Query 012934
Match_columns 453
No_of_seqs 282 out of 846
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:49:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012934.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012934hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2581 26S proteasome regulat 100.0 2E-111 3E-116 836.5 43.2 450 1-453 41-493 (493)
2 KOG2688 Transcription-associat 100.0 2.3E-36 5E-41 305.2 21.3 307 76-398 47-392 (394)
3 COG5600 Transcription-associat 100.0 9.9E-32 2.1E-36 266.2 21.3 247 141-397 144-410 (413)
4 KOG2582 COP9 signalosome, subu 99.9 2.9E-26 6.3E-31 226.4 19.7 240 166-416 138-389 (422)
5 KOG1463 26S proteasome regulat 99.9 3.1E-24 6.7E-29 210.6 18.8 245 94-386 138-393 (411)
6 PF08375 Rpn3_C: Proteasome re 99.9 1.2E-25 2.6E-30 174.0 7.0 67 386-452 1-68 (68)
7 COG5159 RPN6 26S proteasome re 99.8 1.3E-18 2.8E-23 168.0 18.5 243 95-385 136-390 (421)
8 KOG1497 COP9 signalosome, subu 99.8 6.9E-17 1.5E-21 157.8 23.5 272 125-412 101-384 (399)
9 KOG1464 COP9 signalosome, subu 99.7 1.4E-15 2.9E-20 146.6 24.1 235 161-404 184-431 (440)
10 PF01399 PCI: PCI domain; Int 99.7 8.6E-17 1.9E-21 135.1 12.2 104 276-383 1-105 (105)
11 KOG1498 26S proteasome regulat 99.7 3.2E-15 7E-20 149.8 19.3 274 127-409 131-421 (439)
12 KOG2908 26S proteasome regulat 99.3 3.6E-09 7.8E-14 105.1 31.3 241 145-402 93-358 (380)
13 COG5071 RPN5 26S proteasome re 99.3 3.7E-11 7.9E-16 117.3 16.9 266 129-406 133-418 (439)
14 smart00088 PINT motif in prote 99.1 2.2E-10 4.9E-15 93.8 8.7 86 312-403 2-87 (88)
15 smart00753 PAM PCI/PINT associ 99.1 2.2E-10 4.9E-15 93.8 8.7 86 312-403 2-87 (88)
16 KOG0687 26S proteasome regulat 98.2 0.0015 3.3E-08 65.4 25.1 245 124-385 106-364 (393)
17 KOG1076 Translation initiation 98.1 0.0022 4.8E-08 69.5 26.4 101 280-384 659-764 (843)
18 COG5187 RPN7 26S proteasome re 97.9 0.0063 1.4E-07 60.3 24.0 189 183-385 175-378 (412)
19 KOG0686 COP9 signalosome, subu 97.7 0.0085 1.8E-07 61.7 21.5 205 174-384 194-411 (466)
20 PF14938 SNAP: Soluble NSF att 97.6 0.0036 7.8E-08 62.3 18.1 208 97-308 48-268 (282)
21 PF10255 Paf67: RNA polymerase 97.5 0.011 2.3E-07 61.9 18.8 173 170-348 125-335 (404)
22 KOG2753 Uncharacterized conser 97.3 0.066 1.4E-06 53.9 21.2 118 278-404 240-360 (378)
23 KOG2758 Translation initiation 96.9 0.0056 1.2E-07 61.3 9.6 103 277-386 290-397 (432)
24 KOG2072 Translation initiation 96.6 0.99 2.1E-05 50.5 25.1 70 311-383 424-493 (988)
25 PLN03081 pentatricopeptide (PP 96.2 1.7 3.6E-05 48.7 24.6 256 140-422 338-611 (697)
26 PF09976 TPR_21: Tetratricopep 96.1 0.25 5.4E-06 43.8 14.3 125 94-232 21-145 (145)
27 TIGR00990 3a0801s09 mitochondr 95.9 1.2 2.7E-05 49.0 21.8 142 84-237 331-499 (615)
28 PF10075 PCI_Csn8: COP9 signal 95.8 0.043 9.2E-07 49.0 8.0 101 255-362 15-121 (143)
29 TIGR03302 OM_YfiO outer membra 95.6 1 2.2E-05 42.7 17.2 162 88-260 37-219 (235)
30 PF07719 TPR_2: Tetratricopept 95.3 0.038 8.2E-07 36.0 4.6 32 206-237 2-33 (34)
31 TIGR02521 type_IV_pilW type IV 95.2 1.4 2.9E-05 40.2 16.3 130 90-237 37-167 (234)
32 PRK11788 tetratricopeptide rep 95.2 1.1 2.5E-05 45.5 17.2 136 90-237 75-212 (389)
33 PRK11788 tetratricopeptide rep 95.0 3.9 8.4E-05 41.6 20.7 130 91-236 114-245 (389)
34 PF13371 TPR_9: Tetratricopept 95.0 0.087 1.9E-06 40.5 6.4 59 174-238 2-62 (73)
35 TIGR02552 LcrH_SycD type III s 94.7 0.89 1.9E-05 39.0 12.8 57 176-238 60-118 (135)
36 PF13432 TPR_16: Tetratricopep 94.4 0.11 2.4E-06 39.1 5.5 57 175-237 5-63 (65)
37 cd00189 TPR Tetratricopeptide 94.4 0.59 1.3E-05 35.2 9.9 93 132-236 5-99 (100)
38 PF14938 SNAP: Soluble NSF att 94.2 6.3 0.00014 39.0 19.7 147 88-237 78-228 (282)
39 PLN03077 Protein ECB2; Provisi 94.0 7.9 0.00017 44.5 22.1 230 168-423 525-775 (857)
40 KOG2300 Uncharacterized conser 94.0 10 0.00022 40.6 21.9 166 85-256 325-494 (629)
41 PF13424 TPR_12: Tetratricopep 93.8 0.31 6.7E-06 38.0 7.3 65 169-233 7-74 (78)
42 TIGR02521 type_IV_pilW type IV 93.7 5.1 0.00011 36.3 16.4 128 90-236 71-200 (234)
43 PF00515 TPR_1: Tetratricopept 93.2 0.21 4.6E-06 32.6 4.6 32 206-237 2-33 (34)
44 PF04733 Coatomer_E: Coatomer 93.1 1.4 3E-05 44.2 12.3 183 85-300 103-289 (290)
45 PLN03081 pentatricopeptide (PP 93.0 13 0.00028 41.6 21.2 119 168-299 260-385 (697)
46 TIGR02917 PEP_TPR_lipo putativ 92.8 3.5 7.5E-05 45.9 16.4 132 88-237 26-157 (899)
47 TIGR00990 3a0801s09 mitochondr 92.7 3.8 8.2E-05 45.2 16.2 126 95-238 305-432 (615)
48 TIGR02795 tol_pal_ybgF tol-pal 92.3 2.5 5.4E-05 34.8 11.1 104 129-238 4-109 (119)
49 PF10602 RPN7: 26S proteasome 92.2 7.6 0.00016 36.0 15.2 113 140-256 49-167 (177)
50 PF13525 YfiO: Outer membrane 92.2 6.3 0.00014 37.1 14.9 161 90-259 11-193 (203)
51 PF13414 TPR_11: TPR repeat; P 91.8 1.7 3.7E-05 32.8 8.8 61 172-236 8-69 (69)
52 PF09012 FeoC: FeoC like trans 91.7 0.35 7.7E-06 37.6 4.8 47 325-375 5-51 (69)
53 TIGR02917 PEP_TPR_lipo putativ 91.6 12 0.00027 41.5 18.9 62 171-238 673-736 (899)
54 PF03399 SAC3_GANP: SAC3/GANP/ 91.3 2.4 5.3E-05 39.5 11.0 138 205-346 56-204 (204)
55 PF12895 Apc3: Anaphase-promot 91.3 0.69 1.5E-05 36.8 6.3 54 173-231 31-84 (84)
56 KOG4162 Predicted calmodulin-b 91.2 6.6 0.00014 44.0 15.4 123 95-237 661-786 (799)
57 PF13174 TPR_6: Tetratricopept 91.1 0.49 1.1E-05 30.2 4.3 30 208-237 3-32 (33)
58 KOG1840 Kinesin light chain [C 90.3 12 0.00026 40.6 16.4 155 76-233 192-353 (508)
59 PRK10049 pgaA outer membrane p 90.0 40 0.00086 38.4 21.3 200 93-308 246-461 (765)
60 PRK15359 type III secretion sy 90.0 3.8 8.2E-05 36.4 10.5 95 134-238 31-125 (144)
61 PF12569 NARP1: NMDA receptor- 89.9 18 0.0004 39.3 17.5 143 77-234 187-334 (517)
62 PLN03077 Protein ECB2; Provisi 89.8 20 0.00044 41.1 18.9 60 167-233 323-382 (857)
63 PF13181 TPR_8: Tetratricopept 89.8 0.54 1.2E-05 30.5 3.7 31 206-236 2-32 (34)
64 PRK11189 lipoprotein NlpI; Pro 89.1 18 0.0004 36.0 15.9 34 204-237 235-268 (296)
65 KOG1840 Kinesin light chain [C 89.0 12 0.00027 40.5 15.2 155 77-233 319-478 (508)
66 PRK10370 formate-dependent nit 89.0 20 0.00043 33.7 15.1 100 128-238 74-177 (198)
67 PRK12370 invasion protein regu 88.9 11 0.00023 41.2 15.1 93 130-233 375-469 (553)
68 PF13414 TPR_11: TPR repeat; P 88.8 1.2 2.5E-05 33.7 5.4 34 205-238 3-36 (69)
69 PRK15174 Vi polysaccharide exp 88.8 14 0.00031 41.3 16.2 98 130-239 287-386 (656)
70 PRK04841 transcriptional regul 88.4 23 0.00049 40.7 18.0 141 90-233 497-640 (903)
71 cd00189 TPR Tetratricopeptide 87.9 4.7 0.0001 29.9 8.5 60 173-238 6-67 (100)
72 cd05804 StaR_like StaR_like; a 87.7 8.6 0.00019 38.6 12.6 94 132-233 119-214 (355)
73 PRK11447 cellulose synthase su 87.5 12 0.00025 44.8 15.3 133 91-238 276-418 (1157)
74 PLN03088 SGT1, suppressor of 87.3 6.1 0.00013 40.7 11.3 56 176-237 45-102 (356)
75 cd05804 StaR_like StaR_like; a 86.9 19 0.0004 36.1 14.5 132 87-237 46-180 (355)
76 PF08784 RPA_C: Replication pr 86.6 0.65 1.4E-05 38.9 3.1 38 333-374 64-101 (102)
77 PLN03218 maturation of RBCL 1; 86.3 46 0.00099 39.6 19.0 63 168-233 615-677 (1060)
78 PRK04841 transcriptional regul 86.2 54 0.0012 37.6 19.4 143 90-236 458-604 (903)
79 CHL00033 ycf3 photosystem I as 86.1 13 0.00028 33.5 11.6 104 127-233 35-141 (168)
80 PLN03218 maturation of RBCL 1; 85.7 86 0.0019 37.4 21.2 64 168-233 543-607 (1060)
81 PF13429 TPR_15: Tetratricopep 84.6 2.3 4.9E-05 41.7 6.3 65 171-237 114-178 (280)
82 TIGR03302 OM_YfiO outer membra 84.3 29 0.00063 32.6 13.7 60 173-235 172-233 (235)
83 PRK14574 hmsH outer membrane p 84.3 87 0.0019 36.2 21.2 99 140-238 340-449 (822)
84 PRK02603 photosystem I assembl 83.8 33 0.00071 31.0 13.8 105 104-220 15-121 (172)
85 KOG2002 TPR-containing nuclear 83.8 20 0.00044 41.3 13.8 127 93-238 279-413 (1018)
86 KOG2300 Uncharacterized conser 83.5 24 0.00051 38.0 13.2 128 99-234 24-156 (629)
87 PF13424 TPR_12: Tetratricopep 83.1 18 0.00038 27.8 9.7 62 92-155 13-74 (78)
88 PF09295 ChAPs: ChAPs (Chs5p-A 82.8 22 0.00048 37.4 13.0 115 97-237 182-296 (395)
89 smart00028 TPR Tetratricopepti 82.7 2.8 6.1E-05 24.8 4.1 31 206-236 2-32 (34)
90 PRK15174 Vi polysaccharide exp 82.7 32 0.00068 38.5 15.1 62 171-238 288-351 (656)
91 PF13176 TPR_7: Tetratricopept 82.1 2.2 4.7E-05 28.5 3.5 26 208-233 2-27 (36)
92 PF04190 DUF410: Protein of un 82.1 55 0.0012 32.3 15.7 95 91-188 17-111 (260)
93 KOG1173 Anaphase-promoting com 81.9 27 0.0006 38.1 13.2 56 176-237 389-446 (611)
94 PRK10049 pgaA outer membrane p 81.8 35 0.00077 38.8 15.3 136 94-241 320-463 (765)
95 PRK11189 lipoprotein NlpI; Pro 81.7 14 0.00031 36.7 10.9 100 127-238 64-165 (296)
96 PRK10866 outer membrane biogen 81.5 54 0.0012 31.8 16.5 167 80-259 31-227 (243)
97 PRK15331 chaperone protein Sic 80.3 24 0.00053 32.5 10.8 103 114-234 29-134 (165)
98 PRK15363 pathogenicity island 80.3 29 0.00062 31.8 11.2 31 206-236 104-134 (157)
99 PRK02603 photosystem I assembl 79.7 18 0.00039 32.7 10.0 75 160-237 28-104 (172)
100 KOG2002 TPR-containing nuclear 79.5 50 0.0011 38.3 14.9 149 82-237 162-339 (1018)
101 KOG2076 RNA polymerase III tra 79.2 1.3E+02 0.0028 34.8 24.6 139 76-237 133-273 (895)
102 KOG3081 Vesicle coat complex C 78.5 76 0.0017 31.8 16.7 81 212-301 214-296 (299)
103 PRK11447 cellulose synthase su 78.4 34 0.00073 41.0 14.2 120 93-237 582-703 (1157)
104 PF13428 TPR_14: Tetratricopep 78.0 5.2 0.00011 27.8 4.5 32 208-239 4-35 (44)
105 PF13429 TPR_15: Tetratricopep 77.3 21 0.00045 34.9 10.2 97 129-237 148-246 (280)
106 PRK11906 transcriptional regul 76.5 99 0.0021 33.2 15.3 67 178-251 349-415 (458)
107 PF13412 HTH_24: Winged helix- 75.9 8.2 0.00018 27.3 5.2 34 332-369 15-48 (48)
108 PF12895 Apc3: Anaphase-promot 74.9 29 0.00062 27.2 8.7 83 96-192 1-83 (84)
109 PF09756 DDRGK: DDRGK domain; 74.8 4.1 8.8E-05 38.4 4.2 49 331-383 110-158 (188)
110 TIGR02552 LcrH_SycD type III s 74.3 22 0.00048 30.1 8.5 61 171-237 21-83 (135)
111 PF14853 Fis1_TPR_C: Fis1 C-te 74.3 10 0.00022 28.1 5.4 31 207-237 3-33 (53)
112 PRK10803 tol-pal system protei 73.7 94 0.002 30.7 13.8 34 206-239 218-251 (263)
113 PF10345 Cohesin_load: Cohesin 73.3 1.5E+02 0.0033 32.7 18.4 128 105-235 38-169 (608)
114 PF14559 TPR_19: Tetratricopep 73.0 3.9 8.4E-05 30.6 3.0 54 178-237 2-57 (68)
115 PRK15363 pathogenicity island 72.7 14 0.00031 33.8 7.0 78 176-262 44-121 (157)
116 KOG0495 HAT repeat protein [RN 72.7 1.1E+02 0.0024 34.4 14.7 96 205-308 685-787 (913)
117 smart00550 Zalpha Z-DNA-bindin 71.4 11 0.00025 29.1 5.4 31 335-369 23-53 (68)
118 KOG4234 TPR repeat-containing 69.0 27 0.00058 33.6 8.1 98 210-309 100-200 (271)
119 PRK10747 putative protoheme IX 69.0 99 0.0022 32.1 13.5 67 171-237 267-360 (398)
120 PRK12370 invasion protein regu 68.9 1.8E+02 0.0039 31.7 24.0 58 175-238 346-405 (553)
121 KOG1174 Anaphase-promoting com 68.3 13 0.00029 39.2 6.4 134 82-237 368-503 (564)
122 KOG2003 TPR repeat-containing 68.2 1.8E+02 0.0039 31.4 16.2 93 130-237 527-624 (840)
123 PF02082 Rrf2: Transcriptional 67.8 10 0.00022 30.3 4.6 49 334-386 25-73 (83)
124 TIGR02795 tol_pal_ybgF tol-pal 66.3 26 0.00057 28.4 7.0 60 175-237 10-71 (119)
125 KOG1173 Anaphase-promoting com 66.1 2.1E+02 0.0046 31.5 20.1 141 209-368 384-538 (611)
126 PRK09782 bacteriophage N4 rece 65.9 1.9E+02 0.0041 34.3 16.1 129 87-238 512-642 (987)
127 PRK10153 DNA-binding transcrip 65.3 2.1E+02 0.0046 31.2 17.2 57 177-238 430-486 (517)
128 PRK09782 bacteriophage N4 rece 65.2 1.1E+02 0.0023 36.3 13.9 125 91-237 549-675 (987)
129 PF12802 MarR_2: MarR family; 65.0 23 0.0005 26.0 5.8 37 335-375 22-58 (62)
130 CHL00033 ycf3 photosystem I as 64.9 1E+02 0.0022 27.5 12.8 120 82-237 33-152 (168)
131 PRK10803 tol-pal system protei 64.9 39 0.00085 33.4 9.0 61 175-238 151-213 (263)
132 KOG0495 HAT repeat protein [RN 64.5 80 0.0017 35.4 11.6 99 121-237 585-683 (913)
133 TIGR00540 hemY_coli hemY prote 64.1 1.4E+02 0.0031 31.0 13.5 55 178-236 310-368 (409)
134 COG3063 PilF Tfp pilus assembl 63.9 70 0.0015 31.3 10.0 158 128-301 36-200 (250)
135 PF13374 TPR_10: Tetratricopep 63.8 15 0.00032 24.3 4.2 28 206-233 3-30 (42)
136 PRK15359 type III secretion sy 63.2 38 0.00082 29.9 7.8 60 175-238 32-91 (144)
137 PF12862 Apc5: Anaphase-promot 62.9 82 0.0018 25.6 10.4 86 88-174 2-88 (94)
138 KOG1126 DNA-binding cell divis 62.8 46 0.001 36.8 9.6 52 176-233 498-551 (638)
139 PF13432 TPR_16: Tetratricopep 61.9 17 0.00036 26.9 4.5 29 209-237 1-29 (65)
140 KOG3060 Uncharacterized conser 61.0 1.8E+02 0.004 29.0 12.9 34 81-114 48-82 (289)
141 PRK15431 ferrous iron transpor 60.8 23 0.00049 28.6 5.2 43 325-371 7-49 (78)
142 PF10300 DUF3808: Protein of u 60.3 1.2E+02 0.0025 32.6 12.2 124 85-221 230-356 (468)
143 KOG4414 COP9 signalosome, subu 60.0 15 0.00032 33.2 4.4 39 311-349 109-147 (197)
144 PF12569 NARP1: NMDA receptor- 58.7 2.8E+02 0.006 30.3 20.2 126 168-302 195-337 (517)
145 PF01047 MarR: MarR family; I 58.3 30 0.00065 25.3 5.3 40 332-375 15-54 (59)
146 PF12688 TPR_5: Tetratrico pep 57.1 1.2E+02 0.0025 26.4 9.5 100 128-233 2-103 (120)
147 PF04733 Coatomer_E: Coatomer 57.1 25 0.00054 35.3 6.1 90 165-264 129-221 (290)
148 PF08631 SPO22: Meiosis protei 55.8 1.4E+02 0.0029 29.5 11.1 58 178-235 4-66 (278)
149 cd00092 HTH_CRP helix_turn_hel 54.9 36 0.00078 25.3 5.4 33 333-369 24-56 (67)
150 PRK14574 hmsH outer membrane p 54.8 3.7E+02 0.0081 31.2 15.7 23 286-308 215-237 (822)
151 smart00419 HTH_CRP helix_turn_ 54.8 19 0.0004 24.9 3.5 32 334-369 8-39 (48)
152 PRK11169 leucine-responsive tr 53.9 29 0.00064 31.5 5.6 42 330-375 24-68 (164)
153 TIGR00540 hemY_coli hemY prote 53.8 98 0.0021 32.2 10.2 35 204-238 262-296 (409)
154 PRK11179 DNA-binding transcrip 53.6 35 0.00075 30.6 5.9 39 333-375 22-63 (153)
155 PF01726 LexA_DNA_bind: LexA D 53.2 18 0.00039 28.0 3.4 33 334-369 25-57 (65)
156 TIGR02944 suf_reg_Xantho FeS a 53.2 17 0.00036 31.6 3.7 44 333-380 24-67 (130)
157 COG1522 Lrp Transcriptional re 53.1 30 0.00066 30.5 5.4 34 332-369 20-53 (154)
158 smart00418 HTH_ARSR helix_turn 52.4 37 0.00079 24.4 5.0 38 332-373 8-45 (66)
159 cd07377 WHTH_GntR Winged helix 51.5 47 0.001 24.3 5.5 33 333-369 23-56 (66)
160 PF08279 HTH_11: HTH domain; 50.8 67 0.0015 23.1 6.1 43 331-378 12-54 (55)
161 PF09339 HTH_IclR: IclR helix- 50.7 23 0.00051 25.6 3.5 34 331-368 15-48 (52)
162 KOG2076 RNA polymerase III tra 49.7 66 0.0014 37.0 8.3 62 172-237 419-481 (895)
163 TIGR02010 IscR iron-sulfur clu 48.5 31 0.00067 30.3 4.6 47 334-384 25-71 (135)
164 PF00392 GntR: Bacterial regul 48.3 59 0.0013 24.4 5.6 41 333-379 22-63 (64)
165 PLN03088 SGT1, suppressor of 48.2 66 0.0014 33.1 7.7 58 175-238 10-69 (356)
166 PRK10866 outer membrane biogen 48.0 1.3E+02 0.0028 29.2 9.4 61 175-238 40-102 (243)
167 PF10345 Cohesin_load: Cohesin 47.4 4.3E+02 0.0094 29.2 18.3 152 76-233 51-207 (608)
168 TIGR00738 rrf2_super rrf2 fami 47.3 27 0.00059 30.1 4.1 45 334-382 25-69 (132)
169 KOG1861 Leucine permease trans 47.2 3.6E+02 0.0078 29.2 12.7 137 205-348 348-492 (540)
170 PF02064 MAS20: MAS20 protein 46.7 42 0.0009 29.4 5.0 42 210-253 68-109 (121)
171 smart00344 HTH_ASNC helix_turn 45.4 55 0.0012 27.0 5.5 34 332-369 15-48 (108)
172 KOG0543 FKBP-type peptidyl-pro 45.4 3.4E+02 0.0074 28.6 12.2 62 173-238 263-324 (397)
173 KOG3250 COP9 signalosome, subu 45.2 1.9E+02 0.0041 28.1 9.4 124 274-409 58-185 (258)
174 KOG1585 Protein required for f 44.8 3.3E+02 0.0072 27.2 13.8 26 274-299 227-252 (308)
175 PF00325 Crp: Bacterial regula 44.8 30 0.00066 23.0 3.0 30 335-368 3-32 (32)
176 KOG3054 Uncharacterized conser 44.5 48 0.001 32.4 5.4 48 332-383 212-259 (299)
177 PF13512 TPR_18: Tetratricopep 44.1 2.4E+02 0.0052 25.4 11.1 30 209-238 88-132 (142)
178 cd00090 HTH_ARSR Arsenical Res 43.8 1E+02 0.0022 22.6 6.4 36 335-374 21-56 (78)
179 smart00420 HTH_DEOR helix_turn 43.3 71 0.0015 22.1 5.1 33 333-369 13-45 (53)
180 PF01325 Fe_dep_repress: Iron 41.9 74 0.0016 24.0 5.2 33 332-368 20-52 (60)
181 smart00345 HTH_GNTR helix_turn 41.5 60 0.0013 23.2 4.6 33 333-369 18-51 (60)
182 TIGR01610 phage_O_Nterm phage 41.4 1.1E+02 0.0023 25.2 6.6 46 332-383 45-90 (95)
183 PF07721 TPR_4: Tetratricopept 41.0 35 0.00077 20.9 2.7 23 207-229 3-25 (26)
184 PRK10857 DNA-binding transcrip 40.2 41 0.00088 30.9 4.2 48 333-384 24-71 (164)
185 PF10300 DUF3808: Protein of u 39.8 1.2E+02 0.0026 32.5 8.4 84 172-262 234-323 (468)
186 PF04703 FaeA: FaeA-like prote 39.7 59 0.0013 25.0 4.3 34 332-369 13-46 (62)
187 COG1497 Predicted transcriptio 39.2 40 0.00087 33.0 4.1 49 317-369 7-56 (260)
188 PF13463 HTH_27: Winged helix 38.2 80 0.0017 23.5 5.0 40 330-373 14-53 (68)
189 PRK10747 putative protoheme IX 38.0 4.8E+02 0.01 27.0 14.2 85 138-233 129-215 (398)
190 COG4785 NlpI Lipoprotein NlpI, 36.5 4.3E+02 0.0093 26.0 11.5 126 166-291 98-254 (297)
191 COG2345 Predicted transcriptio 36.1 81 0.0018 30.5 5.6 46 323-372 14-59 (218)
192 KOG3151 26S proteasome regulat 36.1 4.3E+02 0.0094 26.0 10.8 66 308-383 165-231 (260)
193 KOG3364 Membrane protein invol 35.8 87 0.0019 28.2 5.3 39 199-237 65-103 (149)
194 COG3071 HemY Uncharacterized e 35.2 57 0.0012 34.1 4.7 32 206-237 329-360 (400)
195 PF10602 RPN7: 26S proteasome 35.2 3.6E+02 0.0078 24.8 10.3 63 173-237 42-104 (177)
196 PRK11920 rirA iron-responsive 34.1 62 0.0013 29.2 4.3 49 333-385 23-71 (153)
197 KOG0547 Translocase of outer m 33.5 6.8E+02 0.015 27.4 15.7 65 176-246 369-435 (606)
198 COG2976 Uncharacterized protei 33.4 4.4E+02 0.0095 25.2 10.0 85 141-234 103-188 (207)
199 COG1729 Uncharacterized protei 33.4 1.5E+02 0.0034 29.4 7.2 64 169-238 144-211 (262)
200 KOG2581 26S proteasome regulat 32.5 2.2E+02 0.0047 30.3 8.3 84 82-171 207-290 (493)
201 PF12840 HTH_20: Helix-turn-he 32.4 1.6E+02 0.0034 21.8 5.7 36 330-369 20-55 (61)
202 PRK11014 transcriptional repre 32.1 67 0.0015 28.3 4.2 48 333-384 24-71 (141)
203 PF08898 DUF1843: Domain of un 32.0 1.2E+02 0.0026 22.6 4.7 39 280-318 6-45 (53)
204 PF01978 TrmB: Sugar-specific 32.0 1.7E+02 0.0037 22.1 5.9 37 331-371 19-55 (68)
205 PF13545 HTH_Crp_2: Crp-like h 30.8 66 0.0014 24.6 3.5 42 334-383 28-69 (76)
206 KOG2003 TPR repeat-containing 30.7 42 0.00091 35.9 2.9 121 173-300 207-335 (840)
207 KOG1155 Anaphase-promoting com 30.6 5.6E+02 0.012 27.9 11.0 93 135-233 440-535 (559)
208 KOG1126 DNA-binding cell divis 30.3 6.1E+02 0.013 28.4 11.7 133 83-237 454-589 (638)
209 PF04090 RNA_pol_I_TF: RNA pol 29.9 2.3E+02 0.0049 27.0 7.5 36 95-131 52-87 (199)
210 PF14559 TPR_19: Tetratricopep 29.9 1.1E+02 0.0024 22.4 4.5 22 216-237 2-23 (68)
211 PF13525 YfiO: Outer membrane 29.5 3.4E+02 0.0073 25.2 8.8 59 176-237 14-74 (203)
212 PF13730 HTH_36: Helix-turn-he 29.3 74 0.0016 22.9 3.3 30 335-368 26-55 (55)
213 PF03444 HrcA_DNA-bdg: Winged 28.8 1.4E+02 0.0031 24.1 5.0 59 325-387 10-72 (78)
214 PF09999 DUF2240: Uncharacteri 28.4 74 0.0016 28.7 3.8 76 333-412 16-105 (144)
215 PF12854 PPR_1: PPR repeat 28.4 1E+02 0.0022 20.2 3.5 26 168-193 8-33 (34)
216 TIGR02337 HpaR homoprotocatech 28.2 3.6E+02 0.0077 22.6 9.3 41 332-376 40-80 (118)
217 PRK10265 chaperone-modulator p 28.1 67 0.0015 26.9 3.3 56 333-409 6-61 (101)
218 PF12108 SF3a60_bindingd: Spli 27.6 70 0.0015 20.7 2.5 22 388-409 3-24 (28)
219 KOG4626 O-linked N-acetylgluco 27.6 5.2E+02 0.011 29.3 10.4 61 171-237 358-420 (966)
220 smart00346 HTH_ICLR helix_turn 27.4 2.6E+02 0.0056 22.0 6.6 33 333-369 19-51 (91)
221 PRK15179 Vi polysaccharide bio 27.3 9.6E+02 0.021 27.3 15.4 97 127-233 86-182 (694)
222 PHA02537 M terminase endonucle 27.2 5.1E+02 0.011 25.2 9.5 43 199-241 163-214 (230)
223 PF09986 DUF2225: Uncharacteri 27.1 5.5E+02 0.012 24.4 12.0 36 201-237 161-196 (214)
224 COG1729 Uncharacterized protei 27.1 6.4E+02 0.014 25.1 10.9 32 208-239 218-249 (262)
225 COG1959 Predicted transcriptio 27.1 79 0.0017 28.5 3.7 49 334-386 25-73 (150)
226 PRK09954 putative kinase; Prov 26.9 1.1E+02 0.0023 31.3 5.2 49 331-383 14-65 (362)
227 KOG1070 rRNA processing protei 26.9 1.3E+03 0.028 28.7 18.4 160 74-262 1454-1618(1710)
228 KOG2316 Predicted ATPase (PP-l 26.7 56 0.0012 31.7 2.8 47 328-375 116-164 (277)
229 cd02677 MIT_SNX15 MIT: domain 26.6 2.1E+02 0.0046 22.6 5.7 45 96-140 18-67 (75)
230 PLN03098 LPA1 LOW PSII ACCUMUL 26.5 1.7E+02 0.0038 31.3 6.7 58 173-234 81-141 (453)
231 KOG0739 AAA+-type ATPase [Post 26.3 1.5E+02 0.0032 30.4 5.8 43 97-139 23-71 (439)
232 PRK10370 formate-dependent nit 26.1 85 0.0018 29.4 3.9 33 205-237 73-105 (198)
233 TIGR01764 excise DNA binding d 26.0 73 0.0016 21.7 2.7 31 335-373 2-32 (49)
234 PF05843 Suf: Suppressor of fo 26.0 6.4E+02 0.014 24.8 12.4 136 129-308 3-141 (280)
235 PF13371 TPR_9: Tetratricopept 25.8 1.2E+02 0.0026 22.5 4.1 27 212-238 2-28 (73)
236 PRK14562 haloacid dehalogenase 25.6 1.7E+02 0.0036 27.9 5.9 27 207-233 72-98 (204)
237 cd02683 MIT_1 MIT: domain cont 25.2 2.5E+02 0.0054 22.3 5.9 47 97-143 19-70 (77)
238 PF10516 SHNi-TPR: SHNi-TPR; 25.2 1.4E+02 0.003 20.6 3.8 25 209-233 5-29 (38)
239 smart00386 HAT HAT (Half-A-TPR 25.2 1.6E+02 0.0035 17.6 4.1 29 219-248 1-29 (33)
240 PRK14165 winged helix-turn-hel 25.0 1.5E+02 0.0033 28.6 5.4 48 333-384 20-67 (217)
241 PRK14720 transcript cleavage f 24.7 1.1E+03 0.024 27.7 13.1 135 81-234 30-178 (906)
242 PHA02943 hypothetical protein; 24.7 85 0.0018 28.7 3.4 35 331-369 21-55 (165)
243 PF09202 Rio2_N: Rio2, N-termi 24.5 1.3E+02 0.0028 24.4 4.1 45 330-378 20-64 (82)
244 PRK11512 DNA-binding transcrip 24.3 1.1E+02 0.0023 26.9 4.1 40 333-376 53-92 (144)
245 PF14561 TPR_20: Tetratricopep 24.2 2.4E+02 0.0051 23.0 5.8 32 206-237 23-54 (90)
246 COG3355 Predicted transcriptio 24.1 4.3E+02 0.0092 23.3 7.6 81 332-419 40-122 (126)
247 PLN03098 LPA1 LOW PSII ACCUMUL 24.1 5.4E+02 0.012 27.7 9.7 39 200-238 70-108 (453)
248 PF08220 HTH_DeoR: DeoR-like h 24.0 2.1E+02 0.0044 21.1 4.9 35 330-368 10-44 (57)
249 COG3836 HpcH 2,4-dihydroxyhept 23.9 58 0.0013 31.9 2.4 24 408-431 104-127 (255)
250 PF13812 PPR_3: Pentatricopept 23.8 1.2E+02 0.0025 18.9 3.2 25 169-193 3-27 (34)
251 PF01535 PPR: PPR repeat; Int 23.8 71 0.0015 19.3 2.1 23 170-192 3-25 (31)
252 PF12645 HTH_16: Helix-turn-he 23.2 1.8E+02 0.0038 22.4 4.5 26 280-305 2-27 (65)
253 PRK03902 manganese transport t 23.1 4.7E+02 0.01 22.8 8.0 36 330-369 18-53 (142)
254 KOG1060 Vesicle coat complex A 22.9 6.2E+02 0.013 29.3 10.2 90 78-181 155-248 (968)
255 PHA02695 hypothetical protein; 22.7 2.5E+02 0.0055 31.6 7.1 49 272-320 63-112 (725)
256 cd02680 MIT_calpain7_2 MIT: do 22.7 2.6E+02 0.0056 22.3 5.5 44 97-140 19-67 (75)
257 KOG3151 26S proteasome regulat 22.7 7.5E+02 0.016 24.4 9.5 63 280-342 106-169 (260)
258 PF04049 APC8: Anaphase promot 22.4 1.6E+02 0.0035 26.3 4.8 44 171-221 78-121 (142)
259 KOG2471 TPR repeat-containing 22.3 2.7E+02 0.0059 30.4 7.0 40 199-238 329-368 (696)
260 PF01022 HTH_5: Bacterial regu 22.3 2.1E+02 0.0046 20.0 4.6 33 333-369 14-46 (47)
261 KOG1915 Cell cycle control pro 22.1 1.1E+03 0.023 26.0 14.0 141 95-260 377-523 (677)
262 PF05053 Menin: Menin; InterP 21.7 3.6E+02 0.0077 29.9 7.9 36 84-119 318-353 (618)
263 KOG0547 Translocase of outer m 21.7 6.8E+02 0.015 27.5 9.8 159 84-254 326-514 (606)
264 KOG2047 mRNA splicing factor [ 21.6 1.2E+03 0.026 26.5 14.6 212 95-330 436-662 (835)
265 PRK06266 transcription initiat 21.4 6.6E+02 0.014 23.3 9.0 67 333-406 35-103 (178)
266 TIGR00985 3a0801s04tom mitocho 21.4 1.8E+02 0.0038 26.4 4.8 41 210-252 95-136 (148)
267 PRK15418 transcriptional regul 20.8 2.2E+02 0.0048 28.9 6.0 44 328-375 22-66 (318)
268 cd02684 MIT_2 MIT: domain cont 20.6 4.3E+02 0.0093 20.8 7.9 45 97-141 19-68 (75)
269 PRK03573 transcriptional regul 20.4 2.3E+02 0.0051 24.6 5.5 39 334-376 46-84 (144)
270 PF13431 TPR_17: Tetratricopep 20.2 1.1E+02 0.0023 20.1 2.4 21 205-225 13-33 (34)
271 PF12793 SgrR_N: Sugar transpo 20.1 2.4E+02 0.0052 24.2 5.3 65 333-409 18-85 (115)
No 1
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.6e-111 Score=836.50 Aligned_cols=450 Identities=59% Similarity=0.888 Sum_probs=433.7
Q ss_pred CcccccccchhHHHHHHHhhHHHhccCChHHHHHHHHHHcCCCchhHHHHHhcCCCCCCcccccccCCCCCCC-CC-CCC
Q 012934 1 METGAHAREVRRIMRAVRLTMALRRKLKAPVLSAFLNFALAPGSEAHSRLLSYLPKEDEHEMEVDTASSGAPA-PA-KHP 78 (453)
Q Consensus 1 ~~~~~~~~~~r~~~r~~r~~~~~r~~l~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~ 78 (453)
|+|+|.++|+|||||+||.++++|++|+..+|..+++.++|+++++++.++.+++.+++..++.+.....+++ +. ++.
T Consensus 41 i~kg~~tke~r~I~R~lr~l~~~r~kln~~vL~~~v~~~~~~~se~~~~~l~fv~~~~~~~~p~~~~s~~t~~a~~~k~~ 120 (493)
T KOG2581|consen 41 IDKGVYTKEPRFILRALRLLPSTRRKLNGAVLYKLVSSLLSSGSEAMDRLLRFVPAFDKNIKPLDTDSPNTQSALKRKPL 120 (493)
T ss_pred HhccccccchHHHHHHHHhhhhhHhhhhHHHHHHHHHHHcCCchHHHHHHHhhcccccccCCcccccccccccccccCCc
Confidence 6899999999999999999999999999999999999999999999999999999877766655544222222 23 556
Q ss_pred CCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhh
Q 012934 79 LPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIAT 158 (453)
Q Consensus 79 ~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~ 158 (453)
.||+|+|+++|++++++|+++|++|.+++.+++..+..+|+|++|.+.||+|||+++++|..+++..+|+.|++.+|||+
T Consensus 121 ~~Ei~aY~~lLv~Lfl~d~K~~kea~~~~~~~l~~i~~~nrRtlD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~lrtAt 200 (493)
T KOG2581|consen 121 PAEIEAYLYLLVLLFLIDQKEYKEADKISDALLASISIQNRRTLDLIAAKLYFYLYLSYELEGRLADIRSFLHALLRTAT 200 (493)
T ss_pred hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhh
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc-
Q 012934 159 LRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV- 237 (453)
Q Consensus 159 ~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~- 237 (453)
++|+..||++++|+|||+|++.+.|++|+++++++.+|+..++++++||+||.|+|.++|+||++|.++|.+|++++|+
T Consensus 201 Lrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~pe~~snne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~ 280 (493)
T KOG2581|consen 201 LRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVYPEAASNNEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQH 280 (493)
T ss_pred hcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccCccccccHHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcch
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhhhhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccHHHHHHHH
Q 012934 238 AALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLR 317 (453)
Q Consensus 238 ~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr 317 (453)
.+.||++++.|++|+++||+|+||++++|.|+.++++|.||+.|++|||.||+++|++++++|...|.+||+|.|+.|||
T Consensus 281 ~alGf~q~v~k~~ivv~ll~geiPers~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR 360 (493)
T KOG2581|consen 281 AALGFRQQVNKLMIVVELLLGEIPERSVFRQPGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLR 360 (493)
T ss_pred hhhhHHHHHHHHHHHHHHHcCCCcchhhhcCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHH
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHH
Q 012934 318 HNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAF 397 (453)
Q Consensus 318 ~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l 397 (453)
+|||+++||+|+.+|||||+.|||.+|+++|+ ++||+||+++|+||.|+|+|||++|||.+++..++|++.+|+.+|
T Consensus 361 ~NVIkTgIR~ISlsYSRISl~DIA~kL~l~Se---ed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f 437 (493)
T KOG2581|consen 361 HNVIKTGIRKISLSYSRISLQDIAKKLGLNSE---EDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAF 437 (493)
T ss_pred HHHHHHhhhheeeeeeeccHHHHHHHhcCCCc---hhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhH
Confidence 99999999999999999999999999999997 889999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCchhhhhHHHHHHhhHHHHHHHHhhcccCCCCC
Q 012934 398 NSRIAFCLNMHNEAVRALRFPPNSHKEKESAEKRRERQQQEQELAKHIAEEDDDEF 453 (453)
Q Consensus 398 ~~rI~~~l~l~~~~v~amr~p~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~ 453 (453)
+.||+||++|||++|+||||||+.++++|++|++||||||++|+||||+|+|||||
T Consensus 438 ~~rI~fCl~LhN~~vkamRyPp~~~~~~Es~E~~rereqq~~e~akemae~Ddd~F 493 (493)
T KOG2581|consen 438 DERIRFCLQLHNEAVKAMRYPPKKKKDLESAEKRREREQQELELAKEMAEEDDDDF 493 (493)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhhhhhhhHHHHHHHhhhcccCCC
Confidence 99999999999999999999999999999999999999999999999999999999
No 2
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.3e-36 Score=305.23 Aligned_cols=307 Identities=20% Similarity=0.242 Sum_probs=261.5
Q ss_pred CCCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHH-HH--HHHhh--chhhhHHHHHHHHHHHHHHHHh-----------
Q 012934 76 KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSAS-IA--RLKNM--NRRTVDVLAARLYFYYSLCYEL----------- 139 (453)
Q Consensus 76 ~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~l-v~--~l~~~--~~r~~d~l~ak~~~~~~~~~e~----------- 139 (453)
-...|+++++..++.+.+.+. +..+.|.+..... .+ .+..+ -+.+.|.+ +..+.+|.++
T Consensus 47 ~~~~~~d~~~~~~~~~~~~~~-~~~~~~sa~~~~~~~~~~~l~~~~s~~~~~w~~----~~l~rv~~~l~~la~~~~~~~ 121 (394)
T KOG2688|consen 47 FIGKPFDTIVGLHLRVLLRVA-YPCDAASAFSQQKLFGFLSLRAFSSGNDENWIL----PNLYRVCKDLRYLAINADCAL 121 (394)
T ss_pred ccCCCcchhHhHHHHHHhhhc-cCcchhhhhhhHHHHhhhhHHHHhcccccchHH----HHHHHHHHHHHHHhhhhHHhh
Confidence 344788999999998887775 3444443332222 22 12112 24577887 3455555554
Q ss_pred hc-------CHHHHHHHHHHHHHHhhh-------ccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcC----ccCCh
Q 012934 140 TG-------DLAEIRGNLLALHRIATL-------RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRF----EAHSN 201 (453)
Q Consensus 140 ~~-------~l~~~r~~l~~~~rta~~-------~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p----~~~~~ 201 (453)
.+ .++++.+.++.+++++.. ..+++|+++++|+++++||+.+.+++|++++++...+ ..++.
T Consensus 122 ~~~~s~~~~~le~~s~~i~~~f~~cl~d~~~~~~~~kk~~~~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l 201 (394)
T KOG2688|consen 122 LSFSSLPNQLLEAASRTISRLFSSCLSDRRADLEESKKVAMLYIVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPL 201 (394)
T ss_pred cCcccCchHHHHHHHHHHHHHHHHHhCccccccccchhhHHHHHHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhccc
Confidence 12 278899999999988743 2678999999999999999999999999999986432 24788
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhhhhhhhHHHH
Q 012934 202 QQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFEL 281 (453)
Q Consensus 202 ~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L 281 (453)
+++++|+||.|++++.+.||..|+.+|..||+.||.....++..+++|+||+.+++|.+|..+++..+ .+..|.++
T Consensus 202 ~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n~~~iliylip~~~llg~~Pt~~lL~~~----~~~~~~~l 277 (394)
T KOG2688|consen 202 AQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRLCPDLLLKNKRLILIYLIPTGLLLGRIPTKELLDFY----TLDKYSPL 277 (394)
T ss_pred ccceeeeeeeeeehhhhhhHHHHHHHHHHHHHhCcHHHHhhhhhHHHHHhHHHHHhccCcchhhHhHh----hHHhHHHH
Confidence 99999999999999999999999999999999999977779999999999999999999999998886 37789999
Q ss_pred HHHHhcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHHHHHHHHHHHhhc---ccccHHHHHHHhCCCC--CCChHHHH
Q 012934 282 TNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISY---SRISLADVAKKLRLDS--ANPVADAE 356 (453)
Q Consensus 282 ~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~irki~~~Y---srIsL~dIa~~L~l~~--~~d~~eaE 356 (453)
++||+.||+..|+.++++++..|.+.|.|..+..++..++|++|+++++.+ +++|++.+..++++.+ +.|++|+|
T Consensus 278 v~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deve 357 (394)
T KOG2688|consen 278 VQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVE 357 (394)
T ss_pred HHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHH
Confidence 999999999999999999999999999999999999999999999999999 9999999999999887 57889999
Q ss_pred HHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHHH
Q 012934 357 SIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFN 398 (453)
Q Consensus 357 ~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~ 398 (453)
|++|++|..|.| +||+++.....|+|+.+|||.+.
T Consensus 358 ciLa~lI~~G~i-------kgYish~~~~~V~sK~~pfp~~v 392 (394)
T KOG2688|consen 358 CILANLIDLGRI-------KGYISHQLQTLVFSKKDPFPHLV 392 (394)
T ss_pred HHHHhhhhhccc-------cchhchhhheEEEecCCCCCCCC
Confidence 999999999999 89999999999999999999753
No 3
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.9e-32 Score=266.16 Aligned_cols=247 Identities=20% Similarity=0.258 Sum_probs=217.8
Q ss_pred cCHHHHHHHHHHHHHHhhh-------ccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC---cCcc--CChhhHHHHH
Q 012934 141 GDLAEIRGNLLALHRIATL-------RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP---RFEA--HSNQQFCRYL 208 (453)
Q Consensus 141 ~~l~~~r~~l~~~~rta~~-------~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~---~p~~--~~~~~~v~Y~ 208 (453)
++++++.+.++..|..+.. .++++|.++++|+++.+||+.+++++|++++++.+ .|+. ++.+|++.|+
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~f~ 223 (413)
T COG5600 144 DNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVFH 223 (413)
T ss_pred hhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeehh
Confidence 4688999999999966532 37799999999999999999999999999999864 3553 6799999999
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCC-CCChhhhhhhhhhhhhhhHHHHHHHHhc
Q 012934 209 FYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGE-IPERTVFMQKGMEKALRPYFELTNAVRI 287 (453)
Q Consensus 209 YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~-iP~~~ll~~~~l~~~l~~Y~~L~~Av~~ 287 (453)
||+|++|+.+.+|.+|+.+|..||..||..-.+++..++-++||.+||.|+ .|.++++++. +.+..|..|++||+.
T Consensus 224 YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~Ptk~~L~r~---~~~s~~~~Lvkavrs 300 (413)
T COG5600 224 YYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFPPTKDLLERF---KRCSVYSPLVKAVRS 300 (413)
T ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCCCchHHHHhc---cccchhHHHHHHHHc
Confidence 999999999999999999999999999986678889999999999999755 5667777765 237889999999999
Q ss_pred CCHHHHHHHHHhcchhhccCccH-HHHHHHHHHHHHHHHHHHHhhc---ccccHHHHHHHhCCCCC---CChHHHHHHHH
Q 012934 288 GDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIRTGLRNISISY---SRISLADVAKKLRLDSA---NPVADAESIVS 360 (453)
Q Consensus 288 Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~~vir~~irki~~~Y---srIsL~dIa~~L~l~~~---~d~~eaE~iva 360 (453)
||+..|+.++++++..|.+.|.| .+..+++..++|+++|++|..- +++|++-+-..++++.. .+.+++||+++
T Consensus 301 Gni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~ 380 (413)
T COG5600 301 GNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILV 380 (413)
T ss_pred CCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHH
Confidence 99999999999999999999999 5666799999999999998764 78899988888888762 56899999999
Q ss_pred HhHHcCCceeEeeCCCcEEEecccccccCCccccHHH
Q 012934 361 KAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAF 397 (453)
Q Consensus 361 ~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l 397 (453)
.||..|++ +||+++.....|+|+++|||..
T Consensus 381 tlI~~G~l-------rgYis~s~~~vV~sk~~pFp~~ 410 (413)
T COG5600 381 TLIGLGLL-------RGYISHSRRTVVFSKKDPFPVS 410 (413)
T ss_pred HHHhhhhh-------hheecccceEEEEecCCCCCCC
Confidence 99999999 8999999999999999999963
No 4
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.94 E-value=2.9e-26 Score=226.41 Aligned_cols=240 Identities=20% Similarity=0.309 Sum_probs=201.1
Q ss_pred hHH-HHHHHHHHHHhcCChHHHHHHHhcCC--c---CccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc-C
Q 012934 166 QET-LLNLLLRNYLHYNLYDQAEKLRSKAP--R---FEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV-A 238 (453)
Q Consensus 166 ~~~-l~n~llr~Yl~~~~~~~a~~li~~~~--~---p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~-~ 238 (453)
+++ +...++..++++++|.-..+.++... + ....++...+.|+||+|+|+...++|++|..+|+.++. +|. +
T Consensus 138 qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~-~Pa~~ 216 (422)
T KOG2582|consen 138 QLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVT-TPAMA 216 (422)
T ss_pred chhhhHHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHh-cchhH
Confidence 443 44567777888888776666554321 1 22467899999999999999999999999999999996 998 5
Q ss_pred chHhHHHHHHHHHhHHHh-cCCCCChhhhh----hhhhhhhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccHHHH
Q 012934 239 ALGFRVQCNKWAIIVRLL-LGEIPERTVFM----QKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLI 313 (453)
Q Consensus 239 ~~~~~~~alK~lIlv~LL-~G~iP~~~ll~----~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv 313 (453)
.+.+..+++|++++|+|+ .|++-..+.-+ .+.+++-..||.++.+++-+++...++.++.+|.+.|.+|+|.+++
T Consensus 217 vs~~hlEaYkkylLvsLI~~GK~~ql~k~ts~~~~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~l~ 296 (422)
T KOG2582|consen 217 VSHIHLEAYKKYLLVSLILTGKVFQLPKNTSQNAGRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTGLA 296 (422)
T ss_pred HHHHHHHHHHHHHHHHhhhcCceeeccccchhhhHHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHHHH
Confidence 599999999999999998 49864333333 2223444569999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccc
Q 012934 314 VRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEP 393 (453)
Q Consensus 314 ~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep 393 (453)
+++...+.+++|+|++++|++++|++||++.+|.+. +|||..|.+||.+|.|.|.|| |+|.|.....-|-+.|
T Consensus 297 k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~---qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~Spe- 369 (422)
T KOG2582|consen 297 KQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASA---QEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPE- 369 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcch---HHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHH-
Confidence 999999999999999999999999999999999987 999999999999999999998 9999998876554433
Q ss_pred cHHHHHHHHHHHHHHHHHHHhcC
Q 012934 394 QLAFNSRIAFCLNMHNEAVRALR 416 (453)
Q Consensus 394 ~~~l~~rI~~~l~l~~~~v~amr 416 (453)
.++..|.-|.+|.. ..++|.
T Consensus 370 --M~~nk~~~~~~L~e-~l~~~e 389 (422)
T KOG2582|consen 370 --MHENKIDLCIQLIE-ALKAME 389 (422)
T ss_pred --HHhhHHHHHHHHHH-HHHhcc
Confidence 33448999999988 778774
No 5
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=3.1e-24 Score=210.56 Aligned_cols=245 Identities=19% Similarity=0.268 Sum_probs=213.1
Q ss_pred HhcccCHHHHHHHHHHHHHHHHhhchh----hhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHH
Q 012934 94 LIDKKRYNEAKACSSASIARLKNMNRR----TVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 169 (453)
Q Consensus 94 l~d~~~~~~A~~~~~~lv~~l~~~~~r----~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l 169 (453)
++|+++|.+|..+...++.++++++++ ++..+++|+||- ..++.+++..|+++ ||++
T Consensus 138 y~d~~~YteAlaL~~~L~rElKKlDDK~lLvev~llESK~y~~-------l~Nl~KakasLTsA-RT~A----------- 198 (411)
T KOG1463|consen 138 YNDTKRYTEALALINDLLRELKKLDDKILLVEVHLLESKAYHA-------LRNLPKAKASLTSA-RTTA----------- 198 (411)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHhcccccceeeehhhhhHHHHH-------HhcchhHHHHHHHH-HHhh-----------
Confidence 358899999999999999999999877 446777777764 77899999999999 5543
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc-hHhHHHHHH
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA-LGFRVQCNK 248 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~-~~~~~~alK 248 (453)
|.++ +||..+++-....|.+++.++||..|+.||.+||+...+.. ......++|
T Consensus 199 -naiY------------------------cpPqlQa~lDLqSGIlha~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLK 253 (411)
T KOG1463|consen 199 -NAIY------------------------CPPQLQATLDLQSGILHAAEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLK 253 (411)
T ss_pred -cccc------------------------cCHHHHHHHHHhccceeecccccchHHHHHHHHHccccccCCcHHHHHHHH
Confidence 3332 78999999999999999999999999999999999877743 467889999
Q ss_pred HHHhHHHhcCCCCChh-hhhhhh-h---hhhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccH-HHHHHHHHHHHH
Q 012934 249 WAIIVRLLLGEIPERT-VFMQKG-M---EKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIR 322 (453)
Q Consensus 249 ~lIlv~LL~G~iP~~~-ll~~~~-l---~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~~vir 322 (453)
|+++|+++++...+.. +++.+. + .+.+.....++.|+.++++..|..++..|..++..|... ..+..|..++++
T Consensus 254 YMlLcKIMln~~ddv~~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLE 333 (411)
T KOG1463|consen 254 YMLLCKIMLNLPDDVAALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLE 333 (411)
T ss_pred HHHHHHHHhcCHHHHHHHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHH
Confidence 9999999998865543 444332 1 146778899999999999999999999999999999987 678899999999
Q ss_pred HHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccc
Q 012934 323 TGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 386 (453)
Q Consensus 323 ~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~ 386 (453)
.++-||..+||+|.+++||..+|++. ..||.-+++||.|..+.|++||..|++...+.+.
T Consensus 334 knl~riIEPyS~Vei~hIA~~IGl~~----~~VEkKLsqMILDKkf~G~LDQg~g~Liv~~e~~ 393 (411)
T KOG1463|consen 334 KNLCRIIEPYSRVEISHIAEVIGLDV----PQVEKKLSQMILDKKFYGTLDQGEGCLIVFEEPP 393 (411)
T ss_pred HhHHHHcCchhhhhHHHHHHHHCCCc----HHHHHHHHHHHHHHHhhcccccCCCeEEEeCCCC
Confidence 99999999999999999999999998 8999999999999999999999999998876644
No 6
>PF08375 Rpn3_C: Proteasome regulatory subunit C-terminal; InterPro: IPR013586 Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome is a self-compartmentalising protease responsible for the regulated degradation of intracellular proteins in eukaryotes [, ]. This giant intracellular protease is formed by several subunits arranged into two 19S polar caps, where protein recognition and ATP-dependent unfolding occur, flanking a 20S central barrel-shaped structure with an inner proteolytic chamber. This overall structure is highly conserved among eukaryotes and is essential for cell viability. Proteins targeted to the 26S proteasome are conjugated with a polyubiquitin chain by an enzymatic cascade before delivery to the 26S proteasome for degradation into oligopeptides. The 19S component is divided into a "base" subunit containing six ATPases (Rpt proteins) and two non-ATPases (Rpn1, Rpn2), and a "lid" subunit composed of eight stoichiometric proteins (Rpn3, Rpn5, Rpn6, Rpn7, Rpn8, Rpn9, Rpn11, Rpn12) []. Additional non-essential and species specific proteins may also be present. The 19S unit performs several essential functions including binding the specific protein substrates, unfolding them, cleaving the attached ubiquitin chains, opening the 20S subunit, and driving the unfolded polypeptide into the proteolytic chamber for degradation. The 26s proteasome and 19S regulator are of medical interest due to their involvement in burn rehabilitation []. This eukaryotic domain is found at the C terminus of 26S proteasome regulatory subunits such as the non-ATPase Rpn3 subunit which is essential for proteasomal function []. It occurs together with the PCI/PINT domain (IPR000717 from INTERPRO). ; GO: 0030234 enzyme regulator activity, 0042176 regulation of protein catabolic process, 0000502 proteasome complex
Probab=99.92 E-value=1.2e-25 Score=173.97 Aligned_cols=67 Identities=70% Similarity=1.097 Sum_probs=64.7
Q ss_pred cccCCccccHHHHHHHHHHHHHHHHHHHhcCCCCCCch-hhhhHHHHHHhhHHHHHHHHhhcccCCCC
Q 012934 386 DIYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHK-EKESAEKRRERQQQEQELAKHIAEEDDDE 452 (453)
Q Consensus 386 ~v~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~-~~~~~~~~~~~~~~~~e~~~~~~~~~~~~ 452 (453)
+||||.+|+.+|++||+|||+|||++|||||||+++++ ++++++++++|+++++|+|+++++||+||
T Consensus 1 DvYsT~ePq~aF~~RI~FCL~lHneaVkAMRyP~~~~~~~~~~~~~~~ere~~e~el~~e~~e~D~DD 68 (68)
T PF08375_consen 1 DVYSTNEPQEAFHQRIAFCLQLHNEAVKAMRYPPDAHKKELESAEERREREQQEEELAKEIEEGDLDD 68 (68)
T ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCccchhhhhHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 68999999999999999999999999999999999997 99999999999999999999999998886
No 7
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=1.3e-18 Score=168.04 Aligned_cols=243 Identities=18% Similarity=0.265 Sum_probs=205.0
Q ss_pred hcccCHHHHHHHHHHHHHHHHhhchh----hhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHH
Q 012934 95 IDKKRYNEAKACSSASIARLKNMNRR----TVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 170 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~~l~~~~~r----~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~ 170 (453)
+++++|.+|..+...+...+++++++ ++..+++|+|+ ...++.+.+..|+++ ||+.
T Consensus 136 y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhllESKvyh-------~irnv~KskaSLTaA-rt~A------------ 195 (421)
T COG5159 136 YKTGKYSDALALINPLLHELKKYDDKINLITVHLLESKVYH-------EIRNVSKSKASLTAA-RTLA------------ 195 (421)
T ss_pred HhcccHHHHHHHHHHHHHHHHhhcCccceeehhhhhHHHHH-------HHHhhhhhhhHHHHH-HHHh------------
Confidence 47899999999999999999999766 34455555544 467888889999888 5543
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc-CchHhHHHHHHH
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV-AALGFRVQCNKW 249 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~-~~~~~~~~alK~ 249 (453)
|.. .+|+..++......|.+++-+.||..|+.||.+|++.... .........+||
T Consensus 196 ns~------------------------YCPpqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkY 251 (421)
T COG5159 196 NSA------------------------YCPPQLQAQLDLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKY 251 (421)
T ss_pred hcc------------------------CCCHHHHHHHHHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHH
Confidence 222 3788899999999999999999999999999999997665 335566778999
Q ss_pred HHhHHHhcCCCCChh-hhhhhh-hh----hhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccH-HHHHHHHHHHHH
Q 012934 250 AIIVRLLLGEIPERT-VFMQKG-ME----KALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIR 322 (453)
Q Consensus 250 lIlv~LL~G~iP~~~-ll~~~~-l~----~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~~vir 322 (453)
+++.+++++.+.+.. +++.+. ++ +.+..+..+++|+.++++..|..++.+|+.++..|... ..+.-|..+++.
T Consensus 252 mlLSkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe 331 (421)
T COG5159 252 MLLSKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLE 331 (421)
T ss_pred HHHHHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHH
Confidence 999999987766543 444432 11 35677889999999999999999999999999988876 678889999999
Q ss_pred HHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccc
Q 012934 323 TGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 385 (453)
Q Consensus 323 ~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~ 385 (453)
.++-||..+|+++.++.||..+|++. ..+|.-+++||.|.-++|++||.+|++...+.+
T Consensus 332 ~Nl~kiiEPfs~VeishIa~viGldt----~qvEgKLsqMILDKifyG~LDqg~gcLivy~ep 390 (421)
T COG5159 332 KNLVKIIEPFSVVEISHIADVIGLDT----NQVEGKLSQMILDKIFYGTLDQGDGCLIVYGEP 390 (421)
T ss_pred hhhhhhcCcceeeehhHHHHHhcccH----HHHHHHHHHHHHHHHHHhhhccCCceEEEeCCc
Confidence 99999999999999999999999998 999999999999999999999999999877654
No 8
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.77 E-value=6.9e-17 Score=157.82 Aligned_cols=272 Identities=18% Similarity=0.245 Sum_probs=213.1
Q ss_pred HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhc-cCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCcc--CCh
Q 012934 125 LAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLR-HDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEA--HSN 201 (453)
Q Consensus 125 l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~-~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~--~~~ 201 (453)
-.+-+.+..+..||..+++..+...|.++---.... .|....+-+.-.+-|.|++.+...+|.-+++++++|.. .+.
T Consensus 101 qv~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne 180 (399)
T KOG1497|consen 101 QVASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESSNE 180 (399)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCH
Confidence 334567788889999999999998888775322122 22333344455688999999999999999999988764 344
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhh----hhhhh
Q 012934 202 QQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGME----KALRP 277 (453)
Q Consensus 202 ~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~----~~l~~ 277 (453)
.-++.|.-..+|+.-..++|-+|...|.+... .-......+.++++..+.|-+|.+--|.++-+-+-.++ +.++.
T Consensus 181 ~Lqie~kvc~ARvlD~krkFlEAAqrYyels~-~ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~l~~ 259 (399)
T KOG1497|consen 181 QLQIEYKVCYARVLDYKRKFLEAAQRYYELSQ-RKIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQKLPA 259 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCcccccccc
Confidence 55678888899999999999999977766543 22256788999999999999999988988744332222 24455
Q ss_pred HH-----HHHHHHhcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCCh
Q 012934 278 YF-----ELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPV 352 (453)
Q Consensus 278 Y~-----~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~ 352 (453)
|. .+.+.++..++..|...+..|+..-..||.- .. -..+++|++.-+++.|..||++.+++.|+++.
T Consensus 260 y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgss-il---~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~---- 331 (399)
T KOG1497|consen 260 YGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSS-IL---DRAVIEHNLLSASKLYNNISFEELGALLKIDA---- 331 (399)
T ss_pred hHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcch-hh---hhHHHHHhHHHHHHHHHhccHHHHHHHhCCCH----
Confidence 54 3555677889999999999999887677742 22 34589999999999999999999999999998
Q ss_pred HHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHHHHHHHHHHHHHHHHH
Q 012934 353 ADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHNEAV 412 (453)
Q Consensus 353 ~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~~~v 412 (453)
+.||.|.++||..|.++|.|||.+|+|+|.+. +|+|.|++.|+.+++-.|...
T Consensus 332 ekaekiaa~MI~qeRmng~IDQ~egiihFe~~-------e~l~~wdkqi~sl~~qvNki~ 384 (399)
T KOG1497|consen 332 EKAEKIAAQMITQERMNGSIDQIEGIIHFEDR-------EELPQWDKQIQSLCNQVNKIL 384 (399)
T ss_pred HHHHHHHHHHHhHHHhccchHhhcceEeecch-------hhhhhhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999863 799999999996555444343
No 9
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.73 E-value=1.4e-15 Score=146.57 Aligned_cols=235 Identities=19% Similarity=0.228 Sum_probs=175.0
Q ss_pred cCccchHH-HHHHHHHHHHhcCC-------hHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 012934 161 HDELGQET-LLNLLLRNYLHYNL-------YDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 232 (453)
Q Consensus 161 ~~~~~~~~-l~n~llr~Yl~~~~-------~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~ 232 (453)
.++-+|+. +..+-...|-..++ |++|-.+-++.+.| --.-...-.+|+.++.+|+|.+|+..|..||
T Consensus 184 ~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHP-----lImGvIRECGGKMHlreg~fe~AhTDFFEAF 258 (440)
T KOG1464|consen 184 QKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHP-----LIMGVIRECGGKMHLREGEFEKAHTDFFEAF 258 (440)
T ss_pred hhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCch-----HHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence 44556653 56666777776643 45554444443333 2334466789999999999999999999999
Q ss_pred HcCCcCchHhHHHHHHHHHhHHHhc-CCCCChhhhhhhhh--hhhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCcc
Q 012934 233 RKAPVAALGFRVQCNKWAIIVRLLL-GEIPERTVFMQKGM--EKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRT 309 (453)
Q Consensus 233 ~~~p~~~~~~~~~alK~lIlv~LL~-G~iP~~~ll~~~~l--~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~ 309 (453)
.+...+.++.+..|+||+|+..+|+ ..+.+..--..+.+ .+.+.++..++.|+.+.|+.+|++++..|+.....|..
T Consensus 259 KNYDEsGspRRttCLKYLVLANMLmkS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpF 338 (440)
T KOG1464|consen 259 KNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAKPYKNDPEILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPF 338 (440)
T ss_pred hcccccCCcchhHHHHHHHHHHHHHHcCCCCCcccccCCCCCCHHHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHH
Confidence 9888788999999999999999996 44443321111112 25667788999999999999999999999876666654
Q ss_pred H-HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccccc
Q 012934 310 N-NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIY 388 (453)
Q Consensus 310 ~-~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~ 388 (453)
. ..++.|..++.-.-+.++.++|++|.+.-|+..|.++. .+||.++..+|.|..|+|+||+.+||+...+....-
T Consensus 339 IReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~----~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~ 414 (440)
T KOG1464|consen 339 IREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPE----ADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSG 414 (440)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCH----HHHHHHHHHHHhccccccchHHhhhHhccCccCCcc
Confidence 3 33444444444445667778999999999999999997 899999999999999999999999999988776543
Q ss_pred CC-ccccHHHHHHHHHH
Q 012934 389 ST-NEPQLAFNSRIAFC 404 (453)
Q Consensus 389 s~-~ep~~~l~~rI~~~ 404 (453)
|+ -+.+..|..+|+.+
T Consensus 415 ~k~~~al~kW~~ql~Sl 431 (440)
T KOG1464|consen 415 SKLYKALDKWNNQLKSL 431 (440)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 33 34555666666543
No 10
>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=99.71 E-value=8.6e-17 Score=135.12 Aligned_cols=104 Identities=37% Similarity=0.567 Sum_probs=97.0
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHhc-chhhccCccHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHH
Q 012934 276 RPYFELTNAVRIGDLELFKSVAEKF-SSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 354 (453)
Q Consensus 276 ~~Y~~L~~Av~~Gdl~~f~~~l~~~-~~~f~~Dg~~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~e 354 (453)
++|.++++|+.+||+..|.+.++++ ...|.++++..++..++..++++.+++++..|++|+++++|+.++++. ++
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~----~~ 76 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSE----EE 76 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCH----HH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccch----HH
Confidence 4799999999999999999999999 778888898999999999999999999999999999999999999998 99
Q ss_pred HHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 355 AESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 355 aE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
+|++|++||.+|.|.|+|||.+|+|.|++
T Consensus 77 vE~~l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 77 VESILIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHHHHHCCCEEEEEECCCCEEEecC
Confidence 99999999999999999999999999874
No 11
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=3.2e-15 Score=149.82 Aligned_cols=274 Identities=20% Similarity=0.194 Sum_probs=211.1
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHH-HhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCc-cCChh
Q 012934 127 ARLYFYYSLCYELTGDLAEIRGNLLALHR-IATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFE-AHSNQ 202 (453)
Q Consensus 127 ak~~~~~~~~~e~~~~l~~~r~~l~~~~r-ta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~-~~~~~ 202 (453)
|++--..+...|..|.+.+|+..+....- |-..--.++-..+++- -+|.++..+.|-.|..+-++.. |++ .-.-.
T Consensus 131 arlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLE-QmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~ 209 (439)
T KOG1498|consen 131 ARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILE-QMRLCLLRLDYVRAQIISKKINKKFFEKPDVQE 209 (439)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHH-HHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHH
Confidence 34444667778888999888887776642 3222222333333333 3478888899999987777653 443 23334
Q ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc--CchHhHHHHHHHHHhHHHhcCCCCChhhhhhh-hhh---hhhh
Q 012934 203 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV--AALGFRVQCNKWAIIVRLLLGEIPERTVFMQK-GME---KALR 276 (453)
Q Consensus 203 ~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~--~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~-~l~---~~l~ 276 (453)
.-+.||+.+-++..+++.|-+++++|..... +|. +.+..+..++...+...+|...-+..+-+..+ ... ..++
T Consensus 210 lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~-t~~vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is~dKkL~e~p 288 (439)
T KOG1498|consen 210 LKLKYYELMIRLGLHDRAYLNVCRSYRAIYD-TGNVKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARISNDKKLSELP 288 (439)
T ss_pred HHHHHHHHHHHhcccccchhhHHHHHHHHhc-ccccccChhhhhhhhhhheeEEeecCCCcHHHHHHHHHhcccccccCc
Confidence 5667777777778889999999999988886 776 44666777776666656666555554422222 111 3567
Q ss_pred hHHHHHHHHhcCCHHHHHHHHHhcchhhccCccH-------HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCC
Q 012934 277 PYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-------NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSA 349 (453)
Q Consensus 277 ~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-------~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~ 349 (453)
.|..+++.|-+|.+..|....+.|+..+..++++ ..+..|+..+++|+||.++..||+|++.+++..++++.
T Consensus 289 ~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~- 367 (439)
T KOG1498|consen 289 DYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPV- 367 (439)
T ss_pred cHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCH-
Confidence 8999999999999999999999999888877443 47999999999999999999999999999999999997
Q ss_pred CChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHHHHHHHHHHHHHH
Q 012934 350 NPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 350 ~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~ 409 (453)
+++|..++.|+..|.|.|+||++.|+|.|...++ ..+-+..|...+..++.+.+
T Consensus 368 ---ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~---~~~~LneW~~nve~L~~ll~ 421 (439)
T KOG1498|consen 368 ---EEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKD---SNEILNEWASNVEKLLGLLE 421 (439)
T ss_pred ---HHHHHHHHHHHhccceEEEecCCCceEEEEeccc---HHHHHHHHHhhHHHHHHHHH
Confidence 9999999999999999999999999999998876 56888999999999998877
No 12
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=3.6e-09 Score=105.09 Aligned_cols=241 Identities=15% Similarity=0.163 Sum_probs=164.8
Q ss_pred HHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC----cCccCChhhHHHHHHHHHHHHHHHhh
Q 012934 145 EIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP----RFEAHSNQQFCRYLFYLGKIRTIQLE 220 (453)
Q Consensus 145 ~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~----~p~~~~~~~~v~Y~YY~G~i~~~~~d 220 (453)
++-..+-.+-+.......+++...+...+-|.|+..|....|++++.... --..++++-...||-.+..+|-.-+|
T Consensus 93 ~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d 172 (380)
T KOG2908|consen 93 EALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGD 172 (380)
T ss_pred HHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHh
Confidence 33334444433333333445777788888999999999999999887642 12246677788899999999999999
Q ss_pred HHHHHHHHHHHHHcCCc---CchHhHHHHHHHHHhHHHhcCC-CCChh-hhhhhhhhh----hhhhHHHHHHHHhcCCHH
Q 012934 221 YTDAKESLLQAARKAPV---AALGFRVQCNKWAIIVRLLLGE-IPERT-VFMQKGMEK----ALRPYFELTNAVRIGDLE 291 (453)
Q Consensus 221 y~~A~~~L~~A~~~~p~---~~~~~~~~alK~lIlv~LL~G~-iP~~~-ll~~~~l~~----~l~~Y~~L~~Av~~Gdl~ 291 (453)
|..++.+...=+. |-. .+...+++-.--+.+ .-|+|+ +-... ++.+|.++. .-.+-.++..||+.||+.
T Consensus 173 ~a~yYr~~L~YL~-~~d~~~l~~se~~~lA~~L~~-aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~ 250 (380)
T KOG2908|consen 173 FASYYRHALLYLG-CSDIDDLSESEKQDLAFDLSL-AALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLK 250 (380)
T ss_pred HHHHHHHHHHHhc-cccccccCHHHHHHHHHHHHH-HHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHH
Confidence 9999987666664 543 223444443333444 444555 55543 667776653 235678999999999999
Q ss_pred HHHHHHHhcch--hhccCccHHHHHHHHHHHHHHHHHHHH---hhcc------cccHHHHHHHhCCCCCCChHHHHHHHH
Q 012934 292 LFKSVAEKFSS--TFSSDRTNNLIVRLRHNVIRTGLRNIS---ISYS------RISLADVAKKLRLDSANPVADAESIVS 360 (453)
Q Consensus 292 ~f~~~l~~~~~--~f~~Dg~~~Lv~rLr~~vir~~irki~---~~Ys------rIsL~dIa~~L~l~~~~d~~eaE~iva 360 (453)
+|++....+.. .|.+. ...++..|+-++ .+|+ +||+++||++.+++. +|||.+|.
T Consensus 251 ~f~~l~~~~~~~p~L~~~----------e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~----~eVE~LVM 316 (380)
T KOG2908|consen 251 RFESLKGVWGKQPDLASN----------EDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPN----KEVELLVM 316 (380)
T ss_pred HHHHHHHHhccCchHHHH----------HHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCH----HHHHHHHH
Confidence 99999887665 22211 112233333333 3454 599999999999998 99999999
Q ss_pred HhHHcCCceeEeeCCCcEEEeccc-ccccCCccccHHHHHHHH
Q 012934 361 KAIRDGAIDATVDHANGWMVSKET-GDIYSTNEPQLAFNSRIA 402 (453)
Q Consensus 361 ~mI~dG~I~A~Id~~~G~v~~~~~-~~v~s~~ep~~~l~~rI~ 402 (453)
+++.-|.|.|.||+..|.|.+.+. +.|++. +..-....|+.
T Consensus 317 KAlslgLikG~Idqv~~~v~~swvqPRvl~~-~qI~~Mk~rl~ 358 (380)
T KOG2908|consen 317 KALSLGLIKGSIDQVEGVVYMSWVQPRVLDR-SQIVKMKDRLD 358 (380)
T ss_pred HHHhccceeeeecccccEEEEecccccccCH-HHHHhHHHHHH
Confidence 999999999999999999999885 445444 23334444444
No 13
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=3.7e-11 Score=117.34 Aligned_cols=266 Identities=17% Similarity=0.155 Sum_probs=177.8
Q ss_pred HHHHHHHHHHhhcCHHHHHHHHHHHHH-HhhhccCccchHHHHH---HHHHHHHhcCChHHHHHHHhcCC---cCccCCh
Q 012934 129 LYFYYSLCYELTGDLAEIRGNLLALHR-IATLRHDELGQETLLN---LLLRNYLHYNLYDQAEKLRSKAP---RFEAHSN 201 (453)
Q Consensus 129 ~~~~~~~~~e~~~~l~~~r~~l~~~~r-ta~~~~~~~~~~~l~n---~llr~Yl~~~~~~~a~~li~~~~---~p~~~~~ 201 (453)
+---.++.+|..|++.+|...+-...- |-+. .-....+| --+|.++..+.|-+|....++.. |-+.--.
T Consensus 133 iT~~L~~ikee~Gdi~sA~Dilcn~pVETygs----~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~ 208 (439)
T COG5071 133 LTQLLSQIKEEQGDIKSAQDILCNEPVETYGS----FDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQ 208 (439)
T ss_pred HHHHHHHHHHHhcchhHHHHHHhcCchhhccc----hhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccHH
Confidence 334556667777777766665544321 1111 11111222 23467777788888877665542 3222334
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc--CchHhHHHHHHHHHhHHHhcCCCCCh-hhhhhhh-h-h-hhh
Q 012934 202 QQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV--AALGFRVQCNKWAIIVRLLLGEIPER-TVFMQKG-M-E-KAL 275 (453)
Q Consensus 202 ~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~--~~~~~~~~alK~lIlv~LL~G~iP~~-~ll~~~~-l-~-~~l 275 (453)
+..+.||-..-+|..+++.|-++.+|+...+. +.. ...+-+..++-..+...+|..--... .+..+.. . + ..+
T Consensus 209 slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~-t~~~~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvhKi~~d~kl~sl 287 (439)
T COG5071 209 SLKLKYYELKVRIGLHDRAYLDVCKYYRAVYD-TAVVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSL 287 (439)
T ss_pred HHHHHHHHHhheeecccHHHHHHHHHHHHHHH-HHHhccCcccccchhhcceeeEEecccccHHHHHHHHhhhhhhhccc
Confidence 56788888899999999999999999998886 332 22333333332211111221000000 0111110 0 0 133
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHhcchhhccC-------ccHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCC
Q 012934 276 RPYFELTNAVRIGDLELFKSVAEKFSSTFSSD-------RTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDS 348 (453)
Q Consensus 276 ~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D-------g~~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~ 348 (453)
..-.+++..+....+..+..+-+.|+..+..+ .+-.-+..|+..|++|++|.|+..||+|++..+...++++.
T Consensus 288 ~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~ 367 (439)
T COG5071 288 PLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSP 367 (439)
T ss_pred hhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCH
Confidence 44567888888888888888888887665544 22346889999999999999999999999999999999887
Q ss_pred CCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHHHHHHHHHHH
Q 012934 349 ANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLN 406 (453)
Q Consensus 349 ~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~ 406 (453)
+++|..++.|+..|.+.|+|+++.|+|+|..+..+ .+.+..|...+..+|.
T Consensus 368 ----s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n~---~~~lneW~~NV~ellg 418 (439)
T COG5071 368 ----SETEQFISDLVNKGHFYAKINRPAQIISFEKSQNV---QEQLNEWGSNVTELLG 418 (439)
T ss_pred ----HHHHHHHHHHHhcCcEEEEecCccceEEeeccccH---HHHHHHhcccHHHHHH
Confidence 99999999999999999999999999999988763 5677888888887776
No 14
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.13 E-value=2.2e-10 Score=93.82 Aligned_cols=86 Identities=40% Similarity=0.537 Sum_probs=75.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCc
Q 012934 312 LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTN 391 (453)
Q Consensus 312 Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ 391 (453)
.+..+...+.++.+..++.+|++|++++|+..++++. +++|..|.+||.+|.|+|+|||.+|+|.+.+...-+ .
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~----~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~ 75 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSV----PEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR--S 75 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCH----HHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh--h
Confidence 3567888889999999999999999999999999998 899999999999999999999999999999876544 4
Q ss_pred cccHHHHHHHHH
Q 012934 392 EPQLAFNSRIAF 403 (453)
Q Consensus 392 ep~~~l~~rI~~ 403 (453)
++++.+.+++..
T Consensus 76 ~~~~~~~~~l~~ 87 (88)
T smart00088 76 EPLAQFAETLKK 87 (88)
T ss_pred hHHHHHHHHhhc
Confidence 566777766653
No 15
>smart00753 PAM PCI/PINT associated module.
Probab=99.13 E-value=2.2e-10 Score=93.82 Aligned_cols=86 Identities=40% Similarity=0.537 Sum_probs=75.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCc
Q 012934 312 LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTN 391 (453)
Q Consensus 312 Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ 391 (453)
.+..+...+.++.+..++.+|++|++++|+..++++. +++|..|.+||.+|.|+|+|||.+|+|.+.+...-+ .
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~----~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~--~ 75 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSV----PEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR--S 75 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCH----HHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh--h
Confidence 3567888889999999999999999999999999998 899999999999999999999999999999876544 4
Q ss_pred cccHHHHHHHHH
Q 012934 392 EPQLAFNSRIAF 403 (453)
Q Consensus 392 ep~~~l~~rI~~ 403 (453)
++++.+.+++..
T Consensus 76 ~~~~~~~~~l~~ 87 (88)
T smart00753 76 EPLAQFAETLKK 87 (88)
T ss_pred hHHHHHHHHhhc
Confidence 566777766653
No 16
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=0.0015 Score=65.38 Aligned_cols=245 Identities=17% Similarity=0.129 Sum_probs=148.0
Q ss_pred HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhh-ccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC-c-CccCC
Q 012934 124 VLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL-RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP-R-FEAHS 200 (453)
Q Consensus 124 ~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~-~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~-~-p~~~~ 200 (453)
...+|.-|| .. .++-+.+-..+-..++.++. -|+-+-.++. +|.-|=.++.+.-...|.+.. . -+.-+
T Consensus 106 a~~~kaeYy-cq----igDkena~~~~~~t~~ktvs~g~kiDVvf~~----iRlglfy~D~~lV~~~iekak~liE~GgD 176 (393)
T KOG0687|consen 106 AMLRKAEYY-CQ----IGDKENALEALRKTYEKTVSLGHKIDVVFYK----IRLGLFYLDHDLVTESIEKAKSLIEEGGD 176 (393)
T ss_pred HHHHHHHHH-HH----hccHHHHHHHHHHHHHHHhhcccchhhHHHH----HHHHHhhccHHHHHHHHHHHHHHHHhCCC
Confidence 334444554 33 33334444444444543333 2333333333 333333444443333333321 1 11223
Q ss_pred hhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCCh--hhhhhhhhh---hhh
Q 012934 201 NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPER--TVFMQKGME---KAL 275 (453)
Q Consensus 201 ~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~--~ll~~~~l~---~~l 275 (453)
=.-.=||.-|.|+..+.-.||++|...|..++...-+.-.--.-.+..|.|.++++.=+-|+. .+...+..- ..+
T Consensus 177 WeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l 256 (393)
T KOG0687|consen 177 WERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKL 256 (393)
T ss_pred hhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcC
Confidence 333457899999999999999999999999986433321222345566888888874333322 122222111 124
Q ss_pred hhHHHHHHHHhcCCHHHHHHHH-HhcchhhccCccHH-----HHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCC
Q 012934 276 RPYFELTNAVRIGDLELFKSVA-EKFSSTFSSDRTNN-----LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSA 349 (453)
Q Consensus 276 ~~Y~~L~~Av~~Gdl~~f~~~l-~~~~~~f~~Dg~~~-----Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~ 349 (453)
++-.+++...=..|...|-..+ .-....+..|.-++ -+...|..++-+.+ .+|..++|...|+..|++.
T Consensus 257 ~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlL----ESYrsl~l~~MA~aFgVSV- 331 (393)
T KOG0687|consen 257 PSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLL----ESYRSLTLESMAKAFGVSV- 331 (393)
T ss_pred chHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhCchH-
Confidence 4556666666667777776555 33355566555432 24445555554433 6899999999999999886
Q ss_pred CChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccc
Q 012934 350 NPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 385 (453)
Q Consensus 350 ~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~ 385 (453)
+=++.=+++.|..|.++++||+.+|+|....+.
T Consensus 332 ---efiDreL~rFI~~grL~ckIDrVnGVVEtNrpD 364 (393)
T KOG0687|consen 332 ---EFIDRELGRFIAAGRLHCKIDRVNGVVETNRPD 364 (393)
T ss_pred ---HHHHhHHHHhhccCceeeeeecccceeecCCcc
Confidence 888899999999999999999999999987663
No 17
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.09 E-value=0.0022 Score=69.53 Aligned_cols=101 Identities=23% Similarity=0.296 Sum_probs=80.5
Q ss_pred HHHHHHhcCCHHHHHHHHHhcchhhc----cCccH-HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHH
Q 012934 280 ELTNAVRIGDLELFKSVAEKFSSTFS----SDRTN-NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 354 (453)
Q Consensus 280 ~L~~Av~~Gdl~~f~~~l~~~~~~f~----~Dg~~-~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~e 354 (453)
+-++|...||...-.+.+-.+...|. .|.+. .|.++++.--+|+-+-..+..|+.||+..+|....|+. ..
T Consensus 659 aAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~----~~ 734 (843)
T KOG1076|consen 659 AASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPE----PK 734 (843)
T ss_pred HHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCc----hh
Confidence 55678999999887775555544443 23333 24556666667777767777789999999999999998 89
Q ss_pred HHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 355 AESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 355 aE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
|-.||++||-...|.|++|++.++|.+++.
T Consensus 735 VhsIiSkmiineEl~AslDqpt~~iv~hrv 764 (843)
T KOG1076|consen 735 VHSIISKMIINEELHASLDQPTQCIVMHRV 764 (843)
T ss_pred HHHHHHHHHHHHHhhhccCCCcceEEEeec
Confidence 999999999999999999999999999984
No 18
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=0.0063 Score=60.28 Aligned_cols=189 Identities=17% Similarity=0.250 Sum_probs=126.7
Q ss_pred hHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhc-CC--
Q 012934 183 YDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLL-GE-- 259 (453)
Q Consensus 183 ~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~-G~-- 259 (453)
.+.+++++.+. ..-.-.=+|.-|.|+..+...+|++|...|..++....++-.--.-.+-.|.|.+.++. .+
T Consensus 175 lE~~~~~iEkG-----gDWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~d 249 (412)
T COG5187 175 LEVADDIIEKG-----GDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRD 249 (412)
T ss_pred HHHHHHHHHhC-----CCHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhh
Confidence 34455555543 23334568999999999999999999999999876433322233456778999999883 22
Q ss_pred CCChhhhhhhhh------hhhhhhHHHHHHHHhcCCHH-HHHHHHHhcchhhccCccHHH-----HHHHHHHHHHHHHHH
Q 012934 260 IPERTVFMQKGM------EKALRPYFELTNAVRIGDLE-LFKSVAEKFSSTFSSDRTNNL-----IVRLRHNVIRTGLRN 327 (453)
Q Consensus 260 iP~~~ll~~~~l------~~~l~~Y~~L~~Av~~Gdl~-~f~~~l~~~~~~f~~Dg~~~L-----v~rLr~~vir~~irk 327 (453)
+-++ ++..|.+ ...+....+++...=..|.. .|...+.-+-..++.|.-.+. +...|..|+-+
T Consensus 250 iktk-i~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQ---- 324 (412)
T COG5187 250 IKTK-ILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQ---- 324 (412)
T ss_pred hhhh-hcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHH----
Confidence 2221 2333311 01233344555555455555 577777777776666554332 33333333333
Q ss_pred HHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccc
Q 012934 328 ISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 385 (453)
Q Consensus 328 i~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~ 385 (453)
+-.+|..+||...|+..|++. +-++.-+++-|-+|.+...||+.+|+|....+.
T Consensus 325 lLESYr~lsl~sMA~tFgVSV----~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpd 378 (412)
T COG5187 325 LLESYRLLSLESMAQTFGVSV----EYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPD 378 (412)
T ss_pred HHHHHHHhhHHHHHHHhCccH----HHHhhhHHhhCCCCceeeeeecccceEeccCcc
Confidence 346899999999999999886 889999999999999999999999999887653
No 19
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.70 E-value=0.0085 Score=61.75 Aligned_cols=205 Identities=14% Similarity=0.084 Sum_probs=127.9
Q ss_pred HHHHHhcCChHHHHHHHhcCC-cC---ccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH-HcCC--cCchHhHHHH
Q 012934 174 LRNYLHYNLYDQAEKLRSKAP-RF---EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA-RKAP--VAALGFRVQC 246 (453)
Q Consensus 174 lr~Yl~~~~~~~a~~li~~~~-~p---~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~-~~~p--~~~~~~~~~a 246 (453)
++.-+-.+++..-...+++.. .| ++....--.+-.-+.|...+..++|+.|..+|..+- .+|. ....+.=+.+
T Consensus 194 i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~i 273 (466)
T KOG0686|consen 194 ILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAI 273 (466)
T ss_pred HHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHH
Confidence 345555677777777777643 44 222222234467789999999999999998887764 2232 1111111222
Q ss_pred HHHHHhHHHhc-CCC-CChhhhhhhhhh--hhhh-hHHHHHHHHhcCCHHHHHHHHHhcchhhccCccH-HHHHHHHHHH
Q 012934 247 NKWAIIVRLLL-GEI-PERTVFMQKGME--KALR-PYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNV 320 (453)
Q Consensus 247 lK~lIlv~LL~-G~i-P~~~ll~~~~l~--~~l~-~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~~v 320 (453)
| --+|.|-. +.- -.+.+..+-.++ -.+. ...++...|-++.....-+.+.+.+..+.-|--. ..|..|...+
T Consensus 274 Y--ggLcALAtfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~I 351 (466)
T KOG0686|consen 274 Y--GGLCALATFDRQDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLI 351 (466)
T ss_pred H--HhhHhhccCCHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHH
Confidence 2 22222210 100 000011111111 1222 3567888888888777777777766544433322 2344444444
Q ss_pred HHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 321 IRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 321 ir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
..+.+.+...+|++++++.+|.+.+.+. ...|.-|..+|.+|.|.|+||.-.+++...+.
T Consensus 352 R~r~llqy~~py~s~~m~~mA~af~~sv----~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~ 411 (466)
T KOG0686|consen 352 RNRALLQYLSPYSSADMSKMAEAFNTSV----AILESELLELILEGKISGRIDSHNKILYARDA 411 (466)
T ss_pred HHhhHHHhcCccccchHHHHHHHhcccH----HHHHHHHHHHHHccchheeeccccceeeeccc
Confidence 4566777788999999999999999887 89999999999999999999999999888765
No 20
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.65 E-value=0.0036 Score=62.26 Aligned_cols=208 Identities=17% Similarity=0.129 Sum_probs=126.7
Q ss_pred ccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHH
Q 012934 97 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 176 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~ 176 (453)
.+++++|..+..+...-..+.+.. .-.|+.|.--+.++... +...+...+..+....+...+....+-....+-++
T Consensus 48 ~~~~~~A~~ay~kAa~~~~~~~~~---~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ 123 (282)
T PF14938_consen 48 AKDWEKAAEAYEKAADCYEKLGDK---FEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEI 123 (282)
T ss_dssp TT-CHHHHHHHHHHHHHHHHTT-H---HHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred HhccchhHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence 367888877777766554443221 23344444444444444 55666666666665555555555555666677788
Q ss_pred HHhc-CChHHHHHHHhcC-Cc-CccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc--hHhHHHHHHHHH
Q 012934 177 YLHY-NLYDQAEKLRSKA-PR-FEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA--LGFRVQCNKWAI 251 (453)
Q Consensus 177 Yl~~-~~~~~a~~li~~~-~~-p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~--~~~~~~alK~lI 251 (453)
|-.. ++++.|-...... .. -..-.+......+--.|.+++..++|.+|.+.|+.+...+-... .......+-..+
T Consensus 124 ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~ 203 (282)
T PF14938_consen 124 YEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAI 203 (282)
T ss_dssp HCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHH
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence 8888 8888888866653 22 11224566677778899999999999999999999998654421 223445555678
Q ss_pred hHHHhcCCCCChh-hhhhh-----hhh--hhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCc
Q 012934 252 IVRLLLGEIPERT-VFMQK-----GME--KALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDR 308 (453)
Q Consensus 252 lv~LL~G~iP~~~-ll~~~-----~l~--~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg 308 (453)
+|.|.+|+..... .+... .+. +...--..|+.|++.||...|.+++..|...=.=|+
T Consensus 204 l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~ 268 (282)
T PF14938_consen 204 LCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDN 268 (282)
T ss_dssp HHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---H
T ss_pred HHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHH
Confidence 8999999854321 22211 111 223344689999999999999999999977544333
No 21
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=97.45 E-value=0.011 Score=61.87 Aligned_cols=173 Identities=20% Similarity=0.145 Sum_probs=115.2
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCCcCcc----CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc------
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAPRFEA----HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA------ 239 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~~p~~----~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~------ 239 (453)
+..|+|.+.-.|.|.+|-+.++..++-.. .-+.-.++.+||.|-.|+..++|.+|.+.|..++...-...
T Consensus 125 ligLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~~ 204 (404)
T PF10255_consen 125 LIGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQR 204 (404)
T ss_pred HHHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 44588999999999999999998764221 22456778889999999999999999999998874211111
Q ss_pred -------hHhHHHHHHHHHhHHHhc-CCCCChhhhhhhhhhhhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCc---
Q 012934 240 -------LGFRVQCNKWAIIVRLLL-GEIPERTVFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDR--- 308 (453)
Q Consensus 240 -------~~~~~~alK~lIlv~LL~-G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg--- 308 (453)
.+...+.+-.+.+|..+. +.+|+. +..+ ++ ..|.+=......||+..|++....-...|+.--
T Consensus 205 ~~q~d~i~K~~eqMyaLlAic~~l~p~~lde~-i~~~--lk---eky~ek~~kmq~gd~~~f~elF~~acPKFIsp~~pp 278 (404)
T PF10255_consen 205 SYQYDQINKKNEQMYALLAICLSLCPQRLDES-ISSQ--LK---EKYGEKMEKMQRGDEEAFEELFSFACPKFISPVSPP 278 (404)
T ss_pred cchhhHHHhHHHHHHHHHHHHHHhCCCCCCHH-HHHH--HH---HHHHHHHHHHHccCHHHHHHHHHhhCCCccCCCCCC
Confidence 122223333333333333 334432 2111 11 236666677899999999999998777776522
Q ss_pred -------cH----------HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCC
Q 012934 309 -------TN----------NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDS 348 (453)
Q Consensus 309 -------~~----------~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~ 348 (453)
+. ..+..+++.-.-..||..-+.|++|+++-+|.-++++.
T Consensus 279 ~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~ 335 (404)
T PF10255_consen 279 DYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDE 335 (404)
T ss_pred CcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCH
Confidence 11 12344444445556777778899999999999999875
No 22
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=97.28 E-value=0.066 Score=53.95 Aligned_cols=118 Identities=18% Similarity=0.255 Sum_probs=85.3
Q ss_pred HHHHHHHHhcCCHHHHHHHHHhcchhhccCccH--HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHH
Q 012934 278 YFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN--NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADA 355 (453)
Q Consensus 278 Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~--~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~ea 355 (453)
..++...|-+|-+..|-+..+++.......|.. .++.+.|..- +-.+...-..||+.++++-|+++. +|+
T Consensus 240 i~qLL~IF~s~~L~aYveF~~~N~~Fvqs~gl~~E~~~~KMRLLT----lm~LA~es~eisy~~l~k~LqI~e----deV 311 (378)
T KOG2753|consen 240 IHQLLKIFVSGKLDAYVEFVAANSGFVQSQGLVHEQNMAKMRLLT----LMSLAEESNEISYDTLAKELQINE----DEV 311 (378)
T ss_pred HHHHHHHHHhcchHHHHHHHHhChHHHHHhcccHHHHHHHHHHHH----HHHHhccCCCCCHHHHHHHhccCH----HHH
Confidence 678999999999999999999998866655543 2333333211 111222347999999999999998 899
Q ss_pred HHHHHHhHHcCCceeEeeCCCcEEEecc-cccccCCccccHHHHHHHHHH
Q 012934 356 ESIVSKAIRDGAIDATVDHANGWMVSKE-TGDIYSTNEPQLAFNSRIAFC 404 (453)
Q Consensus 356 E~iva~mI~dG~I~A~Id~~~G~v~~~~-~~~v~s~~ep~~~l~~rI~~~ 404 (453)
|-.|.++|+-|.|.|+||+-+..++.+. ...++++. .-..++.+.+.-
T Consensus 312 E~fVIdaI~aklV~~kidq~~~~viVs~~~hR~FG~~-qW~~L~~kL~aw 360 (378)
T KOG2753|consen 312 ELFVIDAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQ-QWQQLRDKLAAW 360 (378)
T ss_pred HHHHHHHHHHHHHHhhHHhhcceEEeehhhhhhcccH-HHHHHHHHHHHH
Confidence 9999999999999999999887666654 44566662 223444555544
No 23
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=96.89 E-value=0.0056 Score=61.29 Aligned_cols=103 Identities=20% Similarity=0.199 Sum_probs=71.4
Q ss_pred hHHHHHHHH-hcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHHHHHHHHHHH----hhcccccHHHHHHHhCCCCCCC
Q 012934 277 PYFELTNAV-RIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNIS----ISYSRISLADVAKKLRLDSANP 351 (453)
Q Consensus 277 ~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~irki~----~~YsrIsL~dIa~~L~l~~~~d 351 (453)
|-.+++.++ -+=|..+-+..+..-++.+..|.-. .-|+.-.+++.=.-|. .+...|++.-+|.+|.++.
T Consensus 290 PiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFL---va~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~~--- 363 (432)
T KOG2758|consen 290 PITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFL---VALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMDP--- 363 (432)
T ss_pred cHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhH---HHHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCCH---
Confidence 334455553 5556666666666666666665532 1222222333222333 3447899999999999987
Q ss_pred hHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccc
Q 012934 352 VADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 386 (453)
Q Consensus 352 ~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~ 386 (453)
+|+|+.+.++|++..|+|+||.+-|-|....+..
T Consensus 364 -eeaErwivnlIr~~rl~AkidSklg~Vvmg~~~~ 397 (432)
T KOG2758|consen 364 -EEAERWIVNLIRTARLDAKIDSKLGHVVMGHPTV 397 (432)
T ss_pred -HHHHHHHHHHHHHhhhhhhhccccCceeecCCCC
Confidence 9999999999999999999999999998887754
No 24
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.65 E-value=0.99 Score=50.51 Aligned_cols=70 Identities=21% Similarity=0.262 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 311 NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 311 ~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
.-|..|+...+.++++.++++|.+||++.+....-+-++ -++|.++.++...|.+..+|||.++.|+|..
T Consensus 424 QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~---~~lEk~~v~a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 424 QYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSA---FELEKLLVEAAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCH---HHHHHHHHHHHhccceeEEeccccceeeecc
Confidence 457788889999999999999999999999888776554 8999999999999999999999999999996
No 25
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=96.15 E-value=1.7 Score=48.73 Aligned_cols=256 Identities=12% Similarity=0.068 Sum_probs=126.9
Q ss_pred hcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHh
Q 012934 140 TGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQL 219 (453)
Q Consensus 140 ~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~ 219 (453)
.+.++.+...+-.+.+... ..-..+.|.++..|.+.|.++.|..+++...-|+. ++|. -+...|+..|
T Consensus 338 ~g~~~~a~~i~~~m~~~g~-----~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~------~t~n-~lI~~y~~~G 405 (697)
T PLN03081 338 LALLEHAKQAHAGLIRTGF-----PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL------ISWN-ALIAGYGNHG 405 (697)
T ss_pred ccchHHHHHHHHHHHHhCC-----CCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCe------eeHH-HHHHHHHHcC
Confidence 4555555554444433221 11224557788899999999999999987654432 2222 2333456688
Q ss_pred hHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHh--cCCCCCh-hhhhh----hhhhhhhhhHHHHHHHH-hcCCHH
Q 012934 220 EYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLL--LGEIPER-TVFMQ----KGMEKALRPYFELTNAV-RIGDLE 291 (453)
Q Consensus 220 dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL--~G~iP~~-~ll~~----~~l~~~l~~Y~~L~~Av-~~Gdl~ 291 (453)
++.+|.+.|......- ..-....+..++.-+ .|.+-+- .+|.. ....+....|..++.++ +.|++.
T Consensus 406 ~~~~A~~lf~~M~~~g------~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~ 479 (697)
T PLN03081 406 RGTKAVEMFERMIAEG------VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLD 479 (697)
T ss_pred CHHHHHHHHHHHHHhC------CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHH
Confidence 9999999999987521 111112233333322 2443321 12221 12334556688888887 778877
Q ss_pred HHHHHHHhcchhhccCccHHHHHHHHHHHHHHH--------HHHHHhhc--ccccHHHHHHHhCCCCCCChHHHHHHHHH
Q 012934 292 LFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTG--------LRNISISY--SRISLADVAKKLRLDSANPVADAESIVSK 361 (453)
Q Consensus 292 ~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~--------irki~~~Y--srIsL~dIa~~L~l~~~~d~~eaE~iva~ 361 (453)
+-.+.+++.. +..+. ..+..|...+-+++ ..++...- ..-+..-+...+.-.+ .+++|+.+...
T Consensus 480 eA~~~~~~~~--~~p~~--~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G--~~~~A~~v~~~ 553 (697)
T PLN03081 480 EAYAMIRRAP--FKPTV--NMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSG--RQAEAAKVVET 553 (697)
T ss_pred HHHHHHHHCC--CCCCH--HHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCC--CHHHHHHHHHH
Confidence 7666665421 22221 11222211111111 11111100 0111112222221111 25899999999
Q ss_pred hHHcCCceeEeeCCCcEEEecccccccCCccccHHHHHHHHHHHHHHHHHHHhcCCCCCCc
Q 012934 362 AIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSH 422 (453)
Q Consensus 362 mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~ 422 (453)
|-..|.- ..+.-.+|......-++...+........|-..++--.+.++..-|-|+..
T Consensus 554 m~~~g~~---k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~ 611 (697)
T PLN03081 554 LKRKGLS---MHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEEN 611 (697)
T ss_pred HHHcCCc---cCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence 9999863 112223444444333333333333333455544443333566677877754
No 26
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.07 E-value=0.25 Score=43.81 Aligned_cols=125 Identities=19% Similarity=0.093 Sum_probs=79.6
Q ss_pred HhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHH
Q 012934 94 LIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLL 173 (453)
Q Consensus 94 l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~l 173 (453)
.++.++...+......+++ .+ ..+.. .....+..+.++--.|++.++...|-.+.... .+........-.+
T Consensus 21 ~~~~~~~~~~~~~~~~l~~---~~-~~s~y--a~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~d~~l~~~a~l~L 91 (145)
T PF09976_consen 21 ALQAGDPAKAEAAAEQLAK---DY-PSSPY--AALAALQLAKAAYEQGDYDEAKAALEKALANA---PDPELKPLARLRL 91 (145)
T ss_pred HHHCCCHHHHHHHHHHHHH---HC-CCChH--HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---CCHHHHHHHHHHH
Confidence 3356777766444333333 22 22211 11123444444445789999888887776533 2222222223346
Q ss_pred HHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 012934 174 LRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 232 (453)
Q Consensus 174 lr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~ 232 (453)
-++++..++++.|...+.... +......+....|.|+..+|++.+|...|..|+
T Consensus 92 A~~~~~~~~~d~Al~~L~~~~-----~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al 145 (145)
T PF09976_consen 92 ARILLQQGQYDEALATLQQIP-----DEAFKALAAELLGDIYLAQGDYDEARAAYQKAL 145 (145)
T ss_pred HHHHHHcCCHHHHHHHHHhcc-----CcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence 789999999999999997632 223345578899999999999999999999874
No 27
>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=95.89 E-value=1.2 Score=48.97 Aligned_cols=142 Identities=15% Similarity=-0.026 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHhcccCHHHHHHHHHHHHHHH----Hhhc------------hhhh---------HHHHHHHHHHHHHHHH
Q 012934 84 IYCYLLVLIFLIDKKRYNEAKACSSASIARL----KNMN------------RRTV---------DVLAARLYFYYSLCYE 138 (453)
Q Consensus 84 ~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l----~~~~------------~r~~---------d~l~ak~~~~~~~~~e 138 (453)
...+......++..|++++|.....+.+..- ..+. .... +.-.+.+|+..+.++-
T Consensus 331 a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~ 410 (615)
T TIGR00990 331 AIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHF 410 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence 3444455555566788888888877766420 0000 0000 0001223444444444
Q ss_pred hhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHH
Q 012934 139 LTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRT 216 (453)
Q Consensus 139 ~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~ 216 (453)
..|+..++...+..++... +... .....+-..|.+.|+++.|...++... +|.. ...+++.|.++.
T Consensus 411 ~~g~~~~A~~~~~kal~l~-----P~~~-~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~------~~~~~~lg~~~~ 478 (615)
T TIGR00990 411 IKGEFAQAGKDYQKSIDLD-----PDFI-FSHIQLGVTQYKEGSIASSMATFRRCKKNFPEA------PDVYNYYGELLL 478 (615)
T ss_pred HcCCHHHHHHHHHHHHHcC-----ccCH-HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHHH
Confidence 4555555555444443211 1111 112234456677778887777766532 3322 335567788888
Q ss_pred HHhhHHHHHHHHHHHHHcCCc
Q 012934 217 IQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 217 ~~~dy~~A~~~L~~A~~~~p~ 237 (453)
..++|.+|...|..|+...|.
T Consensus 479 ~~g~~~~A~~~~~~Al~l~p~ 499 (615)
T TIGR00990 479 DQNKFDEAIEKFDTAIELEKE 499 (615)
T ss_pred HccCHHHHHHHHHHHHhcCCc
Confidence 888888888888888886665
No 28
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=95.77 E-value=0.043 Score=49.03 Aligned_cols=101 Identities=19% Similarity=0.303 Sum_probs=66.9
Q ss_pred HhcCCCCChhhhhhhh---hh---hhhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHHHHHHHHHH
Q 012934 255 LLLGEIPERTVFMQKG---ME---KALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNI 328 (453)
Q Consensus 255 LL~G~iP~~~ll~~~~---l~---~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~irki 328 (453)
|+.+++++....-... ++ +.+..-..|.+++.+|+..+|-+.++.+ .+ .+....+|..+...+.+.-+..|
T Consensus 15 L~~~~~~df~~~~~rip~~~~~~~~~i~~i~~l~~~L~~~~~~~~~~~~~~~--~~-~~~~~~~v~~~~~~iR~~i~~~i 91 (143)
T PF10075_consen 15 LMQNDLSDFRLLWKRIPEELKQSDPEIKAIWSLGQALWEGDYSKFWQALRSN--PW-SPDYKPFVPGFEDTIRERIAHLI 91 (143)
T ss_dssp HHTTTSTHHHHHHHTS-HHHHTS-TTHHHHHHHHHHHHTT-HHHHHHHS-TT-------HHHHTSTTHHHHHHHHHHHHH
T ss_pred HHcCCchHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHhc--cc-hHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457777654332211 11 3444556889999999999998877754 11 11223456667777778888899
Q ss_pred HhhcccccHHHHHHHhCCCCCCChHHHHHHHHHh
Q 012934 329 SISYSRISLADVAKKLRLDSANPVADAESIVSKA 362 (453)
Q Consensus 329 ~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~m 362 (453)
+.+|++||+++++..||++. +|++.++.+-
T Consensus 92 ~~aY~sIs~~~la~~Lg~~~----~el~~~~~~~ 121 (143)
T PF10075_consen 92 SKAYSSISLSDLAEMLGLSE----EELEKFIKSR 121 (143)
T ss_dssp HHH-SEE-HHHHHHHTTS-H----HHHHHHHHHH
T ss_pred HHHHhHcCHHHHHHHhCCCH----HHHHHHHHHc
Confidence 99999999999999999994 8998888876
No 29
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=95.56 E-value=1 Score=42.71 Aligned_cols=162 Identities=14% Similarity=0.037 Sum_probs=97.9
Q ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchH
Q 012934 88 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 167 (453)
Q Consensus 88 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~ 167 (453)
+-....++..+++++|......+++. +....+ ...+++..+.++...++..++...+-.+.+.... +... .
T Consensus 37 ~~~g~~~~~~~~~~~A~~~~~~~~~~----~p~~~~--~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~--~ 107 (235)
T TIGR03302 37 YEEAKEALDSGDYTEAIKYFEALESR----YPFSPY--AEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDA--D 107 (235)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHh----CCCchh--HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCch--H
Confidence 44445677889999997765554332 222222 2234677788888899999998888888754421 1111 1
Q ss_pred HHHHHHHHHHHhc--------CChHHHHHHHhcC--CcCccCCh-----------hhHHHHHHHHHHHHHHHhhHHHHHH
Q 012934 168 TLLNLLLRNYLHY--------NLYDQAEKLRSKA--PRFEAHSN-----------QQFCRYLFYLGKIRTIQLEYTDAKE 226 (453)
Q Consensus 168 ~l~n~llr~Yl~~--------~~~~~a~~li~~~--~~p~~~~~-----------~~~v~Y~YY~G~i~~~~~dy~~A~~ 226 (453)
.....+-..|+.. +.++.|...+.+. ..|.+... .....+.+..|.++..+++|.+|..
T Consensus 108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~ 187 (235)
T TIGR03302 108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAIN 187 (235)
T ss_pred HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence 1112222344443 6788888877764 25543211 1112345678999999999999999
Q ss_pred HHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCC
Q 012934 227 SLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEI 260 (453)
Q Consensus 227 ~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~i 260 (453)
.+..++..+|.. ++...++..+..+..-+|+.
T Consensus 188 ~~~~al~~~p~~--~~~~~a~~~l~~~~~~lg~~ 219 (235)
T TIGR03302 188 RFETVVENYPDT--PATEEALARLVEAYLKLGLK 219 (235)
T ss_pred HHHHHHHHCCCC--cchHHHHHHHHHHHHHcCCH
Confidence 999999987763 23344444444444445553
No 30
>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=95.34 E-value=0.038 Score=36.00 Aligned_cols=32 Identities=25% Similarity=0.300 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.++|+.|.++..+++|.+|.++|..|++..|.
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~ 33 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPN 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence 57899999999999999999999999987764
No 31
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=95.21 E-value=1.4 Score=40.16 Aligned_cols=130 Identities=17% Similarity=0.130 Sum_probs=85.6
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 169 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l 169 (453)
....++..+++++|.......++.- ... +.++...+.++...|+..++...+..+..... ... ..
T Consensus 37 la~~~~~~~~~~~A~~~~~~~l~~~----p~~-----~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~----~~~--~~ 101 (234)
T TIGR02521 37 LALGYLEQGDLEVAKENLDKALEHD----PDD-----YLAYLALALYYQQLGELEKAEDSFRRALTLNP----NNG--DV 101 (234)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhC----ccc-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC----CCH--HH
Confidence 3445567899999988877765431 111 12244555666668888888877776664321 111 22
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCC-cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.+.+-..|+..|+++.|...+.... .+. ........+..|.++...+++.+|..+|..++...|.
T Consensus 102 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~ 167 (234)
T TIGR02521 102 LNNYGTFLCQQGKYEQAMQQFEQAIEDPL---YPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ 167 (234)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHhccc---cccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence 3345567889999999999877642 221 1123344566899999999999999999999986554
No 32
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.19 E-value=1.1 Score=45.54 Aligned_cols=136 Identities=14% Similarity=0.067 Sum_probs=89.1
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 169 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l 169 (453)
....+...|++++|......++.. ... .+.....+++..+.++-..|+..++...+..+.... . .....
T Consensus 75 la~~~~~~g~~~~A~~~~~~~l~~----~~~-~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~----~--~~~~~ 143 (389)
T PRK11788 75 LGNLFRRRGEVDRAIRIHQNLLSR----PDL-TREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG----D--FAEGA 143 (389)
T ss_pred HHHHHHHcCcHHHHHHHHHHHhcC----CCC-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC----c--chHHH
Confidence 344556789999998877666542 111 111122345566666667788888877766665321 1 11233
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.+.+...|.+.++++.|...+.... .|.. +......|++-.|.++..++++.+|..+|..++...|.
T Consensus 144 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~ 212 (389)
T PRK11788 144 LQQLLEIYQQEKDWQKAIDVAERLEKLGGDS-LRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ 212 (389)
T ss_pred HHHHHHHHHHhchHHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC
Confidence 4556778999999999988777642 2221 22245567777899999999999999999999986554
No 33
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.05 E-value=3.9 Score=41.62 Aligned_cols=130 Identities=15% Similarity=0.060 Sum_probs=82.8
Q ss_pred HHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHH
Q 012934 91 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 170 (453)
Q Consensus 91 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~ 170 (453)
...+...|++++|.......++. +... ..++.....++...++..++...+..+.... +.........+.
T Consensus 114 a~~~~~~g~~~~A~~~~~~~l~~----~~~~-----~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~ 183 (389)
T PRK11788 114 GQDYLKAGLLDRAEELFLQLVDE----GDFA-----EGALQQLLEIYQQEKDWQKAIDVAERLEKLG-GDSLRVEIAHFY 183 (389)
T ss_pred HHHHHHCCCHHHHHHHHHHHHcC----Ccch-----HHHHHHHHHHHHHhchHHHHHHHHHHHHHhc-CCcchHHHHHHH
Confidence 33345678999998776665432 1111 1123444556666788887776665554322 111111122233
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
..+-..|++.|+++.|...+.+.. .|. ....++..|.++...++|.+|...|..+....|
T Consensus 184 ~~la~~~~~~~~~~~A~~~~~~al~~~p~------~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p 245 (389)
T PRK11788 184 CELAQQALARGDLDAARALLKKALAADPQ------CVRASILLGDLALAQGDYAAAIEALERVEEQDP 245 (389)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHhHCcC------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCh
Confidence 446678899999999999877642 232 234567899999999999999999999997544
No 34
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=95.00 E-value=0.087 Score=40.54 Aligned_cols=59 Identities=19% Similarity=0.126 Sum_probs=49.5
Q ss_pred HHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 174 LRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 174 lr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..+|++.++++.|...++... .|+ ....+++.|.++...++|.+|.+.|..++..+|..
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~------~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~ 62 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPD------DPELWLQRARCLFQLGRYEEALEDLERALELSPDD 62 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCcc------cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence 468999999999999888742 343 45567889999999999999999999999988863
No 35
>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=94.69 E-value=0.89 Score=38.99 Aligned_cols=57 Identities=16% Similarity=-0.073 Sum_probs=39.8
Q ss_pred HHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 176 NYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.|+..++++.|...+.... .| .....+|+.|.++...++|.+|..+|..+++..|..
T Consensus 60 ~~~~~~~~~~A~~~~~~~~~~~p------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~ 118 (135)
T TIGR02552 60 CCQMLKEYEEAIDAYALAAALDP------DDPRPYFHAAECLLALGEPESALKALDLAIEICGEN 118 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCC------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence 3444455555555444321 12 234567889999999999999999999999977763
No 36
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=94.37 E-value=0.11 Score=39.15 Aligned_cols=57 Identities=23% Similarity=0.153 Sum_probs=47.6
Q ss_pred HHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 175 RNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+.|+..|+++.|...++... .| +....+|..|.++..+++|.+|...|..++...|.
T Consensus 5 ~~~~~~g~~~~A~~~~~~~l~~~P------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~ 63 (65)
T PF13432_consen 5 RALYQQGDYDEAIAAFEQALKQDP------DNPEAWYLLGRILYQQGRYDEALAYYERALELDPD 63 (65)
T ss_dssp HHHHHCTHHHHHHHHHHHHHCCST------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHcCCHHHHHHHHHHHHHHCC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 57889999999999887642 33 36778999999999999999999999999987775
No 37
>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=94.37 E-value=0.59 Score=35.16 Aligned_cols=93 Identities=18% Similarity=0.131 Sum_probs=57.8
Q ss_pred HHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHH
Q 012934 132 YYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLF 209 (453)
Q Consensus 132 ~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~Y 209 (453)
..+.++-..++..++...+..+.+... ... .....+-..|...++++.|...+.... .|... ..++
T Consensus 5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~ 72 (100)
T cd00189 5 NLGNLYYKLGDYDEALEYYEKALELDP----DNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA------KAYY 72 (100)
T ss_pred HHHHHHHHHhcHHHHHHHHHHHHhcCC----ccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch------hHHH
Confidence 333344445666666665555543221 111 223345556777788888888776532 22211 5667
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 210 YLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 210 Y~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
..|.++...+++.+|..++..+++.+|
T Consensus 73 ~~~~~~~~~~~~~~a~~~~~~~~~~~~ 99 (100)
T cd00189 73 NLGLAYYKLGKYEEALEAYEKALELDP 99 (100)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHccCC
Confidence 888888889999999999988887655
No 38
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=94.24 E-value=6.3 Score=39.03 Aligned_cols=147 Identities=15% Similarity=0.092 Sum_probs=96.0
Q ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhh-cCHHHHHHHHHHHHHHhhhccCccch
Q 012934 88 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELT-GDLAEIRGNLLALHRIATLRHDELGQ 166 (453)
Q Consensus 88 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~-~~l~~~r~~l~~~~rta~~~~~~~~~ 166 (453)
+.-...++...++.+|.++..+.+......++- ...|+++.-.+.++|.. ++.+.+......+.............
T Consensus 78 ~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~---~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a 154 (282)
T PF14938_consen 78 YEEAANCYKKGDPDEAIECYEKAIEIYREAGRF---SQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSA 154 (282)
T ss_dssp HHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-H---HHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred HHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcH---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhH
Confidence 344444455558888888887777766554322 34566677777788877 88888887777766444333333333
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHhcCC--cCc-cCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 167 ETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 167 ~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~-~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.-+...+-..|.+.++|+.|-.+..+.. ..+ ....-..=.|+.-.|.+++..+|+..|...|......+|.
T Consensus 155 ~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~ 228 (282)
T PF14938_consen 155 AECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPS 228 (282)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence 3344556778999999999999887632 111 2222233457788999999999999999999998877786
No 39
>PLN03077 Protein ECB2; Provisional
Probab=94.02 E-value=7.9 Score=44.45 Aligned_cols=230 Identities=14% Similarity=0.109 Sum_probs=122.3
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC--CcCchHhHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKA--PVAALGFRVQ 245 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~--p~~~~~~~~~ 245 (453)
++.|.++..|.+.|.++.|..+++.. .| +.+.|.- +...|+..|++.+|.+.|.+....- |. .
T Consensus 525 ~~~naLi~~y~k~G~~~~A~~~f~~~-~~------d~~s~n~-lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~------ 589 (857)
T PLN03077 525 FLPNALLDLYVRCGRMNYAWNQFNSH-EK------DVVSWNI-LLTGYVAHGKGSMAVELFNRMVESGVNPD-E------ 589 (857)
T ss_pred eechHHHHHHHHcCCHHHHHHHHHhc-CC------ChhhHHH-HHHHHHHcCCHHHHHHHHHHHHHcCCCCC-c------
Confidence 45578889999999999999988765 22 3333332 2334566899999999999887521 22 1
Q ss_pred HHHHHHhHHHh--cCCCCCh-hhhh----hhhhhhhhhhHHHHHHHH-hcCCHHHHHHHHHhcchhhccCc-cHH-HHHH
Q 012934 246 CNKWAIIVRLL--LGEIPER-TVFM----QKGMEKALRPYFELTNAV-RIGDLELFKSVAEKFSSTFSSDR-TNN-LIVR 315 (453)
Q Consensus 246 alK~lIlv~LL--~G~iP~~-~ll~----~~~l~~~l~~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~Dg-~~~-Lv~r 315 (453)
..+..+++-. .|.+-+- .+|. ...+.+....|..++.++ +.|++.+-.+.+++.. +..|. +|+ |+.-
T Consensus 590 -~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~--~~pd~~~~~aLl~a 666 (857)
T PLN03077 590 -VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP--ITPDPAVWGALLNA 666 (857)
T ss_pred -ccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC--CCCCHHHHHHHHHH
Confidence 1122222212 2333221 1222 122334556788899987 8899887777777642 22221 121 2222
Q ss_pred HHHH----HHHHHHHHHHhhc-----ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccc
Q 012934 316 LRHN----VIRTGLRNISISY-----SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 386 (453)
Q Consensus 316 Lr~~----vir~~irki~~~Y-----srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~ 386 (453)
++.. .-+...+++...- .-+.++.+-...| .+++|+.+...|...|.-+ ++.-.+|..+...-
T Consensus 667 c~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g-----~~~~a~~vr~~M~~~g~~k---~~g~s~ie~~~~~~ 738 (857)
T PLN03077 667 CRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAG-----KWDEVARVRKTMRENGLTV---DPGCSWVEVKGKVH 738 (857)
T ss_pred HHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCC-----ChHHHHHHHHHHHHcCCCC---CCCccEEEECCEEE
Confidence 2110 0001111111100 1112222222211 3589999999999988762 22224555555444
Q ss_pred ccCCccccHHHHHHHHHHHHHHHHHHHhcCCCCCCch
Q 012934 387 IYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHK 423 (453)
Q Consensus 387 v~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~ 423 (453)
++...|-...-...|-..|+--...++.+-|-|+...
T Consensus 739 ~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~ 775 (857)
T PLN03077 739 AFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESS 775 (857)
T ss_pred EEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcch
Confidence 4444444444456666666644446777888877543
No 40
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.99 E-value=10 Score=40.61 Aligned_cols=166 Identities=13% Similarity=0.030 Sum_probs=95.6
Q ss_pred HHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhh-HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCc
Q 012934 85 YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTV-DVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE 163 (453)
Q Consensus 85 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~-d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~ 163 (453)
++-+++++.+.. ++|.+|........+-...+..+.+ -.-.+-+......=.--.+..++|......+.+ +.+..
T Consensus 325 ~LE~iv~c~lv~-~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k---~t~~~ 400 (629)
T KOG2300|consen 325 LLEHIVMCRLVR-GDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATK---LTESI 400 (629)
T ss_pred HHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHH---hhhHH
Confidence 344566666655 6889887776655555555533321 111222222111100012233444444333332 22444
Q ss_pred cchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCcc---CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCch
Q 012934 164 LGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEA---HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAAL 240 (453)
Q Consensus 164 ~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~---~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~ 240 (453)
+-++++...+.-.|++.+.-+--.++++....+.. .+-......+|-.|...+++++|.+|..++.+.+.-+ .+.
T Consensus 401 dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkma--nae 478 (629)
T KOG2300|consen 401 DLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMA--NAE 478 (629)
T ss_pred HHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc--chh
Confidence 44554433355699998887777777777655543 3345567899999999999999999999999999743 344
Q ss_pred HhHHHHHHHHHhHHHh
Q 012934 241 GFRVQCNKWAIIVRLL 256 (453)
Q Consensus 241 ~~~~~alK~lIlv~LL 256 (453)
++-+..--++++++.+
T Consensus 479 d~~rL~a~~LvLLs~v 494 (629)
T KOG2300|consen 479 DLNRLTACSLVLLSHV 494 (629)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 4445444566666544
No 41
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=93.81 E-value=0.31 Score=38.01 Aligned_cols=65 Identities=26% Similarity=0.173 Sum_probs=49.9
Q ss_pred HHHHHHHHHHhcCChHHHHHHHhcCC-cCccC--ChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 169 LLNLLLRNYLHYNLYDQAEKLRSKAP-RFEAH--SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 169 l~n~llr~Yl~~~~~~~a~~li~~~~-~p~~~--~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
..+.+-.+|...++++.|....+++. .-+.. ...+.+..++-.|.++...++|.+|.+++.+|+.
T Consensus 7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 44556678889999999988877642 21112 3346788999999999999999999999999986
No 42
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=93.68 E-value=5.1 Score=36.30 Aligned_cols=128 Identities=13% Similarity=0.050 Sum_probs=84.3
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 169 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l 169 (453)
....+...+++++|.+.....++.-. ... .+++.++.++...|+..++...+..+.+... .......
T Consensus 71 la~~~~~~~~~~~A~~~~~~al~~~~----~~~-----~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~ 137 (234)
T TIGR02521 71 LALYYQQLGELEKAEDSFRRALTLNP----NNG-----DVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL----YPQPARS 137 (234)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCC----CCH-----HHHHHHHHHHHHcccHHHHHHHHHHHHhccc----cccchHH
Confidence 34445567899999888777765321 111 1244555566667888888877777764211 1111222
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
...+-..|...|+++.|...+.+.. .|.. ...++..|.++...++|.+|..++..++...|
T Consensus 138 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~ 200 (234)
T TIGR02521 138 LENAGLCALKAGDFDKAEKYLTRALQIDPQR------PESLLELAELYYLRGQYKDARAYLERYQQTYN 200 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence 3335567899999999999887642 2321 33566889999999999999999999987533
No 43
>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=93.22 E-value=0.21 Score=32.62 Aligned_cols=32 Identities=22% Similarity=0.205 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.-+|..|.++...++|.+|..+|++|++..|.
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence 45788999999999999999999999986663
No 44
>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=93.08 E-value=1.4 Score=44.22 Aligned_cols=183 Identities=18% Similarity=0.142 Sum_probs=106.3
Q ss_pred HHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCcc
Q 012934 85 YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDEL 164 (453)
Q Consensus 85 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~ 164 (453)
++.++....++..+++++|+++... ..+++.+.-.|..|. ..++..-|+..+-.+.+. .+..
T Consensus 103 ~~~~~~A~i~~~~~~~~~AL~~l~~---------~~~lE~~al~Vqi~L-----~~~R~dlA~k~l~~~~~~----~eD~ 164 (290)
T PF04733_consen 103 IVQLLAATILFHEGDYEEALKLLHK---------GGSLELLALAVQILL-----KMNRPDLAEKELKNMQQI----DEDS 164 (290)
T ss_dssp HHHHHHHHHHCCCCHHHHHHCCCTT---------TTCHHHHHHHHHHHH-----HTT-HHHHHHHHHHHHCC----SCCH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHc---------cCcccHHHHHHHHHH-----HcCCHHHHHHHHHHHHhc----CCcH
Confidence 4556666677788999999776322 134555544444332 367766666655554322 1222
Q ss_pred chHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHh
Q 012934 165 GQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGF 242 (453)
Q Consensus 165 ~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~ 242 (453)
+..-++...+..+.-.+.+..|-.+.... .++. + ..-..-.+..++.+++|.+|...|.+|+..-|.
T Consensus 165 ~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~----t--~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~----- 233 (290)
T PF04733_consen 165 ILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGS----T--PKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN----- 233 (290)
T ss_dssp HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS------S--HHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-----
T ss_pred HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCC----C--HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-----
Confidence 22234444555555556788887777652 1222 1 222456778888999999999999999864332
Q ss_pred HHHHHHHHHhHHHhcCCCCChh--hhhhhhhhhhhhhHHHHHHHHhcCCHHHHHHHHHhc
Q 012934 243 RVQCNKWAIIVRLLLGEIPERT--VFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKF 300 (453)
Q Consensus 243 ~~~alK~lIlv~LL~G~iP~~~--ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~ 300 (453)
-..++-.+|++..++|+-++.. .+.+ + +...|-.+++..+..-+ ..|++++.+|
T Consensus 234 ~~d~LaNliv~~~~~gk~~~~~~~~l~q--L-~~~~p~h~~~~~~~~~~-~~FD~~~~ky 289 (290)
T PF04733_consen 234 DPDTLANLIVCSLHLGKPTEAAERYLSQ--L-KQSNPNHPLVKDLAEKE-AEFDRAVAKY 289 (290)
T ss_dssp HHHHHHHHHHHHHHTT-TCHHHHHHHHH--C-HHHTTTSHHHHHHHHHH-HHHHHHHHCC
T ss_pred CHHHHHHHHHHHHHhCCChhHHHHHHHH--H-HHhCCCChHHHHHHHHH-HHHHHHHHhc
Confidence 2456778899999999976421 2222 1 12334455666665543 5788887776
No 45
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=92.99 E-value=13 Score=41.65 Aligned_cols=119 Identities=11% Similarity=0.105 Sum_probs=68.2
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCN 247 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~al 247 (453)
.+.|.++..|.+.|.++.|..+++....+ +.+.|. -+...|...+++.+|.+.|....+.--. -...
T Consensus 260 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~~------~~vt~n-~li~~y~~~g~~~eA~~lf~~M~~~g~~------pd~~ 326 (697)
T PLN03081 260 FVSCALIDMYSKCGDIEDARCVFDGMPEK------TTVAWN-SMLAGYALHGYSEEALCLYYEMRDSGVS------IDQF 326 (697)
T ss_pred eeHHHHHHHHHHCCCHHHHHHHHHhCCCC------ChhHHH-HHHHHHHhCCCHHHHHHHHHHHHHcCCC------CCHH
Confidence 45577889999999999999999876433 333332 3455566789999999999888652111 1111
Q ss_pred HHHHhHHHh--cCCCCChh-hhh---hhhhhhhhhhHHHHHHHH-hcCCHHHHHHHHHh
Q 012934 248 KWAIIVRLL--LGEIPERT-VFM---QKGMEKALRPYFELTNAV-RIGDLELFKSVAEK 299 (453)
Q Consensus 248 K~lIlv~LL--~G~iP~~~-ll~---~~~l~~~l~~Y~~L~~Av-~~Gdl~~f~~~l~~ 299 (453)
.+..+++.+ .|.+.... ++. +..+.+....|..|+.++ +.|++..=.++.++
T Consensus 327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~ 385 (697)
T PLN03081 327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDR 385 (697)
T ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHh
Confidence 233333322 34443321 111 111223344566777776 66776655555544
No 46
>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=92.84 E-value=3.5 Score=45.85 Aligned_cols=132 Identities=18% Similarity=0.115 Sum_probs=83.6
Q ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchH
Q 012934 88 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 167 (453)
Q Consensus 88 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~ 167 (453)
+.....++.+|+|++|.....+.++. . .. .+..+++.+.++...|+.+++...+-.+...... ..
T Consensus 26 ~~~a~~~~~~~~~~~A~~~~~~~~~~---~-p~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~-- 90 (899)
T TIGR02917 26 IEAAKSYLQKNKYKAAIIQLKNALQK---D-PN-----DAEARFLLGKIYLALGDYAAAEKELRKALSLGYP----KN-- 90 (899)
T ss_pred HHHHHHHHHcCChHhHHHHHHHHHHh---C-CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC----hh--
Confidence 44455666789999997776666532 1 11 1234667777777788888888777666543211 11
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
-....+.+.|...|.++.|-..+..... .+.......++..|.++...++|.+|...|..++...|.
T Consensus 91 ~~~~~~a~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~ 157 (899)
T TIGR02917 91 QVLPLLARAYLLQGKFQQVLDELPGKTL---LDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPR 157 (899)
T ss_pred hhHHHHHHHHHHCCCHHHHHHhhccccc---CCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence 1123355677888888887776654321 122345566777888888888888888888888776665
No 47
>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=92.71 E-value=3.8 Score=45.19 Aligned_cols=126 Identities=17% Similarity=0.049 Sum_probs=85.1
Q ss_pred hcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHH
Q 012934 95 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLL 174 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~ll 174 (453)
-..++|++|.++....+..-. .+ .-.+.+|.+...++...|+..++...+..+.... ...... ...+-
T Consensus 305 ~~~~~y~~A~~~~~~al~~~~-~~-----~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~----P~~~~~--~~~la 372 (615)
T TIGR00990 305 KADESYEEAARAFEKALDLGK-LG-----EKEAIALNLRGTFKCLKGKHLEALADLSKSIELD----PRVTQS--YIKRA 372 (615)
T ss_pred hhhhhHHHHHHHHHHHHhcCC-CC-----hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC----CCcHHH--HHHHH
Confidence 345789999998888775321 11 1122235666677777899888888777765322 111211 12344
Q ss_pred HHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.+|+..|+++.|...+.+.. .|. ....+|..|.++...++|.+|..+|..|+..-|..
T Consensus 373 ~~~~~~g~~~eA~~~~~~al~~~p~------~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~ 432 (615)
T TIGR00990 373 SMNLELGDPDKAEEDFDKALKLNSE------DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF 432 (615)
T ss_pred HHHHHCCCHHHHHHHHHHHHHhCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence 56788999999998877642 232 23467889999999999999999999999876653
No 48
>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=92.34 E-value=2.5 Score=34.79 Aligned_cols=104 Identities=18% Similarity=0.108 Sum_probs=69.9
Q ss_pred HHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHH
Q 012934 129 LYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCR 206 (453)
Q Consensus 129 ~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~ 206 (453)
++|-.+......++..++...+..+.+... .+.. .......+-+.|++.++++.|...++... .|.. .....
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~ 77 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKYP-KSTY--APNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS---PKAPD 77 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-Cccc--cHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC---CcccH
Confidence 344445555567788887777766653321 1111 11122335578999999999999888642 4432 12244
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.++..|.++...+++.+|..+|..++...|.+
T Consensus 78 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~ 109 (119)
T TIGR02795 78 ALLKLGMSLQELGDKEKAKATLQQVIKRYPGS 109 (119)
T ss_pred HHHHHHHHHHHhCChHHHHHHHHHHHHHCcCC
Confidence 57889999999999999999999999977763
No 49
>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=92.21 E-value=7.6 Score=36.00 Aligned_cols=113 Identities=19% Similarity=0.169 Sum_probs=74.4
Q ss_pred hcCHHHHHHHHHHHHHHhhhccCccchH-HHHHHHHHHHHhcCChHHHHHHHhcCC-cCcc-CChhhHHHHHHHHHHHHH
Q 012934 140 TGDLAEIRGNLLALHRIATLRHDELGQE-TLLNLLLRNYLHYNLYDQAEKLRSKAP-RFEA-HSNQQFCRYLFYLGKIRT 216 (453)
Q Consensus 140 ~~~l~~~r~~l~~~~rta~~~~~~~~~~-~l~n~llr~Yl~~~~~~~a~~li~~~~-~p~~-~~~~~~v~Y~YY~G~i~~ 216 (453)
.|+++++...+..+.--++. .++- -+.-.++|..+..+++..+.+.+.+.. .++. -+..-..++.-|.|..++
T Consensus 49 ~Gd~~~A~k~y~~~~~~~~~----~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l 124 (177)
T PF10602_consen 49 IGDLEEALKAYSRARDYCTS----PGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLANL 124 (177)
T ss_pred hhhHHHHHHHHHHHhhhcCC----HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence 67777777766665432221 1111 122346789999999999999988864 3443 345566788999999999
Q ss_pred HHhhHHHHHHHHHHHHHcCCc---CchHhHHHHHHHHHhHHHh
Q 012934 217 IQLEYTDAKESLLQAARKAPV---AALGFRVQCNKWAIIVRLL 256 (453)
Q Consensus 217 ~~~dy~~A~~~L~~A~~~~p~---~~~~~~~~alK~lIlv~LL 256 (453)
.+++|.+|.+.|..+...... ...--...+-.|-+++.|.
T Consensus 125 ~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y~~l~aLa 167 (177)
T PF10602_consen 125 AQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIYGGLCALA 167 (177)
T ss_pred HhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHHHHHHHHH
Confidence 999999999999988653321 1111123445566666665
No 50
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=92.21 E-value=6.3 Score=37.07 Aligned_cols=161 Identities=11% Similarity=0.026 Sum_probs=89.6
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccch-HH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ-ET 168 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~-~~ 168 (453)
.....+..|+|.+|.+.-..++...-. +- ....+.+....++-..++...+...+-...+.- +.|..... ++
T Consensus 11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~----s~--~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y-P~~~~~~~A~Y 83 (203)
T PF13525_consen 11 KALEALQQGDYEEAIKLFEKLIDRYPN----SP--YAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY-PNSPKADYALY 83 (203)
T ss_dssp HHHHHHHCT-HHHHHHHHHHHHHH-TT----ST--THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--TT-TTHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCC----Ch--HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCcchhhHHH
Confidence 445677889999998887777655322 11 122234555666667888888777666665433 33333222 22
Q ss_pred H-HHHHHHH-------HHhcCChHHHHHHHhcC--CcCcc-----------CChhhHHHHHHHHHHHHHHHhhHHHHHHH
Q 012934 169 L-LNLLLRN-------YLHYNLYDQAEKLRSKA--PRFEA-----------HSNQQFCRYLFYLGKIRTIQLEYTDAKES 227 (453)
Q Consensus 169 l-~n~llr~-------Yl~~~~~~~a~~li~~~--~~p~~-----------~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~ 227 (453)
+ ....++. ....+....|...+... .+|++ .-....+..-++.|+.|...++|..|...
T Consensus 84 ~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r 163 (203)
T PF13525_consen 84 MLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIR 163 (203)
T ss_dssp HHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHH
T ss_pred HHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence 2 2221211 11222223333333221 25653 12456778889999999999999999999
Q ss_pred HHHHHHcCCcCchHhHHHHHHHHHhHHHhcCC
Q 012934 228 LLQAARKAPVAALGFRVQCNKWAIIVRLLLGE 259 (453)
Q Consensus 228 L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~ 259 (453)
+..++++.|.+. ...+++.+++-.-.-+|.
T Consensus 164 ~~~v~~~yp~t~--~~~~al~~l~~~y~~l~~ 193 (203)
T PF13525_consen 164 FQYVIENYPDTP--AAEEALARLAEAYYKLGL 193 (203)
T ss_dssp HHHHHHHSTTSH--HHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHCCCCc--hHHHHHHHHHHHHHHhCC
Confidence 999999998753 345566665555444443
No 51
>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=91.85 E-value=1.7 Score=32.77 Aligned_cols=61 Identities=21% Similarity=0.206 Sum_probs=44.2
Q ss_pred HHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHcCC
Q 012934 172 LLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQL-EYTDAKESLLQAARKAP 236 (453)
Q Consensus 172 ~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~-dy~~A~~~L~~A~~~~p 236 (453)
.+=..|+..++++.|....++..- .. ......+|..|.++..++ +|.+|..++..|+..-|
T Consensus 8 ~~g~~~~~~~~~~~A~~~~~~ai~---~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 8 NLGQIYFQQGDYEEAIEYFEKAIE---LD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHTTHHHHHHHHHHHHHH---HS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH---cC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 344567778888888776665321 01 123558889999999998 89999999999997544
No 52
>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=91.66 E-value=0.35 Score=37.63 Aligned_cols=47 Identities=23% Similarity=0.401 Sum_probs=35.6
Q ss_pred HHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCC
Q 012934 325 LRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 375 (453)
Q Consensus 325 irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~ 375 (453)
|+.+-.-..++|+.+||..++++. +.+|.++..+|+.|+|.-.-+..
T Consensus 5 i~~~l~~~~~~S~~eLa~~~~~s~----~~ve~mL~~l~~kG~I~~~~~~~ 51 (69)
T PF09012_consen 5 IRDYLRERGRVSLAELAREFGISP----EAVEAMLEQLIRKGYIRKVDMSS 51 (69)
T ss_dssp HHHHHHHS-SEEHHHHHHHTT--H----HHHHHHHHHHHCCTSCEEEEEE-
T ss_pred HHHHHHHcCCcCHHHHHHHHCcCH----HHHHHHHHHHHHCCcEEEecCCC
Confidence 444455568999999999999998 99999999999999997544433
No 53
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=91.65 E-value=12 Score=41.49 Aligned_cols=62 Identities=18% Similarity=0.121 Sum_probs=40.5
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+.+...|...|.++.|..+++... .|. ....++..|.++...++|.+|...|..++...|..
T Consensus 673 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~ 736 (899)
T TIGR02917 673 IGLAQLLLAAKRTESAKKIAKSLQKQHPK------AALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSS 736 (899)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHhhCcC------ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCc
Confidence 334455666677777766665432 121 12235567888888889999999998888766653
No 54
>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=91.27 E-value=2.4 Score=39.53 Aligned_cols=138 Identities=14% Similarity=0.142 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHHHH---hhHHHHHHHHHHHHHcCC-cCchHhHHHHHHHHHhHHHhcCCCCChhhhh----hhhhh-hhh
Q 012934 205 CRYLFYLGKIRTIQ---LEYTDAKESLLQAARKAP-VAALGFRVQCNKWAIIVRLLLGEIPERTVFM----QKGME-KAL 275 (453)
Q Consensus 205 v~Y~YY~G~i~~~~---~dy~~A~~~L~~A~~~~p-~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~----~~~l~-~~l 275 (453)
+.-+-..+++++.. .+|.+....|...+.... ...+.+.-+...|+++..+..|..++....- ..... +.+
T Consensus 56 i~v~E~~ar~~i~~~d~~qf~~c~~~L~~lY~~~~~~~~~~~~~ef~~y~lL~~l~~~~~~~~~~~l~~l~~~~~~~~~i 135 (204)
T PF03399_consen 56 IKVYERIARFAIESGDLEQFNQCLSQLKELYDDLRDLPPSPNEAEFIAYYLLYLLCQNNIPDFHMELELLPSEILSSPYI 135 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---TTHHHHHHHHHHHTT-T---THHHHHHTTS-HHHHTSHHH
T ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHHHHcccchHHHHHHHHCchhhhcCHHH
Confidence 33333444444433 333444444444443220 1235677777888887665555555432110 00111 122
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccH-HHHHHHHHHHHHHHHHHHHhhccc-ccHHHHHHHhCC
Q 012934 276 RPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIRTGLRNISISYSR-ISLADVAKKLRL 346 (453)
Q Consensus 276 ~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~~vir~~irki~~~Ysr-IsL~dIa~~L~l 346 (453)
.-=.++..|+..||...|-+.+++.... ... .++......+....++.++.+|.. ||++.++..|++
T Consensus 136 ~~al~l~~a~~~gny~~ff~l~~~~~~~----~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 136 QFALELCRALMEGNYVRFFRLYRSKSAP----YLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHHHHHH--TTHHHHHHHHT-TTS-----HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHcCCHHHHHHHHhccCCC----hHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 2234788999999999998888332111 112 344556666777889999999988 999999998874
No 55
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=91.26 E-value=0.69 Score=36.80 Aligned_cols=54 Identities=20% Similarity=0.213 Sum_probs=41.3
Q ss_pred HHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQA 231 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A 231 (453)
+-..|++.++|+.|-.++++.. ... ..+...|..|+++...++|.+|..+|..|
T Consensus 31 la~~~~~~~~y~~A~~~~~~~~----~~~-~~~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 31 LAQCYFQQGKYEEAIELLQKLK----LDP-SNPDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHTTHHHHHHHHHHCHT----HHH-CHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 4578899999999999988711 111 23566667799999999999999999875
No 56
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=91.23 E-value=6.6 Score=44.00 Aligned_cols=123 Identities=22% Similarity=0.236 Sum_probs=85.2
Q ss_pred hcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHH
Q 012934 95 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLL 174 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~ll 174 (453)
.-.++-++|..|..++ +.++.+.+-+|+.-.++++..++++++...++.++-.. +...-.+ ..+-
T Consensus 661 ~~~~~~~~a~~CL~Ea---------~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-----P~hv~s~-~Ala 725 (799)
T KOG4162|consen 661 LLSGNDDEARSCLLEA---------SKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-----PDHVPSM-TALA 725 (799)
T ss_pred HhcCCchHHHHHHHHH---------HhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-----CCCcHHH-HHHH
Confidence 3334556666663332 34557777788888899999999999998888876322 2222222 2355
Q ss_pred HHHHhcCChHHHHH--HHhcCC-cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 175 RNYLHYNLYDQAEK--LRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 175 r~Yl~~~~~~~a~~--li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+.+++.|+..+|.. +++.+- .... --.-.||+|.+...+|+.+.|-++|..|+.-.++
T Consensus 726 ~~lle~G~~~la~~~~~L~dalr~dp~-----n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S 786 (799)
T KOG4162|consen 726 ELLLELGSPRLAEKRSLLSDALRLDPL-----NHEAWYYLGEVFKKLGDSKQAAECFQAALQLEES 786 (799)
T ss_pred HHHHHhCCcchHHHHHHHHHHHhhCCC-----CHHHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence 67889998888887 776542 2111 1235799999999999999999999999975544
No 57
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=91.07 E-value=0.49 Score=30.25 Aligned_cols=30 Identities=20% Similarity=0.275 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+|..|+++...+++.+|...|...+...|.
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence 478999999999999999999999998885
No 58
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=90.33 E-value=12 Score=40.62 Aligned_cols=155 Identities=21% Similarity=0.184 Sum_probs=104.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHH-HHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 012934 76 KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLA-ARLYFYYSLCYELTGDLAEIRGNLLALH 154 (453)
Q Consensus 76 ~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~-ak~~~~~~~~~e~~~~l~~~r~~l~~~~ 154 (453)
....|...-.+++|.. -+...++|+.|...+...++.+..-.- ++.+. +-..--++..+--.++..++...+-.++
T Consensus 192 ~~~~P~~~~~~~~La~-~y~~~g~~e~A~~l~k~Al~~l~k~~G--~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL 268 (508)
T KOG1840|consen 192 GDEDPERLRTLRNLAE-MYAVQGRLEKAEPLCKQALRILEKTSG--LKHLVVASMLNILALVYRSLGKYDEAVNLYEEAL 268 (508)
T ss_pred ccCCchHHHHHHHHHH-HHHHhccHHHHHHHHHHHHHHHHHccC--ccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 4556777766766444 445568999999999999988543211 11110 1001113334444677777778777777
Q ss_pred HH--hhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcC-CcCc---cCChhhHHHHHHHHHHHHHHHhhHHHHHHHH
Q 012934 155 RI--ATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFE---AHSNQQFCRYLFYLGKIRTIQLEYTDAKESL 228 (453)
Q Consensus 155 rt--a~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~p~---~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L 228 (453)
.+ .+.=.+....+.+.+.|-..|.+.|.++.|+..+... .+-+ ..+..+....+-..|.++...++|++|..++
T Consensus 269 ~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~ 348 (508)
T KOG1840|consen 269 TIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLL 348 (508)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHH
Confidence 33 2333445555666677778899999999999877753 2222 2567788889999999999999999999999
Q ss_pred HHHHH
Q 012934 229 LQAAR 233 (453)
Q Consensus 229 ~~A~~ 233 (453)
..++.
T Consensus 349 q~al~ 353 (508)
T KOG1840|consen 349 QKALK 353 (508)
T ss_pred HHHHH
Confidence 98886
No 59
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=90.04 E-value=40 Score=38.44 Aligned_cols=200 Identities=12% Similarity=0.011 Sum_probs=110.3
Q ss_pred HHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHH
Q 012934 93 FLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNL 172 (453)
Q Consensus 93 ~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~ 172 (453)
.++..+++++|......+++. +...-+. + ..+...++-..++.+++...+..++.... .+..........
T Consensus 246 ~Ll~~g~~~eA~~~~~~ll~~----~~~~P~~--a--~~~la~~yl~~g~~e~A~~~l~~~l~~~p--~~~~~~~~~~~~ 315 (765)
T PRK10049 246 ALLARDRYKDVISEYQRLKAE----GQIIPPW--A--QRWVASAYLKLHQPEKAQSILTELFYHPE--TIADLSDEELAD 315 (765)
T ss_pred HHHHhhhHHHHHHHHHHhhcc----CCCCCHH--H--HHHHHHHHHhcCCcHHHHHHHHHHhhcCC--CCCCCChHHHHH
Confidence 345668999998776554432 1110000 1 11223444457888888877766653210 110111223334
Q ss_pred HHHHHHhcCChHHHHHHHhcCC--cCc---------cCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchH
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAP--RFE---------AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALG 241 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~--~p~---------~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~ 241 (453)
++..|+..+.++.|...+.+.. .|+ ..|..+.....+..|.++...+++.+|...|..+....|....
T Consensus 316 L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~- 394 (765)
T PRK10049 316 LFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQG- 394 (765)
T ss_pred HHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-
Confidence 5567899999999999877632 232 2344567788899999999999999999999999998776432
Q ss_pred hHHHHHHHHHhHHHhcCCCCChh-hhhhhhh--hh-hh-hhHHHHHHHHhcCCHHHHHHHHHhcchhhccCc
Q 012934 242 FRVQCNKWAIIVRLLLGEIPERT-VFMQKGM--EK-AL-RPYFELTNAVRIGDLELFKSVAEKFSSTFSSDR 308 (453)
Q Consensus 242 ~~~~alK~lIlv~LL~G~iP~~~-ll~~~~l--~~-~l-~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg 308 (453)
++..+..+-.-.|+....- .+.+ .+ .+ .. ..|.....+...|+...-...+++-...+-.+.
T Consensus 395 ----l~~~lA~l~~~~g~~~~A~~~l~~-al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~ 461 (765)
T PRK10049 395 ----LRIDYASVLQARGWPRAAENELKK-AEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDP 461 (765)
T ss_pred ----HHHHHHHHHHhcCCHHHHHHHHHH-HHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence 2222222233346633211 1111 11 11 11 122333456788876555555554444333333
No 60
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=90.03 E-value=3.8 Score=36.38 Aligned_cols=95 Identities=13% Similarity=0.001 Sum_probs=63.9
Q ss_pred HHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHH
Q 012934 134 SLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGK 213 (453)
Q Consensus 134 ~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~ 213 (453)
+.+.-..|+..++...+..+.+.. .+ -....+.+-..+...|+++.|........-. .......++..|.
T Consensus 31 g~~~~~~g~~~~A~~~~~~al~~~---P~---~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l----~p~~~~a~~~lg~ 100 (144)
T PRK15359 31 GYASWQEGDYSRAVIDFSWLVMAQ---PW---SWRAHIALAGTWMMLKEYTTAINFYGHALML----DASHPEPVYQTGV 100 (144)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHcC---CC---cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc----CCCCcHHHHHHHH
Confidence 344445677777665555443211 11 1222233445678899999999888775311 1234567899999
Q ss_pred HHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 214 IRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 214 i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
++...|++.+|...|..|+..+|..
T Consensus 101 ~l~~~g~~~eAi~~~~~Al~~~p~~ 125 (144)
T PRK15359 101 CLKMMGEPGLAREAFQTAIKMSYAD 125 (144)
T ss_pred HHHHcCCHHHHHHHHHHHHHhCCCC
Confidence 9999999999999999999988873
No 61
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=89.92 E-value=18 Score=39.34 Aligned_cols=143 Identities=16% Similarity=0.118 Sum_probs=99.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Q 012934 77 HPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRI 156 (453)
Q Consensus 77 ~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rt 156 (453)
...|..-+|+..+...+.-..|++++|.+..+..|.. +....|. |..=++++...|++.+|...+-.+ |.
T Consensus 187 ~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h----tPt~~el-----y~~KarilKh~G~~~~Aa~~~~~A-r~ 256 (517)
T PF12569_consen 187 KEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH----TPTLVEL-----YMTKARILKHAGDLKEAAEAMDEA-RE 256 (517)
T ss_pred cCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc----CCCcHHH-----HHHHHHHHHHCCCHHHHHHHHHHH-Hh
Confidence 4467777788877788887889999999887766543 2222222 455566777799998888777666 33
Q ss_pred hhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCc-----cCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 012934 157 ATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFE-----AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQA 231 (453)
Q Consensus 157 a~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~-----~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A 231 (453)
.-. .| =++-+.+.+.+++.|.++.|..+++.=+.++ +..--|.+=|.-=.|.-|.-+|+|..|...|..+
T Consensus 257 LD~-~D----RyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v 331 (517)
T PF12569_consen 257 LDL-AD----RYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV 331 (517)
T ss_pred CCh-hh----HHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 210 01 1455678899999999999999877532221 1223344555566899999999999999998888
Q ss_pred HHc
Q 012934 232 ARK 234 (453)
Q Consensus 232 ~~~ 234 (453)
..+
T Consensus 332 ~k~ 334 (517)
T PF12569_consen 332 LKH 334 (517)
T ss_pred HHH
Confidence 763
No 62
>PLN03077 Protein ECB2; Provisional
Probab=89.81 E-value=20 Score=41.11 Aligned_cols=60 Identities=18% Similarity=0.109 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 167 ETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 167 ~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
..+.|.++..|.+.|.++.|..+++....|+.. .|. .+...|...+++.+|.+.|.....
T Consensus 323 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~------s~n-~li~~~~~~g~~~~A~~lf~~M~~ 382 (857)
T PLN03077 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAV------SWT-AMISGYEKNGLPDKALETYALMEQ 382 (857)
T ss_pred hHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCee------eHH-HHHHHHHhCCCHHHHHHHHHHHHH
Confidence 456788999999999999999999987554322 222 234455667899999999987754
No 63
>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=89.79 E-value=0.54 Score=30.51 Aligned_cols=31 Identities=29% Similarity=0.351 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
..++..|.++...++|.+|..+|..|++-.|
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALELNP 32 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 5688999999999999999999999997443
No 64
>PRK11189 lipoprotein NlpI; Provisional
Probab=89.15 E-value=18 Score=35.96 Aligned_cols=34 Identities=21% Similarity=0.244 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 204 FCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 204 ~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
...-+||+|+++...|+|.+|..+|..|+...|.
T Consensus 235 ~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~ 268 (296)
T PRK11189 235 LCETYFYLAKYYLSLGDLDEAAALFKLALANNVY 268 (296)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence 4567899999999999999999999999986554
No 65
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=89.02 E-value=12 Score=40.54 Aligned_cols=155 Identities=20% Similarity=0.179 Sum_probs=107.1
Q ss_pred CCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Q 012934 77 HPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRI 156 (453)
Q Consensus 77 ~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rt 156 (453)
...|++...+.-+..+.-.. +++++|..+....++.+.... ...+...++++--++.++-..|+..++...+-.|...
T Consensus 319 ~~~~~v~~~l~~~~~~~~~~-~~~Eea~~l~q~al~i~~~~~-g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~ 396 (508)
T KOG1840|consen 319 ASHPEVAAQLSELAAILQSM-NEYEEAKKLLQKALKIYLDAP-GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI 396 (508)
T ss_pred cChHHHHHHHHHHHHHHHHh-cchhHHHHHHHHHHHHHHhhc-cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence 33566666665555555443 689999999888887766332 2334567888888888888899999999988888754
Q ss_pred hhhc--cCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHH-HHHHHHHHhhHHHHHHHHHHH
Q 012934 157 ATLR--HDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFY-LGKIRTIQLEYTDAKESLLQA 231 (453)
Q Consensus 157 a~~~--~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY-~G~i~~~~~dy~~A~~~L~~A 231 (453)
.-.. +...+.-..+|.+-..|.+.+.+..|..+...+. .+.--+...-++|-|- +|..|-.+|+|++|.++...+
T Consensus 397 ~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~ 476 (508)
T KOG1840|consen 397 LRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV 476 (508)
T ss_pred HHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 4332 3345555667888889999999998877766431 2211122234555554 677788899999999998888
Q ss_pred HH
Q 012934 232 AR 233 (453)
Q Consensus 232 ~~ 233 (453)
.+
T Consensus 477 ~~ 478 (508)
T KOG1840|consen 477 LN 478 (508)
T ss_pred HH
Confidence 74
No 66
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=88.98 E-value=20 Score=33.69 Aligned_cols=100 Identities=13% Similarity=0.029 Sum_probs=67.5
Q ss_pred HHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCC--hHHHHHHHhcCC--cCccCChhh
Q 012934 128 RLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNL--YDQAEKLRSKAP--RFEAHSNQQ 203 (453)
Q Consensus 128 k~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~--~~~a~~li~~~~--~p~~~~~~~ 203 (453)
..|+..++++-..++..++...+-.+.+-.. +....+ .++-.-.|...|. ++.|..++++.. .|.
T Consensus 74 ~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P---~~~~~~--~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~------ 142 (198)
T PRK10370 74 EQWALLGEYYLWRNDYDNALLAYRQALQLRG---ENAELY--AALATVLYYQAGQHMTPQTREMIDKALALDAN------ 142 (198)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHH--HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC------
Confidence 3477777777778888888877776664332 221111 1211113466676 588888888742 232
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 204 FCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 204 ~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
....++.+|..+...++|.+|..++..++..-|..
T Consensus 143 ~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~ 177 (198)
T PRK10370 143 EVTALMLLASDAFMQADYAQAIELWQKVLDLNSPR 177 (198)
T ss_pred ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence 23577899999999999999999999999866663
No 67
>PRK12370 invasion protein regulator; Provisional
Probab=88.91 E-value=11 Score=41.21 Aligned_cols=93 Identities=12% Similarity=0.035 Sum_probs=41.1
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHH
Q 012934 130 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRY 207 (453)
Q Consensus 130 ~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y 207 (453)
+++++.++...|+..++...+..+.+.... + .... ......++..|.++.|.....+.. .|+ ....+
T Consensus 375 ~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~--~~~~--~~~~~~~~~~g~~eeA~~~~~~~l~~~~p-----~~~~~ 443 (553)
T PRK12370 375 KYYYGWNLFMAGQLEEALQTINECLKLDPT--R--AAAG--ITKLWITYYHTGIDDAIRLGDELRSQHLQ-----DNPIL 443 (553)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--C--hhhH--HHHHHHHHhccCHHHHHHHHHHHHHhccc-----cCHHH
Confidence 444555555556655555555544432211 0 0000 011123344555665555444321 111 11224
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
++++|.++...|++.+|...+.....
T Consensus 444 ~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 444 LSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 45556666666666666666555443
No 68
>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=88.75 E-value=1.2 Score=33.72 Aligned_cols=34 Identities=26% Similarity=0.302 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+..++..|.++...++|.+|..+|..|+...|..
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~ 36 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNN 36 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Confidence 4567889999999999999999999999977653
No 69
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=88.75 E-value=14 Score=41.26 Aligned_cols=98 Identities=10% Similarity=-0.018 Sum_probs=64.4
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHH
Q 012934 130 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRY 207 (453)
Q Consensus 130 ~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y 207 (453)
+..++.++...|+..++...+..+.... .... .....+-..|...|.++.|........ .|+ ...+
T Consensus 287 ~~~lg~~l~~~g~~~eA~~~l~~al~l~----P~~~--~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~------~~~~ 354 (656)
T PRK15174 287 VTLYADALIRTGQNEKAIPLLQQSLATH----PDLP--YVRAMYARALRQVGQYTAASDEFVQLAREKGV------TSKW 354 (656)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhC----CCCH--HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc------chHH
Confidence 4445555555666666666655554322 1111 122335578889999999988776532 232 2345
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 239 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~ 239 (453)
.++.|..+...|++.+|..+|..+++..|...
T Consensus 355 ~~~~a~al~~~G~~deA~~~l~~al~~~P~~~ 386 (656)
T PRK15174 355 NRYAAAALLQAGKTSEAESVFEHYIQARASHL 386 (656)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence 66678889999999999999999999878733
No 70
>PRK04841 transcriptional regulator MalT; Provisional
Probab=88.44 E-value=23 Score=40.69 Aligned_cols=141 Identities=17% Similarity=0.038 Sum_probs=85.9
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCc--cchH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE--LGQE 167 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~--~~~~ 167 (453)
....+...|++++|.......+.......... ..+.++...+.++-..|++..+...+-.+...+...+.. ....
T Consensus 497 lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~---~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~ 573 (903)
T PRK04841 497 LGEVHHCKGELARALAMMQQTEQMARQHDVYH---YALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE 573 (903)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHhhhcchH---HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence 33334556788887777766665544332111 111123444555666788888888777776554433321 2223
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCC-cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
.+.+.+-..+...|.++.|........ ..........+..+...|+++...+++.+|..++..+..
T Consensus 574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~ 640 (903)
T PRK04841 574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN 640 (903)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 334445567788899999988776542 111122233455566789999999999999999988865
No 71
>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=87.92 E-value=4.7 Score=29.95 Aligned_cols=60 Identities=22% Similarity=0.159 Sum_probs=45.6
Q ss_pred HHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+-..|+..+.++.|...+.... .|.. ...++..|.++...++|.+|..+|..++...|..
T Consensus 6 ~a~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 67 (100)
T cd00189 6 LGNLYYKLGDYDEALEYYEKALELDPDN------ADAYYNLAAAYYKLGKYEEALEDYEKALELDPDN 67 (100)
T ss_pred HHHHHHHHhcHHHHHHHHHHHHhcCCcc------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 4456778899999988777632 2221 1567889999999999999999999999865553
No 72
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=87.66 E-value=8.6 Score=38.56 Aligned_cols=94 Identities=6% Similarity=-0.084 Sum_probs=59.7
Q ss_pred HHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHH
Q 012934 132 YYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLF 209 (453)
Q Consensus 132 ~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~Y 209 (453)
.++.++...|++.++...+-.++.... .. ......+-.+|...|.++.|..++.+.. .|. ++...+..++
T Consensus 119 ~~a~~~~~~G~~~~A~~~~~~al~~~p----~~--~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~~~~ 190 (355)
T cd05804 119 MLAFGLEEAGQYDRAEEAARRALELNP----DD--AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGHNWW 190 (355)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHhhCC----CC--cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHHHHH
Confidence 444566667777766665555543221 11 2223445567788899998888877642 222 2233345566
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 210 YLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 210 Y~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
..|+++..+|++.+|...|..++.
T Consensus 191 ~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 191 HLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHhc
Confidence 788888899999999999888864
No 73
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=87.48 E-value=12 Score=44.79 Aligned_cols=133 Identities=18% Similarity=0.119 Sum_probs=87.7
Q ss_pred HHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccC--ccc---
Q 012934 91 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHD--ELG--- 165 (453)
Q Consensus 91 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~--~~~--- 165 (453)
...++..+++++|.....+.++. +... +.+++....++...++..++...+..+++....... .+.
T Consensus 276 G~~~~~~g~~~~A~~~l~~aL~~----~P~~-----~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll 346 (1157)
T PRK11447 276 GLAAVDSGQGGKAIPELQQAVRA----NPKD-----SEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLL 346 (1157)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHh----CCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHH
Confidence 34456778999887776666542 1211 223556677777789999998888877654321111 111
Q ss_pred ---hHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 166 ---QETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 166 ---~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.+.+....-..+++.++++.|...+.+.. .|.. ..-++.+|.++..+++|.+|..+|..|+...|..
T Consensus 347 ~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~------~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~ 418 (1157)
T PRK11447 347 KVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTD------SYAVLGLGDVAMARKDYAAAERYYQQALRMDPGN 418 (1157)
T ss_pred HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 11122233457889999999999887642 3322 1235568999999999999999999999876763
No 74
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=87.35 E-value=6.1 Score=40.72 Aligned_cols=56 Identities=21% Similarity=0.164 Sum_probs=38.4
Q ss_pred HHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 176 NYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.|++.|+++.|...+.+.. .| .....++..|.++...++|.+|..+|..|+...|.
T Consensus 45 ~~~~~g~~~eAl~~~~~Al~l~P------~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~ 102 (356)
T PLN03088 45 ANIKLGNFTEAVADANKAIELDP------SLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPG 102 (356)
T ss_pred HHHHcCCHHHHHHHHHHHHHhCc------CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC
Confidence 3445555555555444321 12 23345678899999999999999999999987665
No 75
>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=86.88 E-value=19 Score=36.11 Aligned_cols=132 Identities=11% Similarity=0.014 Sum_probs=75.9
Q ss_pred HHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHH-HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccc
Q 012934 87 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLA-ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELG 165 (453)
Q Consensus 87 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~-ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~ 165 (453)
.++..+.+...+++++|.++...++.. . ......+. +-.+++.. ...+.... ...++..... ....
T Consensus 46 ~~~~a~~~~~~g~~~~A~~~~~~~l~~---~-P~~~~a~~~~~~~~~~~---~~~~~~~~----~~~~l~~~~~--~~~~ 112 (355)
T cd05804 46 AHVEALSAWIAGDLPKALALLEQLLDD---Y-PRDLLALKLHLGAFGLG---DFSGMRDH----VARVLPLWAP--ENPD 112 (355)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHH---C-CCcHHHHHHhHHHHHhc---ccccCchh----HHHHHhccCc--CCCC
Confidence 345666777789999998887776543 2 11111110 11112111 11222222 2222222111 1222
Q ss_pred hHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 166 QETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 166 ~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.......+-..|...|.++.|....++.- .|++ ...+...|.++...+++.+|..++..++...|.
T Consensus 113 ~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~ 180 (355)
T cd05804 113 YWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDD------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC 180 (355)
T ss_pred cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC
Confidence 23333445567889999999998877642 2332 345677899999999999999999999985554
No 76
>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=86.64 E-value=0.65 Score=38.89 Aligned_cols=38 Identities=16% Similarity=0.364 Sum_probs=34.0
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeC
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDH 374 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~ 374 (453)
.=|++.+|++.|+++. ++++..|-.|+.+|.|+.+||.
T Consensus 64 ~Gv~v~~I~~~l~~~~----~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 64 EGVHVDEIAQQLGMSE----NEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TTEEHHHHHHHSTS-H----HHHHHHHHHHHHTTSEEESSST
T ss_pred CcccHHHHHHHhCcCH----HHHHHHHHHHHhCCeEecccCC
Confidence 4599999999998876 9999999999999999999984
No 77
>PLN03218 maturation of RBCL 1; Provisional
Probab=86.34 E-value=46 Score=39.59 Aligned_cols=63 Identities=11% Similarity=0.026 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
...|.++..|.+.|.++.|..+++.+.--. +.+ +..+|. -+...+...+++.+|.+.|..+..
T Consensus 615 ~tynsLI~ay~k~G~~deAl~lf~eM~~~G-v~P-D~~Tyn-sLI~a~~k~G~~eeA~~l~~eM~k 677 (1060)
T PLN03218 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKG-VKP-DEVFFS-ALVDVAGHAGDLDKAFEILQDARK 677 (1060)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCC-CHHHHH-HHHHHHHhCCCHHHHHHHHHHHHH
Confidence 345666677777777777777766542110 111 122222 223334456777777777777765
No 78
>PRK04841 transcriptional regulator MalT; Provisional
Probab=86.20 E-value=54 Score=37.62 Aligned_cols=143 Identities=12% Similarity=-0.073 Sum_probs=90.1
Q ss_pred HHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHH
Q 012934 90 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 169 (453)
Q Consensus 90 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l 169 (453)
........+++++|.......+..+.. ..+...+......+.++...|++..++..+..+...+............
T Consensus 458 ~a~~~~~~g~~~~A~~~~~~al~~~~~----~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~ 533 (903)
T PRK04841 458 RAQVAINDGDPEEAERLAELALAELPL----TWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWS 533 (903)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHhcCCC----ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHH
Confidence 334445678999998888776653221 1111112223445556667889998888888877655544444444444
Q ss_pred HHHHHHHHHhcCChHHHHHHHhcCC-cCcc--C-ChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSKAP-RFEA--H-SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~~~-~p~~--~-~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
.+.+-..|+..|.++.|...+.... .... . .......-+...|.++..+|++.+|..++..++..+.
T Consensus 534 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~ 604 (903)
T PRK04841 534 LLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLS 604 (903)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhh
Confidence 4556678899999999998766531 1110 0 0011112245689999999999999999999987443
No 79
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=86.14 E-value=13 Score=33.46 Aligned_cols=104 Identities=17% Similarity=0.044 Sum_probs=64.6
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCcc-CChhh
Q 012934 127 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEA-HSNQQ 203 (453)
Q Consensus 127 ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~-~~~~~ 203 (453)
+.+|+..+.++...++.+++...+..+.... .+........+.+-..|.+.|.++.|.....+.- .|.. .....
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~---~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~ 111 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLE---IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNN 111 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc---ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHH
Confidence 3445666666666788777776666554332 1222222344446678999999999999887642 2332 12334
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 204 FCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 204 ~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
....++..|+.+...++|.+|..++..|+.
T Consensus 112 la~i~~~~~~~~~~~g~~~~A~~~~~~a~~ 141 (168)
T CHL00033 112 MAVICHYRGEQAIEQGDSEIAEAWFDQAAE 141 (168)
T ss_pred HHHHHHHhhHHHHHcccHHHHHHHHHHHHH
Confidence 556666677777788888877766666653
No 80
>PLN03218 maturation of RBCL 1; Provisional
Probab=85.72 E-value=86 Score=37.36 Aligned_cols=64 Identities=13% Similarity=-0.008 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcC-ccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRF-EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p-~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
...|.++..|.+.+.++.|..++..+.-- .... .+.++|.-.. ..|...+++.+|.+.|.....
T Consensus 543 vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~-PD~vTynaLI-~ay~k~G~ldeA~elf~~M~e 607 (1060)
T PLN03218 543 VVFNALISACGQSGAVDRAFDVLAEMKAETHPID-PDHITVGALM-KACANAGQVDRAKEVYQMIHE 607 (1060)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCC-CcHHHHHHHH-HHHHHCCCHHHHHHHHHHHHH
Confidence 45577777888888888888777654210 0011 1233333322 235567788888887777765
No 81
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=84.62 E-value=2.3 Score=41.72 Aligned_cols=65 Identities=23% Similarity=0.205 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
...+..|...+.++.+..++.... ..........|++..|.++...|++.+|...|..|++..|.
T Consensus 114 ~~~l~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~ 178 (280)
T PF13429_consen 114 LSALQLYYRLGDYDEAEELLEKLE--ELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPD 178 (280)
T ss_dssp ----H-HHHTT-HHHHHHHHHHHH--H-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT
T ss_pred hHHHHHHHHHhHHHHHHHHHHHHH--hccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence 345678899999999999988743 11112356778999999999999999999999999998776
No 82
>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=84.28 E-value=29 Score=32.64 Aligned_cols=60 Identities=13% Similarity=-0.088 Sum_probs=45.1
Q ss_pred HHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Q 012934 173 LLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKA 235 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~ 235 (453)
+-..|++.|++..|....... .+|.. .+...=++..|.++...++|.+|..++...-...
T Consensus 172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~ 233 (235)
T TIGR03302 172 VARFYLKRGAYVAAINRFETVVENYPDT---PATEEALARLVEAYLKLGLKDLAQDAAAVLGANY 233 (235)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHHCCCC---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 345789999999998877763 24432 3345566799999999999999999887766543
No 83
>PRK14574 hmsH outer membrane protein; Provisional
Probab=84.28 E-value=87 Score=36.22 Aligned_cols=99 Identities=11% Similarity=-0.040 Sum_probs=73.4
Q ss_pred hcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cC---------ccCChhhHHHHH
Q 012934 140 TGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RF---------EAHSNQQFCRYL 208 (453)
Q Consensus 140 ~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p---------~~~~~~~~v~Y~ 208 (453)
.++-+++.+.+..++......+.....+.....||-.|+..++|+.|..++.+.. .| ...|+.++.++.
T Consensus 340 ~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~ 419 (822)
T PRK14574 340 RRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQ 419 (822)
T ss_pred cCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHH
Confidence 4555667666666654332222222233334578889999999999999988742 23 236889999999
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 209 FYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 209 YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
...+.+++..+++.+|.+.|+.....+|..
T Consensus 420 ~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n 449 (822)
T PRK14574 420 TLLVQSLVALNDLPTAQKKLEDLSSTAPAN 449 (822)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence 999999999999999999999999988863
No 84
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=83.83 E-value=33 Score=30.98 Aligned_cols=105 Identities=15% Similarity=0.078 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCCh
Q 012934 104 KACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLY 183 (453)
Q Consensus 104 ~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~ 183 (453)
+..+-..+..+...+.+ .-.+..++..+..+...|+..++...+..+...... ..........+-..|.+.|++
T Consensus 15 ~~~~~~~~~~~~~~~~~---~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~---~~~~~~~~~~la~~~~~~g~~ 88 (172)
T PRK02603 15 FTVMADLILKILPINKK---AKEAFVYYRDGMSAQADGEYAEALENYEEALKLEED---PNDRSYILYNMGIIYASNGEH 88 (172)
T ss_pred HHHHHHHHHHHcccccH---hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc---cchHHHHHHHHHHHHHHcCCH
Confidence 33444444444333322 233444666666677788888877766666543211 111222334455688999999
Q ss_pred HHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhh
Q 012934 184 DQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLE 220 (453)
Q Consensus 184 ~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~d 220 (453)
+.|...+.+.. .|.. ...++..|.++...++
T Consensus 89 ~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~g~ 121 (172)
T PRK02603 89 DKALEYYHQALELNPKQ------PSALNNIAVIYHKRGE 121 (172)
T ss_pred HHHHHHHHHHHHhCccc------HHHHHHHHHHHHHcCC
Confidence 99998777642 2322 3334455666665554
No 85
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=83.81 E-value=20 Score=41.30 Aligned_cols=127 Identities=15% Similarity=0.135 Sum_probs=83.0
Q ss_pred HHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHH-
Q 012934 93 FLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLN- 171 (453)
Q Consensus 93 ~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n- 171 (453)
+++..|+|..+..++...++.- +...+.|..+|..++++...|+.+++-...+.+.. +...+ ++.+
T Consensus 279 ~fyfK~dy~~v~~la~~ai~~t------~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k-~~~d~------~~l~~ 345 (1018)
T KOG2002|consen 279 HFYFKKDYERVWHLAEHAIKNT------ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK-ADNDN------FVLPL 345 (1018)
T ss_pred HHhhcccHHHHHHHHHHHHHhh------hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc-cCCCC------ccccc
Confidence 3444467777666655554332 44567778888899999999999998888887743 22222 2222
Q ss_pred -HHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHh----hHHHHHHHHHHHHHcCCcC
Q 012934 172 -LLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQL----EYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 172 -~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~----dy~~A~~~L~~A~~~~p~~ 238 (453)
-|-..|++.|.+.-+...+.+. +.|..+ .=.+-+|.+|+... .-..|..++..+.+..|..
T Consensus 346 ~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~------etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d 413 (1018)
T KOG2002|consen 346 VGLGQMYIKRGDLEESKFCFEKVLKQLPNNY------ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVD 413 (1018)
T ss_pred cchhHHHHHhchHHHHHHHHHHHHHhCcchH------HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccccc
Confidence 2557888888888887766653 344432 12357788888764 5567778888888766653
No 86
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.49 E-value=24 Score=38.02 Aligned_cols=128 Identities=20% Similarity=0.154 Sum_probs=75.5
Q ss_pred CHHHHHHHHHHHHHHHHh--hchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCc-cchHHHHHHHHH
Q 012934 99 RYNEAKACSSASIARLKN--MNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE-LGQETLLNLLLR 175 (453)
Q Consensus 99 ~~~~A~~~~~~lv~~l~~--~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~-~~~~~l~n~llr 175 (453)
+...+.+|...+.+.--. ..-|+.=.+.+-.++| .+|.+-|++-|-.++-....-..- .-..--+.+|-.
T Consensus 24 kIkk~IkClqA~~~~~is~~veart~LqLg~lL~~y-------T~N~elAksHLekA~~i~~~ip~fydvKf~a~SlLa~ 96 (629)
T KOG2300|consen 24 KIKKCIKCLQAIFQFQISFLVEARTHLQLGALLLRY-------TKNVELAKSHLEKAWLISKSIPSFYDVKFQAASLLAH 96 (629)
T ss_pred hHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHH-------hccHHHHHHHHHHHHHHHcccccHHhhhhHHHHHHHH
Confidence 445555555444433111 1223433444444554 566666666666665332211000 111112334556
Q ss_pred HHHhcC-ChHHHHHHHhcCC-cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Q 012934 176 NYLHYN-LYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARK 234 (453)
Q Consensus 176 ~Yl~~~-~~~~a~~li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~ 234 (453)
.|.+.+ .++.+++++++.. ...++ +-+.+++.+.++.++.+++||..|.+.|.--.+.
T Consensus 97 lh~~~~~s~~~~KalLrkaielsq~~-p~wsckllfQLaql~~idkD~~sA~elLavga~s 156 (629)
T KOG2300|consen 97 LHHQLAQSFPPAKALLRKAIELSQSV-PYWSCKLLFQLAQLHIIDKDFPSALELLAVGAES 156 (629)
T ss_pred HHHHhcCCCchHHHHHHHHHHHhcCC-chhhHHHHHHHHHHHhhhccchhHHHHHhccccc
Confidence 788887 8999999988753 22233 3788999999999999999999999986655543
No 87
>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=83.10 E-value=18 Score=27.85 Aligned_cols=62 Identities=16% Similarity=0.109 Sum_probs=46.9
Q ss_pred HHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Q 012934 92 IFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHR 155 (453)
Q Consensus 92 ~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~r 155 (453)
..+...|+|++|.++..+.++..+.+.+.. ...+.++.-.+.++...|+..++...+..++.
T Consensus 13 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 13 RVYRELGRYDEALDYYEKALDIEEQLGDDH--PDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHHHHHTTTHH--HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHHHHHHHHHHCCCC--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 334478999999999999999866664432 23356688888999999999988888877764
No 88
>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=82.83 E-value=22 Score=37.36 Aligned_cols=115 Identities=23% Similarity=0.230 Sum_probs=73.2
Q ss_pred ccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHH
Q 012934 97 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 176 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~ 176 (453)
.+++++|..+..++ ..-+ -..+.+.|+++. ..++-.++-+.+..++..... -+.+++.-.+.
T Consensus 182 t~~~~~ai~lle~L----~~~~-pev~~~LA~v~l-------~~~~E~~AI~ll~~aL~~~p~------d~~LL~~Qa~f 243 (395)
T PF09295_consen 182 TQRYDEAIELLEKL----RERD-PEVAVLLARVYL-------LMNEEVEAIRLLNEALKENPQ------DSELLNLQAEF 243 (395)
T ss_pred cccHHHHHHHHHHH----HhcC-CcHHHHHHHHHH-------hcCcHHHHHHHHHHHHHhCCC------CHHHHHHHHHH
Confidence 46788776554444 3322 234455555554 345555666666666632211 15566777788
Q ss_pred HHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 177 YLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 177 Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
++..+++++|..+.+++. ...|. .....|+++.+|+..++|+.|...+. .||.
T Consensus 244 Ll~k~~~~lAL~iAk~av---~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLN----s~Pm 296 (395)
T PF09295_consen 244 LLSKKKYELALEIAKKAV---ELSPS-EFETWYQLAECYIQLGDFENALLALN----SCPM 296 (395)
T ss_pred HHhcCCHHHHHHHHHHHH---HhCch-hHHHHHHHHHHHHhcCCHHHHHHHHh----cCcC
Confidence 999999999999888753 11222 23456779999999999999986554 4775
No 89
>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=82.74 E-value=2.8 Score=24.82 Aligned_cols=31 Identities=26% Similarity=0.281 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
..++-.|.++...++|.+|..+|..++...|
T Consensus 2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 2 EALYNLGNAYLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence 3567889999999999999999999987544
No 90
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=82.73 E-value=32 Score=38.54 Aligned_cols=62 Identities=16% Similarity=0.125 Sum_probs=46.1
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+.+-..|+..|.++.|...+.... .|+ .....++.|.++...++|.+|...|..++...|..
T Consensus 288 ~~lg~~l~~~g~~~eA~~~l~~al~l~P~------~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~ 351 (656)
T PRK15174 288 TLYADALIRTGQNEKAIPLLQQSLATHPD------LPYVRAMYARALRQVGQYTAASDEFVQLAREKGVT 351 (656)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCC------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence 345567888899999988777632 232 12345668999999999999999999999866653
No 91
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=82.07 E-value=2.2 Score=28.53 Aligned_cols=26 Identities=38% Similarity=0.317 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
+..+|.+|...++|.+|.++|++|+.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQALA 27 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 35689999999999999999999664
No 92
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=82.07 E-value=55 Score=32.25 Aligned_cols=95 Identities=17% Similarity=0.181 Sum_probs=46.8
Q ss_pred HHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHH
Q 012934 91 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 170 (453)
Q Consensus 91 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~ 170 (453)
...++..+++.-|.+++.-+|+.+...+....+.-.+++- .........-++....+.++.+.+...+.+.|---|.
T Consensus 17 a~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~rl~---~l~~~~~~~~p~r~~fi~~ai~WS~~~~~~~Gdp~LH 93 (260)
T PF04190_consen 17 ALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIARLI---ELISLFPPEEPERKKFIKAAIKWSKFGSYKFGDPELH 93 (260)
T ss_dssp HHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHHHH---HHHHHS-TT-TTHHHHHHHHHHHHHTSS-TT--HHHH
T ss_pred HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH---HHHHhCCCCcchHHHHHHHHHHHHccCCCCCCCHHHH
Confidence 3445667777777777777776665542221111111111 1111122222234445555555554445666777777
Q ss_pred HHHHHHHHhcCChHHHHH
Q 012934 171 NLLLRNYLHYNLYDQAEK 188 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~ 188 (453)
..+-+.|.+-+++..|..
T Consensus 94 ~~~a~~~~~e~~~~~A~~ 111 (260)
T PF04190_consen 94 HLLAEKLWKEGNYYEAER 111 (260)
T ss_dssp HHHHHHHHHTT-HHHHHH
T ss_pred HHHHHHHHhhccHHHHHH
Confidence 777788888888877765
No 93
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=81.89 E-value=27 Score=38.06 Aligned_cols=56 Identities=21% Similarity=0.131 Sum_probs=41.2
Q ss_pred HHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 176 NYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
-|.+.|++.+|+.+...+ ..| ++.+.++ +.|.++...++|.+|..+|..++...+.
T Consensus 389 ey~~t~n~kLAe~Ff~~A~ai~P-----~Dplv~~-Elgvvay~~~~y~~A~~~f~~~l~~ik~ 446 (611)
T KOG1173|consen 389 EYMRTNNLKLAEKFFKQALAIAP-----SDPLVLH-ELGVVAYTYEEYPEALKYFQKALEVIKS 446 (611)
T ss_pred HHHHhccHHHHHHHHHHHHhcCC-----Ccchhhh-hhhheeehHhhhHHHHHHHHHHHHHhhh
Confidence 577889999999987753 233 3444444 5677777789999999999999965554
No 94
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=81.85 E-value=35 Score=38.83 Aligned_cols=136 Identities=12% Similarity=-0.067 Sum_probs=89.5
Q ss_pred HhcccCHHHHHHHHHHHHHHHHhh----c--hhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchH
Q 012934 94 LIDKKRYNEAKACSSASIARLKNM----N--RRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 167 (453)
Q Consensus 94 l~d~~~~~~A~~~~~~lv~~l~~~----~--~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~ 167 (453)
+++.+++++|......+...--.. . .+.-+.-...++...+......|++.++...+..+...+.. ..
T Consensus 320 ~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~------n~ 393 (765)
T PRK10049 320 LLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG------NQ 393 (765)
T ss_pred HHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC------CH
Confidence 367788888877766555431100 0 00000000112445556666788999988887777544321 12
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALG 241 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~ 241 (453)
-+...+-..|...|.++.|...+++.. .|+ ...++|..|..+...++|.+|...+..++..-|..+..
T Consensus 394 ~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd------~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~ 463 (765)
T PRK10049 394 GLRIDYASVLQARGWPRAAENELKKAEVLEPR------NINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV 463 (765)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC------ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence 344556678899999999999988753 343 23478899999999999999999999999987875533
No 95
>PRK11189 lipoprotein NlpI; Provisional
Probab=81.69 E-value=14 Score=36.73 Aligned_cols=100 Identities=16% Similarity=0.078 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhH
Q 012934 127 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQF 204 (453)
Q Consensus 127 ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~ 204 (453)
+..||..+.++...|....+...+..+.... .+. ....+.+-..|...|+++.|.....+.. .|+.
T Consensus 64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~----P~~--~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~------ 131 (296)
T PRK11189 64 AQLHYERGVLYDSLGLRALARNDFSQALALR----PDM--ADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTY------ 131 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC----CCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------
Confidence 3446666777777888877776655554321 111 2233455668899999999988776642 2321
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
...++..|.++...++|.+|.+.|..++...|..
T Consensus 132 ~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~ 165 (296)
T PRK11189 132 NYAYLNRGIALYYGGRYELAQDDLLAFYQDDPND 165 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 2345778999989999999999999999877764
No 96
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=81.50 E-value=54 Score=31.85 Aligned_cols=167 Identities=13% Similarity=0.052 Sum_probs=96.1
Q ss_pred CHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhh
Q 012934 80 PELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL 159 (453)
Q Consensus 80 p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~ 159 (453)
+..+.|. .....+.+|+|++|.+.-..++..- ..+-+. ....+..+.++=..++..++...+-...+.-..
T Consensus 31 ~~~~~Y~---~A~~~~~~g~y~~Ai~~f~~l~~~y----P~s~~a--~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~ 101 (243)
T PRK10866 31 PPSEIYA---TAQQKLQDGNWKQAITQLEALDNRY----PFGPYS--QQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT 101 (243)
T ss_pred CHHHHHH---HHHHHHHCCCHHHHHHHHHHHHHhC----CCChHH--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcC
Confidence 3445444 4556677899999988766665431 122122 222344455555677888877776666554433
Q ss_pred ccCccchHHHHHHH--------HHHHHhcC----ChHHHHH-------HHhcCCcCcc-----------CChhhHHHHHH
Q 012934 160 RHDELGQETLLNLL--------LRNYLHYN----LYDQAEK-------LRSKAPRFEA-----------HSNQQFCRYLF 209 (453)
Q Consensus 160 ~~~~~~~~~l~n~l--------lr~Yl~~~----~~~~a~~-------li~~~~~p~~-----------~~~~~~v~Y~Y 209 (453)
..+..-.++...+. |..|+... +...+.+ +|+ .+|++ .-....+++-+
T Consensus 102 ~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~--~yP~S~ya~~A~~rl~~l~~~la~~e~ 179 (243)
T PRK10866 102 HPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR--GYPNSQYTTDATKRLVFLKDRLAKYEL 179 (243)
T ss_pred CCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH--HCcCChhHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333322 22232222 2222332 333 25653 12466788889
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCC
Q 012934 210 YLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGE 259 (453)
Q Consensus 210 Y~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~ 259 (453)
+.|+.|...++|..|..-+..++++.|.+. ...+++-+++-.-.-+|.
T Consensus 180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~--~~~eal~~l~~ay~~lg~ 227 (243)
T PRK10866 180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQ--ATRDALPLMENAYRQLQL 227 (243)
T ss_pred HHHHHHHHcCchHHHHHHHHHHHHHCCCCc--hHHHHHHHHHHHHHHcCC
Confidence 999999999999999999999999888753 345555554443333443
No 97
>PRK15331 chaperone protein SicA; Provisional
Probab=80.30 E-value=24 Score=32.52 Aligned_cols=103 Identities=16% Similarity=0.132 Sum_probs=57.6
Q ss_pred HHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcC
Q 012934 114 LKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA 193 (453)
Q Consensus 114 l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~ 193 (453)
+......+++.+-+-.|-+|. .|++.+|...+.-.-.- ...+..-.+. |--.|-..++|+.|-.+-.-+
T Consensus 29 l~gis~~~le~iY~~Ay~~y~-----~Gk~~eA~~~F~~L~~~--d~~n~~Y~~G----Laa~~Q~~k~y~~Ai~~Y~~A 97 (165)
T PRK15331 29 VHGIPQDMMDGLYAHAYEFYN-----QGRLDEAETFFRFLCIY--DFYNPDYTMG----LAAVCQLKKQFQKACDLYAVA 97 (165)
T ss_pred HhCCCHHHHHHHHHHHHHHHH-----CCCHHHHHHHHHHHHHh--CcCcHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 344445566766443333332 68888887644333211 1111111111 222344455666666543321
Q ss_pred C--cCcc-CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Q 012934 194 P--RFEA-HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARK 234 (453)
Q Consensus 194 ~--~p~~-~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~ 234 (453)
- -+++ .| .||.|..++..++...|..+|..|+.+
T Consensus 98 ~~l~~~dp~p-------~f~agqC~l~l~~~~~A~~~f~~a~~~ 134 (165)
T PRK15331 98 FTLLKNDYRP-------VFFTGQCQLLMRKAAKARQCFELVNER 134 (165)
T ss_pred HHcccCCCCc-------cchHHHHHHHhCCHHHHHHHHHHHHhC
Confidence 1 1111 22 589999999999999999999999984
No 98
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=80.29 E-value=29 Score=31.79 Aligned_cols=31 Identities=10% Similarity=-0.105 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAP 236 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p 236 (453)
+-++|.|.+++..|+...|...|..|+..|.
T Consensus 104 ~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~ 134 (157)
T PRK15363 104 QAPWAAAECYLACDNVCYAIKALKAVVRICG 134 (157)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHHHHHhc
Confidence 3468999999999999999999999999884
No 99
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=79.73 E-value=18 Score=32.68 Aligned_cols=75 Identities=16% Similarity=0.003 Sum_probs=54.8
Q ss_pred ccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 160 RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 160 ~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.+.+...+.....+-..|...|.++.|........ .|. +.+...+++..|.++...++|.+|..++..|+...|.
T Consensus 28 ~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~ 104 (172)
T PRK02603 28 INKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEED---PNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK 104 (172)
T ss_pred cccHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc---cchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence 34445555555556678889999999988777542 121 1234567889999999999999999999999986554
No 100
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=79.53 E-value=50 Score=38.26 Aligned_cols=149 Identities=13% Similarity=0.101 Sum_probs=84.3
Q ss_pred HHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhh--chh-hhHHHHHH------HHHHHHHHHHh-------------
Q 012934 82 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNM--NRR-TVDVLAAR------LYFYYSLCYEL------------- 139 (453)
Q Consensus 82 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~--~~r-~~d~l~ak------~~~~~~~~~e~------------- 139 (453)
.++...+.....++..++|..|..+-..++...... +-| ..|...++ +..-+.|+-++
T Consensus 162 ~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~ 241 (1018)
T KOG2002|consen 162 DNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGE 241 (1018)
T ss_pred cchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHH
Confidence 456667888888999999999998877744321111 111 11222111 11112222222
Q ss_pred ----hc---CHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHH
Q 012934 140 ----TG---DLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLG 212 (453)
Q Consensus 140 ----~~---~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G 212 (453)
.. ....+-..+.++|.+. .+++ .+.|.|-..|+-.++|..|-.|-.+..- ..........=+|.+|
T Consensus 242 ~~l~~~d~~s~~~~~~ll~~ay~~n--~~nP----~~l~~LAn~fyfK~dy~~v~~la~~ai~-~t~~~~~~aes~Y~~g 314 (1018)
T KOG2002|consen 242 VDLNFNDSDSYKKGVQLLQRAYKEN--NENP----VALNHLANHFYFKKDYERVWHLAEHAIK-NTENKSIKAESFYQLG 314 (1018)
T ss_pred HHHHccchHHHHHHHHHHHHHHhhc--CCCc----HHHHHHHHHHhhcccHHHHHHHHHHHHH-hhhhhHHHHHHHHHHH
Confidence 11 1223333344443221 1222 3445555667777888877665443210 1133455667789999
Q ss_pred HHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 213 KIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 213 ~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
|.|=.+|||.+|+.+|.+|....|.
T Consensus 315 Rs~Ha~Gd~ekA~~yY~~s~k~~~d 339 (1018)
T KOG2002|consen 315 RSYHAQGDFEKAFKYYMESLKADND 339 (1018)
T ss_pred HHHHhhccHHHHHHHHHHHHccCCC
Confidence 9999999999999999999974443
No 101
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=79.19 E-value=1.3e+02 Score=34.75 Aligned_cols=139 Identities=19% Similarity=0.119 Sum_probs=87.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Q 012934 76 KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHR 155 (453)
Q Consensus 76 ~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~r 155 (453)
..+.|++.-.+.. .-.++-.|++++|......+|+.- ......|++++.+||..|+++++-..-+.+
T Consensus 133 ~~l~~~l~~ll~e--AN~lfarg~~eeA~~i~~EvIkqd---------p~~~~ay~tL~~IyEqrGd~eK~l~~~llA-- 199 (895)
T KOG2076|consen 133 SKLAPELRQLLGE--ANNLFARGDLEEAEEILMEVIKQD---------PRNPIAYYTLGEIYEQRGDIEKALNFWLLA-- 199 (895)
T ss_pred cccCHHHHHHHHH--HHHHHHhCCHHHHHHHHHHHHHhC---------ccchhhHHHHHHHHHHcccHHHHHHHHHHH--
Confidence 3444555444332 333444599999988877776432 222334899999999999988765533332
Q ss_pred HhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 156 IATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 156 ta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
|-+..+.+ -+.-.+...--+.+++++|.-..+++. -|++ ..|.|=...++--.|++..|.+.|.+.+.
T Consensus 200 -AHL~p~d~---e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n------~~~~~ers~L~~~~G~~~~Am~~f~~l~~ 269 (895)
T KOG2076|consen 200 -AHLNPKDY---ELWKRLADLSEQLGNINQARYCYSRAIQANPSN------WELIYERSSLYQKTGDLKRAMETFLQLLQ 269 (895)
T ss_pred -HhcCCCCh---HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcc------hHHHHHHHHHHHHhChHHHHHHHHHHHHh
Confidence 22222222 233334445567888999887666532 2322 45556566666667999999999999999
Q ss_pred cCCc
Q 012934 234 KAPV 237 (453)
Q Consensus 234 ~~p~ 237 (453)
-+|+
T Consensus 270 ~~p~ 273 (895)
T KOG2076|consen 270 LDPP 273 (895)
T ss_pred hCCc
Confidence 8885
No 102
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.52 E-value=76 Score=31.75 Aligned_cols=81 Identities=19% Similarity=0.159 Sum_probs=51.9
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChh--hhhhhhhhhhhhhHHHHHHHHhcCC
Q 012934 212 GKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERT--VFMQKGMEKALRPYFELTNAVRIGD 289 (453)
Q Consensus 212 G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~--ll~~~~l~~~l~~Y~~L~~Av~~Gd 289 (453)
+.+++.+++|.+|...|..|+.+-|.. -+.|-.+|++.++.|+-|+.. .+.|- +...|=..+++-+...+
T Consensus 214 Av~~l~~~~~eeAe~lL~eaL~kd~~d-----petL~Nliv~a~~~Gkd~~~~~r~l~QL---k~~~p~h~~vk~~~eke 285 (299)
T KOG3081|consen 214 AVCHLQLGRYEEAESLLEEALDKDAKD-----PETLANLIVLALHLGKDAEVTERNLSQL---KLSHPEHPFVKHLNEKE 285 (299)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhccCCC-----HHHHHHHHHHHHHhCCChHHHHHHHHHH---HhcCCcchHHHHHHHHH
Confidence 345677899999999999999865543 466788999999999976532 12211 12223334555444432
Q ss_pred HHHHHHHHHhcc
Q 012934 290 LELFKSVAEKFS 301 (453)
Q Consensus 290 l~~f~~~l~~~~ 301 (453)
..|++.+.+|.
T Consensus 286 -aeFDrl~~qy~ 296 (299)
T KOG3081|consen 286 -AEFDRLVLQYD 296 (299)
T ss_pred -HHHHHHHHHhc
Confidence 46777766653
No 103
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=78.41 E-value=34 Score=40.96 Aligned_cols=120 Identities=13% Similarity=-0.001 Sum_probs=78.7
Q ss_pred HHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHH
Q 012934 93 FLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNL 172 (453)
Q Consensus 93 ~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~ 172 (453)
.+...+++++|..+.. .. .... .+++....++...++..++...+..+.+.... + . -....
T Consensus 582 ~l~~~G~~~eA~~~l~-------~~-p~~~-----~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~--~--~--~a~~~ 642 (1157)
T PRK11447 582 RLRDSGKEAEAEALLR-------QQ-PPST-----RIDLTLADWAQQRGDYAAARAAYQRVLTREPG--N--A--DARLG 642 (1157)
T ss_pred HHHHCCCHHHHHHHHH-------hC-CCCc-----hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--C--H--HHHHH
Confidence 3567789999877633 11 1111 22455666777788888888777766643211 1 1 12234
Q ss_pred HHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+.+.|...++++.|...+.... .|+ .....+..|.++...+++.+|.+.|..++...|.
T Consensus 643 la~~~~~~g~~~eA~~~l~~ll~~~p~------~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~ 703 (1157)
T PRK11447 643 LIEVDIAQGDLAAARAQLAKLPATAND------SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKS 703 (1157)
T ss_pred HHHHHHHCCCHHHHHHHHHHHhccCCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCcc
Confidence 5568889999999998887642 222 2234556788888899999999999999887764
No 104
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=78.04 E-value=5.2 Score=27.82 Aligned_cols=32 Identities=16% Similarity=0.049 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 239 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~ 239 (453)
++..|+.|...|++.+|...|..+++..|...
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~ 35 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDDP 35 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 46679999999999999999999999888643
No 105
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=77.28 E-value=21 Score=34.88 Aligned_cols=97 Identities=16% Similarity=0.080 Sum_probs=66.1
Q ss_pred HHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHH
Q 012934 129 LYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCR 206 (453)
Q Consensus 129 ~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~ 206 (453)
+|+.++.++...|+..++...+-.+++.... . ..+.+.+...++..|+++.+..+++... .|.+. .
T Consensus 148 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~----~--~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~------~ 215 (280)
T PF13429_consen 148 FWLALAEIYEQLGDPDKALRDYRKALELDPD----D--PDARNALAWLLIDMGDYDEAREALKRLLKAAPDDP------D 215 (280)
T ss_dssp HHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-------HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSC------C
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC----C--HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHH------H
Confidence 3667778888889888888777777654321 1 1234445667889999998888776531 12111 1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+....|..+...+++.+|..+|..++..-|.
T Consensus 216 ~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~ 246 (280)
T PF13429_consen 216 LWDALAAAYLQLGRYEEALEYLEKALKLNPD 246 (280)
T ss_dssp HCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHhcccccccccccccccccccccc
Confidence 4456699999999999999999999985554
No 106
>PRK11906 transcriptional regulator; Provisional
Probab=76.54 E-value=99 Score=33.17 Aligned_cols=67 Identities=10% Similarity=0.061 Sum_probs=46.2
Q ss_pred HhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHH
Q 012934 178 LHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAI 251 (453)
Q Consensus 178 l~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lI 251 (453)
...+.++.|..+++.+.. . +...+.=+||.|.+.+..|+..+|.+++..|++..|. ....-++|.+|
T Consensus 349 ~~~~~~~~a~~~f~rA~~---L-~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~---~~~~~~~~~~~ 415 (458)
T PRK11906 349 GLSGQAKVSHILFEQAKI---H-STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPR---RRKAVVIKECV 415 (458)
T ss_pred HhhcchhhHHHHHHHHhh---c-CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCch---hhHHHHHHHHH
Confidence 344558888888776431 1 1123345789999999999999999999999997664 33334455544
No 107
>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=75.88 E-value=8.2 Score=27.34 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=29.1
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
-..++..+||..+|++. ..+-.++-+|+.+|+|+
T Consensus 15 ~~~~t~~ela~~~~is~----~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 15 NPRITQKELAEKLGISR----STVNRYLKKLEEKGLIE 48 (48)
T ss_dssp CTTS-HHHHHHHHTS-H----HHHHHHHHHHHHTTSEE
T ss_pred cCCCCHHHHHHHhCCCH----HHHHHHHHHHHHCcCcC
Confidence 46799999999999997 89999999999999983
No 108
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=74.88 E-value=29 Score=27.24 Aligned_cols=83 Identities=19% Similarity=0.224 Sum_probs=48.5
Q ss_pred cccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHH
Q 012934 96 DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLR 175 (453)
Q Consensus 96 d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr 175 (453)
|+++|++|..+..+++..-..- . ...+++..+.|+=..|+..++-..+-. ... . ..... ..-++-+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~~~~-~------~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~-~--~~~~~---~~~l~a~ 66 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELDPTN-P------NSAYLYNLAQCYFQQGKYEEAIELLQK-LKL-D--PSNPD---IHYLLAR 66 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHHCGT-H------HHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH-H--HCHHH---HHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHCCCC-h------hHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC-C--CCCHH---HHHHHHH
Confidence 5789999999888887665431 0 112345556666667777766655544 111 0 11111 1123468
Q ss_pred HHHhcCChHHHHHHHhc
Q 012934 176 NYLHYNLYDQAEKLRSK 192 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~ 192 (453)
+|++.|+++.|-+.+.+
T Consensus 67 ~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 67 CLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHTT-HHHHHHHHHH
T ss_pred HHHHhCCHHHHHHHHhc
Confidence 99999999999887653
No 109
>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=74.83 E-value=4.1 Score=38.38 Aligned_cols=49 Identities=16% Similarity=0.316 Sum_probs=34.6
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
.-.-++|.|+|..+|+.. ++|...|-.|..+|.|.|.||..+.||....
T Consensus 110 ~~Kvv~ledla~~f~l~t----~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~ 158 (188)
T PF09756_consen 110 EHKVVNLEDLAAEFGLRT----QDVINRIQELEAEGRLTGVIDDRGKFIYISE 158 (188)
T ss_dssp H-SEE-HHHHHHHH-S-H----HHHHHHHHHHHHHSSS-EEE-TT--EEE---
T ss_pred HcceeeHHHHHHHcCCCH----HHHHHHHHHHHHCCCceeeEcCCCCeEEecH
Confidence 346789999999999998 8999999999999999999998777776654
No 110
>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=74.33 E-value=22 Score=30.11 Aligned_cols=61 Identities=26% Similarity=0.200 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
..+-..|+..++++.|...+.... .|. ....++..|.++..+++|.+|...|..++...|.
T Consensus 21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~ 83 (135)
T TIGR02552 21 YALAYNLYQQGRYDEALKLFQLLAAYDPY------NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD 83 (135)
T ss_pred HHHHHHHHHcccHHHHHHHHHHHHHhCCC------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 345567888899999998877642 232 2456778999999999999999999999875444
No 111
>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=74.28 E-value=10 Score=28.12 Aligned_cols=31 Identities=23% Similarity=0.165 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
|+||++.-+...++|.+|.++...+++.-|.
T Consensus 3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~ 33 (53)
T PF14853_consen 3 CLYYLAIGHYKLGEYEKARRYCDALLEIEPD 33 (53)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS
T ss_pred hHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence 7899999999999999999999999987664
No 112
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=73.69 E-value=94 Score=30.69 Aligned_cols=34 Identities=24% Similarity=0.224 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 239 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~ 239 (453)
.-+|..|.++...+++.+|...|..+++..|.+.
T Consensus 218 dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~ 251 (263)
T PRK10803 218 DAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTD 251 (263)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 3466789999999999999999999999888743
No 113
>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=73.30 E-value=1.5e+02 Score=32.73 Aligned_cols=128 Identities=20% Similarity=0.103 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHhhchhhhHHHHHHHHHHHH-HHHHhhcCHHHHHHHHHHHHHHhhhccCcc-chHHHHHHHHHHHHhcCC
Q 012934 105 ACSSASIARLKNMNRRTVDVLAARLYFYYS-LCYELTGDLAEIRGNLLALHRIATLRHDEL-GQETLLNLLLRNYLHYNL 182 (453)
Q Consensus 105 ~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~-~~~e~~~~l~~~r~~l~~~~rta~~~~~~~-~~~~l~n~llr~Yl~~~~ 182 (453)
..+.++++.+.. +.+-.....|++++=++ +-.+-+.++..|+..|..+.-.+ .+|+-. -.+....++.++|.+.|.
T Consensus 38 ~~ai~CL~~~~~-~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~-~~~~~~d~k~~~~~ll~~i~~~~~~ 115 (608)
T PF10345_consen 38 ATAIKCLEAVLK-QFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLC-ERHRLTDLKFRCQFLLARIYFKTNP 115 (608)
T ss_pred HHHHHHHHHHhc-cCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-cccchHHHHHHHHHHHHHHHHhcCH
Confidence 333444444332 22344567777766444 44566888999999888774333 332222 234445567899999988
Q ss_pred hHHHHHHHhcC-CcCccCC-hhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Q 012934 183 YDQAEKLRSKA-PRFEAHS-NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKA 235 (453)
Q Consensus 183 ~~~a~~li~~~-~~p~~~~-~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~ 235 (453)
.. |.+.+++. +.-+..+ ......|.|.....++..+|+..|.+.|......+
T Consensus 116 ~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a 169 (608)
T PF10345_consen 116 KA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLA 169 (608)
T ss_pred HH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Confidence 88 88888773 2222222 22333344433334433479999999999988743
No 114
>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=72.99 E-value=3.9 Score=30.60 Aligned_cols=54 Identities=26% Similarity=0.226 Sum_probs=40.0
Q ss_pred HhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 178 LHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 178 l~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
++.|+++.|..++.+. ..|+ .....+..|.++...|+|.+|...|..+....|.
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~------~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD------NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT------SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 5677888888877764 2343 3345567899999999999999999999886664
No 115
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=72.70 E-value=14 Score=33.76 Aligned_cols=78 Identities=17% Similarity=0.074 Sum_probs=56.3
Q ss_pred HHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHH
Q 012934 176 NYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRL 255 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~L 255 (453)
.....|+++.|.++......- ......|+|=+|.++=..++|.+|...|..|+..-|..+.. +-++=.|.|
T Consensus 44 ~ly~~G~l~~A~~~f~~L~~~----Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~-----~~~ag~c~L 114 (157)
T PRK15363 44 QLMEVKEFAGAARLFQLLTIY----DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQA-----PWAAAECYL 114 (157)
T ss_pred HHHHCCCHHHHHHHHHHHHHh----CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchH-----HHHHHHHHH
Confidence 345788999988877753211 12456799999999999999999999999999866654433 334445566
Q ss_pred hcCCCCC
Q 012934 256 LLGEIPE 262 (453)
Q Consensus 256 L~G~iP~ 262 (453)
.+|+++.
T Consensus 115 ~lG~~~~ 121 (157)
T PRK15363 115 ACDNVCY 121 (157)
T ss_pred HcCCHHH
Confidence 6777664
No 116
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=72.69 E-value=1.1e+02 Score=34.41 Aligned_cols=96 Identities=19% Similarity=0.263 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHh---cCCC-CChhhhhhhhhhh--hhhhH
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLL---LGEI-PERTVFMQKGMEK--ALRPY 278 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL---~G~i-P~~~ll~~~~l~~--~l~~Y 278 (453)
-.++...|.|+-..++...|...|.+-+++||.+.. .|+++.-| .|.+ -.+++|..-.++. .-.-|
T Consensus 685 ~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ip--------LWllLakleEk~~~~~rAR~ildrarlkNPk~~~lw 756 (913)
T KOG0495|consen 685 HKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIP--------LWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLW 756 (913)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCch--------HHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhH
Confidence 345566777777777777777777777777775321 22332222 2321 1233443332321 22234
Q ss_pred HHHHH-HHhcCCHHHHHHHHHhcchhhccCc
Q 012934 279 FELTN-AVRIGDLELFKSVAEKFSSTFSSDR 308 (453)
Q Consensus 279 ~~L~~-Av~~Gdl~~f~~~l~~~~~~f~~Dg 308 (453)
.+.++ -+|.||...-+..+.+--..+-..|
T Consensus 757 le~Ir~ElR~gn~~~a~~lmakALQecp~sg 787 (913)
T KOG0495|consen 757 LESIRMELRAGNKEQAELLMAKALQECPSSG 787 (913)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCccc
Confidence 44444 4799998887777766544444444
No 117
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=71.40 E-value=11 Score=29.10 Aligned_cols=31 Identities=16% Similarity=0.264 Sum_probs=29.3
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
++..+||..||++. ..|..++..|..+|.|.
T Consensus 23 ~ta~eLa~~lgl~~----~~v~r~L~~L~~~G~V~ 53 (68)
T smart00550 23 STALQLAKNLGLPK----KEVNRVLYSLEKKGKVC 53 (68)
T ss_pred cCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 99999999999998 89999999999999984
No 118
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=69.04 E-value=27 Score=33.63 Aligned_cols=98 Identities=17% Similarity=0.171 Sum_probs=54.5
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhhhhhhh-HH-HHHH-HHh
Q 012934 210 YLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRP-YF-ELTN-AVR 286 (453)
Q Consensus 210 Y~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~-Y~-~L~~-Av~ 286 (453)
--|--.+..|+|.+|...|..|+.-||+....-+--+|-.--.+.+=+|+--..----++.+ .+.| |. +|.+ |..
T Consensus 100 ~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKai--el~pty~kAl~RRAea 177 (271)
T KOG4234|consen 100 KEGNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAI--ELNPTYEKALERRAEA 177 (271)
T ss_pred HHHHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhH--hcCchhHHHHHHHHHH
Confidence 34555677899999999999999999986543222222111111111222100000000000 1112 32 3433 555
Q ss_pred cCCHHHHHHHHHhcchhhccCcc
Q 012934 287 IGDLELFKSVAEKFSSTFSSDRT 309 (453)
Q Consensus 287 ~Gdl~~f~~~l~~~~~~f~~Dg~ 309 (453)
--+...|+.+++.|......|.-
T Consensus 178 yek~ek~eealeDyKki~E~dPs 200 (271)
T KOG4234|consen 178 YEKMEKYEEALEDYKKILESDPS 200 (271)
T ss_pred HHhhhhHHHHHHHHHHHHHhCcc
Confidence 56678999999999999888874
No 119
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=69.01 E-value=99 Score=32.12 Aligned_cols=67 Identities=12% Similarity=0.091 Sum_probs=48.4
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--c--Cc-----------cC------------ChhhHHHHHHHHHHHHHHHhhHHH
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--R--FE-----------AH------------SNQQFCRYLFYLGKIRTIQLEYTD 223 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~--p~-----------~~------------~~~~~v~Y~YY~G~i~~~~~dy~~ 223 (453)
....+.+...|..+.|..++.+.- . |+ +. ...+-..+++..|+++..+++|.+
T Consensus 267 ~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~ 346 (398)
T PRK10747 267 VAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQE 346 (398)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHH
Confidence 345677888899999988777531 0 10 00 012335678899999999999999
Q ss_pred HHHHHHHHHHcCCc
Q 012934 224 AKESLLQAARKAPV 237 (453)
Q Consensus 224 A~~~L~~A~~~~p~ 237 (453)
|.++|+.++...|.
T Consensus 347 A~~~le~al~~~P~ 360 (398)
T PRK10747 347 ASLAFRAALKQRPD 360 (398)
T ss_pred HHHHHHHHHhcCCC
Confidence 99999999986564
No 120
>PRK12370 invasion protein regulator; Provisional
Probab=68.91 E-value=1.8e+02 Score=31.70 Aligned_cols=58 Identities=12% Similarity=0.033 Sum_probs=45.8
Q ss_pred HHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..|...++++.|...+++.. .|++ ...+|+.|.++...|+|.+|..+|..|++..|..
T Consensus 346 ~~~~~~g~~~~A~~~~~~Al~l~P~~------~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~ 405 (553)
T PRK12370 346 LINTIHSEYIVGSLLFKQANLLSPIS------ADIKYYYGWNLFMAGQLEEALQTINECLKLDPTR 405 (553)
T ss_pred HHHHHccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence 46678899999998887642 3322 2356888999999999999999999999977763
No 121
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=68.34 E-value=13 Score=39.16 Aligned_cols=134 Identities=22% Similarity=0.164 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhcc
Q 012934 82 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRH 161 (453)
Q Consensus 82 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~ 161 (453)
.++|-.|+-+ .+-.|++.||.-.+...++.+..- -+++-.+.+-|.+.-++..|.+..+ +-+.+| .+.
T Consensus 368 L~~Y~GL~hs--YLA~~~~kEA~~~An~~~~~~~~s-A~~LtL~g~~V~~~dp~~rEKAKkf------~ek~L~---~~P 435 (564)
T KOG1174|consen 368 LEIYRGLFHS--YLAQKRFKEANALANWTIRLFQNS-ARSLTLFGTLVLFPDPRMREKAKKF------AEKSLK---INP 435 (564)
T ss_pred HHHHHHHHHH--HHhhchHHHHHHHHHHHHHHhhcc-hhhhhhhcceeeccCchhHHHHHHH------HHhhhc---cCC
Confidence 4444444332 234467777777777776666542 4566555555555555555544332 222221 111
Q ss_pred CccchHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 162 DELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 162 ~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+..+ -++.+...+..-|.+.-+-.++++. .+|+ +..+--+|-+...+..|++|.++|+.|++.-|+
T Consensus 436 ~Y~~---AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D-------~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~ 503 (564)
T KOG1174|consen 436 IYTP---AVNLIAELCQVEGPTKDIIKLLEKHLIIFPD-------VNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK 503 (564)
T ss_pred ccHH---HHHHHHHHHHhhCccchHHHHHHHHHhhccc-------cHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence 1111 1122333334444444444444441 2333 234557899999999999999999999997665
No 122
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=68.17 E-value=1.8e+02 Score=31.36 Aligned_cols=93 Identities=22% Similarity=0.128 Sum_probs=64.4
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHH---HHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhH
Q 012934 130 YFYYSLCYELTGDLAEIRGNLLALH---RIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQF 204 (453)
Q Consensus 130 ~~~~~~~~e~~~~l~~~r~~l~~~~---rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~ 204 (453)
.|-..+.+|..|+|.++...+++.+ +... -++..+..+|=...+..+|-.++... -+|.. | .
T Consensus 527 lfniglt~e~~~~ldeald~f~klh~il~nn~---------evl~qianiye~led~aqaie~~~q~~slip~d-p---~ 593 (840)
T KOG2003|consen 527 LFNIGLTAEALGNLDEALDCFLKLHAILLNNA---------EVLVQIANIYELLEDPAQAIELLMQANSLIPND-P---A 593 (840)
T ss_pred HHHhcccHHHhcCHHHHHHHHHHHHHHHHhhH---------HHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCC-H---H
Confidence 5666777888899988877655554 3221 23345566787778888887776643 23432 1 1
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.+--+|.+|-.+||-+.|++|....++..|+
T Consensus 594 --ilskl~dlydqegdksqafq~~ydsyryfp~ 624 (840)
T KOG2003|consen 594 --ILSKLADLYDQEGDKSQAFQCHYDSYRYFPC 624 (840)
T ss_pred --HHHHHHHHhhcccchhhhhhhhhhcccccCc
Confidence 2235788889999999999999999998887
No 123
>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=67.77 E-value=10 Score=30.32 Aligned_cols=49 Identities=16% Similarity=0.389 Sum_probs=39.0
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccc
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 386 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~ 386 (453)
.++..+||+.++++. ..++.++.++...|.|..+=-+..||.-..+..+
T Consensus 25 ~~s~~eiA~~~~i~~----~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~~~ 73 (83)
T PF02082_consen 25 PVSSKEIAERLGISP----SYLRKILQKLKKAGLIESSRGRGGGYRLARPPEE 73 (83)
T ss_dssp -BEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEEEETSTTSEEEESS-CCG
T ss_pred CCCHHHHHHHHCcCH----HHHHHHHHHHhhCCeeEecCCCCCceeecCCHHH
Confidence 399999999999998 8999999999999999766555677776665543
No 124
>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=66.30 E-value=26 Score=28.43 Aligned_cols=60 Identities=20% Similarity=0.150 Sum_probs=45.2
Q ss_pred HHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 175 RNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
..++..++++.|...+.... .|++. ....-+|..|.++...++|.+|..+|..++...|.
T Consensus 10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~ 71 (119)
T TIGR02795 10 LLVLKAGDYADAIQAFQAFLKKYPKST---YAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK 71 (119)
T ss_pred HHHHHcCCHHHHHHHHHHHHHHCCCcc---ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC
Confidence 46678899999988776642 34321 12334577999999999999999999999987665
No 125
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=66.07 E-value=2.1e+02 Score=31.49 Aligned_cols=141 Identities=17% Similarity=0.158 Sum_probs=71.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc------------hHhHHHHHHHHHhHH-HhcCCCCChhhhhhhhhhhhh
Q 012934 209 FYLGKIRTIQLEYTDAKESLLQAARKAPVAA------------LGFRVQCNKWAIIVR-LLLGEIPERTVFMQKGMEKAL 275 (453)
Q Consensus 209 YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~------------~~~~~~alK~lIlv~-LL~G~iP~~~ll~~~~l~~~l 275 (453)
.|.|+=|+..+++.-|.++|.+|+.-||... .+...+|.+++--+- -+-...++.+ +-.|
T Consensus 384 LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~-~w~p------ 456 (611)
T KOG1173|consen 384 LYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKI-FWEP------ 456 (611)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhcccccc-chhH------
Confidence 6889999999999999999999998888721 233444544432211 0011111111 1111
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHhcchhhccCcc-HHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChHH
Q 012934 276 RPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRT-NNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 354 (453)
Q Consensus 276 ~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~-~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~e 354 (453)
....|..+.|. +.+++.++..|+..+..... .....-+ ..+-+.+..+. --+..+-+.|.+..+ -.-
T Consensus 457 -~~~NLGH~~Rk--l~~~~eAI~~~q~aL~l~~k~~~~~asi--g~iy~llgnld-----~Aid~fhKaL~l~p~--n~~ 524 (611)
T KOG1173|consen 457 -TLNNLGHAYRK--LNKYEEAIDYYQKALLLSPKDASTHASI--GYIYHLLGNLD-----KAIDHFHKALALKPD--NIF 524 (611)
T ss_pred -HHHhHHHHHHH--HhhHHHHHHHHHHHHHcCCCchhHHHHH--HHHHHHhcChH-----HHHHHHHHHHhcCCc--cHH
Confidence 12234444444 45666777766655443222 1111100 00000010000 013455667777763 136
Q ss_pred HHHHHHHhHHcCCc
Q 012934 355 AESIVSKAIRDGAI 368 (453)
Q Consensus 355 aE~iva~mI~dG~I 368 (453)
++.++..+|.+...
T Consensus 525 ~~~lL~~aie~~~~ 538 (611)
T KOG1173|consen 525 ISELLKLAIEDSEC 538 (611)
T ss_pred HHHHHHHHHHhhhh
Confidence 78889999988655
No 126
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=65.86 E-value=1.9e+02 Score=34.26 Aligned_cols=129 Identities=13% Similarity=-0.068 Sum_probs=74.7
Q ss_pred HHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccch
Q 012934 87 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 166 (453)
Q Consensus 87 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~ 166 (453)
++.....+...+++++|.....+++.. ...+ . .++....+....|+..++...+..+.... + ..
T Consensus 512 ~L~lA~al~~~Gr~eeAi~~~rka~~~-~p~~--~-------a~~~la~all~~Gd~~eA~~~l~qAL~l~-P---~~-- 575 (987)
T PRK09782 512 HRAVAYQAYQVEDYATALAAWQKISLH-DMSN--E-------DLLAAANTAQAAGNGAARDRWLQQAEQRG-L---GD-- 575 (987)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCc--H-------HHHHHHHHHHHCCCHHHHHHHHHHHHhcC-C---cc--
Confidence 444444556889999998887664321 0000 0 12333444445677777666665554321 1 11
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 167 ETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 167 ~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..+...+.......|+++.|...+.... .|. ...++-.|.++...+++.+|..+|..|+...|..
T Consensus 576 ~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~-------~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~ 642 (987)
T PRK09782 576 NALYWWLHAQRYIPGQPELALNDLTRSLNIAPS-------ANAYVARATIYRQRHNVPAAVSDLRAALELEPNN 642 (987)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 1111223333345588888888776642 231 2345667888888888888888888888876653
No 127
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=65.34 E-value=2.1e+02 Score=31.19 Aligned_cols=57 Identities=19% Similarity=0.073 Sum_probs=44.7
Q ss_pred HHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 177 YLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 177 Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
++..|+++.|..-+++..-- .+ .+..+.+.|+++...|++.+|.+++..|++.-|..
T Consensus 430 ~~~~g~~~~A~~~l~rAl~L---~p--s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~ 486 (517)
T PRK10153 430 ALVKGKTDEAYQAINKAIDL---EM--SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE 486 (517)
T ss_pred HHhcCCHHHHHHHHHHHHHc---CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence 44569999999888774211 11 24578899999999999999999999999977763
No 128
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=65.20 E-value=1.1e+02 Score=36.31 Aligned_cols=125 Identities=14% Similarity=-0.007 Sum_probs=64.8
Q ss_pred HHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHH
Q 012934 91 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 170 (453)
Q Consensus 91 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~ 170 (453)
...++..|++++|..+...+++. +... ..+ +..+....+..|+..++...+..+.... +.. -..
T Consensus 549 a~all~~Gd~~eA~~~l~qAL~l----~P~~-~~l----~~~La~~l~~~Gr~~eAl~~~~~AL~l~-----P~~--~a~ 612 (987)
T PRK09782 549 ANTAQAAGNGAARDRWLQQAEQR----GLGD-NAL----YWWLHAQRYIPGQPELALNDLTRSLNIA-----PSA--NAY 612 (987)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhc----CCcc-HHH----HHHHHHHHHhCCCHHHHHHHHHHHHHhC-----CCH--HHH
Confidence 44566788999998887776643 1111 111 1111112223466666666555554322 111 122
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
..+-..|.+.|.++.|...+.+.. .|+ ...+++-.|.++...+++.+|..+|..|+...|.
T Consensus 613 ~~LA~~l~~lG~~deA~~~l~~AL~l~Pd------~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~ 675 (987)
T PRK09782 613 VARATIYRQRHNVPAAVSDLRAALELEPN------NSNYQAALGYALWDSGDIAQSREMLERAHKGLPD 675 (987)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCC------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence 233356667777777776655431 222 1235556666666666666666666666664443
No 129
>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=64.99 E-value=23 Score=26.03 Aligned_cols=37 Identities=16% Similarity=0.400 Sum_probs=31.1
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCC
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 375 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~ 375 (453)
++..+||..++++. ..+-.+|.+|+..|+|.-.-+..
T Consensus 22 ~t~~~la~~l~~~~----~~vs~~v~~L~~~Glv~r~~~~~ 58 (62)
T PF12802_consen 22 LTQSELAERLGISK----STVSRIVKRLEKKGLVERERDPG 58 (62)
T ss_dssp EEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEEEEE-SS
T ss_pred cCHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEEeCCCC
Confidence 99999999999998 89999999999999996555543
No 130
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=64.95 E-value=1e+02 Score=27.45 Aligned_cols=120 Identities=15% Similarity=0.039 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhcc
Q 012934 82 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRH 161 (453)
Q Consensus 82 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~ 161 (453)
....+++.....+...+++++|.......+.... ...+ .+-+|+..+.++...++..++...+..+++...
T Consensus 33 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~----~~~~--~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~--- 103 (168)
T CHL00033 33 KEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI----DPYD--RSYILYNIGLIHTSNGEHTKALEYYFQALERNP--- 103 (168)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc----cchh--hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc---
Confidence 3566666777777888999999988777765421 1111 122467778888889999988888777765421
Q ss_pred CccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 162 DELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 162 ~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
..+ ...+.+..+|...+ +.++-.|........|.+|..++..++...|.
T Consensus 104 -~~~--~~~~~la~i~~~~~------------------------~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~ 152 (168)
T CHL00033 104 -FLP--QALNNMAVICHYRG------------------------EQAIEQGDSEIAEAWFDQAAEYWKQAIALAPG 152 (168)
T ss_pred -CcH--HHHHHHHHHHHHhh------------------------HHHHHcccHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 111 11222333333222 22345777777888899999999999987775
No 131
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=64.91 E-value=39 Score=33.39 Aligned_cols=61 Identities=11% Similarity=-0.001 Sum_probs=45.1
Q ss_pred HHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..+++.+.|+.|-..+... .+|++. ..-.-+|+.|.+|...++|.+|..+|..++.+.|.+
T Consensus 151 ~l~~~~~~y~~Ai~af~~fl~~yP~s~---~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s 213 (263)
T PRK10803 151 ALVQDKSRQDDAIVAFQNFVKKYPDST---YQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKS 213 (263)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHCcCCc---chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence 3345668999888766653 356531 112335899999999999999999999999877753
No 132
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=64.51 E-value=80 Score=35.45 Aligned_cols=99 Identities=15% Similarity=0.079 Sum_probs=63.7
Q ss_pred hhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCC
Q 012934 121 TVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHS 200 (453)
Q Consensus 121 ~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~ 200 (453)
.+|.+.||-++ +.|+...+|..|..+|..+...-+ +.-.-+|+-+..+.++.|..|+.++- +
T Consensus 585 ~lwlM~ake~w-------~agdv~~ar~il~~af~~~pnsee------iwlaavKle~en~e~eraR~llakar-----~ 646 (913)
T KOG0495|consen 585 ILWLMYAKEKW-------KAGDVPAARVILDQAFEANPNSEE------IWLAAVKLEFENDELERARDLLAKAR-----S 646 (913)
T ss_pred hHHHHHHHHHH-------hcCCcHHHHHHHHHHHHhCCCcHH------HHHHHHHHhhccccHHHHHHHHHHHh-----c
Confidence 45555544444 368888999999888854432111 11112466788899999999888752 1
Q ss_pred hhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 201 NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 201 ~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.+-.-|-+|-...+--.+++..+|.+.++.|+...|.
T Consensus 647 ~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~ 683 (913)
T KOG0495|consen 647 ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPD 683 (913)
T ss_pred cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence 1222333444455566788899999999999987774
No 133
>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=64.14 E-value=1.4e+02 Score=31.01 Aligned_cols=55 Identities=20% Similarity=0.187 Sum_probs=37.1
Q ss_pred HhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHH--HHHHcCC
Q 012934 178 LHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLL--QAARKAP 236 (453)
Q Consensus 178 l~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~--~A~~~~p 236 (453)
+..++.+.+...+.+. ..|++ -.+.+...+|+++..+++|.+|.++|+ .++...|
T Consensus 310 l~~~~~~~~~~~~e~~lk~~p~~----~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p 368 (409)
T TIGR00540 310 LKPEDNEKLEKLIEKQAKNVDDK----PKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQL 368 (409)
T ss_pred cCCCChHHHHHHHHHHHHhCCCC----hhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCC
Confidence 3345555555555442 12321 125788899999999999999999999 6776444
No 134
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=63.89 E-value=70 Score=31.30 Aligned_cols=158 Identities=18% Similarity=0.183 Sum_probs=85.4
Q ss_pred HHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHH-HHHHHHHhcCChHHHHHHHhcC-C-cCccCChhhH
Q 012934 128 RLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLN-LLLRNYLHYNLYDQAEKLRSKA-P-RFEAHSNQQF 204 (453)
Q Consensus 128 k~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n-~llr~Yl~~~~~~~a~~li~~~-~-~p~~~~~~~~ 204 (453)
++..=....+=-.|+...++..|-++++. |+.. ..+. .+--+|-+.|..+.|..-.++. + -|.+-. +
T Consensus 36 ~arlqLal~YL~~gd~~~A~~nlekAL~~-----DPs~--~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~Gd---V 105 (250)
T COG3063 36 KARLQLALGYLQQGDYAQAKKNLEKALEH-----DPSY--YLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGD---V 105 (250)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-----Cccc--HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccc---h
Confidence 33333344454567777777777777653 3322 2212 2334677788888887765552 2 233211 0
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhh--hh-hhhHHHH
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGME--KA-LRPYFEL 281 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~--~~-l~~Y~~L 281 (453)
+ = -| |-..+.+|+|.+|..+|..|+. .|.- +..-..+-.+.+|.+=+|+.-....+-++.++ +. -.+..++
T Consensus 106 L-N-NY-G~FLC~qg~~~eA~q~F~~Al~-~P~Y--~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~ 179 (250)
T COG3063 106 L-N-NY-GAFLCAQGRPEEAMQQFERALA-DPAY--GEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLEL 179 (250)
T ss_pred h-h-hh-hHHHHhCCChHHHHHHHHHHHh-CCCC--CCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHH
Confidence 0 0 12 4556678899999999999996 7751 11223456678888888886544332222221 11 1122334
Q ss_pred HHH-HhcCCHHHHHHHHHhcc
Q 012934 282 TNA-VRIGDLELFKSVAEKFS 301 (453)
Q Consensus 282 ~~A-v~~Gdl~~f~~~l~~~~ 301 (453)
++- ++.||...=+..++.+.
T Consensus 180 a~~~~~~~~y~~Ar~~~~~~~ 200 (250)
T COG3063 180 ARLHYKAGDYAPARLYLERYQ 200 (250)
T ss_pred HHHHHhcccchHHHHHHHHHH
Confidence 333 56677665555555443
No 135
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=63.82 E-value=15 Score=24.26 Aligned_cols=28 Identities=29% Similarity=0.171 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
.-+.-+|.++..+++|.+|..++.+|+.
T Consensus 3 ~~~~~la~~~~~~g~~~~A~~~~~~al~ 30 (42)
T PF13374_consen 3 SALNNLANAYRAQGRYEEALELLEEALE 30 (42)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence 3456789999999999999999999986
No 136
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=63.19 E-value=38 Score=29.89 Aligned_cols=60 Identities=17% Similarity=-0.106 Sum_probs=45.2
Q ss_pred HHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..++..|.++.|...+...... ......+++-.|.++...++|.+|..+|..|+...|..
T Consensus 32 ~~~~~~g~~~~A~~~~~~al~~----~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~ 91 (144)
T PRK15359 32 YASWQEGDYSRAVIDFSWLVMA----QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASH 91 (144)
T ss_pred HHHHHcCCHHHHHHHHHHHHHc----CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC
Confidence 4667889999888766653210 11245677889999999999999999999999866654
No 137
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=62.88 E-value=82 Score=25.62 Aligned_cols=86 Identities=19% Similarity=0.070 Sum_probs=56.5
Q ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHHhh-chhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccch
Q 012934 88 LLVLIFLIDKKRYNEAKACSSASIARLKNM-NRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 166 (453)
Q Consensus 88 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~-~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~ 166 (453)
.+.-+..+..++|.+|.+......+....- +......+ +-.....+.++-..|+.+++...+..+.+.+-..+|..+.
T Consensus 2 ~l~~~~~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~-~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~l 80 (94)
T PF12862_consen 2 YLRYLNALRSGDYSEALDALHRYFDYAKQSNNSSSNSGL-AYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRCL 80 (94)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccchhhHHH-HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHHH
Confidence 455566778899999988777776663322 21211111 1113445556667899999999999999999888887777
Q ss_pred HHHHHHHH
Q 012934 167 ETLLNLLL 174 (453)
Q Consensus 167 ~~l~n~ll 174 (453)
......+.
T Consensus 81 ~~al~~~~ 88 (94)
T PF12862_consen 81 AYALSWLA 88 (94)
T ss_pred HHHHHHHH
Confidence 66555443
No 138
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=62.82 E-value=46 Score=36.85 Aligned_cols=52 Identities=21% Similarity=0.080 Sum_probs=31.0
Q ss_pred HHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 176 NYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
+|++..+++.|+-.+.++- -|.+ . .-.-+.|+++-..++..+|.+.+..|+.
T Consensus 498 vy~Kqek~e~Ae~~fqkA~~INP~n-----s-vi~~~~g~~~~~~k~~d~AL~~~~~A~~ 551 (638)
T KOG1126|consen 498 VYLKQEKLEFAEFHFQKAVEINPSN-----S-VILCHIGRIQHQLKRKDKALQLYEKAIH 551 (638)
T ss_pred heeccchhhHHHHHHHhhhcCCccc-----h-hHHhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence 5677777777777666542 2321 1 1223556666667777777777777765
No 139
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=61.86 E-value=17 Score=26.89 Aligned_cols=29 Identities=24% Similarity=0.322 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 209 FYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 209 YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
|-.|+.+...++|.+|...|..++..-|.
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P~ 29 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDPD 29 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCSTT
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence 45799999999999999999999986654
No 140
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.03 E-value=1.8e+02 Score=28.98 Aligned_cols=34 Identities=29% Similarity=0.377 Sum_probs=26.3
Q ss_pred HHHHH-HHHHHHHHHhcccCHHHHHHHHHHHHHHH
Q 012934 81 ELEIY-CYLLVLIFLIDKKRYNEAKACSSASIARL 114 (453)
Q Consensus 81 ~~e~~-~~ll~~~~l~d~~~~~~A~~~~~~lv~~l 114 (453)
+.|+| +.=-+++.++|.++...|..|...+-+.+
T Consensus 48 g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f 82 (289)
T KOG3060|consen 48 GDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF 82 (289)
T ss_pred CchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC
Confidence 34554 45678888999999999999988877654
No 141
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=60.78 E-value=23 Score=28.59 Aligned_cols=43 Identities=12% Similarity=0.169 Sum_probs=36.0
Q ss_pred HHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeE
Q 012934 325 LRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDAT 371 (453)
Q Consensus 325 irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~ 371 (453)
||..-.-+-+.++.+|+..++.+. +-+|.++..++..|.|.-.
T Consensus 7 lRd~l~~~gr~s~~~Ls~~~~~p~----~~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 7 VRDLLALRGRMEAAQISQTLNTPQ----PMINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHHHcCcccHHHHHHHHCcCH----HHHHHHHHHHHHCCCeEee
Confidence 344445578999999999999887 8999999999999999544
No 142
>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=60.30 E-value=1.2e+02 Score=32.62 Aligned_cols=124 Identities=14% Similarity=0.063 Sum_probs=70.3
Q ss_pred HHHHHHHHHHhcccCHHHHHHHHHHHHHH-HHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCc
Q 012934 85 YCYLLVLIFLIDKKRYNEAKACSSASIAR-LKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE 163 (453)
Q Consensus 85 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~-l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~ 163 (453)
..+|+++...++......-...+..+++. .+.|..-.+|. |+-++...+.++++.+-..+..+..+. ..
T Consensus 230 L~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl------~~~gR~~~~~g~~~~Ai~~~~~a~~~q----~~ 299 (468)
T PF10300_consen 230 LWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFL------FFEGRLERLKGNLEEAIESFERAIESQ----SE 299 (468)
T ss_pred HHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHH------HHHHHHHHHhcCHHHHHHHHHHhccch----hh
Confidence 44566666666651112223344555655 44564445554 477888888999998888777665322 23
Q ss_pred cchHHHHH--HHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhH
Q 012934 164 LGQETLLN--LLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEY 221 (453)
Q Consensus 164 ~~~~~l~n--~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy 221 (453)
+.|...++ -+.-+|+-..+++.|........ .-++--.+.|.|..|-++...++.
T Consensus 300 ~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~---~~s~WSka~Y~Y~~a~c~~~l~~~ 356 (468)
T PF10300_consen 300 WKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL---KESKWSKAFYAYLAAACLLMLGRE 356 (468)
T ss_pred HHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH---hccccHHHHHHHHHHHHHHhhccc
Confidence 34432211 12235666677777766444321 112223677888888888877777
No 143
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=60.05 E-value=15 Score=33.23 Aligned_cols=39 Identities=21% Similarity=0.283 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCC
Q 012934 311 NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSA 349 (453)
Q Consensus 311 ~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~ 349 (453)
.++.-+|....|+.+.-+.+.||+|...|+|.-+|+..+
T Consensus 109 ~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~d 147 (197)
T KOG4414|consen 109 DIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPED 147 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 467778888889999999999999999999999999973
No 144
>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=58.69 E-value=2.8e+02 Score=30.35 Aligned_cols=126 Identities=21% Similarity=0.285 Sum_probs=76.2
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHH
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCN 247 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~al 247 (453)
.+...+-..|-..|.++.|...|+++.-- ..-.+.+|+..|+|+-..|++.+|.+++..|=. -.....-.--.+-
T Consensus 195 w~~~~lAqhyd~~g~~~~Al~~Id~aI~h----tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~-LD~~DRyiNsK~a 269 (517)
T PF12569_consen 195 WTLYFLAQHYDYLGDYEKALEYIDKAIEH----TPTLVELYMTKARILKHAGDLKEAAEAMDEARE-LDLADRYINSKCA 269 (517)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhc----CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-CChhhHHHHHHHH
Confidence 34456677889999999999999874210 112467999999999999999999999999865 3222212222344
Q ss_pred HHHHhHHHhcCCCCCh----hhhhhhh-------hhhhhhhHH-HHHHHH-hcCC----HHHHHHHHHhcch
Q 012934 248 KWAIIVRLLLGEIPER----TVFMQKG-------MEKALRPYF-ELTNAV-RIGD----LELFKSVAEKFSS 302 (453)
Q Consensus 248 K~lIlv~LL~G~iP~~----~ll~~~~-------l~~~l~~Y~-~L~~Av-~~Gd----l~~f~~~l~~~~~ 302 (453)
||++=. |.+-.. ++|+... ..-.|.+|. +.+.|+ |.|+ +..|..+...|..
T Consensus 270 Ky~LRa----~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~ 337 (517)
T PF12569_consen 270 KYLLRA----GRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDD 337 (517)
T ss_pred HHHHHC----CCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 444322 222110 1222111 112456664 677776 6676 4566666666554
No 145
>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=58.27 E-value=30 Score=25.28 Aligned_cols=40 Identities=20% Similarity=0.361 Sum_probs=33.5
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCC
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 375 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~ 375 (453)
+..++..+|+..++++. .-+=.++.+|+.+|.|.-.-+..
T Consensus 15 ~~~~~~~~la~~~~~~~----~~~t~~i~~L~~~g~I~r~~~~~ 54 (59)
T PF01047_consen 15 NGGITQSELAEKLGISR----STVTRIIKRLEKKGLIERERDPD 54 (59)
T ss_dssp HSSEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEEEEEETT
T ss_pred cCCCCHHHHHHHHCCCh----hHHHHHHHHHHHCCCEEeccCCC
Confidence 56799999999999998 78999999999999996655543
No 146
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=57.11 E-value=1.2e+02 Score=26.37 Aligned_cols=100 Identities=18% Similarity=0.062 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHH
Q 012934 128 RLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFC 205 (453)
Q Consensus 128 k~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v 205 (453)
++.|....+++..|+-.++.+..-.++.. .+. .....-.++ .+-..|-..|.++.|..+++.. .+|+. +....+
T Consensus 2 ~~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~-gL~-~~~~~~a~i-~lastlr~LG~~deA~~~L~~~~~~~p~~-~~~~~l 77 (120)
T PF12688_consen 2 RALYELAWAHDSLGREEEAIPLYRRALAA-GLS-GADRRRALI-QLASTLRNLGRYDEALALLEEALEEFPDD-ELNAAL 77 (120)
T ss_pred chHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCC-chHHHHHHH-HHHHHHHHcCCHHHHHHHHHHHHHHCCCc-cccHHH
Confidence 45778888899999988888776666542 111 111111222 2456778999999999999874 35542 123444
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
++ ..++.....+++.+|...+..++-
T Consensus 78 ~~--f~Al~L~~~gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 78 RV--FLALALYNLGRPKEALEWLLEALA 103 (120)
T ss_pred HH--HHHHHHHHCCCHHHHHHHHHHHHH
Confidence 43 456777888999999999998884
No 147
>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=57.05 E-value=25 Score=35.26 Aligned_cols=90 Identities=20% Similarity=0.071 Sum_probs=60.4
Q ss_pred chHHHHHHHHHHHHhcCChHHHHHHHhcCC-cCccCChhhHHHHHHHHHHHHHHHh--hHHHHHHHHHHHHHcCCcCchH
Q 012934 165 GQETLLNLLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQL--EYTDAKESLLQAARKAPVAALG 241 (453)
Q Consensus 165 ~~~~l~n~llr~Yl~~~~~~~a~~li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~--dy~~A~~~L~~A~~~~p~~~~~ 241 (453)
+.+-...+...+|++.|++++|.+.+++.+ +. .+-+.+....+-+.+..| +|.+|+..|+..-.++|.+
T Consensus 129 ~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~-----eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t--- 200 (290)
T PF04733_consen 129 GSLELLALAVQILLKMNRPDLAEKELKNMQQID-----EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGST--- 200 (290)
T ss_dssp TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS-----CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--S---
T ss_pred CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCC---
Confidence 334445567789999999999999998753 22 244455566777777765 6999999999977655443
Q ss_pred hHHHHHHHHHhHHHhcCCCCChh
Q 012934 242 FRVQCNKWAIIVRLLLGEIPERT 264 (453)
Q Consensus 242 ~~~~alK~lIlv~LL~G~iP~~~ 264 (453)
..++--+.++.|.+|+.|+..
T Consensus 201 --~~~lng~A~~~l~~~~~~eAe 221 (290)
T PF04733_consen 201 --PKLLNGLAVCHLQLGHYEEAE 221 (290)
T ss_dssp --HHHHHHHHHHHHHCT-HHHHH
T ss_pred --HHHHHHHHHHHHHhCCHHHHH
Confidence 223444566678889988753
No 148
>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=55.83 E-value=1.4e+02 Score=29.53 Aligned_cols=58 Identities=22% Similarity=0.223 Sum_probs=44.9
Q ss_pred HhcCChHHHHHHHhcCCcCc-c---CChhhHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHcC
Q 012934 178 LHYNLYDQAEKLRSKAPRFE-A---HSNQQFCRYLFYLGKIRTIQL-EYTDAKESLLQAARKA 235 (453)
Q Consensus 178 l~~~~~~~a~~li~~~~~p~-~---~~~~~~v~Y~YY~G~i~~~~~-dy~~A~~~L~~A~~~~ 235 (453)
.+.|+++.|..+++++.... . -.....++=+|-.|.=....+ +|.+|..+|++|+.-+
T Consensus 4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l 66 (278)
T PF08631_consen 4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDIL 66 (278)
T ss_pred hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHH
Confidence 46788899999888864211 1 223566777888899888899 9999999999999864
No 149
>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=54.95 E-value=36 Score=25.26 Aligned_cols=33 Identities=15% Similarity=0.244 Sum_probs=30.1
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..++.++||..+|++. ..+..++..|..+|.|.
T Consensus 24 ~~~s~~ela~~~g~s~----~tv~r~l~~L~~~g~i~ 56 (67)
T cd00092 24 LPLTRQEIADYLGLTR----ETVSRTLKELEEEGLIS 56 (67)
T ss_pred CCcCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 4689999999999987 89999999999999995
No 150
>PRK14574 hmsH outer membrane protein; Provisional
Probab=54.83 E-value=3.7e+02 Score=31.18 Aligned_cols=23 Identities=17% Similarity=0.086 Sum_probs=12.9
Q ss_pred hcCCHHHHHHHHHhcchhhccCc
Q 012934 286 RIGDLELFKSVAEKFSSTFSSDR 308 (453)
Q Consensus 286 ~~Gdl~~f~~~l~~~~~~f~~Dg 308 (453)
+.|....-.+.+.+|...|....
T Consensus 215 ~~~~~~~a~~l~~~~p~~f~~~~ 237 (822)
T PRK14574 215 RNRIVEPALRLAKENPNLVSAEH 237 (822)
T ss_pred HcCCcHHHHHHHHhCccccCHHH
Confidence 44555555566666666555443
No 151
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=54.79 E-value=19 Score=24.91 Aligned_cols=32 Identities=16% Similarity=0.320 Sum_probs=29.1
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
.++..++|..++++. ..+-.++..|...|.|.
T Consensus 8 ~~s~~~la~~l~~s~----~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTR----ETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 578899999999987 89999999999999994
No 152
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=53.93 E-value=29 Score=31.50 Aligned_cols=42 Identities=21% Similarity=0.275 Sum_probs=35.5
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCcee---EeeCC
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA---TVDHA 375 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A---~Id~~ 375 (453)
+--.|+|.++||.++|++. ..+-.-+.+|..+|.|.+ .+|+.
T Consensus 24 q~d~R~s~~eiA~~lglS~----~tv~~Ri~rL~~~GvI~~~~~~v~p~ 68 (164)
T PRK11169 24 QKDGRISNVELSKRVGLSP----TPCLERVRRLERQGFIQGYTALLNPH 68 (164)
T ss_pred ccCCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCeEEEEEEECHH
Confidence 3458999999999999998 889999999999999953 45543
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=53.78 E-value=98 Score=32.23 Aligned_cols=35 Identities=11% Similarity=-0.054 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 204 FCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 204 ~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.....+..|..+...+++.+|...+..++.+.|..
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~ 296 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDD 296 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCc
Confidence 46677778889999999999999999999877764
No 154
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=53.63 E-value=35 Score=30.62 Aligned_cols=39 Identities=23% Similarity=0.336 Sum_probs=34.6
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce---eEeeCC
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID---ATVDHA 375 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~---A~Id~~ 375 (453)
.|+|.++||..+|++. ..+-.-+.+|..+|.|. |.+|+.
T Consensus 22 ~R~s~~eiA~~lglS~----~tV~~Ri~rL~~~GvI~~~~~~v~~~ 63 (153)
T PRK11179 22 ARTPYAELAKQFGVSP----GTIHVRVEKMKQAGIITGTRVDVNPK 63 (153)
T ss_pred CCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCeeeEEEEECHH
Confidence 8999999999999998 89999999999999995 445643
No 155
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=53.17 E-value=18 Score=27.95 Aligned_cols=33 Identities=21% Similarity=0.304 Sum_probs=27.5
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
.-|+.+||..+|+.|. ..|-..|..|...|+|.
T Consensus 25 ~Pt~rEIa~~~g~~S~---~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 25 PPTVREIAEALGLKST---STVQRHLKALERKGYIR 57 (65)
T ss_dssp ---HHHHHHHHTSSSH---HHHHHHHHHHHHTTSEE
T ss_pred CCCHHHHHHHhCCCCh---HHHHHHHHHHHHCcCcc
Confidence 3589999999999975 89999999999999883
No 156
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=53.15 E-value=17 Score=31.57 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=36.4
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEE
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMV 380 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~ 380 (453)
..++..+||.+++++. .-+..++..|...|.|.+.-....||.-
T Consensus 24 ~~~s~~eia~~l~is~----~~v~~~l~~L~~~Gli~~~~g~~ggy~l 67 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNA----PTVSKILKQLSLAGIVTSKRGVEGGYTL 67 (130)
T ss_pred CCccHHHHHHHHCcCH----HHHHHHHHHHHHCCcEEecCCCCCChhh
Confidence 4699999999999998 8999999999999999765433455544
No 157
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=53.07 E-value=30 Score=30.49 Aligned_cols=34 Identities=24% Similarity=0.366 Sum_probs=31.3
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
=.++|+++||.++|++. ..+-..+-+|..+|.|.
T Consensus 20 d~r~~~~eia~~lglS~----~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 20 DARISNAELAERVGLSP----STVLRRIKRLEEEGVIK 53 (154)
T ss_pred hCCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCcee
Confidence 46799999999999998 89999999999999994
No 158
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=52.43 E-value=37 Score=24.37 Aligned_cols=38 Identities=13% Similarity=0.268 Sum_probs=32.4
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEee
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVD 373 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id 373 (453)
-..+++.+|+..++++. ..+-..+..|..+|.|...-+
T Consensus 8 ~~~~~~~~i~~~l~is~----~~v~~~l~~L~~~g~i~~~~~ 45 (66)
T smart00418 8 EGELCVCELAEILGLSQ----STVSHHLKKLREAGLVESRRE 45 (66)
T ss_pred cCCccHHHHHHHHCCCH----HHHHHHHHHHHHCCCeeeeec
Confidence 45689999999999887 789999999999999974443
No 159
>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=51.52 E-value=47 Score=24.32 Aligned_cols=33 Identities=12% Similarity=0.326 Sum_probs=28.7
Q ss_pred cccc-HHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRIS-LADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srIs-L~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..++ ..++|..++++. ..+-..+.+|...|.|.
T Consensus 23 ~~~~~~~~la~~~~is~----~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 23 DRLPSERELAEELGVSR----TTVREALRELEAEGLVE 56 (66)
T ss_pred CCCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 3455 999999999986 89999999999999984
No 160
>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=50.80 E-value=67 Score=23.10 Aligned_cols=43 Identities=16% Similarity=0.233 Sum_probs=30.9
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcE
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 378 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~ 378 (453)
.-..|+..++|..++++. ..+...+..+-..| +.-.-.+.+||
T Consensus 12 ~~~~it~~eLa~~l~vS~----rTi~~~i~~L~~~~-~~I~~~~~~GY 54 (55)
T PF08279_consen 12 SKEPITAKELAEELGVSR----RTIRRDIKELREWG-IPIESKRGKGY 54 (55)
T ss_dssp TTTSBEHHHHHHHCTS-H----HHHHHHHHHHHHTT--EEEEETTTEE
T ss_pred cCCCcCHHHHHHHhCCCH----HHHHHHHHHHHHCC-CeEEeeCCCCc
Confidence 334599999999999997 88999999998888 32233344465
No 161
>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=50.74 E-value=23 Score=25.57 Aligned_cols=34 Identities=18% Similarity=0.421 Sum_probs=29.5
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCc
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 368 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I 368 (453)
.-..+++++|+.++|++. ..+-.++..|...|++
T Consensus 15 ~~~~~t~~eia~~~gl~~----stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 15 SGGPLTLSEIARALGLPK----STVHRLLQTLVEEGYV 48 (52)
T ss_dssp TBSCEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred CCCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCcCe
Confidence 335689999999999998 8999999999999988
No 162
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=49.73 E-value=66 Score=36.96 Aligned_cols=62 Identities=23% Similarity=0.102 Sum_probs=48.5
Q ss_pred HHHHHHHhcCChHHHHHHHhcCC-cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 172 LLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 172 ~llr~Yl~~~~~~~a~~li~~~~-~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
-+-+.|...++|+.|-++++... -| ..+..-++|-.|++++..+.|.+|.+++..++...|.
T Consensus 419 d~a~al~~~~~~~~Al~~l~~i~~~~----~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~ 481 (895)
T KOG2076|consen 419 DLADALTNIGKYKEALRLLSPITNRE----GYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD 481 (895)
T ss_pred HHHHHHHhcccHHHHHHHHHHHhcCc----cccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence 34567788889999988877632 22 1222567778999999999999999999999998886
No 163
>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=48.53 E-value=31 Score=30.28 Aligned_cols=47 Identities=15% Similarity=0.364 Sum_probs=38.7
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
.++.++||..++++. ..++.++.+|...|.|...=-...||.-..+.
T Consensus 25 ~~s~~~ia~~~~ip~----~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~ 71 (135)
T TIGR02010 25 PVTLADISERQGISL----SYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPA 71 (135)
T ss_pred cCcHHHHHHHHCcCH----HHHHHHHHHHHHCCceEEEeCCCCCEeccCCH
Confidence 699999999999998 89999999999999997654455676655543
No 164
>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=48.27 E-value=59 Score=24.42 Aligned_cols=41 Identities=15% Similarity=0.294 Sum_probs=32.3
Q ss_pred ccc-cHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEE
Q 012934 333 SRI-SLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWM 379 (453)
Q Consensus 333 srI-sL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v 379 (453)
+++ +..++|..++++. ..+...+..|..+|.|. ..+.+|+.
T Consensus 22 ~~lps~~~la~~~~vsr----~tvr~al~~L~~~g~i~--~~~~~G~~ 63 (64)
T PF00392_consen 22 DRLPSERELAERYGVSR----TTVREALRRLEAEGLIE--RRPGRGTF 63 (64)
T ss_dssp SBE--HHHHHHHHTS-H----HHHHHHHHHHHHTTSEE--EETTTEEE
T ss_pred CEeCCHHHHHHHhccCC----cHHHHHHHHHHHCCcEE--EECCceEE
Confidence 789 9999999999998 78889999999999994 44445653
No 165
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=48.18 E-value=66 Score=33.09 Aligned_cols=58 Identities=12% Similarity=0.007 Sum_probs=45.7
Q ss_pred HHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..++..++|+.|..+..... .|. ...+++..|.++...++|.+|...+..|+...|..
T Consensus 10 ~~a~~~~~~~~Ai~~~~~Al~~~P~------~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~ 69 (356)
T PLN03088 10 KEAFVDDDFALAVDLYTQAIDLDPN------NAELYADRAQANIKLGNFTEAVADANKAIELDPSL 69 (356)
T ss_pred HHHHHcCCHHHHHHHHHHHHHhCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence 46678889998888777642 232 24577889999999999999999999999977754
No 166
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=47.96 E-value=1.3e+02 Score=29.17 Aligned_cols=61 Identities=13% Similarity=-0.056 Sum_probs=47.0
Q ss_pred HHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 175 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 175 r~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..++..|+|+.|...++.. ..|.+ +....+ .|.+|..+...++|.+|..+++..++..|..
T Consensus 40 ~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a--~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~ 102 (243)
T PRK10866 40 QQKLQDGNWKQAITQLEALDNRYPFG-PYSQQV--QLDLIYAYYKNADLPLAQAAIDRFIRLNPTH 102 (243)
T ss_pred HHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHhCcCC
Confidence 4567789999998877764 35543 333334 5688999999999999999999999988874
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=47.41 E-value=4.3e+02 Score=29.22 Aligned_cols=152 Identities=16% Similarity=0.041 Sum_probs=93.6
Q ss_pred CCCCCHHHHHHHHHHHHHHh-cccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 012934 76 KHPLPELEIYCYLLVLIFLI-DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALH 154 (453)
Q Consensus 76 ~~~~p~~e~~~~ll~~~~l~-d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~ 154 (453)
....|+.|+.+++=..--++ .+.++++|.....+.+...++ ..++-+.-.+.+..+++++..+.-. +.+.+-++.
T Consensus 51 ~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~---~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I 126 (608)
T PF10345_consen 51 FKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCER---HRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAI 126 (608)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc---cchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHH
Confidence 35688999988765544444 788999998887766655544 2222222233455566666666544 555555554
Q ss_pred HHhhh-ccCccchHHHHHHH-HHHHHhcCChHHHHHHHhcC-CcCc-cCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 012934 155 RIATL-RHDELGQETLLNLL-LRNYLHYNLYDQAEKLRSKA-PRFE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQ 230 (453)
Q Consensus 155 rta~~-~~~~~~~~~l~n~l-lr~Yl~~~~~~~a~~li~~~-~~p~-~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~ 230 (453)
..+.. .|..|.-.+ ..+ +..++..+++..|-..+... ..+. .-++.-.+.+.++.|.++...+...++.+.+..
T Consensus 127 ~~~~~~~~~~w~~~f--rll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~ 204 (608)
T PF10345_consen 127 EDSETYGHSAWYYAF--RLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQR 204 (608)
T ss_pred HHHhccCchhHHHHH--HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Confidence 43322 233333322 111 23344457888777776653 3443 355677888999999999999888888888887
Q ss_pred HHH
Q 012934 231 AAR 233 (453)
Q Consensus 231 A~~ 233 (453)
|..
T Consensus 205 ~~~ 207 (608)
T PF10345_consen 205 AIA 207 (608)
T ss_pred HHH
Confidence 743
No 168
>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=47.30 E-value=27 Score=30.11 Aligned_cols=45 Identities=16% Similarity=0.375 Sum_probs=36.3
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEec
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSK 382 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~ 382 (453)
.++.++||..++++. ..+..++..|...|.|...-....||.--.
T Consensus 25 ~~s~~eia~~~~i~~----~~v~~il~~L~~~gli~~~~g~~ggy~l~~ 69 (132)
T TIGR00738 25 PVSVKEIAERQGISR----SYLEKILRTLRRAGLVESVRGPGGGYRLAR 69 (132)
T ss_pred cCcHHHHHHHHCcCH----HHHHHHHHHHHHCCcEEeccCCCCCccCCC
Confidence 799999999999997 899999999999999965434444655433
No 169
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=47.25 E-value=3.6e+02 Score=29.18 Aligned_cols=137 Identities=16% Similarity=0.165 Sum_probs=87.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChh-hhhhh--hh-h-hhhhhHH
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERT-VFMQK--GM-E-KALRPYF 279 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~-ll~~~--~l-~-~~l~~Y~ 279 (453)
|.-|---+||.+-.||..+--+|..+..........+...+..-|-||--+++..-|+.- ++..- .. + ..+..=.
T Consensus 348 veVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~~~EF~AYriLY~i~tkN~~di~sll~~lt~E~ked~~V~hAL 427 (540)
T KOG1861|consen 348 VEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGAYLEFTAYRILYYIFTKNYPDILSLLRDLTEEDKEDEAVAHAL 427 (540)
T ss_pred eeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCchhhHHHHHHHHHHHhcCchHHHHHHHhccHhhccCHHHHHHH
Confidence 444555689999999988888887776654422334457777777788777775555432 22110 11 1 2233446
Q ss_pred HHHHHHhcCCHHHHHHHHHhcchhhccCccH--HHHHHHHHHHHHHHHHHHHhhcc-cccHHHHHHHhCCCC
Q 012934 280 ELTNAVRIGDLELFKSVAEKFSSTFSSDRTN--NLIVRLRHNVIRTGLRNISISYS-RISLADVAKKLRLDS 348 (453)
Q Consensus 280 ~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~--~Lv~rLr~~vir~~irki~~~Ys-rIsL~dIa~~L~l~~ 348 (453)
++-.|+..||...|=..- ..-.++ -|+..-...-.+..++.|+++|- +|++.-|+.-|.+++
T Consensus 428 ~vR~A~~~GNY~kFFrLY-------~~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~ 492 (540)
T KOG1861|consen 428 EVRSAVTLGNYHKFFRLY-------LTAPNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDS 492 (540)
T ss_pred HHHHHHHhccHHHHHHHH-------hhcccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhch
Confidence 788899999987775442 222222 23444444445667888999997 999999999888776
No 170
>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=46.68 E-value=42 Score=29.38 Aligned_cols=42 Identities=21% Similarity=0.187 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhH
Q 012934 210 YLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIV 253 (453)
Q Consensus 210 Y~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv 253 (453)
.+|.-.+.+|++.+|..||..|+.=||+ .+..+.+|+.-+|-
T Consensus 68 ~lGE~L~~~G~~~~aa~hf~nAl~V~~q--P~~LL~i~q~tlP~ 109 (121)
T PF02064_consen 68 QLGEQLLAQGDYEEAAEHFYNALKVCPQ--PAELLQIYQKTLPP 109 (121)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHTSSS--HHHHHHHHHHHS-H
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHhCCC--HHHHHHHHHhhCCH
Confidence 4788888999999999999999998886 34556666665543
No 171
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=45.41 E-value=55 Score=27.04 Aligned_cols=34 Identities=35% Similarity=0.504 Sum_probs=31.5
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..++|.++||..+|++. ..+-..+.+|..+|.|.
T Consensus 15 ~~~~~~~~la~~l~~s~----~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 15 DARISLAELAKKVGLSP----STVHNRVKRLEEEGVIK 48 (108)
T ss_pred hCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCee
Confidence 36899999999999998 89999999999999986
No 172
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=45.40 E-value=3.4e+02 Score=28.61 Aligned_cols=62 Identities=23% Similarity=0.282 Sum_probs=45.1
Q ss_pred HHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+--.|++.+.|..|..-.++.-- .-+++ +.=+|=.|+.++..++|..|...|..|+..-|..
T Consensus 263 lA~c~lKl~~~~~Ai~~c~kvLe--~~~~N--~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~N 324 (397)
T KOG0543|consen 263 LAACYLKLKEYKEAIESCNKVLE--LDPNN--VKALYRRGQALLALGEYDLARDDFQKALKLEPSN 324 (397)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHh--cCCCc--hhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCc
Confidence 44588999999987765554310 01112 2335678999999999999999999999977763
No 173
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=45.21 E-value=1.9e+02 Score=28.08 Aligned_cols=124 Identities=13% Similarity=0.171 Sum_probs=79.7
Q ss_pred hhhhHHHHHHHHhcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHhCCCCCCChH
Q 012934 274 ALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVA 353 (453)
Q Consensus 274 ~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~~L~l~~~~d~~ 353 (453)
.-..|..+...|..|++..+...... |-+-.... +.+|++.-+-+ +...-..|+...+-..+..++ +-
T Consensus 58 ~dsa~lrlL~lFa~Gt~~Dy~aea~r----lp~Ls~~q-~~kLk~ltV~s----las~~k~lpy~~Ll~~l~~~n---vr 125 (258)
T KOG3250|consen 58 IDSAYLRLLELFAYGTYRDYSAEALR----LPKLSLAQ-LNKLKHLTVVS----LASFEKCLPYLVLLRLLPSRN---VR 125 (258)
T ss_pred ccHHHHHHHHHHhcCchhhhhhhhhc----CCCCCHHH-HHhhhcceehh----hhhhchhhhHHHHHhhccCCc---hh
Confidence 34579999999999998877654322 22211111 22233221111 111124566666666666655 58
Q ss_pred HHHHHHHHhHHcCCceeEeeCCCcEEEeccc--ccccC--CccccHHHHHHHHHHHHHHH
Q 012934 354 DAESIVSKAIRDGAIDATVDHANGWMVSKET--GDIYS--TNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 354 eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~--~~v~s--~~ep~~~l~~rI~~~l~l~~ 409 (453)
++|.+|..+...|.+.|+||+.+..+..... .+.-+ -.+..-.++.++..|-.+--
T Consensus 126 elEd~iieamya~IlrGkldqr~q~leV~faigRdlr~k~i~nm~~TL~~w~~~cenvL~ 185 (258)
T KOG3250|consen 126 ELEDLIIEAMYADILRGKLDQRNQTLEVDFAIGRDLRSKDIDNMKYTLDEWCEGCENVLF 185 (258)
T ss_pred HHHHHHHHHHHHHHHHhhHHhhcceEeechhhcccccHhHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998877642 22222 23666789999999877665
No 174
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.85 E-value=3.3e+02 Score=27.16 Aligned_cols=26 Identities=31% Similarity=0.295 Sum_probs=20.9
Q ss_pred hhhhHHHHHHHHhcCCHHHHHHHHHh
Q 012934 274 ALRPYFELTNAVRIGDLELFKSVAEK 299 (453)
Q Consensus 274 ~l~~Y~~L~~Av~~Gdl~~f~~~l~~ 299 (453)
.+..-..|..++..||.+.+..++..
T Consensus 227 d~r~lenLL~ayd~gD~E~~~kvl~s 252 (308)
T KOG1585|consen 227 DSRSLENLLTAYDEGDIEEIKKVLSS 252 (308)
T ss_pred HHHHHHHHHHHhccCCHHHHHHHHcC
Confidence 34456778999999999999998873
No 175
>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=44.80 E-value=30 Score=22.99 Aligned_cols=30 Identities=30% Similarity=0.416 Sum_probs=24.5
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCc
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 368 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I 368 (453)
++-.|||..+|+.. +-|-.++.++-.+|.|
T Consensus 3 mtr~diA~~lG~t~----ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 3 MTRQDIADYLGLTR----ETVSRILKKLERQGLI 32 (32)
T ss_dssp --HHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred cCHHHHHHHhCCcH----HHHHHHHHHHHHcCCC
Confidence 56689999999997 8999999999999976
No 176
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.48 E-value=48 Score=32.45 Aligned_cols=48 Identities=15% Similarity=0.318 Sum_probs=42.2
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
-..++|.|+|...||-+ +++-.-+..++.+|.|.|.||....||..+.
T Consensus 212 nKvV~ledLas~f~Lrt----qd~inriq~~l~eg~ltGVmDDRGKfIYIS~ 259 (299)
T KOG3054|consen 212 NKVVPLEDLASEFGLRT----QDSINRIQELLAEGLLTGVMDDRGKFIYISM 259 (299)
T ss_pred cCeeeHHHHHHHhCccH----HHHHHHHHHHHHhhhheeeecCCCceEEecH
Confidence 46789999999999998 8888899999999999999998777776653
No 177
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=44.08 E-value=2.4e+02 Score=25.35 Aligned_cols=30 Identities=23% Similarity=0.139 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhh---------------HHHHHHHHHHHHHcCCcC
Q 012934 209 FYLGKIRTIQLE---------------YTDAKESLLQAARKAPVA 238 (453)
Q Consensus 209 YY~G~i~~~~~d---------------y~~A~~~L~~A~~~~p~~ 238 (453)
|..|..+..+.+ ...|+..|...++..|.+
T Consensus 88 Y~~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S 132 (142)
T PF13512_consen 88 YMRGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYPNS 132 (142)
T ss_pred HHHHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCcCC
Confidence 345766666655 788889999999888864
No 178
>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=43.82 E-value=1e+02 Score=22.64 Aligned_cols=36 Identities=14% Similarity=0.348 Sum_probs=31.9
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeC
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDH 374 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~ 374 (453)
++.++|+..++++. ..+-..+..|...|.|...-+.
T Consensus 21 ~~~~ei~~~~~i~~----~~i~~~l~~L~~~g~i~~~~~~ 56 (78)
T cd00090 21 LTVSELAERLGLSQ----STVSRHLKKLEEAGLVESRREG 56 (78)
T ss_pred cCHHHHHHHHCcCH----hHHHHHHHHHHHCCCeEEEEec
Confidence 99999999999986 7899999999999999776554
No 179
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=43.27 E-value=71 Score=22.09 Aligned_cols=33 Identities=15% Similarity=0.285 Sum_probs=29.8
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..++..+++..++++. ..+...+..|...|.|.
T Consensus 13 ~~~s~~~l~~~l~~s~----~tv~~~l~~L~~~g~i~ 45 (53)
T smart00420 13 GKVSVEELAELLGVSE----MTIRRDLNKLEEQGLLT 45 (53)
T ss_pred CCcCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 4689999999999987 89999999999999985
No 180
>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=41.88 E-value=74 Score=24.00 Aligned_cols=33 Identities=12% Similarity=0.320 Sum_probs=28.9
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCc
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 368 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I 368 (453)
-..++..+||+.|+++. ..|=.++.+|-.+|.|
T Consensus 20 ~~~v~~~~iA~~L~vs~----~tvt~ml~~L~~~GlV 52 (60)
T PF01325_consen 20 GGPVRTKDIAERLGVSP----PTVTEMLKRLAEKGLV 52 (60)
T ss_dssp TSSBBHHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred CCCccHHHHHHHHCCCh----HHHHHHHHHHHHCCCE
Confidence 47899999999999997 7888899999999888
No 181
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=41.45 E-value=60 Score=23.20 Aligned_cols=33 Identities=15% Similarity=0.332 Sum_probs=29.5
Q ss_pred ccc-cHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRI-SLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srI-sL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
.++ |..++|..++++. ..+...+..|..+|.|.
T Consensus 18 ~~l~s~~~la~~~~vs~----~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 18 DKLPSERELAAQLGVSR----TTVREALSRLEAEGLVQ 51 (60)
T ss_pred CcCcCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE
Confidence 467 8999999999987 89999999999999984
No 182
>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=41.36 E-value=1.1e+02 Score=25.23 Aligned_cols=46 Identities=13% Similarity=0.096 Sum_probs=37.4
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
...++-++||..+|++. +.|-..|..|..+|.|. .....|.++...
T Consensus 45 ~~~is~~eLa~~~g~sr----~tVsr~L~~Le~~GlI~--r~~~~~~~~~n~ 90 (95)
T TIGR01610 45 QDRVTATVIAELTGLSR----THVSDAIKSLARRRIIF--RQGMMGIVGVNT 90 (95)
T ss_pred CCccCHHHHHHHHCcCH----HHHHHHHHHHHHCCCee--eecCCceeecCC
Confidence 46788899999999998 88999999999999995 344457666553
No 183
>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=40.97 E-value=35 Score=20.90 Aligned_cols=23 Identities=17% Similarity=0.028 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHH
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLL 229 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~ 229 (453)
..+.+|+.+..+|++.+|...+.
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 46778999999999999988764
No 184
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=40.19 E-value=41 Score=30.87 Aligned_cols=48 Identities=17% Similarity=0.425 Sum_probs=40.6
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
..++.++||..++++. .-++.++.+|-..|.|...=-...||.--.+.
T Consensus 24 ~~vs~~eIA~~~~ip~----~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~p 71 (164)
T PRK10857 24 GPVPLADISERQGISL----SYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDA 71 (164)
T ss_pred CcCcHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEeCCCCCCCeeccCCH
Confidence 4699999999999998 89999999999999998755666787765544
No 185
>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=39.77 E-value=1.2e+02 Score=32.49 Aligned_cols=84 Identities=17% Similarity=0.217 Sum_probs=51.4
Q ss_pred HHHHHHHhc----CChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHH
Q 012934 172 LLLRNYLHY----NLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQ 245 (453)
Q Consensus 172 ~llr~Yl~~----~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~ 245 (453)
..+..++.. ...+.|..++... .+|+ -+-|.++.||++..+++..+|.+.|+.|+. +...-..+...
T Consensus 234 ~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~------s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~-~q~~~~Ql~~l 306 (468)
T PF10300_consen 234 LVVPSFLGIDGEDVPLEEAEELLEEMLKRYPN------SALFLFFEGRLERLKGNLEEAIESFERAIE-SQSEWKQLHHL 306 (468)
T ss_pred HHHHHHcCCcccCCCHHHHHHHHHHHHHhCCC------cHHHHHHHHHHHHHhcCHHHHHHHHHHhcc-chhhHHhHHHH
Confidence 445555543 4667888888764 3563 456888899999999999999999998885 22111222222
Q ss_pred HHHHHHhHHHhcCCCCC
Q 012934 246 CNKWAIIVRLLLGEIPE 262 (453)
Q Consensus 246 alK~lIlv~LL~G~iP~ 262 (453)
++-=+..+.+++++...
T Consensus 307 ~~~El~w~~~~~~~w~~ 323 (468)
T PF10300_consen 307 CYFELAWCHMFQHDWEE 323 (468)
T ss_pred HHHHHHHHHHHHchHHH
Confidence 22224444555666543
No 186
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=39.74 E-value=59 Score=24.96 Aligned_cols=34 Identities=18% Similarity=0.303 Sum_probs=29.6
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..-++-.|||..+|++. -.|..++..|-.+|.|.
T Consensus 13 ~~p~~T~eiA~~~gls~----~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLSI----YQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS-H----HHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCCH----HHHHHHHHHHHHCCCEE
Confidence 66789999999999997 89999999999999994
No 187
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=39.21 E-value=40 Score=33.02 Aligned_cols=49 Identities=18% Similarity=0.338 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhhc-ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 317 RHNVIRTGLRNISISY-SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 317 r~~vir~~irki~~~Y-srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
+.+..|.+|......| -++..++||.++|+.. +-+-.++-+||.+|.|+
T Consensus 7 kk~~t~fqIL~ei~~~qp~v~q~eIA~~lgiT~----QaVsehiK~Lv~eG~i~ 56 (260)
T COG1497 7 KKNLTRFQILSEIAVRQPRVKQKEIAKKLGITL----QAVSEHIKELVKEGLIE 56 (260)
T ss_pred cccchHHHHHHHHHHhCCCCCHHHHHHHcCCCH----HHHHHHHHHHHhcccee
Confidence 3445566665544455 7999999999999886 88999999999999995
No 188
>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=38.16 E-value=80 Score=23.49 Aligned_cols=40 Identities=20% Similarity=0.346 Sum_probs=30.2
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEee
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVD 373 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id 373 (453)
.....++..+|+..++++. ..+-..|.+|+..|.|.=.-|
T Consensus 14 ~~~~~~t~~~l~~~~~~~~----~~vs~~i~~L~~~glv~~~~~ 53 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISK----STVSRIIKKLEEKGLVEKERD 53 (68)
T ss_dssp --TS-BEHHHHHHHTT--H----HHHHHHHHHHHHTTSEEEEEE
T ss_pred ccCCCcCHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEecCC
Confidence 3457899999999999997 889999999999999954433
No 189
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=37.98 E-value=4.8e+02 Score=27.01 Aligned_cols=85 Identities=16% Similarity=0.001 Sum_probs=45.9
Q ss_pred HhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHH
Q 012934 138 ELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIR 215 (453)
Q Consensus 138 e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~ 215 (453)
...|+...+...+..+.+.. +.......-...+.|+..|++++|...+++.. .|++ ....+..+.+|
T Consensus 129 ~~~g~~~~A~~~l~~A~~~~-----~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~------~~al~ll~~~~ 197 (398)
T PRK10747 129 QQRGDEARANQHLERAAELA-----DNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRH------PEVLRLAEQAY 197 (398)
T ss_pred HHCCCHHHHHHHHHHHHhcC-----CcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC------HHHHHHHHHHH
Confidence 34556666665555553211 11111111122467777777777777666531 2322 13345567777
Q ss_pred HHHhhHHHHHHHHHHHHH
Q 012934 216 TIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 216 ~~~~dy~~A~~~L~~A~~ 233 (453)
...++|.+|.+.|.....
T Consensus 198 ~~~gdw~~a~~~l~~l~k 215 (398)
T PRK10747 198 IRTGAWSSLLDILPSMAK 215 (398)
T ss_pred HHHHhHHHHHHHHHHHHH
Confidence 777777777776666654
No 190
>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]
Probab=36.45 E-value=4.3e+02 Score=26.01 Aligned_cols=126 Identities=21% Similarity=0.170 Sum_probs=73.1
Q ss_pred hHHHHHHHHHHHHhcCChHHHHHHHhcC-Cc-Cc-cCChhhHHHHHHHHHHHHHHHhhHHHHHH----------HHHHH-
Q 012934 166 QETLLNLLLRNYLHYNLYDQAEKLRSKA-PR-FE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKE----------SLLQA- 231 (453)
Q Consensus 166 ~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~-p~-~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~----------~L~~A- 231 (453)
+..+.|.+=-.+...++|+.|-..++.+ +. |. .+..--...=+||+||....+.|+..-++ +|...
T Consensus 98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E 177 (297)
T COG4785 98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNE 177 (297)
T ss_pred cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHH
Confidence 3344565544556889999999887764 22 22 12222233447899999999888765442 11111
Q ss_pred HHcCCcCchHhHHHHHHH-------HHhHHHhcCCCCChhhhhhhh--------h-hhhhhhHHHHHHHH-hcCCHH
Q 012934 232 ARKAPVAALGFRVQCNKW-------AIIVRLLLGEIPERTVFMQKG--------M-EKALRPYFELTNAV-RIGDLE 291 (453)
Q Consensus 232 ~~~~p~~~~~~~~~alK~-------lIlv~LL~G~iP~~~ll~~~~--------l-~~~l~~Y~~L~~Av-~~Gdl~ 291 (453)
-..-|+.+..+..+-++. +.+|+..+|++....++..-. + +.....|+.|.+-. ..|++.
T Consensus 178 ~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~ 254 (297)
T COG4785 178 QKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISEETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGDLD 254 (297)
T ss_pred hhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccccHH
Confidence 111233444444443332 789999999999877665321 1 12345677777765 446654
No 191
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=36.10 E-value=81 Score=30.45 Aligned_cols=46 Identities=9% Similarity=0.175 Sum_probs=38.0
Q ss_pred HHHHHHHhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEe
Q 012934 323 TGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATV 372 (453)
Q Consensus 323 ~~irki~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~I 372 (453)
..|..+-+--..+|..++|..||++. .-|-..+-+++.+|.+....
T Consensus 14 ~~il~lL~~~g~~sa~elA~~Lgis~----~avR~HL~~Le~~Glv~~~~ 59 (218)
T COG2345 14 ERILELLKKSGPVSADELAEELGISP----MAVRRHLDDLEAEGLVEVER 59 (218)
T ss_pred HHHHHHHhccCCccHHHHHHHhCCCH----HHHHHHHHHHHhCcceeeee
Confidence 33444444467899999999999998 89999999999999998873
No 192
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=36.10 E-value=4.3e+02 Score=25.99 Aligned_cols=66 Identities=14% Similarity=0.263 Sum_probs=41.7
Q ss_pred ccHHHHHHHHHHHHHHHHHHH-HhhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 308 RTNNLIVRLRHNVIRTGLRNI-SISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 308 g~~~Lv~rLr~~vir~~irki-~~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
..|.-...+....+|.-|-.. -++|..||+++.+..|.++++ ++.+....+ +.-. ++ ++|+..+..
T Consensus 165 ~~y~~FmdIl~~tiRdEIA~c~EKsYd~l~~s~a~~~L~f~~~---~e~~~~~~~----r~W~--l~-~~~~~~~~~ 231 (260)
T KOG3151|consen 165 EEYTYFMDILLDTIRDEIAGCIEKSYDKLSASDATQMLLFNND---KELKKFATE----RQWP--LD-EKGVFSFAS 231 (260)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHhcCCh---HHHHHHHHh----cCCc--cc-ccccccchh
Confidence 444444455555566666544 468999999999999999985 665554432 3332 22 466666554
No 193
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=35.81 E-value=87 Score=28.22 Aligned_cols=39 Identities=15% Similarity=0.135 Sum_probs=33.7
Q ss_pred CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 199 HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 199 ~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.++...-.|.||++.=+.-.++|+.|.++....+++=|+
T Consensus 65 ~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~ 103 (149)
T KOG3364|consen 65 AHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPN 103 (149)
T ss_pred cCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCC
Confidence 456677889999999999999999999999999986554
No 194
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=35.20 E-value=57 Score=34.12 Aligned_cols=32 Identities=25% Similarity=0.257 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
--++++|+.+..++.|.+|..+|..|+..-|+
T Consensus 329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s 360 (400)
T COG3071 329 LLLSTLGRLALKNKLWGKASEALEAALKLRPS 360 (400)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC
Confidence 57889999999999999999999999975554
No 195
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=35.18 E-value=3.6e+02 Score=24.78 Aligned_cols=63 Identities=14% Similarity=0.078 Sum_probs=48.4
Q ss_pred HHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 173 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+...|.+.|.++.|.+...++ .....++.+.+..+...-++.+..+||..+..++..|-. .+.
T Consensus 42 l~~~~~~~Gd~~~A~k~y~~~-~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~-~~~ 104 (177)
T PF10602_consen 42 LADHYCKIGDLEEALKAYSRA-RDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES-LIE 104 (177)
T ss_pred HHHHHHHhhhHHHHHHHHHHH-hhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH-HHh
Confidence 456788888888888776663 222467788888888999999999999999999888875 443
No 196
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=34.11 E-value=62 Score=29.20 Aligned_cols=49 Identities=8% Similarity=0.180 Sum_probs=41.5
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccc
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 385 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~ 385 (453)
..++.++||...+++. .-++.+++.|.+.|.|...==...||.--+++.
T Consensus 23 ~~~s~~eIA~~~~is~----~~L~kIl~~L~~aGlv~S~rG~~GGy~La~~p~ 71 (153)
T PRK11920 23 KLSRIPEIARAYGVSE----LFLFKILQPLVEAGLVETVRGRNGGVRLGRPAA 71 (153)
T ss_pred CcCcHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEeecCCCCCeeecCCHH
Confidence 3589999999999998 899999999999999987776667877666543
No 197
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.48 E-value=6.8e+02 Score=27.45 Aligned_cols=65 Identities=22% Similarity=0.256 Sum_probs=46.8
Q ss_pred HHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHH
Q 012934 176 NYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQC 246 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~a 246 (453)
.|...++-..--+.+.+.. -|++.+ -||-.|.+++...+|.+|...|+.|++-.|...-.+.+.+
T Consensus 369 ~y~d~~~~~~~~~~F~~A~~ldp~n~d------vYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~ 435 (606)
T KOG0547|consen 369 AYADENQSEKMWKDFNKAEDLDPENPD------VYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLC 435 (606)
T ss_pred HHhhhhccHHHHHHHHHHHhcCCCCCc------hhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHH
Confidence 5667776666666665542 344433 3677999999999999999999999998787655544443
No 198
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.44 E-value=4.4e+02 Score=25.25 Aligned_cols=85 Identities=15% Similarity=0.062 Sum_probs=61.0
Q ss_pred cCHHHHHHHHHHHHHHhhhccCccchHHHHH-HHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHh
Q 012934 141 GDLAEIRGNLLALHRIATLRHDELGQETLLN-LLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQL 219 (453)
Q Consensus 141 ~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n-~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~ 219 (453)
+++.++...|-..+- ......--.+++ .|-|.-+..+.+|.|.+.++... ..+...++.-..|-+++..|
T Consensus 103 ~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-----~~~w~~~~~elrGDill~kg 173 (207)
T COG2976 103 NNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-----EESWAAIVAELRGDILLAKG 173 (207)
T ss_pred ccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-----cccHHHHHHHHhhhHHHHcC
Confidence 455555555544431 111122223444 58899999999999999998753 33566778889999999999
Q ss_pred hHHHHHHHHHHHHHc
Q 012934 220 EYTDAKESLLQAARK 234 (453)
Q Consensus 220 dy~~A~~~L~~A~~~ 234 (453)
|=.+|...|..|+..
T Consensus 174 ~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 174 DKQEARAAYEKALES 188 (207)
T ss_pred chHHHHHHHHHHHHc
Confidence 999999999999974
No 199
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.35 E-value=1.5e+02 Score=29.37 Aligned_cols=64 Identities=23% Similarity=0.280 Sum_probs=46.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHhc-C-CcCcc--CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 169 LLNLLLRNYLHYNLYDQAEKLRSK-A-PRFEA--HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 169 l~n~llr~Yl~~~~~~~a~~li~~-~-~~p~~--~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
+.|.-+..| +.|.|..|..-+.+ . .+|.+ .++ =+|.+|..+..+++|.+|...|..+.+..|.+
T Consensus 144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~n-----A~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s 211 (262)
T COG1729 144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPN-----AYYWLGESLYAQGDYEDAAYIFARVVKDYPKS 211 (262)
T ss_pred HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccch-----hHHHHHHHHHhcccchHHHHHHHHHHHhCCCC
Confidence 445455444 55669988875554 2 36653 222 35889999999999999999999999988874
No 200
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=32.45 E-value=2.2e+02 Score=30.33 Aligned_cols=84 Identities=21% Similarity=0.174 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhcc
Q 012934 82 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRH 161 (453)
Q Consensus 82 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~ 161 (453)
.-..+.-+.+--++.++.|+.|-++..+++ .....++ ...|+..||.+++.-....-.+|...++.|.|.|+. |
T Consensus 207 ~qavLiN~LLr~yL~n~lydqa~~lvsK~~----~pe~~sn-ne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq-~ 280 (493)
T KOG2581|consen 207 GQAVLINLLLRNYLHNKLYDQADKLVSKSV----YPEAASN-NEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQ-H 280 (493)
T ss_pred hHHHHHHHHHHHHhhhHHHHHHHHHhhccc----Ccccccc-HHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcc-h
Confidence 334444455555666777877755544332 2211122 255777889999998888889999999999999876 6
Q ss_pred CccchHHHHH
Q 012934 162 DELGQETLLN 171 (453)
Q Consensus 162 ~~~~~~~l~n 171 (453)
...|..--.|
T Consensus 281 ~alGf~q~v~ 290 (493)
T KOG2581|consen 281 AALGFRQQVN 290 (493)
T ss_pred hhhhHHHHHH
Confidence 6666544444
No 201
>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=32.40 E-value=1.6e+02 Score=21.79 Aligned_cols=36 Identities=17% Similarity=0.306 Sum_probs=31.7
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
......+..+|+..++++. ..+-+.+..|..-|.|.
T Consensus 20 ~~~~~~t~~ela~~l~~~~----~t~s~hL~~L~~aGli~ 55 (61)
T PF12840_consen 20 ASNGPMTVSELAEELGISQ----STVSYHLKKLEEAGLIE 55 (61)
T ss_dssp HHCSTBEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEE
T ss_pred hcCCCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCeE
Confidence 4578999999999999997 88999999999999985
No 202
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=32.13 E-value=67 Score=28.30 Aligned_cols=48 Identities=17% Similarity=0.257 Sum_probs=40.2
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
..+|.++||+.++++. .-++.++..+-..|.|..+=-...||......
T Consensus 24 ~~~s~~~ia~~~~is~----~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~ 71 (141)
T PRK11014 24 RMTSISEVTEVYGVSR----NHMVKIINQLSRAGYVTAVRGKNGGIRLGKPA 71 (141)
T ss_pred CccCHHHHHHHHCcCH----HHHHHHHHHHHhCCEEEEecCCCCCeeecCCH
Confidence 4689999999999998 89999999999999997776666687665543
No 203
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=31.98 E-value=1.2e+02 Score=22.60 Aligned_cols=39 Identities=18% Similarity=0.319 Sum_probs=30.6
Q ss_pred HHHHHHhcCCHHHHHHHHHhcchhhccCccH-HHHHHHHH
Q 012934 280 ELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRH 318 (453)
Q Consensus 280 ~L~~Av~~Gdl~~f~~~l~~~~~~f~~Dg~~-~Lv~rLr~ 318 (453)
.|-+|+.+|||.....++..-+..+...|.. ..++.|..
T Consensus 6 aiq~AiasGDLa~MK~l~~~aeq~L~~~~~i~~al~~Lk~ 45 (53)
T PF08898_consen 6 AIQQAIASGDLAQMKALAAQAEQQLAEAGDIAAALEKLKA 45 (53)
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence 6788999999999999999888887776665 44555544
No 204
>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=31.96 E-value=1.7e+02 Score=22.06 Aligned_cols=37 Identities=8% Similarity=0.195 Sum_probs=32.7
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeE
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDAT 371 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~ 371 (453)
.....+..+||..++++. ..|-.+|.+|...|.|.-.
T Consensus 19 ~~~~~t~~eIa~~l~i~~----~~v~~~L~~L~~~GlV~~~ 55 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISR----STVYRALKSLEEKGLVERE 55 (68)
T ss_dssp HHCHEEHHHHHHHHTSSH----HHHHHHHHHHHHTTSEEEE
T ss_pred HcCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEEE
Confidence 357789999999999998 8999999999999999543
No 205
>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=30.82 E-value=66 Score=24.62 Aligned_cols=42 Identities=17% Similarity=0.361 Sum_probs=33.9
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecc
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 383 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~ 383 (453)
.++-.+||..+|++. +.+-.++..|..+|.|. + .+|.+...+
T Consensus 28 ~lt~~~iA~~~g~sr----~tv~r~l~~l~~~g~I~--~--~~~~i~I~d 69 (76)
T PF13545_consen 28 PLTQEEIADMLGVSR----ETVSRILKRLKDEGIIE--V--KRGKIIILD 69 (76)
T ss_dssp ESSHHHHHHHHTSCH----HHHHHHHHHHHHTTSEE--E--ETTEEEESS
T ss_pred cCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE--E--cCCEEEECC
Confidence 578899999999998 89999999999999985 2 245555543
No 206
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=30.71 E-value=42 Score=35.89 Aligned_cols=121 Identities=18% Similarity=0.181 Sum_probs=74.5
Q ss_pred HHHHHHhcCChHHHHH----HHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHH
Q 012934 173 LLRNYLHYNLYDQAEK----LRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK 248 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~----li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK 248 (453)
|..-|-....+..|.+ ++++--||.. -. ..--.|-||+.+.+|++|..++..|+...|+.....++.++.
T Consensus 207 laqqy~~ndm~~ealntyeiivknkmf~na----g~--lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ 280 (840)
T KOG2003|consen 207 LAQQYEANDMTAEALNTYEIIVKNKMFPNA----GI--LKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILN 280 (840)
T ss_pred HHHHhhhhHHHHHHhhhhhhhhcccccCCC----ce--eeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHh
Confidence 4455555555566555 3333345542 11 112468899999999999999999999888866555555554
Q ss_pred HHHhHHHh-cCCCCCh-hhhhhhh-hhh-hhhhHHHHHHHHhcCCHHHHHHHHHhc
Q 012934 249 WAIIVRLL-LGEIPER-TVFMQKG-MEK-ALRPYFELTNAVRIGDLELFKSVAEKF 300 (453)
Q Consensus 249 ~lIlv~LL-~G~iP~~-~ll~~~~-l~~-~l~~Y~~L~~Av~~Gdl~~f~~~l~~~ 300 (453)
. |-|..+ +|..... +.|.+.. ..+ ....|.-++-+|..||-++..++..+.
T Consensus 281 n-igvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kl 335 (840)
T KOG2003|consen 281 N-IGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKL 335 (840)
T ss_pred h-cCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHH
Confidence 3 333333 5775432 2222211 112 234566777889999998888877764
No 207
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=30.55 E-value=5.6e+02 Score=27.86 Aligned_cols=93 Identities=18% Similarity=0.190 Sum_probs=52.2
Q ss_pred HHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC---cCccCChhhHHHHHHHH
Q 012934 135 LCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP---RFEAHSNQQFCRYLFYL 211 (453)
Q Consensus 135 ~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~---~p~~~~~~~~v~Y~YY~ 211 (453)
-|++..+++++|. +||..+..-+|..|.+ .+.|-+.|=+.+.+..|.....+.. .-+..-......=.-++
T Consensus 440 ~CY~kl~~~~eAi----KCykrai~~~dte~~~--l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fL 513 (559)
T KOG1155|consen 440 ECYEKLNRLEEAI----KCYKRAILLGDTEGSA--LVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFL 513 (559)
T ss_pred HHHHHhccHHHHH----HHHHHHHhccccchHH--HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHH
Confidence 3444455555554 3444444445554443 3455667777777787777555421 11111111122223347
Q ss_pred HHHHHHHhhHHHHHHHHHHHHH
Q 012934 212 GKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 212 G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
+..+...++|.+|..+...+..
T Consensus 514 A~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 514 AEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHHHhhcchHHHHHHHHHHhc
Confidence 7777788899999998888875
No 208
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=30.28 E-value=6.1e+02 Score=28.44 Aligned_cols=133 Identities=16% Similarity=0.102 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccC
Q 012934 83 EIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHD 162 (453)
Q Consensus 83 e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~ 162 (453)
-.|.+.|.---++-+..|+.|..+-...+.. +.| .-. +||=...+|-..++++.|--.+..++-+..
T Consensus 454 faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~r---hYn--AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP---- 520 (638)
T KOG1126|consen 454 FAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPR---HYN--AWYGLGTVYLKQEKLEFAEFHFQKAVEINP---- 520 (638)
T ss_pred cchhhhhcCChhhhhHHHHhHHHHHHhhhcC----Cch---hhH--HHHhhhhheeccchhhHHHHHHHhhhcCCc----
Confidence 3455555444455556777777776555433 111 111 144445555556666655555555542221
Q ss_pred ccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCc-cCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 163 ELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 163 ~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~-~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.-..++..+-+.|.+.+..+.|-.+++++- -|. ..+ .|+.|.++...++|.+|..-|++.=.-+|+
T Consensus 521 --~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~-------~~~~~~il~~~~~~~eal~~LEeLk~~vP~ 589 (638)
T KOG1126|consen 521 --SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLC-------KYHRASILFSLGRYVEALQELEELKELVPQ 589 (638)
T ss_pred --cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchh-------HHHHHHHHHhhcchHHHHHHHHHHHHhCcc
Confidence 112334445556666666666666665531 111 111 244455555555555555544444443444
No 209
>PF04090 RNA_pol_I_TF: RNA polymerase I specific initiation factor; InterPro: IPR007224 The RNA polymerase I specific transcription initiation factor Rrn11 is a member of a multiprotein complex essential for the initiation of transcription by RNA polymerase I. Binding to the DNA template is dependent on the initial binding of other factors [].
Probab=29.93 E-value=2.3e+02 Score=27.03 Aligned_cols=36 Identities=11% Similarity=0.140 Sum_probs=28.3
Q ss_pred hcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHH
Q 012934 95 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYF 131 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~ 131 (453)
+..++++.|+++..-++. ++..+-|++|.+.+.+..
T Consensus 52 llr~d~~rA~Raf~lLiR-~~~VDiR~~W~iG~eIL~ 87 (199)
T PF04090_consen 52 LLRGDWDRAYRAFGLLIR-CPEVDIRSLWGIGAEILM 87 (199)
T ss_pred HHhccHHHHHHHHHHHHc-CCCCChHhcchHHHHHHH
Confidence 467999999999888874 466777889999886643
No 210
>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=29.90 E-value=1.1e+02 Score=22.38 Aligned_cols=22 Identities=32% Similarity=0.341 Sum_probs=19.1
Q ss_pred HHHhhHHHHHHHHHHHHHcCCc
Q 012934 216 TIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 216 ~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
+.+++|.+|...|..++...|.
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~ 23 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD 23 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT
T ss_pred hhccCHHHHHHHHHHHHHHCCC
Confidence 4679999999999999987665
No 211
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=29.54 E-value=3.4e+02 Score=25.21 Aligned_cols=59 Identities=19% Similarity=0.062 Sum_probs=27.4
Q ss_pred HHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 176 NYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 176 ~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.++..|+|..|...++... +| .....-.=.+..|..+...++|.+|...+..-++..|.
T Consensus 14 ~~~~~g~y~~Ai~~f~~l~~~~P---~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~ 74 (203)
T PF13525_consen 14 EALQQGDYEEAIKLFEKLIDRYP---NSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN 74 (203)
T ss_dssp HHHHCT-HHHHHHHHHHHHHH-T---TSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT
T ss_pred HHHHCCCHHHHHHHHHHHHHHCC---CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence 4555555555555555431 22 12222333345555555555666666555555555554
No 212
>PF13730 HTH_36: Helix-turn-helix domain
Probab=29.31 E-value=74 Score=22.88 Aligned_cols=30 Identities=20% Similarity=0.246 Sum_probs=26.9
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCc
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 368 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I 368 (453)
-|.+.||..+|++. ..+...+..++..|.|
T Consensus 26 pS~~~la~~~g~s~----~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 26 PSQETLAKDLGVSR----RTVQRAIKELEEKGLI 55 (55)
T ss_pred cCHHHHHHHHCcCH----HHHHHHHHHHHHCcCC
Confidence 38999999999996 8999999999998876
No 213
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=28.85 E-value=1.4e+02 Score=24.07 Aligned_cols=59 Identities=12% Similarity=0.187 Sum_probs=44.1
Q ss_pred HHHHHhhc----ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccc
Q 012934 325 LRNISISY----SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDI 387 (453)
Q Consensus 325 irki~~~Y----srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v 387 (453)
++.|...| .-|.=+.|++.+++++ .-+-..++.+-.-|.|++.=-...|++-....-.+
T Consensus 10 L~alV~~Y~~~~~PVgSk~ia~~l~~s~----aTIRN~M~~Le~lGlve~~p~~s~GriPT~~aYr~ 72 (78)
T PF03444_consen 10 LKALVELYIETGEPVGSKTIAEELGRSP----ATIRNEMADLEELGLVESQPHPSGGRIPTDKAYRA 72 (78)
T ss_pred HHHHHHHHHhcCCCcCHHHHHHHHCCCh----HHHHHHHHHHHHCCCccCCCCCCCCCCcCHHHHHH
Confidence 34444445 6788899999999987 89999999999999997665556777765544333
No 214
>PF09999 DUF2240: Uncharacterized protein conserved in archaea (DUF2240); InterPro: IPR018716 This family of various hypothetical archaeal proteins has no known function.
Probab=28.43 E-value=74 Score=28.69 Aligned_cols=76 Identities=20% Similarity=0.372 Sum_probs=47.4
Q ss_pred ccccHHHHHHHhCCCCC-CChHHHHHHHHHhHHcCCceeEeeCCCcEEEec-cc------------ccccCCccccHHHH
Q 012934 333 SRISLADVAKKLRLDSA-NPVADAESIVSKAIRDGAIDATVDHANGWMVSK-ET------------GDIYSTNEPQLAFN 398 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~-~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~-~~------------~~v~s~~ep~~~l~ 398 (453)
.+++-+++--.|-++-. |+.++|..++..++..|.|.- ++|++.-. +. .+++...+||...-
T Consensus 16 ~~L~~sefv~~Ls~D~~WmspdqAk~li~~A~~eGLl~~----~~~~l~~~Fd~~~v~iP~~FkP~~~~l~e~~~fe~il 91 (144)
T PF09999_consen 16 DRLSKSEFVFALSFDRKWMSPDQAKRLIDEAIEEGLLEE----EGGYLVPNFDPSEVEIPLGFKPDEEILQERDPFERIL 91 (144)
T ss_pred cccChhheEeeEeeecCCCCHHHHHHHHHHHHHCCCeee----cCCEEEEecCccccccCCCCCCcHHHHhcccHHHHHH
Confidence 45666666554444332 445999999999999999942 45655522 11 22234566777777
Q ss_pred HHHHHHHHHHHHHH
Q 012934 399 SRIAFCLNMHNEAV 412 (453)
Q Consensus 399 ~rI~~~l~l~~~~v 412 (453)
.+|..+..+..+.|
T Consensus 92 d~ia~~~g~~~~ev 105 (144)
T PF09999_consen 92 DYIAAKTGIEKQEV 105 (144)
T ss_pred HHHHHhcCCCHHHH
Confidence 77777666655443
No 215
>PF12854 PPR_1: PPR repeat
Probab=28.39 E-value=1e+02 Score=20.18 Aligned_cols=26 Identities=23% Similarity=0.230 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHhcC
Q 012934 168 TLLNLLLRNYLHYNLYDQAEKLRSKA 193 (453)
Q Consensus 168 ~l~n~llr~Yl~~~~~~~a~~li~~~ 193 (453)
...|.|+.-|.+.|..+.|..+++..
T Consensus 8 ~ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 8 VTYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred hHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 45678889999999999999988754
No 216
>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=28.22 E-value=3.6e+02 Score=22.57 Aligned_cols=41 Identities=12% Similarity=0.227 Sum_probs=34.6
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCC
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHAN 376 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~ 376 (453)
...++.++||..++++. ..+=.+|.+|..+|.|...-|..+
T Consensus 40 ~~~~t~~ela~~~~~~~----~tvs~~l~~Le~~GlI~r~~~~~D 80 (118)
T TIGR02337 40 QGSMEFTQLANQACILR----PSLTGILARLERDGLVTRLKASND 80 (118)
T ss_pred cCCcCHHHHHHHhCCCc----hhHHHHHHHHHHCCCEEeccCCCC
Confidence 45789999999999998 688899999999999977665443
No 217
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=28.13 E-value=67 Score=26.92 Aligned_cols=56 Identities=5% Similarity=0.189 Sum_probs=37.2
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEecccccccCCccccHHHHHHHHHHHHHHH
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~ 409 (453)
.++++.++|...|++.+ .|..+|.-|.|......+.+|.-... =-.|++....||.
T Consensus 6 ~~lt~~Elc~~~gi~~~--------~l~eLve~GlIep~~~~~~~~~F~~~-------------~l~r~~~a~rL~~ 61 (101)
T PRK10265 6 VTFTITEFCLHTGVSEE--------ELNEIVGLGVIEPREIQETTWVFDDH-------------AAIVVQRAVRLRH 61 (101)
T ss_pred EEeeHHHHHHHHCcCHH--------HHHHHHHCCCeecCCCCcccceECHH-------------HHHHHHHHHHHHH
Confidence 57899999999998864 68889999999654333333332221 2345666667776
No 218
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=27.57 E-value=70 Score=20.68 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=16.9
Q ss_pred cCCccccHHHHHHHHHHHHHHH
Q 012934 388 YSTNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 388 ~s~~ep~~~l~~rI~~~l~l~~ 409 (453)
.|+.+||.+|=.|++.+-+-|.
T Consensus 3 is~~d~f~eFY~rlk~Ike~Hr 24 (28)
T PF12108_consen 3 ISGGDPFSEFYERLKEIKEYHR 24 (28)
T ss_dssp --S--HHHHHHHHHHHHHHHHH
T ss_pred CCCCChHHHHHHHHHHHHHHHH
Confidence 3577999999999999999988
No 219
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=27.57 E-value=5.2e+02 Score=29.26 Aligned_cols=61 Identities=26% Similarity=0.093 Sum_probs=47.2
Q ss_pred HHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
|.|-.+|-+.|.++.|..+..++ .+|+- +.=+--+|.||-.+|++.+|..|+.+|++-.|.
T Consensus 358 ~NLgni~~E~~~~e~A~~ly~~al~v~p~~------aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~ 420 (966)
T KOG4626|consen 358 NNLGNIYREQGKIEEATRLYLKALEVFPEF------AAAHNNLASIYKQQGNLDDAIMCYKEALRIKPT 420 (966)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHhhChhh------hhhhhhHHHHHHhcccHHHHHHHHHHHHhcCch
Confidence 44556899999999999988774 24542 222335788999999999999999999997775
No 220
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=27.39 E-value=2.6e+02 Score=21.96 Aligned_cols=33 Identities=21% Similarity=0.418 Sum_probs=30.1
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..+++++||..++++. ..+-.++..|...|.|.
T Consensus 19 ~~~t~~~ia~~l~i~~----~tv~r~l~~L~~~g~l~ 51 (91)
T smart00346 19 GGLTLAELAERLGLSK----STAHRLLNTLQELGYVE 51 (91)
T ss_pred CCcCHHHHHHHhCCCH----HHHHHHHHHHHHCCCee
Confidence 4699999999999987 89999999999999994
No 221
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=27.31 E-value=9.6e+02 Score=27.27 Aligned_cols=97 Identities=10% Similarity=-0.025 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHH
Q 012934 127 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCR 206 (453)
Q Consensus 127 ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~ 206 (453)
+..++....+..-.|.++++...+-.++.-+ +.-....++ +.....+.+.++.|...+...- ....+...
T Consensus 86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-----Pd~~~a~~~-~a~~L~~~~~~eeA~~~~~~~l----~~~p~~~~ 155 (694)
T PRK15179 86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRF-----PDSSEAFIL-MLRGVKRQQGIEAGRAEIELYF----SGGSSSAR 155 (694)
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-----CCcHHHHHH-HHHHHHHhccHHHHHHHHHHHh----hcCCCCHH
Confidence 4456777777777888888877766665322 122222222 2245578889998877665421 01134567
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
.++-.|+.....|+|.+|...|..++.
T Consensus 156 ~~~~~a~~l~~~g~~~~A~~~y~~~~~ 182 (694)
T PRK15179 156 EILLEAKSWDEIGQSEQADACFERLSR 182 (694)
T ss_pred HHHHHHHHHHHhcchHHHHHHHHHHHh
Confidence 889999999999999999999999997
No 222
>PHA02537 M terminase endonuclease subunit; Provisional
Probab=27.19 E-value=5.1e+02 Score=25.23 Aligned_cols=43 Identities=9% Similarity=-0.088 Sum_probs=30.4
Q ss_pred CChhhHHHHHHHHHHHHH---------HHhhHHHHHHHHHHHHHcCCcCchH
Q 012934 199 HSNQQFCRYLFYLGKIRT---------IQLEYTDAKESLLQAARKAPVAALG 241 (453)
Q Consensus 199 ~~~~~~v~Y~YY~G~i~~---------~~~dy~~A~~~L~~A~~~~p~~~~~ 241 (453)
.|-.-.+++|-..|.... ..++...|..+|..|+..-|....+
T Consensus 163 mpd~vrAKl~K~~G~~llr~~~g~~~~d~~~l~~Al~~L~rA~~l~~k~GVK 214 (230)
T PHA02537 163 MPDEVRAKLYKAAGYLLLRNEKGEPIGDAETLQLALALLQRAFQLNDKCGVK 214 (230)
T ss_pred CChHHHHHHHHHHHHHHhhcccCCCccCcccHHHHHHHHHHHHHhCCCCChH
Confidence 334556777778888774 3468899999999999855554433
No 223
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=27.11 E-value=5.5e+02 Score=24.42 Aligned_cols=36 Identities=14% Similarity=0.219 Sum_probs=31.7
Q ss_pred hhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 201 NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 201 ~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.-+.++..|+.|.++.-.|++.+|.++|..++. .+.
T Consensus 161 ~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~-~~~ 196 (214)
T PF09986_consen 161 GMDEATLLYLIGELNRRLGNYDEAKRWFSRVIG-SKK 196 (214)
T ss_pred CchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHc-CCC
Confidence 446678899999999999999999999999997 555
No 224
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.07 E-value=6.4e+02 Score=25.10 Aligned_cols=32 Identities=22% Similarity=0.151 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCc
Q 012934 208 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 239 (453)
Q Consensus 208 ~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~ 239 (453)
++=+|++....++-.+|+..|.+++...|.+.
T Consensus 218 llKlg~~~~~l~~~d~A~atl~qv~k~YP~t~ 249 (262)
T COG1729 218 LLKLGVSLGRLGNTDEACATLQQVIKRYPGTD 249 (262)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence 35689999999999999999999999999844
No 225
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=27.06 E-value=79 Score=28.48 Aligned_cols=49 Identities=18% Similarity=0.372 Sum_probs=42.2
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccccc
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 386 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~~~ 386 (453)
.+++++||+..+++. .-.+.++++|-..|.|...==+..||.--++..+
T Consensus 25 ~~s~~~IA~~~~is~----~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~~ 73 (150)
T COG1959 25 PVSSAEIAERQGISP----SYLEKILSKLRKAGLVKSVRGKGGGYRLARPPEE 73 (150)
T ss_pred cccHHHHHHHhCcCH----HHHHHHHHHHHHcCCEEeecCCCCCccCCCChHH
Confidence 688999999999998 8999999999999999877777788876665543
No 226
>PRK09954 putative kinase; Provisional
Probab=26.94 E-value=1.1e+02 Score=31.33 Aligned_cols=49 Identities=14% Similarity=0.232 Sum_probs=38.5
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCcee---EeeCCCcEEEecc
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA---TVDHANGWMVSKE 383 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A---~Id~~~G~v~~~~ 383 (453)
--.++|.++||..|+++. ..+...+.+|..+|+|.+ .+++..+.+....
T Consensus 14 ~~~~~s~~~la~~l~~s~----~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG~ 65 (362)
T PRK09954 14 RNPLIQQNEIADILQISR----SRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVGA 65 (362)
T ss_pred HCCCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEEE
Confidence 347999999999999998 899999999999999953 3445555544443
No 227
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=26.91 E-value=1.3e+03 Score=28.71 Aligned_cols=160 Identities=16% Similarity=0.152 Sum_probs=89.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchh---hhHHHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 012934 74 PAKHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRR---TVDVLAARLYFYYSLCYELTGDLAEIRGNL 150 (453)
Q Consensus 74 ~~~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r---~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l 150 (453)
.+....||++...++|-+ ++.+.|-+.+...+..|..=... -.|.- |+-+-.+| |. ...+
T Consensus 1454 sPNSSi~WI~YMaf~Lel------sEiekAR~iaerAL~tIN~REeeEKLNiWiA----~lNlEn~y---G~----eesl 1516 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLEL------SEIEKARKIAERALKTINFREEEEKLNIWIA----YLNLENAY---GT----EESL 1516 (1710)
T ss_pred CCCcchHHHHHHHHHhhh------hhhHHHHHHHHHHhhhCCcchhHHHHHHHHH----HHhHHHhh---Cc----HHHH
Confidence 456678999988877643 67778877777766554211111 12321 22222222 11 1234
Q ss_pred HHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHH
Q 012934 151 LALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESL 228 (453)
Q Consensus 151 ~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L 228 (453)
...|-.||...+ .+.+.-.|+.+|-+...++.|..+++.+- |-+ ...-|..| |-..+-+.+=+.|++-|
T Consensus 1517 ~kVFeRAcqycd---~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q--~~~vW~~y----~~fLl~~ne~~aa~~lL 1587 (1710)
T KOG1070|consen 1517 KKVFERACQYCD---AYTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQ--TRKVWIMY----ADFLLRQNEAEAARELL 1587 (1710)
T ss_pred HHHHHHHHHhcc---hHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcc--hhhHHHHH----HHHHhcccHHHHHHHHH
Confidence 444533433222 23455568899999999999999887642 221 12223333 44445677778999999
Q ss_pred HHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCC
Q 012934 229 LQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPE 262 (453)
Q Consensus 229 ~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~ 262 (453)
..|+.-.|. ...++..-+..-+..=.|+-|.
T Consensus 1588 ~rAL~~lPk---~eHv~~IskfAqLEFk~GDaeR 1618 (1710)
T KOG1070|consen 1588 KRALKSLPK---QEHVEFISKFAQLEFKYGDAER 1618 (1710)
T ss_pred HHHHhhcch---hhhHHHHHHHHHHHhhcCCchh
Confidence 999984454 3333444333333333566554
No 228
>KOG2316 consensus Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=26.66 E-value=56 Score=31.69 Aligned_cols=47 Identities=28% Similarity=0.356 Sum_probs=35.9
Q ss_pred HHhhcccccHHHHHHHhCCCCC--CChHHHHHHHHHhHHcCCceeEeeCC
Q 012934 328 ISISYSRISLADVAKKLRLDSA--NPVADAESIVSKAIRDGAIDATVDHA 375 (453)
Q Consensus 328 i~~~YsrIsL~dIa~~L~l~~~--~d~~eaE~iva~mI~dG~I~A~Id~~ 375 (453)
|-..|.|+....||.+|+|-+- .+-.+-|.++..||..| ++|.|-..
T Consensus 116 IlS~YQr~RVEnVC~RL~L~~Ls~LW~rdQ~~LL~eMi~~g-~~AiiiKV 164 (277)
T KOG2316|consen 116 ILSDYQRTRVENVCSRLGLVSLSYLWQRDQEELLQEMILSG-LDAIIIKV 164 (277)
T ss_pred hHhHHHHHHHHHHHhhhCceeehHHHhccHHHHHHHHHHcC-CCeEEEEE
Confidence 4456889999999999998761 23356778999999998 77777643
No 229
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.
Probab=26.58 E-value=2.1e+02 Score=22.63 Aligned_cols=45 Identities=13% Similarity=0.149 Sum_probs=34.0
Q ss_pred cccCHHHHHHHHHHHHHHHHhh-----chhhhHHHHHHHHHHHHHHHHhh
Q 012934 96 DKKRYNEAKACSSASIARLKNM-----NRRTVDVLAARLYFYYSLCYELT 140 (453)
Q Consensus 96 d~~~~~~A~~~~~~lv~~l~~~-----~~r~~d~l~ak~~~~~~~~~e~~ 140 (453)
..++|++|+.+-...++.+..+ |...-+.+..|+--|..|+-++.
T Consensus 18 ~~~~y~eA~~~Y~~~i~~~~~~~k~e~~~~~k~~ir~K~~eYl~RAE~i~ 67 (75)
T cd02677 18 EEGDYEAAFEFYRAGVDLLLKGVQGDSSPERREAVKRKIAEYLKRAEEIL 67 (75)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999999886553 23345778888888888876653
No 230
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=26.49 E-value=1.7e+02 Score=31.30 Aligned_cols=58 Identities=14% Similarity=-0.020 Sum_probs=44.4
Q ss_pred HHHHHHhcCChHHHHHHHhcC-C-cCccCChhhHH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Q 012934 173 LLRNYLHYNLYDQAEKLRSKA-P-RFEAHSNQQFC-RYLFYLGKIRTIQLEYTDAKESLLQAARK 234 (453)
Q Consensus 173 llr~Yl~~~~~~~a~~li~~~-~-~p~~~~~~~~v-~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~ 234 (453)
+=-.|++.+.|+.|-..+++. . .|+. ..+ .-+|..|.+|..++++.+|..+|..|+..
T Consensus 81 LG~AL~~lGryeEAIa~f~rALeL~Pd~----aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 81 LGLSLFSKGRVKDALAQFETALELNPNP----DEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCCCc----hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 344778999999999888764 2 2322 111 23688999999999999999999999973
No 231
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=26.29 E-value=1.5e+02 Score=30.41 Aligned_cols=43 Identities=21% Similarity=0.288 Sum_probs=33.1
Q ss_pred ccCHHHHHHHHHHHHHHHHh------hchhhhHHHHHHHHHHHHHHHHh
Q 012934 97 KKRYNEAKACSSASIARLKN------MNRRTVDVLAARLYFYYSLCYEL 139 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~------~~~r~~d~l~ak~~~~~~~~~e~ 139 (453)
.++|++|+.+....++.+.. .+.++-|.+.||+.-|+.|+.++
T Consensus 23 a~nY~eA~~lY~~aleYF~~~lKYE~~~~kaKd~IraK~~EYLdRAEkL 71 (439)
T KOG0739|consen 23 AKNYEEALRLYQNALEYFLHALKYEANNKKAKDSIRAKFTEYLDRAEKL 71 (439)
T ss_pred hhchHHHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHH
Confidence 37999999999888877432 24567888888888888877665
No 232
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=26.09 E-value=85 Score=29.38 Aligned_cols=33 Identities=18% Similarity=0.091 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 205 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
...++.+|+++...++|.+|...|..|++..|.
T Consensus 73 ~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~ 105 (198)
T PRK10370 73 SEQWALLGEYYLWRNDYDNALLAYRQALQLRGE 105 (198)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence 345566677777777777777777777765554
No 233
>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=26.03 E-value=73 Score=21.71 Aligned_cols=31 Identities=19% Similarity=0.319 Sum_probs=24.3
Q ss_pred ccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEee
Q 012934 335 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVD 373 (453)
Q Consensus 335 IsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id 373 (453)
+++.++|..+|++.. -+-++|.+|.|.+...
T Consensus 2 lt~~e~a~~lgis~~--------ti~~~~~~g~i~~~~~ 32 (49)
T TIGR01764 2 LTVEEAAEYLGVSKD--------TVYRLIHEGELPAYRV 32 (49)
T ss_pred CCHHHHHHHHCCCHH--------HHHHHHHcCCCCeEEe
Confidence 578999999998862 5777889999976543
No 234
>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=26.00 E-value=6.4e+02 Score=24.78 Aligned_cols=136 Identities=16% Similarity=0.172 Sum_probs=72.9
Q ss_pred HHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccc-hHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHH
Q 012934 129 LYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELG-QETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFC 205 (453)
Q Consensus 129 ~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~-~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v 205 (453)
+|.-|.+.....+.++.+|..+..+.. ....+ ..++.+..+ -|-..++.+.|.++++.. .||.+ ..-+.
T Consensus 3 v~i~~m~~~~r~~g~~~aR~vF~~a~~-----~~~~~~~vy~~~A~~-E~~~~~d~~~A~~Ife~glk~f~~~--~~~~~ 74 (280)
T PF05843_consen 3 VWIQYMRFMRRTEGIEAARKVFKRARK-----DKRCTYHVYVAYALM-EYYCNKDPKRARKIFERGLKKFPSD--PDFWL 74 (280)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC-----CCCS-THHHHHHHHH-HHHTCS-HHHHHHHHHHHHHHHTT---HHHHH
T ss_pred HHHHHHHHHHHhCChHHHHHHHHHHHc-----CCCCCHHHHHHHHHH-HHHhCCCHHHHHHHHHHHHHHCCCC--HHHHH
Confidence 344455555556668888887777731 11111 223333332 233457777788888764 25532 34455
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHhHHHhcCCCCChhhhhhhhhhhhhhhHHHHHHHH
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELTNAV 285 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~~Av 285 (453)
.|.-|+ ...+|...|...|+.|+...|... ....++++|+=.+ .
T Consensus 75 ~Y~~~l----~~~~d~~~aR~lfer~i~~l~~~~--~~~~iw~~~i~fE------------------------------~ 118 (280)
T PF05843_consen 75 EYLDFL----IKLNDINNARALFERAISSLPKEK--QSKKIWKKFIEFE------------------------------S 118 (280)
T ss_dssp HHHHHH----HHTT-HHHHHHHHHHHCCTSSCHH--HCHHHHHHHHHHH------------------------------H
T ss_pred HHHHHH----HHhCcHHHHHHHHHHHHHhcCchh--HHHHHHHHHHHHH------------------------------H
Confidence 555554 345788999999999987544311 1233333333222 3
Q ss_pred hcCCHHHHHHHHHhcchhhccCc
Q 012934 286 RIGDLELFKSVAEKFSSTFSSDR 308 (453)
Q Consensus 286 ~~Gdl~~f~~~l~~~~~~f~~Dg 308 (453)
+-||+....++-.++...|..+.
T Consensus 119 ~~Gdl~~v~~v~~R~~~~~~~~~ 141 (280)
T PF05843_consen 119 KYGDLESVRKVEKRAEELFPEDN 141 (280)
T ss_dssp HHS-HHHHHHHHHHHHHHTTTS-
T ss_pred HcCCHHHHHHHHHHHHHHhhhhh
Confidence 44777777777666666666543
No 235
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=25.77 E-value=1.2e+02 Score=22.54 Aligned_cols=27 Identities=30% Similarity=0.268 Sum_probs=22.7
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 212 GKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 212 G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
..+|..+++|.+|..++..++..-|..
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~ 28 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPDD 28 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCccc
Confidence 467889999999999999999855653
No 236
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=25.58 E-value=1.7e+02 Score=27.85 Aligned_cols=27 Identities=26% Similarity=0.272 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 207 YLFYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 207 Y~YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
+++|.|.+.....+|.+|..++.+...
T Consensus 72 ~~~y~~~~~~~lQEyvEA~~f~~~l~~ 98 (204)
T PRK14562 72 ELYYAGYVGTALQEYVEALLVYSLLFE 98 (204)
T ss_pred hhhhhhhcchHHHHHHHHHHHHHHHcC
Confidence 558889888889999999988776653
No 237
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=25.22 E-value=2.5e+02 Score=22.31 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=33.3
Q ss_pred ccCHHHHHHHHHHHHHHHHhh-----chhhhHHHHHHHHHHHHHHHHhhcCH
Q 012934 97 KKRYNEAKACSSASIARLKNM-----NRRTVDVLAARLYFYYSLCYELTGDL 143 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~~-----~~r~~d~l~ak~~~~~~~~~e~~~~l 143 (453)
.|+|++|+.+-...++.+..+ |....+.+..|+--|..|+-.+...+
T Consensus 19 ~g~y~eAl~~Y~~aie~l~~~lk~e~d~~~k~~~r~ki~eY~~RAE~Lk~~l 70 (77)
T cd02683 19 EGRFQEALVCYQEGIDLLMQVLKGTKDEAKKKNLRQKISEYMDRAEAIKKRL 70 (77)
T ss_pred hccHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999998875543 23455677777777777766655433
No 238
>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=25.20 E-value=1.4e+02 Score=20.55 Aligned_cols=25 Identities=24% Similarity=0.222 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHH
Q 012934 209 FYLGKIRTIQLEYTDAKESLLQAAR 233 (453)
Q Consensus 209 YY~G~i~~~~~dy~~A~~~L~~A~~ 233 (453)
--+|-|.+-..+|.+|.+.|..|+.
T Consensus 5 ~~Lgeisle~e~f~qA~~D~~~aL~ 29 (38)
T PF10516_consen 5 DLLGEISLENENFEQAIEDYEKALE 29 (38)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHH
Confidence 4579999999999999999999985
No 239
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=25.18 E-value=1.6e+02 Score=17.64 Aligned_cols=29 Identities=14% Similarity=0.174 Sum_probs=19.7
Q ss_pred hhHHHHHHHHHHHHHcCCcCchHhHHHHHH
Q 012934 219 LEYTDAKESLLQAARKAPVAALGFRVQCNK 248 (453)
Q Consensus 219 ~dy~~A~~~L~~A~~~~p~~~~~~~~~alK 248 (453)
+++..|..-|+.++..+|. ....+..-++
T Consensus 1 ~~~~~~r~i~e~~l~~~~~-~~~~W~~y~~ 29 (33)
T smart00386 1 GDIERARKIYERALEKFPK-SVELWLKYAE 29 (33)
T ss_pred CcHHHHHHHHHHHHHHCCC-ChHHHHHHHH
Confidence 4678889999999988873 3444444433
No 240
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=25.03 E-value=1.5e+02 Score=28.57 Aligned_cols=48 Identities=21% Similarity=0.226 Sum_probs=40.7
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcEEEeccc
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 384 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~v~~~~~ 384 (453)
..||.+++|..++++. ..+-.+|.+|...|.|.-..+..+..+...+.
T Consensus 20 ~~IS~~eLA~~L~iS~----~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTek 67 (217)
T PRK14165 20 VKISSSEFANHTGTSS----KTAARILKQLEDEGYITRTIVPRGQLITITEK 67 (217)
T ss_pred CCcCHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEEEEcCCceEEEECHH
Confidence 4799999999999998 89999999999999998888776666665554
No 241
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=24.72 E-value=1.1e+03 Score=27.75 Aligned_cols=135 Identities=13% Similarity=0.081 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHHHHh-cccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhh
Q 012934 81 ELEIYCYLLVLIFLI-DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL 159 (453)
Q Consensus 81 ~~e~~~~ll~~~~l~-d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~ 159 (453)
..+.+.+++. .. +.+++++|...+...+ ..+ ...+.. |+|.+..+...++..++.. ..+......
T Consensus 30 n~~a~~~Li~---~~~~~~~~deai~i~~~~l---~~~-P~~i~~-----yy~~G~l~~q~~~~~~~~l--v~~l~~~~~ 95 (906)
T PRK14720 30 KFKELDDLID---AYKSENLTDEAKDICEEHL---KEH-KKSISA-----LYISGILSLSRRPLNDSNL--LNLIDSFSQ 95 (906)
T ss_pred hHHHHHHHHH---HHHhcCCHHHHHHHHHHHH---HhC-Ccceeh-----HHHHHHHHHhhcchhhhhh--hhhhhhccc
Confidence 4555554443 44 7899999988766433 322 222211 3333444444454443332 233333333
Q ss_pred ccCccchHHHHHHHHH-------------HHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhHHHHHH
Q 012934 160 RHDELGQETLLNLLLR-------------NYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKE 226 (453)
Q Consensus 160 ~~~~~~~~~l~n~llr-------------~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~ 226 (453)
.++.....++..+++. +|=+.|..+.|...-.+.--- ...+...+.++=| .+.-+ |..+|.+
T Consensus 96 ~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~-D~~n~~aLNn~AY---~~ae~-dL~KA~~ 170 (906)
T PRK14720 96 NLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKA-DRDNPEIVKKLAT---SYEEE-DKEKAIT 170 (906)
T ss_pred ccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CcccHHHHHHHHH---HHHHh-hHHHHHH
Confidence 3333333344444444 344447777766655543100 0223344444333 23444 9999999
Q ss_pred HHHHHHHc
Q 012934 227 SLLQAARK 234 (453)
Q Consensus 227 ~L~~A~~~ 234 (453)
++..|+..
T Consensus 171 m~~KAV~~ 178 (906)
T PRK14720 171 YLKKAIYR 178 (906)
T ss_pred HHHHHHHH
Confidence 99999863
No 242
>PHA02943 hypothetical protein; Provisional
Probab=24.67 E-value=85 Score=28.68 Aligned_cols=35 Identities=14% Similarity=0.200 Sum_probs=31.1
Q ss_pred hcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 331 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 331 ~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
....-+.++||++||++. .+|++++--+=++|+|.
T Consensus 21 k~G~~TtseIAkaLGlS~----~qa~~~LyvLErEG~Vk 55 (165)
T PHA02943 21 ADGCKTTSRIANKLGVSH----SMARNALYQLAKEGMVL 55 (165)
T ss_pred hcCCccHHHHHHHHCCCH----HHHHHHHHHHHHcCceE
Confidence 345667899999999998 89999999999999994
No 243
>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain. It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.
Probab=24.50 E-value=1.3e+02 Score=24.42 Aligned_cols=45 Identities=11% Similarity=0.170 Sum_probs=33.9
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCCcE
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 378 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~G~ 378 (453)
+-|.=||++.|+...+++. .+++..+.+++..|.|.-..-.-.||
T Consensus 20 k~hE~VP~~~I~~~s~l~~----~~~~~~L~~L~~~kLv~~~~~~Y~GY 64 (82)
T PF09202_consen 20 KNHEWVPLELIEKISGLSE----GEVEKRLKRLVKLKLVSRRNKPYDGY 64 (82)
T ss_dssp TT-SSEEHHHHHHHHT--H----HHHHHHHHHHHHTTSEEEE-SSS-EE
T ss_pred cCCccCCHHHHHHHhCcCH----HHHHHHHHHHHhcCCccccCCCcceE
Confidence 3467899999999999997 99999999999999996544444565
No 244
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=24.28 E-value=1.1e+02 Score=26.90 Aligned_cols=40 Identities=13% Similarity=0.256 Sum_probs=34.7
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCC
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHAN 376 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~ 376 (453)
..++.++||..++++. ..+=.+|.+|...|+|.=.-|..+
T Consensus 53 ~~~t~~eLa~~l~i~~----~tvsr~l~~Le~~GlI~R~~~~~D 92 (144)
T PRK11512 53 ACITPVELKKVLSVDL----GALTRMLDRLVCKGWVERLPNPND 92 (144)
T ss_pred CCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEEeccCccc
Confidence 4699999999999998 789999999999999976666544
No 245
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=24.16 E-value=2.4e+02 Score=23.03 Aligned_cols=32 Identities=19% Similarity=0.228 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCc
Q 012934 206 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 237 (453)
Q Consensus 206 ~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~ 237 (453)
.-.|-++..++..++|.+|.+.|..+++.-+.
T Consensus 23 ~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~ 54 (90)
T PF14561_consen 23 DARYALADALLAAGDYEEALDQLLELVRRDRD 54 (90)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TT
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc
Confidence 55678899999999999999999999986555
No 246
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=24.08 E-value=4.3e+02 Score=23.33 Aligned_cols=81 Identities=9% Similarity=0.144 Sum_probs=52.9
Q ss_pred cccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce-eEee-CCCcEEEecccccccCCccccHHHHHHHHHHHHHHH
Q 012934 332 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID-ATVD-HANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 332 YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~-A~Id-~~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~ 409 (453)
-...+..+||+.|+.+- ..|...|-+++.-|.|. -+.. ...||-..-...+ ..+.=..+...+..|.+--+
T Consensus 40 ~~~~tvdelae~lnr~r----Stv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~---~ee~k~~i~~~l~~w~~~~~ 112 (126)
T COG3355 40 NGPLTVDELAEILNRSR----STVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPID---PEEIKKKILKDLDEWYDKMK 112 (126)
T ss_pred cCCcCHHHHHHHHCccH----HHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCC---HHHHHHHHHHHHHHHHHHHH
Confidence 45788999999999997 79999999999999983 3333 3445555543322 11222344555666666666
Q ss_pred HHHHhcCCCC
Q 012934 410 EAVRALRFPP 419 (453)
Q Consensus 410 ~~v~amr~p~ 419 (453)
+.+..+.-+.
T Consensus 113 ~~i~~~~~~~ 122 (126)
T COG3355 113 QLIEEFEKKY 122 (126)
T ss_pred HHHHHHhccc
Confidence 6666665443
No 247
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=24.07 E-value=5.4e+02 Score=27.71 Aligned_cols=39 Identities=15% Similarity=0.028 Sum_probs=33.9
Q ss_pred ChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 200 SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 200 ~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
........++..|..+...++|.+|..+|..|+...|..
T Consensus 70 ~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~ 108 (453)
T PLN03098 70 ADVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNP 108 (453)
T ss_pred CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCc
Confidence 445678888899999999999999999999999977763
No 248
>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=24.02 E-value=2.1e+02 Score=21.14 Aligned_cols=35 Identities=14% Similarity=0.273 Sum_probs=31.0
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCc
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 368 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I 368 (453)
..-..+++.++|..++.+. ..+-.-+..|-..|.|
T Consensus 10 ~~~~~~s~~ela~~~~VS~----~TiRRDl~~L~~~g~i 44 (57)
T PF08220_consen 10 KEKGKVSVKELAEEFGVSE----MTIRRDLNKLEKQGLI 44 (57)
T ss_pred HHcCCEEHHHHHHHHCcCH----HHHHHHHHHHHHCCCE
Confidence 3458899999999999997 8899999999999986
No 249
>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]
Probab=23.85 E-value=58 Score=31.87 Aligned_cols=24 Identities=38% Similarity=0.498 Sum_probs=17.8
Q ss_pred HHHHHHhcCCCCCCchhhhhHHHH
Q 012934 408 HNEAVRALRFPPNSHKEKESAEKR 431 (453)
Q Consensus 408 ~~~~v~amr~p~~~~~~~~~~~~~ 431 (453)
-.+.|+||||||-..+...++-.+
T Consensus 104 Ar~~V~A~rYPP~G~Rgvg~~~ar 127 (255)
T COG3836 104 ARQAVAATRYPPLGERGVGSALAR 127 (255)
T ss_pred HHHHHHhccCCCCCccccchhhhh
Confidence 346899999999988866554433
No 250
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=23.85 E-value=1.2e+02 Score=18.86 Aligned_cols=25 Identities=28% Similarity=0.150 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHhcC
Q 012934 169 LLNLLLRNYLHYNLYDQAEKLRSKA 193 (453)
Q Consensus 169 l~n~llr~Yl~~~~~~~a~~li~~~ 193 (453)
..|.+++.|.+.|.++.|..+++..
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~M 27 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDEM 27 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 4578889999999999998887653
No 251
>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=23.84 E-value=71 Score=19.33 Aligned_cols=23 Identities=17% Similarity=0.361 Sum_probs=19.1
Q ss_pred HHHHHHHHHhcCChHHHHHHHhc
Q 012934 170 LNLLLRNYLHYNLYDQAEKLRSK 192 (453)
Q Consensus 170 ~n~llr~Yl~~~~~~~a~~li~~ 192 (453)
.|.+++.|.+.+.++.|..+++.
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~ 25 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDE 25 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHH
Confidence 47788899999999999888765
No 252
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=23.16 E-value=1.8e+02 Score=22.44 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=22.0
Q ss_pred HHHHHHhcCCHHHHHHHHHhcchhhc
Q 012934 280 ELTNAVRIGDLELFKSVAEKFSSTFS 305 (453)
Q Consensus 280 ~L~~Av~~Gdl~~f~~~l~~~~~~f~ 305 (453)
+++.+-+.||..+..+++..|+....
T Consensus 2 ~vI~~A~~GD~~A~~~IL~~y~~yI~ 27 (65)
T PF12645_consen 2 EVIKAAKQGDPEAMEEILKHYEPYIS 27 (65)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 46677899999999999999987655
No 253
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=23.13 E-value=4.7e+02 Score=22.76 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=30.6
Q ss_pred hhcccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 330 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 330 ~~YsrIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
..-..+++++||..++++. ..+=..|.+|...|+|.
T Consensus 18 ~~~~~~~~~ela~~l~vs~----~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 18 EEKGYARVSDIAEALSVHP----SSVTKMVQKLDKDEYLI 53 (142)
T ss_pred hcCCCcCHHHHHHHhCCCh----hHHHHHHHHHHHCCCEE
Confidence 3346678999999999987 78888999999999984
No 254
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.86 E-value=6.2e+02 Score=29.30 Aligned_cols=90 Identities=18% Similarity=0.221 Sum_probs=54.1
Q ss_pred CCCHHHH-HHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Q 012934 78 PLPELEI-YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRI 156 (453)
Q Consensus 78 ~~p~~e~-~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rt 156 (453)
..|.+-= .++-+-=+|.+|..++.+..++...| +++++--.+.+-++-|-..|-|.. ..+++-||.
T Consensus 155 ~s~yVRk~AA~AIpKLYsLd~e~k~qL~e~I~~L------LaD~splVvgsAv~AF~evCPerl-------dLIHknyrk 221 (968)
T KOG1060|consen 155 PSPYVRKTAAHAIPKLYSLDPEQKDQLEEVIKKL------LADRSPLVVGSAVMAFEEVCPERL-------DLIHKNYRK 221 (968)
T ss_pred CcHHHHHHHHHhhHHHhcCChhhHHHHHHHHHHH------hcCCCCcchhHHHHHHHHhchhHH-------HHhhHHHHH
Confidence 3455543 34455566777877776544443333 234544456666666766665544 346666665
Q ss_pred hh---hccCccchHHHHHHHHHHHHhcC
Q 012934 157 AT---LRHDELGQETLLNLLLRNYLHYN 181 (453)
Q Consensus 157 a~---~~~~~~~~~~l~n~llr~Yl~~~ 181 (453)
-| ..-+.|||.++++.|.|. -+..
T Consensus 222 lC~ll~dvdeWgQvvlI~mL~RY-AR~~ 248 (968)
T KOG1060|consen 222 LCRLLPDVDEWGQVVLINMLTRY-ARHQ 248 (968)
T ss_pred HHhhccchhhhhHHHHHHHHHHH-HHhc
Confidence 44 347899999999988864 4433
No 255
>PHA02695 hypothetical protein; Provisional
Probab=22.72 E-value=2.5e+02 Score=31.60 Aligned_cols=49 Identities=14% Similarity=-0.001 Sum_probs=40.6
Q ss_pred hhhhhhHHHHHHHH-hcCCHHHHHHHHHhcchhhccCccHHHHHHHHHHH
Q 012934 272 EKALRPYFELTNAV-RIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNV 320 (453)
Q Consensus 272 ~~~l~~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~v 320 (453)
++.-.++.+|+..+ +..|++.|.+.++-|.....+.+++.++.||..-+
T Consensus 63 kPkhV~~~DLi~~i~~~~nve~y~~HI~f~K~~ilq~~~~~li~kCi~yM 112 (725)
T PHA02695 63 RPQHVTPEDLLEELSRRRCGALFARHIEFHTPYLVQFADYALLCRCIPYM 112 (725)
T ss_pred ccCcCCHHHHHHHHHHhccHHHHHHHHHHhHHHHHHhcCHHHHHHHhhhc
Confidence 34445678888776 77899999999999999999999999998887643
No 256
>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=22.69 E-value=2.6e+02 Score=22.31 Aligned_cols=44 Identities=18% Similarity=0.077 Sum_probs=30.3
Q ss_pred ccCHHHHHHHHHHHHHHHHh-hchhhhHHHHHHHH----HHHHHHHHhh
Q 012934 97 KKRYNEAKACSSASIARLKN-MNRRTVDVLAARLY----FYYSLCYELT 140 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~-~~~r~~d~l~ak~~----~~~~~~~e~~ 140 (453)
.|+|++|+.+-...|+.+.. -|...-..+.+|+- -|..|+-++.
T Consensus 19 ~gny~eA~~lY~~ale~~~~ekn~~~k~~i~~K~~~~a~~yl~RAE~Lk 67 (75)
T cd02680 19 KGNAEEAIELYTEAVELCINTSNETMDQALQTKLKQLARQALDRAEALK 67 (75)
T ss_pred hhhHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999988443 35556677777775 4555544443
No 257
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=22.65 E-value=7.5e+02 Score=24.39 Aligned_cols=63 Identities=10% Similarity=0.091 Sum_probs=47.1
Q ss_pred HHHHHHhcCCHHHHHHHHHhcchhhccC-ccHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHH
Q 012934 280 ELTNAVRIGDLELFKSVAEKFSSTFSSD-RTNNLIVRLRHNVIRTGLRNISISYSRISLADVAK 342 (453)
Q Consensus 280 ~L~~Av~~Gdl~~f~~~l~~~~~~f~~D-g~~~Lv~rLr~~vir~~irki~~~YsrIsL~dIa~ 342 (453)
.|..-.....+.+|...++.-...-... .-...+.+|.+.+.+...-|++.+-..+|.+...-
T Consensus 106 nLL~LLsqNRiaeFHteLe~lp~~~l~~~~~I~~~v~LEq~~MEGaYnKv~~a~~s~p~~~y~~ 169 (260)
T KOG3151|consen 106 NLLYLLSQNRIAEFHTELELLPKKILQHNPYISHPVSLEQSLMEGAYNKVLSAKQSIPSEEYTY 169 (260)
T ss_pred HHHHHHHhccHHHHHHHHHhccHHHhhccchhhhHHHHHHHHHhhHHHHHHHHHhcCCcHHHHH
Confidence 4566667778999999999765443333 44467889999999999999998888888665543
No 258
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=22.44 E-value=1.6e+02 Score=26.27 Aligned_cols=44 Identities=16% Similarity=0.221 Sum_probs=34.8
Q ss_pred HHHHHHHHhcCChHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHhhH
Q 012934 171 NLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEY 221 (453)
Q Consensus 171 n~llr~Yl~~~~~~~a~~li~~~~~p~~~~~~~~v~Y~YY~G~i~~~~~dy 221 (453)
-++-|.||..+.|+-|.-+++.+. +....|++|-.++.+.+++=
T Consensus 78 yllAksyFD~kEy~RaA~~L~~~~-------s~~~~FL~lYs~YLa~EKr~ 121 (142)
T PF04049_consen 78 YLLAKSYFDCKEYDRAAHVLKDCK-------SPKALFLRLYSRYLAGEKRK 121 (142)
T ss_pred HHHHHHHhchhHHHHHHHHHccCC-------CchHHHHHHHHHHHHHHHHH
Confidence 357799999999999999998764 45667888888887776653
No 259
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=22.34 E-value=2.7e+02 Score=30.39 Aligned_cols=40 Identities=13% Similarity=-0.050 Sum_probs=33.4
Q ss_pred CChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcC
Q 012934 199 HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 238 (453)
Q Consensus 199 ~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~ 238 (453)
.+.+-.+...|-.|..+.+.|+-..|+++|..|..-.+..
T Consensus 329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~n 368 (696)
T KOG2471|consen 329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRN 368 (696)
T ss_pred hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcC
Confidence 4556678888999999999999999999999998754443
No 260
>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=22.28 E-value=2.1e+02 Score=19.98 Aligned_cols=33 Identities=15% Similarity=0.360 Sum_probs=29.1
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCce
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 369 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~ 369 (453)
...+..+|+..++++. ..+-..+..|...|.|.
T Consensus 14 ~~~~~~el~~~l~~s~----~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 14 GPLTVSELAEELGLSQ----STVSHHLKKLREAGLVE 46 (47)
T ss_dssp SSEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEE
T ss_pred CCCchhhHHHhccccc----hHHHHHHHHHHHCcCee
Confidence 6788999999999997 89999999999999883
No 261
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=22.08 E-value=1.1e+03 Score=25.97 Aligned_cols=141 Identities=16% Similarity=0.147 Sum_probs=87.2
Q ss_pred hcccCHHHHHHHHHHHHHHHHhhchhhhHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHH
Q 012934 95 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLL 174 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~~l~~~~~r~~d~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~ll 174 (453)
++.++.+.+-+....+++.|-.- -..-||+|.+|+-.--...+|..||..|=.+.-.| +. +.+|
T Consensus 377 le~ed~ertr~vyq~~l~lIPHk-----kFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~c-PK----------~KlF 440 (677)
T KOG1915|consen 377 LEAEDVERTRQVYQACLDLIPHK-----KFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKC-PK----------DKLF 440 (677)
T ss_pred HHhhhHHHHHHHHHHHHhhcCcc-----cchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccC-Cc----------hhHH
Confidence 45566666666655555543210 12347778777754444567888888877775443 22 5678
Q ss_pred HHHH----hcCChHHHHHHHhcC-Cc-CccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCchHhHHHHHH
Q 012934 175 RNYL----HYNLYDQAEKLRSKA-PR-FEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK 248 (453)
Q Consensus 175 r~Yl----~~~~~~~a~~li~~~-~~-p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~~~~~~alK 248 (453)
|-|+ +++++|-|.++-.+- .+ |+++ ..+.-| |-+-...||...|..-|+.|++ -|... .-...+|
T Consensus 441 k~YIelElqL~efDRcRkLYEkfle~~Pe~c-----~~W~ky-aElE~~LgdtdRaRaifelAi~-qp~ld--mpellwk 511 (677)
T KOG1915|consen 441 KGYIELELQLREFDRCRKLYEKFLEFSPENC-----YAWSKY-AELETSLGDTDRARAIFELAIS-QPALD--MPELLWK 511 (677)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhcChHhh-----HHHHHH-HHHHHHhhhHHHHHHHHHHHhc-Ccccc--cHHHHHH
Confidence 8775 558999999987762 22 4332 222222 4455678999999999999997 56522 2244566
Q ss_pred HHHhHHHhcCCC
Q 012934 249 WAIIVRLLLGEI 260 (453)
Q Consensus 249 ~lIlv~LL~G~i 260 (453)
.+|-...-.|+.
T Consensus 512 aYIdFEi~~~E~ 523 (677)
T KOG1915|consen 512 AYIDFEIEEGEF 523 (677)
T ss_pred HhhhhhhhcchH
Confidence 677666555554
No 262
>PF05053 Menin: Menin; InterPro: IPR007747 MEN1, the gene responsible for multiple endocrine neoplasia type 1, is a tumour suppressor gene that encodes a protein called Menin which may be an atypical GTPase stimulated by nm23 [].; GO: 0005634 nucleus; PDB: 3RE2_A 3U84_B 3U86_A 3U88_B 3U85_A.
Probab=21.69 E-value=3.6e+02 Score=29.88 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhch
Q 012934 84 IYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNR 119 (453)
Q Consensus 84 ~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~ 119 (453)
+|.+....-+++..++|.+|+..+....+-|+.||-
T Consensus 318 vYPYty~gg~~yR~~~~~eA~~~Wa~aa~Vi~~YnY 353 (618)
T PF05053_consen 318 VYPYTYLGGYYYRHKRYREALRSWAEAADVIRKYNY 353 (618)
T ss_dssp SHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHTTSB-
T ss_pred cccceehhhHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 455666677778889999999999999999999973
No 263
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.67 E-value=6.8e+02 Score=27.45 Aligned_cols=159 Identities=14% Similarity=0.033 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhhc---------------hhhhHHHH----------HHHHHHHHHHHH
Q 012934 84 IYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMN---------------RRTVDVLA----------ARLYFYYSLCYE 138 (453)
Q Consensus 84 ~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~---------------~r~~d~l~----------ak~~~~~~~~~e 138 (453)
.-.++++-++.+=.|++..|.+-.++.|+.-..++ +..+|... +-+|+--.-+.=
T Consensus 326 A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~f 405 (606)
T KOG0547|consen 326 AEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRF 405 (606)
T ss_pred HHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHH
Confidence 44556677777777888888777666664321111 11112111 111111111222
Q ss_pred hhcCHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHhcCChHHHHHHHhcC--CcCccCChhhHHHHHHHHHHHHH
Q 012934 139 LTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRT 216 (453)
Q Consensus 139 ~~~~l~~~r~~l~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p~~~~~~~~v~Y~YY~G~i~~ 216 (453)
+.++.+++..-+-.+.+- ++...+..+-+.+-.| +.+.++.|...++.+ .||... .-+-|-|.|..
T Consensus 406 lL~q~e~A~aDF~Kai~L-----~pe~~~~~iQl~~a~Y-r~~k~~~~m~~Fee~kkkFP~~~------Evy~~fAeiLt 473 (606)
T KOG0547|consen 406 LLQQYEEAIADFQKAISL-----DPENAYAYIQLCCALY-RQHKIAESMKTFEEAKKKFPNCP------EVYNLFAEILT 473 (606)
T ss_pred HHHHHHHHHHHHHHHhhc-----ChhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhCCCCc------hHHHHHHHHHh
Confidence 234444444444444322 2233332222222223 445788888877765 377532 12236688999
Q ss_pred HHhhHHHHHHHHHHHHHcCCc---CchHhHHHHHHHHHhHH
Q 012934 217 IQLEYTDAKESLLQAARKAPV---AALGFRVQCNKWAIIVR 254 (453)
Q Consensus 217 ~~~dy~~A~~~L~~A~~~~p~---~~~~~~~~alK~lIlv~ 254 (453)
.+.+|.+|.+.|..|++..|. .-.+..-.+.|-+++.+
T Consensus 474 DqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q 514 (606)
T KOG0547|consen 474 DQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ 514 (606)
T ss_pred hHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc
Confidence 999999999999999997776 22344444444444443
No 264
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=21.65 E-value=1.2e+03 Score=26.49 Aligned_cols=212 Identities=16% Similarity=0.170 Sum_probs=108.7
Q ss_pred hcccCHHHHHHHHHHHHH-----HHHhhch-hhhH---HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH--HHhhhccCc
Q 012934 95 IDKKRYNEAKACSSASIA-----RLKNMNR-RTVD---VLAARLYFYYSLCYELTGDLAEIRGNLLALH--RIATLRHDE 163 (453)
Q Consensus 95 ~d~~~~~~A~~~~~~lv~-----~l~~~~~-r~~d---~l~ak~~~~~~~~~e~~~~l~~~r~~l~~~~--rta~~~~~~ 163 (453)
++.++++.|+++...... .+..|+. .... .=..|+|-+|.---|..|-+++.+...-.++ |.||+.
T Consensus 436 lrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPq--- 512 (835)
T KOG2047|consen 436 LRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQ--- 512 (835)
T ss_pred HhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHH---
Confidence 456788888887665551 1344421 1110 1123678888888888888888887666665 677653
Q ss_pred cchHHHHHHHHHHHHhcCCh-HHHHHHHhcCC--cCccCChhhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCcCch
Q 012934 164 LGQETLLNLLLRNYLHYNLY-DQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAAL 240 (453)
Q Consensus 164 ~~~~~l~n~llr~Yl~~~~~-~~a~~li~~~~--~p~~~~~~~~v~Y~YY~G~i~~~~~dy~~A~~~L~~A~~~~p~~~~ 240 (453)
.+.| +-.+|.-+.| +.+-+.-.+.. |+-..-..-+.+|+----. .-.-...+.|...|++|+..||+..
T Consensus 513 ----ii~N--yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~-rygg~klEraRdLFEqaL~~Cpp~~- 584 (835)
T KOG2047|consen 513 ----IIIN--YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIK-RYGGTKLERARDLFEQALDGCPPEH- 584 (835)
T ss_pred ----HHHH--HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHH-HhcCCCHHHHHHHHHHHHhcCCHHH-
Confidence 3333 1112232222 23333444432 3211111223444321111 1122477899999999999999632
Q ss_pred HhHHHHHHHHHhHHHhcCCCCChhhhhhhhhhhhhhhHHHHHHHHhcCC-HHHHHHHHHhcchhhccCccHHHHHHHHHH
Q 012934 241 GFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELTNAVRIGD-LELFKSVAEKFSSTFSSDRTNNLIVRLRHN 319 (453)
Q Consensus 241 ~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gd-l~~f~~~l~~~~~~f~~Dg~~~Lv~rLr~~ 319 (453)
...++-.+--..==.|- .+.++..|..-+.+|..++ +..|+-.+.+-+..+---.+=++.+++-..
T Consensus 585 --aKtiyLlYA~lEEe~GL-----------ar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~ 651 (835)
T KOG2047|consen 585 --AKTIYLLYAKLEEEHGL-----------ARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES 651 (835)
T ss_pred --HHHHHHHHHHHHHHhhH-----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh
Confidence 22222111111100111 1246677888888887765 666677777666655433333444444444
Q ss_pred HHHHHHHHHHh
Q 012934 320 VIRTGLRNISI 330 (453)
Q Consensus 320 vir~~irki~~ 330 (453)
+-....|-.+.
T Consensus 652 Lp~~~~r~mcl 662 (835)
T KOG2047|consen 652 LPDSKAREMCL 662 (835)
T ss_pred CChHHHHHHHH
Confidence 44444444443
No 265
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=21.40 E-value=6.6e+02 Score=23.27 Aligned_cols=67 Identities=9% Similarity=0.109 Sum_probs=45.4
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeC--CCcEEEecccccccCCccccHHHHHHHHHHHH
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDH--ANGWMVSKETGDIYSTNEPQLAFNSRIAFCLN 406 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~--~~G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~ 406 (453)
..++-.++|..||+.. .++-.++.+|-.+|.+...--+ +.|...+-+..+ ..+.-..+..|+..+.+
T Consensus 35 g~~tdeeLA~~Lgi~~----~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~---~~~i~d~ik~~~~~~~~ 103 (178)
T PRK06266 35 GEVTDEEIAEQTGIKL----NTVRKILYKLYDARLADYKREKDEETNWYTYTWKPE---LEKLPEIIKKKKMEELK 103 (178)
T ss_pred CCcCHHHHHHHHCCCH----HHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeC---HHHHHHHHHHHHHHHHH
Confidence 5689999999999998 8999999999999999644322 356666654432 22223344455544433
No 266
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=21.40 E-value=1.8e+02 Score=26.43 Aligned_cols=41 Identities=12% Similarity=0.022 Sum_probs=30.9
Q ss_pred HHHHHHHHHh-hHHHHHHHHHHHHHcCCcCchHhHHHHHHHHHh
Q 012934 210 YLGKIRTIQL-EYTDAKESLLQAARKAPVAALGFRVQCNKWAII 252 (453)
Q Consensus 210 Y~G~i~~~~~-dy~~A~~~L~~A~~~~p~~~~~~~~~alK~lIl 252 (453)
..|.-.+.++ ++.+|..||..|+.=||+ .+..+.+|+.-+|
T Consensus 95 ~~GE~L~~~g~~~~ega~hf~nAl~Vc~q--P~~LL~iyq~tlP 136 (148)
T TIGR00985 95 QLGEELMAQGTNVDEGAVHFYNALKVYPQ--PQQLLSIYQQTLP 136 (148)
T ss_pred HHHHHHHhCCCchHHHHHHHHHHHHhCCC--HHHHHHHHHhhCC
Confidence 3677788888 999999999999998886 3444555555444
No 267
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=20.78 E-value=2.2e+02 Score=28.88 Aligned_cols=44 Identities=14% Similarity=0.340 Sum_probs=37.5
Q ss_pred HHhhc-ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCC
Q 012934 328 ISISY-SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 375 (453)
Q Consensus 328 i~~~Y-srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~ 375 (453)
-+..| .-.+=++||++||++- -.|-.++..+...|.++-+|+++
T Consensus 22 A~lYY~~g~tQ~eIA~~lgiSR----~~VsRlL~~Ar~~GiV~I~I~~~ 66 (318)
T PRK15418 22 AWFYYHDGLTQSEIGERLGLTR----LKVSRLLEKGRQSGIIRVQINSR 66 (318)
T ss_pred HHHHHhcCCCHHHHHHHhCCCH----HHHHHHHHHHHHcCcEEEEEeCC
Confidence 33444 6889999999999998 78999999999999998888754
No 268
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
Probab=20.57 E-value=4.3e+02 Score=20.79 Aligned_cols=45 Identities=13% Similarity=0.153 Sum_probs=33.2
Q ss_pred ccCHHHHHHHHHHHHHHHHhh-----chhhhHHHHHHHHHHHHHHHHhhc
Q 012934 97 KKRYNEAKACSSASIARLKNM-----NRRTVDVLAARLYFYYSLCYELTG 141 (453)
Q Consensus 97 ~~~~~~A~~~~~~lv~~l~~~-----~~r~~d~l~ak~~~~~~~~~e~~~ 141 (453)
.|+|++|+.+-...+..+..+ |...-+.+..|+--|..|+-++..
T Consensus 19 ~g~y~eA~~lY~~ale~~~~~~k~e~~~~~k~~lr~k~~eyl~RAE~LK~ 68 (75)
T cd02684 19 RGDAAAALSLYCSALQYFVPALHYETDAQRKEALRQKVLQYVSRAEELKA 68 (75)
T ss_pred hccHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999885443 334557788888888777665543
No 269
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=20.43 E-value=2.3e+02 Score=24.59 Aligned_cols=39 Identities=13% Similarity=0.173 Sum_probs=33.2
Q ss_pred cccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCC
Q 012934 334 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHAN 376 (453)
Q Consensus 334 rIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~ 376 (453)
.++.++||..++++. ..+-.+|.+|..+|+|.-.-|..+
T Consensus 46 ~~t~~eLa~~l~~~~----~tvt~~v~~Le~~GlV~r~~~~~D 84 (144)
T PRK03573 46 EQSQIQLAKAIGIEQ----PSLVRTLDQLEEKGLISRQTCASD 84 (144)
T ss_pred CCCHHHHHHHhCCCh----hhHHHHHHHHHHCCCEeeecCCCC
Confidence 467899999999998 688899999999999976666544
No 270
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=20.23 E-value=1.1e+02 Score=20.09 Aligned_cols=21 Identities=19% Similarity=0.131 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHhhHHHHH
Q 012934 205 CRYLFYLGKIRTIQLEYTDAK 225 (453)
Q Consensus 205 v~Y~YY~G~i~~~~~dy~~A~ 225 (453)
...++.+|.++...|++.+|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 345778899999999999985
No 271
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=20.12 E-value=2.4e+02 Score=24.22 Aligned_cols=65 Identities=14% Similarity=0.180 Sum_probs=46.3
Q ss_pred ccccHHHHHHHhCCCCCCChHHHHHHHHHhHHcCCceeEeeCCC---cEEEecccccccCCccccHHHHHHHHHHHHHHH
Q 012934 333 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHAN---GWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 409 (453)
Q Consensus 333 srIsL~dIa~~L~l~~~~d~~eaE~iva~mI~dG~I~A~Id~~~---G~v~~~~~~~v~s~~ep~~~l~~rI~~~l~l~~ 409 (453)
..++|+++|..+..+. -.|-.++-+|...|.|.=+--... +.+.+.. +|-+.+.+.+..+++-.+
T Consensus 18 ~~vtl~elA~~l~cS~----Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~--------~~~~~~~~~~~~~l~~g~ 85 (115)
T PF12793_consen 18 VEVTLDELAELLFCSR----RNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLK--------SPEELLEQQAEELLEQGK 85 (115)
T ss_pred cceeHHHHHHHhCCCH----HHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEee--------CHHHHHHHHHHHHHHcCC
Confidence 5789999999999887 999999999999999943333332 3333332 455677777777766443
Done!