (253)
T PRK11523 10 YQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEV--RKGSGIHVVS 74 (253)
T ss_pred HHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ecCCeeEEec
Confidence 46788999999999999999999 4889999999999999999999999998863 3445665543
No 334
>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=45.20 E-value=49 Score=21.31 Aligned_cols=28 Identities=11% Similarity=0.027 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
+.+..||++-.+.++|+.|.+=|.+..+
T Consensus 2 dv~~~Lgeisle~e~f~qA~~D~~~aL~ 29 (38)
T PF10516_consen 2 DVYDLLGEISLENENFEQAIEDYEKALE 29 (38)
T ss_pred cHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 3577889999999999999888776554
No 335
>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=44.97 E-value=59 Score=21.04 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=23.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
...+...+|+.+|+|...+-.++.+..
T Consensus 25 ~~~~~~~ia~~~~~s~~~i~~~~~~~~ 51 (55)
T cd06171 25 EGLSYEEIAEILGISRSTVRQRLHRAL 51 (55)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 778999999999999999988887754
No 336
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=44.94 E-value=63 Score=29.84 Aligned_cols=64 Identities=17% Similarity=0.236 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+++.||..++..=+.|=..+ +-..||+.||||..-+-+-|..|-..|-+.-+ +..|+.+..
T Consensus 4 ~~~v~~~L~~~I~~g~l~pG~~LpsE~eLae~~gVSRtpVREAL~~Le~~GlV~~~--~~~G~~V~~ 68 (253)
T PRK10421 4 SDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSR--RGGGTFIRW 68 (253)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe--CCCeEEEec
Confidence 46788999999999999999999 69999999999999999999999999988743 456776654
No 337
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=44.85 E-value=1.5e+02 Score=26.79 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=33.3
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCC-CEEEEcC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA-GVLETNR 354 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~-giv~~~~ 354 (385)
.++-..+|+.+|++.+.+-+.+.+|-.+|-| +... |.|+..+
T Consensus 179 ~lt~~~IA~~lGisretlsR~L~~L~~~GlI----~~~~~~~i~I~D 221 (230)
T PRK09391 179 PMSRRDIADYLGLTIETVSRALSQLQDRGLI----GLSGARQIELRN 221 (230)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCcE----EecCCceEEEcC
Confidence 4677899999999999999999999998765 4433 5666653
No 338
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.42 E-value=3.1e+02 Score=26.68 Aligned_cols=105 Identities=13% Similarity=0.160 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh-HH---------HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ-KM---------DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 166 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~-~i---------d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~ 166 (385)
|.|+--||.-||..-+|.+|.+||.++-.......+ ++ =..-.-+|+....+|.+...+-.-+..+.|.=
T Consensus 44 rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkY 123 (459)
T KOG4340|consen 44 RAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKY 123 (459)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhc
Confidence 788889999999999999999999987554432221 11 12223366777777777776666666665421
Q ss_pred -CCC----hhhh------h--hhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 167 -GGD----WERK------N--RLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 167 -~~~----~~~~------~--~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.+| ...- | -.-.-.|-....+|+|..|.+.|-++.
T Consensus 124 se~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAl 171 (459)
T KOG4340|consen 124 SEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAAL 171 (459)
T ss_pred ccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHH
Confidence 111 0110 1 111124555667999999999998874
No 339
>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=44.29 E-value=65 Score=23.08 Aligned_cols=42 Identities=19% Similarity=0.295 Sum_probs=35.7
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
|...+ .....+...+|+.+|+|...+-+.|.+|...|-+.-.
T Consensus 14 y~~Ll-~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~ 55 (68)
T PF01978_consen 14 YLALL-KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVERE 55 (68)
T ss_dssp HHHHH-HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHH-HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 44444 6788999999999999999999999999999977543
No 340
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.80 E-value=3e+02 Score=28.57 Aligned_cols=115 Identities=18% Similarity=0.113 Sum_probs=75.7
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhh
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKN 174 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~ 174 (385)
-+..++.--|.|++=+||+-.|.+-+......-....+ .+.-.-.+.+..++-...-.+.++|..+--. +|+.
T Consensus 324 ~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~---lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~--n~dv-- 396 (606)
T KOG0547|consen 324 YMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNS---LYIKRAAAYADENQSEKMWKDFNKAEDLDPE--NPDV-- 396 (606)
T ss_pred HHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccch---HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC--CCch--
Confidence 34677888999999999999999999887755432222 1333333455556777777888888876322 2221
Q ss_pred hhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHh
Q 016653 175 RLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSII 225 (385)
Q Consensus 175 ~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~ 225 (385)
-...|-+.+-..+|..|...|=.+. .+.|+.+.-|.=+|...
T Consensus 397 --YyHRgQm~flL~q~e~A~aDF~Kai-------~L~pe~~~~~iQl~~a~ 438 (606)
T KOG0547|consen 397 --YYHRGQMRFLLQQYEEAIADFQKAI-------SLDPENAYAYIQLCCAL 438 (606)
T ss_pred --hHhHHHHHHHHHHHHHHHHHHHHHh-------hcChhhhHHHHHHHHHH
Confidence 1125656666778889988887764 34666666677666554
No 341
>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=43.46 E-value=4.3e+02 Score=28.01 Aligned_cols=102 Identities=14% Similarity=0.096 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHH-HhCCHHHHHHHHHHHHhhhccc---hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC--Ch
Q 016653 97 REAHLAKSLFYI-QIGDKEKALEQLKVTESKTVAV---GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG--DW 170 (385)
Q Consensus 97 r~a~~~la~~~~-~~Gd~~~A~~~~~~~~~~~~~~---~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~--~~ 170 (385)
..+++++|.+++ +..+++.|-.++.+.+..|... +.++.+-+..+++... .+...+..+++++-+..+..+ .|
T Consensus 59 a~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~-~~~~~a~~~l~~~I~~~~~~~~~~w 137 (608)
T PF10345_consen 59 ARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFK-TNPKAALKNLDKAIEDSETYGHSAW 137 (608)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHHHhccCchhH
Confidence 466899999998 7899999999999998887441 2244444444555444 444448888888777666522 34
Q ss_pred hhhhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 171 ERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 171 ~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.-.- +....-..+..+++..|.+.+-...
T Consensus 138 ~~~f--rll~~~l~~~~~d~~~Al~~L~~~~ 166 (608)
T PF10345_consen 138 YYAF--RLLKIQLALQHKDYNAALENLQSIA 166 (608)
T ss_pred HHHH--HHHHHHHHHhcccHHHHHHHHHHHH
Confidence 3322 2232323333389999988876653
No 342
>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=43.45 E-value=1.3e+02 Score=24.20 Aligned_cols=50 Identities=10% Similarity=0.100 Sum_probs=42.6
Q ss_pred ccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 304 LESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 304 ~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
+..|+-||-..+|+.|+++..-.-+-|..|-..|-|....-.....|+++
T Consensus 54 V~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~kG~Ik~V~k~~~~~IYtr 103 (105)
T PF03297_consen 54 VPKMKLITPSVLSERLKINGSLARKALRELESKGLIKPVSKHHRQRIYTR 103 (105)
T ss_dssp CTTSSCECHHHHHHHHCCSCHHHHHHHHHHHHCCSSEEEECCTTCEEEEE
T ss_pred hccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHCCCEEEEeccCCeEEEec
Confidence 34589999999999999999999999999999999987765666666654
No 343
>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=43.31 E-value=51 Score=20.85 Aligned_cols=24 Identities=17% Similarity=0.228 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLK 121 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~ 121 (385)
+.++.+|-.++..|++++|.+.+.
T Consensus 2 e~~y~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 2 EYLYGLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred cHHHHHHHHHHHHhhHHHHHHHHH
Confidence 356788999999999999999944
No 344
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=43.27 E-value=52 Score=26.20 Aligned_cols=35 Identities=26% Similarity=0.253 Sum_probs=29.6
Q ss_pred HHHHHhccccccccHHHHHHHhCCChHHHHHHHHH
Q 016653 298 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 298 ~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
..+.+|+.+=.++++...|+.+|+++..+=++|.+
T Consensus 13 ~~~d~~~~~~~~~ti~~~AK~L~i~~~~l~~~Lr~ 47 (111)
T PF03374_consen 13 EFYDAFVDSDGLYTIREAAKLLGIGRNKLFQWLRE 47 (111)
T ss_pred HHHHHHHcCCCCccHHHHHHHhCCCHHHHHHHHHh
Confidence 35677888778999999999999998888777765
No 345
>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=43.22 E-value=69 Score=26.19 Aligned_cols=35 Identities=17% Similarity=0.355 Sum_probs=32.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
..++.+.||+.+|+|...+.+-+..|...|-|...
T Consensus 24 ~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~ 58 (132)
T TIGR00738 24 GPVSVKEIAERQGISRSYLEKILRTLRRAGLVESV 58 (132)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 47999999999999999999999999999988653
No 346
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.22 E-value=2.4e+02 Score=28.01 Aligned_cols=98 Identities=13% Similarity=0.056 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 016653 93 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 172 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~ 172 (385)
.-+..-|....|.+++=.-++++.+-++..++.|.+..+ +..++..+.....||+..+.+.. -.-.+|+.
T Consensus 355 ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD---~Fn~N~AQAk~atgny~eaEelf-------~~is~~~i 424 (557)
T KOG3785|consen 355 ECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDD---DFNLNLAQAKLATGNYVEAEELF-------IRISGPEI 424 (557)
T ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc---hhhhHHHHHHHHhcChHHHHHHH-------hhhcChhh
Confidence 334445566678888888889999999988888887544 34566666667778877665433 23346777
Q ss_pred hhhhhHHHHH--hccccCCHHHHHHHHHhc
Q 016653 173 KNRLKVYEGL--YCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 173 ~~~l~~~~gl--~~l~~r~~~~Aa~~f~e~ 200 (385)
+|++-.++-+ .+++.+.=..||..|+..
T Consensus 425 kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~ 454 (557)
T KOG3785|consen 425 KNKILYKSMLARCYIRNKKPQLAWDMMLKT 454 (557)
T ss_pred hhhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence 8887776555 566777778999999865
No 347
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=43.20 E-value=21 Score=28.02 Aligned_cols=76 Identities=18% Similarity=0.256 Sum_probs=48.9
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc---ceEEecCCCE-EEEcCCCchhHHHHHHHHhhHHHHHH
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL---HCKIDKVAGV-LETNRPDAKNALYQATIKQGDFLLNR 375 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l---~akID~~~gi-v~~~~~d~~~~~y~~~i~~g~~l~~r 375 (385)
+.+++.-+-.=.-..||..++++.++++..+-.|..-|=| +|++-..+.. .-...+..++.+|=..-+.|+.++.+
T Consensus 12 IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLler~~g~~iK~~~~k~K~~~e~~~hHtYY~LTr~G~~llR~ 91 (92)
T PF10007_consen 12 ILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLEEMGLLERVEGKTIKRSEAKFKPKKEVHKHHTYYRLTREGELLLRE 91 (92)
T ss_pred HHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEecCcccchhhhhcccchhhhcCCceeeecHhHHHHHhc
Confidence 5566666666667889999999999999999999998865 3332222111 00012223455676777777766653
No 348
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=41.70 E-value=65 Score=25.85 Aligned_cols=48 Identities=19% Similarity=0.294 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHhccccccccHHHHHHHhCC-ChHHHHHHHHHHHhCCccc
Q 016653 291 YMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 291 l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~-s~~~iE~~L~~lI~~g~l~ 340 (385)
+-.+-+..++..|++|=. +++.+|..||+ +...+-+|+.++...+...
T Consensus 8 ~s~EfK~~iv~~~~~~g~--sv~~vAr~~gv~~~~~l~~W~~~~~~~~~~~ 56 (116)
T COG2963 8 YSPEFKLEAVALYLRGGD--TVSEVAREFGIVSATQLYKWRIQLQKGGGLA 56 (116)
T ss_pred CCHHHHHHHHHHHHhcCc--cHHHHHHHhCCCChHHHHHHHHHHHHccccc
Confidence 445667788899987733 89999999995 9999999999999987554
No 349
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.69 E-value=3.9e+02 Score=28.28 Aligned_cols=62 Identities=11% Similarity=0.074 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-------cchhHHHhHHHHHHHHHH-----hcCHHHHHh
Q 016653 94 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTV-------AVGQKMDLVFYTLQLGFF-----YMDFDLISK 155 (385)
Q Consensus 94 ~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~-------~~~~~id~~l~~i~~~i~-----~~~~~~~~~ 155 (385)
++.-+..+..|-.+.+.|+|.+|.+.+...+..|. +.+.-+..=++.||+.+. .|+...+.+
T Consensus 172 e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~ 245 (652)
T KOG2376|consen 172 EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS 245 (652)
T ss_pred cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 44556788899999999999999999999854441 122344455566665443 377776665
No 350
>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=41.53 E-value=82 Score=28.61 Aligned_cols=63 Identities=11% Similarity=0.178 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 289 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
..+.+.++.++...-+.|=..+ +-..||+.||+|..-+-+-|..|+.+|-|.-+ +..|+.+..
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 4566777787777778888888 88999999999999999999999999987432 344666543
No 351
>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=41.43 E-value=51 Score=24.93 Aligned_cols=34 Identities=29% Similarity=0.405 Sum_probs=25.1
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
+.+.+.-=.-|+...||.+.|.+++++..-|..+
T Consensus 29 LLr~LA~G~PVt~~~LA~a~g~~~e~v~~~L~~~ 62 (77)
T PF12324_consen 29 LLRLLAKGQPVTVEQLAAALGWPVEEVRAALAAM 62 (77)
T ss_dssp HHHHHTTTS-B-HHHHHHHHT--HHHHHHHHHH-
T ss_pred HHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHHhC
Confidence 5556666788999999999999999999999886
No 352
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.40 E-value=2.3e+02 Score=25.67 Aligned_cols=82 Identities=16% Similarity=0.140 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHhhCHHHHHH-HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHH--HHHHhcCHHHH
Q 016653 77 LKKLDDRIADAEENLGESEVRE-AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQ--LGFFYMDFDLI 153 (385)
Q Consensus 77 l~~Le~~l~~~~~n~~~~~ir~-a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~--~~i~~~~~~~~ 153 (385)
+++-+..|+....+-.++.+.. +..+||++.++.|.+++|++.+....+. -.......+| +-+-.||-..+
T Consensus 105 ~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~------~w~~~~~elrGDill~kg~k~~A 178 (207)
T COG2976 105 LDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEE------SWAAIVAELRGDILLAKGDKQEA 178 (207)
T ss_pred HHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccc------cHHHHHHHHhhhHHHHcCchHHH
Confidence 4444455554444433333322 2677888888888888888877655432 1222222333 22334777777
Q ss_pred HhHHHHHHHHH
Q 016653 154 SKSIDKAKSLF 164 (385)
Q Consensus 154 ~~~i~ka~~~~ 164 (385)
.+...++....
T Consensus 179 r~ay~kAl~~~ 189 (207)
T COG2976 179 RAAYEKALESD 189 (207)
T ss_pred HHHHHHHHHcc
Confidence 77777776653
No 353
>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=41.02 E-value=73 Score=28.49 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=37.1
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
+..++.....++...||+.+|++...+-+.|..|...|-|.-+
T Consensus 6 IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 6 ILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 4455555677999999999999999999999999999999755
No 354
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=40.93 E-value=51 Score=27.69 Aligned_cols=44 Identities=14% Similarity=0.284 Sum_probs=37.2
Q ss_pred HhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc---ceEEec
Q 016653 302 QFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL---HCKIDK 345 (385)
Q Consensus 302 qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l---~akID~ 345 (385)
+.++-=.++++..+|+.+|+|+..+-+-+-+|..+|-| .+.+|.
T Consensus 15 ~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 15 RLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred HHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 33333566999999999999999999999999999966 568886
No 355
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=40.76 E-value=50 Score=24.02 Aligned_cols=43 Identities=16% Similarity=0.318 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 290 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.|-.+.+.+++..++.+ -.++..+|..+|+++..+-+|+..+-
T Consensus 6 ~ys~e~K~~~v~~~~~~--g~sv~~va~~~gi~~~~l~~W~~~~~ 48 (76)
T PF01527_consen 6 RYSPEFKLQAVREYLES--GESVSEVAREYGISPSTLYNWRKQYR 48 (76)
T ss_dssp ---HHHHHHHHHHHHHH--HCHHHHHHHHHTS-HHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHC--CCceEeeecccccccccccHHHHHHh
Confidence 34455666667777544 68899999999999999999999987
No 356
>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=40.55 E-value=89 Score=27.96 Aligned_cols=42 Identities=19% Similarity=0.281 Sum_probs=35.2
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
..++..+..++++.+|+.+|+|..-+-+.|..|...|-+.-.
T Consensus 149 L~~l~~~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~ 190 (203)
T TIGR01884 149 LEVLKAEGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 190 (203)
T ss_pred HHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 344444567999999999999999999999999999888654
No 357
>PRK14999 histidine utilization repressor; Provisional
Probab=40.52 E-value=81 Score=28.92 Aligned_cols=64 Identities=9% Similarity=0.172 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
...+.+.|+.++...-+.|=..+ +=..||+.||+|..-+-+-|..|..+|-|.-+ +..|+.+..
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 45667778887777788888889 89999999999999999999999999988432 445777654
No 358
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=40.46 E-value=5.6e+02 Score=28.79 Aligned_cols=114 Identities=10% Similarity=0.063 Sum_probs=69.2
Q ss_pred cHHHHHHHHHHhHHHhhhchhHh-Hh------HHHHHHHHHHHHHHHhcccccc-ccHHHHHHHhC---CChHHHHHHHH
Q 016653 263 QYKSFFSAFAGLTEQIKLDRYLY-PH------FRYYMREVRTVVYSQFLESYKS-VTIEAMAKAFG---VTVEFIDVELS 331 (385)
Q Consensus 263 ~y~~~~~~L~~~~~~l~~D~~l~-~h------~~~l~~~iR~~~~~qy~~pY~~-I~l~~mA~~fg---~s~~~iE~~L~ 331 (385)
++.-+.++|.. |..|-++. .+ +..+..+=-..++...+++|.. .++..|-+.+= +++++--+|-.
T Consensus 343 s~~~A~~sL~p----L~~dHi~v~k~~~~~~~l~~~~~~dp~~~ik~~lks~~~~~t~~~ik~eL~~~vi~~~~W~kWw~ 418 (906)
T PRK14720 343 SIQMAITALKP----LKRDHIWVLKAVEPKEELVDKFKKDIPWALKTIIKSYDNRMDLKDIKSELVPSLLTQSEWSKWST 418 (906)
T ss_pred CHHHHHHhcCc----CChhheehhHhhCCHHHHHHHHHhCHHHHHHHHHHhcCCccCHHHHHHHHHHhhCCHHHHHHHHH
Confidence 45566666654 34444444 22 2233333345677888889988 99999988874 36666666653
Q ss_pred H----HHhCCccceEEecCCCEEEEcCCCchhHHHHHHHHhhHHHHHHHHHhh
Q 016653 332 R----FIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLS 380 (385)
Q Consensus 332 ~----lI~~g~l~akID~~~giv~~~~~d~~~~~y~~~i~~g~~l~~r~q~l~ 380 (385)
. +=.+.++..-=...+-.+.-.+|-+.........+....+..|++-+-
T Consensus 419 ~aKk~lkkd~~~~~~~~k~d~~~~r~~~~s~~e~l~~~f~~~~~~~~ri~i~~ 471 (906)
T PRK14720 419 KAKQILKKNPNFGMDPKKKDEYVYRERPINLSEKLSDKFKAEKDFNKRLEIAM 471 (906)
T ss_pred HHHHHHhhCCcccCCCCCCCcEEecCCCCChHHHHHHHHHhhhhHHHHHHHHH
Confidence 2 222333333223334456666677777778888888888888887653
No 359
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=40.18 E-value=2.9e+02 Score=25.91 Aligned_cols=61 Identities=10% Similarity=0.062 Sum_probs=48.4
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
+..|+||.+.|.+-.|..-+..+.+......+.-+.+..+.....-.|-.+.+. ++...+.
T Consensus 171 m~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~----~~~~vl~ 231 (254)
T COG4105 171 MAIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAK----KTAKVLG 231 (254)
T ss_pred HHHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHH----HHHHHHH
Confidence 467999999999999999999999888777777788777777777778777665 4444554
No 360
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=39.99 E-value=1.9e+02 Score=25.92 Aligned_cols=41 Identities=27% Similarity=0.345 Sum_probs=33.0
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.++-+.+|+.+|++.+.+-+.+.+|-.+|-|. ...+.+...
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~----~~~~~i~i~ 224 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLA----VKGKYITIE 224 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEE----ecCCEEEEc
Confidence 46788999999999999999999999877653 444566655
No 361
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=39.87 E-value=1.3e+02 Score=27.48 Aligned_cols=93 Identities=13% Similarity=0.142 Sum_probs=59.3
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCC-ChHHHHHH
Q 016653 251 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVE 329 (385)
Q Consensus 251 ~~~~li~~f~~~~y~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~-s~~~iE~~ 329 (385)
.+.++++-|....|..+...-..+ +.|..+-.+. ++.+-+......-+++.-..+-..+.+ ++-++|+.
T Consensus 61 a~lrlL~lFa~Gt~~Dy~aea~rl-p~Ls~~q~~k---------Lk~ltV~slas~~k~lpy~~Ll~~l~~~nvrelEd~ 130 (258)
T KOG3250|consen 61 AYLRLLELFAYGTYRDYSAEALRL-PKLSLAQLNK---------LKHLTVVSLASFEKCLPYLVLLRLLPSRNVRELEDL 130 (258)
T ss_pred HHHHHHHHHhcCchhhhhhhhhcC-CCCCHHHHHh---------hhcceehhhhhhchhhhHHHHHhhccCCchhHHHHH
Confidence 467889999988888765432111 1222222211 111112222222344455556666776 56799999
Q ss_pred HHHHHhCCccceEEecCCCEEEEc
Q 016653 330 LSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 330 L~~lI~~g~l~akID~~~giv~~~ 353 (385)
|.+.+-++-+.||||+.+.+++..
T Consensus 131 iieamya~IlrGkldqr~q~leV~ 154 (258)
T KOG3250|consen 131 IIEAMYADILRGKLDQRNQTLEVD 154 (258)
T ss_pred HHHHHHHHHHHhhHHhhcceEeec
Confidence 999999999999999999999885
No 362
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=39.85 E-value=85 Score=28.77 Aligned_cols=64 Identities=17% Similarity=0.247 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
...+.+.|+.++...-+.|=..+ +=..||+.||+|..-+-+-|..|+.+|-|.-+ +..|+.+..
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 35666777777777888898889 78999999999999999999999999988543 445666643
No 363
>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=39.29 E-value=58 Score=23.08 Aligned_cols=35 Identities=23% Similarity=0.295 Sum_probs=28.6
Q ss_pred HHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHH
Q 016653 295 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 295 iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
+|..|..=|+ +-.++..+|+.+|++..-+-.|..+
T Consensus 2 ~k~~A~~LY~---~G~~~~eIA~~Lg~~~~TV~~W~~r 36 (58)
T PF06056_consen 2 VKEQARSLYL---QGWSIKEIAEELGVPRSTVYSWKDR 36 (58)
T ss_pred HHHHHHHHHH---cCCCHHHHHHHHCCChHHHHHHHHh
Confidence 4666777774 5678999999999999999988876
No 364
>COG4259 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.27 E-value=1.1e+02 Score=24.49 Aligned_cols=65 Identities=18% Similarity=0.277 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHH
Q 016653 74 EDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFY 139 (385)
Q Consensus 74 ~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~ 139 (385)
.++.+.|+..+.......+-.- --.|-.||-+|...|+-+.|.+-+..-.......+--+|.++.
T Consensus 50 e~Q~~~le~~~ek~~ak~~~vp-PG~HAhLGlLys~~G~~e~a~~eFetEKalFPES~~fmDFLmk 114 (121)
T COG4259 50 EAQTAALEKYLEKIGAKNGAVP-PGYHAHLGLLYSNSGKDEQAVREFETEKALFPESGVFMDFLMK 114 (121)
T ss_pred HHHHHHHHHHHHHHhhcCCCCC-CcHHHHHHHHHhhcCChHHHHHHHHHhhhhCccchhHHHHHHH
Confidence 4555566655554433322211 2348889999999999999999998766666777777777664
No 365
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=39.07 E-value=5.2e+02 Score=27.86 Aligned_cols=85 Identities=16% Similarity=0.002 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHH
Q 016653 75 DELKKLDDRIADAEENL-GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLI 153 (385)
Q Consensus 75 ~~l~~Le~~l~~~~~n~-~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~ 153 (385)
.+...++....-|+.-+ +..+...++..||-+|-+.|++++|+.+|..+..--. .-.|.+-+.--+.-+.|+.+.+
T Consensus 365 ~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P---~fAda~~NmGnt~ke~g~v~~A 441 (966)
T KOG4626|consen 365 REQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKP---TFADALSNMGNTYKEMGDVSAA 441 (966)
T ss_pred HHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCc---hHHHHHHhcchHHHHhhhHHHH
Confidence 33444444444443222 3455667788888888888888888888887643221 1223333443444455666666
Q ss_pred HhHHHHHHH
Q 016653 154 SKSIDKAKS 162 (385)
Q Consensus 154 ~~~i~ka~~ 162 (385)
...+.+|-.
T Consensus 442 ~q~y~rAI~ 450 (966)
T KOG4626|consen 442 IQCYTRAIQ 450 (966)
T ss_pred HHHHHHHHh
Confidence 666665544
No 366
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=38.97 E-value=1.1e+02 Score=22.00 Aligned_cols=41 Identities=15% Similarity=0.367 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhccccccccHHHHHHHhCC-ChHHHHHHHHH
Q 016653 291 YMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELSR 332 (385)
Q Consensus 291 l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~-s~~~iE~~L~~ 332 (385)
+....|......++... .+++..+|..+|+ ++..+-+...+
T Consensus 33 ~~~~~r~~~a~~~l~~~-~~~~~~ia~~~g~~s~~~f~r~Fk~ 74 (84)
T smart00342 33 YLRDRRLERARRLLRDT-DLSVTEIALRVGFSSQSYFSRAFKK 74 (84)
T ss_pred HHHHHHHHHHHHHHHcC-CCCHHHHHHHhCCCChHHHHHHHHH
Confidence 34455555566666654 8999999999999 88876665543
No 367
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=38.89 E-value=59 Score=30.18 Aligned_cols=45 Identities=18% Similarity=0.349 Sum_probs=35.9
Q ss_pred HHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 296 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 296 R~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
|.+++.-+..-.-.+.-+.+|..+|+++..+-..+-+||.+|-++
T Consensus 12 ~fqIL~ei~~~qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~ 56 (260)
T COG1497 12 RFQILSEIAVRQPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIE 56 (260)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHhcccee
Confidence 344444444445789999999999999999999999999988653
No 368
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=38.74 E-value=2.2e+02 Score=29.61 Aligned_cols=61 Identities=8% Similarity=-0.057 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
+++..+|-.+...|++++|...+.+..+.-.+ ...+...-++....|+.+.+...+.+|-.
T Consensus 421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps----~~a~~~lG~~~~~~G~~~eA~~~~~~A~~ 481 (517)
T PRK10153 421 RIYEILAVQALVKGKTDEAYQAINKAIDLEMS----WLNYVLLGKVYELKGDNRLAADAYSTAFN 481 (517)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 44555555555566666666666665544321 23344444445555555555555555433
No 369
>PF14549 P22_Cro: DNA-binding transcriptional regulator Cro; PDB: 1RZS_A 3BD1_A 3QWS_A 2HIN_B.
Probab=38.27 E-value=52 Score=23.54 Aligned_cols=19 Identities=26% Similarity=0.291 Sum_probs=16.3
Q ss_pred cHHHHHHHhCCChHHHHHH
Q 016653 311 TIEAMAKAFGVTVEFIDVE 329 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~ 329 (385)
+...+|+++|+|+..+-.|
T Consensus 11 ~~~~lAkalGVs~~aVs~W 29 (60)
T PF14549_consen 11 GQSKLAKALGVSPQAVSQW 29 (60)
T ss_dssp SHHHHHHHHTS-HHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHh
Confidence 4568999999999999999
No 370
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=38.16 E-value=81 Score=20.84 Aligned_cols=29 Identities=17% Similarity=0.361 Sum_probs=25.0
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
+...+...+|+.+|+|...+...+.++..
T Consensus 16 ~~g~s~~eia~~l~is~~tv~~~~~~~~~ 44 (58)
T smart00421 16 AEGLTNKEIAERLGISEKTVKTHLSNIMR 44 (58)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 45679999999999999999999887654
No 371
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=38.13 E-value=1e+02 Score=20.59 Aligned_cols=38 Identities=13% Similarity=0.324 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 293 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 293 ~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
..++..++... -...++..+|+.+|+|.+.+.+.+-+.
T Consensus 14 ~~~~~~i~~~~---~~~~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 14 KRLEQYILKLL---RESRSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred HHHHHHHHHHH---hhcCCHHHHHHHHCCCHHHHHHHHHhh
Confidence 33444444444 233799999999999999988776543
No 372
>PF09182 PuR_N: Bacterial purine repressor, N-terminal; InterPro: IPR015265 The N-terminal domain of the bacterial purine repressor PuR is a winged-helix domain, a subdivision of the HTH structural family. It consists of a canonical arrangement of secondary structures: a1-b1-a2-T-a3-b2-W-b3, where a2-T-a3 is the HTH motif, a3 is the recognition helix, and W is the wing. The domain allows for recognition of a conserved CGAA sequence in the centre of a DNA PurBox, resulting in binding to the major groove of DNA []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1O57_B 1P4A_D.
Probab=37.97 E-value=69 Score=23.74 Aligned_cols=36 Identities=25% Similarity=0.431 Sum_probs=24.4
Q ss_pred HHHHHHHHhc--cccccccHHHHHHHhCCChHHHHHHH
Q 016653 295 VRTVVYSQFL--ESYKSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 295 iR~~~~~qy~--~pY~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
=|.-++.+|+ .|++-|+|.+.|+.||....-+-+.|
T Consensus 4 eRlv~it~~L~~~P~~lisL~~Fae~f~~AKSsISEDl 41 (70)
T PF09182_consen 4 ERLVAITKYLLENPNKLISLTYFAERFGAAKSSISEDL 41 (70)
T ss_dssp HHHHHHHHHHHTSTT--EEHHHHHHHHT--HHHHHHHH
T ss_pred hHHHHHHHHHHcCCcceEcHHHHHHHhcccccchHHHH
Confidence 3555566666 49999999999999999777666555
No 373
>PF12728 HTH_17: Helix-turn-helix domain
Probab=37.94 E-value=48 Score=22.23 Aligned_cols=38 Identities=21% Similarity=0.341 Sum_probs=27.5
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
++.+.+|+.||+|...+. ++|..|.|.+- ...+.....
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 477899999999988755 55678999776 344545444
No 374
>PF14493 HTH_40: Helix-turn-helix domain
Probab=37.89 E-value=46 Score=25.65 Aligned_cols=33 Identities=33% Similarity=0.469 Sum_probs=30.5
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCc-cc
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGK-LH 340 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~-l~ 340 (385)
...+++.+|+.-|+++.-+...|++++..|. ++
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 5789999999999999999999999999998 54
No 375
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.87 E-value=5.3e+02 Score=27.55 Aligned_cols=158 Identities=16% Similarity=0.135 Sum_probs=91.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
-+-+.|+|+.+.|-+++|++ .|++++|++++.+.+ |..+.+.....++.+. ..|..
T Consensus 616 ~rt~va~Fle~~g~~e~AL~-------~s~D~d~rFelal~l-------grl~iA~~la~e~~s~----~Kw~~------ 671 (794)
T KOG0276|consen 616 IRTKVAHFLESQGMKEQALE-------LSTDPDQRFELALKL-------GRLDIAFDLAVEANSE----VKWRQ------ 671 (794)
T ss_pred hhhhHHhHhhhccchHhhhh-------cCCChhhhhhhhhhc-------CcHHHHHHHHHhhcch----HHHHH------
Confidence 35678999999998888764 578889988766644 4444443333333322 13322
Q ss_pred HHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCChhHHHhhccCChHHHHHhcCcchHHHHHHH
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNS 258 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~ 258 (385)
-|-+.+..+++..|.++|..+-. + .+ ++|..-++.+++-|.. + .+ ..++ +...=..++..
T Consensus 672 -Lg~~al~~~~l~lA~EC~~~a~d-~-----~~-------LlLl~t~~g~~~~l~~-l-a~-~~~~---~g~~N~AF~~~ 731 (794)
T KOG0276|consen 672 -LGDAALSAGELPLASECFLRARD-L-----GS-------LLLLYTSSGNAEGLAV-L-AS-LAKK---QGKNNLAFLAY 731 (794)
T ss_pred -HHHHHhhcccchhHHHHHHhhcc-h-----hh-------hhhhhhhcCChhHHHH-H-HH-HHHh---hcccchHHHHH
Confidence 34467888999999999987531 1 11 2222333334432321 1 00 0000 11112356677
Q ss_pred HHhccHHHHHHHHHHh----HHHhhhchhHhHhHHHHHHHHHHHHH
Q 016653 259 LYDCQYKSFFSAFAGL----TEQIKLDRYLYPHFRYYMREVRTVVY 300 (385)
Q Consensus 259 f~~~~y~~~~~~L~~~----~~~l~~D~~l~~h~~~l~~~iR~~~~ 300 (385)
|...+|.+|.+.|.+- +..+..--|+-..+..++..-|....
T Consensus 732 ~l~g~~~~C~~lLi~t~r~peAal~ArtYlps~vs~iv~~wk~~l~ 777 (794)
T KOG0276|consen 732 FLSGDYEECLELLISTQRLPEAALFARTYLPSQVSRIVELWKEDLS 777 (794)
T ss_pred HHcCCHHHHHHHHHhcCcCcHHHHHHhhhChHHHHHHHHHHHHHhh
Confidence 8889999999999876 33455555566666677666666543
No 376
>PF08721 Tn7_Tnp_TnsA_C: TnsA endonuclease C terminal; InterPro: IPR014832 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The C-terminal domain of TnsA binds DNA. ; PDB: 1F1Z_B 1T0F_B.
Probab=37.83 E-value=39 Score=24.84 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=34.0
Q ss_pred HHHHhccccccccHHHHHHHh----CCChHHHHHHHHHHHhCCccce
Q 016653 299 VYSQFLESYKSVTIEAMAKAF----GVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 299 ~~~qy~~pY~~I~l~~mA~~f----g~s~~~iE~~L~~lI~~g~l~a 341 (385)
.+...++.....++..+.+.| +++....-..+-.||..+++.+
T Consensus 31 ~i~~~l~~~~~~tl~~l~~~~d~~~~l~~g~~L~~l~~LiA~k~i~~ 77 (79)
T PF08721_consen 31 LILARLRKNPTMTLRDLCKELDKDYELEPGTALPLLRHLIATKRIKV 77 (79)
T ss_dssp HHHHHHHHTTTSBHHHHHHHHHHHCT--TTHHHHHHHHHHHTTSEE-
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHhcCCCcCChHHHHHHHHhCChhcc
Confidence 356666667779999999888 8999999999999999998865
No 377
>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=37.74 E-value=84 Score=20.87 Aligned_cols=29 Identities=14% Similarity=0.283 Sum_probs=24.9
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
+.-.+...+|+.+|+|+..+..++.++..
T Consensus 13 ~~~~s~~eia~~l~~s~~tv~~~~~~~~~ 41 (57)
T cd06170 13 AEGKTNKEIADILGISEKTVKTHLRNIMR 41 (57)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 35679999999999999999999887644
No 378
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=37.49 E-value=3.4e+02 Score=27.14 Aligned_cols=101 Identities=11% Similarity=0.019 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHH---HhHHHHH------HHHHHhcCHHHHHhHHHHHHHHHhcCC
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKM---DLVFYTL------QLGFFYMDFDLISKSIDKAKSLFEEGG 168 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~i---d~~l~~i------~~~i~~~~~~~~~~~i~ka~~~~~~~~ 168 (385)
+.+.-+|++|.+.||.+.|+.-|....-...+.+.++ +...+.. |+.---.| -.+.+...|+-+.-++-|
T Consensus 247 rc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmgqv~al~g~Akc~~~~r~~~k~~~-Crale~n~r~levA~~IG 325 (518)
T KOG1941|consen 247 RCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMGQVEALDGAAKCLETLRLQNKICN-CRALEFNTRLLEVASSIG 325 (518)
T ss_pred HHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHhhcccc-cchhHHHHHHHHHHHHhh
Confidence 3477899999999999999999998876665555543 2333333 32222122 345666666666655544
Q ss_pred ChhhhhhhhHHHHHhcc---ccCCHHHHHHHHHh
Q 016653 169 DWERKNRLKVYEGLYCM---STRNFKKAASLFLD 199 (385)
Q Consensus 169 ~~~~~~~l~~~~gl~~l---~~r~~~~Aa~~f~e 199 (385)
..-..-|+.+-.+..+- .++++.+....+-+
T Consensus 326 ~K~~vlK~hcrla~iYrs~gl~d~~~~h~~ra~~ 359 (518)
T KOG1941|consen 326 AKLSVLKLHCRLASIYRSKGLQDELRAHVVRAHE 359 (518)
T ss_pred hhHHHHHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence 44444455555444332 34556555555444
No 379
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=36.86 E-value=38 Score=26.38 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=21.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
+.++++.+|..||+|++.+|+.|
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL 44 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVL 44 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHH
Confidence 68899999999999999998876
No 380
>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=36.49 E-value=51 Score=26.85 Aligned_cols=43 Identities=28% Similarity=0.407 Sum_probs=34.0
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
.+|.+++. |++- .-++...|..||||...+..|+. -...|.+.
T Consensus 6 DlR~rVl~-~~~~--g~s~~eaa~~F~VS~~Tv~~W~k-~~~~G~~~ 48 (119)
T PF01710_consen 6 DLRQRVLA-YIEK--GKSIREAAKRFGVSRNTVYRWLK-RKETGDLE 48 (119)
T ss_pred HHHHHHHH-HHHc--cchHHHHHHHhCcHHHHHHHHHH-hccccccc
Confidence 46777775 4333 55899999999999999999999 67777663
No 381
>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=36.43 E-value=1.6e+02 Score=26.30 Aligned_cols=62 Identities=10% Similarity=0.148 Sum_probs=45.2
Q ss_pred hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHH
Q 016653 132 QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKA 193 (385)
Q Consensus 132 ~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~A 193 (385)
-.+.++.+.+-.++..++...+...+++++.......+--.+..+..+.|++....|+-..+
T Consensus 126 ~i~~il~N~~~~~i~~~~~~~a~~~l~~l~~l~~~~~~~~~ki~~~f~~~l~~y~~g~~~~~ 187 (220)
T TIGR01716 126 RVIQLLLNIAVLLIEKNEFSYAQYFLEKLEKILDPEDDLYERILFNFLKGIILYKEGQKESG 187 (220)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHHHHcCCCccc
Confidence 35578888888999999999999999999887632112224677778899877777764443
No 382
>PF14502 HTH_41: Helix-turn-helix domain
Probab=36.40 E-value=63 Score=22.07 Aligned_cols=30 Identities=27% Similarity=0.380 Sum_probs=26.8
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHHhCCccc
Q 016653 311 TIEAMAKAFGVTVEFIDVELSRFIAAGKLH 340 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ 340 (385)
+++.+++.|++|...+..-|.-|-.+|-+.
T Consensus 8 tI~e~~~~~~vs~GtiQ~Alk~Le~~gaI~ 37 (48)
T PF14502_consen 8 TISEYSEKFGVSRGTIQNALKFLEENGAIK 37 (48)
T ss_pred CHHHHHHHhCcchhHHHHHHHHHHHCCcEE
Confidence 688999999999999999999998887663
No 383
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=36.09 E-value=45 Score=30.20 Aligned_cols=34 Identities=18% Similarity=0.361 Sum_probs=28.9
Q ss_pred HHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 301 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 301 ~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.-|+..=+++++..||+.||+|...+...|.+..
T Consensus 170 ~GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 170 MGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred cCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3588878999999999999999998887776643
No 384
>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=35.97 E-value=73 Score=20.78 Aligned_cols=27 Identities=30% Similarity=0.226 Sum_probs=21.9
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 311 TIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
+++.+|+.+|+++..+..| +..|.+.+
T Consensus 2 ~~~e~a~~~gv~~~tlr~~----~~~g~l~~ 28 (49)
T cd04761 2 TIGELAKLTGVSPSTLRYY----ERIGLLSP 28 (49)
T ss_pred cHHHHHHHHCcCHHHHHHH----HHCCCCCC
Confidence 6789999999999987766 56677764
No 385
>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=35.93 E-value=42 Score=27.38 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=30.3
Q ss_pred HHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 299 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 299 ~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
.+.++++-+..+++..+|+.||+|..-+-..|-++
T Consensus 61 ~L~~~v~~~pd~tl~Ela~~l~Vs~~ti~~~Lkrl 95 (119)
T PF01710_consen 61 ELKALVEENPDATLRELAERLGVSPSTIWRALKRL 95 (119)
T ss_pred HHHHHHHHCCCcCHHHHHHHcCCCHHHHHHHHHHc
Confidence 36777778999999999999999999988887765
No 386
>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=35.89 E-value=44 Score=24.97 Aligned_cols=26 Identities=42% Similarity=0.652 Sum_probs=21.4
Q ss_pred HHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 312 IEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 312 l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
+..+|+.+|++..+ +.+|+.+|+|.+
T Consensus 47 ~~~lAk~~G~t~~~----l~~~~~~Gkit~ 72 (75)
T TIGR02675 47 LQALAKAMGVTRGE----LRKMLSDGKLTA 72 (75)
T ss_pred HHHHHHHhCCCHHH----HHHHHHCCCCcc
Confidence 45889999999775 678999999875
No 387
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=35.89 E-value=3.5e+02 Score=24.82 Aligned_cols=46 Identities=22% Similarity=0.301 Sum_probs=38.3
Q ss_pred HHHhcc-ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 300 YSQFLE-SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 300 ~~qy~~-pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
+.+.++ |=...|-+.+|++.|+|---+-+.|.-|+..|.+.+.|--
T Consensus 163 i~~~~~~~~~~~Taeela~~~giSRvTaRRYLeyl~~~~~l~a~i~y 209 (224)
T COG4565 163 VREALKEPDQELTAEELAQALGISRVTARRYLEYLVSNGILEAEIHY 209 (224)
T ss_pred HHHHHhCcCCccCHHHHHHHhCccHHHHHHHHHHHHhcCeeeEEeec
Confidence 333443 5578889999999999999999999999999999887643
No 388
>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=35.55 E-value=76 Score=21.56 Aligned_cols=28 Identities=21% Similarity=0.362 Sum_probs=23.9
Q ss_pred ccc-ccccHHHHHHHhCCChHHHHHHHHH
Q 016653 305 ESY-KSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 305 ~pY-~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
.|| +.-.+..||..+|+++..|..|..+
T Consensus 22 ~~~P~~~~~~~la~~~~l~~~qV~~WF~n 50 (59)
T cd00086 22 NPYPSREEREELAKELGLTERQVKIWFQN 50 (59)
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 455 6677999999999999999999765
No 389
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=35.47 E-value=2e+02 Score=24.77 Aligned_cols=42 Identities=17% Similarity=0.124 Sum_probs=34.1
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
.++-..||+.+|++.+.+-+.|.+|-.+|-|.. ..|.|...+
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~----~~~~i~I~d 184 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLISI----HKKKITVHD 184 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEe----cCCEEEEeC
Confidence 578899999999999999999999999887643 345566553
No 390
>TIGR02859 spore_sigH RNA polymerase sigma-H factor. Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt.
Probab=35.46 E-value=81 Score=27.54 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=32.5
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
..++.+...-+..++..| |...+++.+|+.+|+|+..+...+.+..
T Consensus 145 ~~l~~Ll~~~~~~i~~~~---~~~~s~~eIA~~l~~s~~tV~~~l~r~r 190 (198)
T TIGR02859 145 SKMNELLSDLEWKVLQSY---LDGKSYQEIACDLNRHVKSIDNALQRVK 190 (198)
T ss_pred HHHHHhcCHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 344444434444455556 7899999999999999999887776643
No 391
>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=35.42 E-value=1e+02 Score=22.42 Aligned_cols=51 Identities=16% Similarity=0.238 Sum_probs=41.9
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEE
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~ 352 (385)
+=+++..-...+++.+++..|++..++---|.=|..+++| .|+..+|.+.+
T Consensus 13 Vw~~L~~~~~~s~~el~k~~~l~~~~~~~AiGWLarE~KI--~~~~~~~~~~v 63 (65)
T PF10771_consen 13 VWQLLNENGEWSVSELKKATGLSDKEVYLAIGWLARENKI--EFEEKNGELYV 63 (65)
T ss_dssp HHHHHCCSSSEEHHHHHHHCT-SCHHHHHHHHHHHCTTSE--EEEEETTEEEE
T ss_pred HHHHHhhCCCcCHHHHHHHhCcCHHHHHHHHHHHhccCce--eEEeeCCEEEE
Confidence 5577777889999999999999999999999999999998 45566666554
No 392
>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=35.35 E-value=40 Score=21.59 Aligned_cols=20 Identities=30% Similarity=0.293 Sum_probs=15.4
Q ss_pred cHHHHHHHhCCChHHHHHHH
Q 016653 311 TIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~L 330 (385)
+|+.+|+.+|+|+..+-.|=
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 57899999999999865553
No 393
>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=35.31 E-value=40 Score=23.20 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=18.8
Q ss_pred cccHHHHHHHhCCChHHHHHHH
Q 016653 309 SVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L 330 (385)
.+++..+|+.+|+++.++-+.|
T Consensus 3 ~i~V~elAk~l~v~~~~ii~~l 24 (54)
T PF04760_consen 3 KIRVSELAKELGVPSKEIIKKL 24 (54)
T ss_dssp EE-TTHHHHHHSSSHHHHHHHH
T ss_pred ceEHHHHHHHHCcCHHHHHHHH
Confidence 5789999999999999987777
No 394
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=35.23 E-value=4e+02 Score=25.37 Aligned_cols=75 Identities=12% Similarity=0.007 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhh
Q 016653 96 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERK 173 (385)
Q Consensus 96 ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~--~~~~~~~ 173 (385)
-..++.++++-+..+|+++.+.+.+.++.+.-+- .-.++..+++.+.-.|+...+...+.+.+.+... |.+|..+
T Consensus 152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~---~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~ 228 (280)
T COG3629 152 FIKALTKLAEALIACGRADAVIEHLERLIELDPY---DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPE 228 (280)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc---chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHH
Confidence 3567888999999999999999999987654321 2257788899999999999999999999886433 5555443
No 395
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=35.15 E-value=48 Score=21.85 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=17.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
.-.++..||..||.++.-|-++|-+
T Consensus 19 ~G~s~~~IA~~lg~s~sTV~relkR 43 (44)
T PF13936_consen 19 QGMSIREIAKRLGRSRSTVSRELKR 43 (44)
T ss_dssp S---HHHHHHHTT--HHHHHHHHHH
T ss_pred cCCCHHHHHHHHCcCcHHHHHHHhc
Confidence 6689999999999999999888753
No 396
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=35.05 E-value=1.9e+02 Score=29.96 Aligned_cols=125 Identities=21% Similarity=0.142 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHh--------
Q 016653 76 ELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFY-------- 147 (385)
Q Consensus 76 ~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~-------- 147 (385)
.+.-...++|.+.+..+.. -++..-++.++|-.||+.+|.|.+...--.|...+-+. ..+-.+|+.
T Consensus 221 ~Lk~~krevK~vmn~a~~s--~~~l~LKsq~eY~~gn~~kA~KlL~~sni~~~~g~~~T----~q~~~cif~NNlGcIh~ 294 (696)
T KOG2471|consen 221 NLKLAKREVKHVMNIAQDS--SMALLLKSQLEYAHGNHPKAMKLLLVSNIHKEAGGTIT----PQLSSCIFNNNLGCIHY 294 (696)
T ss_pred HHHHHHHhhhhhhhhcCCC--cHHHHHHHHHHHHhcchHHHHHHHHhcccccccCcccc----chhhhheeecCcceEee
Confidence 3444555666665555543 36777889999999999999999987654442221111 111112221
Q ss_pred --cCHHHHHhHHHHHHH----HHhcCCChh-----hhh---hhhHHHHHhccccCCHHHHHHHHHhccccCCc
Q 016653 148 --MDFDLISKSIDKAKS----LFEEGGDWE-----RKN---RLKVYEGLYCMSTRNFKKAASLFLDSISTFTT 206 (385)
Q Consensus 148 --~~~~~~~~~i~ka~~----~~~~~~~~~-----~~~---~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~ 206 (385)
|.+.....+..||-. .+..|-.+. .+| .|-.-.|+.+++.|.-..|+++|.++...|..
T Consensus 295 ~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~ 367 (696)
T KOG2471|consen 295 QLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHR 367 (696)
T ss_pred ehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhc
Confidence 222222223333321 122121111 122 34444899999999999999999998877754
No 397
>KOG3877 consensus NADH:ubiquinone oxidoreductase, NDUFA10/42kDa subunit [Energy production and conversion]
Probab=34.67 E-value=2.4e+02 Score=27.05 Aligned_cols=67 Identities=18% Similarity=0.314 Sum_probs=49.5
Q ss_pred HHHhccHHHHHHHHHHhHHH---------hhhch----------hHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHH
Q 016653 258 SLYDCQYKSFFSAFAGLTEQ---------IKLDR----------YLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKA 318 (385)
Q Consensus 258 ~f~~~~y~~~~~~L~~~~~~---------l~~D~----------~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~ 318 (385)
-.|+|+|.++.++|+.+-+. .-.|+ |++.....-+.++|...+-|++.||-.|-|
T Consensus 151 r~y~~R~~QY~dAL~HiL~TGQGVVLERsp~SDFVF~eAM~~qgyi~~~~~~hYnevr~nti~~ll~PHLViYl------ 224 (393)
T KOG3877|consen 151 RIYNCRFDQYLDALAHILNTGQGVVLERSPHSDFVFAEAMRDQGYIGHEYFKHYNEVRKNTIPQLLWPHLVIYL------ 224 (393)
T ss_pred HHHHhHHHHHHHHHHHHHhcCCeEEEecCcchhHHHHHHHHhcCcchhHHHHHHHHHHhhhhhhhcCccEEEEE------
Confidence 46889999999999877542 22333 445555677889999999999999998874
Q ss_pred hCCChHHHHHHHH
Q 016653 319 FGVTVEFIDVELS 331 (385)
Q Consensus 319 fg~s~~~iE~~L~ 331 (385)
+++++.+.+.|-
T Consensus 225 -d~Pv~~v~~~Ik 236 (393)
T KOG3877|consen 225 -DTPVNKVLENIK 236 (393)
T ss_pred -cCCcHHHHHHHH
Confidence 678887766553
No 398
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=34.57 E-value=1.1e+02 Score=23.92 Aligned_cols=39 Identities=10% Similarity=0.204 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
+..+...+-..+ ...++++.||+.+|+|+..+.+...+.
T Consensus 7 ~~~~~~~i~~~~---~~~~~~~~lA~~~~~S~~~l~r~f~~~ 45 (107)
T PRK10219 7 IQTLIAWIDEHI---DQPLNIDVVAKKSGYSKWYLQRMFRTV 45 (107)
T ss_pred HHHHHHHHHHhc---CCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 344443333344 556999999999999999887766553
No 399
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=34.50 E-value=3e+02 Score=24.98 Aligned_cols=69 Identities=17% Similarity=0.162 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHhCCHH-------HHHHHHHHHHhhhcc---chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 95 EVREAHLAKSLFYIQIGDKE-------KALEQLKVTESKTVA---VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~-------~A~~~~~~~~~~~~~---~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
.+....+++|=+|.+.||.+ .|++.|.+..+.-.. .-....+...+-.++.-.|+++.|...++++-..
T Consensus 116 ~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~ 194 (214)
T PF09986_consen 116 KKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGS 194 (214)
T ss_pred HHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcC
Confidence 44555889999999999954 455555554433322 1122334455556677778888887777775554
No 400
>PF13551 HTH_29: Winged helix-turn helix
Probab=34.42 E-value=69 Score=25.02 Aligned_cols=36 Identities=22% Similarity=0.387 Sum_probs=29.4
Q ss_pred ccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 308 KSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 308 ~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
.-. +...+|+.+|+|...+-+|+.++=.+| +.+-.+
T Consensus 10 ~g~~~~~~ia~~lg~s~~Tv~r~~~~~~~~G-~~~l~~ 46 (112)
T PF13551_consen 10 EGVSTIAEIARRLGISRRTVYRWLKRYREGG-IEGLLP 46 (112)
T ss_pred cCCCcHHHHHHHHCcCHHHHHHHHHHHHccc-HHHHHh
Confidence 444 699999999999999999999988777 545444
No 401
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.09 E-value=4.1e+02 Score=25.11 Aligned_cols=114 Identities=17% Similarity=0.175 Sum_probs=58.7
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHH--------------------HHHHHhcC
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTL--------------------QLGFFYMD 149 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~--~~~~~~id~~l~~i--------------------~~~i~~~~ 149 (385)
.-.|+.+-..+-...|.++|..+-|.-.+.+.-.-. ..++.-+.++-.-+ |+.+-...
T Consensus 86 klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~k 165 (308)
T KOG1585|consen 86 KLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEK 165 (308)
T ss_pred HhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHH
Confidence 345566666677777788887777766666654332 22333333222222 22222222
Q ss_pred HHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhc--cccCC
Q 016653 150 FDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDS--ISTFT 205 (385)
Q Consensus 150 ~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~--~~t~~ 205 (385)
+..+...+.|-..........-...|.-+...+.+|+..||..|-..|-++ ++.|.
T Consensus 166 f~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~ 223 (308)
T KOG1585|consen 166 FTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFL 223 (308)
T ss_pred hhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCcccc
Confidence 232222222222221111111123444555667899999999999999886 45554
No 402
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=34.01 E-value=2e+02 Score=22.95 Aligned_cols=53 Identities=13% Similarity=0.264 Sum_probs=29.7
Q ss_pred HhhhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHH
Q 016653 277 QIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 277 ~l~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
.+....+--|....+...+|.+.+.+- |.--+...+|..+|+|...|-+-|.+
T Consensus 43 ~~gG~~iyiP~~~~~~~~~R~~~I~~~---f~G~n~~eLA~kyglS~r~I~~Ii~~ 95 (108)
T PF08765_consen 43 YFGGQQIYIPKCDRLLRALRNREIRRE---FNGMNVRELARKYGLSERQIYRIIKR 95 (108)
T ss_dssp HH-SS------SHHHHHHHHHHHHHHH-----SS-HHHHHHHHT--HHHHHHHHHH
T ss_pred HHCCEeEEeeCccHHHHHHHHHHHHHH---hCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 334444444555666777887666665 56888999999999998877666554
No 403
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=34.00 E-value=6.2e+02 Score=27.16 Aligned_cols=98 Identities=13% Similarity=0.150 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-cc-chhHH---HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCC
Q 016653 95 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKT-VA-VGQKM---DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGD 169 (385)
Q Consensus 95 ~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~-~~-~~~~i---d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~ 169 (385)
+.|.-+..+|--+.-.|++..|.+.+......+ ++ ..+.. ++.+-...+-+..|....+.+.+. + ..
T Consensus 141 ~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~------~--~e 212 (700)
T KOG1156|consen 141 SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLL------D--NE 212 (700)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHH------h--hh
Confidence 344456666666666677777776666665555 12 22222 233333444444444333222111 1 01
Q ss_pred hhhhhhhhH--HHHHhccccCCHHHHHHHHHhc
Q 016653 170 WERKNRLKV--YEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 170 ~~~~~~l~~--~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
+..-.++.+ -.|-..+..+++++|...+.-.
T Consensus 213 ~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~L 245 (700)
T KOG1156|consen 213 KQIVDKLAFEETKADLLMKLGQLEEAVKVYRRL 245 (700)
T ss_pred hHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHH
Confidence 122223332 3556667777888777655443
No 404
>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=33.95 E-value=57 Score=28.96 Aligned_cols=33 Identities=18% Similarity=0.271 Sum_probs=30.1
Q ss_pred ccHHHHHHHhCCC-hHHHHHHHHHHHhCCccceE
Q 016653 310 VTIEAMAKAFGVT-VEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 310 I~l~~mA~~fg~s-~~~iE~~L~~lI~~g~l~ak 342 (385)
.+...||+.+|++ ..-+-..|..|...|-|...
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~ 59 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIERD 59 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecC
Confidence 8899999999998 99999999999999987654
No 405
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=33.39 E-value=1.3e+02 Score=27.23 Aligned_cols=62 Identities=11% Similarity=0.161 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 290 YYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+.+.|+.++...-+.|=..+ +-..||+.||+|..-+-+-|..|+.+|-|.-+ +..|+.+..
T Consensus 4 qi~~~l~~~I~~g~~~~G~~LPsE~eLa~~~gVSR~TVR~Al~~L~~eGli~r~--~G~GTfV~~ 66 (233)
T TIGR02404 4 QIYQDLEQKITHGQYKEGDYLPSEHELMDQYGASRETVRKALNLLTEAGYIQKI--QGKGSIVLN 66 (233)
T ss_pred HHHHHHHHHHHhCCCCCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--CCceEEEec
Confidence 455667777777777777777 68899999999999999999999999988554 445665543
No 406
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=33.26 E-value=5.9e+02 Score=26.71 Aligned_cols=224 Identities=15% Similarity=0.185 Sum_probs=110.2
Q ss_pred HhHHHHHHHHHHhCCCHHHHHHHHHhcCCC-----CCHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhCHHHHHHHHHH
Q 016653 31 VGLKGEVFSMVKAHDMASFYETLVAESVLE-----MDQSVLDSMRT---KIEDELKKLDDRIADAEENLGESEVREAHLA 102 (385)
Q Consensus 31 ~~~~~~~~~~ik~~~m~~~y~~~~~~~~~~-----~D~~~~~~~~~---~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~ 102 (385)
.+|.. .++.++...-++||..+...+-.. .-+-| +++.+ +-....-.+..++ +..+++---.-++.+
T Consensus 136 ReLa~-~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evW-eKL~~~i~dD~D~fl~l~~ki---qt~lg~~~~~Vl~qd 210 (711)
T COG1747 136 RELAD-KYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVW-EKLPELIGDDKDFFLRLQKKI---QTKLGEGRGSVLMQD 210 (711)
T ss_pred HHHHH-HHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHH-HHHHHhccccHHHHHHHHHHH---HHhhccchHHHHHHH
Confidence 44544 667777777777777666554210 01111 11111 0111111122222 222232222345777
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHH-HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH---
Q 016653 103 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKM-DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV--- 178 (385)
Q Consensus 103 la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~i-d~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~--- 178 (385)
+-++|-...++++|++.+..+.+.-.. ++.. .-+..-+|.- +.+.+...+++.+.. ++..+ +|-..+
T Consensus 211 v~~~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~lRd~--y~~~~~~e~yl~~s~--i~~~~----rnf~~~l~d 281 (711)
T COG1747 211 VYKKYSENENWTEAIRILKHILEHDEK-DVWARKEIIENLRDK--YRGHSQLEEYLKISN--ISQSG----RNFFEALND 281 (711)
T ss_pred HHHHhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHHHHHH--hccchhHHHHHHhcc--hhhcc----ccHHHHHHH
Confidence 888999999999999999877654211 1100 0111111111 123333444443221 22111 222222
Q ss_pred HHHHhccccCCHHHHHH---------HHHh-ccccCCcCccCCHhHHHHHHHHHHHhhCChhHHH--hhccCChHHHHHh
Q 016653 179 YEGLYCMSTRNFKKAAS---------LFLD-SISTFTTYELFPYDTFIFYTVLTSIISLDRVSLK--QKVVDAPEILTVI 246 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~---------~f~e-~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R~~lk--~~v~~~~e~~~~l 246 (385)
+.-+++++.|+|-=+.. .|-+ ..-.| .... +-++..=+++.++-.++|.++. +++.+-.++-.+.
T Consensus 282 Fek~m~f~eGnFVfHqtWgVG~i~~VsfqqkvlidF--~~~r-ah~I~femA~saL~pLs~edi~vlk~v~~~d~laa~a 358 (711)
T COG1747 282 FEKLMHFDEGNFVFHQTWGVGEIMGVSFQQKVLIDF--EGRR-AHDISFEMAFSALQPLSKEDIFVLKRVGDPDDLAAFA 358 (711)
T ss_pred HHHHheeccCceEEecccccceeeecccccceeeee--hhhh-hhhhhHHHHHHHhCcCCccceehhhhcCCHHHHHHHH
Confidence 24456777777721111 1100 00111 1222 5577777888999888876632 2344444566667
Q ss_pred cCcch--HHHHHHHHHhccHHHHHHHH
Q 016653 247 GKIPY--LSEFLNSLYDCQYKSFFSAF 271 (385)
Q Consensus 247 ~~~p~--~~~li~~f~~~~y~~~~~~L 271 (385)
..+|. +.-++++|-.++.++.-+.|
T Consensus 359 rkdpewAikviiks~~~~nlKeIK~EL 385 (711)
T COG1747 359 RKDPEWAIKVIIKSLGPKNLKEIKQEL 385 (711)
T ss_pred hhChHHHHHHHHHhcCCccHHHHHHHH
Confidence 77775 77888888888877766555
No 407
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=33.26 E-value=1e+02 Score=27.72 Aligned_cols=45 Identities=29% Similarity=0.261 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhccccc--cccHHHHHHHhCCChHHHHHHHHHHHhCC
Q 016653 293 REVRTVVYSQFLESYK--SVTIEAMAKAFGVTVEFIDVELSRFIAAG 337 (385)
Q Consensus 293 ~~iR~~~~~qy~~pY~--~I~l~~mA~~fg~s~~~iE~~L~~lI~~g 337 (385)
+.=|...+.+++.... .|+.+.+|+.||+|+..+-+.|..+=..|
T Consensus 14 r~~~~~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~~l~~~G 60 (213)
T PRK05472 14 RLPLYYRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLSYFGEFG 60 (213)
T ss_pred HhHHHHHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHHHHHhcC
Confidence 4456666778888887 99999999999999999999998884444
No 408
>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]
Probab=32.96 E-value=2.9e+02 Score=26.13 Aligned_cols=96 Identities=8% Similarity=0.004 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh---c------c------chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKT---V------A------VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~---~------~------~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
++..-|+-+|..|+|.+|...|..+.--. . + ...+.-++++-.++.+-.+++..|.+.-+. .
T Consensus 180 ~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~se---i 256 (329)
T KOG0545|consen 180 VLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSE---I 256 (329)
T ss_pred HHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHH---H
Confidence 46777888999999999999988753211 0 0 123445778888888888888888665443 3
Q ss_pred HhcCCChhhhhhhhHH--HHHhccccCCHHHHHHHHHhccc
Q 016653 164 FEEGGDWERKNRLKVY--EGLYCMSTRNFKKAASLFLDSIS 202 (385)
Q Consensus 164 ~~~~~~~~~~~~l~~~--~gl~~l~~r~~~~Aa~~f~e~~~ 202 (385)
+.... ...|+| .|.++...-|-.+|-..|..++.
T Consensus 257 L~~~~-----~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ 292 (329)
T KOG0545|consen 257 LRHHP-----GNVKAYFRRAKAHAAVWNEAEAKADLQKVLE 292 (329)
T ss_pred HhcCC-----chHHHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence 33211 112333 55556666666677777777653
No 409
>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=32.72 E-value=1.4e+02 Score=21.21 Aligned_cols=40 Identities=15% Similarity=0.219 Sum_probs=31.3
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
+..++-.+-+.++..+++.-|+|+..+-+-|+-||.-+=+
T Consensus 18 V~~~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v 57 (62)
T PF08221_consen 18 VGEVLLSRGRLTLREIVRRTGLSPKQVKKALVVLIQHNLV 57 (62)
T ss_dssp HHHHHHHC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCe
Confidence 3445566789999999999999999999999999987644
No 410
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=32.62 E-value=1.1e+02 Score=25.43 Aligned_cols=46 Identities=9% Similarity=0.153 Sum_probs=33.4
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
.+..+-..-|.-....| +...+...+|+.+|+|+..+...+.+.+.
T Consensus 103 ~l~~L~~~~r~ii~l~~---~~~~s~~EIA~~l~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 103 FMSVLDEKEKYIIFERF---FVGKTMGEIALETEMTYYQVRWIYRQALE 148 (154)
T ss_pred HHHhCCHHHHHHHHHHH---hcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 33444444455445567 67788999999999999999999887543
No 411
>PF13959 DUF4217: Domain of unknown function (DUF4217)
Probab=32.60 E-value=1.7e+02 Score=21.00 Aligned_cols=20 Identities=25% Similarity=0.403 Sum_probs=16.5
Q ss_pred hccccccccHHHHHHHhCCC
Q 016653 303 FLESYKSVTIEAMAKAFGVT 322 (385)
Q Consensus 303 y~~pY~~I~l~~mA~~fg~s 322 (385)
.+-..+.+++..+|..||+.
T Consensus 39 ~iF~~~~L~l~~~A~sfGL~ 58 (65)
T PF13959_consen 39 DIFNVKKLDLGHLAKSFGLL 58 (65)
T ss_pred hhCCcccCCHHHHHHHcCCC
Confidence 44556889999999999984
No 412
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=32.56 E-value=1.8e+02 Score=20.63 Aligned_cols=28 Identities=29% Similarity=0.284 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
++..-.-|.+.|++++|.+++.++...+
T Consensus 26 hLqvI~gllqlg~~~~a~eYi~~~~~~~ 53 (62)
T PF14689_consen 26 HLQVIYGLLQLGKYEEAKEYIKELSKDL 53 (62)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 4445556788899999998888876554
No 413
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=32.51 E-value=2.8e+02 Score=22.67 Aligned_cols=38 Identities=18% Similarity=0.204 Sum_probs=31.4
Q ss_pred hhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 90 NLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 90 n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
++-.+.-++++..+|.-+...|++++|...+.+.....
T Consensus 31 gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~ 68 (120)
T PF12688_consen 31 GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF 68 (120)
T ss_pred CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 44445557789999999999999999999999887654
No 414
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=32.47 E-value=2.9e+02 Score=22.92 Aligned_cols=42 Identities=12% Similarity=0.096 Sum_probs=34.7
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccce
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 341 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~a 341 (385)
+..+......++++.+|+.+|+|...+-..|.+|...|-|.-
T Consensus 13 I~~l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~ 54 (142)
T PRK03902 13 IYLLIEEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIY 54 (142)
T ss_pred HHHHHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEE
Confidence 334445556779999999999999999999999999997753
No 415
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=32.41 E-value=1.3e+02 Score=23.24 Aligned_cols=37 Identities=22% Similarity=0.228 Sum_probs=34.0
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 306 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 306 pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
.|+-||-+.+|+.|+++..-.-+-|.+|-..|-|...
T Consensus 38 ~~K~ITps~lserlkI~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 38 KEKIVTPYTLASKYGIKISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred cCcEEcHHHHHHHhcchHHHHHHHHHHHHHCCCEEEE
Confidence 3899999999999999999999999999999988655
No 416
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=32.24 E-value=2.4e+02 Score=27.88 Aligned_cols=48 Identities=8% Similarity=-0.054 Sum_probs=31.5
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhc----cchhHHHhHHHHHHHHHHhc
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTV----AVGQKMDLVFYTLQLGFFYM 148 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~----~~~~~id~~l~~i~~~i~~~ 148 (385)
-..|+-|++.|.|++|+.||.+...... ..-.....+|.+=+.++...
T Consensus 101 KE~GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~ 152 (536)
T KOG4648|consen 101 KERGNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEE 152 (536)
T ss_pred HHhhhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHH
Confidence 4568899999999999999998765432 22334445555444443333
No 417
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=32.05 E-value=2.7e+02 Score=22.43 Aligned_cols=62 Identities=19% Similarity=0.040 Sum_probs=43.0
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccc--------h----hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 104 SLFYIQIGDKEKALEQLKVTESKTVAV--------G----QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 104 a~~~~~~Gd~~~A~~~~~~~~~~~~~~--------~----~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
..-..+.+|+++|.+...++.+..... + ..++..+..++.++..+|...+...+..++..++
T Consensus 35 i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~i~~sl~rl~~~i~~~dk~~~l~el~~lk~~i~ 108 (121)
T PF14276_consen 35 IEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDNIDISLARLKGYIEAKDKSESLAELAELKELIE 108 (121)
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 344566788888888877765443211 1 1356777778888888888888888888887764
No 418
>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=31.97 E-value=54 Score=21.06 Aligned_cols=28 Identities=25% Similarity=0.298 Sum_probs=21.6
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 311 TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
++..+|+.+|+++..+-+|+ ..|.+.+.
T Consensus 2 s~~e~a~~lgvs~~tl~~~~----~~g~~~~~ 29 (49)
T cd04762 2 TTKEAAELLGVSPSTLRRWV----KEGKLKAI 29 (49)
T ss_pred CHHHHHHHHCcCHHHHHHHH----HcCCCCce
Confidence 67889999999988866554 46777664
No 419
>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=31.54 E-value=48 Score=23.72 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=18.4
Q ss_pred HhCCChHHHHHHHHHHHhCCccceE
Q 016653 318 AFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 318 ~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
.++.|.++++..|.+++.+|+|.+.
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 3567899999999999999999764
No 420
>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=31.51 E-value=2.5e+02 Score=21.77 Aligned_cols=48 Identities=15% Similarity=0.261 Sum_probs=40.4
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcCC
Q 016653 306 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 355 (385)
Q Consensus 306 pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~~ 355 (385)
....++-+.||+.+|++.+-+-+.|.+|...|-|. .+...|.+-+|.+
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~--r~~~~~~~~~n~~ 91 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF--RQGMMGIVGVNTP 91 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee--eecCCceeecCCC
Confidence 46788899999999999999999999999999885 4555678777743
No 421
>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=31.41 E-value=1.4e+02 Score=26.96 Aligned_cols=64 Identities=14% Similarity=0.260 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHHHhccccccc-cHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 288 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I-~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
...+.+.|+.++...-+.|=+.+ +=..||+.||+|..-+-+-|..|+.+|-|.-+ +..|+....
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 45666777777777676777777 78899999999999999999999999988655 556666653
No 422
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=31.33 E-value=3e+02 Score=22.77 Aligned_cols=44 Identities=14% Similarity=0.093 Sum_probs=39.4
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEE
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 350 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv 350 (385)
...++.+.+|+.+|++..-+-+.|.+|...|-|.=..|..++-.
T Consensus 52 ~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~ 95 (144)
T PRK11512 52 AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRG 95 (144)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCe
Confidence 35799999999999999999999999999999988888777633
No 423
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=31.26 E-value=2.9e+02 Score=22.54 Aligned_cols=64 Identities=14% Similarity=0.067 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEE
Q 016653 288 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~ 352 (385)
...+-+..|.+++..... ...++...+|+.||++...+-+.|..|-..|-+..+-+...-....
T Consensus 10 fkaLadptRl~IL~~L~~-~~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l 73 (117)
T PRK10141 10 FKILSDETRLGIVLLLRE-SGELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRL 73 (117)
T ss_pred HHHhCCHHHHHHHHHHHH-cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEE
Confidence 345566677777766643 2468889999999999999999999999999998877765544333
No 424
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=30.62 E-value=3.4e+02 Score=29.40 Aligned_cols=105 Identities=16% Similarity=0.086 Sum_probs=58.1
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh--------ccchhHHHhHHHH-H------HHHHHhcCHHHHHhH
Q 016653 92 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT--------VAVGQKMDLVFYT-L------QLGFFYMDFDLISKS 156 (385)
Q Consensus 92 ~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~--------~~~~~~id~~l~~-i------~~~i~~~~~~~~~~~ 156 (385)
+...+......+|+.+.+.|=...|+..+.+..-.+ .+..+|.+.+... + +++-..||..+=...
T Consensus 393 ~lpp~Wq~q~~laell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~ 472 (777)
T KOG1128|consen 393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSL 472 (777)
T ss_pred CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHH
Confidence 445566678889999999999999999998753221 1111222211111 1 122223333333333
Q ss_pred HHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhcc
Q 016653 157 IDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 201 (385)
Q Consensus 157 i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~ 201 (385)
.+||-++-+ .+.+|-+.+-|.....+++|..+-.+|-.++
T Consensus 473 yEkawElsn-----~~sarA~r~~~~~~~~~~~fs~~~~hle~sl 512 (777)
T KOG1128|consen 473 YEKAWELSN-----YISARAQRSLALLILSNKDFSEADKHLERSL 512 (777)
T ss_pred HHHHHHHhh-----hhhHHHHHhhccccccchhHHHHHHHHHHHh
Confidence 333333321 2234445556666667788888888876664
No 425
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=30.51 E-value=58 Score=23.23 Aligned_cols=24 Identities=21% Similarity=0.501 Sum_probs=17.6
Q ss_pred HHHHHHHhCCChHHHHHHHHHHHh
Q 016653 312 IEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 312 l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
.+.+++.|+++++.+++.+..++.
T Consensus 36 ~~~l~~~y~~~~~~~~~dv~~fl~ 59 (68)
T PF05402_consen 36 VDALAEEYDVDPEEAEEDVEEFLE 59 (68)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHH
Confidence 456788899999988888888775
No 426
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=30.11 E-value=96 Score=26.89 Aligned_cols=44 Identities=11% Similarity=0.192 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 288 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
+..|-..-|.-....| +...+.+.+|+.||+|+..+...+.+.-
T Consensus 135 l~~L~~~~r~i~~l~~---~~g~s~~eIA~~lgis~~~v~~~l~Rar 178 (187)
T PRK12534 135 LAELEPPRSELIRTAF---FEGITYEELAARTDTPIGTVKSWIRRGL 178 (187)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCChhHHHHHHHHHH
Confidence 3344444444444455 6889999999999999999988887643
No 427
>COG1516 FliS Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=30.01 E-value=3.2e+02 Score=22.97 Aligned_cols=51 Identities=16% Similarity=0.186 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhhccchhHHHhHH-------HHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 016653 115 KALEQLKVTESKTVAVGQKMDLVF-------YTLQLGFFYMDFDLISKSIDKAKSLFE 165 (385)
Q Consensus 115 ~A~~~~~~~~~~~~~~~~~id~~l-------~~i~~~i~~~~~~~~~~~i~ka~~~~~ 165 (385)
+|.+.|.+......||.+.+.|++ ...+.++..+|+.+....+.||...+.
T Consensus 5 ~~~~aY~qn~V~taSP~~Li~MLyeg~l~~l~~A~~aie~~~i~~k~~~i~ka~~Ii~ 62 (132)
T COG1516 5 NAYQAYQQNQVNTASPHKLILMLYEGALKFLKRAKEAIEQEDIEEKNESIDKAIDIIT 62 (132)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 467777777655666666655443 334567788888888888888888775
No 428
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=29.77 E-value=5.7e+02 Score=25.64 Aligned_cols=63 Identities=17% Similarity=0.247 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 163 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 163 (385)
.+++.+|--|.+.++|..|+++..++.+.-. ...-.++..-+..+..++++.|...+.|+-.+
T Consensus 258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~---~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 258 ACHLNLAACYLKLKEYKEAIESCNKVLELDP---NNVKALYRRGQALLALGEYDLARDDFQKALKL 320 (397)
T ss_pred HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC---CchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence 3489999999999999999999988876432 22345677888889999999999999998876
No 429
>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=29.59 E-value=1.4e+02 Score=21.34 Aligned_cols=29 Identities=14% Similarity=0.257 Sum_probs=25.7
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCc
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGK 338 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~ 338 (385)
.+.+.+|+.||+|...+.+.+..|-..|-
T Consensus 14 ~~~~eLa~~l~vS~~tv~~~l~~L~~~g~ 42 (69)
T TIGR00122 14 FSGEKLGEALGMSRTAVNKHIQTLREWGV 42 (69)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 45899999999999999999999877665
No 430
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=29.51 E-value=1.2e+02 Score=26.37 Aligned_cols=46 Identities=9% Similarity=0.191 Sum_probs=34.3
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
..++.+-..-|.-....| +...+.+.+|+.+|+|+..+...+.+..
T Consensus 129 ~~l~~L~~~~r~i~~l~~---~~~~s~~eIA~~lgis~~tV~~~l~ra~ 174 (182)
T PRK12537 129 RCLEQLEPARRNCILHAY---VDGCSHAEIAQRLGAPLGTVKAWIKRSL 174 (182)
T ss_pred HHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCChhhHHHHHHHHH
Confidence 334444445555455556 7889999999999999999999887754
No 431
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=29.32 E-value=1e+02 Score=26.46 Aligned_cols=45 Identities=11% Similarity=0.208 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.++.+-..-|.-....| +.-.+.+.+|+.+|+|+..+...+.+..
T Consensus 126 ~l~~L~~~~r~i~~l~~---~~g~s~~eIA~~lgis~~tV~~~l~Rar 170 (179)
T PRK12514 126 CLEELEKDRAAAVRRAY---LEGLSYKELAERHDVPLNTMRTWLRRSL 170 (179)
T ss_pred HHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCChHHHHHHHHHHH
Confidence 34444445555555666 5667899999999999999988887643
No 432
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=29.10 E-value=1.3e+02 Score=25.33 Aligned_cols=47 Identities=17% Similarity=0.248 Sum_probs=35.1
Q ss_pred hHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 285 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 285 ~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
...++.+=..-|.-....| +.-.+...+|+.+|+|+..+...+.+..
T Consensus 101 ~~~l~~Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Rar 147 (160)
T PRK09642 101 AQKLRELPENYRDVVLAHY---LEEKSYQEIALQEKIEVKTVEMKLYRAR 147 (160)
T ss_pred HHHHHhCCHHHHHHHHHHH---HhCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444455555566555667 7889999999999999999988877643
No 433
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=29.05 E-value=5.4e+02 Score=25.76 Aligned_cols=131 Identities=15% Similarity=0.148 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch-----hH-HHhHHHHHHHHH-
Q 016653 73 IEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG-----QK-MDLVFYTLQLGF- 145 (385)
Q Consensus 73 ~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~-----~~-id~~l~~i~~~i- 145 (385)
.++-++-+|..++-+.+|.-..==.+....||.+|....|+++|+-...+..+...+.+ .+ --+.+--+.+++
T Consensus 138 fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR 217 (518)
T KOG1941|consen 138 FQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALR 217 (518)
T ss_pred HHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHH
Confidence 35667777777777666532211123467889999999999999988877766543322 11 112232333333
Q ss_pred HhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhcccc
Q 016653 146 FYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST 203 (385)
Q Consensus 146 ~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t 203 (385)
..|..-.++++-..|..+--..||....++--.+.|=.+=..++-..|+..+=++..+
T Consensus 218 ~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~ 275 (518)
T KOG1941|consen 218 LLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGT 275 (518)
T ss_pred HhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHH
Confidence 2356666666666666653334666666655555555556677777777776665543
No 434
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=29.01 E-value=2e+02 Score=24.45 Aligned_cols=50 Identities=12% Similarity=0.140 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 016653 73 IEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESK 126 (385)
Q Consensus 73 ~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~ 126 (385)
.++=+.-|+.-++ ..-.++-|+-.+-||--+|+.|+|+.|.++...+.+.
T Consensus 51 v~~GI~iLe~l~~----~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~ 100 (149)
T KOG3364|consen 51 VQEGIVILEDLLK----SAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLET 100 (149)
T ss_pred HHHhHHHHHHHhh----hcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhh
Confidence 3444566666554 1233556888899999999999999999988776654
No 435
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=28.99 E-value=2.9e+02 Score=22.77 Aligned_cols=41 Identities=15% Similarity=0.105 Sum_probs=36.6
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCE
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGV 349 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~gi 349 (385)
.++.+.+|+.+|++...+-+.+.+|...|-|.=.-|..++-
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR 86 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRR 86 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcC
Confidence 46789999999999999999999999999998888777763
No 436
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=28.89 E-value=91 Score=21.32 Aligned_cols=28 Identities=18% Similarity=0.354 Sum_probs=22.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
=...+...+|..||+|...+-+.+...+
T Consensus 17 R~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 17 RLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 3567889999999999998887776654
No 437
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=28.85 E-value=2.5e+02 Score=21.04 Aligned_cols=28 Identities=14% Similarity=-0.073 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTESKT 127 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~ 127 (385)
+...|-=.=+.|+|++|+.+|.+..++.
T Consensus 9 ~a~~Ave~D~~g~y~eA~~~Y~~aie~l 36 (76)
T cd02681 9 FARLAVQRDQEGRYSEAVFYYKEAAQLL 36 (76)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 3444555667899999999999887765
No 438
>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=28.66 E-value=90 Score=21.91 Aligned_cols=36 Identities=22% Similarity=0.170 Sum_probs=29.4
Q ss_pred HHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 300 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 300 ~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
+.+++-++=-||...+|+.+|+|..-+.+.+.+|-.
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 345555667799999999999999999998877655
No 439
>PRK00215 LexA repressor; Validated
Probab=28.53 E-value=86 Score=27.93 Aligned_cols=34 Identities=15% Similarity=0.224 Sum_probs=30.6
Q ss_pred cccHHHHHHHhCC-ChHHHHHHHHHHHhCCccceE
Q 016653 309 SVTIEAMAKAFGV-TVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 309 ~I~l~~mA~~fg~-s~~~iE~~L~~lI~~g~l~ak 342 (385)
..++..||+.+|+ +..-+-+.|..|...|-|.-.
T Consensus 23 ~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~ 57 (205)
T PRK00215 23 PPSRREIADALGLRSPSAVHEHLKALERKGFIRRD 57 (205)
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeC
Confidence 4689999999999 999999999999999988543
No 440
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 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 WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=28.52 E-value=6.5e+02 Score=25.66 Aligned_cols=164 Identities=13% Similarity=0.042 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHH
Q 016653 66 LDSMRTKIEDELKKLDDRIADAEENLGESEVREA-HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLG 144 (385)
Q Consensus 66 ~~~~~~~~~~~l~~Le~~l~~~~~n~~~~~ir~a-~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~ 144 (385)
....+-+..--...+++-++-...+.+-..|-.. ..+.+.|+.+.|-.+.|+ +....--....++
T Consensus 263 ~~~~~fk~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL--------------~~~~D~~~rFeLA 328 (443)
T PF04053_consen 263 LSELEFKTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELAL--------------QFVTDPDHRFELA 328 (443)
T ss_dssp HHHHHHHHHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHH--------------HHSS-HHHHHHHH
T ss_pred HHHHHHHHHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHH--------------hhcCChHHHhHHH
Q ss_pred HHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHH
Q 016653 145 FFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSI 224 (385)
Q Consensus 145 i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al 224 (385)
+..||.+.|.+........- -| -.-|-..|.+|++..|-.+|..+ ...+. +.+...
T Consensus 329 l~lg~L~~A~~~a~~~~~~~----~W-------~~Lg~~AL~~g~~~lAe~c~~k~-------~d~~~------L~lLy~ 384 (443)
T PF04053_consen 329 LQLGNLDIALEIAKELDDPE----KW-------KQLGDEALRQGNIELAEECYQKA-------KDFSG------LLLLYS 384 (443)
T ss_dssp HHCT-HHHHHHHCCCCSTHH----HH-------HHHHHHHHHTTBHHHHHHHHHHC-------T-HHH------HHHHHH
T ss_pred HhcCCHHHHHHHHHhcCcHH----HH-------HHHHHHHHHcCCHHHHHHHHHhh-------cCccc------cHHHHH
Q ss_pred hhCChhHHHhhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHH
Q 016653 225 ISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAG 273 (385)
Q Consensus 225 ~s~~R~~lk~~v~~~~e~~~~l~~~p~~~~li~~f~~~~y~~~~~~L~~ 273 (385)
.+.++..|++ -.............+..+|+..|+.+|.+.|.+
T Consensus 385 ~~g~~~~L~k------l~~~a~~~~~~n~af~~~~~lgd~~~cv~lL~~ 427 (443)
T PF04053_consen 385 STGDREKLSK------LAKIAEERGDINIAFQAALLLGDVEECVDLLIE 427 (443)
T ss_dssp HCT-HHHHHH------HHHHHHHTT-HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred HhCCHHHHHH------HHHHHHHccCHHHHHHHHHHcCCHHHHHHHHHH
No 441
>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=28.52 E-value=3.4e+02 Score=24.97 Aligned_cols=75 Identities=20% Similarity=0.285 Sum_probs=42.1
Q ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHH-HHHHHHHHHH-hCCHHHHHHHHHHHH
Q 016653 47 ASFYETLVAESVLEMDQSVLDSMRTKIEDELKKLDDRIADAEENLGESEVREA-HLAKSLFYIQ-IGDKEKALEQLKVTE 124 (385)
Q Consensus 47 ~~~y~~~~~~~~~~~D~~~~~~~~~~~~~~l~~Le~~l~~~~~n~~~~~ir~a-~~~la~~~~~-~Gd~~~A~~~~~~~~ 124 (385)
++||+.+++-..-..-..|.+......++-.+..+..|. ...-+|-+ .+..+-|||+ .|+.++|.+...++.
T Consensus 123 gDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~------~~~p~rLgl~LN~svF~yei~~~~~~A~~ia~~af 196 (236)
T PF00244_consen 123 GDYYRYLAEFDSGDEKKEAAEKALEAYEEALEIAKKELP------PTHPLRLGLALNYSVFYYEILNDPEKAIEIAKQAF 196 (236)
T ss_dssp HHHHHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHHHHSC------TTSHHHHHHHHHHHHHHHHTSS-HHHHHHHHHHHH
T ss_pred ccccccccccccchhhHHHHHHHHHhhhhHHHHHhcccC------CCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence 467777665421101133444444444444444443222 22345555 6678889988 699999999888876
Q ss_pred hhh
Q 016653 125 SKT 127 (385)
Q Consensus 125 ~~~ 127 (385)
+..
T Consensus 197 d~a 199 (236)
T PF00244_consen 197 DEA 199 (236)
T ss_dssp HHH
T ss_pred HHH
Confidence 554
No 442
>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=28.45 E-value=3.5e+02 Score=25.77 Aligned_cols=119 Identities=8% Similarity=-0.020 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhH
Q 016653 99 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 178 (385)
Q Consensus 99 a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~ 178 (385)
+..-....|+..|+.+.|.+.+..+.+.. ...-...+.-.|+-+..-..++..+--......... +..|... .
T Consensus 133 ~~al~Vqi~L~~~R~dlA~k~l~~~~~~~-eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~--~~t~~~l----n 205 (290)
T PF04733_consen 133 LLALAVQILLKMNRPDLAEKELKNMQQID-EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKF--GSTPKLL----N 205 (290)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHCCS-CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHHHH----H
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcc--CCCHHHH----H
Confidence 34446778999999999999999987643 222234555555554444444555555555444332 2345443 4
Q ss_pred HHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhhCCh
Q 016653 179 YEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDR 229 (385)
Q Consensus 179 ~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s~~R 229 (385)
..++.+|+.|+|.+|-+.+.+++.... ..++.+.-.+.|+......
T Consensus 206 g~A~~~l~~~~~~eAe~~L~~al~~~~-----~~~d~LaNliv~~~~~gk~ 251 (290)
T PF04733_consen 206 GLAVCHLQLGHYEEAEELLEEALEKDP-----NDPDTLANLIVCSLHLGKP 251 (290)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHCCC-C-----CHHHHHHHHHHHHHHTT-T
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHhcc-----CCHHHHHHHHHHHHHhCCC
Confidence 678889999999999999999996421 2346677777777766443
No 443
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=28.20 E-value=1.4e+02 Score=25.38 Aligned_cols=48 Identities=17% Similarity=0.095 Sum_probs=36.9
Q ss_pred hHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 285 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 285 ~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
...+..+=..-|.-....| +.-.+.+.+|+.+|+|+..+...+.+...
T Consensus 107 ~~~l~~L~~~~r~v~~l~~---~~g~s~~eIA~~lgis~~tV~~~l~Rar~ 154 (164)
T PRK12547 107 KKALNLLSADQREAIILIG---ASGFSYEDAAAICGCAVGTIKSRVSRARN 154 (164)
T ss_pred HHHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 4455555556666666777 68888999999999999999988877543
No 444
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=28.07 E-value=70 Score=21.87 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=21.3
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
+.-.+..||..+|+++..|..|..+
T Consensus 26 ~~~~~~~la~~l~l~~~~V~~WF~n 50 (57)
T PF00046_consen 26 SKEEREELAKELGLTERQVKNWFQN 50 (57)
T ss_dssp HHHHHHHHHHHHTSSHHHHHHHHHH
T ss_pred cccccccccccccccccccccCHHH
Confidence 5567889999999999999998754
No 445
>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=27.85 E-value=67 Score=21.18 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=15.6
Q ss_pred ccHHHHHHHhCCChHHHHHHH
Q 016653 310 VTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L 330 (385)
.++..+|+.||+|..-+-+.+
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 789999999999998876654
No 446
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=27.71 E-value=80 Score=22.69 Aligned_cols=25 Identities=20% Similarity=0.383 Sum_probs=21.2
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
++++.||+.+|+|...+.+.+.+..
T Consensus 2 ~~~~~la~~~~~s~~~l~~~f~~~~ 26 (84)
T smart00342 2 LTLEDLAEALGMSPRHLQRLFKKET 26 (84)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHh
Confidence 6899999999999998888777653
No 447
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.42 E-value=69 Score=24.80 Aligned_cols=23 Identities=22% Similarity=0.124 Sum_probs=21.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVEL 330 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L 330 (385)
..++.+.+|+++|+++..+|+-|
T Consensus 22 ~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 22 CPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred ccccHHHHHHHhCCCHHHHHHHH
Confidence 67899999999999999999877
No 448
>PRK10870 transcriptional repressor MprA; Provisional
Probab=27.21 E-value=3e+02 Score=23.93 Aligned_cols=43 Identities=9% Similarity=0.014 Sum_probs=38.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEE
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 350 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv 350 (385)
..++.+.||+.+|++...+-..+-+|...|-+.-.-|..++-.
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~ 112 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRC 112 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCe
Confidence 5689999999999999999999999999999988888887633
No 449
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=27.17 E-value=1.3e+02 Score=17.12 Aligned_cols=21 Identities=14% Similarity=0.238 Sum_probs=17.0
Q ss_pred cccHHHHHHHhCCChHHHHHH
Q 016653 309 SVTIEAMAKAFGVTVEFIDVE 329 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~ 329 (385)
..+...+|+.||++..-+-++
T Consensus 21 ~~s~~~ia~~~~is~~tv~~~ 41 (42)
T cd00569 21 GESVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred CCCHHHHHHHHCCCHHHHHHh
Confidence 348999999999998877655
No 450
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=26.92 E-value=21 Score=37.30 Aligned_cols=101 Identities=13% Similarity=0.023 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhh
Q 016653 97 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 176 (385)
Q Consensus 97 r~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l 176 (385)
..-++.-++-+.+.|++..|...+.++.....+..+..+..+...++.+..|++..+...++..... ..++....+.
T Consensus 24 ~~~~L~Aa~a~l~~g~~~~A~~ll~~l~~~~L~~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~~~---~l~~~~~~~~ 100 (536)
T PF04348_consen 24 AQLLLLAARALLQEGDWAQAQALLNQLDPQQLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDLW---QLPPEQQARY 100 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCcc---cCCHHHHHHH
Confidence 3446777889999999999999999987555556788889999999999999999998888752221 1122223333
Q ss_pred hHHHHHhccccCCHHHHHHHHHhc
Q 016653 177 KVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 177 ~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
.-..+-.+-..+++..|++..+..
T Consensus 101 ~~l~A~a~~~~~~~l~Aa~~~i~l 124 (536)
T PF04348_consen 101 HQLRAQAYEQQGDPLAAARERIAL 124 (536)
T ss_dssp ------------------------
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHH
Confidence 334455566678898888876654
No 451
>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=26.90 E-value=52 Score=21.76 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=19.4
Q ss_pred cccccccHHHHHHHhCCChHHH
Q 016653 305 ESYKSVTIEAMAKAFGVTVEFI 326 (385)
Q Consensus 305 ~pY~~I~l~~mA~~fg~s~~~i 326 (385)
+.|..+++..+|+..|++...+
T Consensus 12 ~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 12 KGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHTTTSSHHHHHHHHTSCHHHH
T ss_pred hCHHhCCHHHHHHHHccchhhH
Confidence 3699999999999999998764
No 452
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=26.80 E-value=6.9e+02 Score=25.44 Aligned_cols=46 Identities=13% Similarity=0.018 Sum_probs=31.9
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHh
Q 016653 101 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFY 147 (385)
Q Consensus 101 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~ 147 (385)
+++.+ ....||+.+|+..+..+...-..+...+.++..++|..+..
T Consensus 252 f~L~~-ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~fR~ll~v 297 (451)
T PRK06305 252 YTLDE-AITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLFFRNILLK 297 (451)
T ss_pred HHHHH-HHHcCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHH
Confidence 34443 34568999999999888765555666677777777766544
No 453
>smart00101 14_3_3 14-3-3 homologues. 14-3-3 homologues mediates signal transduction by binding to phosphoserine-containing proteins. They are involved in growth factor signalling and also interact with MEK kinases.
Probab=26.57 E-value=2.3e+02 Score=26.41 Aligned_cols=34 Identities=24% Similarity=0.331 Sum_probs=25.2
Q ss_pred HHHHHH-HHHHHHHHHHh-CCHHHHHHHHHHHHhhh
Q 016653 94 SEVREA-HLAKSLFYIQI-GDKEKALEQLKVTESKT 127 (385)
Q Consensus 94 ~~ir~a-~~~la~~~~~~-Gd~~~A~~~~~~~~~~~ 127 (385)
.-||-| .+..+-|||++ |+.++|.+.-.++.+..
T Consensus 166 ~PirLgLaLN~SVF~yEI~~~~~~A~~lAk~afd~A 201 (244)
T smart00101 166 HPIRLGLALNFSVFYYEILNSPDRACNLAKQAFDEA 201 (244)
T ss_pred CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 345555 67788899987 89999998877766544
No 454
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=26.53 E-value=1.9e+02 Score=24.93 Aligned_cols=59 Identities=15% Similarity=0.211 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 290 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
.-|+..|-+. .+--.| ..++.+.+|+.||++.+.+ .++=..+.+..-.|...+++....
T Consensus 81 A~YN~~RF~~-eRR~~~-~~l~~dElA~sF~l~~e~i----~qLr~~kiltVh~De~G~Ii~V~~ 139 (153)
T PRK14584 81 AKYNQVRFQV-ERRGHR-PDLDDDELASSFALSPELI----AQLKSGSCLTLYNDEHGHIIDVKE 139 (153)
T ss_pred HHHHHHHhcc-cccCCC-CCCChHHHHHHcCCCHHHH----HHHHhCCeEEEEECCCCCEEEeec
Confidence 3455555554 554444 7899999999999998775 555667777889999999998864
No 455
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=26.45 E-value=1.8e+02 Score=32.14 Aligned_cols=87 Identities=11% Similarity=0.094 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH--HhcCCChhh--h
Q 016653 98 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL--FEEGGDWER--K 173 (385)
Q Consensus 98 ~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~--~~~~~~~~~--~ 173 (385)
..+.+-|+|+....+|++|...+...|++.. .+.+|.+ ..-.+.+.+ .+. +++.+++.. +
T Consensus 1081 ~ll~RcadFF~~~~qyekAV~lL~~ar~~~~----AlqlC~~---------~nv~vtee~---aE~mTp~Kd~~~~e~~R 1144 (1416)
T KOG3617|consen 1081 KLLRRCADFFENNQQYEKAVNLLCLAREFSG----ALQLCKN---------RNVRVTEEF---AELMTPTKDDMPNEQER 1144 (1416)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH----HHHHHhc---------CCCchhHHH---HHhcCcCcCCCccHHHH
Confidence 4467789999999999999999988887642 2222322 112222111 111 222233333 3
Q ss_pred hhhhHHHHHhccccCCHHHHHHHHHhc
Q 016653 174 NRLKVYEGLYCMSTRNFKKAASLFLDS 200 (385)
Q Consensus 174 ~~l~~~~gl~~l~~r~~~~Aa~~f~e~ 200 (385)
-.+-..-|=.++++|+|..|.+.|..+
T Consensus 1145 ~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1145 KQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHhhh
Confidence 334444555788999999999888765
No 456
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=26.30 E-value=5.6e+02 Score=24.24 Aligned_cols=81 Identities=14% Similarity=0.149 Sum_probs=52.0
Q ss_pred hCCHHHHHHHHHHHHhhhccchhH-HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccC
Q 016653 110 IGDKEKALEQLKVTESKTVAVGQK-MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTR 188 (385)
Q Consensus 110 ~Gd~~~A~~~~~~~~~~~~~~~~~-id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r 188 (385)
..+...|.......|......+.. ....+.+++..--.++...+...+...+...+. ..+++ ..+..|
T Consensus 73 ~~~l~~a~~~~~~~R~~L~~~~~~~~~~~L~Il~~~rkr~~l~~ll~~L~~i~~v~~~------~~~l~-----~ll~~~ 141 (291)
T PF10475_consen 73 QDELEEALVICKNLRRNLKSADENLTKSGLEILRLQRKRQNLKKLLEKLEQIKTVQQT------QSRLQ-----ELLEEG 141 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHH-----HHHhcC
Confidence 345566666666666655433333 445777888777777777777777777666542 11111 257899
Q ss_pred CHHHHHHHHHhcc
Q 016653 189 NFKKAASLFLDSI 201 (385)
Q Consensus 189 ~~~~Aa~~f~e~~ 201 (385)
+|..|.....++-
T Consensus 142 dy~~Al~li~~~~ 154 (291)
T PF10475_consen 142 DYPGALDLIEECQ 154 (291)
T ss_pred CHHHHHHHHHHHH
Confidence 9999999887754
No 457
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=26.29 E-value=3.5e+02 Score=23.28 Aligned_cols=46 Identities=15% Similarity=0.091 Sum_probs=33.9
Q ss_pred cccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEE
Q 016653 305 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 352 (385)
Q Consensus 305 ~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~ 352 (385)
+||+..++..=-.. +++-..+.+-|-.|..+|+|.+|.=... .|+.
T Consensus 15 RPys~~di~~nL~~-~~~K~~v~k~Ld~L~~~g~i~~K~~GKq-kiY~ 60 (169)
T PF07106_consen 15 RPYSAQDIFDNLHN-KVGKTAVQKALDSLVEEGKIVEKEYGKQ-KIYF 60 (169)
T ss_pred CCCcHHHHHHHHHh-hccHHHHHHHHHHHHhCCCeeeeeecce-EEEe
Confidence 78888776432222 6888999999999999999999853333 4444
No 458
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=26.06 E-value=4e+02 Score=27.38 Aligned_cols=90 Identities=12% Similarity=0.212 Sum_probs=67.0
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccch--hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhhhhHHHH
Q 016653 104 SLFYIQIGDKEKALEQLKVTESKTVAVG--QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 181 (385)
Q Consensus 104 a~~~~~~Gd~~~A~~~~~~~~~~~~~~~--~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~g 181 (385)
|=..-+.|++++|-+.+.++.+..++.. -+-+++.+.|--+.+.+|.+.+...+...+...- .+.| +-...|
T Consensus 13 gf~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~nld~Me~~l~~l~~~~~-~s~~-----l~LF~~ 86 (549)
T PF07079_consen 13 GFILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNNLDLMEKQLMELRQQFG-KSAY-----LPLFKA 86 (549)
T ss_pred hHHHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHhcC-CchH-----HHHHHH
Confidence 4445678999999999999987665442 2447889999999999999998887776666432 2222 335688
Q ss_pred HhccccCCHHHHHHHHHh
Q 016653 182 LYCMSTRNFKKAASLFLD 199 (385)
Q Consensus 182 l~~l~~r~~~~Aa~~f~e 199 (385)
+++-+++.|.+|...|--
T Consensus 87 L~~Y~~k~~~kal~~ls~ 104 (549)
T PF07079_consen 87 LVAYKQKEYRKALQALSV 104 (549)
T ss_pred HHHHHhhhHHHHHHHHHH
Confidence 988999999988776643
No 459
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=25.80 E-value=9.3e+02 Score=26.60 Aligned_cols=36 Identities=25% Similarity=0.232 Sum_probs=25.8
Q ss_pred HHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Q 016653 84 IADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKV 122 (385)
Q Consensus 84 l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~ 122 (385)
++.....+++.+. +.+-|++|.++.|+++|++||.+
T Consensus 651 l~~ia~alik~el---ydkagdlfeki~d~dkale~fkk 686 (1636)
T KOG3616|consen 651 LEHIAAALIKGEL---YDKAGDLFEKIHDFDKALECFKK 686 (1636)
T ss_pred HHHHHHHHHhhHH---HHhhhhHHHHhhCHHHHHHHHHc
Confidence 3334455555442 66778999999999999999865
No 460
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=25.78 E-value=3.1e+02 Score=26.40 Aligned_cols=70 Identities=13% Similarity=0.117 Sum_probs=59.7
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcC--CChh
Q 016653 102 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEG--GDWE 171 (385)
Q Consensus 102 ~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~~~~~--~~~~ 171 (385)
.-|.-..+.|.++.|+..+...+..++++.+++-.-+...|++...|....+...+..+...++.. .+|+
T Consensus 218 ~eA~~l~~~~gl~~Al~~L~~~~~~~~s~R~rf~~rL~~A~l~~~~g~~~lA~~ll~~L~~~~~~~~L~~WE 289 (301)
T TIGR03362 218 EEARALAAEGGLEAALQRLQQRLAQAREPRERFHWRLLLARLLEQAGKAELAQQLYAALDQQIQQLGLAEWE 289 (301)
T ss_pred HHHHHHHHcCCHHHHHHHHHhhcccCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCccccC
Confidence 336667889999999999998888888999999999999999999999999999999888877642 2454
No 461
>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.58 E-value=1.4e+02 Score=25.17 Aligned_cols=46 Identities=20% Similarity=0.282 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 292 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 292 ~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
-+..|.+++..+. |.-.+...+|+.||+|...+..|+.+.=..|-+
T Consensus 6 s~~~R~~~~~~~~--~~G~S~re~Ak~~gvs~sTvy~wv~r~~e~G~~ 51 (138)
T COG3415 6 SNDLRERVVDAVV--GEGLSCREAAKRFGVSISTVYRWVRRYRETGLD 51 (138)
T ss_pred hHHHHHHHHHHHH--HcCccHHHHHHHhCccHHHHHHHHHHhcccccc
Confidence 4556666665552 688899999999999999999999998776654
No 462
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=25.52 E-value=76 Score=21.40 Aligned_cols=25 Identities=16% Similarity=0.222 Sum_probs=22.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 016653 308 KSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 308 ~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
+.-.+..||..+|++...|..|..+
T Consensus 26 ~~~~~~~la~~~~l~~~qV~~WF~n 50 (56)
T smart00389 26 SREEREELAAKLGLSERQVKVWFQN 50 (56)
T ss_pred CHHHHHHHHHHHCcCHHHHHHhHHH
Confidence 5667999999999999999999865
No 463
>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=25.39 E-value=2e+02 Score=22.81 Aligned_cols=37 Identities=14% Similarity=0.336 Sum_probs=34.6
Q ss_pred hccccccccHHHHHHHhCCChHHHHHHHHHHHhCCcc
Q 016653 303 FLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 303 y~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l 339 (385)
|=++...|+.+.+|+.-|++.+.+.+.+-.||.-|-|
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 4478899999999999999999999999999999988
No 464
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=25.10 E-value=1.4e+02 Score=29.23 Aligned_cols=43 Identities=9% Similarity=0.294 Sum_probs=38.9
Q ss_pred HHHHHHhccccccccHHHHHHH--hCCChHHHHHHHHHHHhCCcc
Q 016653 297 TVVYSQFLESYKSVTIEAMAKA--FGVTVEFIDVELSRFIAAGKL 339 (385)
Q Consensus 297 ~~~~~qy~~pY~~I~l~~mA~~--fg~s~~~iE~~L~~lI~~g~l 339 (385)
..++..|+..-..|+...+|+. ||+|++-+-+++..|-..|-|
T Consensus 9 ~aIV~~~l~~~~pv~s~~l~~~~~~~vS~aTiR~d~~~Le~~G~l 53 (337)
T TIGR00331 9 KAIVEEYIKTGQPVGSKTLLEKYNLGLSSATIRNDMADLEDLGFI 53 (337)
T ss_pred HHHHHHHHhcCCCcCHHHHHhhcCCCCChHHHHHHHHHHHHCCCc
Confidence 3446679999999999999999 999999999999999999877
No 465
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=25.08 E-value=3.3e+02 Score=22.62 Aligned_cols=58 Identities=17% Similarity=0.271 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Q 016653 64 SVLDSMRTKIEDELKKLDDRIADA--EENLGESEVREAHLAKSLFYIQIGDKEKALEQLK 121 (385)
Q Consensus 64 ~~~~~~~~~~~~~l~~Le~~l~~~--~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~ 121 (385)
+-+..++++-.++++.++.++.+- -...+++++-....+++++-.+.+....+..-+.
T Consensus 57 ~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le 116 (126)
T PF07889_consen 57 ESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLE 116 (126)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 345566666777777777777663 3566788888888888888888877777766553
No 466
>TIGR02899 spore_safA spore coat assembly protein SafA. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.
Probab=25.03 E-value=75 Score=19.87 Aligned_cols=17 Identities=29% Similarity=0.419 Sum_probs=14.2
Q ss_pred cHHHHHHHhCCChHHHH
Q 016653 311 TIEAMAKAFGVTVEFID 327 (385)
Q Consensus 311 ~l~~mA~~fg~s~~~iE 327 (385)
++..+|+.||++.+.+-
T Consensus 6 tl~~IA~~~~~~~~~l~ 22 (44)
T TIGR02899 6 TLWKIAKKYGVDFDELI 22 (44)
T ss_pred CHHHHHHHHCcCHHHHH
Confidence 67889999999987664
No 467
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=24.91 E-value=5.7e+02 Score=23.84 Aligned_cols=29 Identities=14% Similarity=0.213 Sum_probs=24.0
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
|.-.++..+|+.+|+|+..+-+-..+.|.
T Consensus 210 ~eelt~kEI~~~LgISes~VSql~kkai~ 238 (247)
T COG1191 210 KEELTQKEIAEVLGISESRVSRLHKKAIK 238 (247)
T ss_pred HhccCHHHHHHHhCccHHHHHHHHHHHHH
Confidence 88899999999999998887666665553
No 468
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=24.88 E-value=1.9e+02 Score=23.51 Aligned_cols=42 Identities=14% Similarity=0.245 Sum_probs=33.1
Q ss_pred HHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHhCC
Q 016653 294 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAG 337 (385)
Q Consensus 294 ~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g 337 (385)
+-+..++.+++++ ..+...+|..||++...+-+|+.++-..|
T Consensus 16 EfK~~aV~~~~~~--g~sv~evA~e~gIs~~tl~~W~r~y~~~~ 57 (121)
T PRK09413 16 QEKIAIVQQSFEP--GMTVSLVARQHGVAASQLFLWRKQYQEGS 57 (121)
T ss_pred HHHHHHHHHHHcC--CCCHHHHHHHHCcCHHHHHHHHHHHhhcc
Confidence 3355566677665 66889999999999999999999986543
No 469
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=24.77 E-value=1.7e+02 Score=26.23 Aligned_cols=41 Identities=17% Similarity=0.063 Sum_probs=35.9
Q ss_pred cccccccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEec
Q 016653 305 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 345 (385)
Q Consensus 305 ~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~ 345 (385)
+-++-.+.+.+|+.+|+|+.-+++.+..+...|-+...|+-
T Consensus 173 ~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~~ 213 (225)
T PRK10046 173 EPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIVH 213 (225)
T ss_pred cCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEeec
Confidence 33445789999999999999999999999999999888776
No 470
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=24.59 E-value=1.4e+02 Score=26.07 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=35.0
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
..++.+=..-|.-.+..| |.-.+.+.+|+.+|+|+..+...+.+..
T Consensus 130 ~~l~~Lp~~~R~v~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~RAr 175 (189)
T PRK12530 130 ACLNHLPAQQARVFMMRE---YLELSSEQICQECDISTSNLHVLLYRAR 175 (189)
T ss_pred HHHHhCCHHHHHHHhHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 344555555666666777 6788999999999999999988877643
No 471
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=24.57 E-value=1.1e+02 Score=19.61 Aligned_cols=25 Identities=16% Similarity=0.327 Sum_probs=16.5
Q ss_pred cccccHHHHHHHhCCChHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELS 331 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~ 331 (385)
-+.++++.||..+|+|+..+-+...
T Consensus 6 ~~~~~l~~iA~~~g~S~~~f~r~Fk 30 (42)
T PF00165_consen 6 QQKLTLEDIAEQAGFSPSYFSRLFK 30 (42)
T ss_dssp -SS--HHHHHHHHTS-HHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 4679999999999999877655443
No 472
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=24.47 E-value=6e+02 Score=23.95 Aligned_cols=70 Identities=11% Similarity=0.006 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh-HHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 016653 93 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ-KMDLVFYTLQLGFFYMDFDLISKSIDKAKS 162 (385)
Q Consensus 93 ~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~-~id~~l~~i~~~i~~~~~~~~~~~i~ka~~ 162 (385)
..++...+.++|+...+.|.++-|..++.++......... ...+.+...++--..|+...+...+...-.
T Consensus 142 ~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~ 212 (352)
T PF02259_consen 142 PEELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK 212 (352)
T ss_pred hhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 5577778999999999999999999999998865422221 445566666666666776666555544333
No 473
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=24.35 E-value=1.7e+02 Score=26.05 Aligned_cols=45 Identities=16% Similarity=0.255 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.+..|-..-|.-....| |...+.+.+|+.+|+|+..+...+.+..
T Consensus 150 ~l~~L~~~~r~vl~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Ra~ 194 (206)
T PRK12526 150 YIEKLPEAQQTVVKGVY---FQELSQEQLAQQLNVPLGTVKSRLRLAL 194 (206)
T ss_pred HHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 33444444455444556 7899999999999999999988876543
No 474
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=24.26 E-value=1.8e+02 Score=24.30 Aligned_cols=45 Identities=13% Similarity=0.222 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 287 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 287 h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
.+..+=..-|.-....| +.-.+.+.+|+.+|+|+..+...+.+.+
T Consensus 103 ~l~~Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~ra~ 147 (161)
T PRK09047 103 AIQKLPARQREAFLLRY---WEDMDVAETAAAMGCSEGSVKTHCSRAT 147 (161)
T ss_pred HHHhCCHHHHHHHHHHH---HhcCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34444445555555667 6788899999999999999888776644
No 475
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=24.13 E-value=2.1e+02 Score=23.42 Aligned_cols=27 Identities=7% Similarity=0.115 Sum_probs=22.3
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
...++++.+|+.+|+|+..+.+...+.
T Consensus 23 ~~~~sl~~lA~~~g~S~~~l~r~Fk~~ 49 (127)
T PRK11511 23 ESPLSLEKVSERSGYSKWHLQRMFKKE 49 (127)
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 456999999999999999887776553
No 476
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=24.11 E-value=91 Score=21.98 Aligned_cols=26 Identities=27% Similarity=0.309 Sum_probs=19.8
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSR 332 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~ 332 (385)
...-.+.+-|+.||+|++++..-+..
T Consensus 18 ~e~~ev~ywa~~~gvt~~~L~~AV~~ 43 (57)
T PF12244_consen 18 SEPYEVRYWAKRFGVTEEQLREAVRA 43 (57)
T ss_pred CCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 44456789999999999998766543
No 477
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=24.00 E-value=3.3e+02 Score=20.76 Aligned_cols=55 Identities=13% Similarity=0.163 Sum_probs=44.0
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHH
Q 016653 103 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSI 157 (385)
Q Consensus 103 la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i 157 (385)
.|--+|+..+.++|+..+.++.+..+.+..++..+=..++..-..|++..+..+.
T Consensus 12 ~GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA 66 (80)
T PF10579_consen 12 KGLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA 66 (80)
T ss_pred HHHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334668889999999999999888777788888888888888888887776543
No 478
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=23.94 E-value=1.8e+02 Score=25.44 Aligned_cols=41 Identities=10% Similarity=0.052 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 290 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 290 ~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
.+-..-|.-....| |.-.+.+.||+.+|+|+..+...|.+.
T Consensus 131 ~L~~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tvk~rl~Ra 171 (188)
T TIGR02943 131 HLPEQTARVFMMRE---VLGFESDEICQELEISTSNCHVLLYRA 171 (188)
T ss_pred hCCHHHHHHHHHHH---HhCCCHHHHHHHhCCCHHHHHHHHHHH
Confidence 33344444445566 788999999999999999998887765
No 479
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=23.83 E-value=1.8e+02 Score=24.39 Aligned_cols=44 Identities=18% Similarity=0.246 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 289 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 289 ~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
..+-..-|.-....| |.-.+...+|+.+|+|+..+...+.+...
T Consensus 121 ~~L~~~~r~vl~l~~---~~g~s~~eIA~~l~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 121 KILTPKQQHVIALRF---GQNLPIAEVARILGKTEGAVKILQFRAIK 164 (170)
T ss_pred HhCCHHHHHHHHHHH---hcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 333444444445556 67889999999999999999998877553
No 480
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=23.76 E-value=4.5e+02 Score=24.67 Aligned_cols=32 Identities=22% Similarity=0.360 Sum_probs=28.5
Q ss_pred cccHHHHHHHhCCChHHHHHHHH-HHHhCCccc
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELS-RFIAAGKLH 340 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~-~lI~~g~l~ 340 (385)
.++++.+|+.+|+++..++..+. .||..|-|.
T Consensus 255 ~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~ 287 (305)
T TIGR00635 255 PVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQ 287 (305)
T ss_pred cccHHHHHHHhCCCcchHHHhhhHHHHHcCCcc
Confidence 47899999999999999999998 699988773
No 481
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=23.69 E-value=1.7e+02 Score=24.82 Aligned_cols=46 Identities=15% Similarity=0.262 Sum_probs=34.0
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
..+..+-..-|.-....| +...+...+|+.+|+|+..+...+.+..
T Consensus 115 ~~l~~L~~~~r~i~~l~~---~~g~s~~eiA~~lgis~~tv~~~l~Ra~ 160 (169)
T TIGR02954 115 KAIDTLNDKYQTAIILRY---YHDLTIKEIAEVMNKPEGTVKTYLHRAL 160 (169)
T ss_pred HHHHhCCHHHhHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 344444455555555667 6789999999999999999988887644
No 482
>COG1283 NptA Na+/phosphate symporter [Inorganic ion transport and metabolism]
Probab=23.66 E-value=8.7e+02 Score=25.48 Aligned_cols=72 Identities=24% Similarity=0.300 Sum_probs=50.7
Q ss_pred CCHHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHHHHHHHHHHH-----HHhhCHHHHHHH--HHHHHHHHHHhCCHH
Q 016653 45 DMASFYETLVAESV---LEMDQSVLDSMRTKIEDELKKLDDRIADA-----EENLGESEVREA--HLAKSLFYIQIGDKE 114 (385)
Q Consensus 45 ~m~~~y~~~~~~~~---~~~D~~~~~~~~~~~~~~l~~Le~~l~~~-----~~n~~~~~ir~a--~~~la~~~~~~Gd~~ 114 (385)
.|.++-+.+..... -. |+...++.. +.++..++++++++.| ++++.+++.++. ..+.+.=+.++||+.
T Consensus 342 ~~~d~ie~ml~~~~~~~~~-~~~~~~~i~-~~e~~vd~~~~~Ik~YL~~ls~~~Lse~es~r~~~iid~a~~lE~IgDii 419 (533)
T COG1283 342 RLGDSIEQMLERLYEYIEG-DAKKVKEIR-KLEDAVDRLYEEIKLYLARLSKEGLSEEESRRWAEIIDAAINLEHIGDII 419 (533)
T ss_pred HHHHHHHHHHHHHHHHHhc-chHHHHHHH-HHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45555555444322 13 777777776 5678899999999998 477777777776 777788888888887
Q ss_pred HHHH
Q 016653 115 KALE 118 (385)
Q Consensus 115 ~A~~ 118 (385)
+-+-
T Consensus 420 e~l~ 423 (533)
T COG1283 420 ERLL 423 (533)
T ss_pred HHHH
Confidence 7633
No 483
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.64 E-value=4.3e+02 Score=22.41 Aligned_cols=75 Identities=13% Similarity=0.132 Sum_probs=48.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH-HHHHHHHh------hCHHHHHHH----HHHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 016653 61 MDQSVLDSMRTKIEDELKKLDD-RIADAEEN------LGESEVREA----HLAKSLFYIQIGDKEKALEQLKVTESKTVA 129 (385)
Q Consensus 61 ~D~~~~~~~~~~~~~~l~~Le~-~l~~~~~n------~~~~~ir~a----~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~ 129 (385)
-||++-+.++++..++.+. +. +-+.+.+. ..+.+.+.. ..++|+-+...|+++++..++......|..
T Consensus 35 sdP~fk~~lr~rrk~q~~a-e~a~~~~a~sk~~~~pd~~d~~~~E~~Fmqqv~lGE~L~~qg~~e~ga~h~~nAi~vcgq 113 (143)
T KOG4056|consen 35 SDPDFKKKLRERRKKQASA-ELAKERAAASKADNIPDPSDAEEVEKFFMQQVQLGEELLAQGNEEEGAEHLANAIVVCGQ 113 (143)
T ss_pred cChhHHHHHHHHHHHHhhc-ccccccchhhccccCCCCCCHHHHHHHHHHHHHhHHHHHHccCHHHHHHHHHHHHhhcCC
Confidence 5888888888765554422 11 11111111 122333333 568999999999999999999999988877
Q ss_pred chhHHHh
Q 016653 130 VGQKMDL 136 (385)
Q Consensus 130 ~~~~id~ 136 (385)
+.+.+.+
T Consensus 114 paqLL~v 120 (143)
T KOG4056|consen 114 PAQLLQV 120 (143)
T ss_pred HHHHHHH
Confidence 7665443
No 484
>COG4806 RhaA L-rhamnose isomerase [Carbohydrate transport and metabolism]
Probab=23.28 E-value=2.2e+02 Score=27.24 Aligned_cols=39 Identities=13% Similarity=0.155 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhcCCCCCHHHHHHHHH
Q 016653 33 LKGEVFSMVKAHDMASFYETLVAESVLEMDQSVLDSMRT 71 (385)
Q Consensus 33 ~~~~~~~~ik~~~m~~~y~~~~~~~~~~~D~~~~~~~~~ 71 (385)
.+.++++..|.-.........|+..+.|.+.+|+.+++.
T Consensus 371 ~RlAl~EE~K~~P~~aiW~~yCe~~~VPv~~~WL~~v~~ 409 (419)
T COG4806 371 ARLALLEEQKSLPWQAVWEMYCQRHDVPVGSEWLKSVRA 409 (419)
T ss_pred HHHHHHHHhhcCCHHHHHHHHHHhcCCCchHHHHHHHHH
Confidence 345677777776777778889999999999999998875
No 485
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=23.20 E-value=1.6e+02 Score=25.02 Aligned_cols=27 Identities=15% Similarity=0.315 Sum_probs=23.5
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
+...+.+.+|+.+|+|+..+...+.+.
T Consensus 142 ~~~~s~~eIA~~lgis~~tV~~~l~ra 168 (182)
T PRK09652 142 IEGLSYEEIAEIMGCPIGTVRSRIFRA 168 (182)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 578899999999999999998887653
No 486
>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=23.08 E-value=2.7e+02 Score=25.64 Aligned_cols=78 Identities=15% Similarity=0.151 Sum_probs=51.0
Q ss_pred HHHHhHHHHHHHHHhcCCChhhhhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCH-hHHHHHHHHHHHhhCC
Q 016653 151 DLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPY-DTFIFYTVLTSIISLD 228 (385)
Q Consensus 151 ~~~~~~i~ka~~~~~~~~~~~~~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~-~~~~~Y~~l~al~s~~ 228 (385)
..+...+++|.+.....+.......+..-.|-.++..|+|..|.+.|-.+..+|-..+..+. .+++..+.-|+-...+
T Consensus 155 ~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~ 233 (247)
T PF11817_consen 155 KLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGD 233 (247)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCC
Confidence 34456667777766655544444556666777889999999999999888666643333222 2566666667766544
No 487
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=23.07 E-value=3.3e+02 Score=24.46 Aligned_cols=38 Identities=13% Similarity=0.262 Sum_probs=30.6
Q ss_pred HHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEcC
Q 016653 312 IEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 354 (385)
Q Consensus 312 l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~~ 354 (385)
-+.||..+|++.+.+-+.+.+|-..| + .+ ..|.|...+
T Consensus 176 ~~~iA~~lG~tretvsR~l~~L~~~g-l--~~--~~~~i~I~d 213 (236)
T PRK09392 176 KRVLASYLGMTPENLSRAFAALASHG-V--HV--DGSAVTITD 213 (236)
T ss_pred HHHHHHHhCCChhHHHHHHHHHHhCC-e--Ee--eCCEEEEcC
Confidence 46799999999999999999999998 6 23 346777653
No 488
>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=23.07 E-value=1e+02 Score=24.78 Aligned_cols=26 Identities=31% Similarity=0.179 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh
Q 016653 100 HLAKSLFYIQIGDKEKALEQLKVTES 125 (385)
Q Consensus 100 ~~~la~~~~~~Gd~~~A~~~~~~~~~ 125 (385)
+..|+.+|+..|...+|++.+.+..+
T Consensus 42 ~~eL~~lY~~kg~h~~AL~ll~~l~~ 67 (108)
T PF10366_consen 42 YQELVDLYQGKGLHRKALELLKKLAD 67 (108)
T ss_pred HHHHHHHHHccCccHHHHHHHHHHhc
Confidence 67899999999999999999998876
No 489
>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=23.01 E-value=1.9e+02 Score=23.24 Aligned_cols=28 Identities=18% Similarity=0.363 Sum_probs=23.3
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
+.-.+...+|+.+|+|+..+...+.+..
T Consensus 124 ~~g~s~~eIA~~l~~s~~~v~~~~~~~~ 151 (158)
T TIGR02937 124 LEGLSYKEIAEILGISVGTVKRRLKRAR 151 (158)
T ss_pred hcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3567999999999999999988877643
No 490
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=22.89 E-value=1.7e+02 Score=17.28 Aligned_cols=27 Identities=41% Similarity=0.378 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHh-C---CHHHHHHHHHHHH
Q 016653 98 EAHLAKSLFYIQI-G---DKEKALEQLKVTE 124 (385)
Q Consensus 98 ~a~~~la~~~~~~-G---d~~~A~~~~~~~~ 124 (385)
.+.+.+|.+|..- | |..+|..+|.+.-
T Consensus 2 ~a~~~lg~~~~~G~g~~~d~~~A~~~~~~Aa 32 (36)
T smart00671 2 EAQYNLGQMYEYGLGVKKDLEKALEYYKKAA 32 (36)
T ss_pred HHHHHHHHHHHcCCCCCcCHHHHHHHHHHHH
Confidence 4677888888643 2 8899998887754
No 491
>PRK11050 manganese transport regulator MntR; Provisional
Probab=22.76 E-value=4.7e+02 Score=22.11 Aligned_cols=36 Identities=17% Similarity=0.221 Sum_probs=31.8
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHHHHhCCccceE
Q 016653 307 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 342 (385)
Q Consensus 307 Y~~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~ak 342 (385)
...+++..+|+.||++...+-+.+.+|...|-|.-+
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 356899999999999999999999999999877543
No 492
>PF03081 Exo70: Exo70 exocyst complex subunit; InterPro: IPR004140 The Exo70 protein forms one subunit of the exocyst complex. First discovered in Saccharomyces cerevisiae [], Exo70 and other exocyst proteins have been observed in several other eukaryotes, including humans. In S. cerevisiae, the exocyst complex is involved in the late stages of exocytosis, and is localized at the tip of the bud, the major site of exocytosis in yeast []. Exo70 interacts with the Rho3 GTPase []. This interaction mediates one of the three known functions of Rho3 in cell polarity: vesicle docking and fusion with the plasma membrane (the other two functions are regulation of actin polarity and transport of exocytic vesicles from the mother cell to the bud) []. In humans, the functions of Exo70 and the exocyst complex are less well characterised: Exo70 is expressed in several tissues and is thought to also be involved in exocytosis [].; GO: 0006887 exocytosis, 0000145 exocyst; PDB: 2PFV_A 2B7M_B 2B1E_A 2PFT_A.
Probab=22.75 E-value=84 Score=30.79 Aligned_cols=54 Identities=22% Similarity=0.256 Sum_probs=42.8
Q ss_pred hhchhHhHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 279 KLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 279 ~~D~~l~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
-.|+-|...++.=+.++-.-+|..|++-|..+.. .-.+-+..+++++|..|.+|
T Consensus 318 vpD~~LR~~Lr~~i~~~v~p~Y~~F~~~~~~~~~-~~~Kyikyt~~~le~~l~~L 371 (371)
T PF03081_consen 318 VPDPELREELRREIKEKVVPAYRRFYERYRNSQF-NPEKYIKYTPEDLENMLNEL 371 (371)
T ss_dssp -S-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCSS-SHCCC-SS-HHHHHHHHHTC
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-CCCCCCccCHHHHHHHHHcC
Confidence 3699999999988888889999999999999998 55556788999999988653
No 493
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family. This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Probab=22.43 E-value=6.7e+02 Score=23.74 Aligned_cols=36 Identities=17% Similarity=0.148 Sum_probs=26.2
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEe
Q 016653 309 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 344 (385)
Q Consensus 309 ~I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID 344 (385)
.-+...+|..+|++++.++..+...-..-.|++.++
T Consensus 177 ~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~~ 212 (298)
T TIGR02997 177 TPSEAEIAEALELEPEQVRELLQRARQPVSLDAPVG 212 (298)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHcccCcccCCCcC
Confidence 457889999999999999988765443444555443
No 494
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=22.42 E-value=3e+02 Score=21.25 Aligned_cols=36 Identities=17% Similarity=0.196 Sum_probs=33.9
Q ss_pred HHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCC
Q 016653 313 EAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 348 (385)
Q Consensus 313 ~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~g 348 (385)
+.+|+.+|++..-+-..+-+|...|-+.=..|..++
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 999999999999999999999999999888888876
No 495
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=22.36 E-value=2.1e+02 Score=24.37 Aligned_cols=47 Identities=13% Similarity=0.128 Sum_probs=33.9
Q ss_pred HhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHHh
Q 016653 286 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 335 (385)
Q Consensus 286 ~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI~ 335 (385)
..+..|=..-|.-....| +.-.+...+|+.+|+|+.-+...|.+.+.
T Consensus 115 ~~l~~Lp~~~r~v~~L~~---~~g~s~~EIA~~lgis~~tV~~~l~ra~~ 161 (172)
T PRK12523 115 RLLGKLSSKARAAFLYNR---LDGMGHAEIAERLGVSVSRVRQYLAQGLR 161 (172)
T ss_pred HHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 334444444455445556 67889999999999999999998877543
No 496
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=22.31 E-value=2e+02 Score=24.77 Aligned_cols=47 Identities=6% Similarity=0.082 Sum_probs=34.9
Q ss_pred hHhHHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHHH
Q 016653 285 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 334 (385)
Q Consensus 285 ~~h~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~lI 334 (385)
...+..|=..-|.-....| +...+.+.+|+.+|+|+.-+...+.+-+
T Consensus 122 ~~~l~~Lp~~~R~v~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~rAl 168 (178)
T PRK12529 122 DALLDTLRPRVKQAFLMAT---LDGMKQKDIAQALDIALPTVKKYIHQAY 168 (178)
T ss_pred HHHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444455555566556666 6788999999999999999998887654
No 497
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=22.23 E-value=1.4e+02 Score=27.11 Aligned_cols=43 Identities=19% Similarity=0.145 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHhccccccccHHHHHHHhCCChHHHHHHHHHH
Q 016653 288 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 333 (385)
Q Consensus 288 ~~~l~~~iR~~~~~qy~~pY~~I~l~~mA~~fg~s~~~iE~~L~~l 333 (385)
+..|-..-|.-....| |...+...+|+.+|+|+..+...|.+.
T Consensus 132 l~~Lp~~~R~v~~L~y---~eg~s~~EIAe~LgiS~~tVk~~L~RA 174 (216)
T PRK12533 132 LAKLPVEYREVLVLRE---LEDMSYREIAAIADVPVGTVMSRLARA 174 (216)
T ss_pred HHcCCHHHHhHhhhHH---hcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 3444444455445556 678899999999999999999988753
No 498
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=22.14 E-value=5.1e+02 Score=22.26 Aligned_cols=50 Identities=20% Similarity=0.051 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 016653 71 TKIEDELKKLDDRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTE 124 (385)
Q Consensus 71 ~~~~~~l~~Le~~l~~~~~n~~~~~ir~a~~~la~~~~~~Gd~~~A~~~~~~~~ 124 (385)
++.++++..|...++ ++..-..++.-+..|+.- ++.|||+.|.++...+.
T Consensus 68 ~D~~KRL~iLfd~ln---~g~Ls~~v~~~L~~L~~a-L~~~d~~~A~~Ih~~L~ 117 (157)
T PF07304_consen 68 DDIEKRLNILFDHLN---NGKLSKPVVDKLHQLAQA-LQARDYDAADEIHVDLM 117 (157)
T ss_dssp HHHHHHHHHHHHHHH---HT-S-HHHHHHHHHHHHH-HHHT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHH-HHcCCHHHHHHHHHHHH
Confidence 466688888888887 444555688888888885 46789999998876654
No 499
>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=21.99 E-value=7.8e+02 Score=24.34 Aligned_cols=182 Identities=9% Similarity=0.075 Sum_probs=88.6
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-------------------
Q 016653 103 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL------------------- 163 (385)
Q Consensus 103 la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~~id~~l~~i~~~i~~~~~~~~~~~i~ka~~~------------------- 163 (385)
.+.++.+.|+++.|.+.+.++.+..+. +. ++......+.+..|||+.+...+.+....
T Consensus 159 ~a~l~l~~~~~~~Al~~l~~l~~~~P~--~~-~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~ 235 (409)
T TIGR00540 159 RTRILLAQNELHAARHGVDKLLEMAPR--HK-EVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGL 235 (409)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhCCC--CH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence 366666666666666666666654322 22 33444555556666666665555544422
Q ss_pred Hhc--------------CCChhh---hhhhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHHhh
Q 016653 164 FEE--------------GGDWER---KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS 226 (385)
Q Consensus 164 ~~~--------------~~~~~~---~~~l~~~~gl~~l~~r~~~~Aa~~f~e~~~t~~~~e~~~~~~~~~Y~~l~al~s 226 (385)
++. ...|.. ...+....|..++..|++..|.+.+-+.+..+..........+..|.. +-.
T Consensus 236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~---l~~ 312 (409)
T TIGR00540 236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPR---LKP 312 (409)
T ss_pred HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhh---cCC
Confidence 000 001111 345666677788889999998888877765332222111111111111 111
Q ss_pred CChhHHHhhccCChHHHHHhcCcc--hHHHH-HH-HHHhccHHHHHHHHHHh-HHHhhhchhHhHhHHHHHH
Q 016653 227 LDRVSLKQKVVDAPEILTVIGKIP--YLSEF-LN-SLYDCQYKSFFSAFAGL-TEQIKLDRYLYPHFRYYMR 293 (385)
Q Consensus 227 ~~R~~lk~~v~~~~e~~~~l~~~p--~~~~l-i~-~f~~~~y~~~~~~L~~~-~~~l~~D~~l~~h~~~l~~ 293 (385)
.+...+.. .++ ...+--+..| .+... -. +|...+|....+.++.. .-....|+....|.-.++.
T Consensus 313 ~~~~~~~~-~~e--~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~ 381 (409)
T TIGR00540 313 EDNEKLEK-LIE--KQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD 381 (409)
T ss_pred CChHHHHH-HHH--HHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH
Confidence 11122211 111 1111122445 43322 22 34567898888888742 2233455555557666666
No 500
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=21.97 E-value=5.2e+02 Score=23.10 Aligned_cols=40 Identities=23% Similarity=0.218 Sum_probs=32.9
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHHhCCccceEEecCCCEEEEc
Q 016653 310 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 353 (385)
Q Consensus 310 I~l~~mA~~fg~s~~~iE~~L~~lI~~g~l~akID~~~giv~~~ 353 (385)
.+-..+|+.+|+|.+.+-+.|.+|-.+|-|. ...+.|+..
T Consensus 170 ~t~~~lA~~lG~sretvsR~L~~L~~~G~I~----~~~~~i~I~ 209 (226)
T PRK10402 170 EKHTQAAEYLGVSYRHLLYVLAQFIQDGYLK----KSKRGYLIK 209 (226)
T ss_pred chHHHHHHHHCCcHHHHHHHHHHHHHCCCEE----eeCCEEEEe
Confidence 4779999999999999999999999988664 345566665
Done!