Query 019472
Match_columns 340
No_of_seqs 154 out of 762
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 09:44:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019472.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019472hhsearch_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-73 4.1E-78 513.2 30.7 334 7-340 47-393 (393)
2 COG5187 RPN7 26S proteasome re 100.0 1.2E-56 2.6E-61 399.2 27.4 331 8-338 52-405 (412)
3 KOG0686 COP9 signalosome, subu 100.0 8E-57 1.7E-61 416.1 25.1 298 36-333 134-434 (466)
4 KOG1463 26S proteasome regulat 100.0 2.4E-52 5.3E-57 378.5 21.3 314 12-337 73-411 (411)
5 COG5159 RPN6 26S proteasome re 100.0 8.5E-45 1.8E-49 323.3 20.3 316 12-339 70-411 (421)
6 KOG1464 COP9 signalosome, subu 100.0 4.3E-37 9.3E-42 272.9 17.7 314 12-337 83-434 (440)
7 PF10602 RPN7: 26S proteasome 100.0 4E-35 8.7E-40 253.9 16.9 160 30-189 14-176 (177)
8 KOG2758 Translation initiation 100.0 1.5E-28 3.2E-33 222.1 21.4 271 50-338 127-421 (432)
9 KOG1498 26S proteasome regulat 99.8 4.5E-19 9.7E-24 164.8 21.7 249 55-312 134-401 (439)
10 KOG1497 COP9 signalosome, subu 99.8 5E-19 1.1E-23 160.4 19.2 262 51-323 102-375 (399)
11 PF01399 PCI: PCI domain; Int 99.8 4.3E-19 9.3E-24 140.2 12.4 105 205-309 1-105 (105)
12 KOG2908 26S proteasome regulat 99.8 5.3E-17 1.1E-21 148.6 26.3 270 61-338 84-371 (380)
13 COG5071 RPN5 26S proteasome re 99.7 8E-16 1.7E-20 138.9 20.8 275 55-338 134-427 (439)
14 smart00753 PAM PCI/PINT associ 99.6 1.1E-14 2.3E-19 111.7 9.9 74 241-314 1-74 (88)
15 smart00088 PINT motif in prote 99.6 1.1E-14 2.3E-19 111.7 9.9 74 241-314 1-74 (88)
16 KOG2581 26S proteasome regulat 99.4 2.2E-10 4.7E-15 107.7 24.1 271 55-333 172-453 (493)
17 KOG2582 COP9 signalosome, subu 99.0 8.2E-08 1.8E-12 89.5 21.5 278 54-337 104-391 (422)
18 KOG2753 Uncharacterized conser 98.9 2.4E-07 5.1E-12 85.4 20.9 238 69-313 103-343 (378)
19 KOG1076 Translation initiation 98.7 7.3E-06 1.6E-10 82.1 24.1 195 128-325 529-778 (843)
20 PF14938 SNAP: Soluble NSF att 98.1 0.00026 5.7E-09 65.9 17.5 191 52-249 75-280 (282)
21 KOG2688 Transcription-associat 97.8 0.00066 1.4E-08 65.2 14.8 232 68-312 132-387 (394)
22 PF10075 PCI_Csn8: COP9 signal 97.4 0.001 2.2E-08 55.5 9.3 90 207-306 44-133 (143)
23 COG5600 Transcription-associat 97.4 0.014 3.1E-07 55.3 16.8 234 66-312 144-406 (413)
24 PF09976 TPR_21: Tetratricopep 97.3 0.0036 7.8E-08 52.1 11.4 98 51-155 47-144 (145)
25 KOG2072 Translation initiation 97.1 0.033 7.2E-07 57.5 16.9 220 86-309 229-493 (988)
26 PF09756 DDRGK: DDRGK domain; 96.7 0.0043 9.4E-08 53.9 6.0 59 252-310 101-159 (188)
27 PF10255 Paf67: RNA polymerase 96.6 0.04 8.7E-07 53.6 12.9 183 91-286 124-343 (404)
28 PF13424 TPR_12: Tetratricopep 96.5 0.033 7.2E-07 40.7 9.4 70 51-120 4-77 (78)
29 TIGR02795 tol_pal_ybgF tol-pal 96.3 0.073 1.6E-06 41.5 11.0 104 53-159 3-106 (119)
30 PF09012 FeoC: FeoC like trans 96.1 0.014 3E-07 42.3 5.2 49 254-302 4-52 (69)
31 PF03399 SAC3_GANP: SAC3/GANP/ 96.1 0.17 3.6E-06 44.4 13.1 102 167-276 98-204 (204)
32 KOG1840 Kinesin light chain [C 95.9 0.09 1.9E-06 52.8 11.7 116 42-157 271-395 (508)
33 cd00189 TPR Tetratricopeptide 95.9 0.1 2.2E-06 37.4 9.2 94 54-156 2-95 (100)
34 PF14938 SNAP: Soluble NSF att 95.8 0.38 8.1E-06 44.7 14.6 154 52-213 114-276 (282)
35 PF12688 TPR_5: Tetratrico pep 95.7 0.23 5.1E-06 40.1 11.3 100 54-156 3-102 (120)
36 COG3063 PilF Tfp pilus assembl 95.6 1.1 2.3E-05 40.4 15.6 165 48-231 31-201 (250)
37 KOG1586 Protein required for f 95.5 1.3 2.8E-05 40.0 15.9 190 53-250 55-280 (288)
38 PF13176 TPR_7: Tetratricopept 95.3 0.037 8E-07 34.4 4.2 32 54-85 1-32 (36)
39 KOG0548 Molecular co-chaperone 95.3 1.1 2.3E-05 44.8 16.1 145 55-214 361-508 (539)
40 KOG1861 Leucine permease trans 95.1 2.6 5.7E-05 41.5 17.8 176 53-280 308-494 (540)
41 PF13414 TPR_11: TPR repeat; P 95.1 0.16 3.5E-06 35.9 7.6 61 54-117 5-66 (69)
42 PF13432 TPR_16: Tetratricopep 95.0 0.17 3.8E-06 35.4 7.6 59 56-117 1-59 (65)
43 KOG1840 Kinesin light chain [C 94.8 4.8 0.0001 40.7 19.7 236 52-290 199-458 (508)
44 PF08220 HTH_DeoR: DeoR-like h 94.6 0.076 1.6E-06 36.9 4.6 44 251-294 1-44 (57)
45 PRK02603 photosystem I assembl 94.6 0.28 6E-06 41.8 9.1 67 52-118 35-101 (172)
46 CHL00033 ycf3 photosystem I as 94.5 0.38 8.3E-06 40.7 9.9 107 52-158 35-142 (168)
47 PF12895 Apc3: Anaphase-promot 94.5 0.35 7.5E-06 35.9 8.5 81 65-153 2-82 (84)
48 TIGR02552 LcrH_SycD type III s 94.5 0.39 8.4E-06 38.6 9.4 96 53-157 18-113 (135)
49 PF12895 Apc3: Anaphase-promot 94.4 0.16 3.4E-06 37.8 6.3 58 54-115 27-84 (84)
50 PRK11788 tetratricopeptide rep 93.8 6.5 0.00014 37.5 18.3 101 53-157 108-208 (389)
51 KOG3054 Uncharacterized conser 93.7 0.2 4.4E-06 44.8 6.4 56 255-310 205-260 (299)
52 TIGR02917 PEP_TPR_lipo putativ 93.6 6.9 0.00015 41.1 19.1 103 53-158 602-732 (899)
53 PF13525 YfiO: Outer membrane 93.6 2.5 5.4E-05 37.1 13.4 123 51-175 41-185 (203)
54 TIGR02521 type_IV_pilW type IV 93.5 1 2.2E-05 38.7 10.7 59 55-116 34-92 (234)
55 PRK10866 outer membrane biogen 93.4 3.1 6.8E-05 37.7 14.1 126 50-178 67-222 (243)
56 PRK15431 ferrous iron transpor 93.3 0.22 4.7E-06 36.8 5.1 51 255-305 7-57 (78)
57 KOG2003 TPR repeat-containing 93.1 6.9 0.00015 38.6 16.2 117 48-174 520-636 (840)
58 TIGR02795 tol_pal_ybgF tol-pal 92.8 0.69 1.5E-05 35.8 7.9 67 52-118 39-105 (119)
59 PRK10803 tol-pal system protei 92.8 0.58 1.2E-05 43.2 8.4 105 53-160 143-248 (263)
60 TIGR00990 3a0801s09 mitochondr 92.7 14 0.0003 38.2 19.4 63 52-117 365-427 (615)
61 PF13174 TPR_6: Tetratricopept 92.7 0.24 5.2E-06 29.3 3.9 30 53-82 1-30 (33)
62 PRK11788 tetratricopeptide rep 92.6 1.5 3.2E-05 42.0 11.5 96 54-157 182-277 (389)
63 PRK15363 pathogenicity island 92.5 2.2 4.8E-05 36.1 10.7 100 49-157 32-131 (157)
64 smart00345 HTH_GNTR helix_turn 92.1 0.38 8.1E-06 32.8 4.8 49 247-295 2-51 (60)
65 KOG1125 TPR repeat-containing 92.0 1.2 2.7E-05 44.7 10.0 124 54-188 432-561 (579)
66 PF07719 TPR_2: Tetratricopept 92.0 0.44 9.5E-06 28.4 4.5 29 54-82 3-31 (34)
67 PRK15359 type III secretion sy 91.8 1.8 4E-05 35.7 9.6 94 55-157 27-120 (144)
68 PRK15331 chaperone protein Sic 91.8 2 4.4E-05 36.6 9.7 102 47-157 32-133 (165)
69 KOG1585 Protein required for f 91.7 7.5 0.00016 35.5 13.6 169 55-227 74-251 (308)
70 COG4700 Uncharacterized protei 91.7 6.1 0.00013 34.7 12.5 132 39-181 76-207 (251)
71 PF13525 YfiO: Outer membrane 91.5 3.2 6.8E-05 36.5 11.3 65 53-117 6-70 (203)
72 PF09976 TPR_21: Tetratricopep 91.5 5.2 0.00011 32.8 12.0 95 57-154 16-110 (145)
73 PF13181 TPR_8: Tetratricopept 91.4 0.55 1.2E-05 28.1 4.6 30 53-82 2-31 (34)
74 PF13429 TPR_15: Tetratricopep 91.3 3 6.6E-05 38.2 11.5 179 54-249 80-260 (280)
75 PF12569 NARP1: NMDA receptor- 91.3 13 0.00029 37.7 16.7 128 50-187 192-321 (517)
76 PF14559 TPR_19: Tetratricopep 91.1 0.57 1.2E-05 32.8 5.1 52 63-117 2-53 (68)
77 PLN03088 SGT1, suppressor of 91.1 1.6 3.4E-05 42.1 9.6 94 55-157 5-98 (356)
78 KOG3081 Vesicle coat complex C 91.0 6.2 0.00014 36.3 12.5 122 55-189 111-262 (299)
79 KOG1174 Anaphase-promoting com 90.9 7.9 0.00017 37.9 13.7 195 53-258 233-494 (564)
80 TIGR00990 3a0801s09 mitochondr 90.9 2.7 5.8E-05 43.4 11.7 91 52-152 127-217 (615)
81 TIGR03302 OM_YfiO outer membra 90.8 3.1 6.8E-05 36.9 10.8 105 52-159 33-145 (235)
82 TIGR02917 PEP_TPR_lipo putativ 90.6 10 0.00022 39.8 16.1 90 57-156 708-797 (899)
83 PF08784 RPA_C: Replication pr 90.3 0.3 6.5E-06 38.0 3.2 39 262-300 63-101 (102)
84 PF00515 TPR_1: Tetratricopept 90.3 0.74 1.6E-05 27.6 4.4 30 53-82 2-31 (34)
85 KOG0547 Translocase of outer m 90.3 1.3 2.8E-05 43.9 8.1 61 55-118 118-178 (606)
86 PF08279 HTH_11: HTH domain; 90.3 1.1 2.4E-05 30.4 5.7 42 251-292 1-43 (55)
87 PF13412 HTH_24: Winged helix- 89.8 1.2 2.6E-05 29.3 5.4 41 254-294 7-47 (48)
88 TIGR02521 type_IV_pilW type IV 89.8 12 0.00025 31.9 19.4 100 52-158 65-164 (234)
89 cd05804 StaR_like StaR_like; a 89.6 3.1 6.6E-05 39.3 10.2 97 54-155 116-212 (355)
90 PF03704 BTAD: Bacterial trans 89.3 5.8 0.00012 32.4 10.5 76 48-126 58-135 (146)
91 smart00420 HTH_DEOR helix_turn 89.1 1.5 3.2E-05 28.9 5.5 42 255-296 5-46 (53)
92 TIGR03302 OM_YfiO outer membra 89.0 3.2 6.9E-05 36.8 9.3 62 55-116 169-230 (235)
93 PF13374 TPR_10: Tetratricopep 89.0 1.1 2.3E-05 27.9 4.6 30 53-82 3-32 (42)
94 cd00189 TPR Tetratricopeptide 88.6 2.6 5.5E-05 29.7 7.1 61 53-116 35-95 (100)
95 PF13428 TPR_14: Tetratricopep 88.6 1.1 2.4E-05 28.9 4.5 30 54-83 3-32 (44)
96 PF00392 GntR: Bacterial regul 88.5 1.9 4E-05 30.4 6.0 52 244-295 3-55 (64)
97 PF04733 Coatomer_E: Coatomer 88.2 1.7 3.8E-05 40.6 7.2 90 56-159 106-197 (290)
98 PF13512 TPR_18: Tetratricopep 88.2 8.3 0.00018 32.1 10.4 60 55-114 13-72 (142)
99 PRK10370 formate-dependent nit 88.2 4.6 0.0001 35.3 9.6 97 52-157 73-172 (198)
100 PF13371 TPR_9: Tetratricopept 87.9 2.2 4.8E-05 30.2 6.2 57 58-117 1-57 (73)
101 KOG1156 N-terminal acetyltrans 87.6 37 0.00081 35.1 16.8 121 51-182 370-493 (700)
102 PRK11447 cellulose synthase su 87.6 28 0.00061 39.0 17.3 100 52-157 303-413 (1157)
103 COG4105 ComL DNA uptake lipopr 87.5 16 0.00035 33.3 12.7 108 51-160 70-198 (254)
104 KOG3677 RNA polymerase I-assoc 87.3 6.8 0.00015 38.2 10.5 231 90-335 236-513 (525)
105 PF13424 TPR_12: Tetratricopep 86.9 4.4 9.6E-05 29.1 7.4 68 89-156 5-73 (78)
106 KOG0543 FKBP-type peptidyl-pro 86.7 3.6 7.9E-05 39.8 8.4 97 55-157 211-319 (397)
107 KOG4414 COP9 signalosome, subu 86.4 5.6 0.00012 33.1 8.2 76 208-287 80-155 (197)
108 KOG1126 DNA-binding cell divis 86.0 27 0.00058 36.0 14.4 28 54-81 355-382 (638)
109 PRK10803 tol-pal system protei 85.9 13 0.00029 34.2 11.6 65 52-116 180-244 (263)
110 PF09743 DUF2042: Uncharacteri 85.9 5.6 0.00012 36.8 9.1 67 234-307 105-171 (272)
111 TIGR02787 codY_Gpos GTP-sensin 85.9 3.9 8.5E-05 37.0 7.7 72 226-297 140-231 (251)
112 PF01047 MarR: MarR family; I 85.7 3.4 7.3E-05 28.2 5.9 49 255-303 8-56 (59)
113 TIGR00373 conserved hypothetic 85.7 12 0.00026 31.7 10.3 93 238-331 3-97 (158)
114 PF13429 TPR_15: Tetratricopep 85.6 4.4 9.5E-05 37.1 8.4 93 55-156 149-241 (280)
115 PRK10747 putative protoheme IX 85.6 36 0.00078 33.1 15.2 56 59-117 160-215 (398)
116 smart00550 Zalpha Z-DNA-bindin 85.5 2.4 5.2E-05 30.4 5.2 43 254-296 10-54 (68)
117 PF01022 HTH_5: Bacterial regu 85.1 3 6.4E-05 27.4 5.1 43 250-294 3-45 (47)
118 TIGR03504 FimV_Cterm FimV C-te 85.1 1.6 3.5E-05 28.6 3.6 27 55-81 2-28 (44)
119 KOG2796 Uncharacterized conser 84.8 33 0.00072 31.8 14.2 97 55-158 180-281 (366)
120 KOG2003 TPR repeat-containing 84.7 3.9 8.5E-05 40.3 7.6 107 54-175 594-701 (840)
121 PRK10434 srlR DNA-bindng trans 84.5 1.9 4.1E-05 39.6 5.3 45 250-294 5-49 (256)
122 PRK11189 lipoprotein NlpI; Pro 84.5 9.1 0.0002 35.6 10.0 97 52-157 64-160 (296)
123 KOG0551 Hsp90 co-chaperone CNS 84.3 6.4 0.00014 37.4 8.6 71 48-118 77-148 (390)
124 CHL00033 ycf3 photosystem I as 83.7 13 0.00028 31.2 9.8 69 53-121 73-145 (168)
125 PRK14574 hmsH outer membrane p 83.6 49 0.0011 35.7 16.0 96 54-158 36-131 (822)
126 PLN03218 maturation of RBCL 1; 83.6 79 0.0017 35.2 20.3 35 207-241 757-793 (1060)
127 PRK10411 DNA-binding transcrip 83.4 2.3 5E-05 38.6 5.3 46 250-295 4-49 (240)
128 PF12862 Apc5: Anaphase-promot 83.2 13 0.00028 28.3 8.7 63 62-124 8-76 (94)
129 PRK04424 fatty acid biosynthes 83.2 1.8 3.8E-05 37.7 4.3 44 251-294 8-51 (185)
130 PF04703 FaeA: FaeA-like prote 83.0 3 6.5E-05 29.5 4.6 41 255-295 5-46 (62)
131 PRK11447 cellulose synthase su 82.7 15 0.00032 41.2 12.3 95 54-157 605-699 (1157)
132 PRK10049 pgaA outer membrane p 82.7 11 0.00025 40.0 11.0 98 52-158 359-456 (765)
133 smart00344 HTH_ASNC helix_turn 82.7 3.5 7.5E-05 32.0 5.5 48 253-300 6-56 (108)
134 PRK06266 transcription initiat 82.2 18 0.0004 31.2 10.2 96 234-330 5-104 (178)
135 PF12802 MarR_2: MarR family; 82.1 5.3 0.00011 27.4 5.7 48 256-303 11-60 (62)
136 COG2976 Uncharacterized protei 82.0 19 0.00041 31.7 10.1 100 52-158 89-188 (207)
137 PF07721 TPR_4: Tetratricopept 82.0 2.4 5.1E-05 24.1 3.2 23 54-76 3-25 (26)
138 COG1729 Uncharacterized protei 82.0 5.8 0.00013 36.4 7.3 101 55-159 144-245 (262)
139 PLN03098 LPA1 LOW PSII ACCUMUL 81.7 8.3 0.00018 38.2 8.6 68 51-118 74-141 (453)
140 cd07377 WHTH_GntR Winged helix 81.7 4.8 0.0001 27.7 5.4 51 245-295 5-56 (66)
141 COG1349 GlpR Transcriptional r 81.3 2.8 6E-05 38.4 5.1 46 250-295 5-50 (253)
142 PRK13509 transcriptional repre 81.2 3.1 6.7E-05 38.0 5.3 45 251-295 6-50 (251)
143 PRK09782 bacteriophage N4 rece 80.6 98 0.0021 34.2 17.7 93 54-159 46-138 (987)
144 KOG3250 COP9 signalosome, subu 80.3 11 0.00023 33.6 7.9 95 206-310 61-156 (258)
145 PF13404 HTH_AsnC-type: AsnC-t 80.2 4.9 0.00011 25.9 4.5 35 254-288 7-41 (42)
146 cd00090 HTH_ARSR Arsenical Res 80.2 15 0.00033 25.4 7.8 50 257-307 14-63 (78)
147 PRK09802 DNA-binding transcrip 79.5 3.7 7.9E-05 37.9 5.3 47 249-295 16-62 (269)
148 PRK10906 DNA-binding transcrip 79.5 3.7 8.1E-05 37.5 5.3 45 250-294 5-49 (252)
149 PF04184 ST7: ST7 protein; In 79.5 13 0.00029 37.1 9.2 106 10-116 198-322 (539)
150 PRK11014 transcriptional repre 79.4 5.9 0.00013 32.7 6.0 60 249-308 10-69 (141)
151 PRK10681 DNA-binding transcrip 78.9 3.2 6.9E-05 37.9 4.6 40 250-289 7-46 (252)
152 PF08281 Sigma70_r4_2: Sigma-7 78.8 5.9 0.00013 26.5 4.9 46 241-289 6-51 (54)
153 TIGR00540 hemY_coli hemY prote 78.7 18 0.00039 35.3 10.2 93 55-155 121-213 (409)
154 PF01984 dsDNA_bind: Double-st 78.4 0.94 2E-05 35.8 0.8 51 249-299 32-82 (107)
155 PRK12370 invasion protein regu 78.3 22 0.00048 36.2 11.1 96 52-156 338-433 (553)
156 COG3355 Predicted transcriptio 78.2 34 0.00074 27.8 9.8 82 255-336 33-116 (126)
157 PRK15359 type III secretion sy 78.1 13 0.00028 30.6 7.7 64 52-118 58-121 (144)
158 PF02082 Rrf2: Transcriptional 78.0 13 0.00029 27.5 7.0 48 265-313 26-73 (83)
159 smart00028 TPR Tetratricopepti 77.9 4.8 0.0001 22.0 3.8 27 54-80 3-29 (34)
160 PHA02943 hypothetical protein; 77.6 32 0.00069 28.9 9.5 65 242-310 5-69 (165)
161 PF10668 Phage_terminase: Phag 77.3 4.8 0.0001 28.2 4.0 37 251-287 9-45 (60)
162 KOG0548 Molecular co-chaperone 77.2 69 0.0015 32.3 13.4 92 57-157 7-98 (539)
163 PRK09954 putative kinase; Prov 77.1 7.7 0.00017 37.2 7.0 53 255-307 8-63 (362)
164 PRK10049 pgaA outer membrane p 76.9 1.1E+02 0.0024 32.7 18.3 99 58-156 278-386 (765)
165 TIGR02552 LcrH_SycD type III s 76.7 16 0.00035 28.9 7.9 64 52-118 51-114 (135)
166 cd05804 StaR_like StaR_like; a 76.5 12 0.00026 35.2 8.1 64 53-116 149-213 (355)
167 PF10345 Cohesin_load: Cohesin 76.4 99 0.0022 32.0 16.2 102 52-154 100-204 (608)
168 PF14853 Fis1_TPR_C: Fis1 C-te 76.1 15 0.00033 25.0 6.2 33 52-84 1-33 (53)
169 PF12840 HTH_20: Helix-turn-he 76.0 12 0.00025 25.9 5.9 50 246-296 7-56 (61)
170 TIGR02844 spore_III_D sporulat 76.0 5.1 0.00011 29.9 4.2 34 251-285 7-40 (80)
171 smart00419 HTH_CRP helix_turn_ 76.0 5.2 0.00011 25.7 3.9 32 264-295 8-39 (48)
172 KOG1155 Anaphase-promoting com 75.5 39 0.00084 33.7 11.0 97 52-152 432-530 (559)
173 PRK11189 lipoprotein NlpI; Pro 75.2 40 0.00087 31.3 11.1 95 52-156 98-192 (296)
174 KOG2076 RNA polymerase III tra 75.1 22 0.00047 37.9 9.8 69 48-118 410-478 (895)
175 KOG4555 TPR repeat-containing 74.7 48 0.001 27.5 9.9 94 55-154 46-140 (175)
176 PLN03088 SGT1, suppressor of 74.4 33 0.00072 32.9 10.5 64 52-118 36-99 (356)
177 PF13518 HTH_28: Helix-turn-he 74.2 9.9 0.00022 25.0 5.0 43 251-297 2-44 (52)
178 PRK15174 Vi polysaccharide exp 74.1 34 0.00074 35.8 11.3 93 55-156 287-379 (656)
179 PRK11169 leucine-responsive tr 74.0 7.2 0.00016 33.0 5.2 50 252-301 16-68 (164)
180 PF09339 HTH_IclR: IclR helix- 73.9 10 0.00022 25.3 5.0 41 254-294 7-48 (52)
181 PRK11179 DNA-binding transcrip 73.8 7.9 0.00017 32.4 5.3 48 253-300 12-62 (153)
182 smart00418 HTH_ARSR helix_turn 73.7 13 0.00027 25.0 5.7 44 262-305 8-51 (66)
183 PF14559 TPR_19: Tetratricopep 73.7 8.1 0.00018 26.7 4.7 33 52-84 25-57 (68)
184 PF13432 TPR_16: Tetratricopep 73.7 7.2 0.00016 26.8 4.4 30 52-81 31-60 (65)
185 KOG2002 TPR-containing nuclear 73.7 19 0.00041 38.7 9.0 100 52-158 270-371 (1018)
186 PRK10866 outer membrane biogen 73.6 34 0.00074 30.9 9.9 68 47-114 170-237 (243)
187 PF11817 Foie-gras_1: Foie gra 73.5 30 0.00066 31.3 9.6 56 55-110 181-239 (247)
188 KOG3252 Uncharacterized conser 73.4 43 0.00093 29.1 9.5 86 207-308 101-189 (217)
189 PRK04239 hypothetical protein; 73.4 3.7 8E-05 32.5 3.0 53 247-299 35-87 (110)
190 PRK02603 photosystem I assembl 73.2 50 0.0011 27.7 10.4 54 53-109 73-126 (172)
191 KOG3431 Apoptosis-related prot 73.1 4.2 9.1E-05 32.6 3.2 53 247-299 38-90 (129)
192 KOG2047 mRNA splicing factor [ 73.0 1.1E+02 0.0023 32.0 13.7 68 52-119 387-455 (835)
193 KOG0553 TPR repeat-containing 73.0 32 0.0007 32.2 9.4 94 55-157 84-177 (304)
194 KOG1155 Anaphase-promoting com 73.0 23 0.00051 35.2 8.8 83 34-117 443-535 (559)
195 KOG1126 DNA-binding cell divis 72.6 17 0.00037 37.4 8.1 114 52-181 489-602 (638)
196 KOG4234 TPR repeat-containing 72.4 12 0.00026 33.2 6.1 61 57-117 100-162 (271)
197 PLN03081 pentatricopeptide (PP 72.4 80 0.0017 33.1 13.7 57 55-113 293-349 (697)
198 COG4235 Cytochrome c biogenesi 72.4 34 0.00073 31.9 9.5 91 53-153 157-251 (287)
199 PRK12370 invasion protein regu 72.3 1.2E+02 0.0026 31.0 20.0 94 55-157 305-400 (553)
200 cd00092 HTH_CRP helix_turn_hel 71.8 6.7 0.00015 27.2 3.9 34 263-296 24-57 (67)
201 PF13431 TPR_17: Tetratricopep 71.3 3.9 8.4E-05 24.9 2.1 21 52-72 13-33 (34)
202 COG2956 Predicted N-acetylgluc 71.2 41 0.00089 32.0 9.7 96 54-155 143-240 (389)
203 PF13463 HTH_27: Winged helix 71.2 23 0.0005 24.5 6.6 49 255-303 8-57 (68)
204 PRK04841 transcriptional regul 70.8 89 0.0019 33.7 13.9 104 54-157 493-601 (903)
205 smart00346 HTH_ICLR helix_turn 70.7 12 0.00026 27.7 5.3 46 251-296 6-52 (91)
206 PF10345 Cohesin_load: Cohesin 70.7 1.4E+02 0.003 31.0 17.1 102 52-156 59-166 (608)
207 PF14947 HTH_45: Winged helix- 70.7 16 0.00035 26.7 5.8 59 262-337 17-75 (77)
208 TIGR03826 YvyF flagellar opero 70.6 6.3 0.00014 32.6 3.9 42 255-300 35-78 (137)
209 PRK03837 transcriptional regul 70.5 18 0.00038 32.3 7.3 64 243-308 15-79 (241)
210 PRK11534 DNA-binding transcrip 70.4 10 0.00022 33.6 5.6 64 243-308 9-72 (224)
211 PRK04841 transcriptional regul 70.4 50 0.0011 35.5 11.9 101 54-155 533-638 (903)
212 PF02064 MAS20: MAS20 protein 70.3 18 0.00038 29.3 6.3 60 36-95 47-106 (121)
213 PRK15174 Vi polysaccharide exp 70.2 41 0.00088 35.2 10.8 95 53-156 247-345 (656)
214 TIGR02337 HpaR homoprotocatech 70.0 29 0.00062 27.3 7.6 46 259-304 37-82 (118)
215 PF00325 Crp: Bacterial regula 69.1 11 0.00024 22.9 3.7 30 265-294 3-32 (32)
216 TIGR00540 hemY_coli hemY prote 68.6 1.2E+02 0.0026 29.5 18.8 100 56-158 157-292 (409)
217 KOG3785 Uncharacterized conser 68.6 43 0.00092 32.4 9.3 68 44-114 49-116 (557)
218 TIGR03879 near_KaiC_dom probab 68.6 8.4 0.00018 28.2 3.7 33 262-294 30-62 (73)
219 TIGR03338 phnR_burk phosphonat 68.5 20 0.00043 31.3 7.0 64 243-308 13-76 (212)
220 PF13545 HTH_Crp_2: Crp-like h 68.5 8.1 0.00017 27.7 3.8 43 264-310 28-70 (76)
221 PLN03218 maturation of RBCL 1; 68.4 2E+02 0.0044 32.1 19.7 94 55-155 510-605 (1060)
222 TIGR01764 excise DNA binding d 67.6 10 0.00023 24.2 3.9 31 265-299 2-32 (49)
223 PF01726 LexA_DNA_bind: LexA D 67.2 16 0.00035 25.9 4.9 31 265-295 26-57 (65)
224 PF04545 Sigma70_r4: Sigma-70, 67.1 19 0.00042 23.6 5.1 29 262-290 18-46 (50)
225 PF13371 TPR_9: Tetratricopept 67.1 11 0.00025 26.4 4.3 34 52-85 29-62 (73)
226 PF06163 DUF977: Bacterial pro 67.1 12 0.00025 30.4 4.6 41 255-295 17-57 (127)
227 TIGR02812 fadR_gamma fatty aci 67.0 19 0.00041 32.1 6.7 64 243-308 8-72 (235)
228 PF08631 SPO22: Meiosis protei 66.9 1.1E+02 0.0023 28.2 12.4 101 50-155 33-147 (278)
229 KOG1173 Anaphase-promoting com 66.7 18 0.00039 36.7 6.8 63 53-118 456-518 (611)
230 PRK10225 DNA-binding transcrip 66.7 24 0.00053 31.9 7.4 64 243-308 11-75 (257)
231 PF13730 HTH_36: Helix-turn-he 66.1 11 0.00023 25.3 3.7 29 266-294 27-55 (55)
232 PF13384 HTH_23: Homeodomain-l 66.0 7.8 0.00017 25.4 3.0 39 251-292 7-45 (50)
233 PF10300 DUF3808: Protein of u 66.0 49 0.0011 33.1 10.0 94 57-155 272-373 (468)
234 PRK15179 Vi polysaccharide bio 65.6 50 0.0011 34.9 10.3 59 52-113 86-144 (694)
235 PRK10857 DNA-binding transcrip 65.6 14 0.00031 31.4 5.2 48 261-308 22-69 (164)
236 KOG2235 Uncharacterized conser 65.3 22 0.00047 36.4 7.1 62 240-308 114-175 (776)
237 COG1802 GntR Transcriptional r 65.1 15 0.00032 32.8 5.6 65 242-308 17-81 (230)
238 KOG0624 dsRNA-activated protei 64.8 1.4E+02 0.003 28.9 16.4 112 37-158 24-135 (504)
239 COG2118 DNA-binding protein [G 64.8 7.8 0.00017 30.7 3.1 54 247-300 38-91 (116)
240 COG4649 Uncharacterized protei 64.8 60 0.0013 28.3 8.7 99 52-157 94-195 (221)
241 PF01325 Fe_dep_repress: Iron 64.6 23 0.0005 24.6 5.3 35 261-295 19-53 (60)
242 COG1522 Lrp Transcriptional re 63.9 17 0.00036 30.0 5.3 46 255-300 13-61 (154)
243 PF01865 PhoU_div: Protein of 63.7 20 0.00044 31.5 6.1 80 206-292 26-105 (214)
244 PHA00738 putative HTH transcri 62.5 73 0.0016 25.1 8.1 72 250-322 13-84 (108)
245 PF12739 TRAPPC-Trs85: ER-Golg 62.2 72 0.0016 31.3 10.2 111 45-155 201-326 (414)
246 PRK09782 bacteriophage N4 rece 62.1 79 0.0017 34.9 11.3 88 59-156 583-670 (987)
247 KOG2376 Signal recognition par 61.9 1E+02 0.0022 31.7 11.0 103 53-155 111-250 (652)
248 PRK14574 hmsH outer membrane p 61.6 2.4E+02 0.0052 30.6 19.1 92 55-158 105-198 (822)
249 PF12854 PPR_1: PPR repeat 61.5 14 0.0003 22.4 3.2 24 55-78 10-33 (34)
250 PF04967 HTH_10: HTH DNA bindi 61.4 14 0.00029 25.3 3.5 33 257-289 16-48 (53)
251 PLN03081 pentatricopeptide (PP 61.4 2.1E+02 0.0046 29.9 17.1 56 55-116 363-418 (697)
252 KOG1585 Protein required for f 60.2 1.4E+02 0.0031 27.5 13.0 106 51-156 90-217 (308)
253 KOG2076 RNA polymerase III tra 60.1 77 0.0017 34.0 10.1 70 46-118 161-236 (895)
254 TIGR02010 IscR iron-sulfur clu 60.0 29 0.00062 28.3 5.9 43 263-305 24-66 (135)
255 COG3063 PilF Tfp pilus assembl 59.8 47 0.001 30.1 7.5 31 52-82 69-99 (250)
256 TIGR00153 conserved hypothetic 59.1 1.2E+02 0.0026 26.7 10.2 79 206-291 29-107 (216)
257 PF01978 TrmB: Sugar-specific 58.9 40 0.00088 23.6 5.9 38 261-298 19-56 (68)
258 PRK10747 putative protoheme IX 58.8 1.1E+02 0.0024 29.6 10.9 87 59-153 125-211 (398)
259 PF13041 PPR_2: PPR repeat fam 58.5 21 0.00046 23.2 4.1 32 55-86 6-37 (50)
260 PF08280 HTH_Mga: M protein tr 58.2 36 0.00077 23.4 5.3 39 251-289 6-44 (59)
261 KOG2300 Uncharacterized conser 58.2 1.1E+02 0.0025 30.8 10.4 117 55-181 370-495 (629)
262 KOG2002 TPR-containing nuclear 57.9 19 0.0004 38.8 5.3 63 55-118 683-745 (1018)
263 PRK14165 winged helix-turn-hel 57.8 75 0.0016 28.4 8.6 52 258-309 15-66 (217)
264 TIGR02944 suf_reg_Xantho FeS a 57.7 33 0.00071 27.6 5.9 36 263-298 24-59 (130)
265 PRK11414 colanic acid/biofilm 57.6 24 0.00052 31.1 5.5 62 243-306 13-74 (221)
266 smart00347 HTH_MARR helix_turn 57.3 76 0.0016 23.4 8.3 48 255-302 15-62 (101)
267 smart00351 PAX Paired Box doma 56.9 31 0.00067 27.8 5.5 45 249-296 21-65 (125)
268 COG1959 Predicted transcriptio 56.9 27 0.00058 29.2 5.3 46 261-306 22-67 (150)
269 TIGR00756 PPR pentatricopeptid 56.7 24 0.00052 20.2 3.8 27 56-82 4-30 (35)
270 TIGR01610 phage_O_Nterm phage 56.2 53 0.0012 25.0 6.5 47 261-309 44-90 (95)
271 PF10007 DUF2250: Uncharacteri 56.2 14 0.00029 28.4 3.1 41 254-294 11-51 (92)
272 PF13812 PPR_3: Pentatricopept 55.9 31 0.00066 19.9 4.2 27 55-81 4-30 (34)
273 PF13542 HTH_Tnp_ISL3: Helix-t 55.8 27 0.00058 23.0 4.3 24 264-287 27-50 (52)
274 PRK04984 fatty acid metabolism 55.7 41 0.00089 30.0 6.8 63 244-308 10-73 (239)
275 KOG1070 rRNA processing protei 55.5 1.5E+02 0.0033 33.8 11.7 99 55-160 1461-1561(1710)
276 PRK09464 pdhR transcriptional 55.5 30 0.00064 31.3 5.9 64 243-308 12-76 (254)
277 PLN03077 Protein ECB2; Provisi 55.3 3E+02 0.0065 29.7 17.3 91 56-154 558-650 (857)
278 PF01535 PPR: PPR repeat; Int 55.2 20 0.00043 20.2 3.2 25 56-80 4-28 (31)
279 PRK11920 rirA iron-responsive 54.7 42 0.0009 28.1 6.2 45 261-305 21-65 (153)
280 PF12324 HTH_15: Helix-turn-he 54.6 26 0.00057 25.8 4.2 34 255-288 29-62 (77)
281 PF04053 Coatomer_WDAD: Coatom 54.1 64 0.0014 32.1 8.3 131 55-229 298-428 (443)
282 PRK15481 transcriptional regul 53.8 28 0.0006 34.1 5.8 55 243-297 7-62 (431)
283 cd06171 Sigma70_r4 Sigma70, re 53.5 48 0.001 21.0 5.3 27 263-289 25-51 (55)
284 KOG0396 Uncharacterized conser 53.4 2.1E+02 0.0045 27.7 11.0 97 55-156 119-218 (389)
285 PF13601 HTH_34: Winged helix 53.3 89 0.0019 23.0 8.0 50 254-303 4-53 (80)
286 COG2345 Predicted transcriptio 53.1 40 0.00087 30.1 6.0 44 254-297 15-58 (218)
287 PRK11523 DNA-binding transcrip 53.0 49 0.0011 29.9 6.9 64 243-308 10-74 (253)
288 PRK10141 DNA-binding transcrip 53.0 1.2E+02 0.0025 24.3 9.3 63 244-307 11-73 (117)
289 TIGR01884 cas_HTH CRISPR locus 52.4 59 0.0013 28.4 7.0 43 255-297 148-190 (203)
290 PRK10421 DNA-binding transcrip 52.4 53 0.0012 29.6 7.0 64 243-308 4-68 (253)
291 KOG0276 Vesicle coat complex C 52.3 2.9E+02 0.0063 28.8 12.3 156 55-254 617-776 (794)
292 PRK09990 DNA-binding transcrip 51.9 38 0.00081 30.5 5.9 64 243-308 9-73 (251)
293 TIGR02702 SufR_cyano iron-sulf 51.7 50 0.0011 28.9 6.5 44 254-297 5-48 (203)
294 cd00131 PAX Paired Box domain 51.3 42 0.00091 27.2 5.5 45 249-296 21-65 (128)
295 COG4565 CitB Response regulato 50.7 94 0.002 27.8 7.8 52 250-301 158-210 (224)
296 KOG1127 TPR repeat-containing 50.7 3.9E+02 0.0084 29.6 17.7 94 53-156 493-589 (1238)
297 COG5010 TadD Flp pilus assembl 50.7 2E+02 0.0043 26.4 10.1 59 56-117 70-128 (257)
298 PRK06771 hypothetical protein; 50.7 12 0.00026 28.6 2.0 30 264-293 36-67 (93)
299 PF14493 HTH_40: Helix-turn-he 50.5 23 0.0005 26.7 3.6 33 263-295 12-45 (91)
300 COG1497 Predicted transcriptio 50.4 36 0.00078 30.9 5.2 75 251-331 12-87 (260)
301 PF06056 Terminase_5: Putative 50.3 41 0.0009 23.3 4.5 35 250-287 2-36 (58)
302 PF12688 TPR_5: Tetratrico pep 50.2 1.3E+02 0.0028 24.0 8.9 59 51-112 37-98 (120)
303 PRK10370 formate-dependent nit 49.9 52 0.0011 28.7 6.3 67 52-121 107-176 (198)
304 PF12728 HTH_17: Helix-turn-he 49.9 25 0.00054 23.1 3.3 38 265-308 2-39 (51)
305 PF12862 Apc5: Anaphase-promot 49.9 91 0.002 23.5 6.9 33 50-82 39-71 (94)
306 PLN03083 E3 UFM1-protein ligas 49.7 93 0.002 33.3 8.9 61 240-308 115-175 (803)
307 PF05331 DUF742: Protein of un 49.6 79 0.0017 25.2 6.6 64 254-323 47-110 (114)
308 COG3629 DnrI DNA-binding trans 49.4 1.7E+02 0.0037 27.2 9.8 74 52-128 153-228 (280)
309 KOG4626 O-linked N-acetylgluco 49.1 1.1E+02 0.0024 31.9 8.9 96 52-156 320-415 (966)
310 smart00421 HTH_LUXR helix_turn 48.8 53 0.0012 21.3 5.0 29 262-290 16-44 (58)
311 cd06170 LuxR_C_like C-terminal 48.7 54 0.0012 21.3 5.0 29 262-290 13-41 (57)
312 TIGR02859 spore_sigH RNA polym 48.6 41 0.00088 28.8 5.4 45 241-288 145-189 (198)
313 PF10516 SHNi-TPR: SHNi-TPR; 48.6 42 0.00092 21.1 4.0 27 54-80 3-29 (38)
314 cd02680 MIT_calpain7_2 MIT: do 47.7 75 0.0016 23.3 5.7 28 57-84 11-38 (75)
315 TIGR01889 Staph_reg_Sar staphy 47.7 1.2E+02 0.0025 23.6 7.4 46 261-306 40-85 (109)
316 PF09613 HrpB1_HrpK: Bacterial 47.7 84 0.0018 26.7 6.8 65 85-155 6-70 (160)
317 PF06971 Put_DNA-bind_N: Putat 47.6 47 0.001 22.3 4.3 25 262-286 26-50 (50)
318 COG2956 Predicted N-acetylgluc 47.2 2.7E+02 0.0058 26.8 11.4 33 48-80 65-97 (389)
319 TIGR00738 rrf2_super rrf2 fami 47.1 52 0.0011 26.3 5.5 35 263-297 24-58 (132)
320 cd04762 HTH_MerR-trunc Helix-T 46.9 44 0.00095 21.0 4.1 28 266-297 2-29 (49)
321 PF10300 DUF3808: Protein of u 46.9 3.1E+02 0.0067 27.4 12.0 87 65-157 246-333 (468)
322 PRK11512 DNA-binding transcrip 46.7 86 0.0019 25.6 6.8 46 262-307 52-97 (144)
323 COG1747 Uncharacterized N-term 46.6 2.4E+02 0.0052 28.8 10.6 198 8-226 145-385 (711)
324 COG4105 ComL DNA uptake lipopr 46.5 1.5E+02 0.0032 27.2 8.6 63 55-121 170-232 (254)
325 TIGR00498 lexA SOS regulatory 46.2 39 0.00085 29.3 4.9 33 265-297 26-59 (199)
326 TIGR00635 ruvB Holliday juncti 46.1 1.7E+02 0.0037 26.9 9.5 32 264-295 255-287 (305)
327 PF08672 APC2: Anaphase promot 45.9 52 0.0011 23.0 4.5 25 273-297 30-54 (60)
328 PF13414 TPR_11: TPR repeat; P 45.8 83 0.0018 21.5 5.8 60 91-156 5-65 (69)
329 KOG1173 Anaphase-promoting com 45.8 85 0.0018 32.0 7.5 92 54-157 314-408 (611)
330 PF09295 ChAPs: ChAPs (Chs5p-A 45.8 95 0.0021 30.4 7.9 92 54-155 202-294 (395)
331 cd04761 HTH_MerR-SF Helix-Turn 45.5 44 0.00095 21.4 4.0 28 266-297 2-29 (49)
332 KOG1127 TPR repeat-containing 45.5 2.2E+02 0.0049 31.4 10.8 73 100-183 1049-1122(1238)
333 PF08221 HTH_9: RNA polymerase 45.4 65 0.0014 22.5 5.0 40 256-295 19-58 (62)
334 PF13512 TPR_18: Tetratricopep 45.2 40 0.00087 28.0 4.4 46 52-98 47-92 (142)
335 PRK09642 RNA polymerase sigma 45.0 53 0.0011 27.0 5.3 46 241-289 102-147 (160)
336 PRK06759 RNA polymerase factor 44.8 56 0.0012 26.6 5.4 43 244-289 105-147 (154)
337 KOG0550 Molecular chaperone (D 44.3 46 0.00099 32.7 5.2 98 55-158 252-350 (486)
338 KOG0545 Aryl-hydrocarbon recep 43.7 1.3E+02 0.0028 27.7 7.7 97 55-157 181-292 (329)
339 COG2378 Predicted transcriptio 43.7 50 0.0011 31.2 5.5 53 248-303 6-58 (311)
340 PF09295 ChAPs: ChAPs (Chs5p-A 43.7 2.5E+02 0.0055 27.5 10.5 87 57-155 174-260 (395)
341 TIGR00985 3a0801s04tom mitocho 43.5 63 0.0014 27.0 5.4 49 48-96 86-135 (148)
342 PF09743 DUF2042: Uncharacteri 43.1 77 0.0017 29.4 6.5 39 262-300 190-228 (272)
343 PF13011 LZ_Tnp_IS481: leucine 43.0 38 0.00083 25.5 3.6 37 263-300 24-60 (85)
344 PF12487 DUF3703: Protein of u 42.8 1.7E+02 0.0037 23.3 8.4 63 55-117 12-75 (112)
345 TIGR02561 HrpB1_HrpK type III 42.6 1.1E+02 0.0023 25.8 6.5 66 85-156 6-71 (153)
346 PF01476 LysM: LysM domain; I 42.2 27 0.00058 22.0 2.4 19 266-284 8-26 (44)
347 PF04760 IF2_N: Translation in 42.1 33 0.00071 23.0 3.0 24 264-287 3-26 (54)
348 PF09182 PuR_N: Bacterial puri 42.0 72 0.0016 23.1 4.7 36 250-285 4-41 (70)
349 COG1729 Uncharacterized protei 41.4 2.5E+02 0.0055 25.8 9.4 66 52-117 178-243 (262)
350 PRK03902 manganese transport t 41.4 64 0.0014 26.4 5.2 41 255-295 13-53 (142)
351 KOG0553 TPR repeat-containing 41.3 62 0.0013 30.4 5.5 25 55-79 118-142 (304)
352 PF13936 HTH_38: Helix-turn-he 41.2 35 0.00076 22.0 2.9 25 263-287 19-43 (44)
353 KOG2114 Vacuolar assembly/sort 41.2 1.4E+02 0.0031 32.0 8.5 36 45-80 361-396 (933)
354 KOG3617 WD40 and TPR repeat-co 41.1 26 0.00057 37.4 3.3 27 52-78 858-884 (1416)
355 PF08765 Mor: Mor transcriptio 41.1 1.4E+02 0.0031 23.2 7.0 55 231-288 42-96 (108)
356 COG5010 TadD Flp pilus assembl 41.0 2.6E+02 0.0056 25.7 9.3 94 55-157 103-196 (257)
357 PRK03573 transcriptional regul 40.9 98 0.0021 25.1 6.3 43 264-306 46-88 (144)
358 TIGR02325 C_P_lyase_phnF phosp 40.9 1E+02 0.0023 27.2 7.0 63 244-308 11-74 (238)
359 PF00376 MerR: MerR family reg 40.9 31 0.00067 21.6 2.5 20 266-285 1-20 (38)
360 PRK12514 RNA polymerase sigma 40.7 66 0.0014 27.0 5.4 44 243-289 127-170 (179)
361 PF01710 HTH_Tnp_IS630: Transp 40.6 40 0.00086 26.9 3.7 37 253-289 60-96 (119)
362 PRK11511 DNA-binding transcrip 40.4 58 0.0013 26.1 4.7 34 255-288 14-49 (127)
363 PF10078 DUF2316: Uncharacteri 40.4 31 0.00068 26.2 2.8 23 263-285 22-44 (89)
364 COG3413 Predicted DNA binding 40.3 32 0.0007 30.4 3.5 33 257-289 171-203 (215)
365 PRK12534 RNA polymerase sigma 40.0 60 0.0013 27.5 5.1 42 244-288 136-177 (187)
366 PF04348 LppC: LppC putative l 39.9 9.6 0.00021 38.9 0.0 247 55-326 27-280 (536)
367 PRK12547 RNA polymerase sigma 39.8 71 0.0015 26.5 5.4 47 241-290 108-154 (164)
368 PRK12537 RNA polymerase sigma 39.8 67 0.0014 27.2 5.3 44 243-289 131-174 (182)
369 TIGR02018 his_ut_repres histid 39.6 83 0.0018 27.9 6.1 63 244-308 4-67 (230)
370 TIGR02675 tape_meas_nterm tape 39.4 37 0.00081 24.8 3.1 26 267-296 47-72 (75)
371 PF11817 Foie-gras_1: Foie gra 39.3 1.2E+02 0.0025 27.5 7.0 81 105-185 154-235 (247)
372 PRK11753 DNA-binding transcrip 39.0 2.5E+02 0.0053 24.0 10.5 42 264-309 168-209 (211)
373 PRK11161 fumarate/nitrate redu 38.6 1.5E+02 0.0033 26.0 7.7 42 264-309 184-225 (235)
374 smart00342 HTH_ARAC helix_turn 38.6 1.3E+02 0.0027 21.0 6.0 41 246-287 33-74 (84)
375 PRK09047 RNA polymerase factor 38.5 78 0.0017 25.9 5.4 44 243-289 104-147 (161)
376 PRK12529 RNA polymerase sigma 38.4 77 0.0017 26.8 5.5 45 242-289 124-168 (178)
377 cd00086 homeodomain Homeodomai 38.2 65 0.0014 21.4 4.1 28 260-287 22-50 (59)
378 PF04492 Phage_rep_O: Bacterio 37.8 51 0.0011 25.6 3.8 35 260-294 50-84 (100)
379 PRK00080 ruvB Holliday junctio 37.7 2.6E+02 0.0056 26.3 9.4 33 263-295 275-308 (328)
380 TIGR02943 Sig70_famx1 RNA poly 37.7 72 0.0016 27.3 5.2 41 245-288 131-171 (188)
381 PRK09392 ftrB transcriptional 37.5 2.7E+02 0.0058 24.4 9.1 39 267-310 176-214 (236)
382 PRK12530 RNA polymerase sigma 37.5 78 0.0017 27.1 5.4 46 241-289 130-175 (189)
383 COG1392 Phosphate transport re 37.4 1.3E+02 0.0028 26.8 6.8 80 206-292 28-107 (217)
384 PF11972 HTH_13: HTH DNA bindi 37.3 68 0.0015 22.0 3.8 36 255-290 4-39 (54)
385 PRK09391 fixK transcriptional 37.3 2.5E+02 0.0054 24.8 8.8 42 264-309 179-221 (230)
386 PF00440 TetR_N: Bacterial reg 37.1 70 0.0015 20.6 3.9 21 261-281 13-33 (47)
387 PRK09764 DNA-binding transcrip 37.1 91 0.002 27.9 6.0 64 244-309 8-72 (240)
388 KOG4648 Uncharacterized conser 37.0 1.6E+02 0.0035 28.5 7.5 47 57-103 102-152 (536)
389 COG2963 Transposase and inacti 36.9 95 0.0021 24.3 5.4 46 248-295 10-56 (116)
390 KOG3617 WD40 and TPR repeat-co 36.8 1E+02 0.0022 33.2 6.7 88 53-155 1081-1171(1416)
391 PRK14999 histidine utilization 36.8 92 0.002 27.8 5.9 63 244-308 15-78 (241)
392 PF10771 DUF2582: Protein of u 36.3 1E+02 0.0022 22.0 4.8 51 255-307 13-63 (65)
393 PRK00215 LexA repressor; Valid 36.3 75 0.0016 27.7 5.1 36 264-299 23-59 (205)
394 PRK14720 transcript cleavage f 36.0 2E+02 0.0042 31.5 8.9 196 39-240 210-431 (906)
395 PRK12523 RNA polymerase sigma 35.7 95 0.0021 25.9 5.6 44 244-290 118-161 (172)
396 KOG0624 dsRNA-activated protei 35.6 4.3E+02 0.0092 25.7 14.6 98 52-155 106-215 (504)
397 PF03297 Ribosomal_S25: S25 ri 35.6 2E+02 0.0043 22.6 6.8 49 260-308 55-103 (105)
398 PF12569 NARP1: NMDA receptor- 35.4 1.5E+02 0.0032 30.3 7.6 58 54-114 6-63 (517)
399 KOG0547 Translocase of outer m 35.3 3.3E+02 0.0071 27.7 9.6 114 52-181 326-439 (606)
400 TIGR02952 Sig70_famx2 RNA poly 35.2 93 0.002 25.7 5.4 43 245-290 122-164 (170)
401 TIGR02954 Sig70_famx3 RNA poly 35.0 86 0.0019 26.0 5.2 45 242-289 116-160 (169)
402 PF03374 ANT: Phage antirepres 34.9 86 0.0019 24.3 4.8 35 253-287 13-47 (111)
403 smart00531 TFIIE Transcription 34.9 2.2E+02 0.0049 23.5 7.5 52 258-309 9-65 (147)
404 PRK12526 RNA polymerase sigma 34.8 91 0.002 27.1 5.4 43 244-289 152-194 (206)
405 PRK14584 hmsS hemin storage sy 34.7 1E+02 0.0023 25.9 5.4 57 247-309 83-139 (153)
406 PF01527 HTH_Tnp_1: Transposas 34.7 1E+02 0.0022 21.8 4.8 41 247-289 8-48 (76)
407 PF09986 DUF2225: Uncharacteri 34.6 3E+02 0.0064 24.4 8.7 67 52-118 118-194 (214)
408 COG1191 FliA DNA-directed RNA 34.6 3.6E+02 0.0078 24.6 10.4 29 262-290 210-238 (247)
409 PRK12525 RNA polymerase sigma 34.6 95 0.0021 25.8 5.4 40 248-290 121-160 (168)
410 PF05843 Suf: Suppressor of fo 34.3 1.7E+02 0.0036 27.0 7.4 61 58-118 76-136 (280)
411 PRK09645 RNA polymerase sigma 34.2 96 0.0021 25.8 5.4 42 245-289 118-159 (173)
412 PF08721 Tn7_Tnp_TnsA_C: TnsA 34.2 69 0.0015 22.9 3.9 43 254-296 31-77 (79)
413 PRK12533 RNA polymerase sigma 34.1 69 0.0015 28.4 4.6 43 243-288 132-174 (216)
414 KOG2300 Uncharacterized conser 34.0 5.2E+02 0.011 26.3 15.6 95 55-151 49-149 (629)
415 PRK12511 RNA polymerase sigma 34.0 94 0.002 26.5 5.3 45 243-290 109-153 (182)
416 PRK12545 RNA polymerase sigma 33.6 96 0.0021 26.8 5.4 44 243-289 137-180 (201)
417 KOG1129 TPR repeat-containing 33.6 4.5E+02 0.0097 25.4 9.8 26 91-116 292-317 (478)
418 PRK05472 redox-sensing transcr 33.5 1.3E+02 0.0028 26.4 6.3 45 248-292 14-60 (213)
419 PF02796 HTH_7: Helix-turn-hel 33.2 49 0.0011 21.3 2.6 21 265-285 22-42 (45)
420 PF13551 HTH_29: Winged helix- 33.2 78 0.0017 24.1 4.3 37 262-299 9-46 (112)
421 PF07720 TPR_3: Tetratricopept 33.1 97 0.0021 19.1 3.8 23 54-76 3-25 (36)
422 PRK12520 RNA polymerase sigma 33.0 99 0.0022 26.3 5.3 43 244-289 130-172 (191)
423 PF09986 DUF2225: Uncharacteri 32.9 3.5E+02 0.0076 23.9 9.1 122 36-159 63-195 (214)
424 PF07079 DUF1347: Protein of u 32.8 3.6E+02 0.0077 27.2 9.3 100 130-232 7-108 (549)
425 TIGR03001 Sig-70_gmx1 RNA poly 32.8 98 0.0021 28.0 5.4 47 240-289 156-202 (244)
426 PF10579 Rapsyn_N: Rapsyn N-te 32.7 2.1E+02 0.0045 21.3 7.5 54 59-112 13-66 (80)
427 PRK09651 RNA polymerase sigma 32.6 91 0.002 26.1 5.0 37 251-290 125-161 (172)
428 PF13613 HTH_Tnp_4: Helix-turn 32.5 1E+02 0.0022 20.5 4.2 28 262-289 17-44 (53)
429 PRK10219 DNA-binding transcrip 32.3 1.3E+02 0.0028 23.0 5.4 27 262-288 19-45 (107)
430 KOG4626 O-linked N-acetylgluco 32.3 1.9E+02 0.004 30.4 7.5 54 53-109 117-170 (966)
431 PRK12522 RNA polymerase sigma 32.1 1.1E+02 0.0023 25.6 5.3 41 246-289 120-160 (173)
432 KOG1129 TPR repeat-containing 31.8 1.5E+02 0.0033 28.4 6.5 27 55-81 293-319 (478)
433 PRK09652 RNA polymerase sigma 31.7 1E+02 0.0022 25.6 5.1 27 262-288 142-168 (182)
434 KOG3616 Selective LIM binding 31.7 1.5E+02 0.0033 31.6 6.9 93 54-154 997-1104(1636)
435 KOG1662 Mitochondrial F1F0-ATP 31.7 1.2E+02 0.0026 26.7 5.4 105 224-339 87-207 (210)
436 PF13959 DUF4217: Domain of un 31.7 1.6E+02 0.0035 20.6 5.3 21 257-277 38-58 (65)
437 TIGR02404 trehalos_R_Bsub treh 31.5 1.4E+02 0.0029 26.5 6.1 62 245-308 4-66 (233)
438 PRK15363 pathogenicity island 31.4 3.2E+02 0.007 23.1 10.2 65 52-119 69-133 (157)
439 PRK12524 RNA polymerase sigma 31.3 1.1E+02 0.0024 26.2 5.4 42 244-288 135-176 (196)
440 PF01710 HTH_Tnp_IS630: Transp 31.2 79 0.0017 25.1 4.1 42 250-295 7-48 (119)
441 PF14549 P22_Cro: DNA-binding 31.2 84 0.0018 22.0 3.6 19 266-284 11-29 (60)
442 PRK13919 putative RNA polymera 31.0 1.1E+02 0.0025 25.7 5.4 37 250-289 140-176 (186)
443 COG2886 Uncharacterized small 30.9 1.2E+02 0.0027 23.0 4.7 25 263-287 40-64 (88)
444 PRK12516 RNA polymerase sigma 30.8 1.2E+02 0.0025 26.0 5.4 44 243-289 114-157 (187)
445 PRK00118 putative DNA-binding 30.8 1.3E+02 0.0029 23.5 5.1 27 262-288 31-57 (104)
446 KOG3151 26S proteasome regulat 30.7 4.2E+02 0.009 24.2 15.4 149 133-293 60-218 (260)
447 PRK09647 RNA polymerase sigma 30.7 1.2E+02 0.0026 26.4 5.5 43 244-289 137-179 (203)
448 PRK12539 RNA polymerase sigma 30.7 1.1E+02 0.0024 25.9 5.2 43 244-289 130-172 (184)
449 TIGR02947 SigH_actino RNA poly 30.3 60 0.0013 27.8 3.5 44 243-289 129-172 (193)
450 PRK07037 extracytoplasmic-func 30.3 1.3E+02 0.0028 24.7 5.5 42 245-289 109-150 (163)
451 PF09418 DUF2009: Protein of u 30.1 2.8E+02 0.006 27.7 8.2 43 138-180 71-114 (458)
452 PF04010 DUF357: Protein of un 29.9 1.1E+02 0.0025 22.3 4.3 26 52-77 35-60 (75)
453 TIGR03362 VI_chp_7 type VI sec 29.9 2.5E+02 0.0054 26.4 7.7 68 59-126 220-289 (301)
454 PF02002 TFIIE_alpha: TFIIE al 29.7 93 0.002 23.9 4.1 37 261-297 24-60 (105)
455 TIGR02997 Sig70-cyanoRpoD RNA 29.6 4.6E+02 0.0099 24.3 10.8 35 264-298 177-211 (298)
456 TIGR02937 sigma70-ECF RNA poly 29.6 1.3E+02 0.0027 23.7 5.2 28 262-289 124-151 (158)
457 PRK10046 dpiA two-component re 29.6 1.3E+02 0.0027 26.4 5.5 39 262-300 175-213 (225)
458 PRK12544 RNA polymerase sigma 29.2 1.1E+02 0.0024 26.7 5.0 43 243-288 146-188 (206)
459 PRK15090 DNA-binding transcrip 29.2 1.1E+02 0.0024 27.6 5.2 42 255-296 19-60 (257)
460 COG1846 MarR Transcriptional r 29.1 2E+02 0.0044 21.7 6.2 37 268-304 40-76 (126)
461 COG4783 Putative Zn-dependent 28.9 2.6E+02 0.0056 28.1 7.8 67 56-122 378-458 (484)
462 COG4367 Uncharacterized protei 28.8 64 0.0014 24.4 2.8 24 262-285 21-44 (97)
463 PRK09646 RNA polymerase sigma 28.7 1.2E+02 0.0026 25.9 5.2 45 241-288 138-182 (194)
464 PRK09334 30S ribosomal protein 28.7 1.6E+02 0.0036 22.2 5.0 37 261-297 38-74 (86)
465 PRK15179 Vi polysaccharide bio 28.7 5E+02 0.011 27.6 10.5 96 52-156 120-215 (694)
466 COG5159 RPN6 26S proteasome re 28.6 5.1E+02 0.011 24.5 14.6 66 56-121 7-77 (421)
467 PRK10153 DNA-binding transcrip 28.5 2.4E+02 0.0053 28.6 7.9 53 97-156 428-480 (517)
468 PRK12532 RNA polymerase sigma 28.4 1.2E+02 0.0026 25.9 5.1 35 251-288 142-176 (195)
469 TIGR02983 SigE-fam_strep RNA p 28.4 1.3E+02 0.0028 24.7 5.1 29 262-290 124-152 (162)
470 TIGR02479 FliA_WhiG RNA polyme 28.4 1.3E+02 0.0028 26.5 5.4 42 245-289 175-216 (224)
471 PRK11924 RNA polymerase sigma 28.2 1.3E+02 0.0028 24.9 5.2 27 262-288 139-165 (179)
472 PF14276 DUF4363: Domain of un 28.2 3E+02 0.0065 21.7 9.0 66 55-120 31-108 (121)
473 PRK12543 RNA polymerase sigma 28.2 1.4E+02 0.003 25.1 5.4 35 251-288 123-157 (179)
474 PF07106 TBPIP: Tat binding pr 28.1 3.6E+02 0.0079 22.6 8.7 53 254-308 5-61 (169)
475 TIGR02999 Sig-70_X6 RNA polyme 28.1 1.1E+02 0.0023 25.8 4.6 41 246-289 135-175 (183)
476 PRK09649 RNA polymerase sigma 28.1 1.2E+02 0.0026 25.8 5.0 45 242-289 127-171 (185)
477 PRK09648 RNA polymerase sigma 27.8 1.4E+02 0.003 25.3 5.4 44 243-289 137-180 (189)
478 TIGR00122 birA_repr_reg BirA b 27.7 1.6E+02 0.0034 20.6 4.7 29 265-293 14-42 (69)
479 KOG2561 Adaptor protein NUB1, 27.6 3.2E+02 0.007 27.3 8.0 97 53-153 164-291 (568)
480 PF12793 SgrR_N: Sugar transpo 27.5 1.6E+02 0.0035 23.4 5.2 35 262-296 17-51 (115)
481 PF06969 HemN_C: HemN C-termin 27.5 2.1E+02 0.0045 19.6 5.5 43 262-308 18-61 (66)
482 PRK12542 RNA polymerase sigma 27.3 1.3E+02 0.0029 25.4 5.1 43 243-288 120-162 (185)
483 PRK12528 RNA polymerase sigma 27.3 1.6E+02 0.0035 24.1 5.5 37 250-289 118-154 (161)
484 COG2976 Uncharacterized protei 27.3 3.8E+02 0.0082 23.7 7.7 59 55-119 129-189 (207)
485 PRK12512 RNA polymerase sigma 27.0 1.5E+02 0.0033 24.9 5.4 43 244-289 130-172 (184)
486 PRK12519 RNA polymerase sigma 27.0 1.2E+02 0.0026 25.8 4.8 28 262-289 155-182 (194)
487 PRK10870 transcriptional repre 26.9 3.9E+02 0.0085 22.7 11.8 44 263-306 70-113 (176)
488 PF14069 SpoVIF: Stage VI spor 26.9 78 0.0017 23.5 3.0 28 267-294 37-65 (79)
489 PF04157 EAP30: EAP30/Vps36 fa 26.8 1E+02 0.0022 27.4 4.4 35 260-294 186-220 (223)
490 PRK13777 transcriptional regul 26.7 2.9E+02 0.0062 24.0 7.0 70 259-328 54-124 (185)
491 PF13934 ELYS: Nuclear pore co 26.7 4.6E+02 0.01 23.4 9.5 137 129-292 78-215 (226)
492 KOG0495 HAT repeat protein [RN 26.6 3.4E+02 0.0074 28.6 8.3 60 55-117 587-646 (913)
493 PRK12540 RNA polymerase sigma 26.5 1.4E+02 0.003 25.4 5.1 44 243-289 109-152 (182)
494 PF04539 Sigma70_r3: Sigma-70 26.5 1.3E+02 0.0028 21.4 4.2 26 263-288 19-44 (78)
495 TIGR03209 P21_Cbot clostridium 26.5 72 0.0016 25.7 3.2 41 239-282 101-141 (142)
496 PRK11886 bifunctional biotin-- 26.3 1.3E+02 0.0027 28.4 5.2 41 253-293 7-47 (319)
497 PRK09641 RNA polymerase sigma 26.2 1.5E+02 0.0032 24.9 5.3 27 262-288 150-176 (187)
498 PF00046 Homeobox: Homeobox do 26.1 83 0.0018 20.9 2.9 25 263-287 26-50 (57)
499 KOG1941 Acetylcholine receptor 26.1 6.4E+02 0.014 24.8 10.6 101 54-155 248-360 (518)
500 PRK12535 RNA polymerase sigma 26.0 1.3E+02 0.0028 26.0 4.9 39 246-287 134-172 (196)
No 1
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.9e-73 Score=513.24 Aligned_cols=334 Identities=63% Similarity=1.028 Sum_probs=324.2
Q ss_pred cccCCCCcchhHhhhhhhcchHHHHhhcc------------ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHH
Q 019472 7 WIMRSPPPPSFGHLCLLLSYLVVISFVMP------------LSRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQ 74 (340)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~ 74 (340)
-|-.-.|+|+|..+|.+..+++|++++.. .++++++++|+|+.++|+++.++|++|+++||.++|++.
T Consensus 47 ~Ird~~Map~Ye~lce~~~i~~D~~~l~~m~~~neeki~eld~~iedaeenlGE~ev~ea~~~kaeYycqigDkena~~~ 126 (393)
T KOG0687|consen 47 AIRDEDMAPLYEYLCESLVIKLDQDLLNSMKKANEEKIKELDEKIEDAEENLGESEVREAMLRKAEYYCQIGDKENALEA 126 (393)
T ss_pred HHHhcccchHHHHHHhhcceeccHHHHHHHHHhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence 45667899999999999999999999953 666788999999999999999999999999999999999
Q ss_pred HHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHh
Q 019472 75 LKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLD 154 (340)
Q Consensus 75 l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e 154 (340)
+.+..+..++.++++|+.+..+|++++.+|...+.++++||+++++.||||+++||+|+|+|++.++.|||++||.+|+|
T Consensus 127 ~~~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld 206 (393)
T KOG0687|consen 127 LRKTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLD 206 (393)
T ss_pred HHHHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHh-HHHh
Q 019472 155 SISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGL-TEQI 233 (340)
Q Consensus 155 ~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll~af~~~~~~~~~~~L~~~-~~~l 233 (340)
+.+||++.|++++.+++.|+++|++.+++|.+++++|+++|++...++..|.+.+++.++++|+|..|+..|... ..++
T Consensus 207 ~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~l 286 (393)
T KOG0687|consen 207 SVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQL 286 (393)
T ss_pred HcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999655 7889
Q ss_pred hcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcc
Q 019472 234 KLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAK 313 (340)
Q Consensus 234 ~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r 313 (340)
..|.|+++|.+.+.+++|.+++.|+++||++++++.||+.||+|+++++++|.++|.+|+++|+||.++|+|++++||++
T Consensus 287 k~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~K 366 (393)
T KOG0687|consen 287 KDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDEK 366 (393)
T ss_pred ccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeecccceeecCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHhhHHHHHHHHHhhhhhcC
Q 019472 314 NALYQATIKQGDFLLNRIQKLSRVIDL 340 (340)
Q Consensus 314 ~~~y~~~l~~~~~l~~ri~~l~~~v~~ 340 (340)
+..|+.+|++||.++|||||+++||++
T Consensus 367 N~qyq~vikqGd~LLnriQK~~rvi~~ 393 (393)
T KOG0687|consen 367 NAQYQAVIKQGDLLLNRIQKLSRVINL 393 (393)
T ss_pred chHHHHHHhhhHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999985
No 2
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.2e-56 Score=399.22 Aligned_cols=331 Identities=37% Similarity=0.650 Sum_probs=302.1
Q ss_pred ccCCCCcchhHhhhhhh-------cchHHHHhhcc------------ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCH
Q 019472 8 IMRSPPPPSFGHLCLLL-------SYLVVISFVMP------------LSRIADAEENLGESEVREAHLAKSLFYIQIGDK 68 (340)
Q Consensus 8 ~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~------------~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~ 68 (340)
|....|+|+|.-+|-.- .-|.++.+++- .++|.+.++.-++.+.-++...+|++|+++||.
T Consensus 52 i~d~~maplYkyL~E~~n~kt~a~~ikfD~~~~n~l~kkneeki~Elde~i~~~eedngE~e~~ea~~n~aeyY~qi~D~ 131 (412)
T COG5187 52 IIDKCMAPLYKYLAEKGNPKTSASVIKFDRGRMNTLLKKNEEKIEELDERIREKEEDNGETEGSEADRNIAEYYCQIMDI 131 (412)
T ss_pred HHHhhhhHHHHHHHhccCCcccchheehhhHHHHHHHHhhHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHhhh
Confidence 34456888888887632 23445555431 355566654447888899999999999999999
Q ss_pred HHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHH
Q 019472 69 EKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKA 148 (340)
Q Consensus 69 ~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~A 148 (340)
+++.+...+..+.-++.+.|+|..+..+|+++..+|-..+.+.++++++.+++||||+++|++|+|.|++.+..|||++|
T Consensus 132 ~ng~~~~~~~~~~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDWeRrNRyK~Y~Gi~~m~~RnFkeA 211 (412)
T COG5187 132 QNGFEWMRRLMRDAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDWERRNRYKVYKGIFKMMRRNFKEA 211 (412)
T ss_pred hhHHHHHHHHHHHHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCHHhhhhHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch---HHHHHHHHHhccHHH-HHH
Q 019472 149 ASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY---LSEFLNSLYDCQYKS-FFS 224 (340)
Q Consensus 149 a~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~---l~~ll~af~~~~~~~-~~~ 224 (340)
+.+|.++++||++.|++++.++++|+++|++++++|.+++++++++|++..++++... +..++.+.+.|||.. |..
T Consensus 212 a~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ 291 (412)
T COG5187 212 AILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMN 291 (412)
T ss_pred HHHHHHHhccccccccccHHHHHHHHHHhhhheeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHH
Confidence 9999999999999999999999999999999999999999999999999998876554 578889999999995 455
Q ss_pred HHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCE
Q 019472 225 AFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGV 304 (340)
Q Consensus 225 ~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~ 304 (340)
.+..+.+.|..|.|+..|++.+.+++|.+++.|.+++|+.++|+.||+.||+|++.+++.|.++|.+|+++|.||++||+
T Consensus 292 ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnGv 371 (412)
T COG5187 292 LLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNGV 371 (412)
T ss_pred HHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccce
Confidence 66667889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCCcchHHHHHHHHhhHHHHHHHHHhhhhh
Q 019472 305 LETNRPDAKNALYQATIKQGDFLLNRIQKLSRVI 338 (340)
Q Consensus 305 l~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~v 338 (340)
|++++||+++..|+.++++||.+++++||+.++|
T Consensus 372 Vetnrpdekn~qy~~vVkqGd~ll~klqKy~atv 405 (412)
T COG5187 372 VETNRPDEKNQQYSSVVKQGDDLLRKLQKYVATV 405 (412)
T ss_pred EeccCcchhhhhHHHHHhcchHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999876
No 3
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=8e-57 Score=416.12 Aligned_cols=298 Identities=22% Similarity=0.320 Sum_probs=278.8
Q ss_pred ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHH
Q 019472 36 LSRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKA 115 (340)
Q Consensus 36 ~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka 115 (340)
.+.|+.++.|++||+||+++.+||+||.++|++++|+++|.++|+|||+.+|.++||+++++|+|..+||.|+..+++||
T Consensus 134 ~~eLk~yK~n~iKEsiRra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A 213 (466)
T KOG0686|consen 134 DNELKSYKDNLIKESIRRALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKA 213 (466)
T ss_pred HHHHHHhhcchhhHHHHHHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHH
Confidence 45567788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcC--CChhhhhHhhHHHHHhccccCCHHHHHHHHHhccc-cCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhcc
Q 019472 116 KSLFEEG--GDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS-TFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVV 192 (340)
Q Consensus 116 ~~~l~~~--~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~-~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll 192 (340)
++..... ..+....+++|+.|+.++..|+|+.|+.+|+.+-. +.++.+++++.|++.|++||||++++|.+++.+++
T Consensus 214 ~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi 293 (466)
T KOG0686|consen 214 ESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVI 293 (466)
T ss_pred HhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHH
Confidence 9986332 22345578999999999999999999999999754 34667999999999999999999999999998899
Q ss_pred CChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHH
Q 019472 193 DAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAK 272 (340)
Q Consensus 193 ~~~~~~~~l~~~p~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~ 272 (340)
+|..|+.+++.+|.+++++.+|++++|..|++.|.+.++.+..|+||++|++.|+..||.++++||+.||+++++++||.
T Consensus 294 ~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~ 373 (466)
T KOG0686|consen 294 KNESFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAE 373 (466)
T ss_pred cchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHhhHHHHHHHHH
Q 019472 273 AFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQK 333 (340)
Q Consensus 273 ~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~ri~~ 333 (340)
+||+++..+|+.|.++|.+|+|+||||+.++++.+.+.++++.+|+++.-.|+....+...
T Consensus 374 af~~sv~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~~~~~~~ka 434 (466)
T KOG0686|consen 374 AFNTSVAILESELLELILEGKISGRIDSHNKILYARDADSENATFERVLPMGKRSQLEAKA 434 (466)
T ss_pred HhcccHHHHHHHHHHHHHccchheeeccccceeeecccccccchhhhcchhhHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999998888776655443
No 4
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.4e-52 Score=378.47 Aligned_cols=314 Identities=18% Similarity=0.227 Sum_probs=290.7
Q ss_pred CCcchhHhhhhhhcchHHHHhhccccchhHH---HHhhCHHHH-----------HHH-HHHHHHHHHHhCCHHHHHHHHH
Q 019472 12 PPPPSFGHLCLLLSYLVVISFVMPLSRIADA---EENLGESEV-----------REA-HLAKSLFYIQIGDKEKALEQLK 76 (340)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~n~~~~~i-----------r~~-~~~La~~~~~~Gd~~~A~~~l~ 76 (340)
..||||.+++|++.+|++|+++|.+.++++. +..+|+++| |++ .-+|..+|++.++|.+|+....
T Consensus 73 ~~Rpf~~~v~KakaaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFLRq~Learli~Ly~d~~~YteAlaL~~ 152 (411)
T KOG1463|consen 73 SLRPFLSSVSKAKAAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFLRQSLEARLIRLYNDTKRYTEALALIN 152 (411)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4589999999999999999999998888764 466677665 555 5689999999999999999999
Q ss_pred HHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--------CCChhhhhHhhHHHHHhccccCCHHHH
Q 019472 77 VTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--------GGDWERKNRLKVYEGLYCMSTRNFKKA 148 (340)
Q Consensus 77 ~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~--------~~~~~~~~~l~~~~gl~~l~~r~y~~A 148 (340)
.+.... +++|+...++++++++++..+...|++||++.+++ .|+|..++.++..+|++|.++|||++|
T Consensus 153 ~L~rEl----KKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa~lDLqSGIlha~ekDykTa 228 (411)
T KOG1463|consen 153 DLLREL----KKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQATLDLQSGILHAAEKDYKTA 228 (411)
T ss_pred HHHHHH----HhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHHHHHHhccceeecccccchH
Confidence 998888 89999999999999999999999999999998865 389999999999999999999999999
Q ss_pred HHHHHhccccCCcCcc-CCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhc-CcchHHHHHHHHHhccHHHHHHHH
Q 019472 149 ASLFLDSISTFTTYEL-FPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG-KIPYLSEFLNSLYDCQYKSFFSAF 226 (340)
Q Consensus 149 a~~F~e~~~~f~~~e~-~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~-~~p~l~~ll~af~~~~~~~~~~~L 226 (340)
++||+|+|++|++.+. ..+...++||+||.||-+.+.+++. ++.++...+|.+ ....|+.+.++|.++++..|..+|
T Consensus 229 fSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMln~~ddv~~-lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL 307 (411)
T KOG1463|consen 229 FSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIMLNLPDDVAA-LLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKAL 307 (411)
T ss_pred HHHHHHHHccccccCCcHHHHHHHHHHHHHHHHhcCHHHHHH-HHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHH
Confidence 9999999999987654 6777889999999999999999984 999998888754 456899999999999999999999
Q ss_pred HHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 227 AGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 227 ~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
.++++++..|++++.|...|++++.++++.+.|+|||+|.|+++|+.+|++++.||+.|++||+|+++.|.+||++|++.
T Consensus 308 ~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~~VEkKLsqMILDKkf~G~LDQg~g~Li 387 (411)
T KOG1463|consen 308 ADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVPQVEKKLSQMILDKKFYGTLDQGEGCLI 387 (411)
T ss_pred HHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcHHHHHHHHHHHHHHHhhcccccCCCeEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcCCCcchHHHHHHHHhhHHHHHHHHHhhhh
Q 019472 307 TNRPDAKNALYQATIKQGDFLLNRIQKLSRV 337 (340)
Q Consensus 307 ~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~ 337 (340)
++..++.+++|+.++++ |++++.|
T Consensus 388 v~~e~~~d~~y~~aLet-------I~~m~kV 411 (411)
T KOG1463|consen 388 VFEEPPADNTYDAALET-------IQNMGKV 411 (411)
T ss_pred EeCCCCcchHHHHHHHH-------HHhccCC
Confidence 99999999999999999 8888764
No 5
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.5e-45 Score=323.31 Aligned_cols=316 Identities=16% Similarity=0.230 Sum_probs=281.5
Q ss_pred CCcchhHhhhhhhcchHHHHhhccccchhHHH-------HhhCHHHH-------HHH-HHHHHHHHHHhCCHHHHHHHHH
Q 019472 12 PPPPSFGHLCLLLSYLVVISFVMPLSRIADAE-------ENLGESEV-------REA-HLAKSLFYIQIGDKEKALEQLK 76 (340)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-------~n~~~~~i-------r~~-~~~La~~~~~~Gd~~~A~~~l~ 76 (340)
.-+|+++.+.|+++.||+|++++++..-++.. +.+++... |.+ ..+++.+|++.|.|.+|+..+.
T Consensus 70 ~sre~m~~ftk~k~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn 149 (421)
T COG5159 70 SSREAMEDFTKPKITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALIN 149 (421)
T ss_pred hhHHHHHHhcchhHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence 35899999999999999999999976555432 22222222 444 5689999999999999999999
Q ss_pred HHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--------CCChhhhhHhhHHHHHhccccCCHHHH
Q 019472 77 VTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--------GGDWERKNRLKVYEGLYCMSTRNFKKA 148 (340)
Q Consensus 77 ~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~--------~~~~~~~~~l~~~~gl~~l~~r~y~~A 148 (340)
.+.... +++|...+++.+++.++...+...+++|+++.+++ .|+|..+++++..+|++|+.++||++|
T Consensus 150 ~ll~El----Kk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~sGIlhcdd~dyktA 225 (421)
T COG5159 150 PLLHEL----KKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLSGILHCDDRDYKTA 225 (421)
T ss_pred HHHHHH----HhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhccceeeccccchhH
Confidence 988777 88999999999999999999999999999987764 489999999999999999999999999
Q ss_pred HHHHHhccccCCcCc-cCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhc--CcchHHHHHHHHHhccHHHHHHH
Q 019472 149 ASLFLDSISTFTTYE-LFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG--KIPYLSEFLNSLYDCQYKSFFSA 225 (340)
Q Consensus 149 a~~F~e~~~~f~~~e-~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~--~~p~l~~ll~af~~~~~~~~~~~ 225 (340)
.++|+|++++|+... ...+...++|++|+.||.+.|++++. ++.++..++... ....|+.+.++|.+++...|.++
T Consensus 226 ~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN~~~evk~-vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~a 304 (421)
T COG5159 226 SSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLNRREEVKA-VLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDA 304 (421)
T ss_pred HHHHHHHHhccccccchHHHHHHHHHHHHHHHHHhhHHHHHH-HHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHH
Confidence 999999999997542 34455779999999999999999984 999998877543 34579999999999999999999
Q ss_pred HHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 226 FAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 226 L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
|+++++++..|+|+++|.++|++.+.++++.+.++||++|.+++||+.+|+++.++|.+|++||+|+-+.|.+||.+|++
T Consensus 305 L~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgKLsqMILDKifyG~LDqg~gcL 384 (421)
T COG5159 305 LAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIFYGTLDQGDGCL 384 (421)
T ss_pred HHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHHHHHHHHHHHHHhhhccCCceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcCCCcchHHHHHHHHhhHHHHHHHHHhhhhhc
Q 019472 306 ETNRPDAKNALYQATIKQGDFLLNRIQKLSRVID 339 (340)
Q Consensus 306 ~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~v~ 339 (340)
..+.++..+++|+.+++. +..+..|||
T Consensus 385 ivy~ep~qd~tyd~ale~-------v~~l~~vVd 411 (421)
T COG5159 385 IVYGEPAQDNTYDEALEQ-------VEALDCVVD 411 (421)
T ss_pred EEeCCccccchHHHHHHH-------HHHhhhHHH
Confidence 999999999999999998 677777765
No 6
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=4.3e-37 Score=272.95 Aligned_cols=314 Identities=16% Similarity=0.187 Sum_probs=264.8
Q ss_pred CCcchhHhhhhhhcchHHHHhhcc-------------------------ccchhHHHHhhCHHHHHHHHHHHHHHHHHhC
Q 019472 12 PPPPSFGHLCLLLSYLVVISFVMP-------------------------LSRIADAEENLGESEVREAHLAKSLFYIQIG 66 (340)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~-------------------------~~~l~~~~~n~~~~~ir~~~~~La~~~~~~G 66 (340)
+|...|..+.+...+.|+|+-.++ +..|+++.+. .-|.....+||++|++.|
T Consensus 83 eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNe---RLWFKTNtKLgkl~fd~~ 159 (440)
T KOG1464|consen 83 EMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNE---RLWFKTNTKLGKLYFDRG 159 (440)
T ss_pred HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcc---eeeeeccchHhhhheeHH
Confidence 578889999888888888877654 3334444322 236777889999999999
Q ss_pred CHHHHHHHHHHHHhhhccc---------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHH
Q 019472 67 DKEKALEQLKVTESKTVAV---------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGL 137 (340)
Q Consensus 67 d~~~A~~~l~~~~~~~~~~---------~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl 137 (340)
+|..--+++.+++..|.+. .+.++++-..++++....|...++..+.++-..-.+.+.|...+.++.|+|.
T Consensus 160 e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGK 239 (440)
T KOG1464|consen 160 EYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGK 239 (440)
T ss_pred HHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCc
Confidence 9999999999999999643 3467888888999999999999998999887776677889999999999999
Q ss_pred hccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch---HHHHHHHH
Q 019472 138 YCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY---LSEFLNSL 214 (340)
Q Consensus 138 ~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~---l~~ll~af 214 (340)
+|+.+|.|.+|+..|+|+|.+|+..+...-.+|++|++|+.++-. +++ +++++.+.+.|- ++|+ |.+++.+|
T Consensus 240 MHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmk--S~i--NPFDsQEAKPyK-NdPEIlAMTnlv~aY 314 (440)
T KOG1464|consen 240 MHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMK--SGI--NPFDSQEAKPYK-NDPEILAMTNLVAAY 314 (440)
T ss_pred cccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHH--cCC--CCCcccccCCCC-CCHHHHHHHHHHHHH
Confidence 999999999999999999999864333333389999999999873 344 689999998874 6774 89999999
Q ss_pred HhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 215 YDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 215 ~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.+.+...|..+|......++.|||++.|...|+++||.+++.++++||.+|.|..+++.+++++.+||..|+.+|++..|
T Consensus 315 Q~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i 394 (440)
T KOG1464|consen 315 QNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDDTI 394 (440)
T ss_pred hcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEecCCCEEEEcCCCcchHH-HHHHHHhhHHHHHHHHHhhhh
Q 019472 295 HCKIDKVAGVLETNRPDAKNAL-YQATIKQGDFLLNRIQKLSRV 337 (340)
Q Consensus 295 ~akID~~~g~l~~~~~~~r~~~-y~~~l~~~~~l~~ri~~l~~~ 337 (340)
+|+||++++.++..+....... |.. -+.-.++++.+...
T Consensus 395 ~g~Ide~n~~l~~~~~~~s~~k~~~a----l~kW~~ql~Sl~~~ 434 (440)
T KOG1464|consen 395 DGRIDEVNQYLELDKSKNSGSKLYKA----LDKWNNQLKSLQSN 434 (440)
T ss_pred ccchHHhhhHhccCccCCcchHHHHH----HHHHHHHHHHHHHH
Confidence 9999999999998765442222 332 23345666666543
No 7
>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=4e-35 Score=253.87 Aligned_cols=160 Identities=41% Similarity=0.682 Sum_probs=152.9
Q ss_pred HHhhccccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHH
Q 019472 30 ISFVMPLSRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLIS 109 (340)
Q Consensus 30 ~~~~~~~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~ 109 (340)
..+-...++|+++++|+++++||+++.++|+||+++||+++|+++|.+++++|++++|++|+++.++|++++.+||.++.
T Consensus 14 ~~~~~Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~ 93 (177)
T PF10602_consen 14 EELEKLEAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVE 93 (177)
T ss_pred HHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 33334466789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCc---CccCCHhHHHHHHHHHHhhhcChhH
Q 019472 110 KSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTT---YELFPYDTFIFYTVLTSIISLDRVS 186 (340)
Q Consensus 110 ~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~---~e~~~~~~~~~Y~~L~al~s~~r~~ 186 (340)
++++||+.+++.++||+++++++++.|++++..|+|++|++.|+++.++|++ .++++++|++.|++||+++|++|++
T Consensus 94 ~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y~~l~aLat~~R~e 173 (177)
T PF10602_consen 94 KYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIYGGLCALATLDRSE 173 (177)
T ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHHHHHHHHHhCCHHH
Confidence 9999999999999999999999999999999999999999999999999987 8999999999999999999999999
Q ss_pred HHH
Q 019472 187 LKQ 189 (340)
Q Consensus 187 l~~ 189 (340)
|++
T Consensus 174 Lk~ 176 (177)
T PF10602_consen 174 LKK 176 (177)
T ss_pred Hcc
Confidence 975
No 8
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.5e-28 Score=222.05 Aligned_cols=271 Identities=16% Similarity=0.220 Sum_probs=224.6
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh-HHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 50 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ-KMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 50 ~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~-~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
+...+.+++|++.++||+|+.|..++...|-.+..++. .++..|+.+...|+..||+.+.+.+.|.++.+++..
T Consensus 127 e~i~~lykyakfqyeCGNY~gAs~yLY~~r~l~~~~d~n~lsalwGKlASEIL~qnWd~A~edL~rLre~IDs~~----- 201 (432)
T KOG2758|consen 127 ERIETLYKYAKFQYECGNYSGASDYLYFYRALVSDPDRNYLSALWGKLASEILTQNWDGALEDLTRLREYIDSKS----- 201 (432)
T ss_pred HHHHHHHHHHHHHHhccCcccHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcccc-----
Confidence 44667999999999999999999999999998877766 899999999999999999999999999999998642
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHH------------hccc---cCCcCccCCHhHHHHHHHHHHhhhcC--hhHHHHhc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFL------------DSIS---TFTTYELFPYDTFIFYTVLTSIISLD--RVSLKQKV 191 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~------------e~~~---~f~~~e~~~~~~~~~Y~~L~al~s~~--r~~l~~~l 191 (340)
.-...-.+.+|.|.-.++.|. |.|- .|-..-..+++++++|++.+.+.... |..+|.
T Consensus 202 ----f~~~~~~l~qRtWLiHWslfv~fnhpkgrd~iid~fly~p~YLNaIQt~cPhllRYLatAvvtnk~~rr~~lkd-- 275 (432)
T KOG2758|consen 202 ----FSTSAQQLQQRTWLIHWSLFVFFNHPKGRDTIIDMFLYQPPYLNAIQTSCPHLLRYLATAVVTNKRRRRNRLKD-- 275 (432)
T ss_pred ----cccHHHHHHHHHHHHHHHHHhhccCCChhhHHHHHHccCHHHHHHHHhhCHHHHHHHHHHhhcchHhhHHHHHH--
Confidence 112234566777777777764 2221 01112345677999999887776632 233332
Q ss_pred cCChHHHHHhcC-----cchHHHHHHH-HHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccc
Q 019472 192 VDAPEILTVIGK-----IPYLSEFLNS-LYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSV 265 (340)
Q Consensus 192 l~~~~~~~~l~~-----~p~l~~ll~a-f~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I 265 (340)
+.++.++ .+++.+++.| |.+-||.+.++.|.+++.++.+|+||....+.|.++.|.-++..||+.+++|
T Consensus 276 -----lvkVIqqE~ysYkDPiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHqcI 350 (432)
T KOG2758|consen 276 -----LVKVIQQESYSYKDPITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLIFETFCRIHQCI 350 (432)
T ss_pred -----HHHHHHHhccccCCcHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHhe
Confidence 3333322 2457788888 5678999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHhhHHHHHHHHHhhhhh
Q 019472 266 TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRVI 338 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~v 338 (340)
+++-+|..++|+++++|+|++++|.+.+|+|+||+..|.|++..+. .+.|+++|++++.|.-|.|+|...+
T Consensus 351 ti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg~~~--~s~~qQ~ie~tksLS~rsq~la~~l 421 (432)
T KOG2758|consen 351 TIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMGHPT--VSPHQQLIEKTKSLSFRSQNLAQQL 421 (432)
T ss_pred eHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeecCCC--CCHHHHHHHhccccchhHHHHHHHH
Confidence 9999999999999999999999999999999999999999999664 5799999999999999999987654
No 9
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=4.5e-19 Score=164.79 Aligned_cols=249 Identities=14% Similarity=0.206 Sum_probs=187.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHH-hhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-HhcCCChhhhhH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTE-SKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-FEEGGDWERKNR 130 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~-~~~--~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~-l~~~~~~~~~~~ 130 (340)
+-.|++.+.+.||..+|+..+..+. +.+ +..+.++...+.++|+++..+||..+.....|.+.- .++..-.+.+.+
T Consensus 134 Tk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlk 213 (439)
T KOG1498|consen 134 TKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLK 213 (439)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHH
Confidence 6789999999999999999999887 444 455788999999999999999999999888888763 333222234555
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCc----CccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSISTFTT----YELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY 206 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~----~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~ 206 (340)
+....--+.++.+.|.++++++-+...+-.- ..+......+.+..+.|...+..+++..++..++. ++..|.
T Consensus 214 yY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is~dKk----L~e~p~ 289 (439)
T KOG1498|consen 214 YYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARISNDKK----LSELPD 289 (439)
T ss_pred HHHHHHHhcccccchhhHHHHHHHHhcccccccChhhhhhhhhhheeEEeecCCCcHHHHHHHHHhcccc----cccCcc
Confidence 5555556778899999999999988655311 11222222233333445555677787776665554 678899
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhH-----------hhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhC
Q 019472 207 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYL-----------YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFG 275 (340)
Q Consensus 207 l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l-----------~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g 275 (340)
..+++..|.++..-.+-..-+.+.+.+..+.|+ .-+.+.+-+|+|. +..| ||+|++.+||+.+|
T Consensus 290 ~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRi--iA~y---YSrIt~~rl~eLLd 364 (439)
T KOG1498|consen 290 YKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRI--IAKY---YSRITLKRLAELLD 364 (439)
T ss_pred HHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHH--HHHH---HhhccHHHHHHHhC
Confidence 999999999987666655555565555444222 2334456667766 7888 99999999999999
Q ss_pred CChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCc
Q 019472 276 VTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDA 312 (340)
Q Consensus 276 ~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~ 312 (340)
+|++++|..|+.|+..|.+.||||+++|++.+..+..
T Consensus 365 l~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~ 401 (439)
T KOG1498|consen 365 LPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKD 401 (439)
T ss_pred CCHHHHHHHHHHHHhccceEEEecCCCceEEEEeccc
Confidence 9999999999999999999999999999999987754
No 10
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.83 E-value=5e-19 Score=160.43 Aligned_cols=262 Identities=15% Similarity=0.122 Sum_probs=187.7
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh----ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKT----VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE 126 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~----~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~ 126 (340)
+.-..+.||.+|.+.|++..|...+..+-... .+.+.++..|+.+.++++..+|...+..+++++.-......++.
T Consensus 102 v~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne~ 181 (399)
T KOG1497|consen 102 VASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESSNEQ 181 (399)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCHH
Confidence 34457899999999999999999987765322 34577899999999999999999999999999988775557889
Q ss_pred hhhHhhHHHHHhccccCCHHHHHHHHHhccccC--CcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCc
Q 019472 127 RKNRLKVYEGLYCMSTRNFKKAASLFLDSISTF--TTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKI 204 (340)
Q Consensus 127 ~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f--~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~ 204 (340)
++-.+++|.+...-..|+|.+||..|++....- +..+...+..-+.-+++.|.++..|+.+...++.++..++ .
T Consensus 182 Lqie~kvc~ARvlD~krkFlEAAqrYyels~~ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~----l 257 (399)
T KOG1497|consen 182 LQIEYKVCYARVLDYKRKFLEAAQRYYELSQRKIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQK----L 257 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCccccc----c
Confidence 999999999999999999999999999874321 1112233333344455566677889988877777765322 2
Q ss_pred chHHHHHHHHHhcc------HHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCCh
Q 019472 205 PYLSEFLNSLYDCQ------YKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTV 278 (340)
Q Consensus 205 p~l~~ll~af~~~~------~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~ 278 (340)
| ...++++++-.+ ...|...|..+...-..|. ...+-+.+.+.++.-.-+-|.+|+++.+++.|++|+
T Consensus 258 ~-~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dg-----ssil~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~ 331 (399)
T KOG1497|consen 258 P-AYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDG-----SSILDRAVIEHNLLSASKLYNNISFEELGALLKIDA 331 (399)
T ss_pred c-chHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCc-----chhhhhHHHHHhHHHHHHHHHhccHHHHHHHhCCCH
Confidence 3 336676666544 3334333333322110111 012223333333333333399999999999999999
Q ss_pred HHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHh
Q 019472 279 EFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQ 323 (340)
Q Consensus 279 ~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~ 323 (340)
+.+|+..++||..||++|.|||.+|+|++.+.++ ..++++.+..
T Consensus 332 ekaekiaa~MI~qeRmng~IDQ~egiihFe~~e~-l~~wdkqi~s 375 (399)
T KOG1497|consen 332 EKAEKIAAQMITQERMNGSIDQIEGIIHFEDREE-LPQWDKQIQS 375 (399)
T ss_pred HHHHHHHHHHHhHHHhccchHhhcceEeecchhh-hhhhhHHHHH
Confidence 9999999999999999999999999999987432 3455665553
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=99.81 E-value=4.3e-19 Score=140.16 Aligned_cols=105 Identities=25% Similarity=0.365 Sum_probs=99.3
Q ss_pred chHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHH
Q 019472 205 PYLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVE 284 (340)
Q Consensus 205 p~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~ 284 (340)
|++.+++++|..+++..|.+.++.+...+..|+++..|++.+.+.++.+++.+++.||++|+++.||+.++++.+++|.+
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 78999999999999999999999998888999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCccceEEecCCCEEEEcC
Q 019472 285 LSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 285 L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
+++||.+|.|+|+||+++|+|++.+
T Consensus 81 l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 81 LIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHCCCEEEEEECCCCEEEecC
Confidence 9999999999999999999999864
No 12
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.80 E-value=5.3e-17 Score=148.63 Aligned_cols=270 Identities=16% Similarity=0.216 Sum_probs=219.0
Q ss_pred HHHHhCCHHHHHHHHHHHHhhh---ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhhhHhhHHH
Q 019472 61 FYIQIGDKEKALEQLKVTESKT---VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERKNRLKVYE 135 (340)
Q Consensus 61 ~~~~~Gd~~~A~~~l~~~~~~~---~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~--~~~~~~~~~l~~~~ 135 (340)
+..+++|.++|+++++++.+.. ..++..+-+...+.|+.+..||...+++.+...++.+++ +.++...+.+...+
T Consensus 84 ~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~ls 163 (380)
T KOG2908|consen 84 VSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLS 163 (380)
T ss_pred HHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHH
Confidence 4456789999999999998654 445566677788889999999999999999999998886 45666888899999
Q ss_pred HHhccccCCHHHHHH---HHHhccccCCcCccCCHh--HHHHHHHHHHhhhcChhHHHHhccCChHHHHHhc-CcchHHH
Q 019472 136 GLYCMSTRNFKKAAS---LFLDSISTFTTYELFPYD--TFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG-KIPYLSE 209 (340)
Q Consensus 136 gl~~l~~r~y~~Aa~---~F~e~~~~f~~~e~~~~~--~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~-~~p~l~~ 209 (340)
..|+=..|||...+. .|+.+.+ ..+..... +.+.-++++|+++-.-..+.+ ++..|.+.+..+ +..|+.+
T Consensus 164 sqYyk~~~d~a~yYr~~L~YL~~~d---~~~l~~se~~~lA~~L~~aALLGe~iyNfGE-LL~HPilesL~gT~~eWL~d 239 (380)
T KOG2908|consen 164 SQYYKKIGDFASYYRHALLYLGCSD---IDDLSESEKQDLAFDLSLAALLGENIYNFGE-LLAHPILESLKGTNREWLKD 239 (380)
T ss_pred HHHHHHHHhHHHHHHHHHHHhcccc---ccccCHHHHHHHHHHHHHHHHhccccccHHH-HHhhHHHHHhcCCcHHHHHH
Confidence 999888888766544 4554432 22222233 778999999999977777775 777887777655 4578999
Q ss_pred HHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhh--h--hccccHHHHHHHhCCChHHHHHHH
Q 019472 210 FLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLE--S--YKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 210 ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~--p--Ys~I~l~~mA~~~g~~~~~vE~~L 285 (340)
++.+|..+|+..|++.-. .+..-|.|..|...+.+.||.-++...+. | -+.|+++.||+...+|.+++|..+
T Consensus 240 ll~Afn~Gdl~~f~~l~~----~~~~~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~~eVE~LV 315 (380)
T KOG2908|consen 240 LLIAFNSGDLKRFESLKG----VWGKQPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPNKEVELLV 315 (380)
T ss_pred HHHHhccCCHHHHHHHHH----HhccCchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCHHHHHHHH
Confidence 999999999999987543 44557889999999999999999999876 3 789999999999999999999999
Q ss_pred HHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHhhHHHHH---HHHHhhhhh
Q 019472 286 SRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLN---RIQKLSRVI 338 (340)
Q Consensus 286 ~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~---ri~~l~~~v 338 (340)
++.++-|-|.|.||+++|+|++.+..||.-.-+++.+.++.+-. .++++...|
T Consensus 316 MKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~v 371 (380)
T KOG2908|consen 316 MKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLV 371 (380)
T ss_pred HHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999998888888887766543 344444433
No 13
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=8e-16 Score=138.89 Aligned_cols=275 Identities=11% Similarity=0.152 Sum_probs=189.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHH-hhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH-HHhcCCChhhhhH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTE-SKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS-LFEEGGDWERKNR 130 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~-~~~--~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~-~l~~~~~~~~~~~ 130 (340)
+..|...+..+||..+|+..+.... +.+ ...+.++...+.++|+++..+||..+..+..|... ..+...-.+.+.+
T Consensus 134 T~~L~~ikee~Gdi~sA~Dilcn~pVETygs~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlk 213 (439)
T COG5071 134 TQLLSQIKEEQGDIKSAQDILCNEPVETYGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLK 213 (439)
T ss_pred HHHHHHHHHHhcchhHHHHHHhcCchhhccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccHHHHHHH
Confidence 7789999999999999999998766 433 34578899999999999999999999999998866 4443322344555
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCc-CccCCH---hHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSISTFTT-YELFPY---DTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY 206 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~-~e~~~~---~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~ 206 (340)
+...--..++++|.|..++.++-+++.|..- .+-... ..-+.|+++.....+...++..++-++-. +...|.
T Consensus 214 yYeL~V~i~Lh~R~Yl~v~~y~~~vY~t~~~~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvhKi~~d~k----l~sl~~ 289 (439)
T COG5071 214 YYELKVRIGLHDRAYLDVCKYYRAVYDTAVVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHK----LNSLPL 289 (439)
T ss_pred HHHHhheeecccHHHHHHHHHHHHHHHHHHhccCcccccchhhcceeeEEecccccHHHHHHHHhhhhhh----hccchh
Confidence 5555556788999999999999988654310 010000 01123333334444555565544433322 335677
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhcC-hhHh-----hhHHHH-----HHHHHHHHHHHhhhhhccccHHHHHHHhC
Q 019472 207 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLD-RYLY-----PHFRYY-----MREVRTVVYSQFLESYKSVTIEAMAKAFG 275 (340)
Q Consensus 207 l~~ll~af~~~~~~~~~~~L~~~~~~l~~D-~~l~-----~h~~~l-----~~~ir~~~l~q~i~pYs~I~l~~mA~~~g 275 (340)
..+++.+|..+.+-.---.-..+.+.+..| +-+. .|.+.| .+++|. +..| ||+|+.+++...++
T Consensus 290 ~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~Rv--I~~y---YSrI~~~rl~~lld 364 (439)
T COG5071 290 LQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRV--IANY---YSRIHCSRLGVLLD 364 (439)
T ss_pred hhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhH--HHHH---hhhhhHHHHHHHHc
Confidence 788888887766543333333344555444 2221 344444 344444 7788 99999999999999
Q ss_pred CChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHhhHHHHHHHHHhhhhh
Q 019472 276 VTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRVI 338 (340)
Q Consensus 276 ~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~v 338 (340)
+|++++|..++.|+..|-+.|||++++|+|.+.++........+=-+..++++.++-+++..|
T Consensus 365 ~~~s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n~~~~lneW~~NV~ellgklek~~HLI 427 (439)
T COG5071 365 MSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLGKLEKVRHLI 427 (439)
T ss_pred CCHHHHHHHHHHHHhcCcEEEEecCccceEEeeccccHHHHHHHhcccHHHHHHHHHHHhHHH
Confidence 999999999999999999999999999999999886544444444445566777777665543
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=99.58 E-value=1.1e-14 Score=111.70 Aligned_cols=74 Identities=27% Similarity=0.462 Sum_probs=71.2
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcch
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKN 314 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~ 314 (340)
+|++.+.+++|.+++.+|++||++|+++.||+.|+++.+++|.+|++||.+|.|+|+||+.+|+|.+.++++|.
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 47899999999999999999999999999999999999999999999999999999999999999999988763
No 15
>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=99.58 E-value=1.1e-14 Score=111.70 Aligned_cols=74 Identities=27% Similarity=0.462 Sum_probs=71.2
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcch
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKN 314 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~ 314 (340)
+|++.+.+++|.+++.+|++||++|+++.||+.|+++.+++|.+|++||.+|.|+|+||+.+|+|.+.++++|.
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 47899999999999999999999999999999999999999999999999999999999999999999988763
No 16
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=2.2e-10 Score=107.71 Aligned_cols=271 Identities=14% Similarity=0.133 Sum_probs=180.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHH-HHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVF-YTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~--~~~~~~i~~~l-~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
++-+.-.|...|++..-...+......- .....--.+.+ .++|.++..+-++.+.+.+.|+.- .+...+ ...+|+
T Consensus 172 ~fy~~l~~E~~~~l~~~rs~l~~~lrtAtLrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~-pe~~sn-ne~ARY 249 (493)
T KOG2581|consen 172 YFYLYLSYELEGRLADIRSFLHALLRTATLRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVY-PEAASN-NEWARY 249 (493)
T ss_pred HHHHHHHHHhhcchHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccC-cccccc-HHHHHH
Confidence 3444555556666544444443333211 11111122333 346888888878877777766432 222222 256888
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHh-HHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHH
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYD-TFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEF 210 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~-~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~l 210 (340)
-.|.|...+-+.+|.+|.++|+.+.---+....+.+. ++-+.+++..++..+-.+. .++..|..++-| -.+.+|
T Consensus 250 ~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll~geiPer--s~F~Qp~~~ksL---~~Yf~L 324 (493)
T KOG2581|consen 250 LYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELLLGEIPER--SVFRQPGMRKSL---RPYFKL 324 (493)
T ss_pred HHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHHcCCCcch--hhhcCccHHHHH---HHHHHH
Confidence 8999999999999999999999986321112344444 6667888888887554433 245555444322 234578
Q ss_pred HHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCCh-HHHHHHHHHHh
Q 019472 211 LNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTV-EFIDVELSRFI 289 (340)
Q Consensus 211 l~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~-~~vE~~L~~lI 289 (340)
-.+.-.+|.+.|.+.++++.+.++.|--..-. -.|-+|+....+.++=-+||+|++..||+.+|++- +++|-.+++.|
T Consensus 325 t~AVr~gdlkkF~~~leq~k~~f~~D~ty~Li-vRLR~NVIkTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAI 403 (493)
T KOG2581|consen 325 TQAVRLGDLKKFNETLEQFKDKFQADGTYTLI-VRLRHNVIKTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAI 403 (493)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHhhCCcchHH-HHHHHHHHHHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHHHHHH
Confidence 88888999999999999999998888654433 33555555555555555799999999999999954 45999999999
Q ss_pred hCCccceEEecCCCEEEEc------CCCcchHHHHHHHHhhHHHHHHHHH
Q 019472 290 AAGKLHCKIDKVAGVLETN------RPDAKNALYQATIKQGDFLLNRIQK 333 (340)
Q Consensus 290 ~~g~l~akID~~~g~l~~~------~~~~r~~~y~~~l~~~~~l~~ri~~ 333 (340)
.+|.|.|+||..+|.+... ++++....|..-|.-+=.+.|-.++
T Consensus 404 RDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~LhN~~vk 453 (493)
T KOG2581|consen 404 RDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLHNEAVK 453 (493)
T ss_pred HhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHHHHHHH
Confidence 9999999999999987654 3444556677777666666665554
No 17
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.02 E-value=8.2e-08 Score=89.50 Aligned_cols=278 Identities=12% Similarity=0.121 Sum_probs=188.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-cchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH---hcCCChhhhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTV-AVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF---EEGGDWERKN 129 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~-~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l---~~~~~~~~~~ 129 (340)
.-..++++..+.++..-..+.+.+..++.. .+++...+...++.+++..+++..+..+++---.-+ +..-+|..-.
T Consensus 104 lc~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL 183 (422)
T KOG2582|consen 104 LCHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFL 183 (422)
T ss_pred HHHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhhHHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHH
Confidence 355778888877777777777777776653 333555666778888888888877765443211111 1224556666
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhccccCCc-CccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhc-CcchH
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDSISTFTT-YELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG-KIPYL 207 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~-~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~-~~p~l 207 (340)
.+-.|+|..++.-++|..|.-.|..+..+... ...+--+..-+|+.+.=|.+....++-+ -.|+.+.++.. -.|++
T Consensus 184 ~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa~~vs~~hlEaYkkylLvsLI~~GK~~ql~k--~ts~~~~r~~K~ms~pY 261 (422)
T KOG2582|consen 184 LYLYYGGMICIGLKRFERALYLLEICVTTPAMAVSHIHLEAYKKYLLVSLILTGKVFQLPK--NTSQNAGRFFKPMSNPY 261 (422)
T ss_pred HHHHhcceeeeccccHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhcCceeeccc--cchhhhHHhcccCCchH
Confidence 77778889999999999998887777543210 0111111234566665555543333322 23444555443 45689
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCC-ChHHHHHHHH
Q 019472 208 SEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELS 286 (340)
Q Consensus 208 ~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~-~~~~vE~~L~ 286 (340)
.+++++|.++.-.+....+.++...+..|--.. -+......+-.+.|.++=+-|++++|+.||+.-.+ +.+++|+.+.
T Consensus 262 ~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~-l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Il 340 (422)
T KOG2582|consen 262 HEFLNVYLKDSSTELRTLVKKHSERFTKDNNTG-LAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYIL 340 (422)
T ss_pred HHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHH-HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHH
Confidence 999999999988887777788877777665443 23455666667778888888999999999996665 6679999999
Q ss_pred HHhhCCccceEEecCCCEEEEcCCC---cchHHHHHHHHhhHHHHHHHHHhhhh
Q 019472 287 RFIAAGKLHCKIDKVAGVLETNRPD---AKNALYQATIKQGDFLLNRIQKLSRV 337 (340)
Q Consensus 287 ~lI~~g~l~akID~~~g~l~~~~~~---~r~~~y~~~l~~~~~l~~ri~~l~~~ 337 (340)
+||.+|++.++|| |.|.+.+.. +..++++.=+.....+..++.+.-..
T Consensus 341 qmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~nk~~~~~~L~e~l~~~e~s 391 (422)
T KOG2582|consen 341 QMIEDGEIFASIN---GMVFFTDNPEKYNSPEMHENKIDLCIQLIEALKAMEES 391 (422)
T ss_pred HHhccCceEEEec---ceEEEecCcccCCCHHHHhhHHHHHHHHHHHHHhcchh
Confidence 9999999999999 888876532 34466776667777777777765443
No 18
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=98.94 E-value=2.4e-07 Score=85.35 Aligned_cols=238 Identities=9% Similarity=0.132 Sum_probs=161.7
Q ss_pred HHHHHHHHHHHhhhccch-hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHH--hccccCCH
Q 019472 69 EKALEQLKVTESKTVAVG-QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGL--YCMSTRNF 145 (340)
Q Consensus 69 ~~A~~~l~~~~~~~~~~~-~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl--~~l~~r~y 145 (340)
.-+++.+..+......+. -+..++..++.++...+-...+..++.+..+-+... +++...+=..+.++ .....+.-
T Consensus 103 ~l~L~vLsnLfn~~d~~~~aR~~Vy~~lv~la~~~~~~~~i~~~lk~~~~~lkew-~~~vedqrel~r~v~~al~~~k~~ 181 (378)
T KOG2753|consen 103 SLRLQVLSNLFNGVDKPTPARYQVYMSLVTLAASCKLIEYIVPNLKQLDDWLKEW-NISVEDQRELLRAVHKALKDNKSV 181 (378)
T ss_pred ccHHHHHHHHHhccCCCchHHHHHHHHHHHHHhhcceeeeecccHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhcchh
Confidence 345666666654443333 567788888888887777777777788877766432 11221111122222 12223335
Q ss_pred HHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHH
Q 019472 146 KKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSA 225 (340)
Q Consensus 146 ~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll~af~~~~~~~~~~~ 225 (340)
..+.+-|.+.+.||+......+++-+.=++.-++.+..---+- .+++-|-++. |+.++ +.+++.-|..+....+.+-
T Consensus 182 ~~s~kvmt~lLgtyt~dnas~AredA~rcV~~av~dP~~F~fD-~Ll~L~pV~q-LE~d~-i~qLL~IF~s~~L~aYveF 258 (378)
T KOG2753|consen 182 DESSKVMTELLGTYTEDNASEAREDAMRCVVEAVKDPKIFLFD-HLLTLPPVKQ-LEGDL-IHQLLKIFVSGKLDAYVEF 258 (378)
T ss_pred hhHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCceeccc-hhccCchHHH-hccch-HHHHHHHHHhcchHHHHHH
Confidence 6677778888888876566677777777888887765432221 2444455544 66555 8899999999865555444
Q ss_pred HHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 226 FAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 226 L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
.+....-+..--+ .| +..+..||..-+.+.-+|=..|+++.||+.+.+..+++|-|+.+.|..|-+.|||||.+.+|
T Consensus 259 ~~~N~~Fvqs~gl--~~-E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~~~~v 335 (378)
T KOG2753|consen 259 VAANSGFVQSQGL--VH-EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQMNRTV 335 (378)
T ss_pred HHhChHHHHHhcc--cH-HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhhcceE
Confidence 4333322211111 12 37889999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcCCCcc
Q 019472 306 ETNRPDAK 313 (340)
Q Consensus 306 ~~~~~~~r 313 (340)
++.....|
T Consensus 336 iVs~~~hR 343 (378)
T KOG2753|consen 336 IVSSSTHR 343 (378)
T ss_pred Eeehhhhh
Confidence 98876544
No 19
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.71 E-value=7.3e-06 Score=82.14 Aligned_cols=195 Identities=15% Similarity=0.204 Sum_probs=126.8
Q ss_pred hhHhhHHHHHhccccCCHHHHHHHHHhcccc------------------CCc-------CccCCHh-----HH--HHHHH
Q 019472 128 KNRLKVYEGLYCMSTRNFKKAASLFLDSIST------------------FTT-------YELFPYD-----TF--IFYTV 175 (340)
Q Consensus 128 ~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~------------------f~~-------~e~~~~~-----~~--~~Y~~ 175 (340)
-||.-+.-|+..+..|.-.+|...+.+...+ ++. .-.+++. ++ ++|+
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 4788888888888888888888777765432 010 0112221 22 2343
Q ss_pred HHHhhhc------ChhHHHHhccCChHHHHHhcC-------cc------hHHHHHHHHHhccHHHHHHHHHHhHHHhhcC
Q 019472 176 LTSIISL------DRVSLKQKVVDAPEILTVIGK-------IP------YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLD 236 (340)
Q Consensus 176 L~al~s~------~r~~l~~~ll~~~~~~~~l~~-------~p------~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D 236 (340)
.|||+-- --.+.+. ..-++.|+..|+. -| ++....+|...+++..|++.+-..-..+..=
T Consensus 608 tcaMLlEIP~MAA~~~d~Rr-r~iSk~frr~Le~serqsf~gPPEn~RehVvaAsKAm~~Gnw~~c~~fi~nn~KvW~Lf 686 (843)
T KOG1076|consen 608 TCAMLLEIPYMAAHESDARR-RMISKSFRRQLEHSERQSFTGPPENTREHVVAASKAMQKGNWQKCFEFIVNNIKVWDLF 686 (843)
T ss_pred HHHHHHhhhHHhhhhhhhhc-ccccHHHHHHHHHHhhccccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHhhhhHHHhc
Confidence 5665531 0133332 3335556666542 13 2455667889999999999554422222111
Q ss_pred hhHhhhHHHHHHHHHHHHHHHhhh----hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCc
Q 019472 237 RYLYPHFRYYMREVRTVVYSQFLE----SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDA 312 (340)
Q Consensus 237 ~~l~~h~~~l~~~ir~~~l~q~i~----pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~ 312 (340)
|=--.-.+-+.+.|++-.+..|+. .|.+||+..+|++|++|+..|-.-+++||.+..|+|..|+++++|++.+..+
T Consensus 687 pn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hrvE~ 766 (843)
T KOG1076|consen 687 PNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHRVEP 766 (843)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEeeccc
Confidence 111122345666677777878877 4889999999999999999999999999999999999999999999998654
Q ss_pred chHHHHHHHHhhH
Q 019472 313 KNALYQATIKQGD 325 (340)
Q Consensus 313 r~~~y~~~l~~~~ 325 (340)
+..-.-+++..+
T Consensus 767 -srlq~La~qL~e 778 (843)
T KOG1076|consen 767 -SRLQSLAVQLSE 778 (843)
T ss_pred -hHHHHHHHHHHH
Confidence 333333444433
No 20
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=98.09 E-value=0.00026 Score=65.86 Aligned_cols=191 Identities=14% Similarity=0.150 Sum_probs=125.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch---hHHHhHHHHHHHHHHh-cCHHHHHhHHHHHHHHHhcCCChhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG---QKMDLVFYTLQLGFFY-MDFDLISKSIDKAKSLFEEGGDWER 127 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~---~~i~~~l~~i~~~i~~-~~~~~~~~~i~ka~~~l~~~~~~~~ 127 (340)
-.++...+..|.+. ++++|.++|.+..+.++..+ .....+..+.++.-.. ++++.+..++.+|-...+..+.+..
T Consensus 75 a~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~ 153 (282)
T PF14938_consen 75 AKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHS 153 (282)
T ss_dssp HHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhh
Confidence 33356666666555 99999999999887654333 2334444445555455 7999999999999998887666666
Q ss_pred hhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccC--CHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcc
Q 019472 128 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELF--PYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP 205 (340)
Q Consensus 128 ~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~--~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p 205 (340)
.+....--|-++...++|.+|...|-+....+...... +..+.....+||-|...+-..... .+..|.+..|
T Consensus 154 a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~------~~~~~~~~~~ 227 (282)
T PF14938_consen 154 AAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARK------ALERYCSQDP 227 (282)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHH------HHHHHGTTST
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHH------HHHHHHhhCC
Confidence 67777777778888999999999998765544322222 344556667889988866543332 2333333333
Q ss_pred ---------hHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHH
Q 019472 206 ---------YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMRE 249 (340)
Q Consensus 206 ---------~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ 249 (340)
-+.+|+++|.++|-..|.+.+.++...-..|+|...-...+-+.
T Consensus 228 ~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w~~~~l~~~k~~ 280 (282)
T PF14938_consen 228 SFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNWKTKMLLKIKKK 280 (282)
T ss_dssp TSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HHHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHHHHHHHHHHHhh
Confidence 27899999999999999999999988888999876555444433
No 21
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=97.81 E-value=0.00066 Score=65.16 Aligned_cols=232 Identities=16% Similarity=0.133 Sum_probs=143.1
Q ss_pred HHHHHHHHHHHHhhhccc-------hhHHH---hHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-CCC--hhhhhHhhHH
Q 019472 68 KEKALEQLKVTESKTVAV-------GQKMD---LVFYTLQLGFFYMDFDLISKSIDKAKSLFEE-GGD--WERKNRLKVY 134 (340)
Q Consensus 68 ~~~A~~~l~~~~~~~~~~-------~~~i~---~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~-~~~--~~~~~~l~~~ 134 (340)
+++|.+...+....|.++ +++.- +.-.+.+++...+.....+ ++-+|-..-.+ ..+ -+..-.++-+
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 LEAASRTISRLFSSCLSDRRADLEESKKVAMLYIVNQLFQIYFRIEKLLLCK-NLIRAFDQSGSDISDFPLAQLVVYHYY 210 (394)
T ss_pred HHHHHHHHHHHHHHHhCccccccccchhhHHHHHHHHHHHHHHHHhhHHHhH-HHHHHhhccccchhhcccccceeeeee
Confidence 677777777777777543 22322 2223345555555554333 33333221100 001 1223456677
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcc--hHHHHHH
Q 019472 135 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP--YLSEFLN 212 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p--~l~~ll~ 212 (340)
-|.+.+.+.||..|...+-++|..-...-....+-+++|++-+++.... .| .+.+++..+ .+..++.
T Consensus 211 lGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n~~~iliylip~~~llg~----------~P-t~~lL~~~~~~~~~~lv~ 279 (394)
T KOG2688|consen 211 LGRYAMFESDFLNAFLQLNEAFRLCPDLLLKNKRLILIYLIPTGLLLGR----------IP-TKELLDFYTLDKYSPLVQ 279 (394)
T ss_pred eeeehhhhhhHHHHHHHHHHHHHhCcHHHHhhhhhHHHHHhHHHHHhcc----------Cc-chhhHhHhhHHhHHHHHH
Confidence 7899999999999999999887653322233455678999988887632 11 223333333 5778889
Q ss_pred HHHhccHHHHHHHHHHhHHHh-hcChhHh--hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCC------ChHHHHH
Q 019472 213 SLYDCQYKSFFSAFAGLTEQI-KLDRYLY--PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV------TVEFIDV 283 (340)
Q Consensus 213 af~~~~~~~~~~~L~~~~~~l-~~D~~l~--~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~------~~~~vE~ 283 (340)
+...+++..|-..++..+.-+ ..-.|+- .---..++++-.++ .+++.-=++++++.+-.++.. +.+++|-
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 AVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYRNLFKKV-IQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVEC 358 (394)
T ss_pred HHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHHHHHHHH-HHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHH
Confidence 999999999999998887432 2222221 11112233332222 222212277888887777754 4689999
Q ss_pred HHHHHhhCCccceEEecCCCEEEEcCCCc
Q 019472 284 ELSRFIAAGKLHCKIDKVAGVLETNRPDA 312 (340)
Q Consensus 284 ~L~~lI~~g~l~akID~~~g~l~~~~~~~ 312 (340)
.|+.+|..|+|.|-|+.....+++.+.++
T Consensus 359 iLa~lI~~G~ikgYish~~~~~V~sK~~p 387 (394)
T KOG2688|consen 359 ILANLIDLGRIKGYISHQLQTLVFSKKDP 387 (394)
T ss_pred HHHhhhhhccccchhchhhheEEEecCCC
Confidence 99999999999999999999999987765
No 22
>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=97.44 E-value=0.001 Score=55.48 Aligned_cols=90 Identities=13% Similarity=0.242 Sum_probs=61.1
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHH
Q 019472 207 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 286 (340)
Q Consensus 207 l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~ 286 (340)
+..+...+.+|+|.+|...++.... .+.+.+.+..|.+.+|.+++.-.=..|++|+++.+|+.+|++.+++++.+.
T Consensus 44 i~~l~~~L~~~~~~~~~~~~~~~~~----~~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~ 119 (143)
T PF10075_consen 44 IWSLGQALWEGDYSKFWQALRSNPW----SPDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIK 119 (143)
T ss_dssp HHHHHHHHHTT-HHHHHHHS-TT--------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHhccc----hHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHH
Confidence 5677788899999999987765421 246778889999999999988888899999999999999999777777766
Q ss_pred HHhhCCccceEEecCCCEEE
Q 019472 287 RFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 287 ~lI~~g~l~akID~~~g~l~ 306 (340)
+. .=.+|....++.
T Consensus 120 ~~------gW~~d~~~~~~~ 133 (143)
T PF10075_consen 120 SR------GWTVDGDGVLFP 133 (143)
T ss_dssp HH------T-EE-----EE-
T ss_pred Hc------CCEECCCccEEe
Confidence 63 226664444444
No 23
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=97.37 E-value=0.014 Score=55.29 Aligned_cols=234 Identities=15% Similarity=0.161 Sum_probs=145.0
Q ss_pred CCHHHHHHHHHHHHhhhccc-------hhHHH-hHH--HHHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh-----hhhhH
Q 019472 66 GDKEKALEQLKVTESKTVAV-------GQKMD-LVF--YTLQLGFFYMDFDLISKSIDKAKSLFEEGGDW-----ERKNR 130 (340)
Q Consensus 66 Gd~~~A~~~l~~~~~~~~~~-------~~~i~-~~l--~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~-----~~~~~ 130 (340)
...+++.+.+.++...|.++ +++.- .++ .+..+++..++.+... ++-||....+ ..|- +..-.
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 45777888888877666432 33332 111 2345666777776554 4444444322 1111 12356
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcc---hH
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIP---YL 207 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p---~l 207 (340)
+.-|-|++++..++|++|.-.|-++|..-.....-.-..++-|++-.+++.+... | ++.+++..+ ..
T Consensus 222 f~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~---------P-tk~~L~r~~~~s~~ 291 (413)
T COG5600 222 FHYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFP---------P-TKDLLERFKRCSVY 291 (413)
T ss_pred hhhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCC---------C-chHHHHhccccchh
Confidence 7889999999999999999998888754221111223356678888888875432 2 233454443 35
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHh-hcChh--HhhhHH-HHHHHHHHHHHHHhhhhhcc--ccHHHHHHHhCC-----
Q 019472 208 SEFLNSLYDCQYKSFFSAFAGLTEQI-KLDRY--LYPHFR-YYMREVRTVVYSQFLESYKS--VTIEAMAKAFGV----- 276 (340)
Q Consensus 208 ~~ll~af~~~~~~~~~~~L~~~~~~l-~~D~~--l~~h~~-~l~~~ir~~~l~q~i~pYs~--I~l~~mA~~~g~----- 276 (340)
--++++.-.++++.|-..++..+..+ ....+ +-.|.+ ..++++-.+...--.+ -++ +++-.++..+..
T Consensus 292 ~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~rk~w~~~~~-qsrlp~sil~~~~qls~~dn~~ 370 (413)
T COG5600 292 SPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFRKIWRLHGK-QSRLPLSILLIVLQLSAIDNFH 370 (413)
T ss_pred HHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHHHHHhhccc-cccCcHHHHHHHHHccCCCccc
Confidence 56777888999999999998876532 11111 223322 2333332222221111 123 556666776654
Q ss_pred ChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCc
Q 019472 277 TVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDA 312 (340)
Q Consensus 277 ~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~ 312 (340)
+.+++|-.++.+|..|.+.|-|-....++++.+.||
T Consensus 371 ~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk~~p 406 (413)
T COG5600 371 SFKEVECILVTLIGLGLLRGYISHSRRTVVFSKKDP 406 (413)
T ss_pred ChHHHHHHHHHHHhhhhhhheecccceEEEEecCCC
Confidence 368999999999999999999999999999988776
No 24
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.34 E-value=0.0036 Score=52.06 Aligned_cols=98 Identities=12% Similarity=0.037 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhH
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 130 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~ 130 (340)
-..+.+.+|..+++.|++++|.+.|..+.+....+.-+--..+.+.++.+..++++.+...+.++ .++.....
T Consensus 47 a~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~-------~~~~~~~~ 119 (145)
T PF09976_consen 47 AALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQI-------PDEAFKAL 119 (145)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhc-------cCcchHHH
Confidence 36678899999999999999999999999876544444556778889999999999988877542 22334566
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhc
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.....|-+++..|++.+|...|-.+
T Consensus 120 ~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 120 AAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 7788999999999999999888654
No 25
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=97.07 E-value=0.033 Score=57.49 Aligned_cols=220 Identities=13% Similarity=0.092 Sum_probs=130.3
Q ss_pred hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh--c-CCChhhhhHhhHHHHHhccccCCHHH---HHHHHHhcc---
Q 019472 86 GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE--E-GGDWERKNRLKVYEGLYCMSTRNFKK---AASLFLDSI--- 156 (340)
Q Consensus 86 ~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~--~-~~~~~~~~~l~~~~gl~~l~~r~y~~---Aa~~F~e~~--- 156 (340)
+-.+|.-+.++.+++..+=|.++-..++-+..++. + .+.|...+-+.---+....-.||+.- |+..|+...
T Consensus 229 ql~LDtRf~QLdvAi~lELWQEAyrSiEDIhgLm~lSKrtPkp~~laNYY~KL~~VF~~sgn~LfHAaAw~k~f~l~k~~ 308 (988)
T KOG2072|consen 229 QLYLDTRFQQLDVAIELELWQEAYRSIEDIHGLMKLSKRTPKPSTLANYYEKLAKVFWKSGNPLFHAAAWLKLFKLYKNM 308 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHh
Confidence 44678999999999999999999888888877653 2 34455444444333344455566332 223333322
Q ss_pred -ccCCcCccCCHhHHHHHHHHHHhh---hcChhHHHHhccCC------hHHH--HHhc--Ccch----HHHHHH----HH
Q 019472 157 -STFTTYELFPYDTFIFYTVLTSII---SLDRVSLKQKVVDA------PEIL--TVIG--KIPY----LSEFLN----SL 214 (340)
Q Consensus 157 -~~f~~~e~~~~~~~~~Y~~L~al~---s~~r~~l~~~ll~~------~~~~--~~l~--~~p~----l~~ll~----af 214 (340)
++++-.+.-.. +-..+|++|- +..|+++.. .++- +..+ ..|+ ..|. +.+++. .+
T Consensus 309 ~K~~Tqde~q~~---as~VlLaaLSIP~~~~~~~~~r-~~e~e~~~~ek~~rla~LL~L~~~PTR~~ll~e~v~~gV~~~ 384 (988)
T KOG2072|consen 309 NKNLTQDELQRM---ASRVLLAALSIPIPDARSDSAR-LIEIEDIGKEKNLRLANLLGLPAPPTRKGLLKEAVREGVLSK 384 (988)
T ss_pred cccccHHHHHHH---HHHHHHHHhcCCCCCccccccc-ccccccchhhHHHHHHHHhCCCCCccHHHHHHHHHHhccHhh
Confidence 12221111111 2222232222 233443321 2111 1111 1111 2232 222222 12
Q ss_pred HhccHHHHHHHH-------------HHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhC-CChHH
Q 019472 215 YDCQYKSFFSAF-------------AGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFG-VTVEF 280 (340)
Q Consensus 215 ~~~~~~~~~~~L-------------~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g-~~~~~ 280 (340)
+...+++..+.| +..-..+..-+...+++..|-..+..+.+.|.-..|.+|+++++-+..- .+.-+
T Consensus 385 v~qe~kdLY~iLEveF~PL~l~k~lq~ll~~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~ 464 (988)
T KOG2072|consen 385 VDQEVKDLYNILEVEFHPLKLCKKLQPLLDKLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFE 464 (988)
T ss_pred hhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHH
Confidence 222333333333 2222234555666888999999999999999999999999999988765 58889
Q ss_pred HHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 281 IDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 281 vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
+|+.+++....+-+..+||...++|.+..
T Consensus 465 lEk~~v~a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 465 LEKLLVEAAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred HHHHHHHHHhccceeEEeccccceeeecc
Confidence 99999999999999999999999999983
No 26
>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=96.65 E-value=0.0043 Score=53.93 Aligned_cols=59 Identities=19% Similarity=0.311 Sum_probs=43.8
Q ss_pred HHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCC
Q 019472 252 TVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 252 ~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
...+.+||.....|.|..||..||++++++.+.|-.|..+|.|.|.||-....|++...
T Consensus 101 L~~Fi~yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~e 159 (188)
T PF09756_consen 101 LQEFINYIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISEE 159 (188)
T ss_dssp HHHHHHHHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE----
T ss_pred HHHHHHHHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecHH
Confidence 34578999999999999999999999999999999999999999999998777887744
No 27
>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=96.60 E-value=0.04 Score=53.61 Aligned_cols=183 Identities=15% Similarity=0.225 Sum_probs=102.8
Q ss_pred hHHHHHHHHHHhcCHHHHHhHHHHHHH----HHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccccCC------
Q 019472 91 LVFYTLQLGFFYMDFDLISKSIDKAKS----LFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFT------ 160 (340)
Q Consensus 91 ~~l~~i~~~i~~~~~~~~~~~i~ka~~----~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~------ 160 (340)
...+++|++.+.||+..+.+.++-..- ... .-|.-...+.-+-|..++.-|+|.+|.+.|-.++-...
T Consensus 124 SligLlRvh~LLGDY~~Alk~l~~idl~~~~l~~--~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~ 201 (404)
T PF10255_consen 124 SLIGLLRVHCLLGDYYQALKVLENIDLNKKGLYT--KVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQY 201 (404)
T ss_pred HHHHHHHHHHhccCHHHHHHHhhccCcccchhhc--cCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 456889999999999998765544322 111 11222344567889999999999999999988642110
Q ss_pred cCccCCHhHHH-----HH--HHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHHHHHHHhccHHHHHHHHHHhHHHh
Q 019472 161 TYELFPYDTFI-----FY--TVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSLYDCQYKSFFSAFAGLTEQI 233 (340)
Q Consensus 161 ~~e~~~~~~~~-----~Y--~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll~af~~~~~~~~~~~L~~~~~~l 233 (340)
....-.+..+. .| +++|-.+++.| ++.. +...+.+ ...+=......++...|.+......|.+
T Consensus 202 ~~~~~q~d~i~K~~eqMyaLlAic~~l~p~~-------lde~-i~~~lke--ky~ek~~kmq~gd~~~f~elF~~acPKF 271 (404)
T PF10255_consen 202 HQRSYQYDQINKKNEQMYALLAICLSLCPQR-------LDES-ISSQLKE--KYGEKMEKMQRGDEEAFEELFSFACPKF 271 (404)
T ss_pred ccccchhhHHHhHHHHHHHHHHHHHHhCCCC-------CCHH-HHHHHHH--HHHHHHHHHHccCHHHHHHHHHhhCCCc
Confidence 00111111111 23 33333333332 1111 1111111 1222233344455555555554444321
Q ss_pred hc----------------ChhHhhhHHHHHHHHHHH----HHHHhhhhhccccHHHHHHHhCCChHHHHHHHH
Q 019472 234 KL----------------DRYLYPHFRYYMREVRTV----VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELS 286 (340)
Q Consensus 234 ~~----------------D~~l~~h~~~l~~~ir~~----~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~ 286 (340)
.. |+ ...|.+.|+++++.+ .+..|++-|++|+++.+|..++++++++-..|.
T Consensus 272 Isp~~pp~~~~~~~~~~~e~-~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 272 ISPVSPPDYDGPSQNKNKEP-YRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred cCCCCCCCcccccchhhhhH-HHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 10 33 334566666666544 456677789999999999999999997766663
No 28
>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=96.53 E-value=0.033 Score=40.69 Aligned_cols=70 Identities=14% Similarity=0.099 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc--cc--hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTV--AV--GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 120 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~--~~--~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~ 120 (340)
+-.++..+|..|...|++++|.+++.+..+... .+ ......+.++-.+....|+++.+.+++.++-++.+
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~~ 77 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIFE 77 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhc
Confidence 456788999999999999999999999886542 21 23466777778888899999999999999877543
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=96.33 E-value=0.073 Score=41.49 Aligned_cols=104 Identities=12% Similarity=0.095 Sum_probs=75.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
+..+.+|..+.+.|++++|.+.+.++.+.........+..+.+.++....+++..+...+.++...-. +........
T Consensus 3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~~ 79 (119)
T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYP---KSPKAPDAL 79 (119)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCC---CCCcccHHH
Confidence 34678999999999999999999998865543333356677788888899999999988888765321 111112334
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccC
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSISTF 159 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~~f 159 (340)
...|..+...+++..|...|-+....+
T Consensus 80 ~~~~~~~~~~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 80 LKLGMSLQELGDKEKAKATLQQVIKRY 106 (119)
T ss_pred HHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence 555666778899999998887776554
No 30
>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=96.12 E-value=0.014 Score=42.28 Aligned_cols=49 Identities=18% Similarity=0.333 Sum_probs=38.9
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCC
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 302 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~ 302 (340)
.+.+|++-..+++++.||..||+|++.+|..|..+|..|+|.-.-+...
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 4677888899999999999999999999999999999999985444443
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=96.10 E-value=0.17 Score=44.43 Aligned_cols=102 Identities=21% Similarity=0.386 Sum_probs=62.9
Q ss_pred HhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch---HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhH
Q 019472 167 YDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY---LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHF 243 (340)
Q Consensus 167 ~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~---l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~ 243 (340)
..++.-|.+|..+......++...+..=+ ......|. ..++..++.+++|..|++.... ...+++..++
T Consensus 98 ~~ef~~y~lL~~l~~~~~~~~~~~l~~l~---~~~~~~~~i~~al~l~~a~~~gny~~ff~l~~~-----~~~~~l~~~l 169 (204)
T PF03399_consen 98 EAEFIAYYLLYLLCQNNIPDFHMELELLP---SEILSSPYIQFALELCRALMEGNYVRFFRLYRS-----KSAPYLFACL 169 (204)
T ss_dssp HHHHHHHHHHHTT-T---THHHHHHTTS----HHHHTSHHHHHHHHHHHHH--TTHHHHHHHHT------TTS-HHHHHH
T ss_pred HHHHHHHHHHHHHHcccchHHHHHHHHCc---hhhhcCHHHHHHHHHHHHHHcCCHHHHHHHHhc-----cCCChHHHHH
Confidence 34666667776665554455543222111 11123443 3467789999999999987722 2455555554
Q ss_pred H-HHHHHHHHHHHHHhhhhhcc-ccHHHHHHHhCC
Q 019472 244 R-YYMREVRTVVYSQFLESYKS-VTIEAMAKAFGV 276 (340)
Q Consensus 244 ~-~l~~~ir~~~l~q~i~pYs~-I~l~~mA~~~g~ 276 (340)
- .+...+|.+++..+...|.+ |+++.+++.||.
T Consensus 170 ~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 170 MERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 4 48999999999999999999 999999998873
No 32
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=95.94 E-value=0.09 Score=52.83 Aligned_cols=116 Identities=15% Similarity=0.137 Sum_probs=86.8
Q ss_pred HHHhhCHHHH--HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-----ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 019472 42 AEENLGESEV--REAHLAKSLFYIQIGDKEKALEQLKVTESKT-----VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 114 (340)
Q Consensus 42 ~~~n~~~~~i--r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~-----~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~k 114 (340)
.+..+|+... -..+.+||..|++.|++.+|..++.+..+-. .+..+.-....++..+.-..+.++.+..++.+
T Consensus 271 ~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~ 350 (508)
T KOG1840|consen 271 REEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQK 350 (508)
T ss_pred HHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 3455555443 4448899999999999999999998876422 33344445555666667777899999999999
Q ss_pred HHHHHhc--CCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 115 AKSLFEE--GGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 115 a~~~l~~--~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
+-.++.. +.+.-.-++++.--|-.+...|+|.+|...|-+++.
T Consensus 351 al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~ 395 (508)
T KOG1840|consen 351 ALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ 395 (508)
T ss_pred HHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 9887764 233225678888888899999999999999988764
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=95.87 E-value=0.1 Score=37.38 Aligned_cols=94 Identities=16% Similarity=0.170 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
+.+.+|..++..|++++|.+.+.++.+...... ........+....+++..+...+.++-..... ++ ....
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 356789999999999999999998876553322 44555666667778888888777766553211 11 2334
Q ss_pred HHHHhccccCCHHHHHHHHHhcc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
..|..+...+++..|...|..+.
T Consensus 73 ~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 73 NLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHH
Confidence 55667777888988888876654
No 34
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.78 E-value=0.38 Score=44.66 Aligned_cols=154 Identities=12% Similarity=0.088 Sum_probs=90.1
Q ss_pred HHHHHHHHHHHHHh-CCHHHHHHHHHHHHhhhccch---hHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-HhcCC-Ch
Q 019472 52 REAHLAKSLFYIQI-GDKEKALEQLKVTESKTVAVG---QKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-FEEGG-DW 125 (340)
Q Consensus 52 r~~~~~La~~~~~~-Gd~~~A~~~l~~~~~~~~~~~---~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~-l~~~~-~~ 125 (340)
-+....+|++|.+. |++++|+++|.+..+.+...+ ...+....+..+.+..++|..+...+.++-.. ++... .+
T Consensus 114 A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~ 193 (282)
T PF14938_consen 114 AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKY 193 (282)
T ss_dssp HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccch
Confidence 34488999999999 999999999999998775433 23456677788899999999999988886553 22211 11
Q ss_pred hhhhHhhHHHHHhccccCCHHHHHHHHHh---ccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhc
Q 019472 126 ERKNRLKVYEGLYCMSTRNFKKAASLFLD---SISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIG 202 (340)
Q Consensus 126 ~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e---~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~ 202 (340)
. -..+-...++.++..+|+-.|...|=+ ..++|.. |.+--+..-++-|.=..+...+.+.| .++.+...
T Consensus 194 ~-~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~----s~E~~~~~~l~~A~~~~D~e~f~~av---~~~d~~~~ 265 (282)
T PF14938_consen 194 S-AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFAS----SREYKFLEDLLEAYEEGDVEAFTEAV---AEYDSISR 265 (282)
T ss_dssp H-HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTT----SHHHHHHHHHHHHHHTT-CCCHHHHC---HHHTTSS-
T ss_pred h-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC----cHHHHHHHHHHHHHHhCCHHHHHHHH---HHHcccCc
Confidence 1 123445678899999998777655443 3455532 22222344444444444444443322 12222223
Q ss_pred CcchHHHHHHH
Q 019472 203 KIPYLSEFLNS 213 (340)
Q Consensus 203 ~~p~l~~ll~a 213 (340)
-+||...++..
T Consensus 266 ld~w~~~~l~~ 276 (282)
T PF14938_consen 266 LDNWKTKMLLK 276 (282)
T ss_dssp --HHHHHHHHH
T ss_pred cHHHHHHHHHH
Confidence 45676666553
No 35
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=95.72 E-value=0.23 Score=40.07 Aligned_cols=100 Identities=15% Similarity=0.078 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
+.+.+|..|-..|+.++|..+|.+..+.-.+........+++-...-..|+.+.+...+.++.. ..++.+....+++
T Consensus 3 ~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~---~~p~~~~~~~l~~ 79 (120)
T PF12688_consen 3 ALYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE---EFPDDELNAALRV 79 (120)
T ss_pred hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCccccHHHHH
Confidence 5678899999999999999999999886655556667778888888888999999888876643 3334445677888
Q ss_pred HHHHhccccCCHHHHHHHHHhcc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
..++.....+++.+|.+.++.++
T Consensus 80 f~Al~L~~~gr~~eAl~~~l~~l 102 (120)
T PF12688_consen 80 FLALALYNLGRPKEALEWLLEAL 102 (120)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHH
Confidence 88999999999999999999875
No 36
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.58 E-value=1.1 Score=40.38 Aligned_cols=165 Identities=18% Similarity=0.086 Sum_probs=105.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 127 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~ 127 (340)
..+...+.+.||--|++.||+..|.+.+++..+--. ..........-++-..|+.+.+.....||-++--..+ +.
T Consensus 31 ~~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~DP---s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~G--dV 105 (250)
T COG3063 31 RNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDP---SYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNG--DV 105 (250)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc---ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCcc--ch
Confidence 445677799999999999999999999998875331 2234444444555566899999999998877532222 21
Q ss_pred hhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcC----hhHHHHhccCChHHHHHhcC
Q 019472 128 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLD----RVSLKQKVVDAPEILTVIGK 203 (340)
Q Consensus 128 ~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~----r~~l~~~ll~~~~~~~~l~~ 203 (340)
-| = -|-+++.++.|.+|-..|-.+.....+. .+.+..--.++|++=..+ +..++..+--+ .+
T Consensus 106 LN---N-YG~FLC~qg~~~eA~q~F~~Al~~P~Y~---~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-------p~ 171 (250)
T COG3063 106 LN---N-YGAFLCAQGRPEEAMQQFERALADPAYG---EPSDTLENLGLCALKAGQFDQAEEYLKRALELD-------PQ 171 (250)
T ss_pred hh---h-hhHHHHhCCChHHHHHHHHHHHhCCCCC---CcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-------cC
Confidence 12 2 3566788999999999999987654333 233445567889984433 33333222111 22
Q ss_pred cc-hHHHHHHH-HHhccHHHHHHHHHHhHH
Q 019472 204 IP-YLSEFLNS-LYDCQYKSFFSAFAGLTE 231 (340)
Q Consensus 204 ~p-~l~~ll~a-f~~~~~~~~~~~L~~~~~ 231 (340)
.| ...++..- |..++|.+....++.+..
T Consensus 172 ~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~ 201 (250)
T COG3063 172 FPPALLELARLHYKAGDYAPARLYLERYQQ 201 (250)
T ss_pred CChHHHHHHHHHHhcccchHHHHHHHHHHh
Confidence 23 34455544 567888887776666644
No 37
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.52 E-value=1.3 Score=39.98 Aligned_cols=190 Identities=14% Similarity=0.201 Sum_probs=101.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh----------
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE---------- 120 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~--~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~---------- 120 (340)
.+..+.|++|.+.|+..+|...|.....-. ..+..-++....-+++....|++..+-++--..-.+.+
T Consensus 55 ~aflkaA~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI 134 (288)
T KOG1586|consen 55 DAFLKAADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAI 134 (288)
T ss_pred HHHHHHHHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHH
Confidence 348889999999998777777766544211 23444445444555555555555443322222222222
Q ss_pred ----cCCCh---------hhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccC--CHhHHHHHHHHHHhhhcChh
Q 019472 121 ----EGGDW---------ERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELF--PYDTFIFYTVLTSIISLDRV 185 (340)
Q Consensus 121 ----~~~~~---------~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~--~~~~~~~Y~~L~al~s~~r~ 185 (340)
..++| .-+.-+++.+ +....+.|..|-.-|=++..+--...++ +..+-..-.+||-+..-+--
T Consensus 135 ~~YE~Aae~yk~ees~ssANKC~lKvA~--yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v 212 (288)
T KOG1586|consen 135 AHYEQAAEYYKGEESVSSANKCLLKVAQ--YAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEV 212 (288)
T ss_pred HHHHHHHHHHcchhhhhhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHH
Confidence 11111 1122233322 2223344555555544432110001111 22344444667766633211
Q ss_pred HHHHhccCChHHHHHhcCcch---------HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHH
Q 019472 186 SLKQKVVDAPEILTVIGKIPY---------LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREV 250 (340)
Q Consensus 186 ~l~~~ll~~~~~~~~l~~~p~---------l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~i 250 (340)
..+ ..+.+|.+..|. +.+|+.+....+...|-+...++...-..|.|...+...+-..|
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 123445555562 78889999999999999999999888888888887776665554
No 38
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=95.33 E-value=0.037 Score=34.43 Aligned_cols=32 Identities=28% Similarity=0.175 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAV 85 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~ 85 (340)
++..||++|.+.|++++|.++|++......++
T Consensus 1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l~~~~ 32 (36)
T PF13176_consen 1 ALNNLGRIYRQQGDYEKAIEYYEQALALARDP 32 (36)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence 35679999999999999999999976544333
No 39
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=95.30 E-value=1.1 Score=44.76 Aligned_cols=145 Identities=12% Similarity=0.094 Sum_probs=92.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
...-|.-+++.|||.+|.+.|++....-.+.. -.+-+...+++-.+++..+.....++ ++...+| .+-...
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---RLYSNRAACYLKLGEYPEALKDAKKC---IELDPNF---IKAYLR 431 (539)
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHHhcCCchh---HHHHHHHHHHHHHhhHHHHHHHHHHH---HhcCchH---HHHHHH
Confidence 34458999999999999999999776553221 23445666778888888887775544 4332222 233455
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhh---hcChhHHHHhccCChHHHHHhcCcchHHHHH
Q 019472 135 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSII---SLDRVSLKQKVVDAPEILTVIGKIPYLSEFL 211 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~---s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll 211 (340)
.|..+..-++|..|...|.+.... + .+...++--.-=|.-+ ..+..+++++...+|+++.++ ++|.|+.++
T Consensus 432 Kg~al~~mk~ydkAleay~eale~-d----p~~~e~~~~~~rc~~a~~~~~~~ee~~~r~~~dpev~~il-~d~~m~~~l 505 (539)
T KOG0548|consen 432 KGAALRAMKEYDKALEAYQEALEL-D----PSNAEAIDGYRRCVEAQRGDETPEETKRRAMADPEVQAIL-QDPAMRQIL 505 (539)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc-C----chhHHHHHHHHHHHHHhhcCCCHHHHHHhhccCHHHHHHH-cCHHHHHHH
Confidence 588888899999999999987542 1 1111222212223332 234567777888889888876 667777444
Q ss_pred HHH
Q 019472 212 NSL 214 (340)
Q Consensus 212 ~af 214 (340)
...
T Consensus 506 ~q~ 508 (539)
T KOG0548|consen 506 EQM 508 (539)
T ss_pred HHH
Confidence 433
No 40
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=95.08 E-value=2.6 Score=41.51 Aligned_cols=176 Identities=13% Similarity=0.142 Sum_probs=106.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc----hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV----GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~----~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
.++.-+-+.|-...+|.=+-+-+..+|+..+-. .-.++++--=.|++++.||..+..+.-++.+.+...+.+-.
T Consensus 308 ksL~~vkdk~k~~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~-- 385 (540)
T KOG1861|consen 308 KSLCLVKDKWKAKANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGA-- 385 (540)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCc--
Confidence 334444555555567777777777778655321 11234555557888888888887777777666653322111
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCC--hHHHHHhcCcch
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDA--PEILTVIGKIPY 206 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~--~~~~~~l~~~p~ 206 (340)
..+++-|-+|--|++.++.++.. ++.+ +| +...|.
T Consensus 386 --------------------------------------~~EF~AYriLY~i~tkN~~di~s-ll~~lt~E----~ked~~ 422 (540)
T KOG1861|consen 386 --------------------------------------YLEFTAYRILYYIFTKNYPDILS-LLRDLTEE----DKEDEA 422 (540)
T ss_pred --------------------------------------hhhHHHHHHHHHHHhcCchHHHH-HHHhccHh----hccCHH
Confidence 22334444444444444444432 2211 11 112232
Q ss_pred ---HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhh-HHHHHHHHHHHHHHHhhhhhc-cccHHHHHHHhCCChHH
Q 019472 207 ---LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPH-FRYYMREVRTVVYSQFLESYK-SVTIEAMAKAFGVTVEF 280 (340)
Q Consensus 207 ---l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h-~~~l~~~ir~~~l~q~i~pYs-~I~l~~mA~~~g~~~~~ 280 (340)
..++-.+...++|..|+..-. .-|-+..| .+-|++.-|.+++.-+|++|. +|+++.|++.|.+...+
T Consensus 423 V~hAL~vR~A~~~GNY~kFFrLY~-------~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~~e 494 (540)
T KOG1861|consen 423 VAHALEVRSAVTLGNYHKFFRLYL-------TAPNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDSME 494 (540)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHh-------hcccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhchHH
Confidence 345666778899999987532 22334444 467788889999999999999 99999999998886544
No 41
>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=95.08 E-value=0.16 Score=35.94 Aligned_cols=61 Identities=18% Similarity=0.153 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhc-CHHHHHhHHHHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYM-DFDLISKSIDKAKS 117 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~-~~~~~~~~i~ka~~ 117 (340)
....+|..+++.|++++|.+.|++..+...+ -.....++-.+....| ++..+..++.++-.
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~---~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIELDPN---NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT---HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 4678899999999999999999999987633 2456677777788888 69999998888765
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=95.01 E-value=0.17 Score=35.36 Aligned_cols=59 Identities=12% Similarity=0.092 Sum_probs=48.5
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
+.+|..+++.|++++|.+.|.++.+... .-.+..+.+-++....|++..+...+.++-.
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 4689999999999999999999886552 3567778888889999999999988887654
No 43
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=94.83 E-value=4.8 Score=40.66 Aligned_cols=236 Identities=11% Similarity=0.012 Sum_probs=129.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-hccch---hHHHhHHH-HHHHHHHhcCHHHHHhHHHHHHHHHhc--CCC
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESK-TVAVG---QKMDLVFY-TLQLGFFYMDFDLISKSIDKAKSLFEE--GGD 124 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~-~~~~~---~~i~~~l~-~i~~~i~~~~~~~~~~~i~ka~~~l~~--~~~ 124 (340)
-.....||..|...|+|++|...+....+. |.+.+ ..+...+. ...++...+++.++...+.+|-++.+. |.+
T Consensus 199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~ 278 (508)
T KOG1840|consen 199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED 278 (508)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence 344556999999999999999999887643 32222 22334444 455667779999999999999998765 222
Q ss_pred hhhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhc--ChhHHHHhccCChHHHHHh-
Q 019472 125 WERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISL--DRVSLKQKVVDAPEILTVI- 201 (340)
Q Consensus 125 ~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~--~r~~l~~~ll~~~~~~~~l- 201 (340)
...-+-.-.=-|..+..+|+|.+|..++-.+..-+.-....+..++...+.-.+.... ++.+--.+++. ..+.-++
T Consensus 279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q-~al~i~~~ 357 (508)
T KOG1840|consen 279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQ-KALKIYLD 357 (508)
T ss_pred CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHH-HHHHHHHh
Confidence 2222222222344568899999999988877543322223455566655444333332 22222112222 1111111
Q ss_pred --c-Ccc---h-HHHHHHHH-HhccHHHHHHHHHHhHHH-----hhcChhHhhhHHHHHHHH-HHHHHHHhhhhhccccH
Q 019472 202 --G-KIP---Y-LSEFLNSL-YDCQYKSFFSAFAGLTEQ-----IKLDRYLYPHFRYYMREV-RTVVYSQFLESYKSVTI 267 (340)
Q Consensus 202 --~-~~p---~-l~~ll~af-~~~~~~~~~~~L~~~~~~-----l~~D~~l~~h~~~l~~~i-r~~~l~q~i~pYs~I~l 267 (340)
+ ..| . --++...| ..++|.+..+...+.-.. -..|.+...++..+-... +.+.+..-.++|. -++
T Consensus 358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~-~~~ 436 (508)
T KOG1840|consen 358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFE-EAK 436 (508)
T ss_pred hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHH-HHH
Confidence 1 111 1 23455554 346776666555544222 244777776666554443 2222222222222 123
Q ss_pred HHHHHHhCCChHHHHHHHHHHhh
Q 019472 268 EAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 268 ~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
.-| +.+|.+-..++....+|..
T Consensus 437 ~i~-~~~g~~~~~~~~~~~nL~~ 458 (508)
T KOG1840|consen 437 DIM-KLCGPDHPDVTYTYLNLAA 458 (508)
T ss_pred HHH-HHhCCCCCchHHHHHHHHH
Confidence 334 7788777777776666654
No 44
>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=94.62 E-value=0.076 Score=36.89 Aligned_cols=44 Identities=23% Similarity=0.387 Sum_probs=39.4
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
|...+.+++.....++++.+|+.||+|...+-+.|..|-..|.+
T Consensus 1 R~~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i 44 (57)
T PF08220_consen 1 RQQQILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLI 44 (57)
T ss_pred CHHHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 34567888888999999999999999999999999999998864
No 45
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=94.57 E-value=0.28 Score=41.82 Aligned_cols=67 Identities=10% Similarity=-0.032 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
...++.+|..+...|++++|.+++.+..+...........+..+..+....|+++.+...+.++-..
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 4457899999999999999999999988654333334456777778888899999999988887664
No 46
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=94.55 E-value=0.38 Score=40.70 Aligned_cols=107 Identities=7% Similarity=-0.074 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC-ChhhhhH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG-DWERKNR 130 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~-~~~~~~~ 130 (340)
...++.+|..+...|++++|...+.+.......+........++-.+....|++..+...+.++-..-.... .+...+.
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~ 114 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV 114 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence 445788999999999999999999998765433323334566666777888999999999988876421111 1122333
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
+....|......++|..|...|-++...
T Consensus 115 i~~~~~~~~~~~g~~~~A~~~~~~a~~~ 142 (168)
T CHL00033 115 ICHYRGEQAIEQGDSEIAEAWFDQAAEY 142 (168)
T ss_pred HHHHhhHHHHHcccHHHHHHHHHHHHHH
Confidence 4444444555778888777766665433
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=94.51 E-value=0.35 Score=35.87 Aligned_cols=81 Identities=9% Similarity=0.051 Sum_probs=43.3
Q ss_pred hCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCC
Q 019472 65 IGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRN 144 (340)
Q Consensus 65 ~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~ 144 (340)
.|+|++|+..+.++.+...+.. .-...+.+..+.+..|++..+...+.+ .. .. +. .......-|..++..++
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~~----~~-~~~~~~l~a~~~~~l~~ 73 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK-LK-LD----PS-NPDIHYLLARCLLKLGK 73 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC-HT-HH----HC-HHHHHHHHHHHHHHTT-
T ss_pred CccHHHHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH-hC-CC----CC-CHHHHHHHHHHHHHhCC
Confidence 4677777777777665543211 333445556666666777777666655 11 11 00 11223344666667777
Q ss_pred HHHHHHHHH
Q 019472 145 FKKAASLFL 153 (340)
Q Consensus 145 y~~Aa~~F~ 153 (340)
|.+|...|-
T Consensus 74 y~eAi~~l~ 82 (84)
T PF12895_consen 74 YEEAIKALE 82 (84)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 777766653
No 48
>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=94.50 E-value=0.39 Score=38.64 Aligned_cols=96 Identities=11% Similarity=-0.013 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
.+...+|..++..|++++|.+.+.++.+.... ..+....+..+....+++..+...+.++-..- |+ .....
T Consensus 18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-----p~-~~~~~ 88 (135)
T TIGR02552 18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY---NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-----PD-DPRPY 88 (135)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-----CC-ChHHH
Confidence 44778999999999999999999888765432 23555666777778899998888887765531 11 12334
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
...|..+...++|..|...|-.+..
T Consensus 89 ~~la~~~~~~g~~~~A~~~~~~al~ 113 (135)
T TIGR02552 89 FHAAECLLALGEPESALKALDLAIE 113 (135)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 5667888889999999998877654
No 49
>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=0.16 Score=37.78 Aligned_cols=58 Identities=19% Similarity=0.185 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKA 115 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka 115 (340)
..+.+|..|++.|+|.+|.+.+.+ .+.- + .-.+..+...++.+..|+|+.+.+.+.++
T Consensus 27 ~~~~la~~~~~~~~y~~A~~~~~~-~~~~--~-~~~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 27 YLYNLAQCYFQQGKYEEAIELLQK-LKLD--P-SNPDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHC-HTHH--H-CHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHH-hCCC--C-CCHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 356689999999999999999987 2211 1 22455666689999999999999888775
No 50
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=93.76 E-value=6.5 Score=37.50 Aligned_cols=101 Identities=10% Similarity=-0.014 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
.....+|..|...|++++|.+.+.++.+... ........+..+....|+|..+...+.++...-. ..++.....+.
T Consensus 108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~ 183 (389)
T PRK11788 108 LALQELGQDYLKAGLLDRAEELFLQLVDEGD---FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGG-DSLRVEIAHFY 183 (389)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc---chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcC-CcchHHHHHHH
Confidence 4578899999999999999999999876421 2345667778888889999999888887654321 11112233344
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
...|..+...+++.+|...|-++..
T Consensus 184 ~~la~~~~~~~~~~~A~~~~~~al~ 208 (389)
T PRK11788 184 CELAQQALARGDLDAARALLKKALA 208 (389)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHh
Confidence 4566677889999999999888754
No 51
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.70 E-value=0.2 Score=44.78 Aligned_cols=56 Identities=18% Similarity=0.324 Sum_probs=52.8
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCC
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
+.+||+--++|.|..+|..||+.....-..+-.++.+|.|.|.||-.-+.|++...
T Consensus 205 Fv~YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~e 260 (299)
T KOG3054|consen 205 FVEYIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISME 260 (299)
T ss_pred HHHHHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecHH
Confidence 78999999999999999999999999999999999999999999999999999743
No 52
>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=93.59 E-value=6.9 Score=41.06 Aligned_cols=103 Identities=15% Similarity=0.107 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-----------
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE----------- 121 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~----------- 121 (340)
.....+|..|...|++++|.+.|.++.+.... .......+..+....|++..+...+.++-..-..
T Consensus 602 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~ 678 (899)
T TIGR02917 602 EAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD---SALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQL 678 (899)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 34556677777777777777766666543311 1123334444445556666665555554331000
Q ss_pred ---CCChh--------------hhhHhhHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 122 ---GGDWE--------------RKNRLKVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 122 ---~~~~~--------------~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
.++++ .........|..+...++|.+|...|-.++..
T Consensus 679 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~ 732 (899)
T TIGR02917 679 LLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR 732 (899)
T ss_pred HHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence 00000 01122344566677788888888888776543
No 53
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=93.55 E-value=2.5 Score=37.10 Aligned_cols=123 Identities=15% Similarity=0.101 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHH--------hcCHHHHHhHHHHHHHHHhcC
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFF--------YMDFDLISKSIDKAKSLFEEG 122 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~--------~~~~~~~~~~i~ka~~~l~~~ 122 (340)
...+.+.+|..|++.|++.+|...+.+..+...+....-+....+..+... ..|...+..-+...+.++...
T Consensus 41 a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~y 120 (203)
T PF13525_consen 41 APQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRY 120 (203)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHC
Confidence 467889999999999999999999999887664433332222222122111 233344444444445555543
Q ss_pred CChh--------------hhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHH
Q 019472 123 GDWE--------------RKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTV 175 (340)
Q Consensus 123 ~~~~--------------~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~ 175 (340)
++.. ..++-...-|.+++..+.|..|...|-.++.+|. +.....+.+.+++
T Consensus 121 P~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp--~t~~~~~al~~l~ 185 (203)
T PF13525_consen 121 PNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYP--DTPAAEEALARLA 185 (203)
T ss_dssp TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHST--TSHHHHHHHHHHH
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC--CCchHHHHHHHHH
Confidence 3211 1123334557788889999999999988888774 3333344444443
No 54
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=93.46 E-value=1 Score=38.73 Aligned_cols=59 Identities=17% Similarity=0.079 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
+..+|..|...|++++|.+.+.+..+.... .......+..++...|++..+...+.++-
T Consensus 34 ~~~la~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~la~~~~~~~~~~~A~~~~~~al 92 (234)
T TIGR02521 34 RVQLALGYLEQGDLEVAKENLDKALEHDPD---DYLAYLALALYYQQLGELEKAEDSFRRAL 92 (234)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 444555555555555555555544432211 11223333344444455555554444443
No 55
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=93.40 E-value=3.1 Score=37.75 Aligned_cols=126 Identities=10% Similarity=0.026 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHH---H-------------HhcCHHHHHhHHH
Q 019472 50 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLG---F-------------FYMDFDLISKSID 113 (340)
Q Consensus 50 ~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~---i-------------~~~~~~~~~~~i~ 113 (340)
....+.+.+|..|++.|+|++|...+++..+...+... ++..+-+.-++ + ...|...+...+.
T Consensus 67 ~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~-~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~ 145 (243)
T PRK10866 67 YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN-IDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFR 145 (243)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCc-hHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHH
Confidence 34667899999999999999999999998876644333 33333232222 1 1124455565666
Q ss_pred HHHHHHhcCCCh----hh-------h---hHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHH
Q 019472 114 KAKSLFEEGGDW----ER-------K---NRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTS 178 (340)
Q Consensus 114 ka~~~l~~~~~~----~~-------~---~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~a 178 (340)
..+..++.-++. +. + ++-...-|.+++..++|.-|...|-.++.+|. +.....+.+.+++-+-
T Consensus 146 ~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp--~t~~~~eal~~l~~ay 222 (243)
T PRK10866 146 DFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYP--DTQATRDALPLMENAY 222 (243)
T ss_pred HHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCC--CCchHHHHHHHHHHHH
Confidence 666666654331 11 1 22234556677888899989888888877764 3334456666655444
No 56
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=93.35 E-value=0.22 Score=36.82 Aligned_cols=51 Identities=14% Similarity=0.206 Sum_probs=42.2
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
+.+|+.-+.+++...+|..|++|++-||..|..++.-|++.-.-....|+.
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 556677799999999999999999999999999999999965432444444
No 57
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=93.06 E-value=6.9 Score=38.64 Aligned_cols=117 Identities=15% Similarity=0.093 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER 127 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~ 127 (340)
+.+.-++.+.+|--+...|++++|++++-+++.-.... .++...+..++=...|...+.+.+.++.+++- .||..
T Consensus 520 dasc~ealfniglt~e~~~~ldeald~f~klh~il~nn---~evl~qianiye~led~aqaie~~~q~~slip--~dp~i 594 (840)
T KOG2003|consen 520 DASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNN---AEVLVQIANIYELLEDPAQAIELLMQANSLIP--NDPAI 594 (840)
T ss_pred chHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhh---HHHHHHHHHHHHHhhCHHHHHHHHHHhcccCC--CCHHH
Confidence 44567778888888888999999999998877544222 23334444445455677777777777777653 35653
Q ss_pred hhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHH
Q 019472 128 KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYT 174 (340)
Q Consensus 128 ~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~ 174 (340)
..++ |=.+-.+|+-..|++++|+++--|.+ .+-+-++++-|.
T Consensus 595 lskl----~dlydqegdksqafq~~ydsyryfp~-nie~iewl~ayy 636 (840)
T KOG2003|consen 595 LSKL----ADLYDQEGDKSQAFQCHYDSYRYFPC-NIETIEWLAAYY 636 (840)
T ss_pred HHHH----HHHhhcccchhhhhhhhhhcccccCc-chHHHHHHHHHH
Confidence 3322 22456788999999999999776653 333445665554
No 58
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=92.85 E-value=0.69 Score=35.82 Aligned_cols=67 Identities=12% Similarity=-0.049 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
..+.+.+|..+++.|++++|.+.+.++...........+..+....+....+++..+...+.++...
T Consensus 39 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 39 PNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 4567889999999999999999999988765443334456667777778889999998888876553
No 59
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=92.81 E-value=0.58 Score=43.15 Aligned_cols=105 Identities=9% Similarity=0.069 Sum_probs=65.8
Q ss_pred HHHHHHHH-HHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 53 EAHLAKSL-FYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 53 ~~~~~La~-~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
...+..|. ++++.|+|.+|...|..+.+...+....-+..+.+-.+++..|++..+.....++-...-. .++...+
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 44444444 4467788888888888888766554444455566667777788888888777766443211 1111112
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccCC
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSISTFT 160 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~ 160 (340)
....|..+...+++..|...|-.....|.
T Consensus 220 l~klg~~~~~~g~~~~A~~~~~~vi~~yP 248 (263)
T PRK10803 220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYP 248 (263)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 23335556677888888887777766553
No 60
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=92.69 E-value=14 Score=38.20 Aligned_cols=63 Identities=19% Similarity=0.300 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
..++..+|..+...|++++|.+.+.++.+.... ..+.+.....+....|++..+...+.++-.
T Consensus 365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~kal~ 427 (615)
T TIGR00990 365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSE---DPDIYYHRAQLHFIKGEFAQAGKDYQKSID 427 (615)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455777888888888888888888777654321 134555556666677777777777776654
No 61
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=92.66 E-value=0.24 Score=29.33 Aligned_cols=30 Identities=20% Similarity=0.319 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
.+.+.+|..|.+.|++++|.+.+.++.+..
T Consensus 1 ~a~~~~a~~~~~~g~~~~A~~~~~~~~~~~ 30 (33)
T PF13174_consen 1 DALYRLARCYYKLGDYDEAIEYFQRLIKRY 30 (33)
T ss_dssp HHHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence 367899999999999999999999988654
No 62
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.63 E-value=1.5 Score=41.97 Aligned_cols=96 Identities=9% Similarity=-0.015 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
.+..+|..+++.|++++|.+.+.+..+.... .......+.++....|++..+...+.++... +|........
T Consensus 182 ~~~~la~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~~ 253 (389)
T PRK11788 182 FYCELAQQALARGDLDAARALLKKALAADPQ---CVRASILLGDLALAQGDYAAAIEALERVEEQ-----DPEYLSEVLP 253 (389)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-----ChhhHHHHHH
Confidence 3567888888888888888888887754322 1234555667777788888888887776543 1111111111
Q ss_pred HHHHhccccCCHHHHHHHHHhccc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.-+..+...+++.+|...|-....
T Consensus 254 ~l~~~~~~~g~~~~A~~~l~~~~~ 277 (389)
T PRK11788 254 KLMECYQALGDEAEGLEFLRRALE 277 (389)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH
Confidence 223345566778777776666543
No 63
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=92.47 E-value=2.2 Score=36.10 Aligned_cols=100 Identities=6% Similarity=-0.056 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 49 SEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 49 ~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
++.....+.+|..+++.|++++|.+.++-+-.+- -.-.+.++++--+.=..++|..+...+.+|-.+-- .+|
T Consensus 32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D---p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~--ddp--- 103 (157)
T PRK15363 32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD---AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI--DAP--- 103 (157)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCc---
Confidence 4567789999999999999999999987654322 12346777777777788999999999998877521 222
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
+...+.|..++.-|+-..|...|-.++.
T Consensus 104 -~~~~~ag~c~L~lG~~~~A~~aF~~Ai~ 131 (157)
T PRK15363 104 -QAPWAAAECYLACDNVCYAIKALKAVVR 131 (157)
T ss_pred -hHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 2447889999999999999999987653
No 64
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=92.05 E-value=0.38 Score=32.84 Aligned_cols=49 Identities=22% Similarity=0.274 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 247 MREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
++.++.......+.|-..+ +...+|+.||+|...+.+.+..|...|-+.
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 4456665566666777778 899999999999999999999999998764
No 65
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=92.04 E-value=1.2 Score=44.69 Aligned_cols=124 Identities=14% Similarity=0.145 Sum_probs=79.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcC-HHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMD-FDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~-~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
.+.-||-+|+-.|+|+.|.++|+.++..-.+. ...|+.+-..+.-++ .+++...+.+|..+- +--.+.|+
T Consensus 432 vQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd----~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq----P~yVR~Ry- 502 (579)
T KOG1125|consen 432 VQSGLGVLYNLSGEFDRAVDCFEAALQVKPND----YLLWNRLGATLANGNRSEEAISAYNRALQLQ----PGYVRVRY- 502 (579)
T ss_pred HHhhhHHHHhcchHHHHHHHHHHHHHhcCCch----HHHHHHhhHHhcCCcccHHHHHHHHHHHhcC----CCeeeeeh-
Confidence 35668999999999999999999877433211 223555555555544 567777788877752 11223333
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc----cCCcCccCCH-hHHHHHHHHHHhhhcChhHHH
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSIS----TFTTYELFPY-DTFIFYTVLTSIISLDRVSLK 188 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~----~f~~~e~~~~-~~~~~Y~~L~al~s~~r~~l~ 188 (340)
=-|+.++-.|.|++|+.+|++++. +.+..+..-+ +.+--++= .+|..++|+|+.
T Consensus 503 -NlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR-~als~~~~~D~l 561 (579)
T KOG1125|consen 503 -NLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLR-LALSAMNRSDLL 561 (579)
T ss_pred -hhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHH-HHHHHcCCchHH
Confidence 348999999999999999999863 2222232222 23333333 566667788843
No 66
>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=91.95 E-value=0.44 Score=28.41 Aligned_cols=29 Identities=24% Similarity=0.259 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
+...+|..|+..|++++|.+++.+..+..
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 56789999999999999999999887654
No 67
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=91.84 E-value=1.8 Score=35.73 Aligned_cols=94 Identities=12% Similarity=-0.055 Sum_probs=71.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
...+|..+.+.|++++|.+.+.++...-. ...+.+..+-.+....|++..+...+.++-..-- .++ .....
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 44679999999999999999998775432 2346667777888889999999999998876421 122 23356
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
-|..+...|++.+|...|-.+..
T Consensus 98 lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 98 TGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHH
Confidence 67788889999999999988753
No 68
>PRK15331 chaperone protein SicA; Provisional
Probab=91.79 E-value=2 Score=36.58 Aligned_cols=102 Identities=13% Similarity=0.073 Sum_probs=77.9
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh
Q 019472 47 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE 126 (340)
Q Consensus 47 ~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~ 126 (340)
+.++.....+..|--++..|++++|.+++.-+--+-- .--+..+++-.+.=..++|..+.....-|-.+-. .||.
T Consensus 32 is~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~---~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~--~dp~ 106 (165)
T PRK15331 32 IPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDF---YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK--NDYR 106 (165)
T ss_pred CCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--CCCC
Confidence 3456788899999999999999999999976543221 1235678888888888999999888887766432 2332
Q ss_pred hhhHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 127 RKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 127 ~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.-.+.|..++..|+-..|...|-.+..
T Consensus 107 ----p~f~agqC~l~l~~~~~A~~~f~~a~~ 133 (165)
T PRK15331 107 ----PVFFTGQCQLLMRKAAKARQCFELVNE 133 (165)
T ss_pred ----ccchHHHHHHHhCCHHHHHHHHHHHHh
Confidence 137889999999999999999988754
No 69
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.71 E-value=7.5 Score=35.46 Aligned_cols=169 Identities=11% Similarity=0.068 Sum_probs=79.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh---hhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh-hH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTES---KTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK-NR 130 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~---~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~-~~ 130 (340)
+..-|-+.-+...++++..++++.-. .|.+++ ...+-+....=.++.-+.+.+...+.++-..++.+ +...+ -.
T Consensus 74 yEqaamLake~~klsEvvdl~eKAs~lY~E~Gspd-tAAmaleKAak~lenv~Pd~AlqlYqralavve~~-dr~~ma~e 151 (308)
T KOG1585|consen 74 YEQAAMLAKELSKLSEVVDLYEKASELYVECGSPD-TAAMALEKAAKALENVKPDDALQLYQRALAVVEED-DRDQMAFE 151 (308)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcc-hHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhcc-chHHHHHH
Confidence 44444455555556666666655432 222222 23344444444455555566666666665555432 21221 11
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHH--hccCC-hHHHHHhcCc--c
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQ--KVVDA-PEILTVIGKI--P 205 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~--~ll~~-~~~~~~l~~~--p 205 (340)
+.-.-+..+..-+.|.+|+..|+.-..-.. ..-++.+..+-.+-.-|.-+.+.|... +.+.. ..+-.|+.++ -
T Consensus 152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~--~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r 229 (308)
T KOG1585|consen 152 LYGKCSRVLVRLEKFTEAATAFLKEGVAAD--KCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSR 229 (308)
T ss_pred HHHHhhhHhhhhHHhhHHHHHHHHhhhHHH--HHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHH
Confidence 222233455566678888887775321110 111122222212222222233444322 12221 1122223222 2
Q ss_pred hHHHHHHHHHhccHHHHHHHHH
Q 019472 206 YLSEFLNSLYDCQYKSFFSAFA 227 (340)
Q Consensus 206 ~l~~ll~af~~~~~~~~~~~L~ 227 (340)
.+.+|+++|..+|...+.+.+.
T Consensus 230 ~lenLL~ayd~gD~E~~~kvl~ 251 (308)
T KOG1585|consen 230 SLENLLTAYDEGDIEEIKKVLS 251 (308)
T ss_pred HHHHHHHHhccCCHHHHHHHHc
Confidence 4889999999999988877654
No 70
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=91.68 E-value=6.1 Score=34.65 Aligned_cols=132 Identities=13% Similarity=0.121 Sum_probs=88.7
Q ss_pred hhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 39 IADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 39 l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
+..+.+.+-.-..-+-.++||+-..+.|++.+|...|.+...=.-. +--.+.+++.+..+..++...+...+++.-..
T Consensus 76 ~Rea~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA--~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~ 153 (251)
T COG4700 76 LREATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFA--HDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY 153 (251)
T ss_pred HHHHHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccC--CCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Confidence 3334444444445666899999999999999999999887632211 22356788999999999999988877776554
Q ss_pred HhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhh
Q 019472 119 FEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS 181 (340)
Q Consensus 119 l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s 181 (340)
-..+-.|+ -...-|..+...+.|..|-+.|-.+.+.|+ .+...+.|....+-.+
T Consensus 154 ~pa~r~pd----~~Ll~aR~laa~g~~a~Aesafe~a~~~yp-----g~~ar~~Y~e~La~qg 207 (251)
T COG4700 154 NPAFRSPD----GHLLFARTLAAQGKYADAESAFEVAISYYP-----GPQARIYYAEMLAKQG 207 (251)
T ss_pred CCccCCCC----chHHHHHHHHhcCCchhHHHHHHHHHHhCC-----CHHHHHHHHHHHHHhc
Confidence 32221222 224556666778888888888776655543 3456678887766555
No 71
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=91.52 E-value=3.2 Score=36.45 Aligned_cols=65 Identities=15% Similarity=0.071 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
...+..|.-+++.|+|.+|.+.|+++.....+....-+..+.+.......+++..+...+.+.-.
T Consensus 6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~ 70 (203)
T PF13525_consen 6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK 70 (203)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45788899999999999999999999988776666778888899999999999999777766443
No 72
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=91.48 E-value=5.2 Score=32.85 Aligned_cols=95 Identities=15% Similarity=0.102 Sum_probs=72.8
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 136 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~g 136 (340)
.-+.-....|+...+.+.+..+.....+........+.+..+.+..|+++.+...+.++-. ...++..+...+..-+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~---~~~d~~l~~~a~l~LA 92 (145)
T PF09976_consen 16 EQALQALQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA---NAPDPELKPLARLRLA 92 (145)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHHH
Confidence 3344444789999999889998877655555566777888888999999999888887554 3456777766777778
Q ss_pred HhccccCCHHHHHHHHHh
Q 019472 137 LYCMSTRNFKKAASLFLD 154 (340)
Q Consensus 137 l~~l~~r~y~~Aa~~F~e 154 (340)
..++..++|.+|...+-.
T Consensus 93 ~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 93 RILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHcCCHHHHHHHHHh
Confidence 888999999999888733
No 73
>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=91.44 E-value=0.55 Score=28.10 Aligned_cols=30 Identities=33% Similarity=0.351 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
+++..+|..|.+.|++++|.+.|.+..+..
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 357789999999999999999999887644
No 74
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=91.32 E-value=3 Score=38.19 Aligned_cols=179 Identities=13% Similarity=0.022 Sum_probs=75.9
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
...+++.+ +..|++.+|.+++.+..+...+ -+.....+.+....++|..+...+.++...... .....+-.
T Consensus 80 ~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~----~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~~~ 150 (280)
T PF13429_consen 80 DYERLIQL-LQDGDPEEALKLAEKAYERDGD----PRYLLSALQLYYRLGDYDEAEELLEKLEELPAA----PDSARFWL 150 (280)
T ss_dssp -------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-------T-HHHHH
T ss_pred cccccccc-cccccccccccccccccccccc----cchhhHHHHHHHHHhHHHHHHHHHHHHHhccCC----CCCHHHHH
Confidence 35567777 7889999999888766544322 233445667777889999999888887643211 12234556
Q ss_pred HHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHH-HHHH
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLS-EFLN 212 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~-~ll~ 212 (340)
..|.++...|++..|...|-.++...+. -.++...++..-+-..+..+++. ++.. ........|.+. .+..
T Consensus 151 ~~a~~~~~~G~~~~A~~~~~~al~~~P~-----~~~~~~~l~~~li~~~~~~~~~~-~l~~--~~~~~~~~~~~~~~la~ 222 (280)
T PF13429_consen 151 ALAEIYEQLGDPDKALRDYRKALELDPD-----DPDARNALAWLLIDMGDYDEARE-ALKR--LLKAAPDDPDLWDALAA 222 (280)
T ss_dssp HHHHHHHHCCHHHHHHHHHHHHHHH-TT------HHHHHHHHHHHCTTCHHHHHHH-HHHH--HHHH-HTSCCHCHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCCC-----CHHHHHHHHHHHHHCCChHHHHH-HHHH--HHHHCcCHHHHHHHHHH
Confidence 6777888899999999888777543211 11222222222222333333332 2211 111113455543 3444
Q ss_pred HH-HhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHH
Q 019472 213 SL-YDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMRE 249 (340)
Q Consensus 213 af-~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ 249 (340)
++ .-+++......+......-..|+-...|.-.++..
T Consensus 223 ~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~ 260 (280)
T PF13429_consen 223 AYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQ 260 (280)
T ss_dssp HHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT-
T ss_pred Hhcccccccccccccccccccccccccccccccccccc
Confidence 44 34788888887777766677888887776655544
No 75
>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=91.27 E-value=13 Score=37.67 Aligned_cols=128 Identities=14% Similarity=0.091 Sum_probs=90.7
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhh
Q 019472 50 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKN 129 (340)
Q Consensus 50 ~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~ 129 (340)
....+++-||.||-..|++++|++++.+..+...+ .+|.++...++.-..|+...+...++.|+.+-.. +|-
T Consensus 192 ~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt---~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~----DRy- 263 (517)
T PF12569_consen 192 TLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT---LVELYMTKARILKHAGDLKEAAEAMDEARELDLA----DRY- 263 (517)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh----hHH-
Confidence 34667888999999999999999999988876533 4789999999999999999999999999985211 221
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhccccC--CcCccCCHhHHHHHHHHHHhhhcChhHH
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDSISTF--TTYELFPYDTFIFYTVLTSIISLDRVSL 187 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f--~~~e~~~~~~~~~Y~~L~al~s~~r~~l 187 (340)
+..-.+.+.+..++..+|...+-- |..- +....+.--++.+|.+=||-+-..+.+.
T Consensus 264 -iNsK~aKy~LRa~~~e~A~~~~~~-Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~ 321 (517)
T PF12569_consen 264 -INSKCAKYLLRAGRIEEAEKTASL-FTREDVDPLSNLNDMQCMWFETECAEAYLRQGDY 321 (517)
T ss_pred -HHHHHHHHHHHCCCHHHHHHHHHh-hcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhH
Confidence 224456788888888888654311 1111 1112222338889999888877555444
No 76
>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=91.14 E-value=0.57 Score=32.85 Aligned_cols=52 Identities=13% Similarity=0.161 Sum_probs=40.3
Q ss_pred HHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 63 IQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 63 ~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
.+.|++++|.+.|.++.+.... ..+..+.+.++.+..|++..+...+.++..
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 5789999999999998876532 456778889999999999988877776544
No 77
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=91.13 E-value=1.6 Score=42.11 Aligned_cols=94 Identities=16% Similarity=0.065 Sum_probs=70.9
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
....|.-.+..|+|.+|+++|.++.+...+. ...+.....+++..|++..+...+.+|-.+ +|. .......
T Consensus 5 l~~~a~~a~~~~~~~~Ai~~~~~Al~~~P~~---~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l-----~P~-~~~a~~~ 75 (356)
T PLN03088 5 LEDKAKEAFVDDDFALAVDLYTQAIDLDPNN---AELYADRAQANIKLGNFTEAVADANKAIEL-----DPS-LAKAYLR 75 (356)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----CcC-CHHHHHH
Confidence 3456888999999999999999988655322 356677778888899999999888887664 222 1223455
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.|..+...|+|..|...|-.+..
T Consensus 76 lg~~~~~lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 76 KGTACMKLEEYQTAKAALEKGAS 98 (356)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHH
Confidence 68888899999999999887753
No 78
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.97 E-value=6.2 Score=36.33 Aligned_cols=122 Identities=16% Similarity=0.243 Sum_probs=68.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-------------H--
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-------------F-- 119 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~-------------l-- 119 (340)
...=|.+|.+.|++++|++.+... .-++.....+.+.+.....+.+.+-+.+..+. +
T Consensus 111 ~l~aa~i~~~~~~~deAl~~~~~~--------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~l 182 (299)
T KOG3081|consen 111 LLLAAIIYMHDGDFDEALKALHLG--------ENLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKL 182 (299)
T ss_pred HHHhhHHhhcCCChHHHHHHHhcc--------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHH
Confidence 445588999999999999988752 22333333334444333344443333333221 1
Q ss_pred hcCCCh---------------hhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcCh
Q 019472 120 EEGGDW---------------ERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDR 184 (340)
Q Consensus 120 ~~~~~~---------------~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r 184 (340)
..|+.. .....+---++..+++.++|.+|-+...+++... -+.++.+.-+++|+.+...-
T Consensus 183 a~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-----~~dpetL~Nliv~a~~~Gkd 257 (299)
T KOG3081|consen 183 ATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-----AKDPETLANLIVLALHLGKD 257 (299)
T ss_pred hccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-----CCCHHHHHHHHHHHHHhCCC
Confidence 011100 0001122233457889999999999988886543 22357777788888887655
Q ss_pred hHHHH
Q 019472 185 VSLKQ 189 (340)
Q Consensus 185 ~~l~~ 189 (340)
.+..+
T Consensus 258 ~~~~~ 262 (299)
T KOG3081|consen 258 AEVTE 262 (299)
T ss_pred hHHHH
Confidence 44433
No 79
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=7.9 Score=37.88 Aligned_cols=195 Identities=18% Similarity=0.187 Sum_probs=101.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHh---hhc-----------------cchhHHHhHHHHH-----------HHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTES---KTV-----------------AVGQKMDLVFYTL-----------QLGFF 101 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~---~~~-----------------~~~~~i~~~l~~i-----------~~~i~ 101 (340)
+.+..+|+.++-.||+.+|.-.+++.+- +.. ..+...+..+++. .+...
T Consensus 233 hLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~ 312 (564)
T KOG1174|consen 233 HLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYD 312 (564)
T ss_pred HHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhh
Confidence 4466899999999999999999887662 111 1122223333332 22344
Q ss_pred hcCHHHHHhHHHHHHHH--------HhcC------CChh------------hhhHhhHHHHHh--ccccCCHHHHHHHHH
Q 019472 102 YMDFDLISKSIDKAKSL--------FEEG------GDWE------------RKNRLKVYEGLY--CMSTRNFKKAASLFL 153 (340)
Q Consensus 102 ~~~~~~~~~~i~ka~~~--------l~~~------~~~~------------~~~~l~~~~gl~--~l~~r~y~~Aa~~F~ 153 (340)
..++..+..+..|+-.. +-+| +.+. ...++++|+|+. +++.+.+++|--.=-
T Consensus 313 ~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An 392 (564)
T KOG1174|consen 313 EKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALAN 392 (564)
T ss_pred hhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHH
Confidence 56677777777775432 1111 1111 125788999985 467888888854333
Q ss_pred hccccCCcCccCCHhHHHHHH-HHHHhhhcChhHHHHhccCChHHHHHhcCcch----HHHHHH-HHHhccHHHHHHHHH
Q 019472 154 DSISTFTTYELFPYDTFIFYT-VLTSIISLDRVSLKQKVVDAPEILTVIGKIPY----LSEFLN-SLYDCQYKSFFSAFA 227 (340)
Q Consensus 154 e~~~~f~~~e~~~~~~~~~Y~-~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~----l~~ll~-af~~~~~~~~~~~L~ 227 (340)
+++.+|.. ++..+-..+ .+|.--...|.--| +..+.. +...|. +..+.+ +..++.+++....|+
T Consensus 393 ~~~~~~~~----sA~~LtL~g~~V~~~dp~~rEKAK-kf~ek~-----L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe 462 (564)
T KOG1174|consen 393 WTIRLFQN----SARSLTLFGTLVLFPDPRMREKAK-KFAEKS-----LKINPIYTPAVNLIAELCQVEGPTKDIIKLLE 462 (564)
T ss_pred HHHHHhhc----chhhhhhhcceeeccCchhHHHHH-HHHHhh-----hccCCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence 33333311 121111111 11211111111111 121111 334553 322222 235677888888777
Q ss_pred HhHHHhhcChhHhhhHHHHHHH--HHHHHHHHh
Q 019472 228 GLTEQIKLDRYLYPHFRYYMRE--VRTVVYSQF 258 (340)
Q Consensus 228 ~~~~~l~~D~~l~~h~~~l~~~--ir~~~l~q~ 258 (340)
.+-. ...|.-|+.|...++.. .-..++.+|
T Consensus 463 ~~L~-~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y 494 (564)
T KOG1174|consen 463 KHLI-IFPDVNLHNHLGDIMRAQNEPQKAMEYY 494 (564)
T ss_pred HHHh-hccccHHHHHHHHHHHHhhhHHHHHHHH
Confidence 6533 36778899998888765 345566666
No 80
>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=90.85 E-value=2.7 Score=43.43 Aligned_cols=91 Identities=10% Similarity=-0.102 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-.....+|..|++.|+|++|++.|++..+.... -..+.+...+++..|+|..+.....++-.. +|+. .+.
T Consensus 127 a~~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~----~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l-----~p~~-~~a 196 (615)
T TIGR00990 127 AAKLKEKGNKAYRNKDFNKAIKLYSKAIECKPD----PVYYSNRAACHNALGDWEKVVEDTTAALEL-----DPDY-SKA 196 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHhCCHHHHHHHHHHHHHc-----CCCC-HHH
Confidence 344778999999999999999999998876543 245677888888899999999988887653 2221 122
Q ss_pred hHHHHHhccccCCHHHHHHHH
Q 019472 132 KVYEGLYCMSTRNFKKAASLF 152 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F 152 (340)
....|..+...++|.+|...|
T Consensus 197 ~~~~a~a~~~lg~~~eA~~~~ 217 (615)
T TIGR00990 197 LNRRANAYDGLGKYADALLDL 217 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHH
Confidence 344566777888888887655
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=90.82 E-value=3.1 Score=36.85 Aligned_cols=105 Identities=13% Similarity=0.070 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-..++.+|..+++.|++++|...+.++...........+..+.+..+....+++..+...+.++-..-.. ++.. ...
T Consensus 33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~--~~~~-~~a 109 (235)
T TIGR03302 33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN--HPDA-DYA 109 (235)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC--CCch-HHH
Confidence 4467889999999999999999999987655433333456677778888889999999988887654221 1111 001
Q ss_pred hHHHHHhcc--------ccCCHHHHHHHHHhccccC
Q 019472 132 KVYEGLYCM--------STRNFKKAASLFLDSISTF 159 (340)
Q Consensus 132 ~~~~gl~~l--------~~r~y~~Aa~~F~e~~~~f 159 (340)
....|..+. ..+++..|.+.|-.+...+
T Consensus 110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~ 145 (235)
T TIGR03302 110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY 145 (235)
T ss_pred HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC
Confidence 122233332 2367888887777665443
No 82
>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=90.65 E-value=10 Score=39.80 Aligned_cols=90 Identities=8% Similarity=0.048 Sum_probs=39.5
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 136 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~g 136 (340)
.+|..++..|++++|.+.|.+..+...+. +....+..+....|++..+...+.++... . |. .......-|
T Consensus 708 ~~~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~l~~---~--~~-~~~~~~~la 777 (899)
T TIGR02917 708 LEGDLYLRQKDYPAAIQAYRKALKRAPSS----QNAIKLHRALLASGNTAEAVKTLEAWLKT---H--PN-DAVLRTALA 777 (899)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHhhCCCc----hHHHHHHHHHHHCCCHHHHHHHHHHHHHh---C--CC-CHHHHHHHH
Confidence 34445555555555555554444333221 22333444444445555554444443221 1 11 012223334
Q ss_pred HhccccCCHHHHHHHHHhcc
Q 019472 137 LYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 137 l~~l~~r~y~~Aa~~F~e~~ 156 (340)
..+...|++.+|...|-.+.
T Consensus 778 ~~~~~~g~~~~A~~~~~~~~ 797 (899)
T TIGR02917 778 ELYLAQKDYDKAIKHYRTVV 797 (899)
T ss_pred HHHHHCcCHHHHHHHHHHHH
Confidence 44555666666666665543
No 83
>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=90.34 E-value=0.3 Score=38.02 Aligned_cols=39 Identities=18% Similarity=0.346 Sum_probs=35.1
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
=.=|+++.|++.|+++.++|++.|-.|+.+|.|.-.||-
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 346999999999999999999999999999999998884
No 84
>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=90.31 E-value=0.74 Score=27.57 Aligned_cols=30 Identities=33% Similarity=0.318 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
.++..+|..|...|++++|++.+++..+..
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 457889999999999999999999887543
No 85
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.28 E-value=1.3 Score=43.91 Aligned_cols=61 Identities=10% Similarity=-0.072 Sum_probs=51.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
.-..|+.++..|+|++|.++|+...+.|.+. --.+-+...++...|+|+.|.+...||-++
T Consensus 118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~e---piFYsNraAcY~~lgd~~~Vied~TkALEl 178 (606)
T KOG0547|consen 118 LKTKGNKFFRNKKYDEAIKYYTQAIELCPDE---PIFYSNRAACYESLGDWEKVIEDCTKALEL 178 (606)
T ss_pred HHhhhhhhhhcccHHHHHHHHHHHHhcCCCC---chhhhhHHHHHHHHhhHHHHHHHHHHHhhc
Confidence 6678999999999999999999999999543 235667778888999999999988887664
No 86
>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=90.27 E-value=1.1 Score=30.36 Aligned_cols=42 Identities=24% Similarity=0.350 Sum_probs=32.4
Q ss_pred HHHHHHHhh-hhhccccHHHHHHHhCCChHHHHHHHHHHhhCC
Q 019472 251 RTVVYSQFL-ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAG 292 (340)
Q Consensus 251 r~~~l~q~i-~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g 292 (340)
|.+-+.+++ +.-..|+.+.||+.||+|...+.+.|..+-..|
T Consensus 1 R~~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 1 RQKQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 344455565 433349999999999999999999999998777
No 87
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=89.80 E-value=1.2 Score=29.29 Aligned_cols=41 Identities=15% Similarity=0.306 Sum_probs=33.7
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.+..++.--..++...+|+.+|+|...+-+.+-+|+..|-|
T Consensus 7 ~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 7 KILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 35566666677999999999999999999999999999865
No 88
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=89.78 E-value=12 Score=31.91 Aligned_cols=100 Identities=18% Similarity=0.141 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..++..+|..|...|++++|.+.+.+..+..... .........+....|++..+...+.++-........ ...
T Consensus 65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~---~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~ 137 (234)
T TIGR02521 65 YLAYLALALYYQQLGELEKAEDSFRRALTLNPNN---GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQP----ARS 137 (234)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccc----hHH
Confidence 4567889999999999999999999988765322 245556667778889999999888887653211111 122
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
...-|..+...+++..|...|-.+...
T Consensus 138 ~~~l~~~~~~~g~~~~A~~~~~~~~~~ 164 (234)
T TIGR02521 138 LENAGLCALKAGDFDKAEKYLTRALQI 164 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 233477788899999999999887543
No 89
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=89.62 E-value=3.1 Score=39.28 Aligned_cols=97 Identities=7% Similarity=-0.053 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
+...+|..+...|++++|.+.+.+..+.-... ......+..+....|+++.+...+.++-..... ++........
T Consensus 116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~---~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~~~~ 190 (355)
T cd05804 116 LLGMLAFGLEEAGQYDRAEEAARRALELNPDD---AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGHNWW 190 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHHHHH
Confidence 44567889999999999999999888654322 234455667778889999999988887664321 2333334445
Q ss_pred HHHHhccccCCHHHHHHHHHhc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.-|.+++..|++.+|...|-+.
T Consensus 191 ~la~~~~~~G~~~~A~~~~~~~ 212 (355)
T cd05804 191 HLALFYLERGDYEAALAIYDTH 212 (355)
T ss_pred HHHHHHHHCCCHHHHHHHHHHH
Confidence 6788899999999999888765
No 90
>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=89.35 E-value=5.8 Score=32.42 Aligned_cols=76 Identities=12% Similarity=-0.049 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCCh
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDW 125 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~--~~~~ 125 (340)
++....+...++..+.+.|++++|.+.+.++....... =..+..++++....|+...+...+.+.+..+.. |.+|
T Consensus 58 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~---E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~P 134 (146)
T PF03704_consen 58 RELYLDALERLAEALLEAGDYEEALRLLQRALALDPYD---EEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEP 134 (146)
T ss_dssp HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS---
T ss_pred HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCc
Confidence 34456678899999999999999999999887544222 246678899999999999999999999887753 5444
Q ss_pred h
Q 019472 126 E 126 (340)
Q Consensus 126 ~ 126 (340)
.
T Consensus 135 s 135 (146)
T PF03704_consen 135 S 135 (146)
T ss_dssp -
T ss_pred C
Confidence 4
No 91
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=89.07 E-value=1.5 Score=28.91 Aligned_cols=42 Identities=24% Similarity=0.348 Sum_probs=34.2
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
+.+++.....++...||+.||++...+.+.|..|...|.|.-
T Consensus 5 il~~l~~~~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 5 ILELLAQQGKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred HHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 344444345689999999999999999999999999987753
No 92
>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=89.04 E-value=3.2 Score=36.81 Aligned_cols=62 Identities=11% Similarity=0.050 Sum_probs=50.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
...+|.+|++.|++.+|...+.++.+.+.+.....+..+.+.++....|++..+..+...+.
T Consensus 169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~ 230 (235)
T TIGR03302 169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLG 230 (235)
T ss_pred HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 45789999999999999999999888776555566788888899999999988887665543
No 93
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=89.00 E-value=1.1 Score=27.90 Aligned_cols=30 Identities=27% Similarity=0.122 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
.+...||..|...|++++|.+++.++.+.+
T Consensus 3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~ 32 (42)
T PF13374_consen 3 SALNNLANAYRAQGRYEEALELLEEALEIR 32 (42)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcchhhHHHHHHHHHH
Confidence 457789999999999999999999887654
No 94
>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=88.63 E-value=2.6 Score=29.67 Aligned_cols=61 Identities=15% Similarity=0.111 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
.....+|..+...|++++|.+.+.+..+...... +....+..+....+++..+...+.++.
T Consensus 35 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 35 DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA---KAYYNLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch---hHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 5677899999999999999999998876553322 455666677777788888777666553
No 95
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=88.62 E-value=1.1 Score=28.89 Aligned_cols=30 Identities=23% Similarity=0.236 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhc
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTV 83 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~ 83 (340)
+.+.||..|.+.|++++|.+.|+++.+...
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P 32 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALALDP 32 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 567899999999999999999999987664
No 96
>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=88.51 E-value=1.9 Score=30.36 Aligned_cols=52 Identities=19% Similarity=0.290 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
..+++.|+..+...-+.|=+.+ +...||+.||+|...+.+-+..|..+|-+.
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 4567777777777778888999 999999999999999999999999999774
No 97
>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=88.23 E-value=1.7 Score=40.57 Aligned_cols=90 Identities=21% Similarity=0.268 Sum_probs=57.4
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHH
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYE 135 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~ 135 (340)
.-.|.+|...|++++|++.+.+. ..++.....+.+.+..++.+.+.+.+.+.+..-+ | + .-...+.
T Consensus 106 ~~~A~i~~~~~~~~~AL~~l~~~--------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~e---D-~--~l~qLa~ 171 (290)
T PF04733_consen 106 LLAATILFHEGDYEEALKLLHKG--------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDE---D-S--ILTQLAE 171 (290)
T ss_dssp HHHHHHHCCCCHHHHHHCCCTTT--------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSC---C-H--HHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHcc--------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC---c-H--HHHHHHH
Confidence 44578889999999999877542 3467777888999999999999888877664211 1 1 1222445
Q ss_pred HHhccccC--CHHHHHHHHHhccccC
Q 019472 136 GLYCMSTR--NFKKAASLFLDSISTF 159 (340)
Q Consensus 136 gl~~l~~r--~y~~Aa~~F~e~~~~f 159 (340)
+...+..| ++.+|...|-|....|
T Consensus 172 awv~l~~g~e~~~~A~y~f~El~~~~ 197 (290)
T PF04733_consen 172 AWVNLATGGEKYQDAFYIFEELSDKF 197 (290)
T ss_dssp HHHHHHHTTTCCCHHHHHHHHHHCCS
T ss_pred HHHHHHhCchhHHHHHHHHHHHHhcc
Confidence 55544433 4666665555544333
No 98
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=88.16 E-value=8.3 Score=32.05 Aligned_cols=60 Identities=13% Similarity=0.071 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 114 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~k 114 (340)
.+.-|.-.++.|+|.+|.+.++.+..........-...+.++..++..+++..+...+.+
T Consensus 13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~r 72 (142)
T PF13512_consen 13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDR 72 (142)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 455677777788888888888777766544444445556677777777777777655444
No 99
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=88.15 E-value=4.6 Score=35.35 Aligned_cols=97 Identities=14% Similarity=0.092 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHH-HHhcC--HHHHHhHHHHHHHHHhcCCChhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLG-FFYMD--FDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~-i~~~~--~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
-.+...||..|...|++++|..+|.+....-.. ..+.......+. ...|+ ...+...+.++-.. +|. -
T Consensus 73 ~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~---~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~-----dP~-~ 143 (198)
T PRK10370 73 SEQWALLGEYYLWRNDYDNALLAYRQALQLRGE---NAELYAALATVLYYQAGQHMTPQTREMIDKALAL-----DAN-E 143 (198)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh-----CCC-C
Confidence 446889999999999999999999988865532 234455555543 34455 36777777766553 222 1
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.......|..++..++|.+|...|-.+..
T Consensus 144 ~~al~~LA~~~~~~g~~~~Ai~~~~~aL~ 172 (198)
T PRK10370 144 VTALMLLASDAFMQADYAQAIELWQKVLD 172 (198)
T ss_pred hhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 23446678888899999999999887754
No 100
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=87.93 E-value=2.2 Score=30.17 Aligned_cols=57 Identities=19% Similarity=0.181 Sum_probs=42.5
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 58 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 58 La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
|+..|.+.+++++|.+++.++...... -....+..-.+....|++..+...++++-+
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~~p~---~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALELDPD---DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHhCcc---cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 467889999999999999888765422 334556667777788888888888877654
No 101
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=87.64 E-value=37 Score=35.08 Aligned_cols=121 Identities=17% Similarity=0.156 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhH
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 130 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~ 130 (340)
+....+-|+.+|...|+++.|.+.+....+.|.| .++.++...|+.-..|+...+...++.|+++-. +++-
T Consensus 370 llWt~y~laqh~D~~g~~~~A~~yId~AIdHTPT---liEly~~KaRI~kH~G~l~eAa~~l~ea~elD~----aDR~-- 440 (700)
T KOG1156|consen 370 LLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPT---LIELYLVKARIFKHAGLLDEAAAWLDEAQELDT----ADRA-- 440 (700)
T ss_pred HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCch---HHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc----hhHH--
Confidence 3556888999999999999999999998887753 578899999999999999999999998888421 1211
Q ss_pred hhHHHHHhccccCCHHHHH---HHHHhccccCCcCccCCHhHHHHHHHHHHhhhc
Q 019472 131 LKVYEGLYCMSTRNFKKAA---SLFLDSISTFTTYELFPYDTFIFYTVLTSIISL 182 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa---~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~ 182 (340)
+..-.|.|.+....-.+|. +.|.- +.++...-+.--++..|.+=|+-+-.
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 1123344544444444443 34432 11222223333477888888876653
No 102
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=87.56 E-value=28 Score=39.01 Aligned_cols=100 Identities=16% Similarity=0.151 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch--hHH---------HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG--QKM---------DLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 120 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~--~~i---------~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~ 120 (340)
-.++..||..|...|++++|.+.|.+..+...... .+. ...+..-.+.+..+++..+...+.++-..
T Consensus 303 ~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~-- 380 (1157)
T PRK11447 303 SEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQV-- 380 (1157)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence 34678899999999999999999999886543221 111 11122334566778888888888877664
Q ss_pred cCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 121 EGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 121 ~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
+|.. ......-|..+...++|.+|...|-.++.
T Consensus 381 ---~P~~-~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~ 413 (1157)
T PRK11447 381 ---DNTD-SYAVLGLGDVAMARKDYAAAERYYQQALR 413 (1157)
T ss_pred ---CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 1211 11223346778889999999999888764
No 103
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=87.54 E-value=16 Score=33.33 Aligned_cols=108 Identities=14% Similarity=0.138 Sum_probs=77.7
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh-ccchhHHHhHHHHHHHH------HHhcCHHHHHhHHHHHHHHHhcCC
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKT-VAVGQKMDLVFYTLQLG------FFYMDFDLISKSIDKAKSLFEEGG 123 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~-~~~~~~i~~~l~~i~~~------i~~~~~~~~~~~i~ka~~~l~~~~ 123 (340)
.+++.+.++--+++.|+|.+|...+.+..... ++++ ++...-+.-++ --..|...+...+...+..+..-+
T Consensus 70 ~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n--~dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryP 147 (254)
T COG4105 70 SEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN--ADYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYP 147 (254)
T ss_pred cHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC--hhHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCC
Confidence 48899999999999999999999999987655 3333 33222222222 123567788888888888887643
Q ss_pred Ch--------------hhhhHhhHHHHHhccccCCHHHHHHHHHhccccCC
Q 019472 124 DW--------------ERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFT 160 (340)
Q Consensus 124 ~~--------------~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~ 160 (340)
+. +..+.....=|.+++..+.|..|+..|-++.++|.
T Consensus 148 nS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~ 198 (254)
T COG4105 148 NSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYP 198 (254)
T ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccc
Confidence 32 12244556677889999999999999999988864
No 104
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=87.33 E-value=6.8 Score=38.21 Aligned_cols=231 Identities=16% Similarity=0.218 Sum_probs=118.2
Q ss_pred HhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhcccc-------C---
Q 019472 90 DLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST-------F--- 159 (340)
Q Consensus 90 ~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~-------f--- 159 (340)
=..++++|++++.||+..+.++++--..-+-+ ..| ..++.-+-|.+++--|+|.+|...|+.++.. |
T Consensus 236 fsL~GLlR~H~lLgDhQat~q~idi~pk~iy~-t~p--~c~VTY~VGFayLmmrryadai~~F~niLlyIqrtks~~~~~ 312 (525)
T KOG3677|consen 236 FSLLGLLRMHILLGDHQATSQILDIMPKEIYG-TEP--MCRVTYQVGFAYLMMRRYADAIRVFLNILLYIQRTKSMFSRT 312 (525)
T ss_pred HHHHHHHHHHHHhhhhHhhhhhhhcCchhhcC-ccc--ceeEeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 35689999999999966655544432222211 112 2333467799999999999999999987421 1
Q ss_pred Cc-CccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcC---cchHHHHHHHHHhccH---HHHHHHH------
Q 019472 160 TT-YELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGK---IPYLSEFLNSLYDCQY---KSFFSAF------ 226 (340)
Q Consensus 160 ~~-~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~---~p~l~~ll~af~~~~~---~~~~~~L------ 226 (340)
++ .+.++...=-.+-+++-.++.-...+ + ..+..++.+ +|.+ ...+++- +.++..+
T Consensus 313 ~y~~d~inKq~eqm~~llai~l~~yPq~i-----D-ESi~s~l~Ek~~d~ml-----~mqng~~q~~ks~f~y~cpkfls 381 (525)
T KOG3677|consen 313 TYQYDMINKQNEQMHHLLAICLSMYPQMI-----D-ESIHSQLAEKYGDKML-----PMQNGDPQVFKSLFSYLCPKFLS 381 (525)
T ss_pred hhhHhhhhhhHHHHHHHHHHHHHhCchhh-----h-HHHHHHHHHHhcchhh-----hhhcCChHHHHHHHHHcCccccC
Confidence 11 12222221122322222222211111 1 112222211 1100 0111221 1111111
Q ss_pred ------HHhHHHhhcChhHhhhHHHHHHHHHHHH----HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh------
Q 019472 227 ------AGLTEQIKLDRYLYPHFRYYMREVRTVV----YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA------ 290 (340)
Q Consensus 227 ------~~~~~~l~~D~~l~~h~~~l~~~ir~~~----l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~------ 290 (340)
....+..-.+|++++ ...+.+.++.++ +.+|+.-|.......+|.-++++.++=.+.+.+++.
T Consensus 382 p~~~~~dgv~~~y~kePl~~q-lq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~~dk~li~Ll~~khkm~ 460 (525)
T KOG3677|consen 382 PVVPNYDGVLPNYHKEPLLQQ-LQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQERDKFLIQLLVFKHKMK 460 (525)
T ss_pred CCCcccccccccccccHHHHH-HHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCchhhhhhhHHHHHHHHHHHH
Confidence 111222345666654 245566665543 566777799999999999999998887777777764
Q ss_pred -----CCccceEEecCCC-EEEEcCCCcchHH-HHH-HHHhhHHHHHHHHHhh
Q 019472 291 -----AGKLHCKIDKVAG-VLETNRPDAKNAL-YQA-TIKQGDFLLNRIQKLS 335 (340)
Q Consensus 291 -----~g~l~akID~~~g-~l~~~~~~~r~~~-y~~-~l~~~~~l~~ri~~l~ 335 (340)
+|.....++-..+ -|-+.-....... -++ +=..||-+++.|+|..
T Consensus 461 nlv~~sg~s~~d~~f~~~s~idfyid~dmi~iaDtkv~r~~gd~fir~i~kf~ 513 (525)
T KOG3677|consen 461 NLVWTSGPSDLDDAFFSRSEIDFYIDKDMIHIADTKVARRYGDIFIRQIHKFE 513 (525)
T ss_pred HHHHhcCCccccccccCcceeeEEechhHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 4555556653333 3444422222221 122 2235777777776654
No 105
>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=86.89 E-value=4.4 Score=29.10 Aligned_cols=68 Identities=12% Similarity=0.023 Sum_probs=50.8
Q ss_pred HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhh-hhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 89 MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWER-KNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 89 i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~-~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
...+.++-.+....|+|+.+..+..++-...+..++... .+....--|..+...++|.+|..+|-+++
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 455667778888999999999999999998555444332 35555566677888999999999987764
No 106
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=86.70 E-value=3.6 Score=39.80 Aligned_cols=97 Identities=11% Similarity=0.022 Sum_probs=70.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhc---c---------chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcC
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTV---A---------VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEG 122 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~---~---------~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~ 122 (340)
...-|+.|++.|+|..|...|.++..+.. + ..-++-..+++..+++-.++|..+....+++-..-
T Consensus 211 ~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~--- 287 (397)
T KOG0543|consen 211 KKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD--- 287 (397)
T ss_pred HHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC---
Confidence 34569999999999999999998664331 1 12345678888899999999998888777765532
Q ss_pred CChhhhhHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 123 GDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 123 ~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
++..++-+ -.|-+++..++|..|...|..+..
T Consensus 288 -~~N~KALy--RrG~A~l~~~e~~~A~~df~ka~k 319 (397)
T KOG0543|consen 288 -PNNVKALY--RRGQALLALGEYDLARDDFQKALK 319 (397)
T ss_pred -CCchhHHH--HHHHHHHhhccHHHHHHHHHHHHH
Confidence 22233333 346778888999999999988754
No 107
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=86.37 E-value=5.6 Score=33.07 Aligned_cols=76 Identities=9% Similarity=0.162 Sum_probs=56.2
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHH
Q 019472 208 SEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 208 ~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
..+-......||....+.++.+.-.- -.++-+..|-+.-|.|++.-.+..|++|.+...|--+|+++|+.-+-+.+
T Consensus 80 WgiGQkiWq~Df~GiYeaI~~~dWSe----eak~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~ilE 155 (197)
T KOG4414|consen 80 WGIGQKIWQHDFAGIYEAINAHDWSE----EAKDIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGILE 155 (197)
T ss_pred hhhhHHHHhcccchHHHHHhhhcchH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 44556677888888888877663211 02334556777778889888889999999999999999999987665543
No 108
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=85.96 E-value=27 Score=36.00 Aligned_cols=28 Identities=7% Similarity=0.043 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESK 81 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~ 81 (340)
....+|..|++.++|.+|.++++.+++.
T Consensus 355 vl~q~GrayFEl~~Y~~a~~~F~~~r~~ 382 (638)
T KOG1126|consen 355 VLSQLGRAYFELIEYDQAERIFSLVRRI 382 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3557899999999999999999999853
No 109
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=85.93 E-value=13 Score=34.15 Aligned_cols=65 Identities=11% Similarity=-0.063 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
..+++.||..|+..|++.+|...|.++.+........-+..+.+..+....|++..+...+.++-
T Consensus 180 ~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi 244 (263)
T PRK10803 180 PNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVI 244 (263)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 56788888888888888888888888877665555666777777777777788877777666543
No 110
>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=85.92 E-value=5.6 Score=36.84 Aligned_cols=67 Identities=21% Similarity=0.199 Sum_probs=53.3
Q ss_pred hcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEE
Q 019472 234 KLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 307 (340)
Q Consensus 234 ~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~ 307 (340)
..+.+-..+++.+.+++.++. |= -..|++..+|+.+++|.+++-+.+......+.|+|++|.. .+++
T Consensus 105 ~gelit~~Yld~l~~Eine~L--qe---~G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~~--~lyT 171 (272)
T PF09743_consen 105 QGELITDSYLDSLAEEINEKL--QE---SGQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDGD--VLYT 171 (272)
T ss_pred CCEEccHHHHHHHHHHHHHHH--HH---cCeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeCC--EEec
Confidence 334445567778888877632 22 5899999999999999999998888889999999999998 5554
No 111
>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=85.86 E-value=3.9 Score=36.96 Aligned_cols=72 Identities=19% Similarity=0.235 Sum_probs=55.6
Q ss_pred HHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHh-hh--hhc-----------------cccHHHHHHHhCCChHHHHHHH
Q 019472 226 FAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQF-LE--SYK-----------------SVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 226 L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~-i~--pYs-----------------~I~l~~mA~~~g~~~~~vE~~L 285 (340)
|.++....-.=-.++...+.+-++.|.++..|. +. +|| +++-..||+.+|+|...+-.-+
T Consensus 140 LaEy~aTVVG~Eilr~~~~~iEee~Rkka~Vq~Ai~tLSySEleAv~~IL~~L~~~egrlse~eLAerlGVSRs~ireAl 219 (251)
T TIGR02787 140 LAEYAATVVGMELLRAQAEEIEEEARKKAAVQMAINTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNAL 219 (251)
T ss_pred hhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHHHhccccccccHHHHHHHHCCCHHHHHHHH
Confidence 333333333333466677888888888888887 33 577 8899999999999999999999
Q ss_pred HHHhhCCccceE
Q 019472 286 SRFIAAGKLHCK 297 (340)
Q Consensus 286 ~~lI~~g~l~ak 297 (340)
.+|-..|-|..+
T Consensus 220 rkLE~aGvIe~r 231 (251)
T TIGR02787 220 RKLESAGVIESR 231 (251)
T ss_pred HHHHHCCCEEec
Confidence 999999988774
No 112
>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=85.73 E-value=3.4 Score=28.24 Aligned_cols=49 Identities=14% Similarity=0.185 Sum_probs=41.4
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 303 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g 303 (340)
++.++..+..++...||+.+|++...+-+.+.+|+..|-|.-..|+.++
T Consensus 8 iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 8 ILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 4455566788999999999999999999999999999999888877664
No 113
>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=85.66 E-value=12 Score=31.66 Aligned_cols=93 Identities=15% Similarity=0.063 Sum_probs=59.2
Q ss_pred hHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE--EecCCCEEEEcCCCcchH
Q 019472 238 YLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK--IDKVAGVLETNRPDAKNA 315 (340)
Q Consensus 238 ~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak--ID~~~g~l~~~~~~~r~~ 315 (340)
.+...+..++..--..++. .+-+.+.++-+.||+.+|++..++-+.|-.|-.+|-+.-+ =|..+|.....+.-....
T Consensus 3 ~~~~~~~~~~g~~~v~Vl~-aL~~~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~ 81 (158)
T TIGR00373 3 LLNEVVGRAAEEEVGLVLF-SLGIKGEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEK 81 (158)
T ss_pred HHHHHHHHHcChhHHHHHH-HHhccCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHH
Confidence 3334444444433222333 3335688999999999999999999999999999988542 256667777665434445
Q ss_pred HHHHHHHhhHHHHHHH
Q 019472 316 LYQATIKQGDFLLNRI 331 (340)
Q Consensus 316 ~y~~~l~~~~~l~~ri 331 (340)
+.+.+......+.+++
T Consensus 82 i~d~Ik~~~~~~~~~l 97 (158)
T TIGR00373 82 ALDVLKRKLEETAKKL 97 (158)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5555544444444433
No 114
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=85.65 E-value=4.4 Score=37.14 Aligned_cols=93 Identities=17% Similarity=0.104 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
...+|.++.+.|+..+|.+.|.+..+...... +....++-+.+..|+...+...+........ .+|. +...
T Consensus 149 ~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~---~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~--~~~~----~~~~ 219 (280)
T PF13429_consen 149 WLALAEIYEQLGDPDKALRDYRKALELDPDDP---DARNALAWLLIDMGDYDEAREALKRLLKAAP--DDPD----LWDA 219 (280)
T ss_dssp HHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-H---HHHHHHHHHHCTTCHHHHHHHHHHHHHHH-H--TSCC----HCHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH---HHHHHHHHHHHHCCChHHHHHHHHHHHHHCc--CHHH----HHHH
Confidence 44556666666666666666655554432221 1222233334445555554444444443321 1222 1122
Q ss_pred HHHhccccCCHHHHHHHHHhcc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
-|..++..+++..|...|-...
T Consensus 220 la~~~~~lg~~~~Al~~~~~~~ 241 (280)
T PF13429_consen 220 LAAAYLQLGRYEEALEYLEKAL 241 (280)
T ss_dssp HHHHHHHHT-HHHHHHHHHHHH
T ss_pred HHHHhccccccccccccccccc
Confidence 3444555556666666655543
No 115
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=85.59 E-value=36 Score=33.08 Aligned_cols=56 Identities=4% Similarity=-0.106 Sum_probs=23.9
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 59 SLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 59 a~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
++++...|+++.|.+.+.+..+..... .+......++++..|+|..+...+++...
T Consensus 160 a~l~l~~g~~~~Al~~l~~~~~~~P~~---~~al~ll~~~~~~~gdw~~a~~~l~~l~k 215 (398)
T PRK10747 160 VRIQLARNENHAARHGVDKLLEVAPRH---PEVLRLAEQAYIRTGAWSSLLDILPSMAK 215 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 444555555555555544444333111 12222333444444555555544444443
No 116
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=85.53 E-value=2.4 Score=30.42 Aligned_cols=43 Identities=23% Similarity=0.245 Sum_probs=36.3
Q ss_pred HHHHhhhhhcc--ccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 254 VYSQFLESYKS--VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 254 ~l~q~i~pYs~--I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
.+.+++..... ++...||+.+|++...+.+.|..|...|.+..
T Consensus 10 ~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 10 KILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 45566665545 99999999999999999999999999998744
No 117
>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=85.08 E-value=3 Score=27.41 Aligned_cols=43 Identities=19% Similarity=0.353 Sum_probs=34.7
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.|.+++..+.+ ...+...+|+.+|++...+-+.|..|...|-+
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 45555555554 77889999999999999999999999998865
No 118
>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=85.05 E-value=1.6 Score=28.60 Aligned_cols=27 Identities=33% Similarity=0.380 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESK 81 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~ 81 (340)
.++||.-|.+.||++.|.+.+.++...
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~~ 28 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIEE 28 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHHc
Confidence 478999999999999999999988743
No 119
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.81 E-value=33 Score=31.80 Aligned_cols=97 Identities=7% Similarity=0.089 Sum_probs=72.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH---HHhcCCChhhhhH-
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS---LFEEGGDWERKNR- 130 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~---~l~~~~~~~~~~~- 130 (340)
++-++.++...|+|.-....+.+++++....+- ...-.+.+++...||.+.+.++.+.++. .++. .++.
T Consensus 180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p--~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~-----~q~~~ 252 (366)
T KOG2796|consen 180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEP--QLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDG-----LQGKI 252 (366)
T ss_pred HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccH--HHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhc-----cchhH
Confidence 778899999999999999999999986643333 3445677888889999999988876653 2322 2333
Q ss_pred -hhHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 131 -LKVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 131 -l~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
+.-.++..++.+.||..|...|-++..+
T Consensus 253 ~V~~n~a~i~lg~nn~a~a~r~~~~i~~~ 281 (366)
T KOG2796|consen 253 MVLMNSAFLHLGQNNFAEAHRFFTEILRM 281 (366)
T ss_pred HHHhhhhhheecccchHHHHHHHhhcccc
Confidence 3344567888999999999999888655
No 120
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=84.66 E-value=3.9 Score=40.31 Aligned_cols=107 Identities=18% Similarity=0.111 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHH-HHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQL-GFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~-~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
..-+||++|-+.||...|+.++.....|+...-..++ |+.. +|..+=|+.+.++++||.-.--....|. +.
T Consensus 594 ilskl~dlydqegdksqafq~~ydsyryfp~nie~ie----wl~ayyidtqf~ekai~y~ekaaliqp~~~kwq----lm 665 (840)
T KOG2003|consen 594 ILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIE----WLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQ----LM 665 (840)
T ss_pred HHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHH----HHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHH----HH
Confidence 3668899999999999999998888877755444433 4444 4555667888888888765321122233 33
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHH
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTV 175 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~ 175 (340)
+.+ ..-..|+|..|...+-++---|. +. .+++++++
T Consensus 666 ias--c~rrsgnyqka~d~yk~~hrkfp--ed---ldclkflv 701 (840)
T KOG2003|consen 666 IAS--CFRRSGNYQKAFDLYKDIHRKFP--ED---LDCLKFLV 701 (840)
T ss_pred HHH--HHHhcccHHHHHHHHHHHHHhCc--cc---hHHHHHHH
Confidence 333 23457899999999888744442 22 36677754
No 121
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=84.50 E-value=1.9 Score=39.55 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=41.9
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
=|...|.+++.....|+++.+|+.||+|++.+-+.|..|-..|.+
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 377889999999999999999999999999999999999999866
No 122
>PRK11189 lipoprotein NlpI; Provisional
Probab=84.49 E-value=9.1 Score=35.64 Aligned_cols=97 Identities=15% Similarity=0.096 Sum_probs=68.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-..++.+|..|...|++++|...|.+..+.-.. ..+.+..+-.+....|+++.+...+.++-.. +|+. ...
T Consensus 64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~---~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l-----~P~~-~~a 134 (296)
T PRK11189 64 AQLHYERGVLYDSLGLRALARNDFSQALALRPD---MADAYNYLGIYLTQAGNFDAAYEAFDSVLEL-----DPTY-NYA 134 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCC-HHH
Confidence 445888999999999999999999888765422 1355566667778889999998888877653 2221 112
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
....|..+...++|.+|...|-.+..
T Consensus 135 ~~~lg~~l~~~g~~~eA~~~~~~al~ 160 (296)
T PRK11189 135 YLNRGIALYYGGRYELAQDDLLAFYQ 160 (296)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 24456667778999999888877653
No 123
>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=84.31 E-value=6.4 Score=37.37 Aligned_cols=71 Identities=13% Similarity=0.025 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~-~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
..++...+-.=|+.|++..+|..|..+|++-. ..|..++--.-.+.+-....++.||+..+.+...+|...
T Consensus 77 p~E~Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~ 148 (390)
T KOG0551|consen 77 PHEQAENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKL 148 (390)
T ss_pred hHHHHHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455567777999999999999999999866 788887777788889999999999999999888888764
No 124
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=83.71 E-value=13 Score=31.20 Aligned_cols=69 Identities=14% Similarity=0.104 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc----hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV----GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 121 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~----~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~ 121 (340)
.++..+|..|...|++++|.+.+.+....-... .....++...-++....|++..+.....++....+.
T Consensus 73 ~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~ 145 (168)
T CHL00033 73 YILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQ 145 (168)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHH
Confidence 468899999999999999999999887543211 111223333444555788999998888888776554
No 125
>PRK14574 hmsH outer membrane protein; Provisional
Probab=83.62 E-value=49 Score=35.72 Aligned_cols=96 Identities=11% Similarity=0.094 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
..+.-+-+.++.||+..|+..|.++.+.-.....-+. .++.+....|+...+..+++++- +... .-.....
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---SSMN---ISSRGLA 106 (822)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH---HHHHHHHHcCCcHHHHHHHHHhc---cCCC---CCHHHHH
Confidence 5667788999999999999999998865532211122 56666667799999988888766 1111 1112223
Q ss_pred HHHHhccccCCHHHHHHHHHhcccc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
..|..+...++|..|...|-.+...
T Consensus 107 alA~ly~~~gdyd~Aiely~kaL~~ 131 (822)
T PRK14574 107 SAARAYRNEKRWDQALALWQSSLKK 131 (822)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 3456778889999999988887644
No 126
>PLN03218 maturation of RBCL 1; Provisional
Probab=83.61 E-value=79 Score=35.21 Aligned_cols=35 Identities=14% Similarity=0.020 Sum_probs=18.9
Q ss_pred HHHHHHHHH-hccHHHHHHHHHHhHHH-hhcChhHhh
Q 019472 207 LSEFLNSLY-DCQYKSFFSAFAGLTEQ-IKLDRYLYP 241 (340)
Q Consensus 207 l~~ll~af~-~~~~~~~~~~L~~~~~~-l~~D~~l~~ 241 (340)
+..++.++. .+++....+.+...... +..|.+...
T Consensus 757 y~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tyn 793 (1060)
T PLN03218 757 YSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR 793 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence 455566554 45677776666665332 444544433
No 127
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=83.39 E-value=2.3 Score=38.59 Aligned_cols=46 Identities=28% Similarity=0.368 Sum_probs=41.5
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
-|.+.+.+++.....++.+.+|+.||+|+..+.+.|..|-..|.+.
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 3677788999999999999999999999999999999999887764
No 128
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=83.24 E-value=13 Score=28.26 Aligned_cols=63 Identities=17% Similarity=0.191 Sum_probs=47.1
Q ss_pred HHHhCCHHHHHHHHHHHHhhhccchh------HHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCC
Q 019472 62 YIQIGDKEKALEQLKVTESKTVAVGQ------KMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGD 124 (340)
Q Consensus 62 ~~~~Gd~~~A~~~l~~~~~~~~~~~~------~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~ 124 (340)
....|||.+|.+.+.+..+++..... .--..+++..+....|+++.+...+..|-.+....+|
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 45789999999999999988754322 1234566778888899999999888888776544444
No 129
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=83.22 E-value=1.8 Score=37.70 Aligned_cols=44 Identities=20% Similarity=0.291 Sum_probs=41.3
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
|.+.+..++.-...+++..+|+.||+|.+.+-+.|..|-.+|.+
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 77888999999999999999999999999999999999999876
No 130
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=83.04 E-value=3 Score=29.49 Aligned_cols=41 Identities=15% Similarity=0.312 Sum_probs=33.8
Q ss_pred HHHhhhh-hccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 255 YSQFLES-YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 255 l~q~i~p-Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
+..|+.- ...++-..+|+.+|++.-.+...|..|-.+|++.
T Consensus 5 Il~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 5 ILEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp HHHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred HHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 4455554 7789999999999999999999999999999884
No 131
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=82.70 E-value=15 Score=41.21 Aligned_cols=95 Identities=15% Similarity=0.070 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
..+.||..|.+.|++++|.+.|.++.+... + ..+..+.+.++....|++..+...+.++... +|+..+ ...
T Consensus 605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~P--~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~-----~p~~~~-~~~ 675 (1157)
T PRK11447 605 IDLTLADWAQQRGDYAAARAAYQRVLTREP--G-NADARLGLIEVDIAQGDLAAARAQLAKLPAT-----ANDSLN-TQR 675 (1157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-----CCCChH-HHH
Confidence 456788999999999999999988876542 2 2466778888888889999888888765432 111111 122
Q ss_pred HHHHhccccCCHHHHHHHHHhccc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
..|..+...+++.+|...|-.+..
T Consensus 676 ~la~~~~~~g~~~eA~~~~~~al~ 699 (1157)
T PRK11447 676 RVALAWAALGDTAAAQRTFNRLIP 699 (1157)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHhh
Confidence 345566678899999888877654
No 132
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=82.67 E-value=11 Score=40.03 Aligned_cols=98 Identities=12% Similarity=0.003 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..+...+|.++...|++++|.+.+.++.... |+. .+..+.+..+....|++..+...+.++... +|+.. .+
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 LQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGN-QGLRIDYASVLQARGWPRAAENELKKAEVL-----EPRNI-NL 429 (765)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-----CCCCh-HH
Confidence 3456789999999999999999999987654 333 467778888888889999999988887764 23322 27
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
....|...+..++|.+|-..+-+....
T Consensus 430 ~~~~a~~al~~~~~~~A~~~~~~ll~~ 456 (765)
T PRK10049 430 EVEQAWTALDLQEWRQMDVLTDDVVAR 456 (765)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 778888999999999998887766543
No 133
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=82.65 E-value=3.5 Score=32.04 Aligned_cols=48 Identities=15% Similarity=0.249 Sum_probs=39.9
Q ss_pred HHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc---eEEec
Q 019472 253 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDK 300 (340)
Q Consensus 253 ~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~---akID~ 300 (340)
+.+.+++....+++.+.||+.+|+|+..+-+.+.+|..+|-+. +.+|.
T Consensus 6 ~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~~ 56 (108)
T smart00344 6 RKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVINP 56 (108)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeCH
Confidence 3455666666789999999999999999999999999999775 45563
No 134
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=82.16 E-value=18 Score=31.20 Aligned_cols=96 Identities=16% Similarity=0.015 Sum_probs=62.7
Q ss_pred hcChhHhhhHHHHH--HHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEE--ecCCCEEEEcC
Q 019472 234 KLDRYLYPHFRYYM--REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI--DKVAGVLETNR 309 (340)
Q Consensus 234 ~~D~~l~~h~~~l~--~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akI--D~~~g~l~~~~ 309 (340)
..||.+..-+..+. ..-..+ +...+.....++-+.||+.+|++...+-+.|..|-.+|-+..+- |...|.....|
T Consensus 5 ~~~~~v~~~l~~~~~~~~~~~~-Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w 83 (178)
T PRK06266 5 LNNPLVQKVLFEIMEGDEEGFE-VLKALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTW 83 (178)
T ss_pred hcCHHHHHHHHHHhcCCccHhH-HHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEE
Confidence 35666666555555 322333 33445567889999999999999999999999999999987533 33456666666
Q ss_pred CCcchHHHHHHHHhhHHHHHH
Q 019472 310 PDAKNALYQATIKQGDFLLNR 330 (340)
Q Consensus 310 ~~~r~~~y~~~l~~~~~l~~r 330 (340)
.-....+.+.+......+..+
T Consensus 84 ~l~~~~i~d~ik~~~~~~~~k 104 (178)
T PRK06266 84 KPELEKLPEIIKKKKMEELKK 104 (178)
T ss_pred EeCHHHHHHHHHHHHHHHHHH
Confidence 544444555544444333333
No 135
>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=82.07 E-value=5.3 Score=27.41 Aligned_cols=48 Identities=15% Similarity=0.146 Sum_probs=37.2
Q ss_pred HHhhhhhcc--ccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC
Q 019472 256 SQFLESYKS--VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 303 (340)
Q Consensus 256 ~q~i~pYs~--I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g 303 (340)
..++.-+-. ++...||+.+|++...+-..+.+|+..|-+.-.-|..++
T Consensus 11 L~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D~ 60 (62)
T PF12802_consen 11 LMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGDR 60 (62)
T ss_dssp HHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSST
T ss_pred HHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCCC
Confidence 334443444 999999999999999999999999999999777666553
No 136
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.03 E-value=19 Score=31.67 Aligned_cols=100 Identities=15% Similarity=0.086 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..+.+.+|.-+.++|++++|...+...........-+.-..+.+.|+.+..+.++.+.+.++..+ ++.-.+++
T Consensus 89 ~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-------~~~w~~~~ 161 (207)
T COG2976 89 VLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-------EESWAAIV 161 (207)
T ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-------cccHHHHH
Confidence 55688999999999999999999998887665555555566788888888888887765544332 22333555
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
-...|=.++..+|=.+|...|-.+...
T Consensus 162 ~elrGDill~kg~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 162 AELRGDILLAKGDKQEARAAYEKALES 188 (207)
T ss_pred HHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence 567777888888888888777766544
No 137
>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=82.03 E-value=2.4 Score=24.07 Aligned_cols=23 Identities=30% Similarity=0.354 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLK 76 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~ 76 (340)
+...||..+...||+++|...+.
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 46789999999999999998774
No 138
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.99 E-value=5.8 Score=36.44 Aligned_cols=101 Identities=12% Similarity=0.056 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHH-HHHHhcCCChhhhhHhhH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKA-KSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka-~~~l~~~~~~~~~~~l~~ 133 (340)
.++.|-=++..|||.+|...|....+.+......-+..+-+-++.+-.||+..+..+...+ +....+...|+-..++
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 4455555555666666665555555444333222233333344445555555554433333 2222222223322222
Q ss_pred HHHHhccccCCHHHHHHHHHhccccC
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSISTF 159 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~~f 159 (340)
|...-..++-.+|+..|-++...|
T Consensus 222 --g~~~~~l~~~d~A~atl~qv~k~Y 245 (262)
T COG1729 222 --GVSLGRLGNTDEACATLQQVIKRY 245 (262)
T ss_pred --HHHHHHhcCHHHHHHHHHHHHHHC
Confidence 222334455555555555555544
No 139
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=81.68 E-value=8.3 Score=38.17 Aligned_cols=68 Identities=10% Similarity=0.016 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
-..++..+|..|++.|+|++|+.+|++..+...+....-..+.++.-++...|+.+.+...+.+|-..
T Consensus 74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 36678899999999999999999999988765433221123556666677789999999998888664
No 140
>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=81.67 E-value=4.8 Score=27.74 Aligned_cols=51 Identities=18% Similarity=0.236 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHhhhhhcccc-HHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 245 YYMREVRTVVYSQFLESYKSVT-IEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~-l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
.+.+.++...+...+.+-..+. ...||+.+|+|...+.+.+.+|...|-|.
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 4445554443333344444455 99999999999999999999999998764
No 141
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=81.34 E-value=2.8 Score=38.37 Aligned_cols=46 Identities=26% Similarity=0.343 Sum_probs=42.8
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
-|.+.|.+++.....|+++.+|+.||+|++.+-+.|..|=..|.+.
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 3788899999999999999999999999999999999999988874
No 142
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=81.15 E-value=3.1 Score=37.97 Aligned_cols=45 Identities=20% Similarity=0.375 Sum_probs=41.1
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
|.+.+..++.....++.+.+|+.||+|...+.+.|..|-..|.+.
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 667788999999999999999999999999999999998888774
No 143
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=80.63 E-value=98 Score=34.22 Aligned_cols=93 Identities=10% Similarity=0.029 Sum_probs=67.5
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
.++..|..+...||+.+|+..|.++.+.-.. . ....+.+.+.++..|+...+...+.++-.. +|+-.--...
T Consensus 46 ~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~--n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l-----dP~n~~~~~~ 117 (987)
T PRK09782 46 PRLDKALKAQKNNDEATAIREFEYIHQQVPD--N-IPLTLYLAEAYRHFGHDDRARLLLEDQLKR-----HPGDARLERS 117 (987)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHhCCC--C-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----CcccHHHHHH
Confidence 3778888999999999999999998875533 3 566799999999999999999888876653 3321111111
Q ss_pred HHHHhccccCCHHHHHHHHHhccccC
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSISTF 159 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~~f 159 (340)
. |.+ ++|.+|+..|-+....+
T Consensus 118 L-a~i----~~~~kA~~~ye~l~~~~ 138 (987)
T PRK09782 118 L-AAI----PVEVKSVTTVEELLAQQ 138 (987)
T ss_pred H-HHh----ccChhHHHHHHHHHHhC
Confidence 1 222 89999998887776544
No 144
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=80.28 E-value=11 Score=33.60 Aligned_cols=95 Identities=13% Similarity=0.129 Sum_probs=58.4
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCC-ChHHHHHH
Q 019472 206 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVE 284 (340)
Q Consensus 206 ~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~-~~~~vE~~ 284 (340)
.+.++++-|..+.|.++...-..+ +.|..+-.+. ++.+-+......-+++.-..+-..+.+ ++-++|+.
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 467899999999998875433222 1122111111 111111112111223333344455555 67799999
Q ss_pred HHHHhhCCccceEEecCCCEEEEcCC
Q 019472 285 LSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 285 L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
|.+..-.+-+.|||||.+.++++.+.
T Consensus 131 iieamya~IlrGkldqr~q~leV~fa 156 (258)
T KOG3250|consen 131 IIEAMYADILRGKLDQRNQTLEVDFA 156 (258)
T ss_pred HHHHHHHHHHHhhHHhhcceEeechh
Confidence 99999999999999999999998764
No 145
>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=80.22 E-value=4.9 Score=25.94 Aligned_cols=35 Identities=11% Similarity=0.235 Sum_probs=25.7
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
.|.+.++--.+.++..||+.+|+|+..+-.-+.+|
T Consensus 7 ~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 7 KILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 44555555689999999999999999988877664
No 146
>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=80.17 E-value=15 Score=25.45 Aligned_cols=50 Identities=14% Similarity=0.223 Sum_probs=38.9
Q ss_pred HhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEE
Q 019472 257 QFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 307 (340)
Q Consensus 257 q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~ 307 (340)
.++.... ++.+.+|+.+|++...+-..+..|...|-+...-+...+....
T Consensus 14 ~~l~~~~-~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~ 63 (78)
T cd00090 14 RLLLEGP-LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSL 63 (78)
T ss_pred HHHHHCC-cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEe
Confidence 3333333 9999999999999999999999999999998866654344333
No 147
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=79.54 E-value=3.7 Score=37.95 Aligned_cols=47 Identities=21% Similarity=0.203 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 249 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 249 ~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
.-|...+.+++.....|+.+.+|+.||+|...+-+.|..|=..|.+.
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 45778889999988899999999999999999999999998888774
No 148
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=79.50 E-value=3.7 Score=37.51 Aligned_cols=45 Identities=18% Similarity=0.279 Sum_probs=41.6
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
-|.+.+..++.-...+++..+|+.||+|++.+-+.|..|-..|.+
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 377778889999999999999999999999999999999999987
No 149
>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=79.47 E-value=13 Score=37.14 Aligned_cols=106 Identities=9% Similarity=0.029 Sum_probs=70.7
Q ss_pred CCCCcchhHhhhhhhcchHHHHhhccccchhHHHHhhCHHHH-------------------HHHHHHHHHHHHHhCCHHH
Q 019472 10 RSPPPPSFGHLCLLLSYLVVISFVMPLSRIADAEENLGESEV-------------------REAHLAKSLFYIQIGDKEK 70 (340)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~n~~~~~i-------------------r~~~~~La~~~~~~Gd~~~ 70 (340)
+..|++-|-.++......|.....=.-..++..+.+++++.. .-+..+||....+.|...+
T Consensus 198 ~pdCAdAYILLAEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~E 277 (539)
T PF04184_consen 198 NPDCADAYILLAEEEASTIVEAEELLRQAVKAGEASLGKSQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLRE 277 (539)
T ss_pred hhhhhHHHhhcccccccCHHHHHHHHHHHHHHHHHhhchhhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHH
Confidence 346778888888765554442221111123444444443321 1236789999999999999
Q ss_pred HHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 71 ALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 71 A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
|.+.+.++.+... ....+.+.-++++..+..+.+..+...+.|=.
T Consensus 278 AIk~~rdLlke~p-~~~~l~IrenLie~LLelq~Yad~q~lL~kYd 322 (539)
T PF04184_consen 278 AIKMFRDLLKEFP-NLDNLNIRENLIEALLELQAYADVQALLAKYD 322 (539)
T ss_pred HHHHHHHHHhhCC-ccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence 9999999886553 22345677788999999999999988777744
No 150
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=79.38 E-value=5.9 Score=32.66 Aligned_cols=60 Identities=17% Similarity=0.285 Sum_probs=47.8
Q ss_pred HHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 249 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 249 ~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+|..++.....|=..++.+.||+.+|+|...+++-+.+|-..|-+..+=-..-|.....
T Consensus 10 Al~~~i~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~ 69 (141)
T PRK11014 10 GLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGK 69 (141)
T ss_pred HHHHHHHHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecC
Confidence 455555566566767899999999999999999999999999998877666666665554
No 151
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=78.91 E-value=3.2 Score=37.92 Aligned_cols=40 Identities=20% Similarity=0.159 Sum_probs=36.7
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
=|...|.+++..+..|+.+.+|+.||+|++.+-+.|..|=
T Consensus 7 eR~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le 46 (252)
T PRK10681 7 ERIGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHS 46 (252)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhh
Confidence 4788899999999999999999999999999999999744
No 152
>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=78.78 E-value=5.9 Score=26.53 Aligned_cols=46 Identities=11% Similarity=0.275 Sum_probs=30.9
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.++..+-..-|.-....| +...+...+|+.+|+|+..+...+.+..
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 344444455555556677 7888999999999999999999987754
No 153
>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=78.70 E-value=18 Score=35.29 Aligned_cols=93 Identities=9% Similarity=0.059 Sum_probs=56.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
..-.|..+.+.|+++.|.+.+.+..+.. ++..+..-+...++.+..|+++.+...+.+.... . |+.. .....
T Consensus 121 ~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~---~--P~~~-~~l~l 192 (409)
T TIGR00540 121 LIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARHGVDKLLEM---A--PRHK-EVLKL 192 (409)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---C--CCCH-HHHHH
Confidence 4455777777777777777777765433 2233333444567777778877777665554442 1 2211 23345
Q ss_pred HHHhccccCCHHHHHHHHHhc
Q 019472 135 EGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.|..++..++|..|...+-..
T Consensus 193 l~~~~~~~~d~~~a~~~l~~l 213 (409)
T TIGR00540 193 AEEAYIRSGAWQALDDIIDNM 213 (409)
T ss_pred HHHHHHHHhhHHHHHHHHHHH
Confidence 666778888887776665443
No 154
>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=78.37 E-value=0.94 Score=35.78 Aligned_cols=51 Identities=20% Similarity=0.265 Sum_probs=38.0
Q ss_pred HHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEe
Q 019472 249 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 249 ~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID 299 (340)
..+..++.+++.|=.+=.|++++-.--=-...||..|.+|...|+|.++||
T Consensus 32 e~~~~iL~qiLt~eAreRL~rI~lvkPe~A~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 32 EQRRAILRQILTPEARERLNRIKLVKPEKARQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HCCHHHHHTCB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHcCHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 345566788888877777777776555556689999999999999999987
No 155
>PRK12370 invasion protein regulator; Provisional
Probab=78.30 E-value=22 Score=36.24 Aligned_cols=96 Identities=13% Similarity=-0.023 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-.++..+|..+...|++++|.+.|.+..+...+.. +....+..+....|+++.+...+.++-.+ +|.... .
T Consensus 338 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~---~a~~~lg~~l~~~G~~~eAi~~~~~Al~l-----~P~~~~-~ 408 (553)
T PRK12370 338 PQALGLLGLINTIHSEYIVGSLLFKQANLLSPISA---DIKYYYGWNLFMAGQLEEALQTINECLKL-----DPTRAA-A 408 (553)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCH---HHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----CCCChh-h
Confidence 45567778888888888888888888776553222 23344555666778888888777776553 111100 0
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
....+..+...++|.+|...|-++.
T Consensus 409 ~~~~~~~~~~~g~~eeA~~~~~~~l 433 (553)
T PRK12370 409 GITKLWITYYHTGIDDAIRLGDELR 433 (553)
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHH
Confidence 1112222334566766666655543
No 156
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=78.15 E-value=34 Score=27.80 Aligned_cols=82 Identities=18% Similarity=0.310 Sum_probs=64.0
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce-EEe-cCCCEEEEcCCCcchHHHHHHHHhhHHHHHHHH
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC-KID-KVAGVLETNRPDAKNALYQATIKQGDFLLNRIQ 332 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a-kID-~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~ri~ 332 (340)
+..++++-.-.+.+.+|+.++.+...+.+-|-+|+..|-+.= +.- ..-|.-+.+.+-+.+.+.+.+.+.-+....++.
T Consensus 33 ~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~~ 112 (126)
T COG3355 33 YKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKMK 112 (126)
T ss_pred HHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHHH
Confidence 445555567789999999999999999999999999998843 332 555678888777788888888887777777776
Q ss_pred Hhhh
Q 019472 333 KLSR 336 (340)
Q Consensus 333 ~l~~ 336 (340)
++..
T Consensus 113 ~~i~ 116 (126)
T COG3355 113 QLIE 116 (126)
T ss_pred HHHH
Confidence 6543
No 157
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=78.09 E-value=13 Score=30.62 Aligned_cols=64 Identities=13% Similarity=0.048 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
..++..+|..+...|++++|...|.+....... -.+..+++-.+....|++..+...+.++-..
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 556889999999999999999999998865432 2355666777777889999999988887653
No 158
>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=78.00 E-value=13 Score=27.46 Aligned_cols=48 Identities=19% Similarity=0.357 Sum_probs=36.7
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcc
Q 019472 265 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAK 313 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r 313 (340)
++.+.||+.+|+|+..+++.+.+|...|-+...= ..+|-....++...
T Consensus 26 ~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~-G~~GGy~L~~~~~~ 73 (83)
T PF02082_consen 26 VSSKEIAERLGISPSYLRKILQKLKKAGLIESSR-GRGGGYRLARPPEE 73 (83)
T ss_dssp BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEET-STTSEEEESS-CCG
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecC-CCCCceeecCCHHH
Confidence 9999999999999999999999999999886543 33455555554433
No 159
>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=77.93 E-value=4.8 Score=22.01 Aligned_cols=27 Identities=26% Similarity=0.335 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTES 80 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~ 80 (340)
+...+|..|...|++++|...+.+..+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 467889999999999999999987654
No 160
>PHA02943 hypothetical protein; Provisional
Probab=77.59 E-value=32 Score=28.93 Aligned_cols=65 Identities=11% Similarity=0.043 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCC
Q 019472 242 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 242 h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
+.+.+.+.+.. +..|+ -.-+-+.+++|+.+|+|..+++..|--|=.+|.+.- +-...-.+-.-.+
T Consensus 5 ~sd~v~~R~~e--ILE~L-k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~ 69 (165)
T PHA02943 5 MSDTVHTRMIK--TLRLL-ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDE 69 (165)
T ss_pred hhHHHHHHHHH--HHHHH-hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEECh
Confidence 44555555544 77787 678889999999999999999999999999999864 3344445554444
No 161
>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=77.27 E-value=4.8 Score=28.24 Aligned_cols=37 Identities=24% Similarity=0.340 Sum_probs=31.1
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHH
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
|.+|+.-|.+.=-.+.+..||+.+|++...|-.|=.+
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 6677888877777899999999999999998877544
No 162
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=77.16 E-value=69 Score=32.35 Aligned_cols=92 Identities=13% Similarity=0.127 Sum_probs=65.3
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 136 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~g 136 (340)
..|+.-++.|||+.|..+|++......+ .|++ +-+-...+...+++..+.+.-.|...+ .++|. +=..-.|
T Consensus 7 ~kgnaa~s~~d~~~ai~~~t~ai~l~p~-nhvl--ySnrsaa~a~~~~~~~al~da~k~~~l---~p~w~---kgy~r~G 77 (539)
T KOG0548|consen 7 EKGNAAFSSGDFETAIRLFTEAIMLSPT-NHVL--YSNRSAAYASLGSYEKALKDATKTRRL---NPDWA---KGYSRKG 77 (539)
T ss_pred HHHHhhcccccHHHHHHHHHHHHccCCC-ccch--hcchHHHHHHHhhHHHHHHHHHHHHhc---CCchh---hHHHHhH
Confidence 4578889999999999999987765433 4443 245556667778888887766665553 45554 1223457
Q ss_pred HhccccCCHHHHHHHHHhccc
Q 019472 137 LYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 137 l~~l~~r~y~~Aa~~F~e~~~ 157 (340)
-.++..++|.+|...|-+-++
T Consensus 78 aa~~~lg~~~eA~~ay~~GL~ 98 (539)
T KOG0548|consen 78 AALFGLGDYEEAILAYSEGLE 98 (539)
T ss_pred HHHHhcccHHHHHHHHHHHhh
Confidence 788899999999999877654
No 163
>PRK09954 putative kinase; Provisional
Probab=77.12 E-value=7.7 Score=37.17 Aligned_cols=53 Identities=6% Similarity=0.139 Sum_probs=44.3
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc---eEEecCCCEEEE
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDKVAGVLET 307 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~---akID~~~g~l~~ 307 (340)
+.+++.-..+++.+.||+.+|++...+.+.|.+|..+|.+. ..+|+..+++.+
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 45566656789999999999999999999999999999885 378888777644
No 164
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=76.86 E-value=1.1e+02 Score=32.67 Aligned_cols=99 Identities=6% Similarity=-0.153 Sum_probs=46.9
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccc-hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh-c-------CCChh-h
Q 019472 58 KSLFYIQIGDKEKALEQLKVTESKTVAV-GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE-E-------GGDWE-R 127 (340)
Q Consensus 58 La~~~~~~Gd~~~A~~~l~~~~~~~~~~-~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~-~-------~~~~~-~ 127 (340)
+|..|+..|++++|.+.|.++.+.-... ....+....+....+..+++..+...+.++...-- . ...|+ .
T Consensus 278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~ 357 (765)
T PRK10049 278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDD 357 (765)
T ss_pred HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCch
Confidence 5666666666666666666654321111 00122233333344555666666666655544210 0 00111 1
Q ss_pred hhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 128 KNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 128 ~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
........|.++...+++.+|...|-++.
T Consensus 358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al 386 (765)
T PRK10049 358 WLQGQSLLSQVAKYSNDLPQAEMRARELA 386 (765)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 12233344555566677777776665553
No 165
>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=76.73 E-value=16 Score=28.89 Aligned_cols=64 Identities=11% Similarity=0.050 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
......+|..|+..|++.+|.+.+.+..+...+ ..+.....-.+....|++..+...+.++-..
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 456778999999999999999999988765422 2344555666777889999999888776664
No 166
>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=76.51 E-value=12 Score=35.17 Aligned_cols=64 Identities=8% Similarity=-0.136 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-cchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTV-AVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~-~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
.+...+|..|++.|++++|..++.+..+... .+......++.+.++.+..|+++.+...+.++.
T Consensus 149 ~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 149 WAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 4577899999999999999999998876543 233445667788899999999999999998873
No 167
>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=76.44 E-value=99 Score=31.99 Aligned_cols=102 Identities=15% Similarity=0.165 Sum_probs=76.9
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch-hHHHhHHHHHHHHHH--hcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG-QKMDLVFYTLQLGFF--YMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~-~~i~~~l~~i~~~i~--~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
..+..-|+.+|++.+... |.+.+.+..+++.+.+ .-.-.++..+++.+. .+|+..+..++.+....-...+||...
T Consensus 100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~ 178 (608)
T PF10345_consen 100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF 178 (608)
T ss_pred HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence 344566799999999888 9999999888875532 234555566666543 368999999999988877667899999
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHh
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLD 154 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e 154 (340)
.-+....|..++..+...++.+..-.
T Consensus 179 v~~~l~~~~l~l~~~~~~d~~~~l~~ 204 (608)
T PF10345_consen 179 VLASLSEALLHLRRGSPDDVLELLQR 204 (608)
T ss_pred HHHHHHHHHHHhcCCCchhHHHHHHH
Confidence 99999999999988866665544433
No 168
>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=76.06 E-value=15 Score=24.98 Aligned_cols=33 Identities=15% Similarity=0.059 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVA 84 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~ 84 (340)
|+..+-+|--+++.|+|.+|.++...+.+.-..
T Consensus 1 Rd~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~ 33 (53)
T PF14853_consen 1 RDCLYYLAIGHYKLGEYEKARRYCDALLEIEPD 33 (53)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS
T ss_pred ChhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence 556788899999999999999999888764433
No 169
>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=76.04 E-value=12 Score=25.92 Aligned_cols=50 Identities=18% Similarity=0.337 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 246 YMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 246 l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
|-+..|.++ .+++......+...+|+.+|++...+-..|..|...|-|..
T Consensus 7 L~~p~R~~I-l~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 7 LSDPTRLRI-LRLLASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HTSHHHHHH-HHHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred hCCHHHHHH-HHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 334445443 44446678899999999999999999999999999987754
No 170
>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=76.03 E-value=5.1 Score=29.85 Aligned_cols=34 Identities=21% Similarity=0.437 Sum_probs=30.2
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHH
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L 285 (340)
|...+.+++.- ..+++..+|+.+|+|.+.|-+.|
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 66778899999 99999999999999999987755
No 171
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=75.99 E-value=5.2 Score=25.74 Aligned_cols=32 Identities=25% Similarity=0.392 Sum_probs=29.5
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
.++...||+.+|++...+.+.+.+|...|-+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999885
No 172
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=75.54 E-value=39 Score=33.72 Aligned_cols=97 Identities=15% Similarity=0.095 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH--hcCCChhhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF--EEGGDWERKN 129 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l--~~~~~~~~~~ 129 (340)
.+....||+.|.+.+..++|.++|.+...-..+.+ +.++.+..++=..++...+..+..|--... ++..++. .-
T Consensus 432 sRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~---~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~-t~ 507 (559)
T KOG1155|consen 432 SRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEG---SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDE-TI 507 (559)
T ss_pred hHHHHHHHHHHHHhccHHHHHHHHHHHHhccccch---HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchH-HH
Confidence 55567889999999999999999998776543322 455666666666677777777777654432 2222332 11
Q ss_pred HhhHHHHHhccccCCHHHHHHHH
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLF 152 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F 152 (340)
+..+.-+.+....+||.+|..+-
T Consensus 508 ka~~fLA~~f~k~~~~~~As~Ya 530 (559)
T KOG1155|consen 508 KARLFLAEYFKKMKDFDEASYYA 530 (559)
T ss_pred HHHHHHHHHHHhhcchHHHHHHH
Confidence 11222333444455555554443
No 173
>PRK11189 lipoprotein NlpI; Provisional
Probab=75.21 E-value=40 Score=31.28 Aligned_cols=95 Identities=11% Similarity=-0.010 Sum_probs=64.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..++..+|..|...|++++|.+.+.+..+.-.+. .....+...+....|++..+...+.++-..- ..++. +.
T Consensus 98 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~---~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~-~~-- 169 (296)
T PRK11189 98 ADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTY---NYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPY-RA-- 169 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHH-HH--
Confidence 4568899999999999999999999988654322 2345566666677899999999888876531 11221 11
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
.+. ......+++.+|...|-...
T Consensus 170 -~~~-~l~~~~~~~~~A~~~l~~~~ 192 (296)
T PRK11189 170 -LWL-YLAESKLDPKQAKENLKQRY 192 (296)
T ss_pred -HHH-HHHHccCCHHHHHHHHHHHH
Confidence 111 12234668999998886654
No 174
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=75.12 E-value=22 Score=37.94 Aligned_cols=69 Identities=14% Similarity=0.037 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
-++...-++++++.|.+.|.|.+|++++..+...-.- +....++.+.++....+.++++...+.|+-..
T Consensus 410 ~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~--~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~ 478 (895)
T KOG2076|consen 410 VSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGY--QNAFVWYKLARCYMELGEYEEAIEFYEKVLIL 478 (895)
T ss_pred hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccc--cchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 3445566999999999999999999999998743221 23677888889999999999999999987653
No 175
>KOG4555 consensus TPR repeat-containing protein [Function unknown]
Probab=74.72 E-value=48 Score=27.51 Aligned_cols=94 Identities=20% Similarity=0.065 Sum_probs=65.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCCh-hhhhHhhH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDW-ERKNRLKV 133 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~-~~~~~l~~ 133 (340)
....|-...+.|+++.|++.+.+....|.. .-..+-+-.+..-+.|+.+.+...++||-++- ++. ....+-.+
T Consensus 46 LEl~~valaE~g~Ld~AlE~F~qal~l~P~---raSayNNRAQa~RLq~~~e~ALdDLn~AleLa---g~~trtacqa~v 119 (175)
T KOG4555|consen 46 LELKAIALAEAGDLDGALELFGQALCLAPE---RASAYNNRAQALRLQGDDEEALDDLNKALELA---GDQTRTACQAFV 119 (175)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHHHhccc---chHhhccHHHHHHHcCChHHHHHHHHHHHHhc---CccchHHHHHHH
Confidence 445577788999999999999999888743 33455566666667899999999999887753 332 22345556
Q ss_pred HHHHhccccCCHHHHHHHHHh
Q 019472 134 YEGLYCMSTRNFKKAASLFLD 154 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e 154 (340)
..|+.+--.++-..|...|-.
T Consensus 120 QRg~lyRl~g~dd~AR~DFe~ 140 (175)
T KOG4555|consen 120 QRGLLYRLLGNDDAARADFEA 140 (175)
T ss_pred HHHHHHHHhCchHHHHHhHHH
Confidence 777766656655555555543
No 176
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=74.36 E-value=33 Score=32.90 Aligned_cols=64 Identities=11% Similarity=0.089 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
..++..+|..|...|++++|+..+.++.+.... ....++.+-.++...|++..+...+.++-.+
T Consensus 36 ~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~---~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 36 AELYADRAQANIKLGNFTEAVADANKAIELDPS---LAKAYLRKGTACMKLEEYQTAKAALEKGASL 99 (356)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC---CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 346788999999999999999999998875532 2345666667778889999999999887764
No 177
>PF13518 HTH_28: Helix-turn-helix domain
Probab=74.21 E-value=9.9 Score=24.95 Aligned_cols=43 Identities=16% Similarity=0.378 Sum_probs=33.2
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
|.+++..+. ...++..+|+.||++...+..|+..+=..| +.|-
T Consensus 2 r~~iv~~~~---~g~s~~~~a~~~gis~~tv~~w~~~y~~~G-~~~l 44 (52)
T PF13518_consen 2 RLQIVELYL---EGESVREIAREFGISRSTVYRWIKRYREGG-IEGL 44 (52)
T ss_pred HHHHHHHHH---cCCCHHHHHHHHCCCHhHHHHHHHHHHhcC-HHHh
Confidence 345566664 345999999999999999999999987776 4443
No 178
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=74.09 E-value=34 Score=35.77 Aligned_cols=93 Identities=13% Similarity=0.021 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
+..+|..+.+.|++++|...+.++.+..... -+....+..+....|++..+...+.++-.. +|... .....
T Consensus 287 ~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~---~~a~~~La~~l~~~G~~~eA~~~l~~al~~-----~P~~~-~~~~~ 357 (656)
T PRK15174 287 VTLYADALIRTGQNEKAIPLLQQSLATHPDL---PYVRAMYARALRQVGQYTAASDEFVQLARE-----KGVTS-KWNRY 357 (656)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----Cccch-HHHHH
Confidence 4444555555555555555555444322111 122223334444455555555544433221 11111 12233
Q ss_pred HHHhccccCCHHHHHHHHHhcc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
.|..+...|++.+|...|-.+.
T Consensus 358 ~a~al~~~G~~deA~~~l~~al 379 (656)
T PRK15174 358 AAAALLQAGKTSEAESVFEHYI 379 (656)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 3555667788888887777654
No 179
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=74.03 E-value=7.2 Score=33.05 Aligned_cols=50 Identities=10% Similarity=0.059 Sum_probs=42.1
Q ss_pred HHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc---eEEecC
Q 019472 252 TVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDKV 301 (340)
Q Consensus 252 ~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~---akID~~ 301 (340)
.+.|...++--.+++...||+.+|+|...+-+-+.+|..+|-|. +.+|+.
T Consensus 16 D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~p~ 68 (164)
T PRK11169 16 DRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLNPH 68 (164)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEECHH
Confidence 34456677778999999999999999999999999999999885 466643
No 180
>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=73.90 E-value=10 Score=25.34 Aligned_cols=41 Identities=17% Similarity=0.281 Sum_probs=32.6
Q ss_pred HHHHhhhhhc-cccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 254 VYSQFLESYK-SVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 254 ~l~q~i~pYs-~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.+.+++.... .+++..||+.+|+|...+-+.|..|...|-+
T Consensus 7 ~iL~~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 7 RILEALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYV 48 (52)
T ss_dssp HHHHCHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCe
Confidence 3455555433 4899999999999999999999999998865
No 181
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=73.81 E-value=7.9 Score=32.38 Aligned_cols=48 Identities=21% Similarity=0.277 Sum_probs=40.2
Q ss_pred HHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc---eEEec
Q 019472 253 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH---CKIDK 300 (340)
Q Consensus 253 ~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~---akID~ 300 (340)
+.|...++--.+++...||+.+|+|+..+-+-+.+|..+|-|. +.+|+
T Consensus 12 ~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 12 RGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 3345555556899999999999999999999999999999995 46674
No 182
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=73.73 E-value=13 Score=25.03 Aligned_cols=44 Identities=11% Similarity=0.188 Sum_probs=35.8
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
-..+++..|++.+|++...+-+.|.+|...|-+.-.-+...+..
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~ 51 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYY 51 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEE
Confidence 46789999999999999999999999999999875544433333
No 183
>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=73.71 E-value=8.1 Score=26.72 Aligned_cols=33 Identities=24% Similarity=0.252 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVA 84 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~ 84 (340)
..+.+.+|..|.+.|++++|.+.+.++.....+
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 445678999999999999999999988766543
No 184
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=73.71 E-value=7.2 Score=26.84 Aligned_cols=30 Identities=20% Similarity=0.093 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESK 81 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~ 81 (340)
..+++.+|..++..|++++|.+.|.++.+.
T Consensus 31 ~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 31 PEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 667889999999999999999999988754
No 185
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=73.68 E-value=19 Score=38.75 Aligned_cols=100 Identities=12% Similarity=-0.012 Sum_probs=71.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-.+...||++|+-.|||+.+..+...+........-+.+.+..+-|.+-..||++.+..++-++...- ++ +-+
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 PVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD-----ND--NFV 342 (1018)
T ss_pred cHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC-----CC--Ccc
Confidence 34577899999999999999999888776665555566778888888888899988888887766532 11 111
Q ss_pred hHHHHH--hccccCCHHHHHHHHHhcccc
Q 019472 132 KVYEGL--YCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 132 ~~~~gl--~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
--+.|+ +++..+++..|..+|-.+..+
T Consensus 343 l~~~GlgQm~i~~~dle~s~~~fEkv~k~ 371 (1018)
T KOG2002|consen 343 LPLVGLGQMYIKRGDLEESKFCFEKVLKQ 371 (1018)
T ss_pred ccccchhHHHHHhchHHHHHHHHHHHHHh
Confidence 223333 566788888888777665544
No 186
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=73.60 E-value=34 Score=30.95 Aligned_cols=68 Identities=7% Similarity=-0.063 Sum_probs=54.5
Q ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 019472 47 GESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 114 (340)
Q Consensus 47 ~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~k 114 (340)
+++-+-+-.+..|++|++.|.|..|..-++.+.+........-+....+++.+...|....+.+....
T Consensus 170 l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~ 237 (243)
T PRK10866 170 LKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI 237 (243)
T ss_pred HHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence 33434444778999999999999999999999988877777788888888999888988877765443
No 187
>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=73.55 E-value=30 Score=31.30 Aligned_cols=56 Identities=20% Similarity=0.176 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccc---hhHHHhHHHHHHHHHHhcCHHHHHh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAV---GQKMDLVFYTLQLGFFYMDFDLISK 110 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~---~~~i~~~l~~i~~~i~~~~~~~~~~ 110 (340)
...+|+.|+..||+++|+++|..+...+... .-.-++.+.+.+++...||.+....
T Consensus 181 ~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~ 239 (247)
T PF11817_consen 181 SLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLT 239 (247)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence 7799999999999999999999885333211 1223566677777888887766544
No 188
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.43 E-value=43 Score=29.13 Aligned_cols=86 Identities=15% Similarity=0.287 Sum_probs=62.6
Q ss_pred HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhh--hhccccHHHHHHHhCC-ChHHHHH
Q 019472 207 LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLE--SYKSVTIEAMAKAFGV-TVEFIDV 283 (340)
Q Consensus 207 l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~--pYs~I~l~~mA~~~g~-~~~~vE~ 283 (340)
+.++-.-...|+|..|-+..+. ++-+-.|+.-|.+.+|. +...+- .|+.|+=.-+|+++|- +..++|.
T Consensus 101 ii~L~~~LEt~~Fq~FW~~~~~-------N~~mle~itGFedsvr~--yachvv~iTyQkI~k~lLaellG~~sDs~le~ 171 (217)
T KOG3252|consen 101 IIDLGDYLETCRFQQFWQEADE-------NRDMLEGITGFEDSVRK--YACHVVGITYQKIDKWLLAELLGGLSDSQLEV 171 (217)
T ss_pred HHhHHHHHhhchHHHHhhhhcc-------chHHhcCCCcHHHHHHH--HHHHheechHhhchHHHHHHhhCcccHHHHHH
Confidence 4555566678999999765544 45566777788888776 333322 5999999999999985 6668999
Q ss_pred HHHHHhhCCccceEEecCCCEEEEc
Q 019472 284 ELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 284 ~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
|+.+ .|=+-..+|.+.+.
T Consensus 172 ~~~~-------~GW~a~e~G~ifv~ 189 (217)
T KOG3252|consen 172 WMTK-------YGWIADESGQIFVA 189 (217)
T ss_pred HHHH-------ccceecCCceEEEe
Confidence 9887 77777888866554
No 189
>PRK04239 hypothetical protein; Provisional
Probab=73.41 E-value=3.7 Score=32.53 Aligned_cols=53 Identities=13% Similarity=0.209 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEe
Q 019472 247 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID 299 (340)
.+..+..++.+++.|=.+=.|++++-.=-=-...||..|.+|...|+|.++||
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 35566778899999876666666654222233489999999999999999887
No 190
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=73.15 E-value=50 Score=27.68 Aligned_cols=54 Identities=11% Similarity=-0.040 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLIS 109 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~ 109 (340)
.++..+|..|...|++++|.+.+.+..+..... ......+..+....++.....
T Consensus 73 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~~lg~~~~~~g~~~~a~ 126 (172)
T PRK02603 73 YILYNMGIIYASNGEHDKALEYYHQALELNPKQ---PSALNNIAVIYHKRGEKAEEA 126 (172)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc---HHHHHHHHHHHHHcCChHhHh
Confidence 468899999999999999999999887654221 233333444444444443333
No 191
>KOG3431 consensus Apoptosis-related protein/predicted DNA-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.13 E-value=4.2 Score=32.56 Aligned_cols=53 Identities=21% Similarity=0.259 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEe
Q 019472 247 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID 299 (340)
-+++|.-+|.|++.|-.+-.|+++|=.=-=...-+|..|.+|+.-|.+.+||+
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 66788888999999888888888875444445689999999999999999886
No 192
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=73.05 E-value=1.1e+02 Score=32.04 Aligned_cols=68 Identities=12% Similarity=0.071 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHh-hhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTES-KTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF 119 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~-~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l 119 (340)
......+|++|...|+++.|-.++++..+ ...+.++..+.+..+.++.+...+++.+.+.+.+|....
T Consensus 387 ~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP 455 (835)
T KOG2047|consen 387 GTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVP 455 (835)
T ss_pred hhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCC
Confidence 34467899999999999999999998764 345556777888899999999999999999888887654
No 193
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=73.00 E-value=32 Score=32.18 Aligned_cols=94 Identities=10% Similarity=0.022 Sum_probs=65.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
.-.=|+=+.+.++|++|+..|++..+...+.- -.+-+...++..+|.+..+.+...+|-.+ ||. -.+...-
T Consensus 84 LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nA---VyycNRAAAy~~Lg~~~~AVkDce~Al~i-----Dp~-yskay~R 154 (304)
T KOG0553|consen 84 LKNEGNKLMKNKDYQEAVDKYTEAIELDPTNA---VYYCNRAAAYSKLGEYEDAVKDCESALSI-----DPH-YSKAYGR 154 (304)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcc---hHHHHHHHHHHHhcchHHHHHHHHHHHhc-----ChH-HHHHHHH
Confidence 44558889999999999999999887663221 12334566677778887776665555442 222 2344556
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
-|+.+...++|.+|...|-.+++
T Consensus 155 LG~A~~~~gk~~~A~~aykKaLe 177 (304)
T KOG0553|consen 155 LGLAYLALGKYEEAIEAYKKALE 177 (304)
T ss_pred HHHHHHccCcHHHHHHHHHhhhc
Confidence 68899999999999998766643
No 194
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=72.96 E-value=23 Score=35.18 Aligned_cols=83 Identities=13% Similarity=0.092 Sum_probs=57.1
Q ss_pred ccccchhHHHHhhCHHHH------HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh---hccc-hhHHHhHHHHHHHHHHhc
Q 019472 34 MPLSRIADAEENLGESEV------REAHLAKSLFYIQIGDKEKALEQLKVTESK---TVAV-GQKMDLVFYTLQLGFFYM 103 (340)
Q Consensus 34 ~~~~~l~~~~~n~~~~~i------r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~---~~~~-~~~i~~~l~~i~~~i~~~ 103 (340)
+++.++.++.+-+. ..+ -.++.+||++|.+.+|+++|..+|.+..+. ++.. ++.+..++=+.+-.+-.+
T Consensus 443 ~kl~~~~eAiKCyk-rai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~ 521 (559)
T KOG1155|consen 443 EKLNRLEEAIKCYK-RAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMK 521 (559)
T ss_pred HHhccHHHHHHHHH-HHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhc
Confidence 56888888764322 112 356899999999999999999999987752 2222 334555554555556668
Q ss_pred CHHHHHhHHHHHHH
Q 019472 104 DFDLISKSIDKAKS 117 (340)
Q Consensus 104 ~~~~~~~~i~ka~~ 117 (340)
||+.+..+..++..
T Consensus 522 ~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 522 DFDEASYYATLVLK 535 (559)
T ss_pred chHHHHHHHHHHhc
Confidence 88888877766544
No 195
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=72.57 E-value=17 Score=37.35 Aligned_cols=114 Identities=12% Similarity=-0.028 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-+|.+-||..|.+.|+++.|.-.|+++.+-..... ++-.+.+.+. -..+..+.+...+++|-.+-. .+|- .
T Consensus 489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~ns-vi~~~~g~~~--~~~k~~d~AL~~~~~A~~ld~--kn~l--~-- 559 (638)
T KOG1126|consen 489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNS-VILCHIGRIQ--HQLKRKDKALQLYEKAIHLDP--KNPL--C-- 559 (638)
T ss_pred hHHHHhhhhheeccchhhHHHHHHHhhhcCCccch-hHHhhhhHHH--HHhhhhhHHHHHHHHHHhcCC--CCch--h--
Confidence 35788999999999999999999999887553322 2333333333 234555666666666554311 1111 1
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhh
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS 181 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s 181 (340)
+...|..+...++|.+|...|=+. +.+.|.+..+|.++..+.-
T Consensus 560 ~~~~~~il~~~~~~~eal~~LEeL-------k~~vP~es~v~~llgki~k 602 (638)
T KOG1126|consen 560 KYHRASILFSLGRYVEALQELEEL-------KELVPQESSVFALLGKIYK 602 (638)
T ss_pred HHHHHHHHHhhcchHHHHHHHHHH-------HHhCcchHHHHHHHHHHHH
Confidence 244566667778898888776443 4456667777777766653
No 196
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=72.44 E-value=12 Score=33.23 Aligned_cols=61 Identities=10% Similarity=0.015 Sum_probs=42.2
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHH--HHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVF--YTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l--~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
.=|+-++..|+|.+|..-|+...+.|.+...+....+ +-...-|-.+.|..+.....||-.
T Consensus 100 ~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie 162 (271)
T KOG4234|consen 100 KEGNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE 162 (271)
T ss_pred HHHHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh
Confidence 4488899999999999999999999966555443332 333334556677766655555443
No 197
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=72.39 E-value=80 Score=33.10 Aligned_cols=57 Identities=12% Similarity=-0.046 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSID 113 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ 113 (340)
+..+...|.+.|++++|.++|.++.+....++.. .+..++..+...|+++.+.....
T Consensus 293 ~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~--t~~~ll~a~~~~g~~~~a~~i~~ 349 (697)
T PLN03081 293 WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF--TFSIMIRIFSRLALLEHAKQAHA 349 (697)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhccchHHHHHHHH
Confidence 3455556666666666666666555433222221 23344445555555555544333
No 198
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=72.36 E-value=34 Score=31.92 Aligned_cols=91 Identities=10% Similarity=0.064 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCH---HHHHhHHHHHHHHHhcCCCh-hhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDF---DLISKSIDKAKSLFEEGGDW-ERK 128 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~---~~~~~~i~ka~~~l~~~~~~-~~~ 128 (340)
+...-||..|...|+++.|...|.+...... ...+...+..++-.+..+- ..+...+.++-. .|| +.+
T Consensus 157 egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g---~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~-----~D~~~ir 228 (287)
T COG4235 157 EGWDLLGRAYMALGRASDALLAYRNALRLAG---DNPEILLGLAEALYYQAGQQMTAKARALLRQALA-----LDPANIR 228 (287)
T ss_pred hhHHHHHHHHHHhcchhHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh-----cCCccHH
Confidence 3567799999999999999999998876542 3456777777776666432 333333333332 222 222
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHH
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFL 153 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~ 153 (340)
-..+-|...+.+++|..|+..+-
T Consensus 229 --al~lLA~~afe~g~~~~A~~~Wq 251 (287)
T COG4235 229 --ALSLLAFAAFEQGDYAEAAAAWQ 251 (287)
T ss_pred --HHHHHHHHHHHcccHHHHHHHHH
Confidence 23566778889999999875543
No 199
>PRK12370 invasion protein regulator; Provisional
Probab=72.35 E-value=1.2e+02 Score=30.97 Aligned_cols=94 Identities=12% Similarity=0.016 Sum_probs=64.1
Q ss_pred HHHHHHH--HHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 55 HLAKSLF--YIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 55 ~~~La~~--~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
+..++.. +...|++.+|.+.+.+..+.-.... +....+-.+....|++..+...+.+|-.. +|... ...
T Consensus 305 ~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~---~a~~~lg~~~~~~g~~~~A~~~~~~Al~l-----~P~~~-~a~ 375 (553)
T PRK12370 305 YLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNP---QALGLLGLINTIHSEYIVGSLLFKQANLL-----SPISA-DIK 375 (553)
T ss_pred HHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCH---HHHHHHHHHHHHccCHHHHHHHHHHHHHh-----CCCCH-HHH
Confidence 3444442 3366889999999999886543222 33444555667789999999999987664 22211 123
Q ss_pred HHHHHhccccCCHHHHHHHHHhccc
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
...|..+...|++.+|...|-.+..
T Consensus 376 ~~lg~~l~~~G~~~eAi~~~~~Al~ 400 (553)
T PRK12370 376 YYYGWNLFMAGQLEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 5567888899999999999888754
No 200
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=71.81 E-value=6.7 Score=27.23 Aligned_cols=34 Identities=21% Similarity=0.272 Sum_probs=30.9
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
..++.+.+|+.+|++...+.+.+.+|...|-|..
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 4589999999999999999999999999988754
No 201
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=71.25 E-value=3.9 Score=24.90 Aligned_cols=21 Identities=33% Similarity=0.422 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHhCCHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKAL 72 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~ 72 (340)
-.++..||.+|...|++++|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 457889999999999999985
No 202
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=71.22 E-value=41 Score=32.05 Aligned_cols=96 Identities=15% Similarity=0.016 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc--hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAV--GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~--~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
|...|..+|-...++++|.+.-.++......+ -.....|=.+..-+...+|.+.+...+.||-..- |. -.|.
T Consensus 143 AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-----~~-cvRA 216 (389)
T COG2956 143 ALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-----KK-CVRA 216 (389)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-----cc-ceeh
Confidence 34455555555555555555544433211100 1111233333333444455555555555544321 11 1233
Q ss_pred hHHHHHhccccCCHHHHHHHHHhc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.+.-|-..+..|+|..|...+-.+
T Consensus 217 si~lG~v~~~~g~y~~AV~~~e~v 240 (389)
T COG2956 217 SIILGRVELAKGDYQKAVEALERV 240 (389)
T ss_pred hhhhhHHHHhccchHHHHHHHHHH
Confidence 466788888888888887665444
No 203
>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=71.17 E-value=23 Score=24.55 Aligned_cols=49 Identities=14% Similarity=0.158 Sum_probs=36.8
Q ss_pred HHHhhh-hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC
Q 019472 255 YSQFLE-SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 303 (340)
Q Consensus 255 l~q~i~-pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g 303 (340)
++.++. ....+++..||+.+|++...+-+.|.+|+..|-+.=.=|..++
T Consensus 8 vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~ 57 (68)
T PF13463_consen 8 VLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDK 57 (68)
T ss_dssp HHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCT
T ss_pred HHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcC
Confidence 344455 7899999999999999999999999999999999655555444
No 204
>PRK04841 transcriptional regulator MalT; Provisional
Probab=70.79 E-value=89 Score=33.66 Aligned_cols=104 Identities=13% Similarity=-0.014 Sum_probs=71.3
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc---hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh--hh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAV---GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE--RK 128 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~---~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~--~~ 128 (340)
+...+|..+...|++.+|...+.+..+..... .........+..+.+..|++..+.....++....+..+.+. ..
T Consensus 493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~ 572 (903)
T PRK04841 493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH 572 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence 35668888999999999999998877654322 22233444556677888999999999999888765433221 12
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.......|..+...|++.+|...+-++..
T Consensus 573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~ 601 (903)
T PRK04841 573 EFLLRIRAQLLWEWARLDEAEQCARKGLE 601 (903)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence 22334556667778999998877776643
No 205
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=70.70 E-value=12 Score=27.75 Aligned_cols=46 Identities=15% Similarity=0.191 Sum_probs=38.0
Q ss_pred HHHHHHHhhhhh-ccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 251 RTVVYSQFLESY-KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 251 r~~~l~q~i~pY-s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
|...+.+++.-. ..++++.||+.+|+|...+-+.|..|...|-+.-
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 334456666555 5799999999999999999999999999998854
No 206
>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=70.66 E-value=1.4e+02 Score=30.99 Aligned_cols=102 Identities=16% Similarity=0.092 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHH-HhCCHHHHHHHHHHHHhhhccc---hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCC--Ch
Q 019472 52 REAHLAKSLFYI-QIGDKEKALEQLKVTESKTVAV---GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGG--DW 125 (340)
Q Consensus 52 r~~~~~La~~~~-~~Gd~~~A~~~l~~~~~~~~~~---~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~--~~ 125 (340)
...+++||.+++ +..+++.|-.++++.+..|... +.++.+-..++++....+... +..+++++-+..+..+ .|
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 ARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAW 137 (608)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhH
Confidence 345889999998 7789999999999988777442 334555555566655444444 8888888766665422 34
Q ss_pred hhhhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 126 ERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 126 ~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
...-++ ...-..+..+|+..|.+.+-...
T Consensus 138 ~~~frl--l~~~l~~~~~d~~~Al~~L~~~~ 166 (608)
T PF10345_consen 138 YYAFRL--LKIQLALQHKDYNAALENLQSIA 166 (608)
T ss_pred HHHHHH--HHHHHHHhcccHHHHHHHHHHHH
Confidence 433332 33333333389988888776553
No 207
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=70.65 E-value=16 Score=26.72 Aligned_cols=59 Identities=12% Similarity=0.177 Sum_probs=43.0
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHhhHHHHHHHHHhhhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQGDFLLNRIQKLSRV 337 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~ 337 (340)
....+..+|+...|++...+.+.|..|+..|-+ ....+....+ ++|..+++.++++.+.
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 578889999999999999999999999999998 3355666654 2377777777776654
No 208
>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=70.63 E-value=6.3 Score=32.55 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=32.0
Q ss_pred HHHhhhhhcc--ccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 255 YSQFLESYKS--VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 255 l~q~i~pYs~--I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
+.+||.-+.. .++..+++.+|++++. |.++|.+|+|.-.-++
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 4567775555 9999999999999876 5677888998654433
No 209
>PRK03837 transcriptional regulator NanR; Provisional
Probab=70.48 E-value=18 Score=32.34 Aligned_cols=64 Identities=9% Similarity=0.050 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+.+++...+.|=..+ +...+|+.||+|...|-+-|..|-.+|-+.- -+..|+.+..
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 8999999999999999999999999998765 3666776654
No 210
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=70.44 E-value=10 Score=33.59 Aligned_cols=64 Identities=9% Similarity=0.085 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..++-..+|+.||+|...|-.-|..|..+|-+.- -+..|+.+..
T Consensus 9 ~~~vy~~i~~~I~~g~l~pG~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~--~~~~G~~V~~ 72 (224)
T PRK11534 9 ALDGYRWLKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTV--VNQKGYRVAS 72 (224)
T ss_pred hHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEE--eCCCceEeCC
Confidence 467899999999999999999999999999999999999999999999998864 4556665543
No 211
>PRK04841 transcriptional regulator MalT; Provisional
Probab=70.38 E-value=50 Score=35.54 Aligned_cols=101 Identities=11% Similarity=-0.009 Sum_probs=68.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch---hH--HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG---QK--MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~---~~--i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
+...+|..++..|++++|...+.+..+.+...+ .. .-.......+....|++..+.....++-......+++ ..
T Consensus 533 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~-~~ 611 (903)
T PRK04841 533 SLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQ-QQ 611 (903)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCch-HH
Confidence 466789999999999999999998887653221 11 1122344556677899999999888887765543322 22
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.......|..+...+++..|...+-.+
T Consensus 612 ~~~~~~la~~~~~~G~~~~A~~~l~~a 638 (903)
T PRK04841 612 LQCLAMLAKISLARGDLDNARRYLNRL 638 (903)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 233344566778889998887776554
No 212
>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=70.32 E-value=18 Score=29.28 Aligned_cols=60 Identities=12% Similarity=0.057 Sum_probs=43.4
Q ss_pred ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHH
Q 019472 36 LSRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYT 95 (340)
Q Consensus 36 ~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~ 95 (340)
..++++....-..+........+|+-+...|++.+|+.++.+...-|..|.+.+.++-..
T Consensus 47 ~~~~~~~~d~~~~e~~Fl~qV~lGE~L~~~G~~~~aa~hf~nAl~V~~qP~~LL~i~q~t 106 (121)
T PF02064_consen 47 SEKLPDPNDPEEMERFFLQQVQLGEQLLAQGDYEEAAEHFYNALKVCPQPAELLQIYQKT 106 (121)
T ss_dssp --SSSHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTSSSHHHHHHHHHHH
T ss_pred cccccCcCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHhh
Confidence 344444433323455677788999999999999999999999999998888877765443
No 213
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=70.15 E-value=41 Score=35.22 Aligned_cols=95 Identities=9% Similarity=0.011 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHhCCHHH----HHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 53 EAHLAKSLFYIQIGDKEK----ALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~----A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
.++..||..|...|++++ |...+.++.+...+ -......+..+....|++..+...+.++-.. +|+.
T Consensus 247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~---~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l-----~P~~- 317 (656)
T PRK15174 247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD---NVRIVTLYADALIRTGQNEKAIPLLQQSLAT-----HPDL- 317 (656)
T ss_pred HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCC-
Confidence 345678888888888886 67888777765422 2355566677778889999998888876653 2221
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
......-|..+...++|.+|...|-.+.
T Consensus 318 ~~a~~~La~~l~~~G~~~eA~~~l~~al 345 (656)
T PRK15174 318 PYVRAMYARALRQVGQYTAASDEFVQLA 345 (656)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 1233445777788999999988887664
No 214
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=69.97 E-value=29 Score=27.35 Aligned_cols=46 Identities=13% Similarity=0.022 Sum_probs=40.0
Q ss_pred hhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCE
Q 019472 259 LESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGV 304 (340)
Q Consensus 259 i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~ 304 (340)
+.-...++.+.||+.+|++...+-..+.+|...|-|...-|..++-
T Consensus 37 l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R 82 (118)
T TIGR02337 37 LAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQR 82 (118)
T ss_pred HHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCC
Confidence 3335679999999999999999999999999999999888777763
No 215
>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=69.15 E-value=11 Score=22.86 Aligned_cols=30 Identities=23% Similarity=0.336 Sum_probs=24.1
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 265 VTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
++-+.||+.+|++.+.+-+.+.++-.+|-|
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 466789999999999999999999888754
No 216
>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=68.61 E-value=1.2e+02 Score=29.51 Aligned_cols=100 Identities=10% Similarity=0.112 Sum_probs=66.8
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-----------------
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL----------------- 118 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~----------------- 118 (340)
...+.++.+.|+++.|.+.++++.+.. |++. +.......+++..|||..+...+++....
T Consensus 157 ~~~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~-~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~ 233 (409)
T TIGR00540 157 IARTRILLAQNELHAARHGVDKLLEMA--PRHK-EVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEI 233 (409)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 335999999999999999999988765 3333 45556777888899999888777776632
Q ss_pred --HhcC--------------CChhh---hhHhhHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 119 --FEEG--------------GDWER---KNRLKVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 119 --l~~~--------------~~~~~---~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
+..+ ..|+. ...+..+.|..++..+++..|....-+....
T Consensus 234 ~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~ 292 (409)
T TIGR00540 234 GLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK 292 (409)
T ss_pred HHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence 0000 01111 2355566666677777777777776666543
No 217
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.59 E-value=43 Score=32.38 Aligned_cols=68 Identities=21% Similarity=0.207 Sum_probs=44.3
Q ss_pred HhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 019472 44 ENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 114 (340)
Q Consensus 44 ~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~k 114 (340)
.|+.+|+=-....-+|.-|+..|||++|++.|+-+.+.-+.++ .+. +++.=+.++.|.+.+++....|
T Consensus 49 ~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~-el~--vnLAcc~FyLg~Y~eA~~~~~k 116 (557)
T KOG3785|consen 49 LNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPA-ELG--VNLACCKFYLGQYIEAKSIAEK 116 (557)
T ss_pred hccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCc-ccc--hhHHHHHHHHHHHHHHHHHHhh
Confidence 4555555445567789999999999999999998876433332 233 4444455666777666544444
No 218
>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=68.55 E-value=8.4 Score=28.17 Aligned_cols=33 Identities=24% Similarity=0.218 Sum_probs=29.5
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
+...+.+.||+.+|+|+..+...+..+...|.+
T Consensus 30 ~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 30 EAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 688999999999999999999999987777655
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=68.48 E-value=20 Score=31.32 Aligned_cols=64 Identities=17% Similarity=0.181 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+.+++..-+.|=..++-..+|+.||+|...|-.-|..|-.+|-+. +-+..|+.+..
T Consensus 13 ~~~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~--~~~~~G~~V~~ 76 (212)
T TIGR03338 13 TTLVQDEIERAILSGELPPGAKLNESDIAARLGVSRGPVREAFRALEEAGLVR--NEKNRGVFVRE 76 (212)
T ss_pred HHHHHHHHHHHHHcCCCCCCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEE--EecCCCeEEec
Confidence 35788999999999999999999999999999999999999999999999885 34566776655
No 220
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=68.47 E-value=8.1 Score=27.72 Aligned_cols=43 Identities=26% Similarity=0.340 Sum_probs=36.1
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCC
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
.++.+.||..+|++...+.+.|.+|..+|-|. ...|.+.+.++
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~----~~~~~i~I~d~ 70 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRILKRLKDEGIIE----VKRGKIIILDP 70 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE----EETTEEEESSH
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EcCCEEEECCH
Confidence 47899999999999999999999999998765 56667777643
No 221
>PLN03218 maturation of RBCL 1; Provisional
Probab=68.45 E-value=2e+02 Score=32.10 Aligned_cols=94 Identities=14% Similarity=-0.001 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
+..+...|.+.|++++|.++|.++.+....++ ...+-.++..+...|+++.+...+.+.... ..+..|+. ..+
T Consensus 510 ynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD--~vTYnsLI~a~~k~G~~deA~~lf~eM~~~-~~gi~PD~----vTy 582 (1060)
T PLN03218 510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPD--RVVFNALISACGQSGAVDRAFDVLAEMKAE-THPIDPDH----ITV 582 (1060)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-cCCCCCcH----HHH
Confidence 33445555555555555555555544332222 122334444444555555555544443321 01122221 122
Q ss_pred HHH--hccccCCHHHHHHHHHhc
Q 019472 135 EGL--YCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 135 ~gl--~~l~~r~y~~Aa~~F~e~ 155 (340)
..+ .+...+++.+|...|-+.
T Consensus 583 naLI~ay~k~G~ldeA~elf~~M 605 (1060)
T PLN03218 583 GALMKACANAGQVDRAKEVYQMI 605 (1060)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
Confidence 222 233456666666666554
No 222
>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=67.58 E-value=10 Score=24.21 Aligned_cols=31 Identities=29% Similarity=0.419 Sum_probs=24.7
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEe
Q 019472 265 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID 299 (340)
++++.+|+.||++...+ -+++.+|.+.+...
T Consensus 2 lt~~e~a~~lgis~~ti----~~~~~~g~i~~~~~ 32 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTV----YRLIHEGELPAYRV 32 (49)
T ss_pred CCHHHHHHHHCCCHHHH----HHHHHcCCCCeEEe
Confidence 47899999999998874 55568899988544
No 223
>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=67.17 E-value=16 Score=25.95 Aligned_cols=31 Identities=19% Similarity=0.359 Sum_probs=26.5
Q ss_pred ccHHHHHHHhCCC-hHHHHHHHHHHhhCCccc
Q 019472 265 VTIEAMAKAFGVT-VEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 265 I~l~~mA~~~g~~-~~~vE~~L~~lI~~g~l~ 295 (340)
-++..||+.||++ ...+.+.|..|...|-|.
T Consensus 26 Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 26 PTVREIAEALGLKSTSTVQRHLKALERKGYIR 57 (65)
T ss_dssp --HHHHHHHHTSSSHHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHhCCCChHHHHHHHHHHHHCcCcc
Confidence 5999999999996 999999999999988763
No 224
>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=67.14 E-value=19 Score=23.60 Aligned_cols=29 Identities=21% Similarity=0.450 Sum_probs=24.3
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
|...+++.+|+.+|+|...|-....+.+.
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 78889999999999999998888776653
No 225
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=67.13 E-value=11 Score=26.36 Aligned_cols=34 Identities=26% Similarity=0.269 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV 85 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~ 85 (340)
-..+..+|..|++.|++++|.+.++++.+.+.+.
T Consensus 29 ~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~ 62 (73)
T PF13371_consen 29 PELWLQRARCLFQLGRYEEALEDLERALELSPDD 62 (73)
T ss_pred chhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence 3457789999999999999999999999777543
No 226
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=67.08 E-value=12 Score=30.39 Aligned_cols=41 Identities=17% Similarity=0.288 Sum_probs=36.7
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
|..+++-.-++++..|+..+|++...+...+.+|+..|.|.
T Consensus 17 IvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 17 IVELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeE
Confidence 34556679999999999999999999999999999999883
No 227
>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=67.03 E-value=19 Score=32.09 Aligned_cols=64 Identities=14% Similarity=0.135 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+..++.|+..++..-+.|=..+ +-..||+.||+|...|-.-|..|-.+|-+. +-+..|+.+..
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 35678889999999999999999 899999999999999999999999999886 44566776654
No 228
>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=66.85 E-value=1.1e+02 Score=28.23 Aligned_cols=101 Identities=10% Similarity=0.071 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHhhhccc-----------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 50 EVREAHLAKSLFYIQIG-DKEKALEQLKVTESKTVAV-----------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 50 ~ir~~~~~La~~~~~~G-d~~~A~~~l~~~~~~~~~~-----------~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
++-+..+..|.-.++.+ ++++|.+.+++..+.|..+ ..++.....+++..+..++.+...+..+-.+.
T Consensus 33 ~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~ 112 (278)
T PF08631_consen 33 ELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRL 112 (278)
T ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence 34555788888888999 9999999999999886331 22445555666667777766554443332222
Q ss_pred HHhcCCC-hhhh-hHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 118 LFEEGGD-WERK-NRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 118 ~l~~~~~-~~~~-~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
+-...++ |... -+++++.+ ..+...+.+.+...
T Consensus 113 l~~e~~~~~~~~~L~l~il~~-----~~~~~~~~~~L~~m 147 (278)
T PF08631_consen 113 LESEYGNKPEVFLLKLEILLK-----SFDEEEYEEILMRM 147 (278)
T ss_pred HHHhCCCCcHHHHHHHHHHhc-----cCChhHHHHHHHHH
Confidence 2222232 4433 55666555 44444444444443
No 229
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=66.74 E-value=18 Score=36.69 Aligned_cols=63 Identities=11% Similarity=-0.021 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
-....||..|.+.+.+.+|+..+++....++.. .+.+-.+--++...||.+.+..+..||-.+
T Consensus 456 p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~---~~~~asig~iy~llgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 456 PTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKD---ASTHASIGYIYHLLGNLDKAIDHFHKALAL 518 (611)
T ss_pred HHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCc---hhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 337789999999999999999999988777432 344455556777889999999999887663
No 230
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=66.70 E-value=24 Score=31.90 Aligned_cols=64 Identities=13% Similarity=0.178 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..+ +-..||+.||+|...|-.-|..|-.+|-+. +.+..|+.+..
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 56889999999999999999999 699999999999999999999999999886 44556776654
No 231
>PF13730 HTH_36: Helix-turn-helix domain
Probab=66.07 E-value=11 Score=25.34 Aligned_cols=29 Identities=21% Similarity=0.382 Sum_probs=26.5
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 266 TIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
|.++||+.+|++...|.+.+.+|...|-|
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 89999999999999999999999988743
No 232
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=66.01 E-value=7.8 Score=25.43 Aligned_cols=39 Identities=21% Similarity=0.321 Sum_probs=22.6
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCC
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAG 292 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g 292 (340)
|.+++.-+ ..-.+...+|+.||+|...+-+|+.+.-..|
T Consensus 7 R~~ii~l~---~~G~s~~~ia~~lgvs~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 7 RAQIIRLL---REGWSIREIAKRLGVSRSTVYRWIKRYREEG 45 (50)
T ss_dssp ---HHHHH---HHT--HHHHHHHHTS-HHHHHHHHT------
T ss_pred HHHHHHHH---HCCCCHHHHHHHHCcCHHHHHHHHHHccccc
Confidence 44555555 3378899999999999999999998876555
No 233
>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=65.99 E-value=49 Score=33.11 Aligned_cols=94 Identities=15% Similarity=0.091 Sum_probs=45.2
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhH-HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQK-MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYE 135 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~-i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~ 135 (340)
--|+++...|+.++|.+.+++..+......+. .-.+|.+.=.++..+||..+..+..+... ...|. ++-+.-..
T Consensus 272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~----~s~WS-ka~Y~Y~~ 346 (468)
T PF10300_consen 272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLK----ESKWS-KAFYAYLA 346 (468)
T ss_pred HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHh----ccccH-HHHHHHHH
Confidence 34666666666666666666544211111111 12233444445556666666555554433 23443 44444444
Q ss_pred HHhccccCCH-------HHHHHHHHhc
Q 019472 136 GLYCMSTRNF-------KKAASLFLDS 155 (340)
Q Consensus 136 gl~~l~~r~y-------~~Aa~~F~e~ 155 (340)
|..+...++- ++|..+|-++
T Consensus 347 a~c~~~l~~~~~~~~~~~~a~~l~~~v 373 (468)
T PF10300_consen 347 AACLLMLGREEEAKEHKKEAEELFRKV 373 (468)
T ss_pred HHHHHhhccchhhhhhHHHHHHHHHHH
Confidence 5544444444 4455555444
No 234
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=65.63 E-value=50 Score=34.88 Aligned_cols=59 Identities=5% Similarity=-0.092 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSID 113 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ 113 (340)
-.+++.||++..+.|.+++|...+..+.+.+... .........+-...+.++.+...+.
T Consensus 86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~---~~a~~~~a~~L~~~~~~eeA~~~~~ 144 (694)
T PRK15179 86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDS---SEAFILMLRGVKRQQGIEAGRAEIE 144 (694)
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc---HHHHHHHHHHHHHhccHHHHHHHHH
Confidence 4568889999999999999999999888776322 2223333333344444444443333
No 235
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=65.58 E-value=14 Score=31.37 Aligned_cols=48 Identities=15% Similarity=0.261 Sum_probs=38.5
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.-..++++.||+.+|+|...+++.+..|-..|-+...=....|..-..
T Consensus 22 ~~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar 69 (164)
T PRK10857 22 EAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGK 69 (164)
T ss_pred CCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccC
Confidence 345799999999999999999999999999998886444444544333
No 236
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.32 E-value=22 Score=36.42 Aligned_cols=62 Identities=19% Similarity=0.253 Sum_probs=51.6
Q ss_pred hhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 240 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 240 ~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
..+++.+-++|+++.-. -..|+++.+|+.+++|-+.+...|.+=....-+.|++|. |++.+.
T Consensus 114 e~Y~d~iaeEinekLqE-----~gqvtiaeLakq~dl~sellqs~l~ek~lg~iikgr~dg--gviyT~ 175 (776)
T KOG2235|consen 114 EEYVDRIAEEINEKLQE-----QGQVTIAELAKQWDLPSELLQSLLIEKLLGSIIKGRVDG--GVIYTS 175 (776)
T ss_pred HHHHHHHHHHHHHHHHH-----hcchHHHHHHHhcCCcHHHHHHHHHHHhhccceeeeecC--CEEeeH
Confidence 45667777778775433 479999999999999999999999998888888999998 888764
No 237
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=65.12 E-value=15 Score=32.75 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=56.8
Q ss_pred hHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 242 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 242 h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
-...+++.+|..++..-+.|=+.++-..||+.||+|..-|-.-|.+|-.+|-+.-. +..|.++..
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 35678899999999999999999999999999999999999999999999988654 666666654
No 238
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=64.82 E-value=1.4e+02 Score=28.91 Aligned_cols=112 Identities=12% Similarity=0.126 Sum_probs=77.4
Q ss_pred cchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 37 SRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 37 ~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
..++.++..-...+ ...++.||+-++-.|++..|+..|-...+--. .....++.-..+++..|.-..+...++++-
T Consensus 24 ~~~e~a~~~~~~ad-vekhlElGk~lla~~Q~sDALt~yHaAve~dp---~~Y~aifrRaT~yLAmGksk~al~Dl~rVl 99 (504)
T KOG0624|consen 24 LFLEGAESTASPAD-VEKHLELGKELLARGQLSDALTHYHAAVEGDP---NNYQAIFRRATVYLAMGKSKAALQDLSRVL 99 (504)
T ss_pred HHHHHHHhcCCHHH-HHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCc---hhHHHHHHHHHHHhhhcCCccchhhHHHHH
Confidence 33455554433333 44588999999999999999999977665321 223455666677888888888877777765
Q ss_pred HHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhcccc
Q 019472 117 SLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 117 ~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
++ .|+-. --+...|..++-+|.+..|...|-.++..
T Consensus 100 el-----KpDF~-~ARiQRg~vllK~Gele~A~~DF~~vl~~ 135 (504)
T KOG0624|consen 100 EL-----KPDFM-AARIQRGVVLLKQGELEQAEADFDQVLQH 135 (504)
T ss_pred hc-----CccHH-HHHHHhchhhhhcccHHHHHHHHHHHHhc
Confidence 53 22211 13466788999999999999999877654
No 239
>COG2118 DNA-binding protein [General function prediction only]
Probab=64.80 E-value=7.8 Score=30.70 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 247 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
.+.-+..++.+++.|=.+=.|.+++=.=-==.+.+|..|.+|...|+|..+||-
T Consensus 38 ~eaqkqaiLrqiLtpeAreRL~~irLvRPe~AeavE~qLi~LaqtGri~~~I~e 91 (116)
T COG2118 38 EEAQKQAILRQILTPEARERLARVRLVRPELAEAVENQLIQLAQTGRITHKIDE 91 (116)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHcCCCCCCCCH
Confidence 344566677888888555555444321111235789999999999999999983
No 240
>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.78 E-value=60 Score=28.25 Aligned_cols=99 Identities=19% Similarity=0.266 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHh---cCHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFY---MDFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~---~~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
..+.++-|.+..+.||-.+|...+.++-.-...|.---| +.-+|..+.. |.|+.+. .+++.+- ..++ -.+
T Consensus 94 vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd--~ARlraa~lLvD~gsy~dV~---srvepLa-~d~n-~mR 166 (221)
T COG4649 94 VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRD--LARLRAAYLLVDNGSYDDVS---SRVEPLA-GDGN-PMR 166 (221)
T ss_pred HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhH--HHHHHHHHHHhccccHHHHH---HHhhhcc-CCCC-hhH
Confidence 456778899999999999999999988765544433223 3344444443 4455543 3333322 1222 234
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.--+..-|+.....++|..|.+.|-....
T Consensus 167 ~sArEALglAa~kagd~a~A~~~F~qia~ 195 (221)
T COG4649 167 HSAREALGLAAYKAGDFAKAKSWFVQIAN 195 (221)
T ss_pred HHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence 55668889999999999999999988743
No 241
>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=64.58 E-value=23 Score=24.62 Aligned_cols=35 Identities=20% Similarity=0.278 Sum_probs=30.8
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
.-..|+...||+.||+++..+-+.+.+|-..|-+.
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 46789999999999999999999999999998764
No 242
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=63.93 E-value=17 Score=30.00 Aligned_cols=46 Identities=13% Similarity=0.252 Sum_probs=38.6
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc---ceEEec
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL---HCKIDK 300 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l---~akID~ 300 (340)
+.+.++--.++++..+|+.+|+|+..+-+-+.+|..+|-| .+.+|.
T Consensus 13 IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 13 ILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred HHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 3444444677999999999999999999999999999977 557875
No 243
>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=63.65 E-value=20 Score=31.49 Aligned_cols=80 Identities=18% Similarity=0.314 Sum_probs=60.3
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHH
Q 019472 206 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 206 ~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L 285 (340)
.+.+++.++.+++|..+...+.+... +-.+.+.+.++++......++.|+.+-++-.+++.++-=.+.++.-.
T Consensus 26 ~~~e~l~~~~~~~~~~~~~~~~~i~~-------lE~~aD~i~~~i~~~L~~~fitP~dRedi~~L~~~lD~I~d~i~~~a 98 (214)
T PF01865_consen 26 LLAELLEAYLEGDYEDVEELLEEIKE-------LEHEADEIKREIREELYKSFITPFDREDILRLISSLDDIADYIEDAA 98 (214)
T ss_dssp CHHHHHHHHCTT-CHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH-SS-SS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 36778888888887776666665544 44568899999999999999999999999999999988888888877
Q ss_pred HHHhhCC
Q 019472 286 SRFIAAG 292 (340)
Q Consensus 286 ~~lI~~g 292 (340)
..+..-+
T Consensus 99 ~~l~~~~ 105 (214)
T PF01865_consen 99 KRLSLYK 105 (214)
T ss_dssp HHHHHHT
T ss_pred HHHHHhc
Confidence 7766543
No 244
>PHA00738 putative HTH transcription regulator
Probab=62.48 E-value=73 Score=25.14 Aligned_cols=72 Identities=4% Similarity=0.043 Sum_probs=49.9
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHH
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIK 322 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~ 322 (340)
.|.+++.. +......+...+++.|+++.+.+-+.|.-|=..|-|..+-+...-.....+..+.......-++
T Consensus 13 tRr~IL~l-L~~~e~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~~~~~l~~~~~~ 84 (108)
T PHA00738 13 LRRKILEL-IAENYILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENSKEIQILNSELE 84 (108)
T ss_pred HHHHHHHH-HHHcCCccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCccHHHHHhhHHH
Confidence 34444444 4434458888999999999999999999999999998877666555555554443333333343
No 245
>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=62.20 E-value=72 Score=31.33 Aligned_cols=111 Identities=9% Similarity=-0.029 Sum_probs=70.6
Q ss_pred hhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccch--hHHHhHHHHHHHHHHhcCHH--------HHHhHHHH
Q 019472 45 NLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVG--QKMDLVFYTLQLGFFYMDFD--------LISKSIDK 114 (340)
Q Consensus 45 n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~--~~i~~~l~~i~~~i~~~~~~--------~~~~~i~k 114 (340)
.+..++...-+.+||++.+=.|||+-|...|.-++......+ ..+.-+.+.+.++++.+... .+..+++.
T Consensus 201 ~Y~~~S~E~q~R~LAD~aFml~Dy~~A~s~Y~~~k~Df~~Dkaw~~~A~~~Em~alsl~~~~~~~~~k~~~~~~~~~le~ 280 (414)
T PF12739_consen 201 YYSADSPEAQMRRLADLAFMLRDYELAYSTYRLLKKDFKNDKAWKYLAGAQEMAALSLLMQGQSISAKIRKDEIEPYLEN 280 (414)
T ss_pred ccCCCChHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHhhchhHHHHHhHHHHHHHHHHhcCCCCccccccccHHHHHHH
Confidence 355667777799999999999999999999999986664322 23456667777887765532 45556666
Q ss_pred HHHHHhcCC----C-hhhhhHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 115 AKSLFEEGG----D-WERKNRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 115 a~~~l~~~~----~-~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
|-....+.+ . +....|.-+..+-++...+.|.+|+..++..
T Consensus 281 A~~~Y~~~~~~~~~~~~~a~R~~ll~~ell~~~~~~~~a~~~~~~~ 326 (414)
T PF12739_consen 281 AYYTYLKSALPRCSLPYYALRCALLLAELLKSRGGYWEAADQLIRW 326 (414)
T ss_pred HHHHHHhhhccccccccchHHHHHHHHHHHHhcCccHHHHHHHHHH
Confidence 655444321 1 1122233333444455666677777766654
No 246
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=62.09 E-value=79 Score=34.93 Aligned_cols=88 Identities=9% Similarity=0.006 Sum_probs=45.7
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHh
Q 019472 59 SLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLY 138 (340)
Q Consensus 59 a~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~ 138 (340)
+......|++++|...|.+..+...+ .+.+.++..+....|++..+...+.++-.. +|+.. .....-|..
T Consensus 583 a~~l~~~Gr~~eAl~~~~~AL~l~P~----~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-----~Pd~~-~a~~nLG~a 652 (987)
T PRK09782 583 HAQRYIPGQPELALNDLTRSLNIAPS----ANAYVARATIYRQRHNVPAAVSDLRAALEL-----EPNNS-NYQAALGYA 652 (987)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCCC----HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----CCCCH-HHHHHHHHH
Confidence 33333447777777777766644321 244455555666667777666666665443 11111 122333444
Q ss_pred ccccCCHHHHHHHHHhcc
Q 019472 139 CMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 139 ~l~~r~y~~Aa~~F~e~~ 156 (340)
+...+++.+|...|-.+.
T Consensus 653 L~~~G~~eeAi~~l~~AL 670 (987)
T PRK09782 653 LWDSGDIAQSREMLERAH 670 (987)
T ss_pred HHHCCCHHHHHHHHHHHH
Confidence 445555655555555444
No 247
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.88 E-value=1e+02 Score=31.72 Aligned_cols=103 Identities=13% Similarity=0.141 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc----------------------------cchhHHHhHHHHHHHHHHhcC
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTV----------------------------AVGQKMDLVFYTLQLGFFYMD 104 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~----------------------------~~~~~i~~~l~~i~~~i~~~~ 104 (340)
....--|.++|+.|+|++|+++|..+.+... .+..-.+.+++..=+.+..|+
T Consensus 111 ~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gk 190 (652)
T KOG2376|consen 111 KLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGK 190 (652)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhccc
Confidence 3444568899999999999999998743210 011234567777777888899
Q ss_pred HHHHHhHHHHHHH----HHhc--CCChhhh---hHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 105 FDLISKSIDKAKS----LFEE--GGDWERK---NRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 105 ~~~~~~~i~ka~~----~l~~--~~~~~~~---~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
|..+.+.+.+|.. .++. .++.+.+ +.+++.-+..+...|+-.+|.+.+-+.
T Consensus 191 y~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~ 250 (652)
T KOG2376|consen 191 YNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI 250 (652)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 9999999999933 2322 2333444 445556666666778777777655443
No 248
>PRK14574 hmsH outer membrane protein; Provisional
Probab=61.61 E-value=2.4e+02 Score=30.55 Aligned_cols=92 Identities=13% Similarity=-0.029 Sum_probs=58.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
...+|..|...|++++|++.|+++.+.-.+. .+...+++.++...++...+...+.++... +|. +.. +
T Consensus 105 llalA~ly~~~gdyd~Aiely~kaL~~dP~n---~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~-----dp~--~~~--~ 172 (822)
T PRK14574 105 LASAARAYRNEKRWDQALALWQSSLKKDPTN---PDLISGMIMTQADAGRGGVVLKQATELAER-----DPT--VQN--Y 172 (822)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHhhcCCHHHHHHHHHHhccc-----Ccc--hHH--H
Confidence 4455889999999999999999988766443 244456677777778888887776665543 233 111 1
Q ss_pred HHHhcc--ccCCHHHHHHHHHhcccc
Q 019472 135 EGLYCM--STRNFKKAASLFLDSIST 158 (340)
Q Consensus 135 ~gl~~l--~~r~y~~Aa~~F~e~~~~ 158 (340)
.++.++ ..+++.+|...|-..+..
T Consensus 173 l~layL~~~~~~~~~AL~~~ekll~~ 198 (822)
T PRK14574 173 MTLSYLNRATDRNYDALQASSEAVRL 198 (822)
T ss_pred HHHHHHHHhcchHHHHHHHHHHHHHh
Confidence 222222 245555577776666543
No 249
>PF12854 PPR_1: PPR repeat
Probab=61.45 E-value=14 Score=22.37 Aligned_cols=24 Identities=17% Similarity=0.066 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVT 78 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~ 78 (340)
+..|-+-|++.|+.++|.+++.++
T Consensus 10 y~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 10 YNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhC
Confidence 556788999999999999998764
No 250
>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=61.42 E-value=14 Score=25.27 Aligned_cols=33 Identities=18% Similarity=0.412 Sum_probs=28.0
Q ss_pred HhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 257 QFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 257 q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
-|+..=+.++++.+|+.||+|...+...|.+..
T Consensus 16 GYfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 16 GYFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 477755899999999999999999988887654
No 251
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=61.40 E-value=2.1e+02 Score=29.91 Aligned_cols=56 Identities=11% Similarity=-0.138 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
...|.+.|.++|++++|.+.+.++.+.. +..+-.++..+...|+++.+...+.+..
T Consensus 363 ~~~Li~~y~k~G~~~~A~~vf~~m~~~d------~~t~n~lI~~y~~~G~~~~A~~lf~~M~ 418 (697)
T PLN03081 363 NTALVDLYSKWGRMEDARNVFDRMPRKN------LISWNALIAGYGNHGRGTKAVEMFERMI 418 (697)
T ss_pred hHHHHHHHHHCCCHHHHHHHHHhCCCCC------eeeHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 5677888888888888888887664321 1233344555556677777766666543
No 252
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.20 E-value=1.4e+02 Score=27.46 Aligned_cols=106 Identities=13% Similarity=0.116 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH---------
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF--------- 119 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~--~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l--------- 119 (340)
+..-..+-..+|.++|..+.|.-.+.+.-+-. ..|+.-+..+-.-+.+-...+.-..+-..+.|+...+
T Consensus 90 vvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Ea 169 (308)
T KOG1585|consen 90 VVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEA 169 (308)
T ss_pred HHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHH
Confidence 44446667788899998888887777765433 3444444444433333222222222222222222211
Q ss_pred -----------hcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 120 -----------EEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 120 -----------~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
...+.--...+.-+..-+.++...||..|-..|-++.
T Consensus 170 a~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~ 217 (308)
T KOG1585|consen 170 ATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCS 217 (308)
T ss_pred HHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchh
Confidence 1111112245566777788999999999999998863
No 253
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=60.09 E-value=77 Score=34.04 Aligned_cols=70 Identities=17% Similarity=0.068 Sum_probs=51.2
Q ss_pred hCHHHHHH------HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 46 LGESEVRE------AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 46 ~~~~~ir~------~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
++.|-|++ ++..||.+|.+.||.++|+.+.--+-..- ++.. +++..+...+...|+|..+.-..+||-+.
T Consensus 161 i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~--p~d~-e~W~~ladls~~~~~i~qA~~cy~rAI~~ 236 (895)
T KOG2076|consen 161 ILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN--PKDY-ELWKRLADLSEQLGNINQARYCYSRAIQA 236 (895)
T ss_pred HHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCh-HHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence 34555544 58899999999999999987765443322 2233 77777788888889999999888887653
No 254
>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=60.00 E-value=29 Score=28.28 Aligned_cols=43 Identities=14% Similarity=0.309 Sum_probs=35.6
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
..++.+.||+.+++|...+++.+.+|-..|-+...=....|..
T Consensus 24 ~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~ 66 (135)
T TIGR02010 24 GPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQ 66 (135)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEe
Confidence 3699999999999999999999999999998876434444533
No 255
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=59.81 E-value=47 Score=30.09 Aligned_cols=31 Identities=26% Similarity=0.404 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
-.++.-+|.+|-..|+.+.|-+.|.+....-
T Consensus 69 ~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~ 99 (250)
T COG3063 69 YLAHLVRAHYYQKLGENDLADESYRKALSLA 99 (250)
T ss_pred HHHHHHHHHHHHHcCChhhHHHHHHHHHhcC
Confidence 4456666666777777766666666655443
No 256
>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=59.10 E-value=1.2e+02 Score=26.73 Aligned_cols=79 Identities=9% Similarity=-0.009 Sum_probs=61.7
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHH
Q 019472 206 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 206 ~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L 285 (340)
.+.+++++|.++++..+.+...+... +-...+.+.++++......++.|+.+=+|-.+++.++-=.+.++.-.
T Consensus 29 ~L~~~~~~~~~~~~~~~~~~~~~I~~-------lE~eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD~I~D~i~~~a 101 (216)
T TIGR00153 29 LLIKSFELLKSGNNEKDEELRKEIIE-------IEHEADEIKREIRLNLEKGAFLPNDRRDLLELAELLDEILDSLEHAA 101 (216)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 36678888888888776666655544 34457889999999988999999999999999999887777777777
Q ss_pred HHHhhC
Q 019472 286 SRFIAA 291 (340)
Q Consensus 286 ~~lI~~ 291 (340)
..+..-
T Consensus 102 ~~l~l~ 107 (216)
T TIGR00153 102 MLYELR 107 (216)
T ss_pred HHHhcc
Confidence 666543
No 257
>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=58.91 E-value=40 Score=23.62 Aligned_cols=38 Identities=16% Similarity=0.202 Sum_probs=34.2
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI 298 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akI 298 (340)
.....+...||+.+|+|...+-+.|.+|...|-+.-.-
T Consensus 19 ~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEE
T ss_pred HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 57889999999999999999999999999999885433
No 258
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=58.78 E-value=1.1e+02 Score=29.64 Aligned_cols=87 Identities=10% Similarity=0.083 Sum_probs=41.6
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHh
Q 019472 59 SLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLY 138 (340)
Q Consensus 59 a~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~ 138 (340)
+....+.|+++.|.+.|.+..+.. ++..+-..+...++.+..|+++.+...+.++... +|+...-+ -..+-.
T Consensus 125 A~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~-----~P~~~~al-~ll~~~ 196 (398)
T PRK10747 125 AEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAARHGVDKLLEV-----APRHPEVL-RLAEQA 196 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-----CCCCHHHH-HHHHHH
Confidence 334466666666666666655433 2222222233355666666666666655554332 11211111 122334
Q ss_pred ccccCCHHHHHHHHH
Q 019472 139 CMSTRNFKKAASLFL 153 (340)
Q Consensus 139 ~l~~r~y~~Aa~~F~ 153 (340)
++..++|..|...+-
T Consensus 197 ~~~~gdw~~a~~~l~ 211 (398)
T PRK10747 197 YIRTGAWSSLLDILP 211 (398)
T ss_pred HHHHHhHHHHHHHHH
Confidence 455667766664443
No 259
>PF13041 PPR_2: PPR repeat family
Probab=58.48 E-value=21 Score=23.23 Aligned_cols=32 Identities=19% Similarity=0.135 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccch
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVG 86 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~ 86 (340)
+..+-+.|.+.|++++|.++|.++.+.-..++
T Consensus 6 yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~ 37 (50)
T PF13041_consen 6 YNTLISGYCKAGKFEEALKLFKEMKKRGIKPD 37 (50)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCC
Confidence 44677889999999999999999987654443
No 260
>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=58.23 E-value=36 Score=23.43 Aligned_cols=39 Identities=18% Similarity=0.304 Sum_probs=29.7
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
|..-+..++---..++++.+|+.+|+|.-.+-..|.++=
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 334445555447899999999999999999998888753
No 261
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.23 E-value=1.1e+02 Score=30.75 Aligned_cols=117 Identities=13% Similarity=0.060 Sum_probs=65.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc-----CCChhhhh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE-----GGDWERKN 129 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~-----~~~~~~~~ 129 (340)
++-+|-+-...|-+++|-..+........+.+-..-..+++.-+++-.++-+.. .++-+.+.. .+....++
T Consensus 370 h~LlGlys~sv~~~enAe~hf~~a~k~t~~~dl~a~~nlnlAi~YL~~~~~ed~----y~~ld~i~p~nt~s~ssq~l~a 445 (629)
T KOG2300|consen 370 HMLLGLYSHSVNCYENAEFHFIEATKLTESIDLQAFCNLNLAISYLRIGDAEDL----YKALDLIGPLNTNSLSSQRLEA 445 (629)
T ss_pred HHHHhhHhhhcchHHHHHHHHHHHHHhhhHHHHHHHHHHhHHHHHHHhccHHHH----HHHHHhcCCCCCCcchHHHHHH
Confidence 455566666667777777666655544422222222223333334444433322 222222211 11223578
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHH----HHHHHHHHhhh
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTF----IFYTVLTSIIS 181 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~----~~Y~~L~al~s 181 (340)
-+...+|+..+.+++|.+|-....|.+..- .++|+ +.|++|.+...
T Consensus 446 ~~~~v~glfaf~qn~lnEaK~~l~e~Lkma------naed~~rL~a~~LvLLs~v~ 495 (629)
T KOG2300|consen 446 SILYVYGLFAFKQNDLNEAKRFLRETLKMA------NAEDLNRLTACSLVLLSHVF 495 (629)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHhhc------chhhHHHHHHHHHHHHHHHH
Confidence 889999999999999999998888875431 33333 45666666655
No 262
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=57.89 E-value=19 Score=38.84 Aligned_cols=63 Identities=14% Similarity=0.165 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
...||+.|...|+|..|.+.|+......- .....++...+.|+.+..+.|..++.++-+|...
T Consensus 683 ~lNlah~~~e~~qy~~AIqmYe~~lkkf~-~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~ 745 (1018)
T KOG2002|consen 683 WLNLAHCYVEQGQYRLAIQMYENCLKKFY-KKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL 745 (1018)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHHHhc-ccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence 55677777777777777777777664332 2223455566677777777777777777666653
No 263
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=57.78 E-value=75 Score=28.40 Aligned_cols=52 Identities=10% Similarity=0.100 Sum_probs=44.3
Q ss_pred hhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 258 FLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 258 ~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
.+.-...++.+.||+.+|++...+-+.|.+|-..|-|.-..|.....+..++
T Consensus 15 ~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTe 66 (217)
T PRK14165 15 AVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITE 66 (217)
T ss_pred ccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECH
Confidence 3444567999999999999999999999999999999999988776677663
No 264
>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=57.75 E-value=33 Score=27.57 Aligned_cols=36 Identities=17% Similarity=0.229 Sum_probs=33.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEE
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI 298 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akI 298 (340)
..++.+.||+.+|+|...+.+.+..|...|-+...-
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~ 59 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKR 59 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecC
Confidence 579999999999999999999999999999997643
No 265
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=57.58 E-value=24 Score=31.14 Aligned_cols=62 Identities=10% Similarity=0.135 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
.+.+++.||.+++..-+.|=..++-..+|+.||+|...|-.-|..|..+|-+.-+ +..|+.+
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 4678899999999999999999999999999999999999999999999998643 3445543
No 266
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=57.28 E-value=76 Score=23.39 Aligned_cols=48 Identities=17% Similarity=0.190 Sum_probs=38.7
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCC
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA 302 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~ 302 (340)
+...+.....++.+.+|+.++++...+-+.|.+|...|-+...-|..+
T Consensus 15 il~~l~~~~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~ 62 (101)
T smart00347 15 VLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPED 62 (101)
T ss_pred HHHHHHHcCCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCC
Confidence 344444345799999999999999999999999999999977666543
No 267
>smart00351 PAX Paired Box domain.
Probab=56.91 E-value=31 Score=27.81 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=36.8
Q ss_pred HHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 249 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 249 ~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
..|.+++.-| -.-.+...+|+.||++...+-+|+.++-.+|.+..
T Consensus 21 ~~R~riv~~~---~~G~s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~p 65 (125)
T smart00351 21 EERQRIVELA---QNGVRPCDISRQLCVSHGCVSKILGRYYETGSIRP 65 (125)
T ss_pred HHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCC
Confidence 4566666555 35678899999999999999999999999987654
No 268
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=56.87 E-value=27 Score=29.22 Aligned_cols=46 Identities=20% Similarity=0.233 Sum_probs=37.9
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
+..-++++.||+..|+|+..+++.+..|-..|-+..+=-..-|..-
T Consensus 22 ~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~L 67 (150)
T COG1959 22 GGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRL 67 (150)
T ss_pred CCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccC
Confidence 3447999999999999999999999999999988766555555443
No 269
>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=56.74 E-value=24 Score=20.22 Aligned_cols=27 Identities=22% Similarity=0.047 Sum_probs=22.0
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
..+-.-|.+.|++++|.+++.++.+..
T Consensus 4 n~li~~~~~~~~~~~a~~~~~~M~~~g 30 (35)
T TIGR00756 4 NTLIDGLCKAGRVEEALELFKEMLERG 30 (35)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence 345677899999999999999887643
No 270
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=56.20 E-value=53 Score=25.00 Aligned_cols=47 Identities=13% Similarity=0.213 Sum_probs=39.6
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
....++-+.||+.+|++.+.+-+.|.+|...|-|. .+...|.+-++.
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~--r~~~~~~~~~n~ 90 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF--RQGMMGIVGVNT 90 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee--eecCCceeecCC
Confidence 35678899999999999999999999999999985 455567777664
No 271
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=56.19 E-value=14 Score=28.39 Aligned_cols=41 Identities=17% Similarity=0.203 Sum_probs=34.3
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.|.+++.-+-.=.-..||..++++.+++++.+.+|..-|-|
T Consensus 11 ~IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLl 51 (92)
T PF10007_consen 11 KILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLEEMGLL 51 (92)
T ss_pred HHHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCe
Confidence 35666666666667789999999999999999999999876
No 272
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=55.90 E-value=31 Score=19.92 Aligned_cols=27 Identities=19% Similarity=0.129 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESK 81 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~ 81 (340)
+..+...+.+.|+++.|.+++..+.+.
T Consensus 4 y~~ll~a~~~~g~~~~a~~~~~~M~~~ 30 (34)
T PF13812_consen 4 YNALLRACAKAGDPDAALQLFDEMKEQ 30 (34)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 445778889999999999999988764
No 273
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=55.80 E-value=27 Score=22.98 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=20.8
Q ss_pred cccHHHHHHHhCCChHHHHHHHHH
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
..+++.+|+.+|++.+.+.+.+-+
T Consensus 27 ~~s~~~vA~~~~vs~~TV~ri~~~ 50 (52)
T PF13542_consen 27 SRSFKDVARELGVSWSTVRRIFDR 50 (52)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHh
Confidence 379999999999999999887654
No 274
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=55.69 E-value=41 Score=29.97 Aligned_cols=63 Identities=13% Similarity=0.120 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
+.+++.|+.+++..-+.|=..+ +-..||+.||+|...|-+-|..|..+|-|.- -+..|+.+..
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 4677888888888889998999 7999999999999999999999999999863 4566777643
No 275
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=55.55 E-value=1.5e+02 Score=33.81 Aligned_cols=99 Identities=16% Similarity=0.132 Sum_probs=75.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhh--ccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKT--VAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLK 132 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~--~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~ 132 (340)
..++..|+++.++.++|-+...+.+..- ...+.+++++...+-+....|.-+.+++..++|-...+ |- ..+.
T Consensus 1461 WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd----~~--~V~~ 1534 (1710)
T KOG1070|consen 1461 WIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCD----AY--TVHL 1534 (1710)
T ss_pred HHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcc----hH--HHHH
Confidence 5678899999999999999999988643 67789999999999999999988889888888887533 21 1222
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccCC
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSISTFT 160 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~~f~ 160 (340)
-..|+|.-. ..|.+|.++|-..+..|-
T Consensus 1535 ~L~~iy~k~-ek~~~A~ell~~m~KKF~ 1561 (1710)
T KOG1070|consen 1535 KLLGIYEKS-EKNDEADELLRLMLKKFG 1561 (1710)
T ss_pred HHHHHHHHh-hcchhHHHHHHHHHHHhc
Confidence 334444333 367788888877777663
No 276
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=55.51 E-value=30 Score=31.25 Aligned_cols=64 Identities=16% Similarity=0.199 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..+ +-..||+.||+|...|-.-|..|-..|-|.-+ +..|+.+..
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 35788889999999999999999 89999999999999999999999999998754 456766654
No 277
>PLN03077 Protein ECB2; Provisional
Probab=55.32 E-value=3e+02 Score=29.66 Aligned_cols=91 Identities=11% Similarity=-0.050 Sum_probs=41.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHH
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYE 135 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~ 135 (340)
..+...|.+.|+.++|.+++.++.+....|+.. .+..++..+-..|+++.+........... +..|+ ...|.
T Consensus 558 n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~--T~~~ll~a~~~~g~v~ea~~~f~~M~~~~--gi~P~----~~~y~ 629 (857)
T PLN03077 558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEV--TFISLLCACSRSGMVTQGLEYFHSMEEKY--SITPN----LKHYA 629 (857)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc--cHHHHHHHHhhcChHHHHHHHHHHHHHHh--CCCCc----hHHHH
Confidence 344455555555555555555555433333321 23334444444555555555554433211 22222 11223
Q ss_pred HH--hccccCCHHHHHHHHHh
Q 019472 136 GL--YCMSTRNFKKAASLFLD 154 (340)
Q Consensus 136 gl--~~l~~r~y~~Aa~~F~e 154 (340)
.+ .+...|++.+|.+.|-+
T Consensus 630 ~lv~~l~r~G~~~eA~~~~~~ 650 (857)
T PLN03077 630 CVVDLLGRAGKLTEAYNFINK 650 (857)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 22 33445666666655544
No 278
>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=55.16 E-value=20 Score=20.19 Aligned_cols=25 Identities=24% Similarity=0.211 Sum_probs=21.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHh
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTES 80 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~ 80 (340)
..+-+.|.+.|++++|.+.+.++.+
T Consensus 4 ~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 4 NSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHccchHHHHHHHHHHHhH
Confidence 3567889999999999999988765
No 279
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=54.66 E-value=42 Score=28.12 Aligned_cols=45 Identities=27% Similarity=0.331 Sum_probs=36.4
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVL 305 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l 305 (340)
|-..++.+.||+..|+|...+++.+..|...|-+...=-..-|.-
T Consensus 21 ~~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~ 65 (153)
T PRK11920 21 DGKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVR 65 (153)
T ss_pred CCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCee
Confidence 345689999999999999999999999999998876554434433
No 280
>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=54.65 E-value=26 Score=25.84 Aligned_cols=34 Identities=29% Similarity=0.405 Sum_probs=25.3
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+.+.+.-=.-|+...+|..+|.+++++...|..+
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 5666666788999999999999999999999886
No 281
>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=54.13 E-value=64 Score=32.14 Aligned_cols=131 Identities=15% Similarity=0.153 Sum_probs=77.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
..+++.++.+.|-++.|+.+- +.++++++ +++..||.+.+.+...+... ..-|. .
T Consensus 298 ~~~i~~fL~~~G~~e~AL~~~-------~D~~~rFe-------LAl~lg~L~~A~~~a~~~~~----~~~W~-------~ 352 (443)
T PF04053_consen 298 GQSIARFLEKKGYPELALQFV-------TDPDHRFE-------LALQLGNLDIALEIAKELDD----PEKWK-------Q 352 (443)
T ss_dssp HHHHHHHHHHTT-HHHHHHHS-------S-HHHHHH-------HHHHCT-HHHHHHHCCCCST----HHHHH-------H
T ss_pred HHHHHHHHHHCCCHHHHHhhc-------CChHHHhH-------HHHhcCCHHHHHHHHHhcCc----HHHHH-------H
Confidence 557899999999999997644 45566666 67778877766533222110 01122 2
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHHHHHH
Q 019472 135 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSL 214 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll~af 214 (340)
-|-..+.++++..|-.+|..+- .| .. +.+....+.++..|++ +.+-.+ ........+..++
T Consensus 353 Lg~~AL~~g~~~lAe~c~~k~~-d~--------~~----L~lLy~~~g~~~~L~k-l~~~a~-----~~~~~n~af~~~~ 413 (443)
T PF04053_consen 353 LGDEALRQGNIELAEECYQKAK-DF--------SG----LLLLYSSTGDREKLSK-LAKIAE-----ERGDINIAFQAAL 413 (443)
T ss_dssp HHHHHHHTTBHHHHHHHHHHCT--H--------HH----HHHHHHHCT-HHHHHH-HHHHHH-----HTT-HHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHhhc-Cc--------cc----cHHHHHHhCCHHHHHH-HHHHHH-----HccCHHHHHHHHH
Confidence 2345678999999999998761 11 11 2334455566666653 321111 1233466778889
Q ss_pred HhccHHHHHHHHHHh
Q 019472 215 YDCQYKSFFSAFAGL 229 (340)
Q Consensus 215 ~~~~~~~~~~~L~~~ 229 (340)
+.+|+.+|.+.|.+.
T Consensus 414 ~lgd~~~cv~lL~~~ 428 (443)
T PF04053_consen 414 LLGDVEECVDLLIET 428 (443)
T ss_dssp HHT-HHHHHHHHHHT
T ss_pred HcCCHHHHHHHHHHc
Confidence 999999999998775
No 282
>PRK15481 transcriptional regulatory protein PtsJ; Provisional
Probab=53.83 E-value=28 Score=34.12 Aligned_cols=55 Identities=16% Similarity=0.300 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
...+++.|+..+....+.|=..+ +...||+.||+|...+.+-+.+|..+|-+.++
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 35677888888888888898888 89999999999999999999999999988653
No 283
>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=53.47 E-value=48 Score=20.99 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=23.7
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
...+...+|+.+|++...+-.++.+..
T Consensus 25 ~~~~~~~ia~~~~~s~~~i~~~~~~~~ 51 (55)
T cd06171 25 EGLSYEEIAEILGISRSTVRQRLHRAL 51 (55)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 788999999999999999988887653
No 284
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.42 E-value=2.1e+02 Score=27.73 Aligned_cols=97 Identities=12% Similarity=0.063 Sum_probs=67.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHH-hhhccchhHHHhHH--HHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTE-SKTVAVGQKMDLVF--YTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~-~~~~~~~~~i~~~l--~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..-.++|...+|-++.|..+..+.. +.... +|++. ..|+-+|..|+...+....+.-+..+.+. ...+-..+
T Consensus 119 ~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD----~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~-~S~lEf~l 193 (389)
T KOG0396|consen 119 DRFVVDHMLRNGYFGAAVLLGKKSQLEDLVD----SDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKE-ESSLEFQL 193 (389)
T ss_pred HHHHHHHHHHcCchhHHHHHHHhhhhhhhHh----HHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhc-cchhhhHH
Confidence 4457899999998888877765543 22211 23333 34677899999999999888888877643 22445667
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
+....+-.+..++|.+|..++-.-|
T Consensus 194 RlQefIELi~~~~~~~Ai~~akk~f 218 (389)
T KOG0396|consen 194 RLQEFIELIKVDNYDKAIAFAKKHF 218 (389)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHH
Confidence 7777888888889999976654443
No 285
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=53.35 E-value=89 Score=23.00 Aligned_cols=50 Identities=14% Similarity=0.191 Sum_probs=40.6
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 303 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g 303 (340)
.+..++..-..++++.+.+.+|++...+-+.|..|...|-+..+-....+
T Consensus 4 ~Il~~L~~~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~ 53 (80)
T PF13601_consen 4 AILALLYANEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGR 53 (80)
T ss_dssp HHHHHHHHHSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS
T ss_pred HHHHHHhhcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCC
Confidence 34566666789999999999999999999999999999999887766655
No 286
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=53.09 E-value=40 Score=30.14 Aligned_cols=44 Identities=16% Similarity=0.281 Sum_probs=39.2
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
.|..++.-...++...||+.+|++...+-..|-.|..+|-+...
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 35556666789999999999999999999999999999999887
No 287
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=53.04 E-value=49 Score=29.85 Aligned_cols=64 Identities=9% Similarity=0.102 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..+ +-..+|+.||+|...|-.-|..|-..|-+.- -+..|+.+..
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 46788889999999999999999 4789999999999999999999999998863 3455665543
No 288
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=52.99 E-value=1.2e+02 Score=24.30 Aligned_cols=63 Identities=13% Similarity=0.031 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEE
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 307 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~ 307 (340)
..|-+..|.+++..+.. -...+...+|+.||++...+-+.|..|-..|-+..+-+...-....
T Consensus 11 kaLadptRl~IL~~L~~-~~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l 73 (117)
T PRK10141 11 KILSDETRLGIVLLLRE-SGELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRL 73 (117)
T ss_pred HHhCCHHHHHHHHHHHH-cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEE
Confidence 45556667777665543 2358889999999999999999999999999998877765544444
No 289
>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=52.40 E-value=59 Score=28.43 Aligned_cols=43 Identities=19% Similarity=0.266 Sum_probs=36.0
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
+..++..+..++++.+|+.+|++...+-+.|.+|...|-+.-.
T Consensus 148 IL~~l~~~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~ 190 (203)
T TIGR01884 148 VLEVLKAEGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 190 (203)
T ss_pred HHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 3445544567999999999999999999999999999988654
No 290
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=52.38 E-value=53 Score=29.62 Aligned_cols=64 Identities=17% Similarity=0.236 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..+ +-..||+.||+|...|-.-|..|-..|-+.-+ +..|+.+..
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 35778889998888889999999 79999999999999999999999999988743 556776654
No 291
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.27 E-value=2.9e+02 Score=28.79 Aligned_cols=156 Identities=17% Similarity=0.147 Sum_probs=88.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
+.+.|+|+.+.|-+++|++ .++.++++.+ +++..|+.+.+.....++.+. ..|+ .
T Consensus 617 rt~va~Fle~~g~~e~AL~-------~s~D~d~rFe-------lal~lgrl~iA~~la~e~~s~----~Kw~-------~ 671 (794)
T KOG0276|consen 617 RTKVAHFLESQGMKEQALE-------LSTDPDQRFE-------LALKLGRLDIAFDLAVEANSE----VKWR-------Q 671 (794)
T ss_pred hhhHHhHhhhccchHhhhh-------cCCChhhhhh-------hhhhcCcHHHHHHHHHhhcch----HHHH-------H
Confidence 5578899999998888864 5678888887 445556655555444444332 1233 1
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHHHHHHHH
Q 019472 135 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLSEFLNSL 214 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~~ll~af 214 (340)
-|-+.+..+++..|.++|..+- +..+ ++|..-++.++.-+.. +.+. .++ +.-.=..++..|
T Consensus 672 Lg~~al~~~~l~lA~EC~~~a~------d~~~-------LlLl~t~~g~~~~l~~--la~~-~~~---~g~~N~AF~~~~ 732 (794)
T KOG0276|consen 672 LGDAALSAGELPLASECFLRAR------DLGS-------LLLLYTSSGNAEGLAV--LASL-AKK---QGKNNLAFLAYF 732 (794)
T ss_pred HHHHHhhcccchhHHHHHHhhc------chhh-------hhhhhhhcCChhHHHH--HHHH-HHh---hcccchHHHHHH
Confidence 2345567888888988887752 1111 2233334444433321 1110 101 011122456678
Q ss_pred HhccHHHHHHHHHHh----HHHhhcChhHhhhHHHHHHHHHHHH
Q 019472 215 YDCQYKSFFSAFAGL----TEQIKLDRYLYPHFRYYMREVRTVV 254 (340)
Q Consensus 215 ~~~~~~~~~~~L~~~----~~~l~~D~~l~~h~~~l~~~ir~~~ 254 (340)
..+++..|.+.|..- +..+..--|+-+.+..+...-|+..
T Consensus 733 l~g~~~~C~~lLi~t~r~peAal~ArtYlps~vs~iv~~wk~~l 776 (794)
T KOG0276|consen 733 LSGDYEECLELLISTQRLPEAALFARTYLPSQVSRIVELWKEDL 776 (794)
T ss_pred HcCCHHHHHHHHHhcCcCcHHHHHHhhhChHHHHHHHHHHHHHh
Confidence 889999999998765 3335555555566666666666543
No 292
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=51.88 E-value=38 Score=30.51 Aligned_cols=64 Identities=8% Similarity=0.154 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 243 FRYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+++.|+..++..-+.|=..+ +-..||+.||+|...|-.-|..|-.+|-+..+ +..|+.+..
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 45788889999998999999999 89999999999999999999999999988643 445666543
No 293
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=51.67 E-value=50 Score=28.88 Aligned_cols=44 Identities=16% Similarity=0.224 Sum_probs=38.0
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
.+..++.....++...||+.+|++...+-+.|..|...|-|.-+
T Consensus 5 ~IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 5 DILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 35556655677999999999999999999999999999999755
No 294
>cd00131 PAX Paired Box domain
Probab=51.27 E-value=42 Score=27.21 Aligned_cols=45 Identities=11% Similarity=0.219 Sum_probs=38.2
Q ss_pred HHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 249 EVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 249 ~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
..|.+++.-+ -.-.+...+|+.||++...|-+|+.++-..|.+..
T Consensus 21 d~R~rIv~~~---~~G~s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~p 65 (128)
T cd00131 21 SIRQRIVELA---QSGIRPCDISRQLRVSHGCVSKILNRYYETGSIRP 65 (128)
T ss_pred HHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCC
Confidence 3677777555 46789999999999999999999999999998764
No 295
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=50.74 E-value=94 Score=27.77 Aligned_cols=52 Identities=19% Similarity=0.227 Sum_probs=42.3
Q ss_pred HHHHHHHHhhh-hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecC
Q 019472 250 VRTVVYSQFLE-SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKV 301 (340)
Q Consensus 250 ir~~~l~q~i~-pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~ 301 (340)
.-.+.+.+.++ |=...|-+.+|+.+|+|.-.+-+.|.-|+..|.+.+.|-..
T Consensus 158 ~Tl~~i~~~~~~~~~~~Taeela~~~giSRvTaRRYLeyl~~~~~l~a~i~yG 210 (224)
T COG4565 158 LTLQKVREALKEPDQELTAEELAQALGISRVTARRYLEYLVSNGILEAEIHYG 210 (224)
T ss_pred HHHHHHHHHHhCcCCccCHHHHHHHhCccHHHHHHHHHHHHhcCeeeEEeecc
Confidence 33444555555 66788999999999999999999999999999998876543
No 296
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=50.72 E-value=3.9e+02 Score=29.64 Aligned_cols=94 Identities=13% Similarity=0.073 Sum_probs=65.1
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH-HHhc--CCChhhhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS-LFEE--GGDWERKN 129 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~-~l~~--~~~~~~~~ 129 (340)
-+.--||.+|++.-|...|.++|.+..+.-.+. .+..-....++-...+|+.+....-.+.. .... .-+|
T Consensus 493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatd---aeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW---- 565 (1238)
T KOG1127|consen 493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATD---AEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENW---- 565 (1238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchh---hhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhh----
Confidence 346679999999999999999999988654221 23344566778888999888754222211 1110 1122
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
...|++++..+++..|...|-.++
T Consensus 566 ---~~rG~yyLea~n~h~aV~~fQsAL 589 (1238)
T KOG1127|consen 566 ---VQRGPYYLEAHNLHGAVCEFQSAL 589 (1238)
T ss_pred ---hhccccccCccchhhHHHHHHHHh
Confidence 237899999999999999998765
No 297
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=50.72 E-value=2e+02 Score=26.41 Aligned_cols=59 Identities=12% Similarity=-0.016 Sum_probs=27.8
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
..++.-+.-.|+-..++....+......+..... -.+....+..||+..+...+.|+-.
T Consensus 70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll---~~~gk~~~~~g~~~~A~~~~rkA~~ 128 (257)
T COG5010 70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELL---AAQGKNQIRNGNFGEAVSVLRKAAR 128 (257)
T ss_pred HHHHHHHHhcccccchHHHHhhhhccCcccHHHH---HHHHHHHHHhcchHHHHHHHHHHhc
Confidence 4455555555555555555555443222211111 1144444555555555555555544
No 298
>PRK06771 hypothetical protein; Provisional
Probab=50.66 E-value=12 Score=28.59 Aligned_cols=30 Identities=17% Similarity=0.410 Sum_probs=26.0
Q ss_pred cccHHHHHHHhCCChH--HHHHHHHHHhhCCc
Q 019472 264 SVTIEAMAKAFGVTVE--FIDVELSRFIAAGK 293 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~--~vE~~L~~lI~~g~ 293 (340)
...++.|++.+|++.. .+.+++.+++.+|+
T Consensus 36 e~~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gk 67 (93)
T PRK06771 36 EDRLQLITKEMGIVDREPPVNKELRQLMEEGQ 67 (93)
T ss_pred HHHHHHHHHHcCCCCCcccccHHHHHHHHcCC
Confidence 4578999999999877 68889999999985
No 299
>PF14493 HTH_40: Helix-turn-helix domain
Probab=50.53 E-value=23 Score=26.72 Aligned_cols=33 Identities=33% Similarity=0.469 Sum_probs=30.5
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCc-cc
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGK-LH 295 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~-l~ 295 (340)
.-.+++.||+.-|+++..|+..|++++..|. ++
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 300
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=50.44 E-value=36 Score=30.86 Aligned_cols=75 Identities=13% Similarity=0.201 Sum_probs=49.1
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC-EEEEcCCCcchHHHHHHHHhhHHHHH
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG-VLETNRPDAKNALYQATIKQGDFLLN 329 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g-~l~~~~~~~r~~~y~~~l~~~~~l~~ 329 (340)
|.+++..+..-.-++.-+.||+.+|++++.+-..+-+|+.+|-+.- .++ --++++. --...++++.+. +.+.+
T Consensus 12 ~fqIL~ei~~~qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~----~gR~~Y~iTkk-G~e~l~~~~~dl-r~f~~ 85 (260)
T COG1497 12 RFQILSEIAVRQPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK----EGRGEYEITKK-GAEWLLEQLSDL-RRFSE 85 (260)
T ss_pred HHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee----cCCeeEEEehh-HHHHHHHHHHHH-HHHHH
Confidence 4445555544457899999999999999999999999999987643 332 3333322 234566666553 44444
Q ss_pred HH
Q 019472 330 RI 331 (340)
Q Consensus 330 ri 331 (340)
.+
T Consensus 86 ev 87 (260)
T COG1497 86 EV 87 (260)
T ss_pred HH
Confidence 33
No 301
>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=50.30 E-value=41 Score=23.27 Aligned_cols=35 Identities=20% Similarity=0.257 Sum_probs=28.3
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHH
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
+|.+|..=| .+-.++..||+.+|++...|-.|..+
T Consensus 2 ~k~~A~~LY---~~G~~~~eIA~~Lg~~~~TV~~W~~r 36 (58)
T PF06056_consen 2 VKEQARSLY---LQGWSIKEIAEELGVPRSTVYSWKDR 36 (58)
T ss_pred HHHHHHHHH---HcCCCHHHHHHHHCCChHHHHHHHHh
Confidence 455666667 46778999999999999999988876
No 302
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=50.23 E-value=1.3e+02 Score=24.04 Aligned_cols=59 Identities=14% Similarity=0.073 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccc--hhHHHhHHHHHHHH-HHhcCHHHHHhHH
Q 019472 51 VREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAV--GQKMDLVFYTLQLG-FFYMDFDLISKSI 112 (340)
Q Consensus 51 ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~--~~~i~~~l~~i~~~-i~~~~~~~~~~~i 112 (340)
-+++...+|.-+...|++++|...+++........ ...+... ..+. ...|++.++...+
T Consensus 37 ~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f---~Al~L~~~gr~~eAl~~~ 98 (120)
T PF12688_consen 37 RRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVF---LALALYNLGRPKEALEWL 98 (120)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHH---HHHHHHHCCCHHHHHHHH
Confidence 45679999999999999999999999887654321 1122211 1223 3447777665544
No 303
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=49.95 E-value=52 Score=28.68 Aligned_cols=67 Identities=15% Similarity=0.134 Sum_probs=50.5
Q ss_pred HHHHHHHHHH-HHHhCC--HHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 019472 52 REAHLAKSLF-YIQIGD--KEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 121 (340)
Q Consensus 52 r~~~~~La~~-~~~~Gd--~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~ 121 (340)
-..+..+|.. |...|+ +++|.+++.+..+.-.+ -.+....+...+...|++..+.....++-.....
T Consensus 107 ~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~---~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~ 176 (198)
T PRK10370 107 AELYAALATVLYYQAGQHMTPQTREMIDKALALDAN---EVTALMLLASDAFMQADYAQAIELWQKVLDLNSP 176 (198)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence 4557788985 678888 59999999998865432 2345566667778899999999999998776543
No 304
>PF12728 HTH_17: Helix-turn-helix domain
Probab=49.94 E-value=25 Score=23.10 Aligned_cols=38 Identities=21% Similarity=0.349 Sum_probs=27.4
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 265 VTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
++.+.+|+.+|++...+ -+++..|.|.+. ...+...+.
T Consensus 2 lt~~e~a~~l~is~~tv----~~~~~~g~i~~~--~~g~~~~~~ 39 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTV----YRWIRQGKIPPF--KIGRKWRIP 39 (51)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHcCCCCeE--EeCCEEEEe
Confidence 47889999999998875 566678999776 244444443
No 305
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=49.88 E-value=91 Score=23.45 Aligned_cols=33 Identities=21% Similarity=0.155 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh
Q 019472 50 EVREAHLAKSLFYIQIGDKEKALEQLKVTESKT 82 (340)
Q Consensus 50 ~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~ 82 (340)
....+.+.+|.++...|++++|.+.+.+.....
T Consensus 39 ~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~A 71 (94)
T PF12862_consen 39 GLAYALLNLAELHRRFGHYEEALQALEEAIRLA 71 (94)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 356678899999999999999999999877655
No 306
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=49.71 E-value=93 Score=33.28 Aligned_cols=61 Identities=15% Similarity=0.250 Sum_probs=45.8
Q ss_pred hhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 240 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 240 ~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
..+.+.+.++|.++ ++--..|++..+|+.|++|.+++-+.|..- ..+.|+|+++ .|.+++.
T Consensus 115 ~~Yld~iaeEIne~-----LqE~G~isI~eLa~~~~Lpsefl~~~l~~r-lG~iI~g~~~--g~~lyT~ 175 (803)
T PLN03083 115 QSYWDSIAEEINER-----LQECSQIALAELARQLQVGSELVTSMLEPR-LGTIVKARLE--GGQLYTP 175 (803)
T ss_pred hHHHHHHHHHHHHH-----HHHcCcChHHHHHHhcCChHHHHHHHHHHH-hccceEEEec--CCEEecH
Confidence 44556666666542 222689999999999999999999999887 5578899994 5677653
No 307
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=49.65 E-value=79 Score=25.22 Aligned_cols=64 Identities=11% Similarity=0.236 Sum_probs=46.2
Q ss_pred HHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCCCcchHHHHHHHHh
Q 019472 254 VYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRPDAKNALYQATIKQ 323 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~~~r~~~y~~~l~~ 323 (340)
.+...|.. ..|...+|..+++|...+--.+++|+..|.+..+--... .....+.....+.+++-
T Consensus 47 ~Il~lC~~--~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~~p~~~----~~~~~pd~~lLe~VL~G 110 (114)
T PF05331_consen 47 AILELCRR--PLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVRAPAPP----DAADRPDRDLLERVLDG 110 (114)
T ss_pred HHHHHHCC--CccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEeCCCCC----ccCCCCCHHHHHHHHHH
Confidence 36778877 789999999999999999999999999998865433222 11122344566666653
No 308
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=49.40 E-value=1.7e+02 Score=27.22 Aligned_cols=74 Identities=12% Similarity=0.007 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc--CCChhhh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE--GGDWERK 128 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~--~~~~~~~ 128 (340)
..++.++++.+..+|+++.+.+.+.++.+.-.- .=.++..+++.+...|+...+...+.+.+.+... +.+|..+
T Consensus 153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~---~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~ 228 (280)
T COG3629 153 IKALTKLAEALIACGRADAVIEHLERLIELDPY---DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPE 228 (280)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc---chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHH
Confidence 556888999999999999999999887743221 1256778899999999999999999998886432 5555533
No 309
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=49.12 E-value=1.1e+02 Score=31.93 Aligned_cols=96 Identities=10% Similarity=-0.065 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-.|+..||.-.-+.|+..+|..+|.+.+.+|.+ ..|..-++--+.-+.++.+.+...+.+|-... |+..+-.
T Consensus 320 ~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~---hadam~NLgni~~E~~~~e~A~~ly~~al~v~-----p~~aaa~ 391 (966)
T KOG4626|consen 320 PDAYNNLANALKDKGSVTEAVDCYNKALRLCPN---HADAMNNLGNIYREQGKIEEATRLYLKALEVF-----PEFAAAH 391 (966)
T ss_pred hHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-----hhhhhhh
Confidence 345556777777777777777777777777743 22333444455556666677766666665532 1111000
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
-=-|..+-+++++.+|..++-+++
T Consensus 392 -nNLa~i~kqqgnl~~Ai~~Ykeal 415 (966)
T KOG4626|consen 392 -NNLASIYKQQGNLDDAIMCYKEAL 415 (966)
T ss_pred -hhHHHHHHhcccHHHHHHHHHHHH
Confidence 001334457888888888877764
No 310
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=48.77 E-value=53 Score=21.26 Aligned_cols=29 Identities=17% Similarity=0.361 Sum_probs=25.1
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
+...+...+|+.+|+|...+...+.++..
T Consensus 16 ~~g~s~~eia~~l~is~~tv~~~~~~~~~ 44 (58)
T smart00421 16 AEGLTNKEIAERLGISEKTVKTHLSNIMR 44 (58)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 46679999999999999999999887643
No 311
>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=48.75 E-value=54 Score=21.34 Aligned_cols=29 Identities=14% Similarity=0.283 Sum_probs=25.0
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
+...+.+.+|+.+|+|+..+...+.++..
T Consensus 13 ~~~~s~~eia~~l~~s~~tv~~~~~~~~~ 41 (57)
T cd06170 13 AEGKTNKEIADILGISEKTVKTHLRNIMR 41 (57)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 46679999999999999999999877643
No 312
>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=48.61 E-value=41 Score=28.77 Aligned_cols=45 Identities=16% Similarity=0.241 Sum_probs=32.3
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
..++.+...-+..++..| |...+++.||+.+|+|+..|...+.+.
T Consensus 145 ~~l~~Ll~~~~~~i~~~~---~~~~s~~eIA~~l~~s~~tV~~~l~r~ 189 (198)
T TIGR02859 145 SKMNELLSDLEWKVLQSY---LDGKSYQEIACDLNRHVKSIDNALQRV 189 (198)
T ss_pred HHHHHhcCHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 344444444444455556 789999999999999999988777654
No 313
>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=48.59 E-value=42 Score=21.10 Aligned_cols=27 Identities=11% Similarity=-0.005 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTES 80 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~ 80 (340)
.+..||++-.+.++|++|.+=|.+..+
T Consensus 3 v~~~Lgeisle~e~f~qA~~D~~~aL~ 29 (38)
T PF10516_consen 3 VYDLLGEISLENENFEQAIEDYEKALE 29 (38)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 467888999999999998887776554
No 314
>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=47.67 E-value=75 Score=23.33 Aligned_cols=28 Identities=14% Similarity=0.139 Sum_probs=22.1
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhcc
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVA 84 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~ 84 (340)
+-|---=+.|+|++|+++|....++|..
T Consensus 11 ~~A~~eD~~gny~eA~~lY~~ale~~~~ 38 (75)
T cd02680 11 TQAFDEDEKGNAEEAIELYTEAVELCIN 38 (75)
T ss_pred HHHHHhhHhhhHHHHHHHHHHHHHHHHH
Confidence 3344455789999999999999998854
No 315
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=47.67 E-value=1.2e+02 Score=23.56 Aligned_cols=46 Identities=9% Similarity=0.025 Sum_probs=39.4
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
|-..++.+.||+.++++...+-+.+.+|...|-|.=.-|..++...
T Consensus 40 ~~~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~ 85 (109)
T TIGR01889 40 NEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKV 85 (109)
T ss_pred cCCcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeE
Confidence 3357999999999999999999999999999999877777776433
No 316
>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=47.66 E-value=84 Score=26.68 Aligned_cols=65 Identities=15% Similarity=0.175 Sum_probs=42.8
Q ss_pred chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 85 VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 85 ~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
++..+.-.+.++.+++..++...+...+.-.+-+ .|. ...++.+.|..++..|+|.+|...|-+.
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvL-----RP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l 70 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVL-----RPE-FPELDLFDGWLHIVRGDWDDALRLLREL 70 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHh-----CCC-chHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 4455666667777777777766666555544432 111 2346678888888888888888888775
No 317
>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=47.65 E-value=47 Score=22.33 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=19.8
Q ss_pred hccccHHHHHHHhCCChHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELS 286 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~ 286 (340)
...|+=..||+.+|+++.+|-+.++
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 5789999999999999999988764
No 318
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=47.25 E-value=2.7e+02 Score=26.76 Aligned_cols=33 Identities=21% Similarity=0.308 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 019472 48 ESEVREAHLAKSLFYIQIGDKEKALEQLKVTES 80 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~ 80 (340)
+.+...+++.||++|.+.|+.+.|+++-+.+.+
T Consensus 65 d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~ 97 (389)
T COG2956 65 DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLE 97 (389)
T ss_pred CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhc
Confidence 345688999999999999999999998877664
No 319
>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=47.13 E-value=52 Score=26.32 Aligned_cols=35 Identities=17% Similarity=0.355 Sum_probs=32.1
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
..++.+.||+.+|+|...+.+.+..|...|-+...
T Consensus 24 ~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~ 58 (132)
T TIGR00738 24 GPVSVKEIAERQGISRSYLEKILRTLRRAGLVESV 58 (132)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 37999999999999999999999999999988653
No 320
>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=46.88 E-value=44 Score=20.98 Aligned_cols=28 Identities=25% Similarity=0.313 Sum_probs=21.4
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 266 TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
++..+|+.+|++...+-++ +..|.+.+.
T Consensus 2 s~~e~a~~lgvs~~tl~~~----~~~g~~~~~ 29 (49)
T cd04762 2 TTKEAAELLGVSPSTLRRW----VKEGKLKAI 29 (49)
T ss_pred CHHHHHHHHCcCHHHHHHH----HHcCCCCce
Confidence 6789999999998886555 556777654
No 321
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=46.86 E-value=3.1e+02 Score=27.41 Aligned_cols=87 Identities=16% Similarity=0.152 Sum_probs=54.9
Q ss_pred hCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChh-hhhHhhHHHHHhccccC
Q 019472 65 IGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWE-RKNRLKVYEGLYCMSTR 143 (340)
Q Consensus 65 ~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~-~~~~l~~~~gl~~l~~r 143 (340)
.++...|-+++...+...... .=..+..-|+....||.+.+...++++-.. ..+|. ...-..---|..++...
T Consensus 246 ~~~~~~a~~lL~~~~~~yP~s---~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~---q~~~~Ql~~l~~~El~w~~~~~~ 319 (468)
T PF10300_consen 246 DVPLEEAEELLEEMLKRYPNS---ALFLFFEGRLERLKGNLEEAIESFERAIES---QSEWKQLHHLCYFELAWCHMFQH 319 (468)
T ss_pred CCCHHHHHHHHHHHHHhCCCc---HHHHHHHHHHHHHhcCHHHHHHHHHHhccc---hhhHHhHHHHHHHHHHHHHHHHc
Confidence 356777888888777655321 122344557777778888877777765421 12222 22222233467788999
Q ss_pred CHHHHHHHHHhccc
Q 019472 144 NFKKAASLFLDSIS 157 (340)
Q Consensus 144 ~y~~Aa~~F~e~~~ 157 (340)
+|.+|+.+|.....
T Consensus 320 ~w~~A~~~f~~L~~ 333 (468)
T PF10300_consen 320 DWEEAAEYFLRLLK 333 (468)
T ss_pred hHHHHHHHHHHHHh
Confidence 99999999998754
No 322
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=46.66 E-value=86 Score=25.55 Aligned_cols=46 Identities=13% Similarity=0.066 Sum_probs=40.8
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEE
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 307 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~ 307 (340)
...++.+.||+.+|++...+-..+.+|...|-|.=.-|..++-...
T Consensus 52 ~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~ 97 (144)
T PRK11512 52 AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVL 97 (144)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeE
Confidence 3579999999999999999999999999999999888888875443
No 323
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=46.58 E-value=2.4e+02 Score=28.82 Aligned_cols=198 Identities=16% Similarity=0.111 Sum_probs=0.0
Q ss_pred ccCCCCcchhHhhhhhhcchHHHHhhcc-------------------ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCH
Q 019472 8 IMRSPPPPSFGHLCLLLSYLVVISFVMP-------------------LSRIADAEENLGESEVREAHLAKSLFYIQIGDK 68 (340)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~ 68 (340)
|-.++-+|||+ |+...-|+|.+... +.-+++.++.+++-----++.++-++|....++
T Consensus 145 ik~sk~a~~f~---Ka~yrfI~~~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~ 221 (711)
T COG1747 145 IKKSKAAEFFG---KALYRFIPRRQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENW 221 (711)
T ss_pred hchhhHHHHHH---HHHHHhcchhhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCH
Q ss_pred HHHHHHHHHHHhhhccchhHHHhHHHHHHH----------HHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHh
Q 019472 69 EKALEQLKVTESKTVAVGQKMDLVFYTLQL----------GFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLY 138 (340)
Q Consensus 69 ~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~----------~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~ 138 (340)
.+|++++..+.+.-...-..-.-...-+|. ++-.+|.+..-.+...+-.-.+. ++
T Consensus 222 ~eai~Ilk~il~~d~k~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~~~l~dFek---------------~m 286 (711)
T COG1747 222 TEAIRILKHILEHDEKDVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFFEALNDFEK---------------LM 286 (711)
T ss_pred HHHHHHHHHHhhhcchhhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHHHHHHHHHH---------------Hh
Q ss_pred ccccCCH---------HHHHHHH-HhccccCCcCccCCHhHHHHHHHHHHhhhcChhH--HHHhccCChHHHHHhcCcch
Q 019472 139 CMSTRNF---------KKAASLF-LDSISTFTTYELFPYDTFIFYTVLTSIISLDRVS--LKQKVVDAPEILTVIGKIPY 206 (340)
Q Consensus 139 ~l~~r~y---------~~Aa~~F-~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~--l~~~ll~~~~~~~~l~~~p~ 206 (340)
++++||| .-+--.| -...-.| +-..+.++..=+++.++-.++|.+ +..++.+-.++-.+...+|.
T Consensus 287 ~f~eGnFVfHqtWgVG~i~~VsfqqkvlidF---~~~rah~I~femA~saL~pLs~edi~vlk~v~~~d~laa~arkdpe 363 (711)
T COG1747 287 HFDEGNFVFHQTWGVGEIMGVSFQQKVLIDF---EGRRAHDISFEMAFSALQPLSKEDIFVLKRVGDPDDLAAFARKDPE 363 (711)
T ss_pred eeccCceEEecccccceeeecccccceeeee---hhhhhhhhhHHHHHHHhCcCCccceehhhhcCCHHHHHHHHhhChH
Q ss_pred --HHHHHHHHHhccHHHHHHHH
Q 019472 207 --LSEFLNSLYDCQYKSFFSAF 226 (340)
Q Consensus 207 --l~~ll~af~~~~~~~~~~~L 226 (340)
+.-++++|-.++.++.-+.|
T Consensus 364 wAikviiks~~~~nlKeIK~EL 385 (711)
T COG1747 364 WAIKVIIKSLGPKNLKEIKQEL 385 (711)
T ss_pred HHHHHHHHhcCCccHHHHHHHH
No 324
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=46.50 E-value=1.5e+02 Score=27.24 Aligned_cols=63 Identities=10% Similarity=0.063 Sum_probs=49.9
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 121 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~ 121 (340)
.+..|++|.+.|.+-.|..-++.+.+...+..+.-+....+.+.....|-...+. ++.+.+..
T Consensus 170 Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~----~~~~vl~~ 232 (254)
T COG4105 170 EMAIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAK----KTAKVLGA 232 (254)
T ss_pred HHHHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHH----HHHHHHHh
Confidence 6688999999999999999999999888777777777777777777777666654 45555543
No 325
>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=46.17 E-value=39 Score=29.30 Aligned_cols=33 Identities=18% Similarity=0.271 Sum_probs=30.3
Q ss_pred ccHHHHHHHhCCC-hHHHHHHHHHHhhCCccceE
Q 019472 265 VTIEAMAKAFGVT-VEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 265 I~l~~mA~~~g~~-~~~vE~~L~~lI~~g~l~ak 297 (340)
.+...||+.+|++ ...+-..|..|...|-|...
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~ 59 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIERD 59 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecC
Confidence 7899999999998 99999999999999988654
No 326
>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=46.09 E-value=1.7e+02 Score=26.94 Aligned_cols=32 Identities=22% Similarity=0.360 Sum_probs=28.8
Q ss_pred cccHHHHHHHhCCChHHHHHHHH-HHhhCCccc
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELS-RFIAAGKLH 295 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~-~lI~~g~l~ 295 (340)
.++++.+|+.+|+++..++..+. .||..|-|.
T Consensus 255 ~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~ 287 (305)
T TIGR00635 255 PVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQ 287 (305)
T ss_pred cccHHHHHHHhCCCcchHHHhhhHHHHHcCCcc
Confidence 47899999999999999999999 699988883
No 327
>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=45.94 E-value=52 Score=23.01 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=18.3
Q ss_pred HhCCChHHHHHHHHHHhhCCccceE
Q 019472 273 AFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 273 ~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
.++.+.++++..|.+++.+|+|.+.
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 3466889999999999999999764
No 328
>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=45.80 E-value=83 Score=21.47 Aligned_cols=60 Identities=20% Similarity=0.178 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccC-CHHHHHHHHHhcc
Q 019472 91 LVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTR-NFKKAASLFLDSI 156 (340)
Q Consensus 91 ~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r-~y~~Aa~~F~e~~ 156 (340)
.+...-...+..+++..+...+.++-.. +|. ...+....|..+...+ +|.+|...|-.++
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~-----~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al 65 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIEL-----DPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKAL 65 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHH-----STT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHc-----CCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence 3445556677789999999999887764 222 2335566777888888 7999998887654
No 329
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=45.78 E-value=85 Score=32.05 Aligned_cols=92 Identities=18% Similarity=0.159 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHH---HHHhcCHHHHHhHHHHHHHHHhcCCChhhhhH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQL---GFFYMDFDLISKSIDKAKSLFEEGGDWERKNR 130 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~---~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~ 130 (340)
..+..|-+|+-+|.+++|-+++++.- +.+...- -+|+.. .-.++..+.+...+.+|..++.+..-|.
T Consensus 314 sW~aVg~YYl~i~k~seARry~SKat----~lD~~fg--paWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~---- 383 (611)
T KOG1173|consen 314 SWFAVGCYYLMIGKYSEARRYFSKAT----TLDPTFG--PAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPS---- 383 (611)
T ss_pred chhhHHHHHHHhcCcHHHHHHHHHHh----hcCcccc--HHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchH----
Confidence 46788899999999999998888653 2112111 122222 2245667888888888888877655566
Q ss_pred hhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 131 LKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 131 l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
.+-|+-++...+++.|-+.|.++..
T Consensus 384 --LYlgmey~~t~n~kLAe~Ff~~A~a 408 (611)
T KOG1173|consen 384 --LYLGMEYMRTNNLKLAEKFFKQALA 408 (611)
T ss_pred --HHHHHHHHHhccHHHHHHHHHHHHh
Confidence 7888888999999999999988754
No 330
>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=45.75 E-value=95 Score=30.42 Aligned_cols=92 Identities=13% Similarity=0.128 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH-HhcCCChhhhhHhh
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL-FEEGGDWERKNRLK 132 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~-l~~~~~~~~~~~l~ 132 (340)
...-+|+++...++-.+|.+.+.+........ .++...+.+..+..++++.|.....+|-.+ .+....|.
T Consensus 202 v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d---~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~------ 272 (395)
T PF09295_consen 202 VAVLLARVYLLMNEEVEAIRLLNEALKENPQD---SELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWY------ 272 (395)
T ss_pred HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHH------
Confidence 34568999999999999999998887544322 455556677777888898888877776554 23233454
Q ss_pred HHHHHhccccCCHHHHHHHHHhc
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.-+..++..++|..|....=.+
T Consensus 273 -~La~~Yi~~~d~e~ALlaLNs~ 294 (395)
T PF09295_consen 273 -QLAECYIQLGDFENALLALNSC 294 (395)
T ss_pred -HHHHHHHhcCCHHHHHHHHhcC
Confidence 3445667888888887655554
No 331
>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=45.49 E-value=44 Score=21.37 Aligned_cols=28 Identities=29% Similarity=0.214 Sum_probs=22.2
Q ss_pred cHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 266 TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
+++.+|+.+|+++..+..| +..|.+.+.
T Consensus 2 ~~~e~a~~~gv~~~tlr~~----~~~g~l~~~ 29 (49)
T cd04761 2 TIGELAKLTGVSPSTLRYY----ERIGLLSPA 29 (49)
T ss_pred cHHHHHHHHCcCHHHHHHH----HHCCCCCCC
Confidence 6789999999999987666 667777643
No 332
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=45.49 E-value=2.2e+02 Score=31.36 Aligned_cols=73 Identities=21% Similarity=0.167 Sum_probs=37.1
Q ss_pred HHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHH-HHHHhccccCCcCccCCHhHHHHHHHHHH
Q 019472 100 FFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAA-SLFLDSISTFTTYELFPYDTFIFYTVLTS 178 (340)
Q Consensus 100 i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa-~~F~e~~~~f~~~e~~~~~~~~~Y~~L~a 178 (340)
++.+++....+...+|-++.++..|- .+-++.+.+.+...+-+.++ ...+++. ..++.+..--..||+
T Consensus 1049 Ffkndf~~sl~~fe~aLsis~se~d~----vvLl~kva~~~g~~~~k~~A~~lLfe~~-------~ls~~~~~sll~L~A 1117 (1238)
T KOG1127|consen 1049 FFKNDFFSSLEFFEQALSISNSESDK----VVLLCKVAVCMGLARQKNDAQFLLFEVK-------SLSKVQASSLLPLPA 1117 (1238)
T ss_pred HHHhHHHHHHHHHHHHhhhcccccch----hhhhHHHHHHHhhcccchHHHHHHHHHH-------HhCccchhhHHHHHH
Confidence 55667777777777766665543221 12234444555544444433 3444542 233444445566666
Q ss_pred hhhcC
Q 019472 179 IISLD 183 (340)
Q Consensus 179 l~s~~ 183 (340)
+...+
T Consensus 1118 ~~ild 1122 (1238)
T KOG1127|consen 1118 VYILD 1122 (1238)
T ss_pred HHHHh
Confidence 66543
No 333
>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=45.42 E-value=65 Score=22.49 Aligned_cols=40 Identities=15% Similarity=0.238 Sum_probs=31.6
Q ss_pred HHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 256 SQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 256 ~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
..++-.+-+.++..+++..++|.+.+-+-|+-||.-+-+.
T Consensus 19 ~~~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 19 GEVLLSRGRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp HHHHHHC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCee
Confidence 4455567899999999999999999999999999987654
No 334
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=45.17 E-value=40 Score=28.02 Aligned_cols=46 Identities=22% Similarity=0.279 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQL 98 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~ 98 (340)
.++.++|+..|++.|+|.+|+..+.+..+...+.. .++..+-..-+
T Consensus 47 ~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp-~vdYa~Y~~gL 92 (142)
T PF13512_consen 47 EQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP-NVDYAYYMRGL 92 (142)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC-CccHHHHHHHH
Confidence 67899999999999999999999999887663322 34544444433
No 335
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=44.96 E-value=53 Score=27.04 Aligned_cols=46 Identities=17% Similarity=0.270 Sum_probs=34.1
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..++.|=..-|.-....| +.-.+.+.||+.+|+|+..|...+.+..
T Consensus 102 ~~l~~Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Rar 147 (160)
T PRK09642 102 QKLRELPENYRDVVLAHY---LEEKSYQEIALQEKIEVKTVEMKLYRAR 147 (160)
T ss_pred HHHHhCCHHHHHHHHHHH---HhCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 334444444555555667 7899999999999999999988887643
No 336
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=44.81 E-value=56 Score=26.60 Aligned_cols=43 Identities=9% Similarity=0.152 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|-..-|.-....| +...+.+.||+.+|+|+..|...+.+.+
T Consensus 105 ~~L~~~~r~ii~l~~---~~~~s~~EIA~~l~is~~tV~~~~~ra~ 147 (154)
T PRK06759 105 SVLDEKEKYIIFERF---FVGKTMGEIALETEMTYYQVRWIYRQAL 147 (154)
T ss_pred HhCCHHHHHHHHHHH---hcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333333344344566 6788999999999999999999988754
No 337
>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=44.28 E-value=46 Score=32.74 Aligned_cols=98 Identities=8% Similarity=-0.013 Sum_probs=67.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhcc-chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVA-VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKV 133 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~-~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~ 133 (340)
...-|+-.++.|.|..|.++|++...--.+ ..-..-.+++...+.+-.|+...+...-+.|-.+ |+. -.+-..
T Consensus 252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i-----D~s-yikall 325 (486)
T KOG0550|consen 252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI-----DSS-YIKALL 325 (486)
T ss_pred HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc-----CHH-HHHHHH
Confidence 445588899999999999999998753322 1223456777777888888887777666665553 222 111224
Q ss_pred HHHHhccccCCHHHHHHHHHhcccc
Q 019472 134 YEGLYCMSTRNFKKAASLFLDSIST 158 (340)
Q Consensus 134 ~~gl~~l~~r~y~~Aa~~F~e~~~~ 158 (340)
..|..++.-++|.+|.+.|-.+...
T Consensus 326 ~ra~c~l~le~~e~AV~d~~~a~q~ 350 (486)
T KOG0550|consen 326 RRANCHLALEKWEEAVEDYEKAMQL 350 (486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4567788888999999999887643
No 338
>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]
Probab=43.70 E-value=1.3e+02 Score=27.71 Aligned_cols=97 Identities=6% Similarity=-0.070 Sum_probs=61.1
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHh---hhcc---c---------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTES---KTVA---V---------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF 119 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~---~~~~---~---------~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l 119 (340)
...-|+-+++.|+|.+|...|....- ..+. | ....-.+++-.++.+..+++..+....+.+-.
T Consensus 181 l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~seiL~-- 258 (329)
T KOG0545|consen 181 LHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSEILR-- 258 (329)
T ss_pred HHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHHHHh--
Confidence 55668889999999999988877542 2111 1 23445777888888888999888766554333
Q ss_pred hcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccc
Q 019472 120 EEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 120 ~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
...+ .. +-..-.|..|.+.-|-.+|-..|..++.
T Consensus 259 -~~~~-nv--KA~frRakAhaa~Wn~~eA~~D~~~vL~ 292 (329)
T KOG0545|consen 259 -HHPG-NV--KAYFRRAKAHAAVWNEAEAKADLQKVLE 292 (329)
T ss_pred -cCCc-hH--HHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence 2111 11 2223345566666677777777777643
No 339
>COG2378 Predicted transcriptional regulator [Transcription]
Probab=43.68 E-value=50 Score=31.19 Aligned_cols=53 Identities=28% Similarity=0.364 Sum_probs=44.2
Q ss_pred HHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCC
Q 019472 248 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAG 303 (340)
Q Consensus 248 ~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g 303 (340)
...|.-.+.+++.....++-..||+.||+|...+.+.+..+=..|-= |+...|
T Consensus 6 ka~RL~~ii~~L~~~~~vta~~lA~~~~VS~RTi~RDi~~L~~~gvP---I~~e~G 58 (311)
T COG2378 6 KAERLLQIIQILRAKETVTAAELADEFEVSVRTIYRDIATLRAAGVP---IEGERG 58 (311)
T ss_pred HHHHHHHHHHHHHhCccchHHHHHHhcCCCHHHHHHHHHHHHHCCCC---eEeecC
Confidence 44577778999999999999999999999999999999988777643 555544
No 340
>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=43.65 E-value=2.5e+02 Score=27.48 Aligned_cols=87 Identities=8% Similarity=0.125 Sum_probs=59.3
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHH
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEG 136 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~g 136 (340)
.|.+++-..|.++.|.+++.++.+.-. +....++++.+..++-..+...+.+ .+.... . -..+-..++
T Consensus 174 ~Ll~~l~~t~~~~~ai~lle~L~~~~p------ev~~~LA~v~l~~~~E~~AI~ll~~---aL~~~p--~-d~~LL~~Qa 241 (395)
T PF09295_consen 174 TLLKYLSLTQRYDEAIELLEKLRERDP------EVAVLLARVYLLMNEEVEAIRLLNE---ALKENP--Q-DSELLNLQA 241 (395)
T ss_pred HHHHHHhhcccHHHHHHHHHHHHhcCC------cHHHHHHHHHHhcCcHHHHHHHHHH---HHHhCC--C-CHHHHHHHH
Confidence 356677778999999999999886542 2345577788777766555544444 333211 1 155667788
Q ss_pred HhccccCCHHHHHHHHHhc
Q 019472 137 LYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 137 l~~l~~r~y~~Aa~~F~e~ 155 (340)
-+++..++|..|....-.+
T Consensus 242 ~fLl~k~~~~lAL~iAk~a 260 (395)
T PF09295_consen 242 EFLLSKKKYELALEIAKKA 260 (395)
T ss_pred HHHHhcCCHHHHHHHHHHH
Confidence 8899999999888777665
No 341
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=43.46 E-value=63 Score=27.05 Aligned_cols=49 Identities=8% Similarity=-0.039 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHhhhccchhHHHhHHHHH
Q 019472 48 ESEVREAHLAKSLFYIQIG-DKEKALEQLKVTESKTVAVGQKMDLVFYTL 96 (340)
Q Consensus 48 ~~~ir~~~~~La~~~~~~G-d~~~A~~~l~~~~~~~~~~~~~i~~~l~~i 96 (340)
.+.-......+|+-+...| +..+|+.++.+...-|..|...+.++-..+
T Consensus 86 ~E~~Fl~eV~~GE~L~~~g~~~~ega~hf~nAl~Vc~qP~~LL~iyq~tl 135 (148)
T TIGR00985 86 KEAFFLQEVQLGEELMAQGTNVDEGAVHFYNALKVYPQPQQLLSIYQQTL 135 (148)
T ss_pred HHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCCHHHHHHHHHhhC
Confidence 3445667889999999999 999999999999999988888777654443
No 342
>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=43.14 E-value=77 Score=29.37 Aligned_cols=39 Identities=18% Similarity=0.351 Sum_probs=36.1
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
-+-++++.+.+.+|++..-+-..+.++|..|++.|+|-.
T Consensus 190 T~Pt~l~~l~~~~~~~~~l~~~il~~Li~~~~l~G~i~G 228 (272)
T PF09743_consen 190 TRPTPLSSLLKRYGFEEKLFQSILEELIKSGELPGSIVG 228 (272)
T ss_pred ccceEHHHHHHHhCCcHHHHHHHHHHHHhcCcceEEEEC
Confidence 456899999999999999999999999999999999877
No 343
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481
Probab=43.03 E-value=38 Score=25.53 Aligned_cols=37 Identities=24% Similarity=0.285 Sum_probs=30.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
...++...|+.||+|...+-+|+.++-.+|. .|-.|.
T Consensus 24 ~g~~~a~aA~~~gVS~~Ta~kW~~Ryra~G~-~GL~DR 60 (85)
T PF13011_consen 24 QGWPVAHAAAEFGVSRRTAYKWLARYRAEGE-AGLQDR 60 (85)
T ss_pred cCCcHHHHHHHhCCCHHHHHHHHHHHHHcCc-cccccc
Confidence 3567899999999999999999999999874 344443
No 344
>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=42.79 E-value=1.7e+02 Score=23.26 Aligned_cols=63 Identities=11% Similarity=0.012 Sum_probs=47.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhc-cchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTV-AVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~-~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
.+..+...+..|+++.|...+++.+-... .+-...-..+..++.++..+|+.++..-+.+.--
T Consensus 12 el~~a~~a~~~~~~~~aw~hLErAHIlgQ~~~~~H~~~H~~ML~~a~r~rd~rEv~GQ~~Rl~~ 75 (112)
T PF12487_consen 12 ELEAAREALAAGDLQQAWRHLERAHILGQPYPWLHTRVHWAMLRFALRQRDRREVLGQLLRLIV 75 (112)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhhHHhcCCchhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence 55667788888999999999998774331 2233456778899999999999999776665443
No 345
>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=42.64 E-value=1.1e+02 Score=25.84 Aligned_cols=66 Identities=14% Similarity=0.174 Sum_probs=40.9
Q ss_pred chhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 85 VGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 85 ~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
++..+.-.+..+.+++...+...+...+.-.+-+- |. ...++.+.|..++..|+|.+|...|-+..
T Consensus 6 s~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLr-----P~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~ 71 (153)
T TIGR02561 6 SNRLLGGLIEVLMYALRSADPYDAQAMLDALRVLR-----PN-LKELDMFDGWLLIARGNYDEAARILRELL 71 (153)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-----CC-ccccchhHHHHHHHcCCHHHHHHHHHhhh
Confidence 33445555666666777776666665555444421 11 12355778888888888888888887763
No 346
>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=42.23 E-value=27 Score=21.96 Aligned_cols=19 Identities=26% Similarity=0.408 Sum_probs=14.6
Q ss_pred cHHHHHHHhCCChHHHHHH
Q 019472 266 TIEAMAKAFGVTVEFIDVE 284 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~ 284 (340)
++..||+.||++.+++.++
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 5789999999999988664
No 347
>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=42.12 E-value=33 Score=23.04 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=19.3
Q ss_pred cccHHHHHHHhCCChHHHHHHHHH
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
.+++..+|+.+|+++.++-+.|.+
T Consensus 3 ~i~V~elAk~l~v~~~~ii~~l~~ 26 (54)
T PF04760_consen 3 KIRVSELAKELGVPSKEIIKKLFK 26 (54)
T ss_dssp EE-TTHHHHHHSSSHHHHHHHH-H
T ss_pred ceEHHHHHHHHCcCHHHHHHHHHH
Confidence 578999999999999998777733
No 348
>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=41.97 E-value=72 Score=23.12 Aligned_cols=36 Identities=25% Similarity=0.397 Sum_probs=24.3
Q ss_pred HHHHHHHHhhh--hhccccHHHHHHHhCCChHHHHHHH
Q 019472 250 VRTVVYSQFLE--SYKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 250 ir~~~l~q~i~--pYs~I~l~~mA~~~g~~~~~vE~~L 285 (340)
=|.-++.+|+- |.+-|+|.+.|+.|+..-..+-+.|
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 35556677765 9999999999999999776665554
No 349
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.41 E-value=2.5e+02 Score=25.84 Aligned_cols=66 Identities=11% Similarity=-0.139 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
-++++=||+.++..|||++|...|..+........+-=|+.+.+-.+....++.+.+...+.++-.
T Consensus 178 ~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k 243 (262)
T COG1729 178 PNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK 243 (262)
T ss_pred chhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 567899999999999999999999888866654444457777777777888888888877776544
No 350
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=41.41 E-value=64 Score=26.37 Aligned_cols=41 Identities=12% Similarity=0.102 Sum_probs=34.2
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
|..+......++++.+|+.+|++...+-..|.+|...|-|.
T Consensus 13 I~~l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 13 IYLLIEEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred HHHHHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEE
Confidence 33444445667899999999999999999999999999876
No 351
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=41.33 E-value=62 Score=30.36 Aligned_cols=25 Identities=16% Similarity=0.278 Sum_probs=14.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTE 79 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~ 79 (340)
+...|..|.+.|.|+.|.+-.....
T Consensus 118 ycNRAAAy~~Lg~~~~AVkDce~Al 142 (304)
T KOG0553|consen 118 YCNRAAAYSKLGEYEDAVKDCESAL 142 (304)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHH
Confidence 3345666666666666666555443
No 352
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=41.18 E-value=35 Score=21.98 Aligned_cols=25 Identities=28% Similarity=0.468 Sum_probs=17.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
.-.++..||+.||.+...|-++|.+
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 353
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.18 E-value=1.4e+02 Score=32.00 Aligned_cols=36 Identities=25% Similarity=0.251 Sum_probs=28.6
Q ss_pred hhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Q 019472 45 NLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTES 80 (340)
Q Consensus 45 n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~ 80 (340)
++..+-++..+.+.|++.++.||+++|...|-+...
T Consensus 361 ~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~ 396 (933)
T KOG2114|consen 361 HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIG 396 (933)
T ss_pred CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcc
Confidence 334445677799999999999999999998876543
No 354
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=41.14 E-value=26 Score=37.37 Aligned_cols=27 Identities=22% Similarity=0.170 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVT 78 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~ 78 (340)
|..++..|.++...||.+.|+++|++.
T Consensus 858 r~Tyy~yA~~Lear~Di~~AleyyEK~ 884 (1416)
T KOG3617|consen 858 RNTYYNYAKYLEARRDIEAALEYYEKA 884 (1416)
T ss_pred hhhHHHHHHHHHhhccHHHHHHHHHhc
Confidence 778899999999999999999998864
No 355
>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=41.07 E-value=1.4e+02 Score=23.16 Aligned_cols=55 Identities=13% Similarity=0.258 Sum_probs=31.5
Q ss_pred HHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 231 EQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 231 ~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
..+....+--|....+...+|.+.|.+- |.--+...+|..+|+|...|-+-|.+.
T Consensus 42 ~~~gG~~iyiP~~~~~~~~~R~~~I~~~---f~G~n~~eLA~kyglS~r~I~~Ii~~~ 96 (108)
T PF08765_consen 42 RYFGGQQIYIPKCDRLLRALRNREIRRE---FNGMNVRELARKYGLSERQIYRIIKRV 96 (108)
T ss_dssp HHH-SS------SHHHHHHHHHHHHHHH-----SS-HHHHHHHHT--HHHHHHHHHHH
T ss_pred HHHCCEeEEeeCccHHHHHHHHHHHHHH---hCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 3344444444555667777887666665 678899999999999998887766553
No 356
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=40.96 E-value=2.6e+02 Score=25.71 Aligned_cols=94 Identities=15% Similarity=0.025 Sum_probs=65.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
...+|+-++..|+|.+|...+.+....-.+... .+..+--++-..|+...+..-+.++..+. +.+|...+-
T Consensus 103 l~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~---~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~--~~~p~~~nN---- 173 (257)
T COG5010 103 LAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWE---AWNLLGAALDQLGRFDEARRAYRQALELA--PNEPSIANN---- 173 (257)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHhccCCCChh---hhhHHHHHHHHccChhHHHHHHHHHHHhc--cCCchhhhh----
Confidence 334899999999999999999887755433322 22222333445689999999999888864 334553332
Q ss_pred HHHhccccCCHHHHHHHHHhccc
Q 019472 135 EGLYCMSTRNFKKAASLFLDSIS 157 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~ 157 (340)
-|..++-.+|+.+|..+++....
T Consensus 174 lgms~~L~gd~~~A~~lll~a~l 196 (257)
T COG5010 174 LGMSLLLRGDLEDAETLLLPAYL 196 (257)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHh
Confidence 35677889999999999998743
No 357
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=40.90 E-value=98 Score=25.12 Aligned_cols=43 Identities=14% Similarity=0.100 Sum_probs=38.0
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
.++.+.||+.+|++...+-+.+.+|...|-|.=.-|+.++-..
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~ 88 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAK 88 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCee
Confidence 4678999999999999999999999999999988888776543
No 358
>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=40.89 E-value=1e+02 Score=27.21 Aligned_cols=63 Identities=14% Similarity=0.246 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
..+.+.|+.++..--+.|=+.+ +=..||+.||+|...+-+-|..|..+|.|.-+ +..|+.+..
T Consensus 11 ~~i~~~l~~~I~~g~~~~G~~LPsE~eLa~~~~VSR~TvR~Al~~L~~eGli~r~--~G~GtfV~~ 74 (238)
T TIGR02325 11 RQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAE--QGRGTFVAA 74 (238)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCCEEEECC
Confidence 4555666666666566666666 78899999999999999999999999999765 677777754
No 359
>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=40.87 E-value=31 Score=21.63 Aligned_cols=20 Identities=30% Similarity=0.293 Sum_probs=15.4
Q ss_pred cHHHHHHHhCCChHHHHHHH
Q 019472 266 TIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~L 285 (340)
+|..+|+.+|++++.+-.+=
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 360
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=40.71 E-value=66 Score=27.05 Aligned_cols=44 Identities=11% Similarity=0.222 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|-..-|.-.+..| +.-.+.+.||+.+|+|+..|...+.+..
T Consensus 127 l~~L~~~~r~i~~l~~---~~g~s~~eIA~~lgis~~tV~~~l~Rar 170 (179)
T PRK12514 127 LEELEKDRAAAVRRAY---LEGLSYKELAERHDVPLNTMRTWLRRSL 170 (179)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCChHHHHHHHHHHH
Confidence 3444444455555666 6777899999999999999988887643
No 361
>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=40.60 E-value=40 Score=26.85 Aligned_cols=37 Identities=22% Similarity=0.232 Sum_probs=31.7
Q ss_pred HHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 253 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 253 ~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|.++++-+..+++..+|+.||++...+-..|-++=
T Consensus 60 ~~L~~~v~~~pd~tl~Ela~~l~Vs~~ti~~~Lkrlg 96 (119)
T PF01710_consen 60 DELKALVEENPDATLRELAERLGVSPSTIWRALKRLG 96 (119)
T ss_pred HHHHHHHHHCCCcCHHHHHHHcCCCHHHHHHHHHHcC
Confidence 3477788889999999999999999999988887653
No 362
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=40.45 E-value=58 Score=26.12 Aligned_cols=34 Identities=9% Similarity=0.150 Sum_probs=25.9
Q ss_pred HHHhhh--hhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 255 YSQFLE--SYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 255 l~q~i~--pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+.+|+. +...++++.+|+.+|+++..+.+...+.
T Consensus 14 ~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~~ 49 (127)
T PRK11511 14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKE 49 (127)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 344444 3567999999999999999888777654
No 363
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=40.39 E-value=31 Score=26.23 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=21.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHH
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L 285 (340)
+.++++.+|..+|+|++.+|+.|
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL 44 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVL 44 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHH
Confidence 78999999999999999999876
No 364
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=40.25 E-value=32 Score=30.40 Aligned_cols=33 Identities=18% Similarity=0.386 Sum_probs=28.2
Q ss_pred HhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 257 QFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 257 q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
-|+..=++++++.||+.||++...+...|.+..
T Consensus 171 GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 171 GYFDYPRRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred CCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 477756999999999999999998888887654
No 365
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=40.01 E-value=60 Score=27.52 Aligned_cols=42 Identities=12% Similarity=0.163 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
..|-..-|.-....| +...+.+.||+.||+|+..+...+.+.
T Consensus 136 ~~L~~~~r~i~~l~~---~~g~s~~eIA~~lgis~~~v~~~l~Ra 177 (187)
T PRK12534 136 AELEPPRSELIRTAF---FEGITYEELAARTDTPIGTVKSWIRRG 177 (187)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCChhHHHHHHHHH
Confidence 333333344344455 688999999999999999999888764
No 366
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=39.92 E-value=9.6 Score=38.90 Aligned_cols=247 Identities=13% Similarity=0.073 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVY 134 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~ 134 (340)
.+.-++.+.+.|++..|...+.++...-.++.+..+..+...++.+..+++..+...++.... ...++..+.++...
T Consensus 27 ~L~Aa~a~l~~g~~~~A~~ll~~l~~~~L~~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~~---~~l~~~~~~~~~~l 103 (536)
T PF04348_consen 27 LLLAARALLQEGDWAQAQALLNQLDPQQLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDL---WQLPPEQQARYHQL 103 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHhCCCHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCc---ccCCHHHHHHHHHH
Confidence 667789999999999999999998855556677888888889999999999999887765222 11233455666666
Q ss_pred HHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHH-hccCChHHHHHhcCcchHHHHHHH
Q 019472 135 EGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQ-KVVDAPEILTVIGKIPYLSEFLNS 213 (340)
Q Consensus 135 ~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~-~ll~~~~~~~~l~~~p~l~~ll~a 213 (340)
.+-.+-..+++..|+...+..-+-.+.........-..+- .+...+..++.. .--.++.+.. |+ +|...
T Consensus 104 ~A~a~~~~~~~l~Aa~~~i~l~~lL~d~~~~~~N~~~iW~---~L~~l~~~~L~~~~~~~~~~l~G------Wl-~La~i 173 (536)
T PF04348_consen 104 RAQAYEQQGDPLAAARERIALDPLLPDPQERQENQDQIWQ---ALSQLPPEQLQQLRRASEPDLQG------WL-ELALI 173 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHhcCCHHHHHHHHHHHhhhcCChHHHHHHHHHHHH---HHHcCCHHHHHhhhcCCCHHHHH------HH-HHHHH
Confidence 7777777888998888766542211111111111222222 222333444432 0111122211 22 23332
Q ss_pred HHh--ccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhC
Q 019472 214 LYD--CQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAA 291 (340)
Q Consensus 214 f~~--~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~ 291 (340)
+.. .+-......++.........|-. ..+-..+.. + ........++||=.+-+|-... ...+.|.+
T Consensus 174 ~~~~~~~p~~l~~al~~Wq~~yP~HPA~----~~lP~~l~~--~----~~~~~~~~~~IavLLPlsG~~a--~~~~aI~~ 241 (536)
T PF04348_consen 174 YRQYQQDPAQLKQALNQWQQRYPNHPAA----QYLPAALQQ--L----LALQPAPPQRIAVLLPLSGRLA--RAGQAIRD 241 (536)
T ss_dssp ----------------------------------------------------------EEEEE--SSTTH--HHHHHHHH
T ss_pred HHhccCCHHHHHHHHHHHHHhCcCCccc----ccCCHHHHH--H----HhhccCCccCEEEEeCCCCchh--HHHHHHHH
Confidence 222 12223333333333322222211 111111111 0 1112223456666666665543 46888888
Q ss_pred CccceE--EecCCCEEEEcCCCc--chHHHHHHHHhhHH
Q 019472 292 GKLHCK--IDKVAGVLETNRPDA--KNALYQATIKQGDF 326 (340)
Q Consensus 292 g~l~ak--ID~~~g~l~~~~~~~--r~~~y~~~l~~~~~ 326 (340)
|-+.|. -....-.|.+.+.+. -...|++++..|-+
T Consensus 242 G~~aA~~~~~~~~~~l~~~Dt~~~~~~~~~~~a~~~ga~ 280 (536)
T PF04348_consen 242 GFLAAYYADADSRPELRFYDTNADSADALYQQAVADGAD 280 (536)
T ss_dssp HHHHHH---TT--S-EEEEETTTS-HHHHHHHHHHTT--
T ss_pred HHHHhhcccccCCCceEEecCCCCCHHHHHHHHHHcCCC
Confidence 888776 122223466665543 35678888776643
No 367
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=39.81 E-value=71 Score=26.50 Aligned_cols=47 Identities=17% Similarity=0.111 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
..+..|=..-|.-....| +.-.+.+.||+.+|+|+..+...+.+...
T Consensus 108 ~~l~~L~~~~r~v~~l~~---~~g~s~~eIA~~lgis~~tV~~~l~Rar~ 154 (164)
T PRK12547 108 KALNLLSADQREAIILIG---ASGFSYEDAAAICGCAVGTIKSRVSRARN 154 (164)
T ss_pred HHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 344455455555556667 78889999999999999999998877543
No 368
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=39.79 E-value=67 Score=27.21 Aligned_cols=44 Identities=9% Similarity=0.216 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
++.|-..-|.-....| +...+.+.||+.+|+|+..|...+.+..
T Consensus 131 l~~L~~~~r~i~~l~~---~~~~s~~eIA~~lgis~~tV~~~l~ra~ 174 (182)
T PRK12537 131 LEQLEPARRNCILHAY---VDGCSHAEIAQRLGAPLGTVKAWIKRSL 174 (182)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCChhhHHHHHHHHH
Confidence 3333334444445556 7889999999999999999999988754
No 369
>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=39.62 E-value=83 Score=27.87 Aligned_cols=63 Identities=11% Similarity=0.178 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
..+.+.|+.++...-+.|=..+ +-..||+.||+|...|-+-|..|..+|.|.-+ +..|+.+..
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 3455666666666667787888 88999999999999999999999999988543 556776654
No 370
>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=39.40 E-value=37 Score=24.76 Aligned_cols=26 Identities=42% Similarity=0.652 Sum_probs=21.6
Q ss_pred HHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 267 IEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 267 l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
++.+|+.+|++..+ +.+|+.+|+|.+
T Consensus 47 ~~~lAk~~G~t~~~----l~~~~~~Gkit~ 72 (75)
T TIGR02675 47 LQALAKAMGVTRGE----LRKMLSDGKLTA 72 (75)
T ss_pred HHHHHHHhCCCHHH----HHHHHHCCCCcc
Confidence 56889999999775 689999999875
No 371
>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=39.33 E-value=1.2e+02 Score=27.49 Aligned_cols=81 Identities=15% Similarity=0.118 Sum_probs=55.7
Q ss_pred HHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCH-hHHHHHHHHHHhhhcC
Q 019472 105 FDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPY-DTFIFYTVLTSIISLD 183 (340)
Q Consensus 105 ~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~-~~~~~Y~~L~al~s~~ 183 (340)
...+...+++|.....+.+.......+...-|-.++..++|..|...|-.+..+|-.....+. .+++..+.-|+....+
T Consensus 154 s~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~ 233 (247)
T PF11817_consen 154 SKLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGD 233 (247)
T ss_pred HHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCC
Confidence 345556677777766666665666777788888899999999999999888666643333322 3666777777766655
Q ss_pred hh
Q 019472 184 RV 185 (340)
Q Consensus 184 r~ 185 (340)
..
T Consensus 234 ~~ 235 (247)
T PF11817_consen 234 VE 235 (247)
T ss_pred HH
Confidence 43
No 372
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=39.03 E-value=2.5e+02 Score=24.00 Aligned_cols=42 Identities=12% Similarity=0.196 Sum_probs=33.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
.++-+.||+.+|++.+.+-+.+.+|-.+|.|. ...+.|.+.+
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 67789999999999999999999999998763 2345566553
No 373
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=38.57 E-value=1.5e+02 Score=25.96 Aligned_cols=42 Identities=26% Similarity=0.339 Sum_probs=33.4
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
.++-+.||+.+|++.+.+-+.+.+|-.+|.|. ...+.+.+.+
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~----~~~~~i~i~d 225 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLA----VKGKYITIEN 225 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEE----ecCCEEEEcC
Confidence 36778999999999999999999998887664 4445666653
No 374
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=38.56 E-value=1.3e+02 Score=21.05 Aligned_cols=41 Identities=15% Similarity=0.367 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhhhhhccccHHHHHHHhCC-ChHHHHHHHHH
Q 019472 246 YMREVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELSR 287 (340)
Q Consensus 246 l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~-~~~~vE~~L~~ 287 (340)
+....|......++... .++++.+|..+|+ ++..+-+...+
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 34455555566666544 8999999999999 88776665543
No 375
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=38.54 E-value=78 Score=25.89 Aligned_cols=44 Identities=14% Similarity=0.234 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|=..-|.-....| +...+.+.||+.+|+|+..|...+.+.+
T Consensus 104 l~~Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~ra~ 147 (161)
T PRK09047 104 IQKLPARQREAFLLRY---WEDMDVAETAAAMGCSEGSVKTHCSRAT 147 (161)
T ss_pred HHhCCHHHHHHHHHHH---HhcCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444455455566 7888999999999999999988876644
No 376
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=38.42 E-value=77 Score=26.76 Aligned_cols=45 Identities=7% Similarity=0.104 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 242 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 242 h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.+..|=..-|.-....+ +...+.+.||+.+|+|+..+...+.+.+
T Consensus 124 ~l~~Lp~~~R~v~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~rAl 168 (178)
T PRK12529 124 LLDTLRPRVKQAFLMAT---LDGMKQKDIAQALDIALPTVKKYIHQAY 168 (178)
T ss_pred HHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34444444555555666 7889999999999999999999887654
No 377
>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=38.24 E-value=65 Score=21.39 Aligned_cols=28 Identities=21% Similarity=0.362 Sum_probs=23.9
Q ss_pred hhh-ccccHHHHHHHhCCChHHHHHHHHH
Q 019472 260 ESY-KSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 260 ~pY-s~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
.|| +.-.+..||..+|++...|..|..+
T Consensus 22 ~~~P~~~~~~~la~~~~l~~~qV~~WF~n 50 (59)
T cd00086 22 NPYPSREEREELAKELGLTERQVKIWFQN 50 (59)
T ss_pred CCCCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 355 7778999999999999999998765
No 378
>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=37.79 E-value=51 Score=25.59 Aligned_cols=35 Identities=14% Similarity=0.350 Sum_probs=33.5
Q ss_pred hhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 260 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 260 ~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
++...|+.+.+|+..|++.+.+.+.+..||..|-|
T Consensus 50 Kk~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 50 KKMDRISNSQIAEMTGLSRDHVSKALNELIRRGVI 84 (100)
T ss_pred CccceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 57889999999999999999999999999999988
No 379
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=37.74 E-value=2.6e+02 Score=26.26 Aligned_cols=33 Identities=21% Similarity=0.337 Sum_probs=29.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHH-HHhhCCccc
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELS-RFIAAGKLH 295 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~-~lI~~g~l~ 295 (340)
..++++.+|..+|.+.+.+|+.+. .||..|-|.
T Consensus 275 ~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~ 308 (328)
T PRK00080 275 GPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQ 308 (328)
T ss_pred CceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcc
Confidence 469999999999999999999999 899888773
No 380
>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=37.72 E-value=72 Score=27.29 Aligned_cols=41 Identities=10% Similarity=0.052 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 245 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
.|-..-|.-....| |...+.+.||+.+|+|+..+...|.+.
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 33333444444556 788999999999999999998887765
No 381
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=37.55 E-value=2.7e+02 Score=24.41 Aligned_cols=39 Identities=15% Similarity=0.320 Sum_probs=31.2
Q ss_pred HHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcCC
Q 019472 267 IEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNRP 310 (340)
Q Consensus 267 l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~~ 310 (340)
-+.||..+|++.+.+-+.|.+|-..| + .. ..|.|.+.+.
T Consensus 176 ~~~iA~~lG~tretvsR~l~~L~~~g-l--~~--~~~~i~I~d~ 214 (236)
T PRK09392 176 KRVLASYLGMTPENLSRAFAALASHG-V--HV--DGSAVTITDP 214 (236)
T ss_pred HHHHHHHhCCChhHHHHHHHHHHhCC-e--Ee--eCCEEEEcCH
Confidence 36799999999999999999999999 5 23 3467777643
No 382
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=37.47 E-value=78 Score=27.08 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=34.8
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..++.|=..-|.-.+..| |.-.+.+.||+.+|+|+..|...+.+..
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 334455555566666777 7788999999999999999988877643
No 383
>COG1392 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]
Probab=37.38 E-value=1.3e+02 Score=26.84 Aligned_cols=80 Identities=13% Similarity=0.162 Sum_probs=63.9
Q ss_pred hHHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHH
Q 019472 206 YLSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 206 ~l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L 285 (340)
.+.+..+++.+++|....+.+..... +-.+.+.+-+++|......++-|+.+=+|-.+.+..+=-.|.+|+-.
T Consensus 28 ~~~~~f~~~~~g~~~~~e~~~~~I~~-------lE~~aD~ik~~i~~~l~~~~flP~~R~Dil~L~~~~D~i~D~~ed~A 100 (217)
T COG1392 28 LLAPAFEALRRGDYEDAEELLKEIKD-------LEHEADEIKREIRLELYKGFFLPFDREDILELIESQDDIADAAEDAA 100 (217)
T ss_pred HHHHHHHHHHcCCchhHHHHHHHHHH-------HHHHhhHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677778888888887777666644 55678899999999999999999999999999999988888887766
Q ss_pred HHHhhCC
Q 019472 286 SRFIAAG 292 (340)
Q Consensus 286 ~~lI~~g 292 (340)
..+..-.
T Consensus 101 ~~l~l~~ 107 (217)
T COG1392 101 KLLLLRK 107 (217)
T ss_pred HHHHccc
Confidence 5554443
No 384
>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=37.32 E-value=68 Score=21.98 Aligned_cols=36 Identities=22% Similarity=0.170 Sum_probs=29.5
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
+.+++..+=-||...+|+.+|++..-+.+.+.++-.
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 345555566799999999999999999998887665
No 385
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=37.26 E-value=2.5e+02 Score=24.76 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=33.4
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCC-CEEEEcC
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVA-GVLETNR 309 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~-g~l~~~~ 309 (340)
.++-+.||+.+|++.+.+-+.+.+|-.+|-| +... |.|++.+
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 3677899999999999999999999888866 3333 5666654
No 386
>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=37.11 E-value=70 Score=20.59 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=19.2
Q ss_pred hhccccHHHHHHHhCCChHHH
Q 019472 261 SYKSVTIEAMAKAFGVTVEFI 281 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~v 281 (340)
+|+.+++..+|+..|++...+
T Consensus 13 G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 13 GYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HTTTSSHHHHHHHHTSCHHHH
T ss_pred CHHhCCHHHHHHHHccchhhH
Confidence 799999999999999998765
No 387
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=37.09 E-value=91 Score=27.88 Aligned_cols=64 Identities=17% Similarity=0.223 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
..+.+.|+.++...-+.|=..+ +=..||+.||+|...|-+-|..|..+|.|.-+ +..|+.+...
T Consensus 8 ~qi~~~L~~~I~~g~~~~G~~LPsE~eL~~~~~VSR~TvR~Al~~L~~eGli~r~--~G~GtfV~~~ 72 (240)
T PRK09764 8 RQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESI--QGSGTYVKEE 72 (240)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe--cCceeEEccc
Confidence 4555666666666677788888 78999999999999999999999999998543 5567777543
No 388
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=36.99 E-value=1.6e+02 Score=28.46 Aligned_cols=47 Identities=11% Similarity=-0.004 Sum_probs=30.1
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHHhhh----ccchhHHHhHHHHHHHHHHhc
Q 019472 57 AKSLFYIQIGDKEKALEQLKVTESKT----VAVGQKMDLVFYTLQLGFFYM 103 (340)
Q Consensus 57 ~La~~~~~~Gd~~~A~~~l~~~~~~~----~~~~~~i~~~l~~i~~~i~~~ 103 (340)
.-|+-|++.|.|++|..||++...-. .....+...++.+=+.++.+.
T Consensus 102 E~GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~ 152 (536)
T KOG4648|consen 102 ERGNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEE 152 (536)
T ss_pred HhhhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHH
Confidence 45899999999999999999866432 122233444544444443333
No 389
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=36.95 E-value=95 Score=24.25 Aligned_cols=46 Identities=17% Similarity=0.260 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhhhhhccccHHHHHHHhCC-ChHHHHHHHHHHhhCCccc
Q 019472 248 REVRTVVYSQFLESYKSVTIEAMAKAFGV-TVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 248 ~~ir~~~l~q~i~pYs~I~l~~mA~~~g~-~~~~vE~~L~~lI~~g~l~ 295 (340)
.+-+.+++..|++|=. +++.+|..||+ +...+-+|+.++...+...
T Consensus 10 ~EfK~~iv~~~~~~g~--sv~~vAr~~gv~~~~~l~~W~~~~~~~~~~~ 56 (116)
T COG2963 10 PEFKLEAVALYLRGGD--TVSEVAREFGIVSATQLYKWRIQLQKGGGLA 56 (116)
T ss_pred HHHHHHHHHHHHhcCc--cHHHHHHHhCCCChHHHHHHHHHHHHccccc
Confidence 4556778889988733 88999999996 9999999999999887554
No 390
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=36.82 E-value=1e+02 Score=33.19 Aligned_cols=88 Identities=10% Similarity=0.065 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHh-HHHHHHHHHhcCCChh--hhh
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISK-SIDKAKSLFEEGGDWE--RKN 129 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~-~i~ka~~~l~~~~~~~--~~~ 129 (340)
....+-|+|+++..+|+.|.+++...+++. ..+..| .+..-.+.. ..++. ..++.++|. .+-
T Consensus 1081 ~ll~RcadFF~~~~qyekAV~lL~~ar~~~----~AlqlC---------~~~nv~vtee~aE~m--Tp~Kd~~~~e~~R~ 1145 (1416)
T KOG3617|consen 1081 KLLRRCADFFENNQQYEKAVNLLCLAREFS----GALQLC---------KNRNVRVTEEFAELM--TPTKDDMPNEQERK 1145 (1416)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHHH---------hcCCCchhHHHHHhc--CcCcCCCccHHHHH
Confidence 335566999999999999999998888765 223322 221111211 11111 122223333 233
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
.+-+.-|=.++.+|+|..|...|..+
T Consensus 1146 ~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1146 QVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred HHHHHHHHHHHhccchHHHHHHHhhh
Confidence 44455555777888888888888764
No 391
>PRK14999 histidine utilization repressor; Provisional
Probab=36.81 E-value=92 Score=27.84 Aligned_cols=63 Identities=10% Similarity=0.138 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 244 RYYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
..+.+.|+.++...-+.|=..+ +=..||+.||+|...|-+-|..|..+|.|.- -+..|+.+..
T Consensus 15 ~qi~~~i~~~I~~g~~~~G~~LPsE~eLa~~~gVSR~TVR~Al~~L~~eGli~r--~~GkGTfV~~ 78 (241)
T PRK14999 15 ETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVR--LQGVGTFVAE 78 (241)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ecCcEEEECC
Confidence 4556666666666667788888 8999999999999999999999999998843 3667887754
No 392
>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=36.26 E-value=1e+02 Score=21.98 Aligned_cols=51 Identities=16% Similarity=0.238 Sum_probs=40.8
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEE
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLET 307 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~ 307 (340)
+=+++..-...+++.+++..|++.+++---|-=|..+++| .|+..+|.+.+
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 4466666788999999999999999999999999999988 45566666654
No 393
>PRK00215 LexA repressor; Validated
Probab=36.25 E-value=75 Score=27.66 Aligned_cols=36 Identities=14% Similarity=0.189 Sum_probs=31.6
Q ss_pred cccHHHHHHHhCC-ChHHHHHHHHHHhhCCccceEEe
Q 019472 264 SVTIEAMAKAFGV-TVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 264 ~I~l~~mA~~~g~-~~~~vE~~L~~lI~~g~l~akID 299 (340)
..++..||+.+|+ +...+-+.|..|...|-|.-.-+
T Consensus 23 ~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~~ 59 (205)
T PRK00215 23 PPSRREIADALGLRSPSAVHEHLKALERKGFIRRDPG 59 (205)
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCCC
Confidence 4689999999999 99999999999999999955433
No 394
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=36.05 E-value=2e+02 Score=31.52 Aligned_cols=196 Identities=12% Similarity=0.069 Sum_probs=0.0
Q ss_pred hhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 39 IADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 39 l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
++-.....+..-+-.....|-++|.+..+|+++.+++..+.++-++.... ..++++++. +.+.. ..+++..-..
T Consensus 210 ~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a---~~~l~~~y~--~kY~~-~~~~ee~l~~ 283 (906)
T PRK14720 210 ERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKA---REELIRFYK--EKYKD-HSLLEDYLKM 283 (906)
T ss_pred HHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhh---HHHHHHHHH--HHccC-cchHHHHHHH
Q ss_pred HhcCCChhh-hhHhhHHHHHhccccCCHHHHHHHHHhccccCCcCc-cCCHh-----HHHHHHHHHHhhhcChhHHHH-h
Q 019472 119 FEEGGDWER-KNRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYE-LFPYD-----TFIFYTVLTSIISLDRVSLKQ-K 190 (340)
Q Consensus 119 l~~~~~~~~-~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e-~~~~~-----~~~~Y~~L~al~s~~r~~l~~-~ 190 (340)
.+=+..|.. +.-+.-+.-.+++..|+|--+.+.-+.-..+++... .+.+. ++..=+++.+|-.++++.+.. +
T Consensus 284 s~l~~~~~~~~~~i~~fek~i~f~~G~yv~H~~WGvG~I~~v~~~~i~IdF~~k~gh~ms~~~A~~sL~pL~~dHi~v~k 363 (906)
T PRK14720 284 SDIGNNRKPVKDCIADFEKNIVFDTGNFVYHRTWGVGKITSISDNGIFVDFVSKRGHKLSIQMAITALKPLKRDHIWVLK 363 (906)
T ss_pred hccccCCccHHHHHHHHHHHeeecCCCEEEEcCCCCceeeEEcCCceEEEeccCCCCcCCHHHHHHhcCcCChhheehhH
Q ss_pred ccCChH-HHHHhcCcch--HHHHHHHHHh-ccHHHHHHHH--------------HHhHHHhhcChhHh
Q 019472 191 VVDAPE-ILTVIGKIPY--LSEFLNSLYD-CQYKSFFSAF--------------AGLTEQIKLDRYLY 240 (340)
Q Consensus 191 ll~~~~-~~~~l~~~p~--l~~ll~af~~-~~~~~~~~~L--------------~~~~~~l~~D~~l~ 240 (340)
.+.+++ +.......|. ++.++++|-+ +..+...+.| ...+..+..||.+.
T Consensus 364 ~~~~~~~l~~~~~~dp~~~ik~~lks~~~~~t~~~ik~eL~~~vi~~~~W~kWw~~aKk~lkkd~~~~ 431 (906)
T PRK14720 364 AVEPKEELVDKFKKDIPWALKTIIKSYDNRMDLKDIKSELVPSLLTQSEWSKWSTKAKQILKKNPNFG 431 (906)
T ss_pred hhCCHHHHHHHHHhCHHHHHHHHHHhcCCccCHHHHHHHHHHhhCCHHHHHHHHHHHHHHHhhCCccc
No 395
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=35.67 E-value=95 Score=25.94 Aligned_cols=44 Identities=14% Similarity=0.142 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
..|=..-|.-....| +.-.+.+.||+.+|+|+..|...|.+.+.
T Consensus 118 ~~Lp~~~r~v~~L~~---~~g~s~~EIA~~lgis~~tV~~~l~ra~~ 161 (172)
T PRK12523 118 GKLSSKARAAFLYNR---LDGMGHAEIAERLGVSVSRVRQYLAQGLR 161 (172)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 333333444444556 78899999999999999999999877543
No 396
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=35.60 E-value=4.3e+02 Score=25.73 Aligned_cols=98 Identities=13% Similarity=0.124 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhH---------HHhHHHHH---HHHHHhcCHHHHHhHHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQK---------MDLVFYTL---QLGFFYMDFDLISKSIDKAKSLF 119 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~---------i~~~l~~i---~~~i~~~~~~~~~~~i~ka~~~l 119 (340)
--|...-|.++++.|++++|..=+..+.+...+.+.. ++-.|.++ ...+-.||...+...+++. +
T Consensus 106 ~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~l---l 182 (504)
T KOG0624|consen 106 MAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHL---L 182 (504)
T ss_pred HHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHH---H
Confidence 3346777889999999999999888887654433222 22222222 2233446666666666553 3
Q ss_pred hcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhc
Q 019472 120 EEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDS 155 (340)
Q Consensus 120 ~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~ 155 (340)
+ .++|+ +.++.+.+..+..+++-+.|-...-.+
T Consensus 183 E-i~~Wd--a~l~~~Rakc~i~~~e~k~AI~Dlk~a 215 (504)
T KOG0624|consen 183 E-IQPWD--ASLRQARAKCYIAEGEPKKAIHDLKQA 215 (504)
T ss_pred h-cCcch--hHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 3 35777 445566666677777777776555443
No 397
>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=35.59 E-value=2e+02 Score=22.60 Aligned_cols=49 Identities=10% Similarity=0.089 Sum_probs=41.4
Q ss_pred hhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 260 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 260 ~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.-|+-|+-..+|+.|+++..-.-.-|..|-..|.|.-..-.....|++.
T Consensus 55 ~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~kG~Ik~V~k~~~~~IYtr 103 (105)
T PF03297_consen 55 PKMKLITPSVLSERLKINGSLARKALRELESKGLIKPVSKHHRQRIYTR 103 (105)
T ss_dssp TTSSCECHHHHHHHHCCSCHHHHHHHHHHHHCCSSEEEECCTTCEEEEE
T ss_pred ccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHCCCEEEEeccCCeEEEec
Confidence 4489999999999999999999999999999999987655555566654
No 398
>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=35.36 E-value=1.5e+02 Score=30.28 Aligned_cols=58 Identities=22% Similarity=0.186 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDK 114 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~k 114 (340)
..+-.+.++.+.|++++|++.+.+...... .++...-...++.+..|+++.+...+..
T Consensus 6 ~lLY~~~il~e~g~~~~AL~~L~~~~~~I~---Dk~~~~E~rA~ll~kLg~~~eA~~~y~~ 63 (517)
T PF12569_consen 6 LLLYKNSILEEAGDYEEALEHLEKNEKQIL---DKLAVLEKRAELLLKLGRKEEAEKIYRE 63 (517)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhhhhhCC---CHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 345567888899999999988866443322 2344444556677777888888765544
No 399
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.34 E-value=3.3e+02 Score=27.69 Aligned_cols=114 Identities=18% Similarity=0.110 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
..++.--|.||+=+||+-.|-.-+..+...-.... ..+.....+++..++....-++.++|.++-- .+|+ +
T Consensus 326 A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~---~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp--~n~d----v 396 (606)
T KOG0547|consen 326 AEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFN---SLYIKRAAAYADENQSEKMWKDFNKAEDLDP--ENPD----V 396 (606)
T ss_pred HHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccc---hHHHHHHHHHhhhhccHHHHHHHHHHHhcCC--CCCc----h
Confidence 45677789999999999999998888775442222 1255555666777888888889999888521 1233 2
Q ss_pred hHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhh
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIIS 181 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s 181 (340)
.-+.|-+.+--.+|..|...|=.+. .+.|+.+.-|.=+|..+-
T Consensus 397 YyHRgQm~flL~q~e~A~aDF~Kai-------~L~pe~~~~~iQl~~a~Y 439 (606)
T KOG0547|consen 397 YYHRGQMRFLLQQYEEAIADFQKAI-------SLDPENAYAYIQLCCALY 439 (606)
T ss_pred hHhHHHHHHHHHHHHHHHHHHHHHh-------hcChhhhHHHHHHHHHHH
Confidence 3344545555667888888887763 356666777777766654
No 400
>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=35.18 E-value=93 Score=25.65 Aligned_cols=43 Identities=19% Similarity=0.230 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 245 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
.|-..-|.-....| |.-.+.+.||+.+|+|+..+...+.+...
T Consensus 122 ~L~~~~r~vl~l~~---~~g~s~~eIA~~l~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 122 ILTPKQQHVIALRF---GQNLPIAEVARILGKTEGAVKILQFRAIK 164 (170)
T ss_pred hCCHHHHHHHHHHH---hcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 33333344444556 78899999999999999999998877653
No 401
>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=35.03 E-value=86 Score=26.04 Aligned_cols=45 Identities=16% Similarity=0.273 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 242 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 242 h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.+..|-..-|.-....| |...+.+.+|+.+|+|+..+...+.+..
T Consensus 116 ~l~~L~~~~r~i~~l~~---~~g~s~~eiA~~lgis~~tv~~~l~Ra~ 160 (169)
T TIGR02954 116 AIDTLNDKYQTAIILRY---YHDLTIKEIAEVMNKPEGTVKTYLHRAL 160 (169)
T ss_pred HHHhCCHHHhHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 33444444455445666 7889999999999999999988887654
No 402
>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=34.88 E-value=86 Score=24.28 Aligned_cols=35 Identities=26% Similarity=0.253 Sum_probs=28.7
Q ss_pred HHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHH
Q 019472 253 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 253 ~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
..+-+++.+=..+++...|+.+|++...+=++|.+
T Consensus 13 ~~~d~~~~~~~~~ti~~~AK~L~i~~~~l~~~Lr~ 47 (111)
T PF03374_consen 13 EFYDAFVDSDGLYTIREAAKLLGIGRNKLFQWLRE 47 (111)
T ss_pred HHHHHHHcCCCCccHHHHHHHhCCCHHHHHHHHHh
Confidence 34566777778999999999999998887777765
No 403
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=34.88 E-value=2.2e+02 Score=23.46 Aligned_cols=52 Identities=17% Similarity=0.076 Sum_probs=39.7
Q ss_pred hhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce--E--EecCCC-EEEEcC
Q 019472 258 FLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC--K--IDKVAG-VLETNR 309 (340)
Q Consensus 258 ~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a--k--ID~~~g-~l~~~~ 309 (340)
.+-+...++=+.||+.+|++..++-+.|..|=.++.+.+ + -|..+| .....|
T Consensus 9 ~L~~~~~~~dedLa~~l~i~~n~vRkiL~~L~ed~~~~~~~~~e~~~~~~~~~~~yw 65 (147)
T smart00531 9 ALMRNGCVTEEDLAELLGIKQKQLRKILYLLYDEKLIKIDYKREKDPETKTWYRYYW 65 (147)
T ss_pred HHHhcCCcCHHHHHHHhCCCHHHHHHHHHHHHhhhcchhheeeeeCCCCceEEEEEE
Confidence 344568899999999999999999999999988776522 2 455667 555555
No 404
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=34.79 E-value=91 Score=27.11 Aligned_cols=43 Identities=16% Similarity=0.276 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|-..-|.-....| |...+.+.+|+.+|+|+..|...+.+..
T Consensus 152 ~~L~~~~r~vl~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Ra~ 194 (206)
T PRK12526 152 EKLPEAQQTVVKGVY---FQELSQEQLAQQLNVPLGTVKSRLRLAL 194 (206)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333334444344456 8899999999999999999988876543
No 405
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=34.73 E-value=1e+02 Score=25.90 Aligned_cols=57 Identities=14% Similarity=0.236 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC
Q 019472 247 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR 309 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~ 309 (340)
|+..|-+. .|.-.| ..++.+.+|+.|+++.+. +.++=..+.+....|...+++.+..
T Consensus 83 YN~~RF~~-eRR~~~-~~l~~dElA~sF~l~~e~----i~qLr~~kiltVh~De~G~Ii~V~~ 139 (153)
T PRK14584 83 YNQVRFQV-ERRGHR-PDLDDDELASSFALSPEL----IAQLKSGSCLTLYNDEHGHIIDVKE 139 (153)
T ss_pred HHHHHhcc-cccCCC-CCCChHHHHHHcCCCHHH----HHHHHhCCeEEEEECCCCCEEEeec
Confidence 33444443 343333 789999999999999876 4566667777889999999998864
No 406
>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=34.72 E-value=1e+02 Score=21.82 Aligned_cols=41 Identities=15% Similarity=0.285 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 247 MREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 247 ~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
-.+.+.+++..++.+ -.++..+|..+|+++..+-+|+.++-
T Consensus 8 s~e~K~~~v~~~~~~--g~sv~~va~~~gi~~~~l~~W~~~~~ 48 (76)
T PF01527_consen 8 SPEFKLQAVREYLES--GESVSEVAREYGISPSTLYNWRKQYR 48 (76)
T ss_dssp -HHHHHHHHHHHHHH--HCHHHHHHHHHTS-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHC--CCceEeeecccccccccccHHHHHHh
Confidence 344566666666544 68899999999999999999999987
No 407
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=34.63 E-value=3e+02 Score=24.39 Aligned_cols=67 Identities=13% Similarity=0.114 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-------hccc---hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESK-------TVAV---GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~-------~~~~---~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
....+++|=+|.+.|+.++...++.++.+. -..+ .....+...+-+++...|+++.+...++++-..
T Consensus 118 A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~ 194 (214)
T PF09986_consen 118 AGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGS 194 (214)
T ss_pred HHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcC
Confidence 333889999999999965555555544432 2221 112233344557777788888888887775543
No 408
>COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription]
Probab=34.62 E-value=3.6e+02 Score=24.60 Aligned_cols=29 Identities=14% Similarity=0.213 Sum_probs=24.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
|...++..+|+.+|+|+..|-+...+.|.
T Consensus 210 ~eelt~kEI~~~LgISes~VSql~kkai~ 238 (247)
T COG1191 210 KEELTQKEIAEVLGISESRVSRLHKKAIK 238 (247)
T ss_pred HhccCHHHHHHHhCccHHHHHHHHHHHHH
Confidence 88899999999999999988777766653
No 409
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=34.56 E-value=95 Score=25.84 Aligned_cols=40 Identities=13% Similarity=0.184 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 248 REVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 248 ~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
..-|.-....| |.-.+.+.||+.+|+|+..+...+.+...
T Consensus 121 ~~~r~v~~L~~---~eg~s~~EIA~~l~is~~tV~~~l~ra~~ 160 (168)
T PRK12525 121 GKARAAFLMSQ---LEGLTYVEIGERLGVSLSRIHQYMVEAFK 160 (168)
T ss_pred HHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 33444444556 88999999999999999999988876543
No 410
>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=34.34 E-value=1.7e+02 Score=26.96 Aligned_cols=61 Identities=18% Similarity=0.135 Sum_probs=26.4
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 58 KSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 58 La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
..+++.+.||.++|-.++++....+....+.-.++-.+++.....|+...+.+...++...
T Consensus 76 Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~ 136 (280)
T PF05843_consen 76 YLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL 136 (280)
T ss_dssp HHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 3445555555555555555444433222222233344444444555555554444444443
No 411
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=34.24 E-value=96 Score=25.82 Aligned_cols=42 Identities=17% Similarity=0.301 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 245 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.|-..-|.-....| |...+.+.||+.+|+|+..|...+.+..
T Consensus 118 ~L~~~~r~vl~L~~---~~g~s~~EIA~~lgis~~tV~~~l~ra~ 159 (173)
T PRK09645 118 QLSPEHRAVLVRSY---YRGWSTAQIAADLGIPEGTVKSRLHYAL 159 (173)
T ss_pred hCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 33344444445666 7788999999999999999988887654
No 412
>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=34.23 E-value=69 Score=22.85 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=33.6
Q ss_pred HHHHhhhhhccccHHHHHHHh----CCChHHHHHHHHHHhhCCccce
Q 019472 254 VYSQFLESYKSVTIEAMAKAF----GVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 254 ~l~q~i~pYs~I~l~~mA~~~----g~~~~~vE~~L~~lI~~g~l~a 296 (340)
.+...+......++..+.+.| +++....-..+..||..+.+.+
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 356666666779999999888 8999999999999999998864
No 413
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=34.09 E-value=69 Score=28.36 Aligned_cols=43 Identities=19% Similarity=0.145 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+..|-..-|.-....| |...+.+.||+.+|+|+..|...|.+.
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 3344444444445566 788999999999999999999988643
No 414
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.03 E-value=5.2e+02 Score=26.29 Aligned_cols=95 Identities=16% Similarity=0.091 Sum_probs=42.4
Q ss_pred HHHHHHHHHHh-CCHHHHHHHHHHHHhhhccc----hhHHHhHHHHHHHHHHhc-CHHHHHhHHHHHHHHHhcCCChhhh
Q 019472 55 HLAKSLFYIQI-GDKEKALEQLKVTESKTVAV----GQKMDLVFYTLQLGFFYM-DFDLISKSIDKAKSLFEEGGDWERK 128 (340)
Q Consensus 55 ~~~La~~~~~~-Gd~~~A~~~l~~~~~~~~~~----~~~i~~~l~~i~~~i~~~-~~~~~~~~i~ka~~~l~~~~~~~~~ 128 (340)
+++||.+.+.. .+.+.|-..+++......+- +-|++..-.+..+++... ++..++..+.||-++-. +.|--.
T Consensus 49 ~LqLg~lL~~yT~N~elAksHLekA~~i~~~ip~fydvKf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq--~~p~ws 126 (629)
T KOG2300|consen 49 HLQLGALLLRYTKNVELAKSHLEKAWLISKSIPSFYDVKFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQ--SVPYWS 126 (629)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHHcccccHHhhhhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc--CCchhh
Confidence 44454444333 34444444444444322111 333444444444444443 44444444444333211 222223
Q ss_pred hHhhHHHHHhccccCCHHHHHHH
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASL 151 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~ 151 (340)
+++-..-+-.+.-++||..|.+.
T Consensus 127 ckllfQLaql~~idkD~~sA~el 149 (629)
T KOG2300|consen 127 CKLLFQLAQLHIIDKDFPSALEL 149 (629)
T ss_pred HHHHHHHHHHHhhhccchhHHHH
Confidence 44444444455667778777766
No 415
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=34.00 E-value=94 Score=26.50 Aligned_cols=45 Identities=16% Similarity=0.176 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
+..|=..-|.-....| |.-.+.+.||+.+|+|+..+...+.+...
T Consensus 109 l~~Lp~~~R~v~~L~~---~eg~s~~EIA~~lgis~~tV~~~l~Rar~ 153 (182)
T PRK12511 109 FFDLPEEQRAALHLVA---IEGLSYQEAAAVLGIPIGTLMSRIGRARA 153 (182)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 3344444455445566 67889999999999999999998865443
No 416
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=33.63 E-value=96 Score=26.85 Aligned_cols=44 Identities=14% Similarity=0.167 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|=..-|.-....| |.-.+.+.||+.+|+|+..|...|.+..
T Consensus 137 L~~Lp~~~r~v~~L~~---~eg~s~~EIA~~lgis~~tVk~~l~RAr 180 (201)
T PRK12545 137 LDHLPEQIGRVFMMRE---FLDFEIDDICTELTLTANHCSVLLYRAR 180 (201)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 3344444445455666 7888999999999999999988876543
No 417
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=33.55 E-value=4.5e+02 Score=25.43 Aligned_cols=26 Identities=0% Similarity=-0.224 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHhcCHHHHHhHHHHHH
Q 019472 91 LVFYTLQLGFFYMDFDLISKSIDKAK 116 (340)
Q Consensus 91 ~~l~~i~~~i~~~~~~~~~~~i~ka~ 116 (340)
+..++.|++=..++.+.+.+++..+-
T Consensus 292 ~l~g~ARi~eam~~~~~a~~lYk~vl 317 (478)
T KOG1129|consen 292 YLLGQARIHEAMEQQEDALQLYKLVL 317 (478)
T ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHH
Confidence 44556666656666666665555443
No 418
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=33.52 E-value=1.3e+02 Score=26.41 Aligned_cols=45 Identities=29% Similarity=0.261 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhhhhhc--cccHHHHHHHhCCChHHHHHHHHHHhhCC
Q 019472 248 REVRTVVYSQFLESYK--SVTIEAMAKAFGVTVEFIDVELSRFIAAG 292 (340)
Q Consensus 248 ~~ir~~~l~q~i~pYs--~I~l~~mA~~~g~~~~~vE~~L~~lI~~g 292 (340)
+.=|-..+.+++.... .|+.+.+|+.+|++++.+-+.|..+=..|
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 3445566777777777 99999999999999999999998874444
No 419
>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=33.24 E-value=49 Score=21.31 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=15.8
Q ss_pred ccHHHHHHHhCCChHHHHHHH
Q 019472 265 VTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L 285 (340)
.++..||+.||+|...+-+.+
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 889999999999998876655
No 420
>PF13551 HTH_29: Winged helix-turn helix
Probab=33.16 E-value=78 Score=24.09 Aligned_cols=37 Identities=22% Similarity=0.357 Sum_probs=29.7
Q ss_pred hccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEe
Q 019472 262 YKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKID 299 (340)
Q Consensus 262 Ys~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID 299 (340)
-.-. +...+|+.+|++...+-+|+.++=.+| +.+-.|
T Consensus 9 ~~g~~~~~~ia~~lg~s~~Tv~r~~~~~~~~G-~~~l~~ 46 (112)
T PF13551_consen 9 AEGVSTIAEIARRLGISRRTVYRWLKRYREGG-IEGLLP 46 (112)
T ss_pred HcCCCcHHHHHHHHCcCHHHHHHHHHHHHccc-HHHHHh
Confidence 3445 599999999999999999999988777 444444
No 421
>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=33.06 E-value=97 Score=19.10 Aligned_cols=23 Identities=13% Similarity=0.186 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLK 76 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~ 76 (340)
..+.+|-.++..|++++|.+.++
T Consensus 3 ~~y~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 3 YLYGLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHhhHHHHHHHHH
Confidence 35678999999999999999954
No 422
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=33.01 E-value=99 Score=26.32 Aligned_cols=43 Identities=14% Similarity=0.040 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|=..-|.-....| +...+.+.||+.+|+|+..|...|.+..
T Consensus 130 ~~Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Rar 172 (191)
T PRK12520 130 DRLPPRTGRVFMMRE---WLELETEEICQELQITATNAWVLLYRAR 172 (191)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333333444445556 6778999999999999999999887653
No 423
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=32.86 E-value=3.5e+02 Score=23.93 Aligned_cols=122 Identities=16% Similarity=0.089 Sum_probs=71.9
Q ss_pred ccchhHHHHhhCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhh----ccchhHHHhHHHHHHHHHHhcCHHHHHhH
Q 019472 36 LSRIADAEENLGESEVREAHLAKSLFYIQIGDKEKALEQLKVTESKT----VAVGQKMDLVFYTLQLGFFYMDFDLISKS 111 (340)
Q Consensus 36 ~~~l~~~~~n~~~~~ir~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~----~~~~~~i~~~l~~i~~~i~~~~~~~~~~~ 111 (340)
+.+|+..+.+.+++.+.... ...-|.+..++++|++.|.-..-.. ..+..+...++.+.=++=..++...-..+
T Consensus 63 F~~l~~~~~~~i~~~i~~~~--~~~~~~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~f 140 (214)
T PF09986_consen 63 FEKLSPEQKEKIKENISSRW--KPRDFSGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRF 140 (214)
T ss_pred cccCCHHHHHHHHHHHHhhc--ccCCCCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHH
Confidence 44555554444444332221 1224555678888888876544222 12233344444444445556777777778
Q ss_pred HHHHHHHHhc----CC---ChhhhhHhhHHHHHhccccCCHHHHHHHHHhccccC
Q 019472 112 IDKAKSLFEE----GG---DWERKNRLKVYEGLYCMSTRNFKKAASLFLDSISTF 159 (340)
Q Consensus 112 i~ka~~~l~~----~~---~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f 159 (340)
+.+|-...+. .. .+.-..++.-+-|-++..-|++.+|...|-.++...
T Consensus 141 l~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~ 195 (214)
T PF09986_consen 141 LRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSK 195 (214)
T ss_pred HHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence 8888775432 11 122345566678888888999999999998887553
No 424
>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=32.85 E-value=3.6e+02 Score=27.16 Aligned_cols=100 Identities=15% Similarity=0.226 Sum_probs=58.6
Q ss_pred HhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcch--H
Q 019472 130 RLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPY--L 207 (340)
Q Consensus 130 ~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~--l 207 (340)
-+-|++|...--+|+|.+|-.-|..+...-++....-.+++.-=.++-|-..+.-+.+.. .+ .++++..+..|+ +
T Consensus 7 ~llc~Qgf~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~nld~Me~-~l--~~l~~~~~~s~~l~L 83 (549)
T PF07079_consen 7 YLLCFQGFILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNNLDLMEK-QL--MELRQQFGKSAYLPL 83 (549)
T ss_pred HHHHHhhHHHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhhHHHHHH-HH--HHHHHhcCCchHHHH
Confidence 356889998888999999988888775322111111111222223333333333333332 22 234454555664 5
Q ss_pred HHHHHHHHhccHHHHHHHHHHhHHH
Q 019472 208 SEFLNSLYDCQYKSFFSAFAGLTEQ 232 (340)
Q Consensus 208 ~~ll~af~~~~~~~~~~~L~~~~~~ 232 (340)
...+-+|...+|....+.|.....+
T Consensus 84 F~~L~~Y~~k~~~kal~~ls~w~~~ 108 (549)
T PF07079_consen 84 FKALVAYKQKEYRKALQALSVWKEQ 108 (549)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhh
Confidence 7778889999999999988766443
No 425
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=32.76 E-value=98 Score=28.00 Aligned_cols=47 Identities=6% Similarity=0.113 Sum_probs=35.1
Q ss_pred hhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 240 YPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 240 ~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
...+..|=..-|.-....| +...+.+.||+.+|+|+..|...+.+..
T Consensus 156 ~~aL~~Lp~~~R~v~~L~~---~eg~S~~EIA~~Lgis~~TVk~rl~RAr 202 (244)
T TIGR03001 156 REALAALSERERHLLRLHF---VDGLSMDRIGAMYQVHRSTVSRWVAQAR 202 (244)
T ss_pred HHHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 3344455555566566677 7888999999999999999998886643
No 426
>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=32.70 E-value=2.1e+02 Score=21.32 Aligned_cols=54 Identities=11% Similarity=0.146 Sum_probs=42.5
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHH
Q 019472 59 SLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSI 112 (340)
Q Consensus 59 a~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i 112 (340)
|--+++..+.++|+....++.+..+.+..++...=.+++.+-..|++..+..+.
T Consensus 13 GlkLY~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA 66 (80)
T PF10579_consen 13 GLKLYHQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA 66 (80)
T ss_pred HHHHhccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333558899999999999999887777778877777788888888887776543
No 427
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=32.62 E-value=91 Score=26.11 Aligned_cols=37 Identities=16% Similarity=0.239 Sum_probs=29.4
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
|.-.+..| +...+.+.||+.+|+|+..+...+.+.+.
T Consensus 125 r~i~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Ra~~ 161 (172)
T PRK09651 125 REAFLLSQ---LDGLTYSEIAHKLGVSVSSVKKYVAKATE 161 (172)
T ss_pred hHHhhhhh---ccCCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 33334555 78899999999999999999998877654
No 428
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=32.55 E-value=1e+02 Score=20.53 Aligned_cols=28 Identities=18% Similarity=0.354 Sum_probs=23.0
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
=...+.+.+|..||++...+-+.+...+
T Consensus 17 R~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 17 RLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 4567889999999999998887776654
No 429
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=32.35 E-value=1.3e+02 Score=22.99 Aligned_cols=27 Identities=15% Similarity=0.245 Sum_probs=22.8
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
...++++.||+.+|+|+..+.+...+.
T Consensus 19 ~~~~~~~~lA~~~~~S~~~l~r~f~~~ 45 (107)
T PRK10219 19 DQPLNIDVVAKKSGYSKWYLQRMFRTV 45 (107)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 566999999999999999887777664
No 430
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=32.31 E-value=1.9e+02 Score=30.35 Aligned_cols=54 Identities=15% Similarity=0.026 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLIS 109 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~ 109 (340)
+++-.+|+++-+.|++++|+..|....+.-. +-+|.+.++.....-.|+-..+-
T Consensus 117 e~ysn~aN~~kerg~~~~al~~y~~aiel~p---~fida~inla~al~~~~~~~~a~ 170 (966)
T KOG4626|consen 117 EAYSNLANILKERGQLQDALALYRAAIELKP---KFIDAYINLAAALVTQGDLELAV 170 (966)
T ss_pred HHHHHHHHHHHHhchHHHHHHHHHHHHhcCc---hhhHHHhhHHHHHHhcCCCcccH
Confidence 3456699999999999999999988765431 23455555544444444443333
No 431
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=32.09 E-value=1.1e+02 Score=25.63 Aligned_cols=41 Identities=12% Similarity=0.262 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 246 YMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 246 l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
|-..-|.-....| +...+.+.+|+.+|+|+..|...+.+..
T Consensus 120 L~~~~r~i~~l~~---~~~~s~~EIA~~lgis~~tV~~~l~Ra~ 160 (173)
T PRK12522 120 LNEKYKTVLVLYY---YEQYSYKEMSEILNIPIGTVKYRLNYAK 160 (173)
T ss_pred CCHHHHHHHHHHH---HcCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3333444344555 6889999999999999999998887643
No 432
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=31.81 E-value=1.5e+02 Score=28.42 Aligned_cols=27 Identities=19% Similarity=0.172 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESK 81 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~ 81 (340)
..-.|.+|...|++++|+++|..+.+.
T Consensus 293 l~g~ARi~eam~~~~~a~~lYk~vlk~ 319 (478)
T KOG1129|consen 293 LLGQARIHEAMEQQEDALQLYKLVLKL 319 (478)
T ss_pred hhhhHHHHHHHHhHHHHHHHHHHHHhc
Confidence 345689999999999999999988753
No 433
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=31.75 E-value=1e+02 Score=25.62 Aligned_cols=27 Identities=15% Similarity=0.315 Sum_probs=23.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+...+.+.+|+.+|+|+..|...+.+.
T Consensus 142 ~~~~s~~eIA~~lgis~~tV~~~l~ra 168 (182)
T PRK09652 142 IEGLSYEEIAEIMGCPIGTVRSRIFRA 168 (182)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 578899999999999999998887653
No 434
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=31.71 E-value=1.5e+02 Score=31.56 Aligned_cols=93 Identities=16% Similarity=0.143 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhh-------hccchhHHHhHH--------HHHHHHHHhcCHHHHHhHHHHHHHH
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESK-------TVAVGQKMDLVF--------YTLQLGFFYMDFDLISKSIDKAKSL 118 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~-------~~~~~~~i~~~l--------~~i~~~i~~~~~~~~~~~i~ka~~~ 118 (340)
.+.+||.+..+.|.+++|.+.|-+..+. |...-.++|.-+ .-+.+.+..+||..+.... +
T Consensus 997 vhlk~a~~ledegk~edaskhyveaiklntynitwcqavpsrfd~e~ir~gnkpe~av~mfi~dndwa~aerva-e---- 1071 (1636)
T KOG3616|consen 997 VHLKLAMFLEDEGKFEDASKHYVEAIKLNTYNITWCQAVPSRFDAEFIRAGNKPEEAVEMFIHDNDWAAAERVA-E---- 1071 (1636)
T ss_pred chhHHhhhhhhccchhhhhHhhHHHhhcccccchhhhcccchhhHHHHHcCCChHHHHHHhhhcccHHHHHHHH-H----
Confidence 3889999999999999999999876642 433333333211 1244556778887765321 1
Q ss_pred HhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHh
Q 019472 119 FEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLD 154 (340)
Q Consensus 119 l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e 154 (340)
..+++.-+.+..-++.-.+.++||..|-..++.
T Consensus 1072 ---~h~~~~l~dv~tgqar~aiee~d~~kae~fllr 1104 (1636)
T KOG3616|consen 1072 ---AHCEDLLADVLTGQARGAIEEGDFLKAEGFLLR 1104 (1636)
T ss_pred ---hhChhhhHHHHhhhhhccccccchhhhhhheee
Confidence 123344444444455566778888776544443
No 435
>KOG1662 consensus Mitochondrial F1F0-ATP synthase, subunit OSCP/ATP5 [Energy production and conversion]
Probab=31.69 E-value=1.2e+02 Score=26.68 Aligned_cols=105 Identities=17% Similarity=0.350 Sum_probs=68.8
Q ss_pred HHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhC-------C---ChHHHHHHHHHHhhCCc
Q 019472 224 SAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFG-------V---TVEFIDVELSRFIAAGK 293 (340)
Q Consensus 224 ~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g-------~---~~~~vE~~L~~lI~~g~ 293 (340)
..+.........+++..+..+.|.++-|..++...+..|+.+-=.+=.+.+. + ...++|+.|.+++..|+
T Consensus 87 ~~i~di~~~~~~~~~t~NflnlLaeNgRL~~l~~Ivk~F~~lm~ahrGev~~~VtSa~pLd~~~~k~l~~~l~k~l~~gk 166 (210)
T KOG1662|consen 87 TAIDDIVEKLKLAPLTKNFLNLLAENGRLNNLTEIVKAFETLMNAHRGEVKVEVTSAEPLDAKQLKQLEKALQKILGGGK 166 (210)
T ss_pred HHHHHHHHHhcccHhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHhCCceEEEEEecccCChHHHHHHHHHHHHHhcCCc
Confidence 3455556667889999999999999999999999988888764433332222 1 22478889999888887
Q ss_pred ---cceEEecC--CCE-EEEcCCCcchHHHHHHHHhhHHHHHHHHHhhhhhc
Q 019472 294 ---LHCKIDKV--AGV-LETNRPDAKNALYQATIKQGDFLLNRIQKLSRVID 339 (340)
Q Consensus 294 ---l~akID~~--~g~-l~~~~~~~r~~~y~~~l~~~~~l~~ri~~l~~~v~ 339 (340)
+..+||+- .|. |++.+. .-+-+|. .|+|++.+++.
T Consensus 167 ~l~v~~~vdPSI~GGliVeiGdK-----~vDmSI~------tr~q~l~~ll~ 207 (210)
T KOG1662|consen 167 KLKVENKVDPSIIGGLIVEIGDK-----YVDMSIK------TRLQKLNKLLE 207 (210)
T ss_pred eEEEEeecChhhhcceEEEEcCe-----eEeeeHH------HHHHHHHHHhh
Confidence 47788873 343 334321 1233333 36777776653
No 436
>PF13959 DUF4217: Domain of unknown function (DUF4217)
Probab=31.65 E-value=1.6e+02 Score=20.65 Aligned_cols=21 Identities=24% Similarity=0.407 Sum_probs=17.5
Q ss_pred HhhhhhccccHHHHHHHhCCC
Q 019472 257 QFLESYKSVTIEAMAKAFGVT 277 (340)
Q Consensus 257 q~i~pYs~I~l~~mA~~~g~~ 277 (340)
+.+...+.+++..+|..||+.
T Consensus 38 k~iF~~~~L~l~~~A~sfGL~ 58 (65)
T PF13959_consen 38 KDIFNVKKLDLGHLAKSFGLL 58 (65)
T ss_pred hhhCCcccCCHHHHHHHcCCC
Confidence 456667899999999999985
No 437
>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=31.48 E-value=1.4e+02 Score=26.50 Aligned_cols=62 Identities=11% Similarity=0.161 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHhhhhhccc-cHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 245 YYMREVRTVVYSQFLESYKSV-TIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I-~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
.+.+.|+.++...-+.|=..+ +=..||+.||+|...|-+-|..|+.+|.|.-+ +..|+.+..
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 345556665555566666666 68899999999999999999999999998654 566776643
No 438
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=31.37 E-value=3.2e+02 Score=23.08 Aligned_cols=65 Identities=3% Similarity=-0.113 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLF 119 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l 119 (340)
....+-||-.+-..|+|++|+.+|......-.+ --...++.-.+.+..||...+.+....|-..-
T Consensus 69 ~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d---dp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~ 133 (157)
T PRK15363 69 FDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID---APQAPWAAAECYLACDNVCYAIKALKAVVRIC 133 (157)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 566889999999999999999999987643321 12344666677788899988888777766643
No 439
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=31.30 E-value=1.1e+02 Score=26.20 Aligned_cols=42 Identities=14% Similarity=0.132 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+.|-..-|.-....| +...+.+.||+.+|+|+..|...+.+.
T Consensus 135 ~~L~~~~r~i~~L~~---~~g~s~~eIA~~lgis~~tV~~~l~Ra 176 (196)
T PRK12524 135 AALPERQRQAVVLRH---IEGLSNPEIAEVMEIGVEAVESLTARG 176 (196)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 333334444445556 688899999999999999998888764
No 440
>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=31.22 E-value=79 Score=25.10 Aligned_cols=42 Identities=31% Similarity=0.419 Sum_probs=32.8
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccc
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLH 295 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ 295 (340)
+|.+++. |++ ..-++..+|..||++...+..|+. -...|.+.
T Consensus 7 lR~rVl~-~~~--~g~s~~eaa~~F~VS~~Tv~~W~k-~~~~G~~~ 48 (119)
T PF01710_consen 7 LRQRVLA-YIE--KGKSIREAAKRFGVSRNTVYRWLK-RKETGDLE 48 (119)
T ss_pred HHHHHHH-HHH--ccchHHHHHHHhCcHHHHHHHHHH-hccccccc
Confidence 5777775 433 356899999999999999999998 66677653
No 441
>PF14549 P22_Cro: DNA-binding transcriptional regulator Cro; PDB: 1RZS_A 3BD1_A 3QWS_A 2HIN_B.
Probab=31.22 E-value=84 Score=21.95 Aligned_cols=19 Identities=26% Similarity=0.291 Sum_probs=16.1
Q ss_pred cHHHHHHHhCCChHHHHHH
Q 019472 266 TIEAMAKAFGVTVEFIDVE 284 (340)
Q Consensus 266 ~l~~mA~~~g~~~~~vE~~ 284 (340)
+...+|+.+|++...|-.|
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 442
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=30.99 E-value=1.1e+02 Score=25.69 Aligned_cols=37 Identities=19% Similarity=0.335 Sum_probs=28.7
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
-|.-....| +...+.+.||+.+|+|+..|...+.+..
T Consensus 140 ~r~vl~l~~---~~~~s~~eIA~~lgis~~~V~~~l~ra~ 176 (186)
T PRK13919 140 ERRVIEVLY---YQGYTHREAAQLLGLPLGTLKTRARRAL 176 (186)
T ss_pred HHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 333333456 7889999999999999999998887654
No 443
>COG2886 Uncharacterized small protein [Function unknown]
Probab=30.93 E-value=1.2e+02 Score=22.95 Aligned_cols=25 Identities=20% Similarity=0.349 Sum_probs=24.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
..||+.++|+..|+|..+.+.+|.+
T Consensus 40 g~vSlg~Aaela~~sl~ef~~eL~~ 64 (88)
T COG2886 40 GAVSLGRAAELAGMSLNEFEEELRK 64 (88)
T ss_pred hhhHHHHHHHHhcCCHHHHHHHHHH
Confidence 8999999999999999999999987
No 444
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=30.85 E-value=1.2e+02 Score=26.01 Aligned_cols=44 Identities=16% Similarity=0.110 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|=..-|.-.++.| +.-.+.+.||+.+|+|+..|...+.+..
T Consensus 114 L~~Lp~~~r~i~~L~~---~~g~s~~EIA~~Lgis~~tVk~~l~Rar 157 (187)
T PRK12516 114 LDQLPDDQREAIILVG---ASGFAYEEAAEICGCAVGTIKSRVNRAR 157 (187)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444455555666 7889999999999999999998886654
No 445
>PRK00118 putative DNA-binding protein; Validated
Probab=30.76 E-value=1.3e+02 Score=23.48 Aligned_cols=27 Identities=15% Similarity=0.284 Sum_probs=24.1
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+...+.+.||+.+|+|+..+...+.+.
T Consensus 31 ~eg~S~~EIAe~lGIS~~TV~r~L~RA 57 (104)
T PRK00118 31 LDDYSLGEIAEEFNVSRQAVYDNIKRT 57 (104)
T ss_pred HcCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 678999999999999999998888763
No 446
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=30.69 E-value=4.2e+02 Score=24.15 Aligned_cols=149 Identities=13% Similarity=0.175 Sum_probs=93.7
Q ss_pred HHHHHhccccCCHHHHHHHHHhccccC-CcCccCCHhH---HHHHHHHHHhhhcCh-hHHHHhc--cCChHHHHHhcCcc
Q 019472 133 VYEGLYCMSTRNFKKAASLFLDSISTF-TTYELFPYDT---FIFYTVLTSIISLDR-VSLKQKV--VDAPEILTVIGKIP 205 (340)
Q Consensus 133 ~~~gl~~l~~r~y~~Aa~~F~e~~~~f-~~~e~~~~~~---~~~Y~~L~al~s~~r-~~l~~~l--l~~~~~~~~l~~~p 205 (340)
..+.+..+...||..-..+|-..-+-| ++.+.++..+ .+.=+=|.-+++..| +++..-+ +.... +...|
T Consensus 60 Ei~vl~SI~t~D~~sFerY~~Qlk~YY~d~~~~l~~S~~~~~l~GLnLL~LLsqNRiaeFHteLe~lp~~~----l~~~~ 135 (260)
T KOG3151|consen 60 EIGVLLSILTKDFESFERYMNQLKPYYFDYNEKLSESEKKHKLLGLNLLYLLSQNRIAEFHTELELLPKKI----LQHNP 135 (260)
T ss_pred HHHHHHHHHhccHHHHHHHHHHhcchhcccccccCcchhhhHHHHHHHHHHHHhccHHHHHHHHHhccHHH----hhccc
Confidence 556667778889988778877764433 4444443331 122222344555444 3443211 11111 22224
Q ss_pred h---HHHHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHH
Q 019472 206 Y---LSEFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFID 282 (340)
Q Consensus 206 ~---l~~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE 282 (340)
. ...+=+.+-++.|.+.....+.. .++......+-+.+.||..+-...=.+|.-++++..++.++.+.++
T Consensus 136 ~I~~~v~LEq~~MEGaYnKv~~a~~s~-----p~~~y~~FmdIl~~tiRdEIA~c~EKsYd~l~~s~a~~~L~f~~~~-- 208 (260)
T KOG3151|consen 136 YISHPVSLEQSLMEGAYNKVLSAKQSI-----PSEEYTYFMDILLDTIRDEIAGCIEKSYDKLSASDATQMLLFNNDK-- 208 (260)
T ss_pred hhhhHHHHHHHHHhhHHHHHHHHHhcC-----CcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHhcCChH--
Confidence 3 33444567889999988876554 3677777888999999997766666689999999999999998554
Q ss_pred HHHHHHhhCCc
Q 019472 283 VELSRFIAAGK 293 (340)
Q Consensus 283 ~~L~~lI~~g~ 293 (340)
++-.+-..+.
T Consensus 209 -e~~~~~~~r~ 218 (260)
T KOG3151|consen 209 -ELKKFATERQ 218 (260)
T ss_pred -HHHHHHHhcC
Confidence 5555556665
No 447
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=30.66 E-value=1.2e+02 Score=26.44 Aligned_cols=43 Identities=19% Similarity=0.172 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|-..-|.-.+..| +.-.+.+.||+.+|+|+..|...+.+..
T Consensus 137 ~~L~~~~r~v~~L~~---~~g~s~~EIA~~Lgis~~tV~~~l~RAr 179 (203)
T PRK09647 137 DSLPPEFRAAVVLCD---IEGLSYEEIAATLGVKLGTVRSRIHRGR 179 (203)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333343444445566 7888999999999999999988887653
No 448
>PRK12539 RNA polymerase sigma factor; Provisional
Probab=30.65 E-value=1.1e+02 Score=25.93 Aligned_cols=43 Identities=12% Similarity=0.179 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
..|-..-|.-....| +...+.+.||+.+|+|+..|...+.+..
T Consensus 130 ~~L~~~~r~v~~l~~---~~g~s~~eIA~~lgis~~tV~~~l~ra~ 172 (184)
T PRK12539 130 ARLPEKMRLAIQAVK---LEGLSVAEAATRSGMSESAVKVSVHRGL 172 (184)
T ss_pred HhCCHHHHHHHHHHH---HcCCcHHHHHHHHCcCHHHHHHHHHHHH
Confidence 333333444344456 6899999999999999999999887654
No 449
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=30.27 E-value=60 Score=27.77 Aligned_cols=44 Identities=18% Similarity=0.200 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|-..-|.-.+..| +...+.+.||+.+|+|+..|...+.+..
T Consensus 129 l~~Lp~~~r~i~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~Rar 172 (193)
T TIGR02947 129 LQGLPEEFRQAVYLAD---VEGFAYKEIAEIMGTPIGTVMSRLHRGR 172 (193)
T ss_pred HHhCCHHHhhheeehh---hcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444455445556 7889999999999999999988876643
No 450
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=30.26 E-value=1.3e+02 Score=24.65 Aligned_cols=42 Identities=12% Similarity=0.135 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 245 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.|-..-|.-....| +...+.+.||+.+|+|+..|...+.+..
T Consensus 109 ~L~~~~r~v~~l~~---~~~~s~~EIA~~lgis~~tV~~~l~ra~ 150 (163)
T PRK07037 109 ELPARTRYAFEMYR---LHGETQKDIARELGVSPTLVNFMIRDAL 150 (163)
T ss_pred hCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 33333344334456 6788899999999999999998876543
No 451
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=30.15 E-value=2.8e+02 Score=27.69 Aligned_cols=43 Identities=16% Similarity=0.335 Sum_probs=25.9
Q ss_pred hccccCCHHHHHHHHHhccccCCcCccCCHhHH-HHHHHHHHhh
Q 019472 138 YCMSTRNFKKAASLFLDSISTFTTYELFPYDTF-IFYTVLTSII 180 (340)
Q Consensus 138 ~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~-~~Y~~L~al~ 180 (340)
-.+..++|...+..|-++|+-.--..+++|... --|+-|+=++
T Consensus 71 ~L~~~kdf~~n~~ffQ~vFEIgRRYKIMNPekMRttYGKLmYmL 114 (458)
T PF09418_consen 71 KLLEDKDFSDNAEFFQDVFEIGRRYKIMNPEKMRTTYGKLMYML 114 (458)
T ss_pred HHhcCCChHHHHHHHHHHHHHHHHHhhhCHHHHHHHHHHHHHHH
Confidence 355678899988888888764322256666532 3455554444
No 452
>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=29.91 E-value=1.1e+02 Score=22.33 Aligned_cols=26 Identities=23% Similarity=0.391 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHH
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKV 77 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~ 77 (340)
..+++.=|++|++.||+.+|+.++.=
T Consensus 35 A~~Y~~D~~~fl~~gD~v~Ala~~sY 60 (75)
T PF04010_consen 35 AESYLEDGKYFLEKGDYVNALACFSY 60 (75)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 44478889999999999999988753
No 453
>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=29.89 E-value=2.5e+02 Score=26.43 Aligned_cols=68 Identities=13% Similarity=0.115 Sum_probs=57.9
Q ss_pred HHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcC--CChh
Q 019472 59 SLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEG--GDWE 126 (340)
Q Consensus 59 a~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~--~~~~ 126 (340)
|.-..+.|.+++|+..+...+..+.++.+++-..+...+++...|....+...+......++.- .+|+
T Consensus 220 A~~l~~~~gl~~Al~~L~~~~~~~~s~R~rf~~rL~~A~l~~~~g~~~lA~~ll~~L~~~~~~~~L~~WE 289 (301)
T TIGR03362 220 ARALAAEGGLEAALQRLQQRLAQAREPRERFHWRLLLARLLEQAGKAELAQQLYAALDQQIQQLGLAEWE 289 (301)
T ss_pred HHHHHHcCCHHHHHHHHHhhcccCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCccccC
Confidence 6667889999999999998888888999999999999999999999999999999888776542 3454
No 454
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=29.66 E-value=93 Score=23.94 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=28.1
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
....++=+.||+.+|++..++-+.|..|-.+|-+..+
T Consensus 24 ~~~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~~ 60 (105)
T PF02002_consen 24 RKGELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSYR 60 (105)
T ss_dssp HH--B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EEE
T ss_pred HcCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEE
Confidence 3678999999999999999999999999999998654
No 455
>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=29.62 E-value=4.6e+02 Score=24.28 Aligned_cols=35 Identities=17% Similarity=0.152 Sum_probs=24.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHHHhhCCccceEE
Q 019472 264 SVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKI 298 (340)
Q Consensus 264 ~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akI 298 (340)
.-+...+|+.+|++++.++..+...-..-.+++.+
T Consensus 177 ~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~ 211 (298)
T TIGR02997 177 TPSEAEIAEALELEPEQVRELLQRARQPVSLDAPV 211 (298)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHcccCcccCCCc
Confidence 34688999999999999998876543333344444
No 456
>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=29.61 E-value=1.3e+02 Score=23.74 Aligned_cols=28 Identities=18% Similarity=0.363 Sum_probs=23.6
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+.-.+...+|+.+|+|+..+...+.+..
T Consensus 124 ~~g~s~~eIA~~l~~s~~~v~~~~~~~~ 151 (158)
T TIGR02937 124 LEGLSYKEIAEILGISVGTVKRRLKRAR 151 (158)
T ss_pred hcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4567999999999999999988887643
No 457
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=29.55 E-value=1.3e+02 Score=26.38 Aligned_cols=39 Identities=15% Similarity=0.032 Sum_probs=35.2
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEec
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDK 300 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~ 300 (340)
++-.+.+.||+.+|+|+..++..+..+-..|.+...++.
T Consensus 175 ~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~~ 213 (225)
T PRK10046 175 GVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIVH 213 (225)
T ss_pred CCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEeec
Confidence 445789999999999999999999999999999887776
No 458
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=29.17 E-value=1.1e+02 Score=26.75 Aligned_cols=43 Identities=14% Similarity=0.148 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+..|-..-|.-.+..| |.-.+.+.||+.+|+|+..|...+.+.
T Consensus 146 L~~L~~~~r~v~~L~~---~~g~s~~EIAe~lgis~~tV~~~l~RA 188 (206)
T PRK12544 146 LDGLPAKYARVFMMRE---FIELETNEICHAVDLSVSNLNVLLYRA 188 (206)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 3444444555556667 889999999999999999998887653
No 459
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=29.16 E-value=1.1e+02 Score=27.63 Aligned_cols=42 Identities=12% Similarity=0.068 Sum_probs=35.3
Q ss_pred HHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 255 YSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 255 l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
+++++.....++++.||+.+|+|...+-+.|..|...|-+.-
T Consensus 19 IL~~l~~~~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~~ 60 (257)
T PRK15090 19 ILQALGEEREIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQ 60 (257)
T ss_pred HHHHhhcCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 455555456799999999999999999999999999997744
No 460
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=29.14 E-value=2e+02 Score=21.75 Aligned_cols=37 Identities=16% Similarity=0.173 Sum_probs=34.7
Q ss_pred HHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCE
Q 019472 268 EAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGV 304 (340)
Q Consensus 268 ~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~ 304 (340)
+.+|+.++++...+-..+-+|...|-+.=..|..++.
T Consensus 40 ~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~DrR 76 (126)
T COG1846 40 KELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDRR 76 (126)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCccccc
Confidence 9999999999999999999999999999888888863
No 461
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=28.95 E-value=2.6e+02 Score=28.07 Aligned_cols=67 Identities=10% Similarity=0.029 Sum_probs=0.0
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccc--------------hhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAV--------------GQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 121 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~--------------~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~ 121 (340)
+.+|..|.+.|++++|.+.+.+......+. +........-.+.+.+.|+|..+...+..|+...+.
T Consensus 378 ~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~~~~ 457 (484)
T COG4783 378 LNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQVKL 457 (484)
T ss_pred HHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhccC
Q ss_pred C
Q 019472 122 G 122 (340)
Q Consensus 122 ~ 122 (340)
+
T Consensus 458 ~ 458 (484)
T COG4783 458 G 458 (484)
T ss_pred C
No 462
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.83 E-value=64 Score=24.43 Aligned_cols=24 Identities=21% Similarity=0.119 Sum_probs=21.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVEL 285 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L 285 (340)
-..+|.+.+|+.+|+++..+|+.|
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHH
Confidence 377899999999999999999877
No 463
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=28.74 E-value=1.2e+02 Score=25.93 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=32.6
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 241 PHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 241 ~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
.++..|=..-|.-....| +...+.+.||+.+|+|+..|...+.+.
T Consensus 138 ~~l~~L~~~~r~vl~l~~---~~~~s~~EIA~~Lgis~~tVk~~l~ra 182 (194)
T PRK09646 138 DCLDALTDTQRESVTLAY---YGGLTYREVAERLAVPLGTVKTRMRDG 182 (194)
T ss_pred HHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCChHhHHHHHHHH
Confidence 334444444444444556 788999999999999999998888664
No 464
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=28.73 E-value=1.6e+02 Score=22.20 Aligned_cols=37 Identities=22% Similarity=0.228 Sum_probs=33.9
Q ss_pred hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceE
Q 019472 261 SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCK 297 (340)
Q Consensus 261 pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~ak 297 (340)
-|+-|+-..+|+.++++..-.-+-|.+|-..|.|.--
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 3899999999999999999999999999999988654
No 465
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=28.73 E-value=5e+02 Score=27.55 Aligned_cols=96 Identities=6% Similarity=-0.143 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHh
Q 019472 52 REAHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRL 131 (340)
Q Consensus 52 r~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l 131 (340)
-.+...+|....+.+.+++|+..+.++.+.-.. ..+.......+....|.++.+...++++-.. ...++ ..
T Consensus 120 ~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~---~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~----~~ 190 (694)
T PRK15179 120 SEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS---SAREILLEAKSWDEIGQSEQADACFERLSRQ--HPEFE----NG 190 (694)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC---CHHHHHHHHHHHHHhcchHHHHHHHHHHHhc--CCCcH----HH
Confidence 456778888888888888888888877754321 1233334444455667888888877776651 11111 12
Q ss_pred hHHHHHhccccCCHHHHHHHHHhcc
Q 019472 132 KVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 132 ~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
.+--|..+...|+..+|...|-.++
T Consensus 191 ~~~~a~~l~~~G~~~~A~~~~~~a~ 215 (694)
T PRK15179 191 YVGWAQSLTRRGALWRARDVLQAGL 215 (694)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 2333444455566665555555543
No 466
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=28.59 E-value=5.1e+02 Score=24.52 Aligned_cols=66 Identities=21% Similarity=0.199 Sum_probs=51.8
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhhhccchhH-----HHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHhc
Q 019472 56 LAKSLFYIQIGDKEKALEQLKVTESKTVAVGQK-----MDLVFYTLQLGFFYMDFDLISKSIDKAKSLFEE 121 (340)
Q Consensus 56 ~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~-----i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~ 121 (340)
+.+|+-.-+..|+++|...|.++.....+.+.+ -...+++..+++-.|++......++..+.+++.
T Consensus 7 le~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ 77 (421)
T COG5159 7 LELANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMED 77 (421)
T ss_pred HHHHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHH
Confidence 567777788899999999999998765443332 346678888899999999998888888887764
No 467
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=28.47 E-value=2.4e+02 Score=28.65 Aligned_cols=53 Identities=17% Similarity=-0.011 Sum_probs=41.0
Q ss_pred HHHHHhcCHHHHHhHHHHHHHHHhcCCChhhhhHhhHHHHHhccccCCHHHHHHHHHhcc
Q 019472 97 QLGFFYMDFDLISKSIDKAKSLFEEGGDWERKNRLKVYEGLYCMSTRNFKKAASLFLDSI 156 (340)
Q Consensus 97 ~~~i~~~~~~~~~~~i~ka~~~l~~~~~~~~~~~l~~~~gl~~l~~r~y~~Aa~~F~e~~ 156 (340)
-+++..|++..+...+++|-.+- .+ ..-..+.|..+...|++.+|...|..++
T Consensus 428 ~~~~~~g~~~~A~~~l~rAl~L~---ps----~~a~~~lG~~~~~~G~~~eA~~~~~~A~ 480 (517)
T PRK10153 428 VQALVKGKTDEAYQAINKAIDLE---MS----WLNYVLLGKVYELKGDNRLAADAYSTAF 480 (517)
T ss_pred HHHHhcCCHHHHHHHHHHHHHcC---CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 34556789999999999877753 22 2356888899999999999999998876
No 468
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=28.40 E-value=1.2e+02 Score=25.89 Aligned_cols=35 Identities=9% Similarity=0.088 Sum_probs=27.5
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
|.-....| +.-.+.+.||+.+|+|+..|...+.+.
T Consensus 142 r~i~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~Ra 176 (195)
T PRK12532 142 ARVFTLKE---ILGFSSDEIQQMCGISTSNYHTIMHRA 176 (195)
T ss_pred HHHhhhHH---HhCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 33334456 778899999999999999999888764
No 469
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=28.40 E-value=1.3e+02 Score=24.69 Aligned_cols=29 Identities=31% Similarity=0.551 Sum_probs=25.5
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIA 290 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~ 290 (340)
+.-.+.+.+|+.+|+|+..|...+.+...
T Consensus 124 ~~g~s~~eIA~~lgis~~tV~~~l~ra~~ 152 (162)
T TIGR02983 124 YEDLSEAQVAEALGISVGTVKSRLSRALA 152 (162)
T ss_pred HhcCCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 67899999999999999999998877543
No 470
>TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family. Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Probab=28.36 E-value=1.3e+02 Score=26.47 Aligned_cols=42 Identities=12% Similarity=0.239 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 245 YYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 245 ~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.|-..-|.-....| +.-.+++.||+.+|+|...+...+.+.+
T Consensus 175 ~L~~~~r~il~l~y---~~~~s~~eIA~~lgis~~tV~~~~~ra~ 216 (224)
T TIGR02479 175 SLSEREQLVLSLYY---YEELNLKEIGEVLGLTESRVSQIHSQAL 216 (224)
T ss_pred hCCHHHHHHHHHHH---hCCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 33333444444556 5677899999999999999988776544
No 471
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=28.25 E-value=1.3e+02 Score=24.85 Aligned_cols=27 Identities=22% Similarity=0.378 Sum_probs=23.6
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+...+...||+.+|+|+..|...+.+.
T Consensus 139 ~~~~~~~eIA~~lgis~~tv~~~~~ra 165 (179)
T PRK11924 139 VEGLSYREIAEILGVPVGTVKSRLRRA 165 (179)
T ss_pred HcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 467899999999999999998888764
No 472
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=28.19 E-value=3e+02 Score=21.66 Aligned_cols=66 Identities=20% Similarity=0.073 Sum_probs=44.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchh------------HHHhHHHHHHHHHHhcCHHHHHhHHHHHHHHHh
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQ------------KMDLVFYTLQLGFFYMDFDLISKSIDKAKSLFE 120 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~------------~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~ 120 (340)
...-+.-..+.+|+++|.+.+.++.+....... .++..+..++-++..+|...+...+..++..++
T Consensus 31 ~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~i~~sl~rl~~~i~~~dk~~~l~el~~lk~~i~ 108 (121)
T PF14276_consen 31 QLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDNIDISLARLKGYIEAKDKSESLAELAELKELIE 108 (121)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 445566677788999998888877654422111 255666666777777787777777777777654
No 473
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=28.16 E-value=1.4e+02 Score=25.14 Aligned_cols=35 Identities=11% Similarity=0.291 Sum_probs=27.2
Q ss_pred HHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 251 RTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 251 r~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
|.-....| +...+.+.||+.+|+|+..|...+.+.
T Consensus 123 r~i~~l~~---~e~~s~~EIA~~lgis~~tV~~~l~ra 157 (179)
T PRK12543 123 RQVIILRY---LHDYSQEEIAQLLQIPIGTVKSRIHAA 157 (179)
T ss_pred HHHHHHHH---HccCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 33334445 688899999999999999988887664
No 474
>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=28.07 E-value=3.6e+02 Score=22.62 Aligned_cols=53 Identities=13% Similarity=0.120 Sum_probs=37.7
Q ss_pred HHHHhhh----hhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 254 VYSQFLE----SYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 254 ~l~q~i~----pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
++.+|+. ||+..++..=-.. +++-..+.+-|-.|..+|+|.+|. .+...|+..
T Consensus 5 ~Il~y~~~qNRPys~~di~~nL~~-~~~K~~v~k~Ld~L~~~g~i~~K~-~GKqkiY~~ 61 (169)
T PF07106_consen 5 AILEYMKEQNRPYSAQDIFDNLHN-KVGKTAVQKALDSLVEEGKIVEKE-YGKQKIYFA 61 (169)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHh-hccHHHHHHHHHHHHhCCCeeeee-ecceEEEee
Confidence 4566665 8887776432222 678889999999999999999984 444555554
No 475
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=28.07 E-value=1.1e+02 Score=25.80 Aligned_cols=41 Identities=22% Similarity=0.306 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 246 YMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 246 l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
|-..-|.-....| |.-.+.+.||+.+|+|+..|...+.+..
T Consensus 135 Lp~~~r~v~~l~~---~~g~s~~EIA~~lgis~~tVk~~l~Rar 175 (183)
T TIGR02999 135 VDPRQAEVVELRF---FAGLTVEEIAELLGVSVRTVERDWRFAR 175 (183)
T ss_pred CCHHHHHHHHHHH---HcCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3344445445566 7889999999999999999999887643
No 476
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=28.05 E-value=1.2e+02 Score=25.81 Aligned_cols=45 Identities=13% Similarity=0.097 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 242 HFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 242 h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
.+..|-..-|.-....| |...+.+.||+.+|+|+..|...+.+..
T Consensus 127 ~l~~Lp~~~r~v~~L~~---~~g~s~~EIA~~lgis~~tVk~~l~Rar 171 (185)
T PRK09649 127 MIADLTTDQREALLLTQ---LLGLSYADAAAVCGCPVGTIRSRVARAR 171 (185)
T ss_pred HHHhCCHHHhHHhhhHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34444455555555667 7889999999999999999999887654
No 477
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=27.80 E-value=1.4e+02 Score=25.30 Aligned_cols=44 Identities=18% Similarity=0.212 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|-..-|.-....| +...+++.+|+.+|+|+..|...+.+..
T Consensus 137 l~~L~~~~r~i~~l~~---~~g~s~~EIA~~lgis~~tV~~~l~Ra~ 180 (189)
T PRK09648 137 LDTLPEKQREILILRV---VVGLSAEETAEAVGSTPGAVRVAQHRAL 180 (189)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3344444444445567 5678899999999999999988887643
No 478
>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=27.68 E-value=1.6e+02 Score=20.61 Aligned_cols=29 Identities=14% Similarity=0.257 Sum_probs=26.0
Q ss_pred ccHHHHHHHhCCChHHHHHHHHHHhhCCc
Q 019472 265 VTIEAMAKAFGVTVEFIDVELSRFIAAGK 293 (340)
Q Consensus 265 I~l~~mA~~~g~~~~~vE~~L~~lI~~g~ 293 (340)
.+.+.+|+.||+|...+.+.+..+-..|-
T Consensus 14 ~~~~eLa~~l~vS~~tv~~~l~~L~~~g~ 42 (69)
T TIGR00122 14 FSGEKLGEALGMSRTAVNKHIQTLREWGV 42 (69)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 45899999999999999999999977765
No 479
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=27.60 E-value=3.2e+02 Score=27.30 Aligned_cols=97 Identities=16% Similarity=0.112 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhhhc-cchhHH-----------HhHHHHHHHHHHhcCH---HHHHhHHHHHHH
Q 019472 53 EAHLAKSLFYIQIGDKEKALEQLKVTESKTV-AVGQKM-----------DLVFYTLQLGFFYMDF---DLISKSIDKAKS 117 (340)
Q Consensus 53 ~~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~-~~~~~i-----------~~~l~~i~~~i~~~~~---~~~~~~i~ka~~ 117 (340)
.++...|+...+...|++|+.++-..-+++. -..+.+ |+.|+-+ ...|. ..+..-+..++.
T Consensus 164 lg~hekaRa~m~re~y~eAl~~LleADe~F~~Cd~klLe~VDNyallnLDIVWCYf----rLknitcL~DAe~RL~ra~k 239 (568)
T KOG2561|consen 164 LGLHEKARAAMEREMYSEALLVLLEADESFSLCDSKLLELVDNYALLNLDIVWCYF----RLKNITCLPDAEVRLVRARK 239 (568)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhHHHHHhhcchhhhhcchhheeh----hhcccccCChHHHHHHHHHH
Confidence 3477889999999999999999988776532 222222 3333322 22332 223333344433
Q ss_pred HHh--------------cCCChhh--hhHhhHHHHHhccccCCHHHHHHHHH
Q 019472 118 LFE--------------EGGDWER--KNRLKVYEGLYCMSTRNFKKAASLFL 153 (340)
Q Consensus 118 ~l~--------------~~~~~~~--~~~l~~~~gl~~l~~r~y~~Aa~~F~ 153 (340)
-+. +++.|++ --|++..+|+...++++=.+|+++|=
T Consensus 240 gf~~syGenl~Rl~~lKg~~spEraL~lRL~LLQGV~~yHqg~~deAye~le 291 (568)
T KOG2561|consen 240 GFERSYGENLSRLRSLKGGQSPERALILRLELLQGVVAYHQGQRDEAYEALE 291 (568)
T ss_pred hhhhhhhhhhHhhhhccCCCChhHHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence 222 2344553 57899999999999887666655543
No 480
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=27.52 E-value=1.6e+02 Score=23.35 Aligned_cols=35 Identities=14% Similarity=0.124 Sum_probs=31.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHhhCCccce
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHC 296 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~a 296 (340)
-..|+|+.+|+.|..|.--+-..|.+|-..|-|.=
T Consensus 17 ~~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~W 51 (115)
T PF12793_consen 17 PVEVTLDELAELLFCSRRNARTLLKKMQEEGWITW 51 (115)
T ss_pred CcceeHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 45799999999999999999999999999998843
No 481
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=27.47 E-value=2.1e+02 Score=19.62 Aligned_cols=43 Identities=19% Similarity=0.320 Sum_probs=30.2
Q ss_pred hccccHHHHHHHhCCChHHH-HHHHHHHhhCCccceEEecCCCEEEEc
Q 019472 262 YKSVTIEAMAKAFGVTVEFI-DVELSRFIAAGKLHCKIDKVAGVLETN 308 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~v-E~~L~~lI~~g~l~akID~~~g~l~~~ 308 (340)
-.-|+++.+.+.||.+..+. .+.|..++.+|-+ ...++.+..+
T Consensus 18 ~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll----~~~~~~l~lT 61 (66)
T PF06969_consen 18 NEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLL----EIDGGRLRLT 61 (66)
T ss_dssp HSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSE----EE-SSEEEE-
T ss_pred HCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCE----EEeCCEEEEC
Confidence 67899999999999986544 8889999999876 2334555443
No 482
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=27.34 E-value=1.3e+02 Score=25.37 Aligned_cols=43 Identities=14% Similarity=0.259 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+..|-..-|.-....| +.-.+.+.||+.+|+|+..|...+.+.
T Consensus 120 l~~L~~~~r~i~~l~~---~~g~s~~EIA~~lgis~~tVk~~l~Ra 162 (185)
T PRK12542 120 LKELNESNRQVFKYKV---FYNLTYQEISSVMGITEANVRKQFERA 162 (185)
T ss_pred HHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 3333334444444556 788999999999999999999887654
No 483
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=27.33 E-value=1.6e+02 Score=24.12 Aligned_cols=37 Identities=11% Similarity=0.195 Sum_probs=29.3
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 250 VRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 250 ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
-|.-....| +...+.+.||+.+|+|+..+...+.+..
T Consensus 118 ~r~v~~L~~---~~g~s~~EIA~~l~is~~tV~~~l~ra~ 154 (161)
T PRK12528 118 VKRAFLLAQ---VDGLGYGEIATELGISLATVKRYLNKAA 154 (161)
T ss_pred HHHHHHHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 344344556 7899999999999999999999887653
No 484
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.32 E-value=3.8e+02 Score=23.73 Aligned_cols=59 Identities=15% Similarity=0.072 Sum_probs=41.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHH--HHHHHhcCHHHHHhHHHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTL--QLGFFYMDFDLISKSIDKAKSLF 119 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i--~~~i~~~~~~~~~~~i~ka~~~l 119 (340)
..+||.+.++.|.+++|++.+....+.. .......+ .+.+-.||...+...+.++....
T Consensus 129 ~lRLArvq~q~~k~D~AL~~L~t~~~~~------w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 129 ALRLARVQLQQKKADAALKTLDTIKEES------WAAIVAELRGDILLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred HHHHHHHHHHhhhHHHHHHHHhcccccc------HHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence 7899999999999999999998765432 11111222 23445688888888888876643
No 485
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=26.99 E-value=1.5e+02 Score=24.88 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 244 RYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 244 ~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+.|-..-|.-....| +...+...||+.||+|+..|...+.+..
T Consensus 130 ~~L~~~~r~v~~l~~---~~g~s~~eIA~~l~is~~tV~~~l~ra~ 172 (184)
T PRK12512 130 ETLPPRQRDVVQSIS---VEGASIKETAAKLSMSEGAVRVALHRGL 172 (184)
T ss_pred HhCCHHHHHHHHHHH---HcCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 344444444444455 6789999999999999999998887654
No 486
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=26.98 E-value=1.2e+02 Score=25.85 Aligned_cols=28 Identities=14% Similarity=0.369 Sum_probs=24.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+...+.+.||+.+|+|+..|...+.+.+
T Consensus 155 ~~g~s~~EIA~~lgis~~tV~~~l~Ra~ 182 (194)
T PRK12519 155 YEGLSQSEIAKRLGIPLGTVKARARQGL 182 (194)
T ss_pred hcCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 6889999999999999999998887644
No 487
>PRK10870 transcriptional repressor MprA; Provisional
Probab=26.93 E-value=3.9e+02 Score=22.65 Aligned_cols=44 Identities=9% Similarity=-0.007 Sum_probs=39.3
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEE
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLE 306 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~ 306 (340)
..++...||+.+|++...+-..+-+|...|-+.=.-|..++-..
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~ 113 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRCL 113 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCee
Confidence 46888999999999999999999999999999988888886543
No 488
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=26.88 E-value=78 Score=23.51 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=22.3
Q ss_pred HHHHHHHhCCChH-HHHHHHHHHhhCCcc
Q 019472 267 IEAMAKAFGVTVE-FIDVELSRFIAAGKL 294 (340)
Q Consensus 267 l~~mA~~~g~~~~-~vE~~L~~lI~~g~l 294 (340)
+..+|+..|.+++ +.|+.|+++|..+.+
T Consensus 37 Ik~vs~~an~~Vs~~~ed~IV~~I~~~~~ 65 (79)
T PF14069_consen 37 IKQVSQIANKPVSKEQEDQIVQAIINQKI 65 (79)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHhCCC
Confidence 3456777887764 889999999999877
No 489
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=26.78 E-value=1e+02 Score=27.41 Aligned_cols=35 Identities=29% Similarity=0.306 Sum_probs=31.3
Q ss_pred hhhccccHHHHHHHhCCChHHHHHHHHHHhhCCcc
Q 019472 260 ESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKL 294 (340)
Q Consensus 260 ~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l 294 (340)
.....++...+|+.+|++...+...|-.++.+|.+
T Consensus 186 ~~~g~vt~~~l~~~~~ws~~~a~~~L~~~~~~G~l 220 (223)
T PF04157_consen 186 ENGGGVTASELAEKLGWSVERAKEALEELEREGLL 220 (223)
T ss_dssp TTTSEEEHHHHHHHHTB-HHHHHHHHHHHHHTTSE
T ss_pred hcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCE
Confidence 55788999999999999999999999999999976
No 490
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=26.72 E-value=2.9e+02 Score=23.98 Aligned_cols=70 Identities=14% Similarity=-0.044 Sum_probs=48.3
Q ss_pred hhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCccceEEecCCCEEEEcC-CCcchHHHHHHHHhhHHHH
Q 019472 259 LESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGKLHCKIDKVAGVLETNR-PDAKNALYQATIKQGDFLL 328 (340)
Q Consensus 259 i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~l~akID~~~g~l~~~~-~~~r~~~y~~~l~~~~~l~ 328 (340)
+.-...++.+.||+.++++...+-..+.+|-..|-|.=..|+.++....-. ++.-...++++....+..-
T Consensus 54 L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~~~l~~~~~~~e 124 (185)
T PRK13777 54 AYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELLLETMEEYDPEN 124 (185)
T ss_pred HHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHHHHHHHH
Confidence 333567999999999999999999999999999999877777666533222 2223344555544443333
No 491
>PF13934 ELYS: Nuclear pore complex assembly
Probab=26.69 E-value=4.6e+02 Score=23.35 Aligned_cols=137 Identities=12% Similarity=0.186 Sum_probs=67.5
Q ss_pred hHhhHHHHHhccccCCHHHHHHHHHhccccCCcCccCCHhHHHHHHHHHHhhhcChhHHHHhccCChHHHHHhcCcchHH
Q 019472 129 NRLKVYEGLYCMSTRNFKKAASLFLDSISTFTTYELFPYDTFIFYTVLTSIISLDRVSLKQKVVDAPEILTVIGKIPYLS 208 (340)
Q Consensus 129 ~~l~~~~gl~~l~~r~y~~Aa~~F~e~~~~f~~~e~~~~~~~~~Y~~L~al~s~~r~~l~~~ll~~~~~~~~l~~~p~l~ 208 (340)
.-.+...|++++..++|..|..++.+.--. ....+- ++.+++..++..+--+.+... ..-+.+..++.
T Consensus 78 ~~~~~~~g~W~LD~~~~~~A~~~L~~ps~~------~~~~~~----Il~~L~~~~~~~lAL~y~~~~--~p~l~s~~~~~ 145 (226)
T PF13934_consen 78 KYIKFIQGFWLLDHGDFEEALELLSHPSLI------PWFPDK----ILQALLRRGDPKLALRYLRAV--GPPLSSPEALT 145 (226)
T ss_pred HHHHHHHHHHHhChHhHHHHHHHhCCCCCC------cccHHH----HHHHHHHCCChhHHHHHHHhc--CCCCCCHHHHH
Confidence 445688999999999999999999664110 111111 233444333333211111100 00011111234
Q ss_pred HHHHHHHhccHHHHHHHHHHhHHHhhcChhHhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHH-HHHH
Q 019472 209 EFLNSLYDCQYKSFFSAFAGLTEQIKLDRYLYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDV-ELSR 287 (340)
Q Consensus 209 ~ll~af~~~~~~~~~~~L~~~~~~l~~D~~l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~-~L~~ 287 (340)
-+.....++.+.+++.....+.+... ....++.+...+.+-. .-+.+.+.+++|-+.-|. ++.+
T Consensus 146 ~~~~~La~~~v~EAf~~~R~~~~~~~-------------~~l~e~l~~~~~~~~~--~~~~~~~Ll~LPl~~~EE~~l~~ 210 (226)
T PF13934_consen 146 LYFVALANGLVTEAFSFQRSYPDELR-------------RRLFEQLLEHCLEECA--RSGRLDELLSLPLDEEEEQWLEK 210 (226)
T ss_pred HHHHHHHcCCHHHHHHHHHhCchhhh-------------HHHHHHHHHHHHHHhh--hhhHHHHHHhCCCChHHHHHHHH
Confidence 44445566677776665555433211 1222222222221111 567788888998876655 5566
Q ss_pred HhhCC
Q 019472 288 FIAAG 292 (340)
Q Consensus 288 lI~~g 292 (340)
+..++
T Consensus 211 ~L~~~ 215 (226)
T PF13934_consen 211 YLRES 215 (226)
T ss_pred HHccC
Confidence 55544
No 492
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=26.62 E-value=3.4e+02 Score=28.65 Aligned_cols=60 Identities=17% Similarity=0.099 Sum_probs=49.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHHHhHHHHHHHHHHhcCHHHHHhHHHHHHH
Q 019472 55 HLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKMDLVFYTLQLGFFYMDFDLISKSIDKAKS 117 (340)
Q Consensus 55 ~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i~~~l~~i~~~i~~~~~~~~~~~i~ka~~ 117 (340)
.+..|+-+...||...|..++..+.++... -.++.+.-+++......++.+...+.||++
T Consensus 587 wlM~ake~w~agdv~~ar~il~~af~~~pn---seeiwlaavKle~en~e~eraR~llakar~ 646 (913)
T KOG0495|consen 587 WLMYAKEKWKAGDVPAARVILDQAFEANPN---SEEIWLAAVKLEFENDELERARDLLAKARS 646 (913)
T ss_pred HHHHHHHHHhcCCcHHHHHHHHHHHHhCCC---cHHHHHHHHHHhhccccHHHHHHHHHHHhc
Confidence 445678888889999999999988877643 457788888888888899999999999887
No 493
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=26.55 E-value=1.4e+02 Score=25.44 Aligned_cols=44 Identities=16% Similarity=0.103 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHh
Q 019472 243 FRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFI 289 (340)
Q Consensus 243 ~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI 289 (340)
+..|=..-|.-....| +.-.+...||+.+|+|+..+...+.+..
T Consensus 109 l~~Lp~~~R~v~~L~~---~~g~s~~EIA~~Lgis~~tV~~~l~RAr 152 (182)
T PRK12540 109 LDKLPQDQREALILVG---ASGFSYEDAAAICGCAVGTIKSRVNRAR 152 (182)
T ss_pred HHhCCHHHHHHhhHHH---HcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444455445566 6888899999999999999998886543
No 494
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=26.53 E-value=1.3e+02 Score=21.45 Aligned_cols=26 Identities=27% Similarity=0.318 Sum_probs=20.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+.-+...||+.+|++++++...+...
T Consensus 19 r~Pt~eEiA~~lgis~~~v~~~l~~~ 44 (78)
T PF04539_consen 19 REPTDEEIAEELGISVEEVRELLQAS 44 (78)
T ss_dssp S--BHHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHcccHHHHHHHHHhC
Confidence 56799999999999999999887654
No 495
>TIGR03209 P21_Cbot clostridium toxin-associated regulator BotR. Similarly, tetanus toxin production of Clostridium tetani is regulated by TetR which is a very close relative of BotR. Both BotR and TetR are members of the TIGR02937 subfamily of sigma-70 RNA polymerase sigma factors. Functional complementation experiments have been done for botR and tetR in highly transformable strain of Clostridium perfringens host cells to assess functional interchangeability of sigma factors and it has been confirmed that they are interchangeable in vivo.
Probab=26.53 E-value=72 Score=25.67 Aligned_cols=41 Identities=10% Similarity=0.266 Sum_probs=29.9
Q ss_pred HhhhHHHHHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHH
Q 019472 239 LYPHFRYYMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFID 282 (340)
Q Consensus 239 l~~h~~~l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE 282 (340)
+...+..|=..-|.-....| |.-.+.+.||+.+|+|+..|.
T Consensus 101 l~~~l~~Lp~~~r~v~~l~~---~~~~s~~EIA~~l~is~~tV~ 141 (142)
T TIGR03209 101 FNDLISILPNKQKKIIYMKF---FEDMKEIDIAKKLHISRQSVY 141 (142)
T ss_pred HHHHHHhCCHHHHHHHHHHH---HcCCCHHHHHHHHCcCHHhhc
Confidence 33445555555566556667 888999999999999988764
No 496
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=26.34 E-value=1.3e+02 Score=28.35 Aligned_cols=41 Identities=12% Similarity=0.091 Sum_probs=33.3
Q ss_pred HHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHHHhhCCc
Q 019472 253 VVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSRFIAAGK 293 (340)
Q Consensus 253 ~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~lI~~g~ 293 (340)
+.+..++.--..++.+.+|+.||+|...+-+.|..|-..|-
T Consensus 7 ~~il~~L~~~~~~s~~~LA~~lgvsr~tV~~~l~~L~~~G~ 47 (319)
T PRK11886 7 LQLLSLLADGDFHSGEQLGEELGISRAAIWKHIQTLEEWGL 47 (319)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 34455555445678889999999999999999999998887
No 497
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=26.20 E-value=1.5e+02 Score=24.85 Aligned_cols=27 Identities=7% Similarity=0.283 Sum_probs=23.7
Q ss_pred hccccHHHHHHHhCCChHHHHHHHHHH
Q 019472 262 YKSVTIEAMAKAFGVTVEFIDVELSRF 288 (340)
Q Consensus 262 Ys~I~l~~mA~~~g~~~~~vE~~L~~l 288 (340)
+.-.+.+.+|+.+|+|+..+...+.+.
T Consensus 150 ~~~~s~~eIA~~lgis~~~v~~~l~Ra 176 (187)
T PRK09641 150 IEDLSLKEISEILDLPVGTVKTRIHRG 176 (187)
T ss_pred hhCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 678999999999999999988877654
No 498
>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=26.11 E-value=83 Score=20.95 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=21.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHH
Q 019472 263 KSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 263 s~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
+.-.+..||..+|++...|..|-.+
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 5567889999999999999988654
No 499
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=26.08 E-value=6.4e+02 Score=24.77 Aligned_cols=101 Identities=14% Similarity=0.072 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhhhccchhHH---H------hHHHHHHHHHHhcCHHHHHhHHHHHHHHHhcCCC
Q 019472 54 AHLAKSLFYIQIGDKEKALEQLKVTESKTVAVGQKM---D------LVFYTLQLGFFYMDFDLISKSIDKAKSLFEEGGD 124 (340)
Q Consensus 54 ~~~~La~~~~~~Gd~~~A~~~l~~~~~~~~~~~~~i---~------~~l~~i~~~i~~~~~~~~~~~i~ka~~~l~~~~~ 124 (340)
...-+|++|.+.||.+.|+.-|++......+.+.++ + -+|...|..---.+ =.+.+...|+-+.-+..|.
T Consensus 248 c~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmgqv~al~g~Akc~~~~r~~~k~~~-Crale~n~r~levA~~IG~ 326 (518)
T KOG1941|consen 248 CLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMGQVEALDGAAKCLETLRLQNKICN-CRALEFNTRLLEVASSIGA 326 (518)
T ss_pred HHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHhhcccc-cchhHHHHHHHHHHHHhhh
Confidence 367899999999999999999988776554443332 1 12222222222122 2345555555555444444
Q ss_pred hhhhhHhhHHHHHhccc---cCCHHHHHHHHHhc
Q 019472 125 WERKNRLKVYEGLYCMS---TRNFKKAASLFLDS 155 (340)
Q Consensus 125 ~~~~~~l~~~~gl~~l~---~r~y~~Aa~~F~e~ 155 (340)
.-...++.+..+.++-+ ++++.+....+-++
T Consensus 327 K~~vlK~hcrla~iYrs~gl~d~~~~h~~ra~~~ 360 (518)
T KOG1941|consen 327 KLSVLKLHCRLASIYRSKGLQDELRAHVVRAHEC 360 (518)
T ss_pred hHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHH
Confidence 44455566655555433 33455555444443
No 500
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=26.03 E-value=1.3e+02 Score=25.96 Aligned_cols=39 Identities=26% Similarity=0.148 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhhhhhccccHHHHHHHhCCChHHHHHHHHH
Q 019472 246 YMREVRTVVYSQFLESYKSVTIEAMAKAFGVTVEFIDVELSR 287 (340)
Q Consensus 246 l~~~ir~~~l~q~i~pYs~I~l~~mA~~~g~~~~~vE~~L~~ 287 (340)
|=..-|.-....| |.-.+.+.||+.+|+|+..|...+.+
T Consensus 134 Lp~~~r~v~~l~~---~~g~s~~EIAe~lgis~~tV~~~l~R 172 (196)
T PRK12535 134 LPPERREALILTQ---VLGYTYEEAAKIADVRVGTIRSRVAR 172 (196)
T ss_pred CCHHHHHHhhhHH---HhCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 3333344445566 78889999999999999999988764
Done!