Query 011352
Match_columns 488
No_of_seqs 280 out of 828
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 00:23:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011352.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011352hhsearch_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 4E-116 9E-121 879.7 45.3 485 1-488 4-493 (493)
2 KOG2688 Transcription-associat 100.0 2.5E-35 5.4E-40 301.5 21.2 305 112-432 48-391 (394)
3 COG5600 Transcription-associat 100.0 8.2E-31 1.8E-35 262.9 21.1 247 175-431 143-409 (413)
4 KOG2582 COP9 signalosome, subu 99.9 1.6E-26 3.5E-31 231.0 20.1 236 205-451 143-389 (422)
5 PF08375 Rpn3_C: Proteasome re 99.9 8.3E-26 1.8E-30 177.3 6.8 67 421-487 1-68 (68)
6 KOG1463 26S proteasome regulat 99.9 2.2E-24 4.7E-29 214.3 17.9 249 129-421 138-393 (411)
7 COG5159 RPN6 26S proteasome re 99.8 5.5E-19 1.2E-23 172.7 18.8 248 129-420 135-390 (421)
8 KOG1497 COP9 signalosome, subu 99.8 2.6E-17 5.6E-22 162.8 22.8 268 161-444 102-382 (399)
9 KOG1464 COP9 signalosome, subu 99.8 1.8E-16 3.9E-21 154.5 23.0 241 196-447 184-436 (440)
10 PF01399 PCI: PCI domain; Int 99.7 1.7E-16 3.6E-21 135.0 12.0 104 311-418 1-105 (105)
11 KOG1498 26S proteasome regulat 99.5 1.6E-12 3.4E-17 132.3 19.4 274 162-444 131-421 (439)
12 KOG2908 26S proteasome regulat 99.3 7E-09 1.5E-13 104.4 30.0 241 181-438 94-359 (380)
13 smart00088 PINT motif in prote 99.1 3.2E-10 6.9E-15 94.1 8.5 86 347-438 2-87 (88)
14 smart00753 PAM PCI/PINT associ 99.1 3.2E-10 6.9E-15 94.1 8.5 86 347-438 2-87 (88)
15 COG5071 RPN5 26S proteasome re 99.0 4.2E-09 9E-14 104.4 14.5 220 210-441 179-418 (439)
16 KOG0687 26S proteasome regulat 98.2 0.00069 1.5E-08 68.6 24.6 174 238-419 179-363 (393)
17 KOG1076 Translation initiation 98.0 0.0023 5E-08 70.3 24.4 100 315-418 659-763 (843)
18 COG5187 RPN7 26S proteasome re 97.8 0.01 2.3E-07 59.5 23.9 187 219-419 176-377 (412)
19 PF14938 SNAP: Soluble NSF att 97.6 0.0039 8.5E-08 62.8 17.9 208 132-343 48-268 (282)
20 KOG0686 COP9 signalosome, subu 97.5 0.014 3E-07 61.1 20.8 204 210-419 195-411 (466)
21 PF10255 Paf67: RNA polymerase 97.3 0.013 2.9E-07 61.9 18.0 180 205-394 125-342 (404)
22 KOG2753 Uncharacterized conser 96.9 0.29 6.2E-06 50.2 21.5 117 313-439 240-360 (378)
23 KOG2758 Translation initiation 96.7 0.011 2.4E-07 60.1 9.9 102 312-420 290-396 (432)
24 KOG2072 Translation initiation 96.4 2.4 5.3E-05 48.1 27.6 70 346-418 424-493 (988)
25 PLN03081 pentatricopeptide (PP 96.3 1.4 3E-05 50.0 25.2 234 203-458 361-612 (697)
26 PF09976 TPR_21: Tetratricopep 96.2 0.2 4.3E-06 45.0 14.5 125 129-267 21-145 (145)
27 TIGR03302 OM_YfiO outer membra 95.9 0.64 1.4E-05 44.7 17.6 163 122-295 36-219 (235)
28 PF13371 TPR_9: Tetratricopept 95.6 0.047 1E-06 42.6 6.8 60 209-274 2-63 (73)
29 PF07719 TPR_2: Tetratricopept 95.4 0.039 8.4E-07 36.5 4.7 32 241-272 2-33 (34)
30 PRK11788 tetratricopeptide rep 95.3 0.97 2.1E-05 46.6 17.5 194 125-335 75-275 (389)
31 TIGR00990 3a0801s09 mitochondr 95.2 1.3 2.9E-05 49.4 19.1 143 118-272 330-499 (615)
32 PF14938 SNAP: Soluble NSF att 95.2 2.4 5.1E-05 42.6 19.1 148 122-272 77-228 (282)
33 PF13432 TPR_16: Tetratricopep 95.0 0.074 1.6E-06 40.7 6.1 58 209-272 4-63 (65)
34 PRK11788 tetratricopeptide rep 95.0 2.4 5.2E-05 43.7 19.2 131 126-272 114-246 (389)
35 TIGR02521 type_IV_pilW type IV 95.0 1.3 2.8E-05 40.8 15.6 130 125-272 37-167 (234)
36 PF10075 PCI_Csn8: COP9 signal 94.9 0.076 1.6E-06 48.1 6.8 82 309-397 40-121 (143)
37 cd00189 TPR Tetratricopeptide 94.4 0.6 1.3E-05 35.6 10.0 92 168-271 6-99 (100)
38 PF13424 TPR_12: Tetratricopep 94.2 0.23 4.9E-06 39.3 7.2 66 203-268 6-74 (78)
39 TIGR02552 LcrH_SycD type III s 94.1 1.2 2.5E-05 38.8 12.2 34 240-273 85-118 (135)
40 TIGR02521 type_IV_pilW type IV 94.0 4 8.6E-05 37.5 16.6 128 125-271 71-200 (234)
41 PF13525 YfiO: Outer membrane 93.8 2.8 6.2E-05 39.9 15.2 161 125-294 11-193 (203)
42 TIGR00990 3a0801s09 mitochondr 93.2 2.3 4.9E-05 47.6 15.6 125 131-273 306-432 (615)
43 PF00515 TPR_1: Tetratricopept 93.1 0.24 5.2E-06 32.8 4.7 32 241-272 2-33 (34)
44 PLN03081 pentatricopeptide (PP 93.0 16 0.00036 41.4 22.4 120 203-335 260-386 (697)
45 TIGR02917 PEP_TPR_lipo putativ 92.7 8.2 0.00018 43.4 19.3 100 162-273 125-226 (899)
46 KOG4162 Predicted calmodulin-b 92.7 2.5 5.5E-05 47.8 14.5 130 123-272 654-786 (799)
47 KOG2300 Uncharacterized conser 92.6 18 0.00039 39.3 22.4 165 120-291 325-494 (629)
48 PF10602 RPN7: 26S proteasome 92.5 4.3 9.3E-05 38.2 14.1 114 174-291 48-167 (177)
49 TIGR02917 PEP_TPR_lipo putativ 92.4 3.8 8.2E-05 46.1 16.1 132 123-272 26-157 (899)
50 TIGR02795 tol_pal_ybgF tol-pal 91.9 3.5 7.6E-05 34.3 11.8 103 165-273 5-109 (119)
51 PF12569 NARP1: NMDA receptor- 91.7 18 0.00039 39.9 19.6 141 113-269 188-334 (517)
52 PF13414 TPR_11: TPR repeat; P 91.6 0.41 9E-06 36.8 5.1 59 207-271 8-69 (69)
53 PF13174 TPR_6: Tetratricopept 91.4 0.42 9E-06 31.0 4.3 30 243-272 3-32 (33)
54 PF12895 Apc3: Anaphase-promot 90.8 0.75 1.6E-05 37.1 6.1 54 208-266 31-84 (84)
55 PF03399 SAC3_GANP: SAC3/GANP/ 90.7 2.7 5.8E-05 39.8 10.8 124 255-381 74-204 (204)
56 PF09012 FeoC: FeoC like trans 90.6 0.45 9.8E-06 37.5 4.5 47 360-410 5-51 (69)
57 PF04733 Coatomer_E: Coatomer 90.3 2.6 5.7E-05 42.8 10.9 186 120-335 103-289 (290)
58 PRK15359 type III secretion sy 90.1 5.4 0.00012 35.9 11.7 93 169-273 31-125 (144)
59 PRK11447 cellulose synthase su 90.0 7.6 0.00016 46.9 16.2 133 126-273 276-418 (1157)
60 PF13181 TPR_8: Tetratricopept 89.8 0.57 1.2E-05 30.8 3.8 31 241-271 2-32 (34)
61 KOG1840 Kinesin light chain [C 89.7 16 0.00035 40.2 16.9 155 111-268 192-353 (508)
62 PRK04841 transcriptional regul 89.6 16 0.00035 42.4 18.1 142 125-269 497-641 (903)
63 PRK10370 formate-dependent nit 89.5 20 0.00043 34.2 15.9 97 164-272 75-176 (198)
64 PRK11189 lipoprotein NlpI; Pro 89.4 18 0.0004 36.5 16.3 130 123-272 136-268 (296)
65 PRK12370 invasion protein regu 89.3 9.7 0.00021 42.1 15.3 119 130-268 349-469 (553)
66 PRK10049 pgaA outer membrane p 89.3 35 0.00075 39.4 20.3 206 128-351 246-466 (765)
67 cd05804 StaR_like StaR_like; a 89.0 12 0.00026 38.0 14.7 133 122-272 46-180 (355)
68 cd00189 TPR Tetratricopeptide 89.0 3.3 7.1E-05 31.2 8.4 60 208-273 6-67 (100)
69 PLN03077 Protein ECB2; Provisi 88.6 55 0.0012 38.1 30.8 70 386-458 706-775 (857)
70 PLN03218 maturation of RBCL 1; 88.4 28 0.00061 41.9 19.0 63 203-268 580-642 (1060)
71 PF13414 TPR_11: TPR repeat; P 88.0 1.3 2.8E-05 34.0 5.3 35 240-274 3-37 (69)
72 CHL00033 ycf3 photosystem I as 87.8 9.4 0.0002 34.8 11.8 104 162-268 35-141 (168)
73 PRK15174 Vi polysaccharide exp 87.6 23 0.00049 40.2 17.1 102 165-278 287-391 (656)
74 PF09295 ChAPs: ChAPs (Chs5p-A 87.2 8.8 0.00019 40.9 12.6 114 132-273 182-297 (395)
75 PRK04841 transcriptional regul 87.2 42 0.00092 39.0 19.5 143 125-271 458-604 (903)
76 KOG2002 TPR-containing nuclear 87.0 13 0.00028 43.4 14.3 124 131-273 282-413 (1018)
77 cd05804 StaR_like StaR_like; a 86.9 10 0.00022 38.6 12.7 95 166-268 118-214 (355)
78 KOG1840 Kinesin light chain [C 86.8 55 0.0012 36.1 21.2 190 114-335 279-476 (508)
79 PRK14574 hmsH outer membrane p 86.7 54 0.0012 38.4 19.6 98 176-273 341-449 (822)
80 PF13429 TPR_15: Tetratricopep 86.2 1.6 3.4E-05 43.4 6.2 66 206-273 114-179 (280)
81 TIGR03302 OM_YfiO outer membra 85.8 23 0.0005 33.8 13.9 61 208-271 172-234 (235)
82 PRK02603 photosystem I assembl 85.7 28 0.00062 31.8 14.8 106 138-255 14-121 (172)
83 PLN03088 SGT1, suppressor of 85.7 6.9 0.00015 40.9 10.8 33 241-273 71-103 (356)
84 PRK10866 outer membrane biogen 85.1 41 0.00089 33.1 17.0 166 115-294 31-227 (243)
85 PLN03218 maturation of RBCL 1; 84.8 38 0.00083 40.7 17.6 63 203-268 615-677 (1060)
86 PRK12370 invasion protein regu 84.6 70 0.0015 35.4 23.6 176 209-403 345-538 (553)
87 PRK15174 Vi polysaccharide exp 84.2 21 0.00046 40.5 14.6 62 206-273 288-351 (656)
88 PLN03077 Protein ECB2; Provisi 84.2 19 0.00041 41.9 14.7 60 202-268 323-382 (857)
89 PF08784 RPA_C: Replication pr 84.1 0.84 1.8E-05 38.7 2.6 38 368-409 64-101 (102)
90 KOG1173 Anaphase-promoting com 83.9 15 0.00033 40.5 12.4 56 211-272 389-446 (611)
91 PRK11189 lipoprotein NlpI; Pro 83.5 11 0.00024 38.0 11.0 101 162-274 64-166 (296)
92 PF12569 NARP1: NMDA receptor- 82.5 76 0.0017 35.1 17.6 131 202-343 194-342 (517)
93 PRK10049 pgaA outer membrane p 82.3 28 0.00061 40.1 14.9 134 129-276 320-463 (765)
94 PF13176 TPR_7: Tetratricopept 82.2 2.2 4.7E-05 29.0 3.6 26 243-268 2-27 (36)
95 PF10345 Cohesin_load: Cohesin 81.7 96 0.0021 34.8 18.6 113 156-270 53-169 (608)
96 PF12895 Apc3: Anaphase-promot 81.5 9.6 0.00021 30.5 7.9 83 131-227 1-83 (84)
97 smart00028 TPR Tetratricopepti 81.4 3.7 8E-05 24.6 4.3 30 242-271 3-32 (34)
98 PF14559 TPR_19: Tetratricopep 81.3 1.1 2.4E-05 34.2 2.1 54 213-272 2-57 (68)
99 PRK02603 photosystem I assembl 81.1 15 0.00033 33.6 10.1 77 194-273 27-105 (172)
100 KOG2002 TPR-containing nuclear 80.9 42 0.00091 39.4 15.0 149 117-272 162-339 (1018)
101 PRK15331 chaperone protein Sic 80.6 25 0.00054 32.9 11.1 27 243-269 108-134 (165)
102 PF13428 TPR_14: Tetratricopep 80.4 4.2 9.2E-05 28.7 4.8 32 243-274 4-35 (44)
103 PF13424 TPR_12: Tetratricopep 80.3 25 0.00055 27.3 9.9 63 126-190 12-74 (78)
104 PRK11906 transcriptional regul 80.3 52 0.0011 35.7 14.8 65 213-286 349-415 (458)
105 KOG0495 HAT repeat protein [RN 80.0 51 0.0011 37.4 14.7 97 240-343 685-787 (913)
106 PRK11447 cellulose synthase su 79.5 26 0.00056 42.4 13.9 120 128-272 582-703 (1157)
107 PRK10803 tol-pal system protei 78.9 11 0.00024 37.8 8.8 58 211-273 152-213 (263)
108 KOG2076 RNA polymerase III tra 77.8 1.5E+02 0.0032 34.7 25.2 139 111-272 133-273 (895)
109 PF04190 DUF410: Protein of un 77.7 80 0.0017 31.5 15.5 39 315-353 197-236 (260)
110 TIGR02552 LcrH_SycD type III s 77.2 16 0.00036 31.4 8.6 61 206-272 21-83 (135)
111 PF13429 TPR_15: Tetratricopep 76.6 22 0.00047 35.2 10.3 126 129-273 120-247 (280)
112 PF14853 Fis1_TPR_C: Fis1 C-te 76.4 9.3 0.0002 28.8 5.7 32 241-272 2-33 (53)
113 CHL00033 ycf3 photosystem I as 74.9 36 0.00078 30.9 10.6 74 196-272 29-104 (168)
114 PF09756 DDRGK: DDRGK domain; 74.1 4.3 9.3E-05 38.8 4.2 49 366-418 110-158 (188)
115 PRK10803 tol-pal system protei 74.0 64 0.0014 32.3 12.8 65 207-274 185-251 (263)
116 PF13412 HTH_24: Winged helix- 73.2 9.7 0.00021 27.4 5.1 33 367-403 15-47 (48)
117 TIGR02795 tol_pal_ybgF tol-pal 72.8 17 0.00036 30.1 7.3 61 209-272 9-71 (119)
118 KOG2300 Uncharacterized conser 72.3 1.3E+02 0.0028 33.1 14.9 142 119-271 6-158 (629)
119 PF10300 DUF3808: Protein of u 71.1 68 0.0015 34.9 13.1 125 120-295 230-356 (468)
120 PRK09782 bacteriophage N4 rece 70.2 1.3E+02 0.0028 36.1 16.1 130 122-274 512-643 (987)
121 smart00550 Zalpha Z-DNA-bindin 69.2 13 0.00028 29.2 5.3 31 370-404 23-53 (68)
122 TIGR00540 hemY_coli hemY prote 68.2 1.2E+02 0.0027 31.9 14.2 100 165-272 266-369 (409)
123 PRK09782 bacteriophage N4 rece 67.0 88 0.0019 37.5 13.8 125 126-272 549-675 (987)
124 KOG1174 Anaphase-promoting com 66.8 13 0.00029 39.6 6.2 121 132-272 381-503 (564)
125 KOG1126 DNA-binding cell divis 66.6 50 0.0011 37.1 10.8 30 243-272 492-521 (638)
126 PRK10153 DNA-binding transcrip 65.6 2.2E+02 0.0047 31.5 15.8 57 212-273 430-486 (517)
127 PF13374 TPR_10: Tetratricopep 65.4 14 0.00029 24.8 4.3 28 241-268 3-30 (42)
128 PF02082 Rrf2: Transcriptional 65.0 12 0.00025 30.5 4.4 48 370-421 26-73 (83)
129 PF13432 TPR_16: Tetratricopep 64.9 14 0.0003 27.8 4.6 29 244-272 1-29 (65)
130 KOG4234 TPR repeat-containing 64.5 29 0.00064 33.8 7.5 96 245-344 100-200 (271)
131 KOG3151 26S proteasome regulat 64.3 86 0.0019 31.1 10.8 107 293-418 124-231 (260)
132 TIGR00540 hemY_coli hemY prote 63.9 1.5E+02 0.0034 31.2 13.9 90 169-269 125-216 (409)
133 PF08631 SPO22: Meiosis protei 63.1 98 0.0021 30.9 11.7 78 212-289 3-94 (278)
134 KOG1126 DNA-binding cell divis 62.8 39 0.00085 37.9 9.2 110 132-268 434-551 (638)
135 KOG0495 HAT repeat protein [RN 60.9 96 0.0021 35.3 11.6 88 174-272 596-683 (913)
136 PRK15363 pathogenicity island 60.8 35 0.00077 31.6 7.2 78 211-297 44-121 (157)
137 COG3063 PilF Tfp pilus assembl 60.5 55 0.0012 32.5 8.8 158 162-337 35-201 (250)
138 PRK10866 outer membrane biogen 60.5 1.8E+02 0.0038 28.7 15.5 61 210-273 40-102 (243)
139 PF12802 MarR_2: MarR family; 60.5 29 0.00063 25.9 5.7 37 370-410 22-58 (62)
140 KOG4414 COP9 signalosome, subu 59.4 15 0.00033 33.6 4.4 39 346-384 109-147 (197)
141 PRK10747 putative protoheme IX 59.3 67 0.0014 33.9 10.1 32 241-272 329-360 (398)
142 PRK15363 pathogenicity island 59.0 1.5E+02 0.0033 27.5 11.6 106 168-285 39-150 (157)
143 PRK10747 putative protoheme IX 57.5 2.5E+02 0.0055 29.5 14.4 89 169-268 125-215 (398)
144 KOG0624 dsRNA-activated protei 57.0 69 0.0015 33.7 9.1 52 238-294 36-87 (504)
145 PRK15359 type III secretion sy 56.9 61 0.0013 28.9 8.1 61 209-273 31-91 (144)
146 PF12688 TPR_5: Tetratrico pep 56.3 1.4E+02 0.0031 26.2 11.1 100 163-268 2-103 (120)
147 PRK14574 hmsH outer membrane p 56.1 4E+02 0.0087 31.4 18.8 26 121-146 36-61 (822)
148 KOG1070 rRNA processing protei 55.3 4.7E+02 0.01 32.7 16.5 160 109-297 1454-1618(1710)
149 COG1729 Uncharacterized protei 55.1 27 0.0006 35.1 5.9 64 204-273 144-211 (262)
150 PF10345 Cohesin_load: Cohesin 55.1 3.5E+02 0.0075 30.4 18.7 151 111-268 51-207 (608)
151 PF12862 Apc5: Anaphase-promot 54.9 1.2E+02 0.0026 25.0 10.6 86 123-209 2-88 (94)
152 PF04733 Coatomer_E: Coatomer 54.7 32 0.00069 35.0 6.5 89 200-298 129-220 (290)
153 PF01047 MarR: MarR family; I 53.9 39 0.00084 25.0 5.4 41 366-410 14-54 (59)
154 PRK15431 ferrous iron transpor 53.4 33 0.00073 28.1 5.1 43 361-407 8-50 (78)
155 KOG2003 TPR repeat-containing 52.7 3.5E+02 0.0075 29.7 17.2 96 165-272 527-624 (840)
156 PLN03088 SGT1, suppressor of 52.2 57 0.0012 34.0 8.1 59 210-274 10-70 (356)
157 PF00392 GntR: Bacterial regul 52.2 44 0.00096 25.5 5.5 41 368-414 22-63 (64)
158 PRK11179 DNA-binding transcrip 52.0 32 0.00069 31.3 5.5 39 368-410 22-63 (153)
159 TIGR02944 suf_reg_Xantho FeS a 51.7 17 0.00037 31.9 3.5 44 368-415 24-67 (130)
160 smart00419 HTH_CRP helix_turn_ 51.1 21 0.00046 25.0 3.4 32 369-404 8-39 (48)
161 cd00092 HTH_CRP helix_turn_hel 51.1 42 0.0009 25.3 5.2 33 368-404 24-56 (67)
162 PRK11169 leucine-responsive tr 50.7 32 0.0007 31.7 5.3 37 365-405 24-60 (164)
163 smart00418 HTH_ARSR helix_turn 49.9 40 0.00086 24.5 4.9 43 367-413 8-50 (66)
164 KOG1861 Leucine permease trans 49.5 2.6E+02 0.0056 30.6 12.2 134 243-383 351-492 (540)
165 PF10300 DUF3808: Protein of u 49.3 3.8E+02 0.0082 29.1 16.4 76 215-297 246-323 (468)
166 cd07377 WHTH_GntR Winged helix 49.1 46 0.001 24.7 5.2 33 368-404 23-56 (66)
167 KOG3081 Vesicle coat complex C 49.1 58 0.0013 33.0 7.0 82 247-336 214-296 (299)
168 COG1522 Lrp Transcriptional re 48.4 39 0.00086 30.2 5.5 36 366-405 19-54 (154)
169 KOG2076 RNA polymerase III tra 48.2 69 0.0015 37.3 8.2 62 208-272 420-481 (895)
170 KOG3250 COP9 signalosome, subu 48.1 63 0.0014 31.6 6.8 123 310-444 59-185 (258)
171 PF01726 LexA_DNA_bind: LexA D 47.7 23 0.0005 27.7 3.3 32 369-403 25-56 (65)
172 TIGR00738 rrf2_super rrf2 fami 46.6 24 0.00053 30.8 3.7 43 369-415 25-67 (132)
173 PF09339 HTH_IclR: IclR helix- 45.4 27 0.00058 25.6 3.2 32 368-403 17-48 (52)
174 PF09986 DUF2225: Uncharacteri 44.9 3E+02 0.0065 26.7 12.1 36 236-272 161-196 (214)
175 cd00090 HTH_ARSR Arsenical Res 44.9 96 0.0021 23.1 6.5 41 370-414 21-61 (78)
176 KOG0543 FKBP-type peptidyl-pro 44.5 87 0.0019 33.3 7.8 60 208-273 263-324 (397)
177 KOG3054 Uncharacterized conser 44.3 32 0.00069 34.1 4.3 47 367-417 212-258 (299)
178 KOG1156 N-terminal acetyltrans 44.0 5.4E+02 0.012 29.4 16.4 89 244-338 79-172 (700)
179 PF08279 HTH_11: HTH domain; 43.9 92 0.002 22.7 6.0 41 368-413 14-54 (55)
180 smart00345 HTH_GNTR helix_turn 42.5 57 0.0012 23.7 4.7 40 368-413 18-58 (60)
181 TIGR02010 IscR iron-sulfur clu 42.5 36 0.00077 30.3 4.1 61 369-434 25-85 (135)
182 smart00344 HTH_ASNC helix_turn 42.5 63 0.0014 27.1 5.5 34 367-404 15-48 (108)
183 PF00325 Crp: Bacterial regula 42.2 34 0.00074 23.1 2.9 30 370-403 3-32 (32)
184 TIGR01610 phage_O_Nterm phage 41.7 1.1E+02 0.0024 25.5 6.8 45 367-417 45-89 (95)
185 COG4785 NlpI Lipoprotein NlpI, 41.4 3.3E+02 0.0071 27.2 10.6 127 201-327 98-255 (297)
186 KOG0553 TPR repeat-containing 41.1 3E+02 0.0065 28.3 10.8 143 241-403 82-248 (304)
187 PF01325 Fe_dep_repress: Iron 41.1 77 0.0017 24.3 5.2 33 367-403 20-52 (60)
188 PF07721 TPR_4: Tetratricopept 40.8 36 0.00078 21.2 2.8 23 242-264 3-25 (26)
189 PRK15179 Vi polysaccharide bio 40.5 5.8E+02 0.012 29.4 14.3 143 162-334 86-231 (694)
190 KOG4162 Predicted calmodulin-b 39.5 6.7E+02 0.015 29.2 16.3 57 210-272 658-716 (799)
191 COG1497 Predicted transcriptio 38.7 40 0.00087 33.5 4.0 50 352-405 7-57 (260)
192 PRK09954 putative kinase; Prov 37.8 70 0.0015 33.1 6.0 49 366-418 14-65 (362)
193 PF13525 YfiO: Outer membrane 37.6 3.6E+02 0.0077 25.4 15.1 62 210-274 13-76 (203)
194 PF02064 MAS20: MAS20 protein 36.9 85 0.0018 27.9 5.5 41 245-287 68-108 (121)
195 PF13512 TPR_18: Tetratricopep 35.8 3.4E+02 0.0075 24.7 12.2 61 208-273 53-132 (142)
196 PF09999 DUF2240: Uncharacteri 35.7 53 0.0012 30.1 4.1 78 368-449 16-107 (144)
197 COG3071 HemY Uncharacterized e 35.5 57 0.0012 34.6 4.8 32 241-272 329-360 (400)
198 KOG1941 Acetylcholine receptor 35.3 5.9E+02 0.013 27.3 12.0 145 122-272 9-154 (518)
199 smart00420 HTH_DEOR helix_turn 35.1 1.5E+02 0.0033 20.7 5.9 33 368-404 13-45 (53)
200 PRK11920 rirA iron-responsive 34.9 54 0.0012 30.0 4.2 49 368-420 23-71 (153)
201 KOG3060 Uncharacterized conser 34.8 5E+02 0.011 26.4 14.6 41 243-283 157-197 (289)
202 PF13545 HTH_Crp_2: Crp-like h 34.8 71 0.0015 24.8 4.4 42 369-418 28-69 (76)
203 PF04090 RNA_pol_I_TF: RNA pol 34.8 1.4E+02 0.0031 28.8 7.0 35 130-165 52-86 (199)
204 PF10602 RPN7: 26S proteasome 34.7 3.8E+02 0.0083 25.0 10.6 63 208-272 42-104 (177)
205 KOG1915 Cell cycle control pro 34.6 6.8E+02 0.015 27.8 13.2 143 130-297 377-525 (677)
206 KOG2003 TPR repeat-containing 33.9 24 0.00052 38.1 1.8 121 208-335 207-335 (840)
207 PRK10857 DNA-binding transcrip 33.9 47 0.001 30.9 3.6 48 368-419 24-71 (164)
208 KOG3364 Membrane protein invol 33.9 90 0.0019 28.6 5.1 39 234-272 65-103 (149)
209 COG2345 Predicted transcriptio 33.7 86 0.0019 30.7 5.4 47 357-407 13-59 (218)
210 PF13463 HTH_27: Winged helix 33.2 1E+02 0.0022 23.3 4.9 40 365-408 14-53 (68)
211 PLN03098 LPA1 LOW PSII ACCUMUL 32.9 1.2E+02 0.0026 33.0 6.8 59 208-269 81-141 (453)
212 PF04703 FaeA: FaeA-like prote 32.7 86 0.0019 24.4 4.3 34 367-404 13-46 (62)
213 KOG0739 AAA+-type ATPase [Post 31.7 1.1E+02 0.0024 31.8 5.9 43 132-174 23-71 (439)
214 PF04049 APC8: Anaphase promot 31.6 74 0.0016 28.9 4.4 46 205-257 77-122 (142)
215 KOG2471 TPR repeat-containing 31.5 1.6E+02 0.0035 32.5 7.4 44 234-277 329-372 (696)
216 KOG1060 Vesicle coat complex A 31.5 5.2E+02 0.011 30.3 11.6 87 112-211 154-244 (968)
217 PRK14720 transcript cleavage f 31.3 6.4E+02 0.014 30.1 12.9 135 116-269 30-178 (906)
218 PRK11014 transcriptional repre 31.3 65 0.0014 28.8 4.0 47 368-418 24-70 (141)
219 PF14559 TPR_19: Tetratricopep 30.6 1.1E+02 0.0023 22.8 4.6 22 251-272 2-23 (68)
220 KOG1173 Anaphase-promoting com 29.9 8.4E+02 0.018 27.4 21.2 30 243-272 383-412 (611)
221 smart00346 HTH_ICLR helix_turn 29.8 2.1E+02 0.0047 22.8 6.6 34 368-405 19-52 (91)
222 PF05843 Suf: Suppressor of fo 29.7 5.8E+02 0.012 25.5 11.8 136 165-343 4-141 (280)
223 PF12840 HTH_20: Helix-turn-he 29.6 1.6E+02 0.0035 22.1 5.4 36 365-404 20-55 (61)
224 PF12108 SF3a60_bindingd: Spli 29.4 57 0.0012 21.5 2.3 22 423-444 3-24 (28)
225 PF08898 DUF1843: Domain of un 28.9 1.5E+02 0.0033 22.5 4.8 41 312-352 2-44 (53)
226 PF13371 TPR_9: Tetratricopept 28.9 98 0.0021 23.4 4.2 27 247-273 2-28 (73)
227 TIGR01764 excise DNA binding d 28.8 60 0.0013 22.5 2.7 31 370-408 2-32 (49)
228 PHA02537 M terminase endonucle 28.8 4.7E+02 0.01 25.9 9.7 43 234-276 163-214 (230)
229 PF07729 FCD: FCD domain; Int 28.7 3.2E+02 0.007 22.2 8.8 29 307-335 94-122 (125)
230 PRK10370 formate-dependent nit 28.5 4.6E+02 0.0099 24.7 9.5 60 207-272 78-142 (198)
231 TIGR02337 HpaR homoprotocatech 28.0 1.7E+02 0.0037 24.9 6.0 41 367-411 40-80 (118)
232 COG1959 Predicted transcriptio 26.7 74 0.0016 29.1 3.5 71 369-444 25-97 (150)
233 cd02677 MIT_SNX15 MIT: domain 26.6 2.1E+02 0.0046 23.0 5.8 45 131-175 18-67 (75)
234 cd02683 MIT_1 MIT: domain cont 26.4 2.4E+02 0.0052 22.7 6.1 47 132-178 19-70 (77)
235 PRK10265 chaperone-modulator p 26.4 78 0.0017 26.9 3.4 56 368-444 6-61 (101)
236 COG2976 Uncharacterized protei 26.3 6.1E+02 0.013 24.6 14.5 87 175-270 102-189 (207)
237 KOG4626 O-linked N-acetylgluco 25.8 4.8E+02 0.011 29.9 9.9 60 207-272 359-420 (966)
238 KOG0553 TPR repeat-containing 25.0 3.8E+02 0.0082 27.6 8.5 48 243-296 152-200 (304)
239 PF01978 TrmB: Sugar-specific 24.9 1.1E+02 0.0024 23.5 3.8 38 366-407 19-56 (68)
240 KOG1155 Anaphase-promoting com 24.5 8.2E+02 0.018 27.0 11.1 91 172-268 442-535 (559)
241 KOG0547 Translocase of outer m 24.5 1E+03 0.022 26.5 17.0 114 211-337 369-487 (606)
242 PF13730 HTH_36: Helix-turn-he 24.4 1E+02 0.0022 22.5 3.3 29 371-403 27-55 (55)
243 PF09202 Rio2_N: Rio2, N-termi 24.1 1E+02 0.0023 25.3 3.6 45 365-413 20-64 (82)
244 PRK14165 winged helix-turn-hel 24.1 1.5E+02 0.0033 29.0 5.3 48 368-419 20-67 (217)
245 PF12854 PPR_1: PPR repeat 23.9 1.3E+02 0.0028 19.9 3.5 26 203-228 8-33 (34)
246 KOG2581 26S proteasome regulat 23.8 3.7E+02 0.0081 29.0 8.3 84 117-206 207-290 (493)
247 KOG2316 Predicted ATPase (PP-l 23.7 62 0.0013 31.8 2.5 46 363-409 116-163 (277)
248 KOG4507 Uncharacterized conser 23.5 2.2E+02 0.0048 32.2 6.8 31 242-272 678-708 (886)
249 KOG1070 rRNA processing protei 23.2 1.6E+03 0.034 28.4 15.5 153 116-289 1526-1681(1710)
250 PF13812 PPR_3: Pentatricopept 23.0 1.2E+02 0.0026 19.1 3.1 25 204-228 3-27 (34)
251 PF10516 SHNi-TPR: SHNi-TPR; 22.7 1.6E+02 0.0035 20.5 3.8 25 244-268 5-29 (38)
252 cd02680 MIT_calpain7_2 MIT: do 22.6 2.7E+02 0.0058 22.6 5.6 45 132-176 19-68 (75)
253 KOG1941 Acetylcholine receptor 22.2 9.9E+02 0.022 25.6 11.6 101 168-268 128-234 (518)
254 PF08220 HTH_DeoR: DeoR-like h 22.0 2.3E+02 0.0049 21.3 4.9 35 365-403 10-44 (57)
255 KOG1586 Protein required for f 21.8 8.3E+02 0.018 24.6 19.7 88 132-223 27-114 (288)
256 PRK11512 DNA-binding transcrip 21.7 3.7E+02 0.008 23.7 7.1 41 368-412 53-93 (144)
257 PHA02943 hypothetical protein; 21.3 1E+02 0.0022 28.6 3.2 35 367-405 22-56 (165)
258 PF01022 HTH_5: Bacterial regu 21.0 2.5E+02 0.0054 20.0 4.7 32 368-403 14-45 (47)
259 KOG2047 mRNA splicing factor [ 21.0 1.3E+03 0.028 26.6 15.1 211 130-364 436-661 (835)
260 PF05053 Menin: Menin; InterP 21.0 5.6E+02 0.012 28.8 9.3 35 119-153 318-352 (618)
261 COG4235 Cytochrome c biogenesi 20.7 9.2E+02 0.02 24.7 12.4 99 156-272 157-259 (287)
262 PF14561 TPR_20: Tetratricopep 20.7 2.9E+02 0.0063 22.8 5.7 32 241-272 23-54 (90)
263 PF01535 PPR: PPR repeat; Int 20.6 92 0.002 19.1 2.2 24 205-228 3-26 (31)
264 PRK15418 transcriptional regul 20.3 3E+02 0.0065 28.3 6.9 65 361-444 20-85 (318)
265 PF12645 HTH_16: Helix-turn-he 20.3 2.3E+02 0.0051 22.1 4.7 26 315-340 2-27 (65)
266 cd04762 HTH_MerR-trunc Helix-T 20.0 1.4E+02 0.0029 20.4 3.2 29 370-406 1-29 (49)
No 1
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.1e-116 Score=879.69 Aligned_cols=485 Identities=57% Similarity=0.846 Sum_probs=458.7
Q ss_pred CCccccCCCCCC--CCCCCCCCCCcchHHHHHHHHHHHHhhhcccchhHHHHHHhhhHHHhcccChHHHHHHHHHHcCCC
Q 011352 1 MTQDVEMKDKEN--PSNSLSSPFTPSTLHHLKEIASLMETGAHAREVRRIMRAVRLTMALRRKLKAPVLSAFLNFALAPG 78 (488)
Q Consensus 1 m~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~~~~li~k~v~~~~~r~~~r~lr~~~~~r~~l~~~~l~~~~~~~~~~~ 78 (488)
|++||||++.+. +..+.+...+..++++|++++.+|+|+|.++|||||||+||.++++|++|+..+|..+++.++|++
T Consensus 4 ~~~~~e~d~~~~~~~~~~~~k~~~~~~vq~ike~~~~i~kg~~tke~r~I~R~lr~l~~~r~kln~~vL~~~v~~~~~~~ 83 (493)
T KOG2581|consen 4 GAQDVEMDDNGVADTATQSKKSADTSTVQNIKEQLAQIDKGVYTKEPRFILRALRLLPSTRRKLNGAVLYKLVSSLLSSG 83 (493)
T ss_pred cceeeeecccccccccchhcccccHHHHHHHHHHHHHHhccccccchHHHHHHHHhhhhhHhhhhHHHHHHHHHHHcCCc
Confidence 567899998742 223333334888999999999999999999999999999999999999999999999999999999
Q ss_pred chhHHHHHhcCCCCCCcccccccCCCCCCC-CC-CCCCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhh
Q 011352 79 SEAHSRLLSYLPKEDEHEMEVDTASSGAPA-PA-KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRT 156 (488)
Q Consensus 79 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ 156 (488)
+++++.++++++......++.+...+.+++ +. .+..||+|+|+++|++++++|+++|++|.+++.+++..+..+|+|+
T Consensus 84 se~~~~~l~fv~~~~~~~~p~~~~s~~t~~a~~~k~~~~Ei~aY~~lLv~Lfl~d~K~~kea~~~~~~~l~~i~~~nrRt 163 (493)
T KOG2581|consen 84 SEAMDRLLRFVPAFDKNIKPLDTDSPNTQSALKRKPLPAEIEAYLYLLVLLFLIDQKEYKEADKISDALLASISIQNRRT 163 (493)
T ss_pred hHHHHHHHhhcccccccCCcccccccccccccccCCchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcchhh
Confidence 999999999998877655544443222222 23 5566799999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCCh
Q 011352 157 VDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSN 236 (488)
Q Consensus 157 ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~ 236 (488)
+|.+.||+|||+++++|..+++..+|+.|++.+|||+++|+..||++++|||||+|++.+.|++|+++++++.+|++.++
T Consensus 164 lD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~lrtAtLrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~pe~~sn 243 (493)
T KOG2581|consen 164 LDLIAAKLYFYLYLSYELEGRLADIRSFLHALLRTATLRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVYPEAASN 243 (493)
T ss_pred HHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhhhcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccCcccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc-cchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhhhhhhhHHH
Q 011352 237 QQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV-AALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFE 315 (488)
Q Consensus 237 ~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~-~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~ 315 (488)
++++||+||.|+|.++++||+.|.+||.+|++++|+ .+.||++++.|++|+++||+|+||+++.|+++++++.|.||+.
T Consensus 244 ne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll~geiPers~F~Qp~~~ksL~~Yf~ 323 (493)
T KOG2581|consen 244 NEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELLLGEIPERSVFRQPGMRKSLRPYFK 323 (493)
T ss_pred HHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHHcCCCcchhhhcCccHHHHHHHHHH
Confidence 999999999999999999999999999999999997 6799999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHH
Q 011352 316 LTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVS 395 (488)
Q Consensus 316 L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila 395 (488)
|++|||.||+++|++++++|...|..||+|.|+.|||+||||++||+|+.+|||||+.|||.+|+++++ ++||+||+
T Consensus 324 Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRISl~DIA~kL~l~Se---ed~EyiVa 400 (493)
T KOG2581|consen 324 LTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRISLQDIAKKLGLNSE---EDAEYIVA 400 (493)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeeccHHHHHHHhcCCCc---hhHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999997 88999999
Q ss_pred HHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHHHHHhhHHHHHhcCCCCCCCcchhhHHHHHHhhHHHHH
Q 011352 396 KAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHKEKESAEKRRERQQQEQE 475 (488)
Q Consensus 396 ~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~~~~~~~~~~~~~~~~~e 475 (488)
++|+||.|+|+|||++|||.+++..++|++.+|+.+|+.||+||++|||++|+||||||+.++++|++|++||||||+.|
T Consensus 401 kAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~LhN~~vkamRyPp~~~~~~Es~E~~rereqq~~e 480 (493)
T KOG2581|consen 401 KAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLHNEAVKAMRYPPKKKKDLESAEKRREREQQELE 480 (493)
T ss_pred HHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhhhhhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcccCCCCC
Q 011352 476 LAKHIAEEDDDEF 488 (488)
Q Consensus 476 ~~~~~~~~~~~~~ 488 (488)
+||||+|+|||||
T Consensus 481 ~akemae~Ddd~F 493 (493)
T KOG2581|consen 481 LAKEMAEEDDDDF 493 (493)
T ss_pred HHHHhhhcccCCC
Confidence 9999999999999
No 2
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.5e-35 Score=301.47 Aligned_cols=305 Identities=20% Similarity=0.249 Sum_probs=260.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHH-HH--HHHhh--hhhhHHHHHHHHHHHHHHHHHh-----------h
Q 011352 112 HPLPELEIYCYLLVLIFLIDKKRYNEAKACSSAS-IA--RLKNM--NRRTVDVLAARLYFYYSLCYEL-----------T 175 (488)
Q Consensus 112 ~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~l-v~--~l~~~--~~r~ld~l~ak~~~y~s~~~e~-----------~ 175 (488)
...|+++++..++.+.+.+. +..+.|..+.... .. .+..+ -+.+.|.+ +..+.+|.++ .
T Consensus 48 ~~~~~d~~~~~~~~~~~~~~-~~~~~~sa~~~~~~~~~~~l~~~~s~~~~~w~~----~~l~rv~~~l~~la~~~~~~~~ 122 (394)
T KOG2688|consen 48 IGKPFDTIVGLHLRVLLRVA-YPCDAASAFSQQKLFGFLSLRAFSSGNDENWIL----PNLYRVCKDLRYLAINADCALL 122 (394)
T ss_pred cCCCcchhHhHHHHHHhhhc-cCcchhhhhhhHHHHhhhhHHHHhcccccchHH----HHHHHHHHHHHHHhhhhHHhhc
Confidence 34688999999998887775 3444444443222 22 12112 13467877 3455555554 1
Q ss_pred c-------cHHHHHHHHHHHHHHhhhc-------CCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCC----ccCChh
Q 011352 176 G-------DLAEIRGNLLALHRIATLR-------HDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRF----EAHSNQ 237 (488)
Q Consensus 176 ~-------~l~~~r~~L~~~~rta~~~-------~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~p----e~~~~~ 237 (488)
+ -++++...++.+|++|... .+++|.++++|+++++||+.+.+++|++++++...+ ..++.+
T Consensus 123 ~~~s~~~~~le~~s~~i~~~f~~cl~d~~~~~~~~kk~~~~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~ 202 (394)
T KOG2688|consen 123 SFSSLPNQLLEAASRTISRLFSSCLSDRRADLEESKKVAMLYIVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLA 202 (394)
T ss_pred CcccCchHHHHHHHHHHHHHHHHHhCccccccccchhhHHHHHHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccc
Confidence 2 2788999999999887432 678999999999999999999999999999997332 248899
Q ss_pred HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhhhhhhhHHHHH
Q 011352 238 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELT 317 (488)
Q Consensus 238 ~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~ 317 (488)
++++|+||.|++++.+.||.+|+.+|..||+.||.....++..+++|+||+.+++|.+|...++..+ .+..|.+++
T Consensus 203 ~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n~~~iliylip~~~llg~~Pt~~lL~~~----~~~~~~~lv 278 (394)
T KOG2688|consen 203 QLVVYHYYLGRYAMFESDFLNAFLQLNEAFRLCPDLLLKNKRLILIYLIPTGLLLGRIPTKELLDFY----TLDKYSPLV 278 (394)
T ss_pred cceeeeeeeeeehhhhhhHHHHHHHHHHHHHhCcHHHHhhhhhHHHHHhHHHHHhccCcchhhHhHh----hHHhHHHHH
Confidence 9999999999999999999999999999999999988889999999999999999999999988887 377899999
Q ss_pred HHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhh---ccccHHHHHHHhcCCC--CCChHHHHH
Q 011352 318 NAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISY---SRISLADVAKKLRLDS--ANPVADAES 392 (488)
Q Consensus 318 ~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~Y---srIsL~dIa~~L~l~~--~~d~eeaE~ 392 (488)
+||+.||+..|+.++++|+..|.+.|.|..++.++..++|+++++++... +++|++.+..+++..+ +.|.+|+||
T Consensus 279 ~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~devec 358 (394)
T KOG2688|consen 279 QAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVEC 358 (394)
T ss_pred HHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHH
Confidence 99999999999999999999999999999999999999999999999999 9999999999999877 678899999
Q ss_pred HHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHH
Q 011352 393 IVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAF 432 (488)
Q Consensus 393 ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l 432 (488)
++|++|..|.| +||+++.....|+|+.+|||.+
T Consensus 359 iLa~lI~~G~i-------kgYish~~~~~V~sK~~pfp~~ 391 (394)
T KOG2688|consen 359 ILANLIDLGRI-------KGYISHQLQTLVFSKKDPFPHL 391 (394)
T ss_pred HHHhhhhhccc-------cchhchhhheEEEecCCCCCCC
Confidence 99999999999 8888888888999999999975
No 3
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=99.97 E-value=8.2e-31 Score=262.88 Aligned_cols=247 Identities=20% Similarity=0.267 Sum_probs=215.5
Q ss_pred hccHHHHHHHHHHHHHHhhh-------cCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC---CCcc--CChhHHHHH
Q 011352 175 TGDLAEIRGNLLALHRIATL-------RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP---RFEA--HSNQQFCRY 242 (488)
Q Consensus 175 ~~~l~~~r~~L~~~~rta~~-------~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~---~pe~--~~~~~~v~Y 242 (488)
.++++++.+.++..|..+.+ .++++|.++++|+++.+||+.+++++|++++++.. .|+. ++.+|++.|
T Consensus 143 ~d~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~~~~~sq~v~f 222 (413)
T COG5600 143 QDNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVF 222 (413)
T ss_pred HhhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeeh
Confidence 35788999999999977632 36789999999999999999999999999999863 3553 678999999
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCC-CCcchhcchhhhhhhhhHHHHHHHHh
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEI-PERTVFMQKGMEKALRPYFELTNAVR 321 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~i-P~~~ll~~~~l~~~l~~Y~~L~~Av~ 321 (488)
+||+|++|+.+.+|.+|+.+|..||..||..-.+++..++-+|||..||.|+. |.++++++. +.+..|..|++||+
T Consensus 223 ~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~Ptk~~L~r~---~~~s~~~~Lvkavr 299 (413)
T COG5600 223 HYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFPPTKDLLERF---KRCSVYSPLVKAVR 299 (413)
T ss_pred hhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCCCchHHHHhc---cccchhHHHHHHHH
Confidence 99999999999999999999999999999877888999999999999997664 556677665 23788999999999
Q ss_pred cCCHHHHHHHHHHcchhhhcCcch-HHHHHHHHHHHHHhHHHHHHhh---ccccHHHHHHHhcCCC-C--CChHHHHHHH
Q 011352 322 IGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIRTGLRNISISY---SRISLADVAKKLRLDS-A--NPVADAESIV 394 (488)
Q Consensus 322 ~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr~~vir~~ir~i~~~Y---srIsL~dIa~~L~l~~-~--~d~eeaE~il 394 (488)
.||++.|+.++++++..|.+.|.| .|..+++..++|+++|+++..- +++|++-+-..++++. | .+.+++||++
T Consensus 300 sGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL 379 (413)
T COG5600 300 SGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECIL 379 (413)
T ss_pred cCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHH
Confidence 999999999999999999999998 5666688899999999988765 7888888887787766 2 4589999999
Q ss_pred HHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHH
Q 011352 395 SKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLA 431 (488)
Q Consensus 395 a~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~ 431 (488)
++||..|++ +||+++.....|+|+++|||.
T Consensus 380 ~tlI~~G~l-------rgYis~s~~~vV~sk~~pFp~ 409 (413)
T COG5600 380 VTLIGLGLL-------RGYISHSRRTVVFSKKDPFPV 409 (413)
T ss_pred HHHHhhhhh-------hheecccceEEEEecCCCCCC
Confidence 999999999 777777778888889999985
No 4
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.95 E-value=1.6e-26 Score=231.05 Aligned_cols=236 Identities=20% Similarity=0.310 Sum_probs=199.5
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcC-----CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc-cchhhH
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKA-----PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV-AALGFR 278 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~-----~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~-~~~~~~ 278 (488)
...++..+++.+.|....+.++-- .-..+.++...+.|+||+|+|+...++|..|..+|+.|+. .|. +.+.+.
T Consensus 143 H~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~-~Pa~~vs~~h 221 (422)
T KOG2582|consen 143 HADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVT-TPAMAVSHIH 221 (422)
T ss_pred HHHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHh-cchhHHHHHH
Confidence 345777777777776665544431 1122577899999999999999999999999999999997 999 559999
Q ss_pred HHHHHHHHHHHHh-cCCCCCcchhc----chhhhhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHH
Q 011352 279 VQCNKWAIIVRLL-LGEIPERTVFM----QKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRH 353 (488)
Q Consensus 279 ~~alK~lIlv~LL-~G~iP~~~ll~----~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~ 353 (488)
.++||++++|+|+ .|++-..+.-+ .+.+++...||.++.+++-++...+++.++.+|.+.|.+|+|.++++++..
T Consensus 222 lEaYkkylLvsLI~~GK~~ql~k~ts~~~~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~l~k~av~ 301 (422)
T KOG2582|consen 222 LEAYKKYLLVSLILTGKVFQLPKNTSQNAGRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTGLAKQAVS 301 (422)
T ss_pred HHHHHHHHHHHhhhcCceeeccccchhhhHHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHHHHHHHHH
Confidence 9999999999999 59864333223 233344556999999999999999999999999999999999999999999
Q ss_pred HHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHH
Q 011352 354 NVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFN 433 (488)
Q Consensus 354 ~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~ 433 (488)
.+.+++|+|++++|++|+|+|||.+.+|.+. +|||..|.+||.+|.|.|.|| |+|.|.+...-|-+.|+ ++
T Consensus 302 sl~k~nI~rltktF~sLsL~dIA~~vQLa~~---qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~SpeM---~~ 372 (422)
T KOG2582|consen 302 SLYKKNIQRLTKTFLSLSLSDIASRVQLASA---QEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPEM---HE 372 (422)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHhcch---HHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHHH---Hh
Confidence 9999999999999999999999999999987 999999999999999999997 99999988766655443 34
Q ss_pred HHHHHHHHhhHHHHHhcC
Q 011352 434 SRIAFCLNMHNEAVRALR 451 (488)
Q Consensus 434 ~rI~~~l~l~~~~v~amr 451 (488)
.+|..|.+|.. ..++|.
T Consensus 373 nk~~~~~~L~e-~l~~~e 389 (422)
T KOG2582|consen 373 NKIDLCIQLIE-ALKAME 389 (422)
T ss_pred hHHHHHHHHHH-HHHhcc
Confidence 49999999988 888873
No 5
>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=8.3e-26 Score=177.27 Aligned_cols=67 Identities=70% Similarity=1.097 Sum_probs=64.9
Q ss_pred cccCCccccHHHHHHHHHHHHhhHHHHHhcCCCCCCCc-chhhHHHHHHhhHHHHHHHHhhcccCCCC
Q 011352 421 DIYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHK-EKESAEKRRERQQQEQELAKHIAEEDDDE 487 (488)
Q Consensus 421 dv~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~-~~~~~~~~~~~~~~~~e~~~~~~~~~~~~ 487 (488)
|||||.+|+.+||+||+|||+|||++|||||||+++++ ++++++++++|+++++|+|++++++|+||
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 68999999999999999999999999999999999998 99999999999999999999999998886
No 6
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=2.2e-24 Score=214.25 Aligned_cols=249 Identities=18% Similarity=0.227 Sum_probs=210.6
Q ss_pred HHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHH
Q 011352 129 LIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLL 208 (488)
Q Consensus 129 l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~l 208 (488)
++|+++|.+|..+...++.++++++++.+ ...++.+.|.+|-...|+.+++..|+++ ||++..
T Consensus 138 y~d~~~YteAlaL~~~L~rElKKlDDK~l---Lvev~llESK~y~~l~Nl~KakasLTsA-RT~Ana------------- 200 (411)
T KOG1463|consen 138 YNDTKRYTEALALINDLLRELKKLDDKIL---LVEVHLLESKAYHALRNLPKAKASLTSA-RTTANA------------- 200 (411)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHhcccccc---eeeehhhhhHHHHHHhcchhHHHHHHHH-HHhhcc-------------
Confidence 45789999999999999999999988732 2223334444444788999999999999 544321
Q ss_pred HHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc-hhhHHHHHHHHHH
Q 011352 209 LRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA-LGFRVQCNKWAII 287 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~-~~~~~~alK~lIl 287 (488)
-.+|+..+++-....|.+|+.++||..|+.||..||+...+.. ......++||+++
T Consensus 201 -----------------------iYcpPqlQa~lDLqSGIlha~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLKYMlL 257 (411)
T KOG1463|consen 201 -----------------------IYCPPQLQATLDLQSGILHAAEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLKYMLL 257 (411)
T ss_pred -----------------------cccCHHHHHHHHHhccceeecccccchHHHHHHHHHccccccCCcHHHHHHHHHHHH
Confidence 1367888899999999999999999999999999999877744 4588899999999
Q ss_pred HHHhcCCCCCc-chhcchhh----hhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcch-HHHHHHHHHHHHHhHH
Q 011352 288 VRLLLGEIPER-TVFMQKGM----EKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIRTGLR 361 (488)
Q Consensus 288 v~LL~G~iP~~-~ll~~~~l----~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr~~vir~~ir 361 (488)
|+++++...+. .+++.+.. .+.+..+..+++|+.+.++..|+.++..|+.++..|... ..+..|..++++.++.
T Consensus 258 cKIMln~~ddv~~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~ 337 (411)
T KOG1463|consen 258 CKIMLNLPDDVAALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLC 337 (411)
T ss_pred HHHHhcCHHHHHHHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHH
Confidence 99999887664 34444331 246778899999999999999999999999999999976 6789999999999999
Q ss_pred HHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCc
Q 011352 362 NISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 421 (488)
Q Consensus 362 ~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~d 421 (488)
||..+||+|.++.||..+|++. ..||.-+++||.|..+.|++||+.|++...+.+.
T Consensus 338 riIEPyS~Vei~hIA~~IGl~~----~~VEkKLsqMILDKkf~G~LDQg~g~Liv~~e~~ 393 (411)
T KOG1463|consen 338 RIIEPYSRVEISHIAEVIGLDV----PQVEKKLSQMILDKKFYGTLDQGEGCLIVFEEPP 393 (411)
T ss_pred HHcCchhhhhHHHHHHHHCCCc----HHHHHHHHHHHHHHHhhcccccCCCeEEEeCCCC
Confidence 9999999999999999999998 8999999999999999999999999998776543
No 7
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=5.5e-19 Score=172.72 Aligned_cols=248 Identities=17% Similarity=0.227 Sum_probs=206.7
Q ss_pred HHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHH
Q 011352 129 LIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLL 208 (488)
Q Consensus 129 l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~l 208 (488)
++++++|.+|..+...+...+++++++.+ ...++.|.|.++....++.+.+..|+++ ||+...
T Consensus 135 ~y~~~~YsdalalIn~ll~ElKk~DDK~~---Li~vhllESKvyh~irnv~KskaSLTaA-rt~Ans------------- 197 (421)
T COG5159 135 LYKTGKYSDALALINPLLHELKKYDDKIN---LITVHLLESKVYHEIRNVSKSKASLTAA-RTLANS------------- 197 (421)
T ss_pred HHhcccHHHHHHHHHHHHHHHHhhcCccc---eeehhhhhHHHHHHHHhhhhhhhHHHHH-HHHhhc-------------
Confidence 35789999999999999999999987722 2223555555555778899999999998 554321
Q ss_pred HHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc-cchhhHHHHHHHHHH
Q 011352 209 LRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV-AALGFRVQCNKWAII 287 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~-~~~~~~~~alK~lIl 287 (488)
-..|+..++.-....|.+++-++||..|+.||..|++.... ....-....+||+++
T Consensus 198 -----------------------~YCPpqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlL 254 (421)
T COG5159 198 -----------------------AYCPPQLQAQLDLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLL 254 (421)
T ss_pred -----------------------cCCCHHHHHHHHHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHH
Confidence 13667778888899999999999999999999999997665 335556777999999
Q ss_pred HHHhcCCCCCc-chhcchhh-----hhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcch-HHHHHHHHHHHHHhH
Q 011352 288 VRLLLGEIPER-TVFMQKGM-----EKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVIRTGL 360 (488)
Q Consensus 288 v~LL~G~iP~~-~ll~~~~l-----~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr~~vir~~i 360 (488)
.+++++.+.+. ++++.+.. .+.+..+..+++|+.+.++..|..++.+|+..+..|... ..+.-|..+++..++
T Consensus 255 SkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl 334 (421)
T COG5159 255 SKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNL 334 (421)
T ss_pred HHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhh
Confidence 99998887663 35555432 145678889999999999999999999999999988865 678889999999999
Q ss_pred HHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccC
Q 011352 361 RNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 420 (488)
Q Consensus 361 r~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~ 420 (488)
.+|..+|+++.++.||..+|++. ..+|.-+++||.|....|++||++|++...+.+
T Consensus 335 ~kiiEPfs~VeishIa~viGldt----~qvEgKLsqMILDKifyG~LDqg~gcLivy~ep 390 (421)
T COG5159 335 VKIIEPFSVVEISHIADVIGLDT----NQVEGKLSQMILDKIFYGTLDQGDGCLIVYGEP 390 (421)
T ss_pred hhhcCcceeeehhHHHHHhcccH----HHHHHHHHHHHHHHHHHhhhccCCceEEEeCCc
Confidence 99999999999999999999998 999999999999999999999999999876543
No 8
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.78 E-value=2.6e-17 Score=162.83 Aligned_cols=268 Identities=18% Similarity=0.266 Sum_probs=211.6
Q ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhc-CCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCcc--CChh
Q 011352 161 AARLYFYYSLCYELTGDLAEIRGNLLALHRIATLR-HDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEA--HSNQ 237 (488)
Q Consensus 161 ~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~-~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~--~~~~ 237 (488)
.+-+.+..+-.||..+++..+.+.|.++-.-.... .+....+-+.-.+-|.|++.+...+|.-+++++++|.. .+..
T Consensus 102 v~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne~ 181 (399)
T KOG1497|consen 102 VASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESSNEQ 181 (399)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCHH
Confidence 34557778889999999999998888875322122 22333344455688899999999999999999988764 3444
Q ss_pred HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhh----hhhhhH
Q 011352 238 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGME----KALRPY 313 (488)
Q Consensus 238 ~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~----~~l~~Y 313 (488)
-++.|.-+.+|+.-..++|-+|...|.+.... -......+.++++..+.|-+|.|--|.++.+-+..++ +.+..|
T Consensus 182 Lqie~kvc~ARvlD~krkFlEAAqrYyels~~-ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~l~~y 260 (399)
T KOG1497|consen 182 LQIEYKVCYARVLDYKRKFLEAAQRYYELSQR-KIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQKLPAY 260 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCcccccccch
Confidence 57888889999999999999998666654421 1256788999999999999999999987643332221 234455
Q ss_pred H-----HHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChH
Q 011352 314 F-----ELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVA 388 (488)
Q Consensus 314 ~-----~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~e 388 (488)
. .+.+.++..+++.|...+..|+..-..||. .++ -..+++|+|.-+++.|..||++.+++.|+++. +
T Consensus 261 ~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgs-sil---~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~----e 332 (399)
T KOG1497|consen 261 GILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGS-SIL---DRAVIEHNLLSASKLYNNISFEELGALLKIDA----E 332 (399)
T ss_pred HHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcc-hhh---hhHHHHHhHHHHHHHHHhccHHHHHHHhCCCH----H
Confidence 4 456677888999999999999998777774 233 34589999999999999999999999999998 9
Q ss_pred HHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHH-HHHhhH
Q 011352 389 DAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAF-CLNMHN 444 (488)
Q Consensus 389 eaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~-~l~l~~ 444 (488)
.||.+.++||.+|.++|+|||.+|+|+|.+. +|.|.|++.|+. |.++++
T Consensus 333 kaekiaa~MI~qeRmng~IDQ~egiihFe~~-------e~l~~wdkqi~sl~~qvNk 382 (399)
T KOG1497|consen 333 KAEKIAAQMITQERMNGSIDQIEGIIHFEDR-------EELPQWDKQIQSLCNQVNK 382 (399)
T ss_pred HHHHHHHHHHhHHHhccchHhhcceEeecch-------hhhhhhhHHHHHHHHHHHH
Confidence 9999999999999999999999999999863 799999999996 555555
No 9
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.75 E-value=1.8e-16 Score=154.48 Aligned_cols=241 Identities=20% Similarity=0.229 Sum_probs=178.6
Q ss_pred CCcccHH-HHHHHHHHHHHccC-------CHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHH
Q 011352 196 HDELGQE-TLLNLLLRNYLHYN-------LYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 267 (488)
Q Consensus 196 ~~~~~~~-~l~n~llr~Yl~~~-------~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~ 267 (488)
.++.+|+ -+..+-...|-..+ .|++|..+-++.+.|-..+ .-.-++|++++.+|+|.+|+..|..||
T Consensus 184 ~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-----vIRECGGKMHlreg~fe~AhTDFFEAF 258 (440)
T KOG1464|consen 184 QKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-----VIRECGGKMHLREGEFEKAHTDFFEAF 258 (440)
T ss_pred hhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-----HHHHcCCccccccchHHHHHhHHHHHH
Confidence 4455565 44556667776554 4677777777666664333 336799999999999999999999999
Q ss_pred HhCCccchhhHHHHHHHHHHHHHhc-CCCCCcchhcchhh--hhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcc
Q 011352 268 RKAPVAALGFRVQCNKWAIIVRLLL-GEIPERTVFMQKGM--EKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRT 344 (488)
Q Consensus 268 ~~~P~~~~~~~~~alK~lIlv~LL~-G~iP~~~ll~~~~l--~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~ 344 (488)
.+...++++.+.+|+||+|+..||| +.|.+..--..+.+ .+.+.++..++.|+.+.|+..|++++..|++....|..
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 9888899999999999999999996 44443211111111 24677889999999999999999999999886666654
Q ss_pred h-HHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCccc
Q 011352 345 N-NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIY 423 (488)
Q Consensus 345 ~-~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~ 423 (488)
. ..++.|..++.-.-+.++.++|.+|.+.-|++.|+++. .+||.++...|.|..|+|+||+.+||+...+....-
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 33444544444444677889999999999999999987 899999999999999999999999999887765533
Q ss_pred CCccccHHHHHHHHHHHHhhHHHH
Q 011352 424 STNEPQLAFNSRIAFCLNMHNEAV 447 (488)
Q Consensus 424 s~~ep~~~l~~rI~~~l~l~~~~v 447 (488)
++ -..+++.+-.+.-.|....|
T Consensus 415 ~k--~~~al~kW~~ql~Sl~~~i~ 436 (440)
T KOG1464|consen 415 SK--LYKALDKWNNQLKSLQSNIV 436 (440)
T ss_pred hH--HHHHHHHHHHHHHHHHHHHH
Confidence 33 23444444444444544344
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=99.70 E-value=1.7e-16 Score=134.95 Aligned_cols=104 Identities=37% Similarity=0.567 Sum_probs=96.8
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHHc-chhhhcCcchHHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHH
Q 011352 311 RPYFELTNAVRIGDLELFKSVAEKF-SSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 389 (488)
Q Consensus 311 ~~Y~~L~~Av~~Gdl~~f~~~l~~~-~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~ee 389 (488)
++|.++.+|+.+||+..|.+.++++ ...|..+++..+++.++..++++.+++++.+|++|+++++|+.++++. ++
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 778888888899999999999999999999999999999999999998 99
Q ss_pred HHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 390 AESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 390 aE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
+|++|++||.+|.|+|+|||.+|+|.|++
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 99999999999999999999999999863
No 11
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.6e-12 Score=132.33 Aligned_cols=274 Identities=20% Similarity=0.195 Sum_probs=202.2
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHH-HHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC--CCc-cCChh
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALH-RIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFE-AHSNQ 237 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~-rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~pe-~~~~~ 237 (488)
|++--..+..+|..|.+.+|+..+.... -|-..-....-..+++- -+|.++..+.|-.|..+-++.. |++ .-.-.
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 3334566777888888888887776664 23332222333334333 3478888899999988777762 333 33455
Q ss_pred HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc--hhhHHHHHHHHHHHHHhcCCCCCcc-hhcchhhh---hhhh
Q 011352 238 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA--LGFRVQCNKWAIIVRLLLGEIPERT-VFMQKGME---KALR 311 (488)
Q Consensus 238 ~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~--~~~~~~alK~lIlv~LL~G~iP~~~-ll~~~~l~---~~l~ 311 (488)
..+.||+.+-+++.+++.|-++.++|..... +|... +.-...++.-.+.-.+|...-+..+ ++...... ..++
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 6788988999999999999999999988886 77622 3333333333322223322222222 22111111 3457
Q ss_pred hHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcch-------HHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCC
Q 011352 312 PYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-------NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSA 384 (488)
Q Consensus 312 ~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-------~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~ 384 (488)
.|..++..|-+|.|..|....+.|+..+..++++ .-+..|+..+++|+||.++..||||++..++..++++.
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 7999999999999999999999999888887433 46899999999999999999999999999999999987
Q ss_pred CChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHHHHHhhH
Q 011352 385 NPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 444 (488)
Q Consensus 385 ~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~~l~l~~ 444 (488)
+++|..+++|+..|.|.|+||++.|++.|....+ ..+-...|...+...+.+-+
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 9999999999999999999999999999998765 35677889999888888766
No 12
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=7e-09 Score=104.41 Aligned_cols=241 Identities=15% Similarity=0.154 Sum_probs=164.1
Q ss_pred HHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC----CCccCChhHHHHHHHHHHHHHHHhhcH
Q 011352 181 IRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP----RFEAHSNQQFCRYLFYLGKIRTIQLEY 256 (488)
Q Consensus 181 ~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~----~pe~~~~~~~v~Y~YY~Gri~~~~~dy 256 (488)
+-..|-.+-+......-+++...+...+-|.|+..|....|++++.... --..++++-...||-.+..+|-.-+||
T Consensus 94 al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~ 173 (380)
T KOG2908|consen 94 ALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDF 173 (380)
T ss_pred HHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhH
Confidence 3333444433333334446777777888899999999999999887742 223466777788888899999999999
Q ss_pred HHHHHHHHHHHHhCCc---cchhhHHHHHHHHHHHHHhcCC-CCCc-chhcchhhhh----hhhhHHHHHHHHhcCCHHH
Q 011352 257 TDAKESLLQAARKAPV---AALGFRVQCNKWAIIVRLLLGE-IPER-TVFMQKGMEK----ALRPYFELTNAVRIGDLEL 327 (488)
Q Consensus 257 ~~A~~~L~~A~~~~P~---~~~~~~~~alK~lIlv~LL~G~-iP~~-~ll~~~~l~~----~l~~Y~~L~~Av~~Gdl~~ 327 (488)
..++.+...=+. |-. .+...+++..-.+.+ .-|+|+ +-+. .++..|.++. .-.+-.++..||+.||+.+
T Consensus 174 a~yYr~~L~YL~-~~d~~~l~~se~~~lA~~L~~-aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~ 251 (380)
T KOG2908|consen 174 ASYYRHALLYLG-CSDIDDLSESEKQDLAFDLSL-AALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKR 251 (380)
T ss_pred HHHHHHHHHHhc-cccccccCHHHHHHHHHHHHH-HHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHH
Confidence 988877666554 543 224444444444444 445555 6554 3666676553 2356789999999999999
Q ss_pred HHHHHHHcch--hhhcCcchHHHHHHHHHHHHHhHHHH---HHhhc------cccHHHHHHHhcCCCCCChHHHHHHHHH
Q 011352 328 FKSVAEKFSS--TFSSDRTNNLIVRLRHNVIRTGLRNI---SISYS------RISLADVAKKLRLDSANPVADAESIVSK 396 (488)
Q Consensus 328 f~~~l~~~~~--~f~~D~~~~Lv~rLr~~vir~~ir~i---~~~Ys------rIsL~dIa~~L~l~~~~d~eeaE~ila~ 396 (488)
|++....+.. .|.+.. ..++..|+-+ -.+++ +||+++||++++++. ++||.+|.+
T Consensus 252 f~~l~~~~~~~p~L~~~e----------~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~----~eVE~LVMK 317 (380)
T KOG2908|consen 252 FESLKGVWGKQPDLASNE----------DFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKIPN----KEVELLVMK 317 (380)
T ss_pred HHHHHHHhccCchHHHHH----------HHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCCH----HHHHHHHHH
Confidence 9999887765 222111 1222333322 23454 599999999999998 999999999
Q ss_pred HHHcCCcceEeeCCCcEEEEcc-cCcccCCccccHHHHHHHHH
Q 011352 397 AIRDGAIDATVDHANGWMVSKE-TGDIYSTNEPQLAFNSRIAF 438 (488)
Q Consensus 397 mI~dG~I~A~Id~~~G~v~~~~-~~dv~s~~ep~~~l~~rI~~ 438 (488)
++.-|.|+|.||+..|.|.+.+ .+.|++.. -.-....|+..
T Consensus 318 AlslgLikG~Idqv~~~v~~swvqPRvl~~~-qI~~Mk~rl~~ 359 (380)
T KOG2908|consen 318 ALSLGLIKGSIDQVEGVVYMSWVQPRVLDRS-QIVKMKDRLDE 359 (380)
T ss_pred HHhccceeeeecccccEEEEecccccccCHH-HHHhHHHHHHH
Confidence 9999999999999999999987 44555542 22334444443
No 13
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.10 E-value=3.2e-10 Score=94.08 Aligned_cols=86 Identities=40% Similarity=0.537 Sum_probs=74.9
Q ss_pred HHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCc
Q 011352 347 LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTN 426 (488)
Q Consensus 347 Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ 426 (488)
.+..+...+.++.+..++.+|++|++++|+..++++. +++|..|.+||.+|.|+|+|||.+|+|.+.+...-+ .
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 3567788889999999999999999999999999988 799999999999999999999999999999875544 4
Q ss_pred cccHHHHHHHHH
Q 011352 427 EPQLAFNSRIAF 438 (488)
Q Consensus 427 ep~~~l~~rI~~ 438 (488)
++++.+.+++..
T Consensus 76 ~~~~~~~~~l~~ 87 (88)
T smart00088 76 EPLAQFAETLKK 87 (88)
T ss_pred hHHHHHHHHhhc
Confidence 567777776653
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=99.10 E-value=3.2e-10 Score=94.08 Aligned_cols=86 Identities=40% Similarity=0.537 Sum_probs=74.9
Q ss_pred HHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCc
Q 011352 347 LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTN 426 (488)
Q Consensus 347 Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ 426 (488)
.+..+...+.++.+..++.+|++|++++|+..++++. +++|..|.+||.+|.|+|+|||.+|+|.+.+...-+ .
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 3567788889999999999999999999999999988 799999999999999999999999999999875544 4
Q ss_pred cccHHHHHHHHH
Q 011352 427 EPQLAFNSRIAF 438 (488)
Q Consensus 427 ep~~~l~~rI~~ 438 (488)
++++.+.+++..
T Consensus 76 ~~~~~~~~~l~~ 87 (88)
T smart00753 76 EPLAQFAETLKK 87 (88)
T ss_pred hHHHHHHHHhhc
Confidence 567777776653
No 15
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=4.2e-09 Score=104.44 Aligned_cols=220 Identities=18% Similarity=0.223 Sum_probs=147.4
Q ss_pred HHHHccCCHHHHHHHHhcC---CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHH
Q 011352 210 RNYLHYNLYDQAEKLRSKA---PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAI 286 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~---~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lI 286 (488)
|.++..+.|-+|....++. .|-+.--.+..+.||-..-+|..+++.|-++..||...+.. ....+ .-.|+..
T Consensus 179 rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~t-~~~~~----d~Akwk~ 253 (439)
T COG5071 179 RLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDT-AVVQE----DPAKWKE 253 (439)
T ss_pred HHHHhccchHHHHHHHHHHHHHHhccccHHHHHHHHHHHhheeecccHHHHHHHHHHHHHHHH-HHhcc----Ccccccc
Confidence 4555556666665554443 22222223567899999999999999999999999988863 22100 0112222
Q ss_pred HHHH-----hcCCCCC--cchhcchh-h-h-hhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcC-------cchHHHH
Q 011352 287 IVRL-----LLGEIPE--RTVFMQKG-M-E-KALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSD-------RTNNLIV 349 (488)
Q Consensus 287 lv~L-----L~G~iP~--~~ll~~~~-l-~-~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D-------~~~~Lv~ 349 (488)
+++- ++..... ..++.+.. . + ..+..-.+++..+-...+-.+-.+-+.|...+..+ .+-.-+.
T Consensus 254 VLS~~v~F~iLtpy~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~ 333 (439)
T COG5071 254 VLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWS 333 (439)
T ss_pred hhhcceeeEEecccccHHHHHHHHhhhhhhhccchhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHH
Confidence 2220 0110000 00111100 0 0 12334456777777777777777777776655444 3334588
Q ss_pred HHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCcccc
Q 011352 350 RLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQ 429 (488)
Q Consensus 350 rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~ 429 (488)
.|+..|++|++|.|+..||+|++..+...+.++. .++|..++.|+..|.+.|+|+++.|+|.|..+..+ .+-+
T Consensus 334 DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~----s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n~---~~~l 406 (439)
T COG5071 334 DLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSP----SETEQFISDLVNKGHFYAKINRPAQIISFEKSQNV---QEQL 406 (439)
T ss_pred HHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCH----HHHHHHHHHHHhcCcEEEEecCccceEEeeccccH---HHHH
Confidence 8999999999999999999999999999998887 89999999999999999999999999999987653 3455
Q ss_pred HHHHHHHHHHHH
Q 011352 430 LAFNSRIAFCLN 441 (488)
Q Consensus 430 ~~l~~rI~~~l~ 441 (488)
..|...+..+|.
T Consensus 407 neW~~NV~ellg 418 (439)
T COG5071 407 NEWGSNVTELLG 418 (439)
T ss_pred HHhcccHHHHHH
Confidence 666666665554
No 16
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=0.00069 Score=68.65 Aligned_cols=174 Identities=17% Similarity=0.170 Sum_probs=123.3
Q ss_pred HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCc--chhcchhhh---hhhhh
Q 011352 238 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPER--TVFMQKGME---KALRP 312 (488)
Q Consensus 238 ~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~--~ll~~~~l~---~~l~~ 312 (488)
-.=||.-|.|+..+.-+||++|...|..++...-+.-.----.+..|.|.++++.=+-|+. .+...+..- ..+.+
T Consensus 179 RrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l~~ 258 (393)
T KOG0687|consen 179 RRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKLPS 258 (393)
T ss_pred hhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcCch
Confidence 3457888999999999999999999999986444422333445667889999885333332 233333321 12445
Q ss_pred HHHHHHHHhcCCHHHHHHHHHH-cchhhhcCcchH-----HHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCC
Q 011352 313 YFELTNAVRIGDLELFKSVAEK-FSSTFSSDRTNN-----LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANP 386 (488)
Q Consensus 313 Y~~L~~Av~~Gdl~~f~~~l~~-~~~~f~~D~~~~-----Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d 386 (488)
-.+++...=..|...|=..+.. ....+..|..++ -+...|..++-+. -.+|..++|...|+..|++.
T Consensus 259 ~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~Ql----LESYrsl~l~~MA~aFgVSV--- 331 (393)
T KOG0687|consen 259 VSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQL----LESYRSLTLESMAKAFGVSV--- 331 (393)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhCchH---
Confidence 5666666666677777666633 355566554322 2445555555443 47899999999999999886
Q ss_pred hHHHHHHHHHHHHcCCcceEeeCCCcEEEEccc
Q 011352 387 VADAESIVSKAIRDGAIDATVDHANGWMVSKET 419 (488)
Q Consensus 387 ~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~ 419 (488)
+-++.=+++-|..|.++++||..+|+|....+
T Consensus 332 -efiDreL~rFI~~grL~ckIDrVnGVVEtNrp 363 (393)
T KOG0687|consen 332 -EFIDRELGRFIAAGRLHCKIDRVNGVVETNRP 363 (393)
T ss_pred -HHHHhHHHHhhccCceeeeeecccceeecCCc
Confidence 88999999999999999999999999987765
No 17
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=97.99 E-value=0.0023 Score=70.32 Aligned_cols=100 Identities=22% Similarity=0.257 Sum_probs=79.0
Q ss_pred HHHHHHhcCCHHHHHHHHHHcchhhhcCcc----h-HHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHH
Q 011352 315 ELTNAVRIGDLELFKSVAEKFSSTFSSDRT----N-NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 389 (488)
Q Consensus 315 ~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~----~-~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~ee 389 (488)
.-++|...||+..-...+-.+...|.-=.+ . -|.++++.--+|+-+-.-+..|..||+..+|....|+. ..
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 567888999999888855554444332222 2 34556666666676666777789999999999999987 79
Q ss_pred HHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 390 AESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 390 aE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
|-.||++||-...|.|++|++.++|.++.
T Consensus 735 VhsIiSkmiineEl~AslDqpt~~iv~hr 763 (843)
T KOG1076|consen 735 VHSIISKMIINEELHASLDQPTQCIVMHR 763 (843)
T ss_pred HHHHHHHHHHHHHhhhccCCCcceEEEee
Confidence 99999999999999999999999999987
No 18
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=0.01 Score=59.53 Aligned_cols=187 Identities=18% Similarity=0.267 Sum_probs=126.8
Q ss_pred HHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHh-cCC--C
Q 011352 219 DQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLL-LGE--I 295 (488)
Q Consensus 219 ~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL-~G~--i 295 (488)
+.+++++.+-- .-.-.=||.-|.|+..+..++|++|...|..++....++-.----.+..|.|.+.++ +-+ +
T Consensus 176 E~~~~~iEkGg-----DWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~di 250 (412)
T COG5187 176 EVADDIIEKGG-----DWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRDI 250 (412)
T ss_pred HHHHHHHHhCC-----CHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhhh
Confidence 44455555432 223355788999999999999999999999988644443333345567899999998 332 2
Q ss_pred CCcchhcchhh------hhhhhhHHHHHHHHhcCCHH-HHHHHHHHcchhhhcCcchH-----HHHHHHHHHHHHhHHHH
Q 011352 296 PERTVFMQKGM------EKALRPYFELTNAVRIGDLE-LFKSVAEKFSSTFSSDRTNN-----LIVRLRHNVIRTGLRNI 363 (488)
Q Consensus 296 P~~~ll~~~~l------~~~l~~Y~~L~~Av~~Gdl~-~f~~~l~~~~~~f~~D~~~~-----Lv~rLr~~vir~~ir~i 363 (488)
-. .++.+|.+ ...+....+++...=..|.. -|...+..+-..++.|...+ .+...|..|+- .+
T Consensus 251 kt-ki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYa----Ql 325 (412)
T COG5187 251 KT-KILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYA----QL 325 (412)
T ss_pred hh-hhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHH----HH
Confidence 22 23333321 11233444555555555555 67777777777666554322 23333433333 34
Q ss_pred HHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEccc
Q 011352 364 SISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 419 (488)
Q Consensus 364 ~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~ 419 (488)
-.+|..+||...|+..|++. +-++.-+++-|-+|.++..||+.+|+|....+
T Consensus 326 LESYr~lsl~sMA~tFgVSV----~yvdrDLg~FIp~~~LncvIDRvnGvVetnrp 377 (412)
T COG5187 326 LESYRLLSLESMAQTFGVSV----EYVDRDLGEFIPEGRLNCVIDRVNGVVETNRP 377 (412)
T ss_pred HHHHHHhhHHHHHHHhCccH----HHHhhhHHhhCCCCceeeeeecccceEeccCc
Confidence 47899999999999999887 88999999999999999999999999987654
No 19
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.60 E-value=0.0039 Score=62.79 Aligned_cols=208 Identities=17% Similarity=0.144 Sum_probs=127.3
Q ss_pred ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHH
Q 011352 132 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 211 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~ 211 (488)
.|++++|..+..+........+.. .-.|+.|.--+.++... +...+...+..+....+...+....+-....+-++
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 467888888777776554443222 23344444444444444 55566666666666555556666666666778888
Q ss_pred HHcc-CCHHHHHHHHhcC-CCC-ccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc--hhhHHHHHHHHH
Q 011352 212 YLHY-NLYDQAEKLRSKA-PRF-EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA--LGFRVQCNKWAI 286 (488)
Q Consensus 212 Yl~~-~~~~~a~~li~~~-~~p-e~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~--~~~~~~alK~lI 286 (488)
|-.. ++++.|-...... ..- ..-........+--.|.+++..++|.+|.+.|+.+...+-... .......+-..+
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 8999888766664 221 1124455667777899999999999999999999998654422 223444555678
Q ss_pred HHHHhcCCCCCc-chhcch-----hhh--hhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCc
Q 011352 287 IVRLLLGEIPER-TVFMQK-----GME--KALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDR 343 (488)
Q Consensus 287 lv~LL~G~iP~~-~ll~~~-----~l~--~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~ 343 (488)
+|.|.+|+.... ..+... .+. +...--..|++|++.||...|.+++..|...=.-|+
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 899999985432 122211 111 123334589999999999999999999987544443
No 20
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.55 E-value=0.014 Score=61.05 Aligned_cols=204 Identities=14% Similarity=0.087 Sum_probs=125.2
Q ss_pred HHHHccCCHHHHHHHHhcC-CCC---ccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHH-HhCC--ccchhhHHHHH
Q 011352 210 RNYLHYNLYDQAEKLRSKA-PRF---EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA-RKAP--VAALGFRVQCN 282 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~-~~p---e~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~-~~~P--~~~~~~~~~al 282 (488)
+.-+-.+++..-...+++. +.| ++....--.+-.=+.|..+...++|+.|..+|..+- .+|. ...++.=+.+|
T Consensus 195 ~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iY 274 (466)
T KOG0686|consen 195 LVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIY 274 (466)
T ss_pred HHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccCccceecchhhHHH
Confidence 4455566777766777765 333 211111112234578999999999999988877664 3333 11122222333
Q ss_pred HHHHHHHHh-cCCCC-Ccchhcchhhh--hhhh-hHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcch-HHHHHHHHHHH
Q 011352 283 KWAIIVRLL-LGEIP-ERTVFMQKGME--KALR-PYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRHNVI 356 (488)
Q Consensus 283 K~lIlv~LL-~G~iP-~~~ll~~~~l~--~~l~-~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr~~vi 356 (488)
-- +|-|- +++-- .+.+..+-.++ -.+. ...++...|-++-....-+.+.+.+..+.-|--. ..|..|...+.
T Consensus 275 gg--LcALAtfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR 352 (466)
T KOG0686|consen 275 GG--LCALATFDRQDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIR 352 (466)
T ss_pred Hh--hHhhccCCHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchhHHHHHHHHH
Confidence 22 22221 11100 00011111111 1222 3567888888887777777777766554444322 33555555555
Q ss_pred HHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEccc
Q 011352 357 RTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 419 (488)
Q Consensus 357 r~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~ 419 (488)
.+.+.+...+|+.++++.+|.+.+.+. ...|.-|-.+|.+|.|.|+||+..+++...+.
T Consensus 353 ~r~llqy~~py~s~~m~~mA~af~~sv----~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~ 411 (466)
T KOG0686|consen 353 NRALLQYLSPYSSADMSKMAEAFNTSV----AILESELLELILEGKISGRIDSHNKILYARDA 411 (466)
T ss_pred HhhHHHhcCccccchHHHHHHHhcccH----HHHHHHHHHHHHccchheeeccccceeeeccc
Confidence 566777788999999999999999877 89999999999999999999999999887754
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=97.32 E-value=0.013 Score=61.90 Aligned_cols=180 Identities=20% Similarity=0.145 Sum_probs=117.8
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcCCCCcc----CChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc------
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKAPRFEA----HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA------ 274 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~~~pe~----~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~------ 274 (488)
+..|+|.+.-.|+|.+|.+.++...+-.. .-+.-.++.+||.|--|+..++|.+|.+.|..++...-...
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 45688999999999999999998754221 12344567789999999999999999999988874211111
Q ss_pred -------hhhHHHHHHHHHHHHHhc-CCCCCcchhcchhhhhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCc---
Q 011352 275 -------LGFRVQCNKWAIIVRLLL-GEIPERTVFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDR--- 343 (488)
Q Consensus 275 -------~~~~~~alK~lIlv~LL~-G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~--- 343 (488)
.+...+.+-.+.+|..|. +++|+. +..+ + =.-|.+=......||++.|++....-...|+.-.
T Consensus 205 ~~q~d~i~K~~eqMyaLlAic~~l~p~~lde~-i~~~--l---keky~ek~~kmq~gd~~~f~elF~~acPKFIsp~~pp 278 (404)
T PF10255_consen 205 SYQYDQINKKNEQMYALLAICLSLCPQRLDES-ISSQ--L---KEKYGEKMEKMQRGDEEAFEELFSFACPKFISPVSPP 278 (404)
T ss_pred cchhhHHHhHHHHHHHHHHHHHHhCCCCCCHH-HHHH--H---HHHHHHHHHHHHccCHHHHHHHHHhhCCCccCCCCCC
Confidence 123333344444444443 334441 1111 1 1237776777889999999999998776666522
Q ss_pred -------ch---H-------HHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHH
Q 011352 344 -------TN---N-------LIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIV 394 (488)
Q Consensus 344 -------~~---~-------Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~il 394 (488)
++ . .+..+++...-..||..-+.|++|+++.+|.-++++. +++...+
T Consensus 279 ~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~----~~lr~~L 342 (404)
T PF10255_consen 279 DYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDE----EELRSQL 342 (404)
T ss_pred CcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCH----HHHHHHH
Confidence 11 1 1333333333456777788999999999999998865 5554433
No 22
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=96.87 E-value=0.29 Score=50.17 Aligned_cols=117 Identities=19% Similarity=0.291 Sum_probs=82.0
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhH-H--HHHHhhccccHHHHHHHhcCCCCCChHH
Q 011352 313 YFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGL-R--NISISYSRISLADVAKKLRLDSANPVAD 389 (488)
Q Consensus 313 Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~i-r--~i~~~YsrIsL~dIa~~L~l~~~~d~ee 389 (488)
..++...|-+|-+..+.+..+.+.......| ++.. +++-|-.+ - .+...-..||+.++++.|+++. +|
T Consensus 240 i~qLL~IF~s~~L~aYveF~~~N~~Fvqs~g---l~~E--~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~e----de 310 (378)
T KOG2753|consen 240 IHQLLKIFVSGKLDAYVEFVAANSGFVQSQG---LVHE--QNMAKMRLLTLMSLAEESNEISYDTLAKELQINE----DE 310 (378)
T ss_pred HHHHHHHHHhcchHHHHHHHHhChHHHHHhc---ccHH--HHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCH----HH
Confidence 6789999999999999999999987555444 3333 22211111 1 1112337899999999999998 89
Q ss_pred HHHHHHHHHHcCCcceEeeCCCcEEEEcc-cCcccCCccccHHHHHHHHHH
Q 011352 390 AESIVSKAIRDGAIDATVDHANGWMVSKE-TGDIYSTNEPQLAFNSRIAFC 439 (488)
Q Consensus 390 aE~ila~mI~dG~I~A~Id~~~G~v~~~~-~~dv~s~~ep~~~l~~rI~~~ 439 (488)
+|-.|.++|+-|.|.|+|||-+..|+... ...++++. --..++.+.+.-
T Consensus 311 VE~fVIdaI~aklV~~kidq~~~~viVs~~~hR~FG~~-qW~~L~~kL~aw 360 (378)
T KOG2753|consen 311 VELFVIDAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQ-QWQQLRDKLAAW 360 (378)
T ss_pred HHHHHHHHHHHHHHHhhHHhhcceEEeehhhhhhcccH-HHHHHHHHHHHH
Confidence 99999999999999999999887666554 44555552 223444444443
No 23
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=96.68 E-value=0.011 Score=60.07 Aligned_cols=102 Identities=21% Similarity=0.232 Sum_probs=72.6
Q ss_pred hHHHHHHHH-hcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHH----HhhccccHHHHHHHhcCCCCCC
Q 011352 312 PYFELTNAV-RIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNIS----ISYSRISLADVAKKLRLDSANP 386 (488)
Q Consensus 312 ~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~----~~YsrIsL~dIa~~L~l~~~~d 386 (488)
|-.++..++ -+-|...-+..+..-++.+..|-. |+ -|+.-.+++.=.-|. .+...|+++-+|.+|+++.
T Consensus 290 PiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfF--Lv-a~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~~--- 363 (432)
T KOG2758|consen 290 PITEFLECLYVNYDFDGAQKKLRECEEVLVNDFF--LV-ALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMDP--- 363 (432)
T ss_pred cHHHHHHHHhhccchHHHHHHHHHHHHHHhcchh--HH-HHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCCH---
Confidence 344455553 556777777777777777776643 22 222223333222333 4447899999999999987
Q ss_pred hHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccC
Q 011352 387 VADAESIVSKAIRDGAIDATVDHANGWMVSKETG 420 (488)
Q Consensus 387 ~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~ 420 (488)
+|+|+.+.++|++..|+|+||.+-|-|....+.
T Consensus 364 -eeaErwivnlIr~~rl~AkidSklg~Vvmg~~~ 396 (432)
T KOG2758|consen 364 -EEAERWIVNLIRTARLDAKIDSKLGHVVMGHPT 396 (432)
T ss_pred -HHHHHHHHHHHHHhhhhhhhccccCceeecCCC
Confidence 999999999999999999999999998887664
No 24
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.42 E-value=2.4 Score=48.14 Aligned_cols=70 Identities=21% Similarity=0.262 Sum_probs=62.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 346 NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 346 ~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
.-|..|....+.++|+.+|.+|..||++.+.+..-+-++ -++|.++.++...|.+..+|||.++.|+|..
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 347778888999999999999999999998877665444 8999999999999999999999999999985
No 25
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=96.29 E-value=1.4 Score=50.01 Aligned_cols=234 Identities=12% Similarity=0.093 Sum_probs=119.3
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHH
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCN 282 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~al 282 (488)
.+.|.++..|.+.|.++.|..++..+.-|+.. +| --+...|+..|++.+|.+.|...... ++.-...
T Consensus 361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~------t~-n~lI~~y~~~G~~~~A~~lf~~M~~~------g~~Pd~~ 427 (697)
T PLN03081 361 VANTALVDLYSKWGRMEDARNVFDRMPRKNLI------SW-NALIAGYGNHGRGTKAVEMFERMIAE------GVAPNHV 427 (697)
T ss_pred eehHHHHHHHHHCCCHHHHHHHHHhCCCCCee------eH-HHHHHHHHHcCCHHHHHHHHHHHHHh------CCCCCHH
Confidence 44577888999999999999999887655332 22 23444566788999999999987752 1111122
Q ss_pred HHHHHHHHh--cCCCCCc-chhcc----hhhhhhhhhHHHHHHHH-hcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHH
Q 011352 283 KWAIIVRLL--LGEIPER-TVFMQ----KGMEKALRPYFELTNAV-RIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHN 354 (488)
Q Consensus 283 K~lIlv~LL--~G~iP~~-~ll~~----~~l~~~l~~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~ 354 (488)
.|..++.-+ .|.+-.- .+|.. ....+....|..++.++ +.|++.+-.+.+++.. +..+. .....|...
T Consensus 428 T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~--~~p~~--~~~~~Ll~a 503 (697)
T PLN03081 428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP--FKPTV--NMWAALLTA 503 (697)
T ss_pred HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC--CCCCH--HHHHHHHHH
Confidence 233343333 2443331 12221 12234455688888887 6788777666665431 22221 111111111
Q ss_pred HHHHh--------HHHHHHhh--ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccC
Q 011352 355 VIRTG--------LRNISISY--SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYS 424 (488)
Q Consensus 355 vir~~--------ir~i~~~Y--srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s 424 (488)
+-+++ ..++...- ..-+..-+...+.-.+ .+++|+.+...|-..|.- ..++-.|+......-.+.
T Consensus 504 ~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G--~~~~A~~v~~~m~~~g~~---k~~g~s~i~~~~~~~~f~ 578 (697)
T PLN03081 504 CRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSG--RQAEAAKVVETLKRKGLS---MHPACTWIEVKKQDHSFF 578 (697)
T ss_pred HHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCC--CHHHHHHHHHHHHHcCCc---cCCCeeEEEECCeEEEEc
Confidence 11111 11111100 0011111222111111 358999999999999863 222223455444333333
Q ss_pred CccccHHHHHHHHHHHHhhHHHHHhcCCCCCCCc
Q 011352 425 TNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHK 458 (488)
Q Consensus 425 ~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~ 458 (488)
..+........|-..++--.+-++..-|-|+..-
T Consensus 579 ~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~ 612 (697)
T PLN03081 579 SGDRLHPQSREIYQKLDELMKEISEYGYVAEENE 612 (697)
T ss_pred cCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcch
Confidence 3333333334555444433335666778777543
No 26
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.21 E-value=0.2 Score=45.01 Aligned_cols=125 Identities=19% Similarity=0.092 Sum_probs=80.2
Q ss_pred HHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHH
Q 011352 129 LIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLL 208 (488)
Q Consensus 129 l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~l 208 (488)
.++.++...+......+++. + ..+. ......+..+.++-..|++.++...|..+.... .++.......-.+
T Consensus 21 ~~~~~~~~~~~~~~~~l~~~---~-~~s~--ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~d~~l~~~a~l~L 91 (145)
T PF09976_consen 21 ALQAGDPAKAEAAAEQLAKD---Y-PSSP--YAALAALQLAKAAYEQGDYDEAKAALEKALANA---PDPELKPLARLRL 91 (145)
T ss_pred HHHCCCHHHHHHHHHHHHHH---C-CCCh--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---CCHHHHHHHHHHH
Confidence 33567777655444444332 2 2221 111223444444446788999888887776533 2222222223347
Q ss_pred HHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHH
Q 011352 209 LRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 267 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~ 267 (488)
-++++..+.|+.|...+..... ......+....|.|+..+|++.+|...|..|+
T Consensus 92 A~~~~~~~~~d~Al~~L~~~~~-----~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al 145 (145)
T PF09976_consen 92 ARILLQQGQYDEALATLQQIPD-----EAFKALAAELLGDIYLAQGDYDEARAAYQKAL 145 (145)
T ss_pred HHHHHHcCCHHHHHHHHHhccC-----cchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence 7899999999999999976432 22344577899999999999999999999874
No 27
>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=95.93 E-value=0.64 Score=44.67 Aligned_cols=163 Identities=14% Similarity=0.041 Sum_probs=99.3
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccH
Q 011352 122 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 201 (488)
Q Consensus 122 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~ 201 (488)
++-....++..++|++|......+++. +...- ....+++..+.++...++..++...+..+.+.... +...
T Consensus 36 ~~~~g~~~~~~~~~~~A~~~~~~~~~~----~p~~~--~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~-- 106 (235)
T TIGR03302 36 LYEEAKEALDSGDYTEAIKYFEALESR----YPFSP--YAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDA-- 106 (235)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCch--hHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCch--
Confidence 344455677889999988876655432 22221 22234677788888889999888888777654321 1111
Q ss_pred HHHHHHHHHHHHcc--------CCHHHHHHHHhcC--CCCccCChh-----------HHHHHHHHHHHHHHHhhcHHHHH
Q 011352 202 ETLLNLLLRNYLHY--------NLYDQAEKLRSKA--PRFEAHSNQ-----------QFCRYLFYLGKIRTIQLEYTDAK 260 (488)
Q Consensus 202 ~~l~n~llr~Yl~~--------~~~~~a~~li~~~--~~pe~~~~~-----------~~v~Y~YY~Gri~~~~~dy~~A~ 260 (488)
......+-..|+.. +.++.|...+.+. .+|.+.... ....+.+..|.++..+++|.+|.
T Consensus 107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~ 186 (235)
T TIGR03302 107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAI 186 (235)
T ss_pred HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHH
Confidence 11112222344433 6788888877764 345432111 12234568899999999999999
Q ss_pred HHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCC
Q 011352 261 ESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEI 295 (488)
Q Consensus 261 ~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~i 295 (488)
..|..++..+|.. ++...++..+..+..-+|+.
T Consensus 187 ~~~~~al~~~p~~--~~~~~a~~~l~~~~~~lg~~ 219 (235)
T TIGR03302 187 NRFETVVENYPDT--PATEEALARLVEAYLKLGLK 219 (235)
T ss_pred HHHHHHHHHCCCC--cchHHHHHHHHHHHHHcCCH
Confidence 9999999987764 33344555555544445654
No 28
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=95.61 E-value=0.047 Score=42.61 Aligned_cols=60 Identities=18% Similarity=0.125 Sum_probs=49.7
Q ss_pred HHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 209 LRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
..+|++.++++.|...+... ..|+ ....+++.|.++...++|.+|.+.|..++..+|...
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~------~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~ 63 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPD------DPELWLQRARCLFQLGRYEEALEDLERALELSPDDP 63 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCcc------cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence 46899999999999988885 3354 334478899999999999999999999999988643
No 29
>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=95.37 E-value=0.039 Score=36.47 Aligned_cols=32 Identities=25% Similarity=0.300 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.++|+.|.++...++|.+|.++|..|+...|.
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 57899999999999999999999999998774
No 30
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.35 E-value=0.97 Score=46.64 Aligned_cols=194 Identities=13% Similarity=0.042 Sum_probs=111.4
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHH
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 204 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l 204 (488)
....+...|++++|......++.. .... +.....+++..+.++-..|+..++...+..+... .. .....
T Consensus 75 la~~~~~~g~~~~A~~~~~~~l~~----~~~~-~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~----~~--~~~~~ 143 (389)
T PRK11788 75 LGNLFRRRGEVDRAIRIHQNLLSR----PDLT-REQRLLALQELGQDYLKAGLLDRAEELFLQLVDE----GD--FAEGA 143 (389)
T ss_pred HHHHHHHcCcHHHHHHHHHHHhcC----CCCC-HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC----Cc--chHHH
Confidence 344556789999999887766542 1111 1112234555666666778888887666665432 11 11233
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHH
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCN 282 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~al 282 (488)
.+.+...|.+.++++.|...+.... .|.. +......|++-.|.++..++++.+|..+|..++...|.... ++
T Consensus 144 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~-----~~ 217 (389)
T PRK11788 144 LQQLLEIYQQEKDWQKAIDVAERLEKLGGDS-LRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVR-----AS 217 (389)
T ss_pred HHHHHHHHHHhchHHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHH-----HH
Confidence 4556778999999999988777642 2221 22245566777899999999999999999999986665321 22
Q ss_pred HHHHHHHHhcCCCCCc-chhcchh-hhhh--hhhHHHHHHHH-hcCCHHHHHHHHHHc
Q 011352 283 KWAIIVRLLLGEIPER-TVFMQKG-MEKA--LRPYFELTNAV-RIGDLELFKSVAEKF 335 (488)
Q Consensus 283 K~lIlv~LL~G~iP~~-~ll~~~~-l~~~--l~~Y~~L~~Av-~~Gdl~~f~~~l~~~ 335 (488)
-.+.-+-.-.|+.... ..+..-. ..+. ...+..++.++ ..|+...-.+.+++.
T Consensus 218 ~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~ 275 (389)
T PRK11788 218 ILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRA 275 (389)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 2222222225665442 1222110 0011 12244555555 567776666655553
No 31
>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=95.19 E-value=1.3 Score=49.38 Aligned_cols=143 Identities=16% Similarity=-0.014 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHH----hhh------------hhhHH---------HHHHHHHHHHHHHH
Q 011352 118 EIYCYLLVLIFLIDKKRYNEAKACSSASIARLK----NMN------------RRTVD---------VLAARLYFYYSLCY 172 (488)
Q Consensus 118 e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~----~~~------------~r~ld---------~l~ak~~~y~s~~~ 172 (488)
....+......++..|++++|.....+++..-. .+. ..... .-.+.+|+..+.++
T Consensus 330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~ 409 (615)
T TIGR00990 330 EAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLH 409 (615)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 334455556666778899999988877664210 000 00000 00022233444444
Q ss_pred HhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHH
Q 011352 173 ELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIR 250 (488)
Q Consensus 173 e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~ 250 (488)
-..|+..++...+..+... ++.... ....+-..|++.|.++.|...++.. .+|.. ...+++.|.++
T Consensus 410 ~~~g~~~~A~~~~~kal~l-----~P~~~~-~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~------~~~~~~lg~~~ 477 (615)
T TIGR00990 410 FIKGEFAQAGKDYQKSIDL-----DPDFIF-SHIQLGVTQYKEGSIASSMATFRRCKKNFPEA------PDVYNYYGELL 477 (615)
T ss_pred HHcCCHHHHHHHHHHHHHc-----CccCHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------hHHHHHHHHHH
Confidence 4455555554444443321 111111 1223445667777777777776664 23322 23356778888
Q ss_pred HHhhcHHHHHHHHHHHHHhCCc
Q 011352 251 TIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 251 ~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
...++|.+|..+|..|+...|.
T Consensus 478 ~~~g~~~~A~~~~~~Al~l~p~ 499 (615)
T TIGR00990 478 LDQNKFDEAIEKFDTAIELEKE 499 (615)
T ss_pred HHccCHHHHHHHHHHHHhcCCc
Confidence 8888888888888888876665
No 32
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.17 E-value=2.4 Score=42.63 Aligned_cols=148 Identities=15% Similarity=0.085 Sum_probs=97.9
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHHhhhcCCccc
Q 011352 122 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELT-GDLAEIRGNLLALHRIATLRHDELG 200 (488)
Q Consensus 122 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~-~~l~~~r~~L~~~~rta~~~~~~~~ 200 (488)
.+.-....+...++.+|..+..+.+......++- ...|+++.-.+.++|.. ++.+.+......+.........+..
T Consensus 77 ~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~---~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~ 153 (282)
T PF14938_consen 77 AYEEAANCYKKGDPDEAIECYEKAIEIYREAGRF---SQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHS 153 (282)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-H---HHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcH---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhh
Confidence 3444444555558888888888888776655433 34566677777777777 7788777766666544443333333
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCc-cCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 201 QETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 201 ~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe-~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..-+...+-..|.+.++|+.|-.+.... ...+ ....-..-.|+.-.|.+++..+|+..|...|......+|.
T Consensus 154 a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~ 228 (282)
T PF14938_consen 154 AAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPS 228 (282)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence 4444455677899999999999988774 1111 2223334467888999999999999999999999877787
No 33
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=95.04 E-value=0.074 Score=40.67 Aligned_cols=58 Identities=22% Similarity=0.156 Sum_probs=48.1
Q ss_pred HHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 209 LRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
-+.|+..|+++.|...++.. ..| +....+|..|.++..+++|.+|..+|..++...|.
T Consensus 4 a~~~~~~g~~~~A~~~~~~~l~~~P------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~ 63 (65)
T PF13432_consen 4 ARALYQQGDYDEAIAAFEQALKQDP------DNPEAWYLLGRILYQQGRYDEALAYYERALELDPD 63 (65)
T ss_dssp HHHHHHCTHHHHHHHHHHHHHCCST------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHCC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 35788999999999988875 334 25667899999999999999999999999998875
No 34
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.00 E-value=2.4 Score=43.71 Aligned_cols=131 Identities=15% Similarity=0.058 Sum_probs=82.4
Q ss_pred HHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHH
Q 011352 126 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 205 (488)
Q Consensus 126 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~ 205 (488)
...+...|++++|..+....++. +... ..++.....++...++..++...+..+.... +.........+.
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 33445678999998877666542 1111 1123444555556777777766555543321 111111122233
Q ss_pred HHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..+...|++.|+++.|...+.+.. .|.. ...++..|.++...++|.+|..+|..+....|.
T Consensus 184 ~~la~~~~~~~~~~~A~~~~~~al~~~p~~------~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~ 246 (389)
T PRK11788 184 CELAQQALARGDLDAARALLKKALAADPQC------VRASILLGDLALAQGDYAAAIEALERVEEQDPE 246 (389)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHhHCcCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChh
Confidence 446678899999999998877742 2321 334678999999999999999999999975443
No 35
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=94.99 E-value=1.3 Score=40.84 Aligned_cols=130 Identities=17% Similarity=0.130 Sum_probs=85.2
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHH
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 204 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l 204 (488)
....++..+++++|.......++.- ... +.++...+.++...++..++...+..+..... ... ..
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 3445567899999998877765431 111 12244455666677888887777666654321 111 12
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcCC-CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~~-~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.+.+-..|+..|.++.|...+.... .+. ........+..|.++...+++.+|..+|..++...|.
T Consensus 102 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~ 167 (234)
T TIGR02521 102 LNNYGTFLCQQGKYEQAMQQFEQAIEDPL---YPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ 167 (234)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHhccc---cccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence 3345567889999999998877752 221 1122334566899999999999999999999986554
No 36
>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=94.93 E-value=0.076 Score=48.05 Aligned_cols=82 Identities=22% Similarity=0.306 Sum_probs=57.6
Q ss_pred hhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChH
Q 011352 309 ALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVA 388 (488)
Q Consensus 309 ~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~e 388 (488)
.+..-..|.+++.+|+..+|-..++.+. +. +....++..+...+.+.-+.-|+.+|++|++++++..||++. +
T Consensus 40 ~i~~i~~l~~~L~~~~~~~~~~~~~~~~--~~-~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~----~ 112 (143)
T PF10075_consen 40 EIKAIWSLGQALWEGDYSKFWQALRSNP--WS-PDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSE----E 112 (143)
T ss_dssp THHHHHHHHHHHHTT-HHHHHHHS-TT-------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-H----H
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHhcc--ch-HHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCH----H
Confidence 4455568999999999999988777651 11 122244566667777777889999999999999999999994 8
Q ss_pred HHHHHHHHH
Q 011352 389 DAESIVSKA 397 (488)
Q Consensus 389 eaE~ila~m 397 (488)
+++.++.+-
T Consensus 113 el~~~~~~~ 121 (143)
T PF10075_consen 113 ELEKFIKSR 121 (143)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHc
Confidence 888888776
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=94.40 E-value=0.6 Score=35.57 Aligned_cols=92 Identities=18% Similarity=0.134 Sum_probs=57.4
Q ss_pred HHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHH
Q 011352 168 YSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFY 245 (488)
Q Consensus 168 ~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY 245 (488)
.+.++...++..++...+..+.+.. .... .....+-..|...++++.|...+... ..|... ..++.
T Consensus 6 ~a~~~~~~~~~~~A~~~~~~~~~~~----~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~ 73 (100)
T cd00189 6 LGNLYYKLGDYDEALEYYEKALELD----PDNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA------KAYYN 73 (100)
T ss_pred HHHHHHHHhcHHHHHHHHHHHHhcC----CccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch------hHHHH
Confidence 3333444566666665555554321 1111 22334556677778888888877664 122211 45678
Q ss_pred HHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 246 LGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 246 ~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
.|.++...+++.+|..++..+++.+|
T Consensus 74 ~~~~~~~~~~~~~a~~~~~~~~~~~~ 99 (100)
T cd00189 74 LGLAYYKLGKYEEALEAYEKALELDP 99 (100)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHccCC
Confidence 88899999999999999999887665
No 38
>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=94.19 E-value=0.23 Score=39.34 Aligned_cols=66 Identities=26% Similarity=0.181 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcC-CCCccC--ChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKA-PRFEAH--SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe~~--~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
...+.+-.+|...++|+.|....+++ ..-+.. ...+.+.-++-.|.++...++|.+|..++++|+.
T Consensus 6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 34455667888889999888877775 221112 2345688899999999999999999999999986
No 39
>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=94.07 E-value=1.2 Score=38.78 Aligned_cols=34 Identities=18% Similarity=-0.086 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
...+|+.|.++...++|.+|..+|..+++..|..
T Consensus 85 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~ 118 (135)
T TIGR02552 85 PRPYFHAAECLLALGEPESALKALDLAIEICGEN 118 (135)
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence 3446899999999999999999999999987763
No 40
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=94.05 E-value=4 Score=37.50 Aligned_cols=128 Identities=13% Similarity=0.058 Sum_probs=84.0
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHH
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 204 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l 204 (488)
....+...|++++|.+.....++.-.. .. .+++.++.++...++..++...+..+.+... .......
T Consensus 71 la~~~~~~~~~~~A~~~~~~al~~~~~----~~-----~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~ 137 (234)
T TIGR02521 71 LALYYQQLGELEKAEDSFRRALTLNPN----NG-----DVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL----YPQPARS 137 (234)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCCC----CH-----HHHHHHHHHHHHcccHHHHHHHHHHHHhccc----cccchHH
Confidence 344556678999999887777654221 11 1244455556667888888777776654211 1111222
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
...+-..|...|+++.|...+.+. ..|.. ...++..|.++...++|.+|..++..++...|
T Consensus 138 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~ 200 (234)
T TIGR02521 138 LENAGLCALKAGDFDKAEKYLTRALQIDPQR------PESLLELAELYYLRGQYKDARAYLERYQQTYN 200 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence 333556789999999999887774 22322 23456889999999999999999999997533
No 41
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=93.75 E-value=2.8 Score=39.94 Aligned_cols=161 Identities=11% Similarity=0.027 Sum_probs=89.9
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHH-H
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE-T 203 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~-~ 203 (488)
.....+..|+|.+|.+....++...-.- .+...+.+....++-..++...+...+-...+. -+.|.....+ +
T Consensus 11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s------~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~-yP~~~~~~~A~Y 83 (203)
T PF13525_consen 11 KALEALQQGDYEEAIKLFEKLIDRYPNS------PYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL-YPNSPKADYALY 83 (203)
T ss_dssp HHHHHHHCT-HHHHHHHHHHHHHH-TTS------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--TT-TTHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCCC------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCCcchhhHHH
Confidence 3456778899999998888777663321 112223455566666778888777665555433 3333332222 2
Q ss_pred H-HHHHHHH-------HHccCCHHHHHHHHhcC--CCCcc-----------CChhHHHHHHHHHHHHHHHhhcHHHHHHH
Q 011352 204 L-LNLLLRN-------YLHYNLYDQAEKLRSKA--PRFEA-----------HSNQQFCRYLFYLGKIRTIQLEYTDAKES 262 (488)
Q Consensus 204 l-~n~llr~-------Yl~~~~~~~a~~li~~~--~~pe~-----------~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~ 262 (488)
+ ....+.. ....+....|...++.. .+|++ .-....+..-++.|+.|.-.++|..|...
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 2211111 12222233333333321 34543 12456778889999999999999999999
Q ss_pred HHHHHHhCCccchhhHHHHHHHHHHHHHhcCC
Q 011352 263 LLQAARKAPVAALGFRVQCNKWAIIVRLLLGE 294 (488)
Q Consensus 263 L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~ 294 (488)
+..++++.|.+. ....++.+++-...-+|.
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 999999999853 344566666555444553
No 42
>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=93.22 E-value=2.3 Score=47.55 Aligned_cols=125 Identities=17% Similarity=0.067 Sum_probs=84.4
Q ss_pred cccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHH
Q 011352 131 DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLR 210 (488)
Q Consensus 131 d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr 210 (488)
..++|++|.++....+..-. .+ .-.+.+|.+...++...++..++...+..+.... ...... ...+-.
T Consensus 306 ~~~~y~~A~~~~~~al~~~~-~~-----~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~----P~~~~~--~~~la~ 373 (615)
T TIGR00990 306 ADESYEEAARAFEKALDLGK-LG-----EKEAIALNLRGTFKCLKGKHLEALADLSKSIELD----PRVTQS--YIKRAS 373 (615)
T ss_pred hhhhHHHHHHHHHHHHhcCC-CC-----hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC----CCcHHH--HHHHHH
Confidence 45789999999888775321 11 1112235566677777888888887776665321 122222 123445
Q ss_pred HHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 211 NYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+|+..|+++.|...+.+. ..|.. ...+|..|.++...++|.+|..+|..|+...|..
T Consensus 374 ~~~~~g~~~eA~~~~~~al~~~p~~------~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~ 432 (615)
T TIGR00990 374 MNLELGDPDKAEEDFDKALKLNSED------PDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF 432 (615)
T ss_pred HHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence 678899999999887775 22322 2357889999999999999999999999877764
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=93.09 E-value=0.24 Score=32.83 Aligned_cols=32 Identities=22% Similarity=0.205 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.-+|..|.++...++|.+|..+|++|+...|.
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 35789999999999999999999999987663
No 44
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=93.04 E-value=16 Score=41.36 Aligned_cols=120 Identities=11% Similarity=0.115 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHH
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCN 282 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~al 282 (488)
.+.|.++..|.+.|.++.|..++.....+. .++| --+...|...+++.+|.+.|....+.- ......
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 FVSCALIDMYSKCGDIEDARCVFDGMPEKT------TVAW-NSMLAGYALHGYSEEALCLYYEMRDSG------VSIDQF 326 (697)
T ss_pred eeHHHHHHHHHHCCCHHHHHHHHHhCCCCC------hhHH-HHHHHHHHhCCCHHHHHHHHHHHHHcC------CCCCHH
Confidence 456778899999999999999998775442 2333 235555667899999999998876521 111112
Q ss_pred HHHHHHHHh--cCCCCCcc-hhc---chhhhhhhhhHHHHHHHH-hcCCHHHHHHHHHHc
Q 011352 283 KWAIIVRLL--LGEIPERT-VFM---QKGMEKALRPYFELTNAV-RIGDLELFKSVAEKF 335 (488)
Q Consensus 283 K~lIlv~LL--~G~iP~~~-ll~---~~~l~~~l~~Y~~L~~Av-~~Gdl~~f~~~l~~~ 335 (488)
.|..+++.+ .|.+..-. ++. +..+......|..|+.++ +.|++..-.++++.-
T Consensus 327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m 386 (697)
T PLN03081 327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM 386 (697)
T ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhC
Confidence 233333333 34443321 111 111222344567777776 567766665555543
No 45
>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=92.70 E-value=8.2 Score=43.41 Aligned_cols=100 Identities=18% Similarity=0.031 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHH
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQF 239 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~ 239 (488)
+.+++....++...++...+...+..+..... .... ....+...|+..+.++.|..++... ..|..
T Consensus 125 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~----~~~~--~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~------ 192 (899)
T TIGR02917 125 AELLALRGLAYLGLGQLELAQKSYEQALAIDP----RSLY--AKLGLAQLALAENRFDEARALIDEVLTADPGN------ 192 (899)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----CChh--hHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------
Confidence 44466666676677777777766665543221 1111 1223456788999999999988775 22321
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
...+++.|.++...++|.+|..+|..++...|..
T Consensus 193 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~ 226 (899)
T TIGR02917 193 VDALLLKGDLLLSLGNIELALAAYRKAIALRPNN 226 (899)
T ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCC
Confidence 3457788999999999999999999999877753
No 46
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=92.69 E-value=2.5 Score=47.76 Aligned_cols=130 Identities=23% Similarity=0.268 Sum_probs=87.3
Q ss_pred HHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHH
Q 011352 123 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 202 (488)
Q Consensus 123 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~ 202 (488)
++......-.++-++|..|..++ +.++.+.+-+|+.-.++++..+++.++...++.++-. ++...-
T Consensus 654 llaa~~~~~~~~~~~a~~CL~Ea---------~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l-----dP~hv~ 719 (799)
T KOG4162|consen 654 LLAADLFLLSGNDDEARSCLLEA---------SKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL-----DPDHVP 719 (799)
T ss_pred HHHHHHHHhcCCchHHHHHHHHH---------HhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc-----CCCCcH
Confidence 33333333345556666663332 3445777778888899999999999998888777532 222222
Q ss_pred HHHHHHHHHHHccCCHHHHHH--HHhcCC-CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 203 TLLNLLLRNYLHYNLYDQAEK--LRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~--li~~~~-~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.+ .-+-+.+++.|+...|.. +++.+- .....+ .-.||+|.++..+|+..+|-+||..|+.--++
T Consensus 720 s~-~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~-----eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S 786 (799)
T KOG4162|consen 720 SM-TALAELLLELGSPRLAEKRSLLSDALRLDPLNH-----EAWYYLGEVFKKLGDSKQAAECFQAALQLEES 786 (799)
T ss_pred HH-HHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCH-----HHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence 22 225567888998888877 666542 111111 23689999999999999999999999976554
No 47
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.58 E-value=18 Score=39.34 Aligned_cols=165 Identities=15% Similarity=0.024 Sum_probs=95.4
Q ss_pred HHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhh-hcCC
Q 011352 120 YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTV-DVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIAT-LRHD 197 (488)
Q Consensus 120 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~l-d~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~-~~~~ 197 (488)
++-+++++.+.. ++|.+|..-.....+-...+.++.+ -.-.+-+......=--..+..+++.... ++|+ +.+.
T Consensus 325 ~LE~iv~c~lv~-~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf----~~a~k~t~~ 399 (629)
T KOG2300|consen 325 LLEHIVMCRLVR-GDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHF----IEATKLTES 399 (629)
T ss_pred HHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHH----HHHHHhhhH
Confidence 444566666665 6888888776665555555543321 1222222221111000122333443333 3333 2344
Q ss_pred cccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccC---ChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 198 ELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAH---SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 198 ~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~---~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
.+.++++...+.-.|+..++-+--.+++.....+... +-......+|..|...+++++|.+|..++...+.-+ .+
T Consensus 400 ~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkma--na 477 (629)
T KOG2300|consen 400 IDLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMA--NA 477 (629)
T ss_pred HHHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc--ch
Confidence 4556555334566899988877777777776655432 334467789999999999999999999999999743 34
Q ss_pred hhhHHHHHHHHHHHHHh
Q 011352 275 LGFRVQCNKWAIIVRLL 291 (488)
Q Consensus 275 ~~~~~~alK~lIlv~LL 291 (488)
.++-+..--++++++.+
T Consensus 478 ed~~rL~a~~LvLLs~v 494 (629)
T KOG2300|consen 478 EDLNRLTACSLVLLSHV 494 (629)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 44444444455555544
No 48
>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=92.51 E-value=4.3 Score=38.19 Aligned_cols=114 Identities=18% Similarity=0.153 Sum_probs=73.8
Q ss_pred hhccHHHHHHHHHHHHHHhhhcCCcccH-HHHHHHHHHHHHccCCHHHHHHHHhcC-CCCcc-CChhHHHHHHHHHHHHH
Q 011352 174 LTGDLAEIRGNLLALHRIATLRHDELGQ-ETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFEA-HSNQQFCRYLFYLGKIR 250 (488)
Q Consensus 174 ~~~~l~~~r~~L~~~~rta~~~~~~~~~-~~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe~-~~~~~~v~Y~YY~Gri~ 250 (488)
..|+++++...+..+.--|+. .++ .-+.-.++|..+..+++....+.+.+. ..++. -+..-..+..=|.|..+
T Consensus 48 ~~Gd~~~A~k~y~~~~~~~~~----~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~ 123 (177)
T PF10602_consen 48 KIGDLEEALKAYSRARDYCTS----PGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLAN 123 (177)
T ss_pred HhhhHHHHHHHHHHHhhhcCC----HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence 356777776666655432221 111 122224778999999999999998886 33433 33455667888999999
Q ss_pred HHhhcHHHHHHHHHHHHHhCCc---cchhhHHHHHHHHHHHHHh
Q 011352 251 TIQLEYTDAKESLLQAARKAPV---AALGFRVQCNKWAIIVRLL 291 (488)
Q Consensus 251 ~~~~dy~~A~~~L~~A~~~~P~---~~~~~~~~alK~lIlv~LL 291 (488)
+.+++|.+|.+.|..+...... ...---..+-.|-++|.|.
T Consensus 124 l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d~a~Y~~l~aLa 167 (177)
T PF10602_consen 124 LAQRDFKEAAELFLDSLSTFTSLQYTELISYNDFAIYGGLCALA 167 (177)
T ss_pred HHhchHHHHHHHHHccCcCCCCCchhhhcCHHHHHHHHHHHHHH
Confidence 9999999999999988653322 1112233445566777665
No 49
>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=92.44 E-value=3.8 Score=46.12 Aligned_cols=132 Identities=19% Similarity=0.124 Sum_probs=81.8
Q ss_pred HHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHH
Q 011352 123 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 202 (488)
Q Consensus 123 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~ 202 (488)
+.....++.+|+|++|.....+.++. . .. .+..+++.+.++...|+.+++...+-.+.... .....
T Consensus 26 ~~~a~~~~~~~~~~~A~~~~~~~~~~---~-p~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~- 91 (899)
T TIGR02917 26 IEAAKSYLQKNKYKAAIIQLKNALQK---D-PN-----DAEARFLLGKIYLALGDYAAAEKELRKALSLG----YPKNQ- 91 (899)
T ss_pred HHHHHHHHHcCChHhHHHHHHHHHHh---C-CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC----CChhh-
Confidence 44455666789999998877666542 1 11 11235666777777888888877766664321 11111
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
....+.+.|...|.++.|...+..... .+.......++..|.++...++|.+|...|..++...|.
T Consensus 92 -~~~~~a~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~ 157 (899)
T TIGR02917 92 -VLPLLARAYLLQGKFQQVLDELPGKTL---LDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPR 157 (899)
T ss_pred -hHHHHHHHHHHCCCHHHHHHhhccccc---CCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence 122355677788888877766654321 112334555677788877788888888888888776665
No 50
>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=91.95 E-value=3.5 Score=34.28 Aligned_cols=103 Identities=18% Similarity=0.106 Sum_probs=68.5
Q ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHH
Q 011352 165 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRY 242 (488)
Q Consensus 165 ~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y 242 (488)
+|-.+......++..++...+..+.+.. +.+.. .......+-+.|++.++++.|...++.. ..|... .....
T Consensus 5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~ 78 (119)
T TIGR02795 5 YYDAALLVLKAGDYADAIQAFQAFLKKY-PKSTY--APNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSP---KAPDA 78 (119)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccc--cHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCC---cccHH
Confidence 4444455556677777777666664322 11111 1112233567899999999999988874 244321 11334
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
++..|.++...+++.+|..+|..++...|.+
T Consensus 79 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~ 109 (119)
T TIGR02795 79 LLKLGMSLQELGDKEKAKATLQQVIKRYPGS 109 (119)
T ss_pred HHHHHHHHHHhCChHHHHHHHHHHHHHCcCC
Confidence 7899999999999999999999999987763
No 51
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=91.66 E-value=18 Score=39.94 Aligned_cols=141 Identities=15% Similarity=0.080 Sum_probs=100.7
Q ss_pred CCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHh
Q 011352 113 PLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIA 192 (488)
Q Consensus 113 ~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta 192 (488)
..|..-+|++.+...++-..|++++|.++.+..|.. +....|. |..=++++...|++.++...+-.+ |..
T Consensus 188 ~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h----tPt~~el-----y~~KarilKh~G~~~~Aa~~~~~A-r~L 257 (517)
T PF12569_consen 188 EPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH----TPTLVEL-----YMTKARILKHAGDLKEAAEAMDEA-REL 257 (517)
T ss_pred CCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc----CCCcHHH-----HHHHHHHHHHCCCHHHHHHHHHHH-HhC
Confidence 356677777777777777789999999987766543 2222222 445566777899998888766666 332
Q ss_pred hhcCCcccH-HHHHHHHHHHHHccCCHHHHHHHHhcCCCCc-----cCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHH
Q 011352 193 TLRHDELGQ-ETLLNLLLRNYLHYNLYDQAEKLRSKAPRFE-----AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQA 266 (488)
Q Consensus 193 ~~~~~~~~~-~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe-----~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A 266 (488)
+++ =++-+.+.+.+|+.|.++.|..+++.-+.++ +..--|.+=|.-=.|.-|.-+|+|..|...|...
T Consensus 258 ------D~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v 331 (517)
T PF12569_consen 258 ------DLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV 331 (517)
T ss_pred ------ChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 111 1555678899999999999999877743322 2334466667778899999999999999999888
Q ss_pred HHh
Q 011352 267 ARK 269 (488)
Q Consensus 267 ~~~ 269 (488)
..+
T Consensus 332 ~k~ 334 (517)
T PF12569_consen 332 LKH 334 (517)
T ss_pred HHH
Confidence 764
No 52
>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=91.56 E-value=0.41 Score=36.77 Aligned_cols=59 Identities=22% Similarity=0.197 Sum_probs=44.1
Q ss_pred HHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhh-cHHHHHHHHHHHHHhCC
Q 011352 207 LLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQL-EYTDAKESLLQAARKAP 271 (488)
Q Consensus 207 ~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~-dy~~A~~~L~~A~~~~P 271 (488)
.+=..|+..++|+.|....++.. .| .....+|..|.++...+ +|.+|..++..|+..-|
T Consensus 8 ~~g~~~~~~~~~~~A~~~~~~ai~~~p------~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 8 NLGQIYFQQGDYEEAIEYFEKAIELDP------NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHTTHHHHHHHHHHHHHHHST------THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCC------CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 34456778888888877666641 12 22446889999999999 89999999999997554
No 53
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=91.42 E-value=0.42 Score=31.03 Aligned_cols=30 Identities=20% Similarity=0.275 Sum_probs=28.0
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+|..|+++...++|.+|...|...+...|.
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 578999999999999999999999998885
No 54
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=90.77 E-value=0.75 Score=37.08 Aligned_cols=54 Identities=20% Similarity=0.197 Sum_probs=40.6
Q ss_pred HHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHH
Q 011352 208 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQA 266 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A 266 (488)
+-.+|++.++|+.|-.++++. + ... ..+...|..|+++...++|.+|..+|..|
T Consensus 31 la~~~~~~~~y~~A~~~~~~~--~--~~~-~~~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 31 LAQCYFQQGKYEEAIELLQKL--K--LDP-SNPDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHTTHHHHHHHHHHCH--T--HHH-CHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHh--C--CCC-CCHHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 557889999999999988871 1 111 12555667799999999999999999865
No 55
>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=90.67 E-value=2.7 Score=39.77 Aligned_cols=124 Identities=16% Similarity=0.189 Sum_probs=67.1
Q ss_pred cHHHHHHHHHHHHHhCC-ccchhhHHHHHHHHHHHHHhcCCCCCcc----hhcchhhh-hhhhhHHHHHHHHhcCCHHHH
Q 011352 255 EYTDAKESLLQAARKAP-VAALGFRVQCNKWAIIVRLLLGEIPERT----VFMQKGME-KALRPYFELTNAVRIGDLELF 328 (488)
Q Consensus 255 dy~~A~~~L~~A~~~~P-~~~~~~~~~alK~lIlv~LL~G~iP~~~----ll~~~~l~-~~l~~Y~~L~~Av~~Gdl~~f 328 (488)
.|.+....|...+.... ...+.+..+..-|+++..+..|..++.. .+...... +.+.-=..+..|+..||...|
T Consensus 74 qf~~c~~~L~~lY~~~~~~~~~~~~~ef~~y~lL~~l~~~~~~~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~f 153 (204)
T PF03399_consen 74 QFNQCLSQLKELYDDLRDLPPSPNEAEFIAYYLLYLLCQNNIPDFHMELELLPSEILSSPYIQFALELCRALMEGNYVRF 153 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHT---TTHHHHHHHHHHHTT-T---THHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHHH
T ss_pred HHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHHHHcccchHHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHHH
Confidence 34444444444443221 1246778888888888665566555531 11111111 122222478899999999999
Q ss_pred HHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhhcc-ccHHHHHHHhcC
Q 011352 329 KSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSR-ISLADVAKKLRL 381 (488)
Q Consensus 329 ~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~Ysr-IsL~dIa~~L~l 381 (488)
-+.+......+.. -.++......+....++.++.+|.. ||++.++..|++
T Consensus 154 f~l~~~~~~~~l~---~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 154 FRLYRSKSAPYLF---ACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHHHT-TTS-HHH---HHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHhccCCChHH---HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 9888332222111 1344555666777888999999988 999999998863
No 56
>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=90.58 E-value=0.45 Score=37.54 Aligned_cols=47 Identities=23% Similarity=0.401 Sum_probs=35.5
Q ss_pred HHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCC
Q 011352 360 LRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 410 (488)
Q Consensus 360 ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~ 410 (488)
|+..-.-..++|+.+||..++++. +.+|.++..+|+.|+|.-.-+..
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 344445568899999999999987 99999999999999997555443
No 57
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=90.33 E-value=2.6 Score=42.80 Aligned_cols=186 Identities=17% Similarity=0.155 Sum_probs=106.2
Q ss_pred HHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcc
Q 011352 120 YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDEL 199 (488)
Q Consensus 120 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~ 199 (488)
+..++....++..|++++|+++... ..+++.+.-.|..|. ..++..-+...+-...+ ..+..
T Consensus 103 ~~~~~~A~i~~~~~~~~~AL~~l~~---------~~~lE~~al~Vqi~L-----~~~R~dlA~k~l~~~~~----~~eD~ 164 (290)
T PF04733_consen 103 IVQLLAATILFHEGDYEEALKLLHK---------GGSLELLALAVQILL-----KMNRPDLAEKELKNMQQ----IDEDS 164 (290)
T ss_dssp HHHHHHHHHHCCCCHHHHHHCCCTT---------TTCHHHHHHHHHHHH-----HTT-HHHHHHHHHHHHC----CSCCH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHc---------cCcccHHHHHHHHHH-----HcCCHHHHHHHHHHHHh----cCCcH
Confidence 4456666677778999998877332 134555543333332 46666666655544422 12333
Q ss_pred cHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHH
Q 011352 200 GQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRV 279 (488)
Q Consensus 200 ~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~ 279 (488)
+..-++.-.+..+.-.+.+..|-.+..... +.++... .=+.-.+..++.+++|.+|...|.+|+.+-|. -.
T Consensus 165 ~l~qLa~awv~l~~g~e~~~~A~y~f~El~--~~~~~t~--~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-----~~ 235 (290)
T PF04733_consen 165 ILTQLAEAWVNLATGGEKYQDAFYIFEELS--DKFGSTP--KLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-----DP 235 (290)
T ss_dssp HHHHHHHHHHHHHHTTTCCCHHHHHHHHHH--CCS--SH--HHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-----HH
T ss_pred HHHHHHHHHHHHHhCchhHHHHHHHHHHHH--hccCCCH--HHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-----CH
Confidence 333344444555555567888877766631 1111111 11456788889999999999999999875333 24
Q ss_pred HHHHHHHHHHHhcCCCCCc-chhcchhhhhhhhhHHHHHHHHhcCCHHHHHHHHHHc
Q 011352 280 QCNKWAIIVRLLLGEIPER-TVFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKF 335 (488)
Q Consensus 280 ~alK~lIlv~LL~G~iP~~-~ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~ 335 (488)
.++-.+|+|..++|+-++. ..+.+. + +...|-.+++..+..- -..|++++.+|
T Consensus 236 d~LaNliv~~~~~gk~~~~~~~~l~q-L-~~~~p~h~~~~~~~~~-~~~FD~~~~ky 289 (290)
T PF04733_consen 236 DTLANLIVCSLHLGKPTEAAERYLSQ-L-KQSNPNHPLVKDLAEK-EAEFDRAVAKY 289 (290)
T ss_dssp HHHHHHHHHHHHTT-TCHHHHHHHHH-C-HHHTTTSHHHHHHHHH-HHHHHHHHHCC
T ss_pred HHHHHHHHHHHHhCCChhHHHHHHHH-H-HHhCCCChHHHHHHHH-HHHHHHHHHhc
Confidence 5677889999999998652 111111 1 1233445566666543 35788877766
No 58
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=90.10 E-value=5.4 Score=35.86 Aligned_cols=93 Identities=13% Similarity=-0.014 Sum_probs=62.7
Q ss_pred HHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHH
Q 011352 169 SLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYL 246 (488)
Q Consensus 169 s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~ 246 (488)
+.+.-..|+..++...+..+.+ ..... ....+.+-..+...|+++.|........ .|. ....++..
T Consensus 31 g~~~~~~g~~~~A~~~~~~al~----~~P~~--~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~------~~~a~~~l 98 (144)
T PRK15359 31 GYASWQEGDYSRAVIDFSWLVM----AQPWS--WRAHIALAGTWMMLKEYTTAINFYGHALMLDAS------HPEPVYQT 98 (144)
T ss_pred HHHHHHcCCHHHHHHHHHHHHH----cCCCc--HHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC------CcHHHHHH
Confidence 3444456777766554444432 11111 1222334456788999999999888752 232 23458899
Q ss_pred HHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 247 GKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 247 Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
|.++...|++.+|...|..|+..+|..
T Consensus 99 g~~l~~~g~~~eAi~~~~~Al~~~p~~ 125 (144)
T PRK15359 99 GVCLKMMGEPGLAREAFQTAIKMSYAD 125 (144)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence 999999999999999999999988874
No 59
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=89.98 E-value=7.6 Score=46.94 Aligned_cols=133 Identities=18% Similarity=0.116 Sum_probs=87.7
Q ss_pred HHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCC--ccc---
Q 011352 126 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHD--ELG--- 200 (488)
Q Consensus 126 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~--~~~--- 200 (488)
...++..+++++|.....++++. +... +.+++....++...++.+++...+..+.+....... .+.
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 44556788999988877666543 1221 223456667777888998888887777653321111 110
Q ss_pred ---HHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 201 ---QETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 201 ---~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
.+.+....-..+++.++++.|...+.+. ..|... .-++.+|.++..+++|.+|..+|..|+...|..
T Consensus 347 ~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~------~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~ 418 (1157)
T PRK11447 347 KVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDS------YAVLGLGDVAMARKDYAAAERYYQQALRMDPGN 418 (1157)
T ss_pred HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH------HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 1112222345788999999999988775 234321 225678999999999999999999999877764
No 60
>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=89.78 E-value=0.57 Score=30.82 Aligned_cols=31 Identities=29% Similarity=0.351 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
..++..|.++...++|.+|..+|..|+.-.|
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 4678999999999999999999999997544
No 61
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=89.69 E-value=16 Score=40.19 Aligned_cols=155 Identities=20% Similarity=0.161 Sum_probs=103.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH
Q 011352 111 KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNM-NRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALH 189 (488)
Q Consensus 111 ~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~-~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~ 189 (488)
....|...-.+++|..+ +...|+|+.|...+...+..+..- -...++. +-..--++..+-..++..++...+-.++
T Consensus 192 ~~~~P~~~~~~~~La~~-y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~v--a~~l~~~a~~y~~~~k~~eAv~ly~~AL 268 (508)
T KOG1840|consen 192 GDEDPERLRTLRNLAEM-YAVQGRLEKAEPLCKQALRILEKTSGLKHLVV--ASMLNILALVYRSLGKYDEAVNLYEEAL 268 (508)
T ss_pred ccCCchHHHHHHHHHHH-HHHhccHHHHHHHHHHHHHHHHHccCccCHHH--HHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 34467777777664444 455689999999999998885432 1111110 0001123444445667777777777777
Q ss_pred HHh--hhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC-CC---CccCChhHHHHHHHHHHHHHHHhhcHHHHHHHH
Q 011352 190 RIA--TLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA-PR---FEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESL 263 (488)
Q Consensus 190 rta--~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~---pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L 263 (488)
.+- +.=.+....+.+.+.|-..|.+.+.|+.|+..+... .+ -...+..++...+-..|.++...++|.+|..+|
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 432 222444555666677778899999999988866653 22 123566788888999999999999999999999
Q ss_pred HHHHH
Q 011352 264 LQAAR 268 (488)
Q Consensus 264 ~~A~~ 268 (488)
..++.
T Consensus 349 q~al~ 353 (508)
T KOG1840|consen 349 QKALK 353 (508)
T ss_pred HHHHH
Confidence 98886
No 62
>PRK04841 transcriptional regulator MalT; Provisional
Probab=89.57 E-value=16 Score=42.38 Aligned_cols=142 Identities=17% Similarity=0.037 Sum_probs=84.8
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCc--ccHH
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE--LGQE 202 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~--~~~~ 202 (488)
....+...|++++|.......+.......... ..+.++...+.++-..|++..+...+..+...+...+.. ....
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 33334556777777777666665544332111 111123444555566788888887777776554433221 2223
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcC-CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHh
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKA-PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARK 269 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~ 269 (488)
.+.+.+-..+...|+++.|....... ...........+..+...|+++...+++.+|..++..+...
T Consensus 574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~ 641 (903)
T PRK04841 574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENL 641 (903)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 33444556778889999988776664 21111122234455567899999999999999999888653
No 63
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=89.47 E-value=20 Score=34.16 Aligned_cols=97 Identities=13% Similarity=0.064 Sum_probs=65.9
Q ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHH-HHHccCC--HHHHHHHHhcC--CCCccCChhH
Q 011352 164 LYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLR-NYLHYNL--YDQAEKLRSKA--PRFEAHSNQQ 238 (488)
Q Consensus 164 ~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr-~Yl~~~~--~~~a~~li~~~--~~pe~~~~~~ 238 (488)
.|+..++++-..++..++...+..+.+-. .+... ...+ +-. .|+..|. ++.|..++.+. ..|..
T Consensus 75 ~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~---P~~~~--~~~~-lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~----- 143 (198)
T PRK10370 75 QWALLGEYYLWRNDYDNALLAYRQALQLR---GENAE--LYAA-LATVLYYQAGQHMTPQTREMIDKALALDANE----- 143 (198)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHH--HHHH-HHHHHHHhcCCCCcHHHHHHHHHHHHhCCCC-----
Confidence 46777777778888888877666665422 11111 1112 122 2466666 58898888875 23432
Q ss_pred HHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 239 FCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 239 ~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
...++.+|..+...++|.+|..++..++..-|.
T Consensus 144 -~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~ 176 (198)
T PRK10370 144 -VTALMLLASDAFMQADYAQAIELWQKVLDLNSP 176 (198)
T ss_pred -hhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence 245789999999999999999999999987666
No 64
>PRK11189 lipoprotein NlpI; Provisional
Probab=89.40 E-value=18 Score=36.46 Aligned_cols=130 Identities=18% Similarity=0.120 Sum_probs=68.3
Q ss_pred HHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHH
Q 011352 123 LLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQE 202 (488)
Q Consensus 123 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~ 202 (488)
+...+.+...|++++|.+.....++.-.....+.+ |. ...+..++..++...+-...... ..+.++
T Consensus 136 ~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~-------~~---~l~~~~~~~~~A~~~l~~~~~~~--~~~~~~-- 201 (296)
T PRK11189 136 LNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRAL-------WL---YLAESKLDPKQAKENLKQRYEKL--DKEQWG-- 201 (296)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH-------HH---HHHHccCCHHHHHHHHHHHHhhC--CccccH--
Confidence 44445556779999999887777653111101111 11 22344556666665553332111 112222
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCC-hhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHS-NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~-~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..+...+ .+.+..+. .+... .+..... ......-+||+|+++...|+|.+|..+|..|+...|.
T Consensus 202 ---~~~~~~~--lg~~~~~~-~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~ 268 (296)
T PRK11189 202 ---WNIVEFY--LGKISEET-LMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVY 268 (296)
T ss_pred ---HHHHHHH--ccCCCHHH-HHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence 1122223 34443332 22111 1111100 1234456899999999999999999999999986554
No 65
>PRK12370 invasion protein regulator; Provisional
Probab=89.33 E-value=9.7 Score=42.10 Aligned_cols=119 Identities=11% Similarity=0.014 Sum_probs=62.0
Q ss_pred HcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHH
Q 011352 130 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLL 209 (488)
Q Consensus 130 ~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~ll 209 (488)
...+++++|..+..+.++. +.. .+.+|++++.++...|+.+++...+..+.+.... ..... ....
T Consensus 349 ~~~g~~~~A~~~~~~Al~l----~P~-----~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~----~~~~~--~~~~ 413 (553)
T PRK12370 349 TIHSEYIVGSLLFKQANLL----SPI-----SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT----RAAAG--ITKL 413 (553)
T ss_pred HHccCHHHHHHHHHHHHHh----CCC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC----ChhhH--HHHH
Confidence 3456777766665544332 111 1223556666666777777666666555432211 11111 1122
Q ss_pred HHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 210 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
..++..|.++.|.....+. ..|... ..+++++|.++...|++.+|...+.....
T Consensus 414 ~~~~~~g~~eeA~~~~~~~l~~~~p~~-----~~~~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 414 WITYYHTGIDDAIRLGDELRSQHLQDN-----PILLSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred HHHHhccCHHHHHHHHHHHHHhccccC-----HHHHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 2345567777776655543 111111 22456677777777777777777766554
No 66
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=89.28 E-value=35 Score=39.41 Aligned_cols=206 Identities=13% Similarity=0.031 Sum_probs=114.1
Q ss_pred HHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHH
Q 011352 128 FLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNL 207 (488)
Q Consensus 128 ~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~ 207 (488)
.++..+++++|......+++. +...-+. +. .+...++-..++.+++...+..++... + ............
T Consensus 246 ~Ll~~g~~~eA~~~~~~ll~~----~~~~P~~--a~--~~la~~yl~~g~~e~A~~~l~~~l~~~-p-~~~~~~~~~~~~ 315 (765)
T PRK10049 246 ALLARDRYKDVISEYQRLKAE----GQIIPPW--AQ--RWVASAYLKLHQPEKAQSILTELFYHP-E-TIADLSDEELAD 315 (765)
T ss_pred HHHHhhhHHHHHHHHHHhhcc----CCCCCHH--HH--HHHHHHHHhcCCcHHHHHHHHHHhhcC-C-CCCCCChHHHHH
Confidence 345668999988876665433 1110000 11 122444556777888877766655321 0 010111122334
Q ss_pred HHHHHHccCCHHHHHHHHhcC--CCC---------ccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchh
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA--PRF---------EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALG 276 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~--~~p---------e~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~ 276 (488)
++..|+..+.++.|...+... ..| ...|..+....++..|.++...+++.+|...|..+....|....
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 556789999999999887764 223 22445567788899999999999999999999999998876532
Q ss_pred hHHHHHHHHHHHHHhcCCCCCc-chhcchh-hhh-hh-hhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHH
Q 011352 277 FRVQCNKWAIIVRLLLGEIPER-TVFMQKG-MEK-AL-RPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRL 351 (488)
Q Consensus 277 ~~~~alK~lIlv~LL~G~iP~~-~ll~~~~-l~~-~l-~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rL 351 (488)
++..+.-+..-.|+.... ..+..-. +.+ .. .-|.....+...|+...-.+.+++-...+-.+ ..+.++
T Consensus 395 ----l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~---~~~~~~ 466 (765)
T PRK10049 395 ----LRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQD---PGVQRL 466 (765)
T ss_pred ----HHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCC---HHHHHH
Confidence 222222233335664321 1221100 001 11 12233335677787666655555544444444 444444
No 67
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=89.00 E-value=12 Score=38.03 Aligned_cols=133 Identities=11% Similarity=-0.017 Sum_probs=68.8
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccH
Q 011352 122 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 201 (488)
Q Consensus 122 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~ 201 (488)
.++..+.++..+++++|.++...++...-.. ...+.+ +-.+++.. ...+....+ ..++..... .....
T Consensus 46 ~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~--~~a~~~-~~~~~~~~---~~~~~~~~~----~~~l~~~~~--~~~~~ 113 (355)
T cd05804 46 AHVEALSAWIAGDLPKALALLEQLLDDYPRD--LLALKL-HLGAFGLG---DFSGMRDHV----ARVLPLWAP--ENPDY 113 (355)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCc--HHHHHH-hHHHHHhc---ccccCchhH----HHHHhccCc--CCCCc
Confidence 3456667778899999988877765431110 011111 11111111 111222211 122221111 11222
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 202 ETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 202 ~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
......+-..|...|.++.|....+.. ..|+. ...++..|.++...+++.+|..++..++...|.
T Consensus 114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~ 180 (355)
T cd05804 114 WYLLGMLAFGLEEAGQYDRAEEAARRALELNPDD------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC 180 (355)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC
Confidence 233333445677888888887776664 22332 233566788888888888888888888875543
No 68
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=88.99 E-value=3.3 Score=31.25 Aligned_cols=60 Identities=22% Similarity=0.155 Sum_probs=45.7
Q ss_pred HHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+-..|+..+.++.|...+... ..|.. . ..++..|.++...++|.+|..+|..++...|..
T Consensus 6 ~a~~~~~~~~~~~A~~~~~~~~~~~~~~----~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 67 (100)
T cd00189 6 LGNLYYKLGDYDEALEYYEKALELDPDN----A--DAYYNLAAAYYKLGKYEEALEDYEKALELDPDN 67 (100)
T ss_pred HHHHHHHHhcHHHHHHHHHHHHhcCCcc----H--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 445677889999998877764 22221 1 457889999999999999999999999866653
No 69
>PLN03077 Protein ECB2; Provisional
Probab=88.61 E-value=55 Score=38.13 Aligned_cols=70 Identities=13% Similarity=0.144 Sum_probs=43.6
Q ss_pred ChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHHHHHhhHHHHHhcCCCCCCCc
Q 011352 386 PVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHNEAVRALRFPPNSHK 458 (488)
Q Consensus 386 d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~~l~l~~~~v~amr~p~~~~~ 458 (488)
.+++|+.+...|...|.-+ +++-.||..+...-++...+-...-.+.|-..|+--...++..-|-|+...
T Consensus 706 ~~~~a~~vr~~M~~~g~~k---~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~ 775 (857)
T PLN03077 706 KWDEVARVRKTMRENGLTV---DPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESS 775 (857)
T ss_pred ChHHHHHHHHHHHHcCCCC---CCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcch
Confidence 3589999999999988752 233345655555444444444444456666666544446777788877544
No 70
>PLN03218 maturation of RBCL 1; Provisional
Probab=88.39 E-value=28 Score=41.87 Aligned_cols=63 Identities=8% Similarity=0.015 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
...|.++..|.+.|.++.|..++.........+ ....| -.+...|...+++.+|...|.....
T Consensus 580 vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p--~~~ty-nsLI~ay~k~G~~deAl~lf~eM~~ 642 (1060)
T PLN03218 580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKG--TPEVY-TIAVNSCSQKGDWDFALSIYDDMKK 642 (1060)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC--ChHHH-HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 445666677777777777777666542111000 11111 1223334446677777777766654
No 71
>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=87.97 E-value=1.3 Score=33.97 Aligned_cols=35 Identities=29% Similarity=0.317 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
+..++..|.++...++|.+|..+|..|+...|..+
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~ 37 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNA 37 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH
Confidence 35678999999999999999999999999877643
No 72
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=87.79 E-value=9.4 Score=34.82 Aligned_cols=104 Identities=17% Similarity=0.049 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCcc-CChhH
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEA-HSNQQ 238 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~-~~~~~ 238 (488)
+.+|+....++...+..+++...+..+.... .+........+.+-..|.+.+.++.|.....+. ..|.. .....
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 3445666666666777777666555554321 122222334445667899999999999987775 22332 22334
Q ss_pred HHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 239 FCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 239 ~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
....++..|+.+...++|.+|..++..|+.
T Consensus 112 la~i~~~~~~~~~~~g~~~~A~~~~~~a~~ 141 (168)
T CHL00033 112 MAVICHYRGEQAIEQGDSEIAEAWFDQAAE 141 (168)
T ss_pred HHHHHHHhhHHHHHcccHHHHHHHHHHHHH
Confidence 555666777777788888877766666654
No 73
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=87.61 E-value=23 Score=40.17 Aligned_cols=102 Identities=12% Similarity=0.023 Sum_probs=65.1
Q ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHH
Q 011352 165 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRY 242 (488)
Q Consensus 165 ~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y 242 (488)
+..++.++...++..++...+..+... ..... .....+-..|.+.|.++.|....... ..|. ...+
T Consensus 287 ~~~lg~~l~~~g~~~eA~~~l~~al~l----~P~~~--~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~------~~~~ 354 (656)
T PRK15174 287 VTLYADALIRTGQNEKAIPLLQQSLAT----HPDLP--YVRAMYARALRQVGQYTAASDEFVQLAREKGV------TSKW 354 (656)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCH--HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc------chHH
Confidence 444455555556666666555554432 11111 12233557888999999998877664 2232 2235
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc-hhhH
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAA-LGFR 278 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~-~~~~ 278 (488)
.++.|..+...+++.+|..+|..+++..|... ..+.
T Consensus 355 ~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~~~~~ 391 (656)
T PRK15174 355 NRYAAAALLQAGKTSEAESVFEHYIQARASHLPQSFE 391 (656)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhChhhchhhHH
Confidence 66678889999999999999999999888733 4443
No 74
>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=87.22 E-value=8.8 Score=40.88 Aligned_cols=114 Identities=23% Similarity=0.230 Sum_probs=73.3
Q ss_pred ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHH
Q 011352 132 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 211 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~ 211 (488)
.++++.|..+..++ ..-+ -..+.+.|+++. ..++-.++-..+..++.... . .+.+++.-.+.
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-------LMNEEVEAIRLLNEALKENP-----Q-DSELLNLQAEF 243 (395)
T ss_pred cccHHHHHHHHHHH----HhcC-CcHHHHHHHHHH-------hcCcHHHHHHHHHHHHHhCC-----C-CHHHHHHHHHH
Confidence 46788776554444 3322 234555555554 34444555566666653221 1 15666677788
Q ss_pred HHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 212 YLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 212 Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+++.+++++|..+..++. .|.. ....|+++.+|+..++|..|...+. .||..
T Consensus 244 Ll~k~~~~lAL~iAk~av~lsP~~------f~~W~~La~~Yi~~~d~e~ALlaLN----s~Pm~ 297 (395)
T PF09295_consen 244 LLSKKKYELALEIAKKAVELSPSE------FETWYQLAECYIQLGDFENALLALN----SCPML 297 (395)
T ss_pred HHhcCCHHHHHHHHHHHHHhCchh------HHHHHHHHHHHHhcCCHHHHHHHHh----cCcCC
Confidence 999999999999888752 2332 2336789999999999999986555 47763
No 75
>PRK04841 transcriptional regulator MalT; Provisional
Probab=87.22 E-value=42 Score=38.97 Aligned_cols=143 Identities=11% Similarity=-0.072 Sum_probs=90.0
Q ss_pred HHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHH
Q 011352 125 VLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETL 204 (488)
Q Consensus 125 ~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l 204 (488)
........+++++|.......+..+..- .+...+......+.++...|++..++..+..+...+............
T Consensus 458 ~a~~~~~~g~~~~A~~~~~~al~~~~~~----~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~ 533 (903)
T PRK04841 458 RAQVAINDGDPEEAERLAELALAELPLT----WYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWS 533 (903)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHhcCCCc----cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHH
Confidence 3344456789999998887766542211 111112223445556667888888888887777655544444444444
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcC-CCCcc--C-ChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKA-PRFEA--H-SNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~-~~pe~--~-~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
.+.+-..|+..|.++.|....... ...+. . .......-....|.++..+|++.+|..++..++..+.
T Consensus 534 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~ 604 (903)
T PRK04841 534 LLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLS 604 (903)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhh
Confidence 555667899999999998876653 11000 0 0011111145679999999999999999999987543
No 76
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=86.99 E-value=13 Score=43.38 Aligned_cols=124 Identities=15% Similarity=0.141 Sum_probs=77.5
Q ss_pred cccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHH--HH
Q 011352 131 DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLN--LL 208 (488)
Q Consensus 131 d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n--~l 208 (488)
..|+|..+..++...++.- ....+.|..||...+++...|+++++-...+.+.. ++..+ ++.+ -|
T Consensus 282 fK~dy~~v~~la~~ai~~t------~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k-~~~d~------~~l~~~Gl 348 (1018)
T KOG2002|consen 282 FKKDYERVWHLAEHAIKNT------ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK-ADNDN------FVLPLVGL 348 (1018)
T ss_pred hcccHHHHHHHHHHHHHhh------hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc-cCCCC------ccccccch
Confidence 3355555555544443322 33456677788888898888998888877777743 22222 2222 25
Q ss_pred HHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhh----cHHHHHHHHHHHHHhCCcc
Q 011352 209 LRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQL----EYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~----dy~~A~~~L~~A~~~~P~~ 273 (488)
-..|++.|.+.-+.-.+.++ ..|..+-. .+.+|.+|+... .-..|..++..+....|..
T Consensus 349 gQm~i~~~dle~s~~~fEkv~k~~p~~~et------m~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d 413 (1018)
T KOG2002|consen 349 GQMYIKRGDLEESKFCFEKVLKQLPNNYET------MKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVD 413 (1018)
T ss_pred hHHHHHhchHHHHHHHHHHHHHhCcchHHH------HHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccccc
Confidence 56788888888777766664 34433222 467888888764 5566777888887766653
No 77
>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=86.90 E-value=10 Score=38.58 Aligned_cols=95 Identities=6% Similarity=-0.104 Sum_probs=66.2
Q ss_pred HHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHH
Q 011352 166 FYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYL 243 (488)
Q Consensus 166 ~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~ 243 (488)
...+.++...|++.++...+-.++... ... ......+-.+|...|.++.|..++.+.. .|. ++...+..+
T Consensus 118 ~~~a~~~~~~G~~~~A~~~~~~al~~~----p~~--~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~~~ 189 (355)
T cd05804 118 GMLAFGLEEAGQYDRAEEAARRALELN----PDD--AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGHNW 189 (355)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHhhC----CCC--cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHHHH
Confidence 455667778888887776665554322 111 2233445678899999999999888752 222 223334556
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
+..|+++..+|++.+|...|..++.
T Consensus 190 ~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 190 WHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 7899999999999999999999975
No 78
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=86.80 E-value=55 Score=36.13 Aligned_cols=190 Identities=18% Similarity=0.241 Sum_probs=109.6
Q ss_pred CCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhh
Q 011352 114 LPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIAT 193 (488)
Q Consensus 114 ~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~ 193 (488)
.|-+-+.+.=|...+ ...|+|.+|..++...+...++. --+...-.+..+-..+......+..+.+-..+..+++...
T Consensus 279 h~~va~~l~nLa~ly-~~~GKf~EA~~~~e~Al~I~~~~-~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~ 356 (508)
T KOG1840|consen 279 HPAVAATLNNLAVLY-YKQGKFAEAEEYCERALEIYEKL-LGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYL 356 (508)
T ss_pred CHHHHHHHHHHHHHH-hccCChHHHHHHHHHHHHHHHHh-hccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH
Confidence 444444444444444 56799999999999988776652 1122222233344555566666766666666655554332
Q ss_pred --hcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC-CCCc---cCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHH
Q 011352 194 --LRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFE---AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 267 (488)
Q Consensus 194 --~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe---~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~ 267 (488)
+-.+....+-+-+.+-..|++.|.|..|.++.++. +... .-.....-...--+|.-+--.++|.+|...|..|+
T Consensus 357 ~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~ 436 (508)
T KOG1840|consen 357 DAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAK 436 (508)
T ss_pred hhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHH
Confidence 11223344455566888899999999998877764 1111 00011122233455666655678888888888887
Q ss_pred HhCCccchhhHHHHHHHHHHHHHhcC-CCCCcchhcchhhhhhhhhHHHHHHHHhc-CCHHHHHHHHHHc
Q 011352 268 RKAPVAALGFRVQCNKWAIIVRLLLG-EIPERTVFMQKGMEKALRPYFELTNAVRI-GDLELFKSVAEKF 335 (488)
Q Consensus 268 ~~~P~~~~~~~~~alK~lIlv~LL~G-~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~-Gdl~~f~~~l~~~ 335 (488)
. |. . ..| .-|+ ...+|..|+.+++. |+...-.+..++-
T Consensus 437 ~-----------------i~-~-~~g~~~~~-----------~~~~~~nL~~~Y~~~g~~e~a~~~~~~~ 476 (508)
T KOG1840|consen 437 D-----------------IM-K-LCGPDHPD-----------VTYTYLNLAALYRAQGNYEAAEELEEKV 476 (508)
T ss_pred H-----------------HH-H-HhCCCCCc-----------hHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 5 11 1 112 1222 34578999999964 8776655554443
No 79
>PRK14574 hmsH outer membrane protein; Provisional
Probab=86.74 E-value=54 Score=38.36 Aligned_cols=98 Identities=11% Similarity=-0.042 Sum_probs=71.6
Q ss_pred ccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCC---------ccCChhHHHHHHH
Q 011352 176 GDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRF---------EAHSNQQFCRYLF 244 (488)
Q Consensus 176 ~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~p---------e~~~~~~~v~Y~Y 244 (488)
+.-+++.+.+..++......+.....+.....|+-.|+..+.|+.|..++.+. ..| ...|+.++.++.+
T Consensus 341 ~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~ 420 (822)
T PRK14574 341 RLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQT 420 (822)
T ss_pred CCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHH
Confidence 44456665555554322221122223333456889999999999999988875 122 3478899999999
Q ss_pred HHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 245 YLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 245 Y~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
..+.+++..+++.+|.+.|+.....+|..
T Consensus 421 l~a~~~~~~gdl~~Ae~~le~l~~~aP~n 449 (822)
T PRK14574 421 LLVQSLVALNDLPTAQKKLEDLSSTAPAN 449 (822)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence 99999999999999999999999988874
No 80
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=86.23 E-value=1.6 Score=43.38 Aligned_cols=66 Identities=21% Similarity=0.185 Sum_probs=46.1
Q ss_pred HHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
...+..|...+.++.+..++..... .....+...|++..|.++...|++.+|.++|..|++..|..
T Consensus 114 ~~~l~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~ 179 (280)
T PF13429_consen 114 LSALQLYYRLGDYDEAEELLEKLEE--LPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDD 179 (280)
T ss_dssp ----H-HHHTT-HHHHHHHHHHHHH---T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-
T ss_pred hHHHHHHHHHhHHHHHHHHHHHHHh--ccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Confidence 3456778999999999999888431 11122456788899999999999999999999999987763
No 81
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=85.83 E-value=23 Score=33.76 Aligned_cols=61 Identities=15% Similarity=-0.045 Sum_probs=45.1
Q ss_pred HHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
+-..|++.|++..|....... .+|.. .+...=++..|+++...++|.+|..++...-...|
T Consensus 172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~ 234 (235)
T TIGR03302 172 VARFYLKRGAYVAAINRFETVVENYPDT---PATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP 234 (235)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHHCCCC---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 345789999999998877764 34432 22334467999999999999999998887765443
No 82
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=85.73 E-value=28 Score=31.83 Aligned_cols=106 Identities=16% Similarity=0.108 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCC
Q 011352 138 AKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNL 217 (488)
Q Consensus 138 A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~ 217 (488)
.+..+-..+..+...+.+ .-.+..++..+..+...++.+++...+..+.+... +..........+-..|.+.|.
T Consensus 14 ~~~~~~~~~~~~~~~~~~---~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~---~~~~~~~~~~~la~~~~~~g~ 87 (172)
T PRK02603 14 SFTVMADLILKILPINKK---AKEAFVYYRDGMSAQADGEYAEALENYEEALKLEE---DPNDRSYILYNMGIIYASNGE 87 (172)
T ss_pred HHHHHHHHHHHHcccccH---hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhh---ccchHHHHHHHHHHHHHHcCC
Confidence 344444455444443332 33344456666667777888887766666554321 111122333445668899999
Q ss_pred HHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhc
Q 011352 218 YDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLE 255 (488)
Q Consensus 218 ~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~d 255 (488)
++.|...+.+. ..|.. ...++..|.++...++
T Consensus 88 ~~~A~~~~~~al~~~p~~------~~~~~~lg~~~~~~g~ 121 (172)
T PRK02603 88 HDKALEYYHQALELNPKQ------PSALNNIAVIYHKRGE 121 (172)
T ss_pred HHHHHHHHHHHHHhCccc------HHHHHHHHHHHHHcCC
Confidence 99999877764 22322 2334455666665554
No 83
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=85.66 E-value=6.9 Score=40.87 Aligned_cols=33 Identities=27% Similarity=0.234 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
..++..|.++...++|.+|..+|..|+...|..
T Consensus 71 ~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~ 103 (356)
T PLN03088 71 KAYLRKGTACMKLEEYQTAKAALEKGASLAPGD 103 (356)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCC
Confidence 346788999999999999999999999877763
No 84
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=85.09 E-value=41 Score=33.14 Aligned_cols=166 Identities=14% Similarity=0.094 Sum_probs=95.1
Q ss_pred CHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhh
Q 011352 115 PELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL 194 (488)
Q Consensus 115 p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~ 194 (488)
+..+.|. .....+.+|+|++|.+....++.... .+-+. ....+....++-..++...+...+-...+.- +
T Consensus 31 ~~~~~Y~---~A~~~~~~g~y~~Ai~~f~~l~~~yP----~s~~a--~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~-P 100 (243)
T PRK10866 31 PPSEIYA---TAQQKLQDGNWKQAITQLEALDNRYP----FGPYS--QQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-P 100 (243)
T ss_pred CHHHHHH---HHHHHHHCCCHHHHHHHHHHHHHhCC----CChHH--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-c
Confidence 3445444 45566778999999988777655322 22112 2223444555556777777776665555443 2
Q ss_pred cCCccc-HHHHHHHH--------HHHHHccC----CHHHHH-------HHHhcCCCCcc-----------CChhHHHHHH
Q 011352 195 RHDELG-QETLLNLL--------LRNYLHYN----LYDQAE-------KLRSKAPRFEA-----------HSNQQFCRYL 243 (488)
Q Consensus 195 ~~~~~~-~~~l~n~l--------lr~Yl~~~----~~~~a~-------~li~~~~~pe~-----------~~~~~~v~Y~ 243 (488)
.|.+.. .++...+. |..|+..+ +...+. .+|+ .+|++ .-.+..+++-
T Consensus 101 ~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~--~yP~S~ya~~A~~rl~~l~~~la~~e 178 (243)
T PRK10866 101 THPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR--GYPNSQYTTDATKRLVFLKDRLAKYE 178 (243)
T ss_pred CCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH--HCcCChhHHHHHHHHHHHHHHHHHHH
Confidence 333332 22332221 12232222 222233 2333 34543 2246678888
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCC
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGE 294 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~ 294 (488)
++.|+.|.-.++|..|..-+..++++.|.+. ...+++-+++-.-.-+|.
T Consensus 179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~--~~~eal~~l~~ay~~lg~ 227 (243)
T PRK10866 179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQ--ATRDALPLMENAYRQLQL 227 (243)
T ss_pred HHHHHHHHHcCchHHHHHHHHHHHHHCCCCc--hHHHHHHHHHHHHHHcCC
Confidence 9999999999999999999999999998753 345555555444333443
No 85
>PLN03218 maturation of RBCL 1; Provisional
Probab=84.83 E-value=38 Score=40.75 Aligned_cols=63 Identities=11% Similarity=0.046 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
...|.++..|.+.|.++.|..+++.+......| +..+|. .+...+...+++.+|.+.|.....
T Consensus 615 ~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~P--D~~Tyn-sLI~a~~k~G~~eeA~~l~~eM~k 677 (1060)
T PLN03218 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP--DEVFFS-ALVDVAGHAGDLDKAFEILQDARK 677 (1060)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHHHH-HHHHHHHhCCCHHHHHHHHHHHHH
Confidence 456788889999999999999888763211111 123332 233445567899999988888875
No 86
>PRK12370 invasion protein regulator; Provisional
Probab=84.64 E-value=70 Score=35.38 Aligned_cols=176 Identities=13% Similarity=-0.033 Sum_probs=93.3
Q ss_pred HHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHH
Q 011352 209 LRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAI 286 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lI 286 (488)
-..|...++++.|...+.+. ..|.+ ...+|+.|.++...|+|.+|..+|..|++..|........ +.
T Consensus 345 g~~~~~~g~~~~A~~~~~~Al~l~P~~------~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~-----~~ 413 (553)
T PRK12370 345 GLINTIHSEYIVGSLLFKQANLLSPIS------ADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGIT-----KL 413 (553)
T ss_pred HHHHHHccCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHH-----HH
Confidence 34667889999999888774 23332 2246788999999999999999999999977764321111 11
Q ss_pred HHHHhcCCCCCc-chhcchhhh---h-hhhhHHHHHHHH-hcCCHHHHHHHHHHcchhhhcCcchHHHHHHH--------
Q 011352 287 IVRLLLGEIPER-TVFMQKGME---K-ALRPYFELTNAV-RIGDLELFKSVAEKFSSTFSSDRTNNLIVRLR-------- 352 (488)
Q Consensus 287 lv~LL~G~iP~~-~ll~~~~l~---~-~l~~Y~~L~~Av-~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr-------- 352 (488)
.+.+..|+.... ..+.. .+. + ....+..+..+. ..|+..+-...+.+.......+ +.....+.
T Consensus 414 ~~~~~~g~~eeA~~~~~~-~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~ 490 (553)
T PRK12370 414 WITYYHTGIDDAIRLGDE-LRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITG--LIAVNLLYAEYCQNSE 490 (553)
T ss_pred HHHHhccCHHHHHHHHHH-HHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchh--HHHHHHHHHHHhccHH
Confidence 122335764321 11211 111 1 111244555554 5788777666665533221111 11111111
Q ss_pred --HHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 353 --HNVIRTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 353 --~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
...++..++....-+ ++....+....+-++ .+-+.++.+++.+|.+
T Consensus 491 ~a~~~l~~ll~~~~~~~--~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~ 538 (553)
T PRK12370 491 RALPTIREFLESEQRID--NNPGLLPLVLVAHGE---AIAEKMWNKFKNEDNI 538 (553)
T ss_pred HHHHHHHHHHHHhhHhh--cCchHHHHHHHHHhh---hHHHHHHHHhhccchH
Confidence 112333222222211 223334443333344 6677777999998877
No 87
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=84.21 E-value=21 Score=40.46 Aligned_cols=62 Identities=16% Similarity=0.121 Sum_probs=46.2
Q ss_pred HHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
..+-..|+..|.++.|...+... ..|+. ...+++.|.++...++|.+|...|..++...|..
T Consensus 288 ~~lg~~l~~~g~~~eA~~~l~~al~l~P~~------~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~ 351 (656)
T PRK15174 288 TLYADALIRTGQNEKAIPLLQQSLATHPDL------PYVRAMYARALRQVGQYTAASDEFVQLAREKGVT 351 (656)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence 34556788899999998877764 22321 1235678999999999999999999999866653
No 88
>PLN03077 Protein ECB2; Provisional
Probab=84.20 E-value=19 Score=41.89 Aligned_cols=60 Identities=20% Similarity=0.117 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 202 ETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 202 ~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
..+.|.++..|.+.|.++.|..+++....|+..+ | -.+...|...+++.+|.+.|.....
T Consensus 323 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s------~-n~li~~~~~~g~~~~A~~lf~~M~~ 382 (857)
T PLN03077 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVS------W-TAMISGYEKNGLPDKALETYALMEQ 382 (857)
T ss_pred hHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeee------H-HHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 4567889999999999999999999876554322 2 2344556678899999999987654
No 89
>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=84.12 E-value=0.84 Score=38.73 Aligned_cols=38 Identities=16% Similarity=0.364 Sum_probs=33.8
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeC
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDH 409 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~ 409 (488)
.=|++.+|++.|+++. .+++..|-.|+.+|.|+.+||-
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 4599999999998776 9999999999999999999984
No 90
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=83.90 E-value=15 Score=40.49 Aligned_cols=56 Identities=23% Similarity=0.166 Sum_probs=40.7
Q ss_pred HHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 211 NYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
-|...|++.+|+.+...+ ..| ++.+. +-+.|.+....++|.+|..+|..++...+.
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-----SDPLV-LHELGVVAYTYEEYPEALKYFQKALEVIKS 446 (611)
T ss_pred HHHHhccHHHHHHHHHHHHhcCC-----Ccchh-hhhhhheeehHhhhHHHHHHHHHHHHHhhh
Confidence 577889999999987764 223 22222 236788888889999999999999855544
No 91
>PRK11189 lipoprotein NlpI; Provisional
Probab=83.46 E-value=11 Score=38.00 Aligned_cols=101 Identities=16% Similarity=0.065 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHH
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQF 239 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~ 239 (488)
+..||....++...|....+...+..+.. ...+. ....+.+-..|...|+++.|.....+. ..|+.
T Consensus 64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~----l~P~~--~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~------ 131 (296)
T PRK11189 64 AQLHYERGVLYDSLGLRALARNDFSQALA----LRPDM--ADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTY------ 131 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHH----cCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------
Confidence 34466667777778888777665555433 21222 223345667889999999998876665 22332
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
...++..|.++...++|.+|...|..++...|...
T Consensus 132 ~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~ 166 (296)
T PRK11189 132 NYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDP 166 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence 22357789999999999999999999998777653
No 92
>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=82.53 E-value=76 Score=35.10 Aligned_cols=131 Identities=22% Similarity=0.297 Sum_probs=80.5
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHhcC-CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHH
Q 011352 202 ETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQ 280 (488)
Q Consensus 202 ~~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~ 280 (488)
+.+...+-..|-..|.++.|...|++. ... .-.+.+++..|+|+-+.|++.+|.+++..|=. -.....-.--.
T Consensus 194 lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-----Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~-LD~~DRyiNsK 267 (517)
T PF12569_consen 194 LWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-----PTLVELYMTKARILKHAGDLKEAAEAMDEARE-LDLADRYINSK 267 (517)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-----CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-CChhhHHHHHH
Confidence 344556677899999999999999875 211 12467899999999999999999999999865 22211112223
Q ss_pred HHHHHHHHHHhcCCCCC----cchhcchh-------hhhhhhhHH-HHHHHH-hcCC----HHHHHHHHHHcchhhhcCc
Q 011352 281 CNKWAIIVRLLLGEIPE----RTVFMQKG-------MEKALRPYF-ELTNAV-RIGD----LELFKSVAEKFSSTFSSDR 343 (488)
Q Consensus 281 alK~lIlv~LL~G~iP~----~~ll~~~~-------l~~~l~~Y~-~L~~Av-~~Gd----l~~f~~~l~~~~~~f~~D~ 343 (488)
+-||++= .|++.. .++|+... ..-.|.+|. +.+.|+ |.|+ ++.|..+...|.. |..|-
T Consensus 268 ~aKy~LR----a~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~-~~~DQ 342 (517)
T PF12569_consen 268 CAKYLLR----AGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDD-FEEDQ 342 (517)
T ss_pred HHHHHHH----CCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-Hhccc
Confidence 4455442 233222 12232221 123466764 777776 5676 4567766666654 44443
No 93
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=82.31 E-value=28 Score=40.13 Aligned_cols=134 Identities=13% Similarity=-0.026 Sum_probs=89.6
Q ss_pred HHcccCHHHHHHHHHHHHHHHHhh----h--hh-hH-HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCccc
Q 011352 129 LIDKKRYNEAKACSSASIARLKNM----N--RR-TV-DVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELG 200 (488)
Q Consensus 129 l~d~~~~~~A~~~~~~lv~~l~~~----~--~r-~l-d~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~ 200 (488)
+++.+++++|......+...--.. . .+ .. +.+ .++.+.+.+....+++.++...+..+..... ..
T Consensus 320 ~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~--~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P----~n- 392 (765)
T PRK10049 320 LLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWL--QGQSLLSQVAKYSNDLPQAEMRARELAYNAP----GN- 392 (765)
T ss_pred HHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CC-
Confidence 377888998888766665431100 0 00 00 111 1244556666678888888877766654321 11
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchh
Q 011352 201 QETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALG 276 (488)
Q Consensus 201 ~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~ 276 (488)
.-+...+...|...|.++.|...+++. ..|++ ..++|..|..+...++|.+|...+..++...|..+..
T Consensus 393 -~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~------~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~ 463 (765)
T PRK10049 393 -QGLRIDYASVLQARGWPRAAENELKKAEVLEPRN------INLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV 463 (765)
T ss_pred -HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCC------hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence 234445667899999999999998885 33432 2367899999999999999999999999988875533
No 94
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=82.23 E-value=2.2 Score=28.99 Aligned_cols=26 Identities=38% Similarity=0.317 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
+..+|.+|...++|.+|.++|++|+.
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 35789999999999999999999664
No 95
>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=81.66 E-value=96 Score=34.81 Aligned_cols=113 Identities=21% Similarity=0.087 Sum_probs=71.2
Q ss_pred hHHHHHHHHHH-HHHHHHHhhccHHHHHHHHHHHHHHhhhcCCc-ccHHHHHHHHHHHHHccCCHHHHHHHHhcC-CCCc
Q 011352 156 TVDVLAARLYF-YYSLCYELTGDLAEIRGNLLALHRIATLRHDE-LGQETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFE 232 (488)
Q Consensus 156 ~ld~l~ak~~~-y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~-~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe 232 (488)
-.....|++++ |-.+-.+-+.|+..++..|.++...|.. ++- +-.+....++.++|.+.|... |.+.+++. +.-+
T Consensus 53 l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~-~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~ 130 (608)
T PF10345_consen 53 LSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCER-HRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSE 130 (608)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHh
Confidence 34567777765 3444456678999999988877543432 221 123344446789999999888 88888774 3333
Q ss_pred cCC-hhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC
Q 011352 233 AHS-NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKA 270 (488)
Q Consensus 233 ~~~-~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~ 270 (488)
.++ ..+...|.|.....++..+|+..|.+.|......+
T Consensus 131 ~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a 169 (608)
T PF10345_consen 131 TYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLA 169 (608)
T ss_pred ccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Confidence 322 23334444443444444479999999999988743
No 96
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=81.50 E-value=9.6 Score=30.48 Aligned_cols=83 Identities=19% Similarity=0.217 Sum_probs=49.0
Q ss_pred cccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHH
Q 011352 131 DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLR 210 (488)
Q Consensus 131 d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr 210 (488)
|+++|++|..+..+++..-..-.. ..+++..+.|+-..++..++-..+.. .. .. ... .-..-++-+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~~~~~~-------~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~~--~~~---~~~~~l~a~ 66 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELDPTNPN-------SAYLYNLAQCYFQQGKYEEAIELLQK-LK-LD--PSN---PDIHYLLAR 66 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHHCGTHH-------HHHHHHHHHHHHHTTHHHHHHHHHHC-HT-HH--HCH---HHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHCCCChh-------HHHHHHHHHHHHHCCCHHHHHHHHHH-hC-CC--CCC---HHHHHHHHH
Confidence 578999999998888776553111 11244456666677877776655543 10 11 111 111223568
Q ss_pred HHHccCCHHHHHHHHhc
Q 011352 211 NYLHYNLYDQAEKLRSK 227 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~ 227 (488)
+|++.|+|+.|.+.+.+
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 97
>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=81.44 E-value=3.7 Score=24.62 Aligned_cols=30 Identities=27% Similarity=0.286 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 242 YLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 242 Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
.++..|.++...++|.+|..+|..++...|
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence 467889999999999999999999987544
No 98
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=81.35 E-value=1.1 Score=34.18 Aligned_cols=54 Identities=26% Similarity=0.243 Sum_probs=40.2
Q ss_pred HccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 213 LHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 213 l~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
++.|+++.|..++.+. ..|.+ ....+..|.+++..|+|.+|...|..+....|.
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~~------~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPDN------PEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTTS------HHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 5677888888877774 33432 233568999999999999999999999987665
No 99
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=81.12 E-value=15 Score=33.63 Aligned_cols=77 Identities=16% Similarity=-0.008 Sum_probs=56.0
Q ss_pred hcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCC
Q 011352 194 LRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAP 271 (488)
Q Consensus 194 ~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P 271 (488)
+.+.....+.....+-..|...|.++.|......+. .|. ..+...+++..|.++...++|.+|..+|..|+...|
T Consensus 27 ~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p 103 (172)
T PRK02603 27 PINKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEED---PNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP 103 (172)
T ss_pred ccccHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc---cchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence 334455555555566678889999999988776641 121 112456788999999999999999999999998666
Q ss_pred cc
Q 011352 272 VA 273 (488)
Q Consensus 272 ~~ 273 (488)
..
T Consensus 104 ~~ 105 (172)
T PRK02603 104 KQ 105 (172)
T ss_pred cc
Confidence 53
No 100
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=80.90 E-value=42 Score=39.37 Aligned_cols=149 Identities=13% Similarity=0.092 Sum_probs=83.2
Q ss_pred HHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhh--hhh-hHHHHHHH------HHHHHHHHHHh-------------
Q 011352 117 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNM--NRR-TVDVLAAR------LYFYYSLCYEL------------- 174 (488)
Q Consensus 117 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~--~~r-~ld~l~ak------~~~y~s~~~e~------------- 174 (488)
.++...+.....++..|+|..|..+...++...... +-| ..|.-.++ +..-+.|+-++
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 466677888899999999999999877744321111 111 11111100 00111122111
Q ss_pred ----h---ccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHH
Q 011352 175 ----T---GDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLG 247 (488)
Q Consensus 175 ----~---~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~G 247 (488)
. +....+-..+.++|.+.. +++ .+.|.|-..|+-.++|..|-.|-.+.... +....-...=+|..|
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 VDLNFNDSDSYKKGVQLLQRAYKENN--ENP----VALNHLANHFYFKKDYERVWHLAEHAIKN-TENKSIKAESFYQLG 314 (1018)
T ss_pred HHHHccchHHHHHHHHHHHHHHhhcC--CCc----HHHHHHHHHHhhcccHHHHHHHHHHHHHh-hhhhHHHHHHHHHHH
Confidence 1 122333344444443221 222 33445555667778887776654443100 122334455689999
Q ss_pred HHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 248 KIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 248 ri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
|.|=.+|||.+|+.||.+|....|.
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 9999999999999999999974444
No 101
>PRK15331 chaperone protein SicA; Provisional
Probab=80.58 E-value=25 Score=32.91 Aligned_cols=27 Identities=11% Similarity=0.333 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHh
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARK 269 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~ 269 (488)
.||.|..++..++-..|..+|..|+.+
T Consensus 108 ~f~agqC~l~l~~~~~A~~~f~~a~~~ 134 (165)
T PRK15331 108 VFFTGQCQLLMRKAAKARQCFELVNER 134 (165)
T ss_pred cchHHHHHHHhCCHHHHHHHHHHHHhC
Confidence 689999999999999999999999984
No 102
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=80.39 E-value=4.2 Score=28.71 Aligned_cols=32 Identities=16% Similarity=0.049 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
++..|+.|...|++.+|...|..+++..|...
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~ 35 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDDP 35 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 46789999999999999999999999888754
No 103
>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=80.31 E-value=25 Score=27.30 Aligned_cols=63 Identities=16% Similarity=0.101 Sum_probs=47.2
Q ss_pred HHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Q 011352 126 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHR 190 (488)
Q Consensus 126 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~r 190 (488)
...+...|+|++|.++..+.++..+.+.+.. ...+.++.-.+.++...|+.+++...+..++.
T Consensus 12 a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 12 ARVYRELGRYDEALDYYEKALDIEEQLGDDH--PDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHTT-HHHHHHHHHHHHHHHHHTTTHH--HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHCCCC--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 3344478999999999999999866664432 33366688888899999999888887777764
No 104
>PRK11906 transcriptional regulator; Provisional
Probab=80.28 E-value=52 Score=35.67 Aligned_cols=65 Identities=9% Similarity=0.020 Sum_probs=46.6
Q ss_pred HccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHH
Q 011352 213 LHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAI 286 (488)
Q Consensus 213 l~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lI 286 (488)
...+.++.|..++.... .|... .=+||.|.+.+..|+..+|.+++..|++..|. ....-++|.+|
T Consensus 349 ~~~~~~~~a~~~f~rA~~L~Pn~A------~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~---~~~~~~~~~~~ 415 (458)
T PRK11906 349 GLSGQAKVSHILFEQAKIHSTDIA------SLYYYRALVHFHNEKIEEARICIDKSLQLEPR---RRKAVVIKECV 415 (458)
T ss_pred HhhcchhhHHHHHHHHhhcCCccH------HHHHHHHHHHHHcCCHHHHHHHHHHHhccCch---hhHHHHHHHHH
Confidence 44555888888777752 23222 22789999999999999999999999997554 34444556555
No 105
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=79.97 E-value=51 Score=37.36 Aligned_cols=97 Identities=20% Similarity=0.322 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHh--cCCCC-Ccchhcchhhhh--hhhhHH
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLL--LGEIP-ERTVFMQKGMEK--ALRPYF 314 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL--~G~iP-~~~ll~~~~l~~--~l~~Y~ 314 (488)
-.++...|.|+-..++...|...|.+-+++||.+.. -|+.++.|= .|.+- .+++|..-.++. .-.-|.
T Consensus 685 ~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ip-------LWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwl 757 (913)
T KOG0495|consen 685 HKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIP-------LWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWL 757 (913)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCch-------HHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHH
Confidence 344566777777777777777777777777776422 122222222 34221 234444433321 122244
Q ss_pred H-HHHHHhcCCHHHHHHHHHHcchhhhcCc
Q 011352 315 E-LTNAVRIGDLELFKSVAEKFSSTFSSDR 343 (488)
Q Consensus 315 ~-L~~Av~~Gdl~~f~~~l~~~~~~f~~D~ 343 (488)
+ +---+|.||...-+..+.+--..+-..|
T Consensus 758 e~Ir~ElR~gn~~~a~~lmakALQecp~sg 787 (913)
T KOG0495|consen 758 ESIRMELRAGNKEQAELLMAKALQECPSSG 787 (913)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhCCccc
Confidence 4 4444799999888887776544444444
No 106
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=79.51 E-value=26 Score=42.44 Aligned_cols=120 Identities=13% Similarity=0.004 Sum_probs=76.9
Q ss_pred HHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHH
Q 011352 128 FLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNL 207 (488)
Q Consensus 128 ~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~ 207 (488)
.+...|++++|..+.. .. .... .+++....++...++..++...+..+.+.. ..... ....
T Consensus 582 ~l~~~G~~~eA~~~l~-------~~-p~~~-----~~~~~La~~~~~~g~~~~A~~~y~~al~~~----P~~~~--a~~~ 642 (1157)
T PRK11447 582 RLRDSGKEAEAEALLR-------QQ-PPST-----RIDLTLADWAQQRGDYAAARAAYQRVLTRE----PGNAD--ARLG 642 (1157)
T ss_pred HHHHCCCHHHHHHHHH-------hC-CCCc-----hHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CCCHH--HHHH
Confidence 3567789998887643 11 1111 123455666777888888877766665422 11111 2233
Q ss_pred HHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 208 LLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+.+.|...++++.|...+.... .|+.. ...+..|.++...+++.+|...|..++...|.
T Consensus 643 la~~~~~~g~~~eA~~~l~~ll~~~p~~~------~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~ 703 (1157)
T PRK11447 643 LIEVDIAQGDLAAARAQLAKLPATANDSL------NTQRRVALAWAALGDTAAAQRTFNRLIPQAKS 703 (1157)
T ss_pred HHHHHHHCCCHHHHHHHHHHHhccCCCCh------HHHHHHHHHHHhCCCHHHHHHHHHHHhhhCcc
Confidence 5568888899999988877642 22221 23456788888899999999999999887764
No 107
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=78.86 E-value=11 Score=37.83 Aligned_cols=58 Identities=14% Similarity=0.087 Sum_probs=42.9
Q ss_pred HHHccCCHHHHHHHHhcC--CCCcc--CChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 211 NYLHYNLYDQAEKLRSKA--PRFEA--HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~~--~~pe~--~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
.+++.+.|+.|...+... .+|++ .+.. +|+.|.+|...++|.+|..+|..++.+.|.+
T Consensus 152 l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A-----~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s 213 (263)
T PRK10803 152 LVQDKSRQDDAIVAFQNFVKKYPDSTYQPNA-----NYWLGQLNYNKGKKDDAAYYFASVVKNYPKS 213 (263)
T ss_pred HHHhcCCHHHHHHHHHHHHHHCcCCcchHHH-----HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence 345568888887766653 45653 2222 5899999999999999999999999877753
No 108
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=77.85 E-value=1.5e+02 Score=34.72 Aligned_cols=139 Identities=19% Similarity=0.132 Sum_probs=86.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Q 011352 111 KHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHR 190 (488)
Q Consensus 111 ~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~r 190 (488)
..+.|++.-.+.. .-.++-.|++++|......+|+.--. ....|++.+.+||..|+++++-..-+.+
T Consensus 133 ~~l~~~l~~ll~e--AN~lfarg~~eeA~~i~~EvIkqdp~---------~~~ay~tL~~IyEqrGd~eK~l~~~llA-- 199 (895)
T KOG2076|consen 133 SKLAPELRQLLGE--ANNLFARGDLEEAEEILMEVIKQDPR---------NPIAYYTLGEIYEQRGDIEKALNFWLLA-- 199 (895)
T ss_pred cccCHHHHHHHHH--HHHHHHhCCHHHHHHHHHHHHHhCcc---------chhhHHHHHHHHHHcccHHHHHHHHHHH--
Confidence 3334555444333 33344459999999988777654222 2233899999999999888765433322
Q ss_pred HhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC-C-CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 191 IATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA-P-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 191 ta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~-~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
|-+..+.+. +.-.+...--+.+++++|.-..+++ + .|.. ..|.|=...++--.|++..|.+.|.+.+.
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 -AHLNPKDYE---LWKRLADLSEQLGNINQARYCYSRAIQANPSN------WELIYERSSLYQKTGDLKRAMETFLQLLQ 269 (895)
T ss_pred -HhcCCCChH---HHHHHHHHHHhcccHHHHHHHHHHHHhcCCcc------hHHHHHHHHHHHHhChHHHHHHHHHHHHh
Confidence 333322222 2223344456778899988765554 1 2322 44555555556666999999999999999
Q ss_pred hCCc
Q 011352 269 KAPV 272 (488)
Q Consensus 269 ~~P~ 272 (488)
.+|+
T Consensus 270 ~~p~ 273 (895)
T KOG2076|consen 270 LDPP 273 (895)
T ss_pred hCCc
Confidence 8884
No 109
>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=77.67 E-value=80 Score=31.52 Aligned_cols=39 Identities=21% Similarity=0.364 Sum_probs=27.3
Q ss_pred HHHHHHhcCCHHHHHHHHHHcchhhhcCcch-HHHHHHHH
Q 011352 315 ELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLRH 353 (488)
Q Consensus 315 ~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr~ 353 (488)
-|+.++..++...|....++|+..+.+|..| ..+.++-+
T Consensus 197 lLl~t~e~~~~~~F~~L~~~Y~~~L~rd~~~~~~L~~IG~ 236 (260)
T PF04190_consen 197 LLLLTCERDNLPLFKKLCEKYKPSLKRDPSFKEYLDKIGQ 236 (260)
T ss_dssp HHHHHHHHT-HHHHHHHHHHTHH---HHHHTHHHHHHHHH
T ss_pred HHHHHHhcCcHHHHHHHHHHhCccccccHHHHHHHHHHHH
Confidence 4778899999999999999999988888654 44554444
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=77.20 E-value=16 Score=31.36 Aligned_cols=61 Identities=26% Similarity=0.200 Sum_probs=46.6
Q ss_pred HHHHHHHHccCCHHHHHHHHhcC-C-CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKA-P-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~-~-~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..+...|+..++++.|...+... . .|. ....++..|.++...++|.+|..+|..++...|.
T Consensus 21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~ 83 (135)
T TIGR02552 21 YALAYNLYQQGRYDEALKLFQLLAAYDPY------NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD 83 (135)
T ss_pred HHHHHHHHHcccHHHHHHHHHHHHHhCCC------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 34556788899999999887764 2 232 2345678999999999999999999999875554
No 111
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=76.58 E-value=22 Score=35.18 Aligned_cols=126 Identities=17% Similarity=0.102 Sum_probs=77.2
Q ss_pred HHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHH
Q 011352 129 LIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLL 208 (488)
Q Consensus 129 l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~l 208 (488)
+...++++++..+...+.. ..... -.+.+|+.++.++...|+..++...+-.+++... ... .+.+.+
T Consensus 120 ~~~~~~~~~~~~~l~~~~~-~~~~~------~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P----~~~--~~~~~l 186 (280)
T PF13429_consen 120 YYRLGDYDEAEELLEKLEE-LPAAP------DSARFWLALAEIYEQLGDPDKALRDYRKALELDP----DDP--DARNAL 186 (280)
T ss_dssp HHHTT-HHHHHHHHHHHHH--T---------T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-T----T-H--HHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHh-ccCCC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----CCH--HHHHHH
Confidence 3455778877766555442 11111 1123366778888889988888776666654331 111 133445
Q ss_pred HHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 209 LRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+..++..|.++.+..+++... .|.+. .+....|..+...+++.+|..+|..++..-|..
T Consensus 187 ~~~li~~~~~~~~~~~l~~~~~~~~~~~------~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d 247 (280)
T PF13429_consen 187 AWLLIDMGDYDEAREALKRLLKAAPDDP------DLWDALAAAYLQLGRYEEALEYLEKALKLNPDD 247 (280)
T ss_dssp HHHHCTTCHHHHHHHHHHHHHHH-HTSC------CHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred HHHHHHCCChHHHHHHHHHHHHHCcCHH------HHHHHHHHHhccccccccccccccccccccccc
Confidence 667889999998877776631 12111 134567999999999999999999999865653
No 112
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=76.36 E-value=9.3 Score=28.78 Aligned_cols=32 Identities=22% Similarity=0.157 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.|+||++.-+.-.++|.+|.++...+++.-|.
T Consensus 2 d~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~ 33 (53)
T PF14853_consen 2 DCLYYLAIGHYKLGEYEKARRYCDALLEIEPD 33 (53)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS
T ss_pred hhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence 37899999999999999999999999997665
No 113
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=74.89 E-value=36 Score=30.91 Aligned_cols=74 Identities=19% Similarity=0.066 Sum_probs=54.5
Q ss_pred CCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 196 HDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 196 ~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.....++.....+...|+..+.++.|....... ..|.. .+...-++..|.++...+++.+|..++..|++.-|.
T Consensus 29 ~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~---~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~ 104 (168)
T CHL00033 29 TSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDP---YDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF 104 (168)
T ss_pred CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccc---hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence 344455666666777899999999999877775 22321 123334678999999999999999999999985444
No 114
>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=74.12 E-value=4.3 Score=38.76 Aligned_cols=49 Identities=16% Similarity=0.316 Sum_probs=34.3
Q ss_pred hhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 366 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 366 ~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
.-..+.|.|+|..+|+.. +++-..|..|..+|.|.|.||..+.||....
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 346688999999999998 8999999999999999999998766665543
No 115
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=73.96 E-value=64 Score=32.34 Aligned_cols=65 Identities=17% Similarity=0.065 Sum_probs=51.0
Q ss_pred HHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 207 LLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 207 ~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
.+-..|+..++++.|...+.+. .+|.+.... .-+|..|.++...+++.+|...|..+++..|.+.
T Consensus 185 ~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~---dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~ 251 (263)
T PRK10803 185 WLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAA---DAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTD 251 (263)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh---HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 3556789999999999877775 466543222 2367799999999999999999999999888743
No 116
>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=73.23 E-value=9.7 Score=27.36 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=28.6
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
-..++..+||.++|++. ..+-.++-+|+.+|+|
T Consensus 15 ~~~~t~~ela~~~~is~----~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 15 NPRITQKELAEKLGISR----STVNRYLKKLEEKGLI 47 (48)
T ss_dssp CTTS-HHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred cCCCCHHHHHHHhCCCH----HHHHHHHHHHHHCcCc
Confidence 46799999999999988 8999999999999988
No 117
>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=72.84 E-value=17 Score=30.07 Aligned_cols=61 Identities=20% Similarity=0.149 Sum_probs=45.4
Q ss_pred HHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 209 LRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
-..++..++++.|...+... ..|.+.. ...-+|..|+++...++|.+|..+|..++...|.
T Consensus 9 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~ 71 (119)
T TIGR02795 9 ALLVLKAGDYADAIQAFQAFLKKYPKSTY---APNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK 71 (119)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHCCCccc---cHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC
Confidence 34677889999998877664 2343211 1223578999999999999999999999987765
No 118
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.25 E-value=1.3e+02 Score=33.09 Aligned_cols=142 Identities=21% Similarity=0.196 Sum_probs=83.1
Q ss_pred HHHHHHHHHHHHccc---CHHHHHHHHHHHHHHHHh--hhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhh
Q 011352 119 IYCYLLVLIFLIDKK---RYNEAKACSSASIARLKN--MNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIAT 193 (488)
Q Consensus 119 ~~~~ll~~~~l~d~~---~~~~A~~~~~~lv~~l~~--~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~ 193 (488)
.|..++-+--.+... +...+.+|...+.+.--. ..-|+.=.+.+ +.+.| .+|.+-+++-|-.++-...
T Consensus 6 va~aLlGlAe~~rt~~PPkIkk~IkClqA~~~~~is~~veart~LqLg~-lL~~y------T~N~elAksHLekA~~i~~ 78 (629)
T KOG2300|consen 6 VAEALLGLAEHFRTSGPPKIKKCIKCLQAIFQFQISFLVEARTHLQLGA-LLLRY------TKNVELAKSHLEKAWLISK 78 (629)
T ss_pred HHHHHHHHHHHHhhcCChhHHHHHHHHHHHhccCChHHHHHHHHHHHHH-HHHHH------hccHHHHHHHHHHHHHHHc
Confidence 345555555555432 456666665555433111 11222223322 23333 3556666666666653322
Q ss_pred hc----CCcccHHHHHHHHHHHHHccC-CHHHHHHHHhcC-CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHH
Q 011352 194 LR----HDELGQETLLNLLLRNYLHYN-LYDQAEKLRSKA-PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAA 267 (488)
Q Consensus 194 ~~----~~~~~~~~l~n~llr~Yl~~~-~~~~a~~li~~~-~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~ 267 (488)
.. ..+.-. +.++-..|.+.+ .++.+++++++. +...++| -+.+.+.+.++-++.+++||..|.+.|.--+
T Consensus 79 ~ip~fydvKf~a---~SlLa~lh~~~~~s~~~~KalLrkaielsq~~p-~wsckllfQLaql~~idkD~~sA~elLavga 154 (629)
T KOG2300|consen 79 SIPSFYDVKFQA---ASLLAHLHHQLAQSFPPAKALLRKAIELSQSVP-YWSCKLLFQLAQLHIIDKDFPSALELLAVGA 154 (629)
T ss_pred ccccHHhhhhHH---HHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCc-hhhHHHHHHHHHHHhhhccchhHHHHHhccc
Confidence 21 112222 234556788888 899999998885 3333333 6889999999999999999999999976665
Q ss_pred HhCC
Q 011352 268 RKAP 271 (488)
Q Consensus 268 ~~~P 271 (488)
..+.
T Consensus 155 ~sAd 158 (629)
T KOG2300|consen 155 ESAD 158 (629)
T ss_pred cccc
Confidence 5443
No 119
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=71.06 E-value=68 Score=34.91 Aligned_cols=125 Identities=18% Similarity=0.174 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHcccCHHHHHHHHHHHHHH-HHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCc
Q 011352 120 YCYLLVLIFLIDKKRYNEAKACSSASIAR-LKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDE 198 (488)
Q Consensus 120 ~~~ll~~~~l~d~~~~~~A~~~~~~lv~~-l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~ 198 (488)
..+|+++...++......-...+..+++. .+.|....+|. |+.++.....++++.+-..+..+..+. ..
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 44556666666651111123344555555 44454444443 467888888888887776666554211 11
Q ss_pred ccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhH
Q 011352 199 LGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFR 278 (488)
Q Consensus 199 ~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~ 278 (488)
+.|. ....+|=.|-.++.+.||.+|.++|...... +.+-
T Consensus 300 ~~Ql------------------------------------~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~-----s~WS 338 (468)
T PF10300_consen 300 WKQL------------------------------------HHLCYFELAWCHMFQHDWEEAAEYFLRLLKE-----SKWS 338 (468)
T ss_pred HHhH------------------------------------HHHHHHHHHHHHHHHchHHHHHHHHHHHHhc-----cccH
Confidence 2221 1222567888899999999999999988863 4566
Q ss_pred HHHHHHHHHHHHh-cCCC
Q 011352 279 VQCNKWAIIVRLL-LGEI 295 (488)
Q Consensus 279 ~~alK~lIlv~LL-~G~i 295 (488)
...|.|+.-+.++ +|+.
T Consensus 339 ka~Y~Y~~a~c~~~l~~~ 356 (468)
T PF10300_consen 339 KAFYAYLAAACLLMLGRE 356 (468)
T ss_pred HHHHHHHHHHHHHhhccc
Confidence 7888888888777 4766
No 120
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=70.20 E-value=1.3e+02 Score=36.07 Aligned_cols=130 Identities=12% Similarity=-0.082 Sum_probs=73.9
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccH
Q 011352 122 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 201 (488)
Q Consensus 122 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~ 201 (488)
++.....+...|++++|.....+++.. ...+ .. ++....+....|+..++...+..+.... ...
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--ED-------LLAAANTAQAAGNGAARDRWLQQAEQRG----LGD-- 575 (987)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCc--HH-------HHHHHHHHHHCCCHHHHHHHHHHHHhcC----Ccc--
Confidence 444445556889999999887765332 1111 00 2223334445667776665555554321 111
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHhcCC--CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 202 ETLLNLLLRNYLHYNLYDQAEKLRSKAP--RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 202 ~~l~n~llr~Yl~~~~~~~a~~li~~~~--~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
..+...+.......|+++.|...+.... .|. ...++-.|.++.-.+++.+|..+|..|+...|...
T Consensus 576 ~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~-------~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~ 643 (987)
T PRK09782 576 NALYWWLHAQRYIPGQPELALNDLTRSLNIAPS-------ANAYVARATIYRQRHNVPAAVSDLRAALELEPNNS 643 (987)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence 1111123333445588888887766642 231 12346778888888888888888888888777643
No 121
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=69.18 E-value=13 Score=29.20 Aligned_cols=31 Identities=16% Similarity=0.264 Sum_probs=29.2
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
++..+||..||++. ..|..++.+|..+|.|.
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 89999999999999883
No 122
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=68.22 E-value=1.2e+02 Score=31.89 Aligned_cols=100 Identities=14% Similarity=0.009 Sum_probs=54.3
Q ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHH
Q 011352 165 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRY 242 (488)
Q Consensus 165 ~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y 242 (488)
++.+....-..|+.+.+...+..++... .+.....+..+..-.++..++.+.+...+++. ..|++ -.+.+
T Consensus 266 ~~~~a~~l~~~g~~~~A~~~l~~~l~~~----pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~----~~~~l 337 (409)
T TIGR00540 266 KIALAEHLIDCDDHDSAQEIIFDGLKKL----GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDK----PKCCI 337 (409)
T ss_pred HHHHHHHHHHCCChHHHHHHHHHHHhhC----CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCC----hhHHH
Confidence 3334444444555555555555554321 11111111111222334445666666555543 22321 11567
Q ss_pred HHHHHHHHHHhhcHHHHHHHHH--HHHHhCCc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLL--QAARKAPV 272 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~--~A~~~~P~ 272 (488)
...+|+++..+++|.+|.++|+ .++...|.
T Consensus 338 l~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~ 369 (409)
T TIGR00540 338 NRALGQLLMKHGEFIEAADAFKNVAACKEQLD 369 (409)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC
Confidence 8899999999999999999999 67765443
No 123
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=67.04 E-value=88 Score=37.47 Aligned_cols=125 Identities=14% Similarity=-0.001 Sum_probs=59.7
Q ss_pred HHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHH
Q 011352 126 LIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLL 205 (488)
Q Consensus 126 ~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~ 205 (488)
...++..|++++|..+...+++. +... ..+ ++.+....+..|+..++...+..+.... +. ....
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-----PS--ANAY 612 (987)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhc----CCcc-HHH----HHHHHHHHHhCCCHHHHHHHHHHHHHhC-----CC--HHHH
Confidence 44566788999988887776543 1111 011 1111112222356665555444443211 11 1112
Q ss_pred HHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..+-..|.+.|.++.|...+.+. ..|.+ ..+++..|.++...+++.+|..+|..|+...|.
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 VARATIYRQRHNVPAAVSDLRAALELEPNN------SNYQAALGYALWDSGDIAQSREMLERAHKGLPD 675 (987)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence 22334556666666666655553 12221 133455555555555555555555555554454
No 124
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=66.85 E-value=13 Score=39.63 Aligned_cols=121 Identities=21% Similarity=0.149 Sum_probs=65.9
Q ss_pred ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHH
Q 011352 132 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 211 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~ 211 (488)
.|++.||.-.+...++.+..- -+++-.+.+-|.+.-++..|++..+ +-+.+| .+.+ .+.+ ++.+...
T Consensus 381 ~~~~kEA~~~An~~~~~~~~s-A~~LtL~g~~V~~~dp~~rEKAKkf------~ek~L~---~~P~-Y~~A--V~~~AEL 447 (564)
T KOG1174|consen 381 QKRFKEANALANWTIRLFQNS-ARSLTLFGTLVLFPDPRMREKAKKF------AEKSLK---INPI-YTPA--VNLIAEL 447 (564)
T ss_pred hchHHHHHHHHHHHHHHhhcc-hhhhhhhcceeeccCchhHHHHHHH------HHhhhc---cCCc-cHHH--HHHHHHH
Confidence 455666666665555555432 3455455444555445544444332 222221 1111 1111 2233344
Q ss_pred HHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 212 YLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 212 Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+..-+.+.-+-.++++. .+|+. .-+--+|-+...++.|++|.++|+.|++.-|+
T Consensus 448 ~~~Eg~~~D~i~LLe~~L~~~~D~-------~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~ 503 (564)
T KOG1174|consen 448 CQVEGPTKDIIKLLEKHLIIFPDV-------NLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK 503 (564)
T ss_pred HHhhCccchHHHHHHHHHhhcccc-------HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence 45555555555555552 34431 22457899999999999999999999997665
No 125
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=66.62 E-value=50 Score=37.11 Aligned_cols=30 Identities=20% Similarity=0.157 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.|=+|++|..+++|..|..+|+.|+.--|+
T Consensus 492 wYGlG~vy~Kqek~e~Ae~~fqkA~~INP~ 521 (638)
T KOG1126|consen 492 WYGLGTVYLKQEKLEFAEFHFQKAVEINPS 521 (638)
T ss_pred HHhhhhheeccchhhHHHHHHHhhhcCCcc
Confidence 577899999999999999999999985454
No 126
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=65.63 E-value=2.2e+02 Score=31.52 Aligned_cols=57 Identities=21% Similarity=0.115 Sum_probs=44.6
Q ss_pred HHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 212 YLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 212 Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
++..|+++.|..-+++..--. + + +..+++.|+++...|++.+|.+++..|++.-|..
T Consensus 430 ~~~~g~~~~A~~~l~rAl~L~--p-s--~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~ 486 (517)
T PRK10153 430 ALVKGKTDEAYQAINKAIDLE--M-S--WLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE 486 (517)
T ss_pred HHhcCCHHHHHHHHHHHHHcC--C-C--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence 445699999998887752111 1 1 3468899999999999999999999999977764
No 127
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=65.39 E-value=14 Score=24.83 Aligned_cols=28 Identities=29% Similarity=0.171 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
.-+.-+|.++..+++|.+|..++.+|+.
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 128
>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=64.98 E-value=12 Score=30.45 Aligned_cols=48 Identities=17% Similarity=0.403 Sum_probs=38.4
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCc
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGD 421 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~d 421 (488)
++..+||+.++++. ..++.++.++...|.|..+=-+..||.-..+..+
T Consensus 26 ~s~~eiA~~~~i~~----~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~~~ 73 (83)
T PF02082_consen 26 VSSKEIAERLGISP----SYLRKILQKLKKAGLIESSRGRGGGYRLARPPEE 73 (83)
T ss_dssp BEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEEEETSTTSEEEESS-CCG
T ss_pred CCHHHHHHHHCcCH----HHHHHHHHHHhhCCeeEecCCCCCceeecCCHHH
Confidence 99999999999987 8999999999999999766555677766555433
No 129
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=64.90 E-value=14 Score=27.76 Aligned_cols=29 Identities=24% Similarity=0.322 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
|-.|+.+...++|.+|...|..++...|.
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 46799999999999999999999987655
No 130
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=64.52 E-value=29 Score=33.82 Aligned_cols=96 Identities=18% Similarity=0.196 Sum_probs=55.3
Q ss_pred HHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhhh--hhhh-HH-HHHH-H
Q 011352 245 YLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEK--ALRP-YF-ELTN-A 319 (488)
Q Consensus 245 Y~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~--~l~~-Y~-~L~~-A 319 (488)
--|--.+.+++|.+|...|..|+.-||+....-+--+|-.--.+-+=+|+--.. . ..+.+ .+.| |. .|.. |
T Consensus 100 ~EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~a--I--~dcsKaiel~pty~kAl~RRA 175 (271)
T KOG4234|consen 100 KEGNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESA--I--EDCSKAIELNPTYEKALERRA 175 (271)
T ss_pred HHHHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHH--H--HHHHhhHhcCchhHHHHHHHH
Confidence 346666789999999999999999999865533222222111111112221100 0 00001 1112 22 3333 5
Q ss_pred HhcCCHHHHHHHHHHcchhhhcCcc
Q 011352 320 VRIGDLELFKSVAEKFSSTFSSDRT 344 (488)
Q Consensus 320 v~~Gdl~~f~~~l~~~~~~f~~D~~ 344 (488)
..--...+|+.+++.|+.....|.-
T Consensus 176 eayek~ek~eealeDyKki~E~dPs 200 (271)
T KOG4234|consen 176 EAYEKMEKYEEALEDYKKILESDPS 200 (271)
T ss_pred HHHHhhhhHHHHHHHHHHHHHhCcc
Confidence 5555678999999999999998874
No 131
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=64.35 E-value=86 Score=31.13 Aligned_cols=107 Identities=14% Similarity=0.237 Sum_probs=62.0
Q ss_pred CCCCCcchhcchhhhhhhhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHH-HHHHhhcccc
Q 011352 293 GEIPERTVFMQKGMEKALRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLR-NISISYSRIS 371 (488)
Q Consensus 293 G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir-~i~~~YsrIs 371 (488)
+.+|...+...+ .+.+=..|-+-+-.| .|++++..-+. ..+..|.-.-.+....+|.-|- -+-++|..||
T Consensus 124 e~lp~~~l~~~~----~I~~~v~LEq~~MEG---aYnKv~~a~~s--~p~~~y~~FmdIl~~tiRdEIA~c~EKsYd~l~ 194 (260)
T KOG3151|consen 124 ELLPKKILQHNP----YISHPVSLEQSLMEG---AYNKVLSAKQS--IPSEEYTYFMDILLDTIRDEIAGCIEKSYDKLS 194 (260)
T ss_pred HhccHHHhhccc----hhhhHHHHHHHHHhh---HHHHHHHHHhc--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 445554444332 233334566666666 34444443332 1234455555555666777774 4568999999
Q ss_pred HHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 372 LADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 372 L~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
+++.++.|.++++ ++.+.... ++... ++ ++|+..+..
T Consensus 195 ~s~a~~~L~f~~~---~e~~~~~~----~r~W~--l~-~~~~~~~~~ 231 (260)
T KOG3151|consen 195 ASDATQMLLFNND---KELKKFAT----ERQWP--LD-EKGVFSFAS 231 (260)
T ss_pred HHHHHHHHhcCCh---HHHHHHHH----hcCCc--cc-ccccccchh
Confidence 9999999999985 66555443 33342 22 466666543
No 132
>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=63.89 E-value=1.5e+02 Score=31.16 Aligned_cols=90 Identities=13% Similarity=-0.037 Sum_probs=50.8
Q ss_pred HHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHH
Q 011352 169 SLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYL 246 (488)
Q Consensus 169 s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~ 246 (488)
+.+....|+.+.+...+..+.+.. ...+. .+--...++++..+.++.|...++.. ..|.+. .+ ++..
T Consensus 125 A~aa~~~g~~~~A~~~l~~a~~~~----p~~~l-~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~----~~--l~ll 193 (409)
T TIGR00540 125 AEAAQQRGDEARANQHLEEAAELA----GNDNI-LVEIARTRILLAQNELHAARHGVDKLLEMAPRHK----EV--LKLA 193 (409)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhC----CcCch-HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH----HH--HHHH
Confidence 444445566666666555553211 11111 11111256777788888877766653 223322 12 4577
Q ss_pred HHHHHHhhcHHHHHHHHHHHHHh
Q 011352 247 GKIRTIQLEYTDAKESLLQAARK 269 (488)
Q Consensus 247 Gri~~~~~dy~~A~~~L~~A~~~ 269 (488)
|.++...+||.+|.+.|....+.
T Consensus 194 ~~~~~~~~d~~~a~~~l~~l~k~ 216 (409)
T TIGR00540 194 EEAYIRSGAWQALDDIIDNMAKA 216 (409)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHc
Confidence 88888888888888777777653
No 133
>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=63.07 E-value=98 Score=30.94 Aligned_cols=78 Identities=18% Similarity=0.132 Sum_probs=53.8
Q ss_pred HHccCCHHHHHHHHhcCCCCc-c---CChhHHHHHHHHHHHHHHHhh-cHHHHHHHHHHHHHhC---Cc------cchhh
Q 011352 212 YLHYNLYDQAEKLRSKAPRFE-A---HSNQQFCRYLFYLGKIRTIQL-EYTDAKESLLQAARKA---PV------AALGF 277 (488)
Q Consensus 212 Yl~~~~~~~a~~li~~~~~pe-~---~~~~~~v~Y~YY~Gri~~~~~-dy~~A~~~L~~A~~~~---P~------~~~~~ 277 (488)
..+.|+++.|..++++..... . ......++=+|-.|.=....+ +|..|..+|++|+.-+ +. ..+..
T Consensus 3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el 82 (278)
T PF08631_consen 3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL 82 (278)
T ss_pred chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence 356788899999888863221 1 223456677888899888999 9999999999999864 22 12345
Q ss_pred HHHHHHHHHHHH
Q 011352 278 RVQCNKWAIIVR 289 (488)
Q Consensus 278 ~~~alK~lIlv~ 289 (488)
+..++..++-+-
T Consensus 83 r~~iL~~La~~~ 94 (278)
T PF08631_consen 83 RLSILRLLANAY 94 (278)
T ss_pred HHHHHHHHHHHH
Confidence 555565555443
No 134
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=62.81 E-value=39 Score=37.88 Aligned_cols=110 Identities=19% Similarity=0.079 Sum_probs=56.5
Q ss_pred ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHHhhhc----CCcccHHHHH
Q 011352 132 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELT--GDLAEIRGNLLALHRIATLR----HDELGQETLL 205 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~--~~l~~~r~~L~~~~rta~~~----~~~~~~~~l~ 205 (488)
+++++.|.+|....|+.=..|- |-|--.-||.. +.++++. .+||.|-.. -+-|..+.
T Consensus 434 Qkdh~~Aik~f~RAiQldp~fa-----------YayTLlGhE~~~~ee~d~a~----~~fr~Al~~~~rhYnAwYGlG-- 496 (638)
T KOG1126|consen 434 QKDHDTAIKCFKRAIQLDPRFA-----------YAYTLLGHESIATEEFDKAM----KSFRKALGVDPRHYNAWYGLG-- 496 (638)
T ss_pred hhHHHHHHHHHHHhhccCCccc-----------hhhhhcCChhhhhHHHHhHH----HHHHhhhcCCchhhHHHHhhh--
Confidence 5789999988777765422110 22333334442 2233333 334443221 11222221
Q ss_pred HHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 206 NLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 206 n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
-+|++...++.|+-.+.++ ..|.+. + -.-+.|+++-..++..+|...+..|+.
T Consensus 497 ----~vy~Kqek~e~Ae~~fqkA~~INP~ns----v--i~~~~g~~~~~~k~~d~AL~~~~~A~~ 551 (638)
T KOG1126|consen 497 ----TVYLKQEKLEFAEFHFQKAVEINPSNS----V--ILCHIGRIQHQLKRKDKALQLYEKAIH 551 (638)
T ss_pred ----hheeccchhhHHHHHHHhhhcCCccch----h--HHhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence 2577777777777766664 223211 1 123556666677777777777777775
No 135
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=60.87 E-value=96 Score=35.28 Aligned_cols=88 Identities=16% Similarity=0.072 Sum_probs=54.7
Q ss_pred hhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHh
Q 011352 174 LTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQ 253 (488)
Q Consensus 174 ~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~ 253 (488)
+.|....+|..|..+|..+....+-|. --+|+-+..+.++.|..|+.++-.. +. .-|-+|=...+--++
T Consensus 596 ~agdv~~ar~il~~af~~~pnseeiwl------aavKle~en~e~eraR~llakar~~---sg--TeRv~mKs~~~er~l 664 (913)
T KOG0495|consen 596 KAGDVPAARVILDQAFEANPNSEEIWL------AAVKLEFENDELERARDLLAKARSI---SG--TERVWMKSANLERYL 664 (913)
T ss_pred hcCCcHHHHHHHHHHHHhCCCcHHHHH------HHHHHhhccccHHHHHHHHHHHhcc---CC--cchhhHHHhHHHHHh
Confidence 567888888888888754422111111 1236667888888888888775210 01 112233445555567
Q ss_pred hcHHHHHHHHHHHHHhCCc
Q 011352 254 LEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 254 ~dy~~A~~~L~~A~~~~P~ 272 (488)
++..+|.+.++.|+..+|.
T Consensus 665 d~~eeA~rllEe~lk~fp~ 683 (913)
T KOG0495|consen 665 DNVEEALRLLEEALKSFPD 683 (913)
T ss_pred hhHHHHHHHHHHHHHhCCc
Confidence 8888888888888887775
No 136
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=60.83 E-value=35 Score=31.65 Aligned_cols=78 Identities=17% Similarity=0.076 Sum_probs=54.9
Q ss_pred HHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHH
Q 011352 211 NYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRL 290 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~L 290 (488)
.....|+++.|.++......-+ .+..+|+|=+|.++-..++|.+|...|..|+..-|..+.. +-++=.|.|
T Consensus 44 ~ly~~G~l~~A~~~f~~L~~~D----p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~-----~~~ag~c~L 114 (157)
T PRK15363 44 QLMEVKEFAGAARLFQLLTIYD----AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQA-----PWAAAECYL 114 (157)
T ss_pred HHHHCCCHHHHHHHHHHHHHhC----cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchH-----HHHHHHHHH
Confidence 3457788888888776642111 2456889999999999999999999999999866654322 234445566
Q ss_pred hcCCCCC
Q 011352 291 LLGEIPE 297 (488)
Q Consensus 291 L~G~iP~ 297 (488)
.+|+++.
T Consensus 115 ~lG~~~~ 121 (157)
T PRK15363 115 ACDNVCY 121 (157)
T ss_pred HcCCHHH
Confidence 6777765
No 137
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=60.53 E-value=55 Score=32.46 Aligned_cols=158 Identities=20% Similarity=0.215 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHH-HHHHHHHccCCHHHHHHHHhcC--CCCcc--CCh
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLN-LLLRNYLHYNLYDQAEKLRSKA--PRFEA--HSN 236 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n-~llr~Yl~~~~~~~a~~li~~~--~~pe~--~~~ 236 (488)
+++..=....+--.|+...++..|-++++ ||+.. ..+. .+--+|-+.|..+.|..-.++. .-|.+ +-+
T Consensus 35 a~arlqLal~YL~~gd~~~A~~nlekAL~-----~DPs~--~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLN 107 (250)
T COG3063 35 AKARLQLALGYLQQGDYAQAKKNLEKALE-----HDPSY--YLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLN 107 (250)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHH-----hCccc--HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhh
Confidence 33334344555556777788877777764 33322 2222 2334777888888888765553 23432 223
Q ss_pred hHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhh--hh-hhhH
Q 011352 237 QQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGME--KA-LRPY 313 (488)
Q Consensus 237 ~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~--~~-l~~Y 313 (488)
+ | |-..+.+|+|.+|..+|..|+. .|.- +..-..+-.+.+|.+=+|+.-....+-++.+. +. -.+.
T Consensus 108 N-------Y-G~FLC~qg~~~eA~q~F~~Al~-~P~Y--~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~ 176 (250)
T COG3063 108 N-------Y-GAFLCAQGRPEEAMQQFERALA-DPAY--GEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPAL 176 (250)
T ss_pred h-------h-hHHHHhCCChHHHHHHHHHHHh-CCCC--CCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHH
Confidence 2 3 5566778899999999999997 7762 12223456678888888887654322222221 11 1122
Q ss_pred HHHHHH-HhcCCHHHHHHHHHHcch
Q 011352 314 FELTNA-VRIGDLELFKSVAEKFSS 337 (488)
Q Consensus 314 ~~L~~A-v~~Gdl~~f~~~l~~~~~ 337 (488)
.++++- ++.||...-+..++.+..
T Consensus 177 l~~a~~~~~~~~y~~Ar~~~~~~~~ 201 (250)
T COG3063 177 LELARLHYKAGDYAPARLYLERYQQ 201 (250)
T ss_pred HHHHHHHHhcccchHHHHHHHHHHh
Confidence 333333 577877766666665544
No 138
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=60.52 E-value=1.8e+02 Score=28.66 Aligned_cols=61 Identities=13% Similarity=-0.056 Sum_probs=47.5
Q ss_pred HHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 210 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
..++..|+|+.|....+.. ..|.+ +....+ .|.+|..+...++|.+|..+++..++..|..
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 4567889999998877764 34543 333334 5689999999999999999999999988874
No 139
>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=60.52 E-value=29 Score=25.89 Aligned_cols=37 Identities=16% Similarity=0.400 Sum_probs=30.9
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCC
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 410 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~ 410 (488)
++..+||..++++. ..+-.+|.+|+..|.|.-.-+..
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 89999999999998 89999999999999996555443
No 140
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=59.36 E-value=15 Score=33.59 Aligned_cols=39 Identities=21% Similarity=0.283 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCC
Q 011352 346 NLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSA 384 (488)
Q Consensus 346 ~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~ 384 (488)
.++.-+|....|+.+.-+...|+.|...|+|.-+|++.+
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 456777888888999999999999999999999999873
No 141
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=59.29 E-value=67 Score=33.87 Aligned_cols=32 Identities=19% Similarity=0.205 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
..++..|+++..+++|.+|.++|+.++...|.
T Consensus 329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~ 360 (398)
T PRK10747 329 LLWSTLGQLLMKHGEWQEASLAFRAALKQRPD 360 (398)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence 46789999999999999999999999986565
No 142
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=58.98 E-value=1.5e+02 Score=27.47 Aligned_cols=106 Identities=14% Similarity=0.083 Sum_probs=60.6
Q ss_pred HHHHHHh--hccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHH
Q 011352 168 YSLCYEL--TGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYL 243 (488)
Q Consensus 168 ~s~~~e~--~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~ 243 (488)
|+.++.+ .|++.++.. .|++.+.. +++-.-+..|+ =-+|-..++|..|-..-+.. --|++..+ +
T Consensus 39 Y~~A~~ly~~G~l~~A~~----~f~~L~~~-Dp~~~~y~~gL-G~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~------~ 106 (157)
T PRK15363 39 YRYAMQLMEVKEFAGAAR----LFQLLTIY-DAWSFDYWFRL-GECCQAQKHWGEAIYAYGRAAQIKIDAPQA------P 106 (157)
T ss_pred HHHHHHHHHCCCHHHHHH----HHHHHHHh-CcccHHHHHHH-HHHHHHHhhHHHHHHHHHHHHhcCCCCchH------H
Confidence 3444443 467777654 33444332 23333333332 11344556777776655553 12332222 7
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHHhCCc--cchhhHHHHHHHH
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAARKAPV--AALGFRVQCNKWA 285 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~~~P~--~~~~~~~~alK~l 285 (488)
+|.|..++..|+...|...|..|+..|.. .-...+..+-.++
T Consensus 107 ~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~~A~~~L 150 (157)
T PRK15363 107 WAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQRAEKML 150 (157)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHHHHHHHH
Confidence 89999999999999999999999998843 1233444444433
No 143
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=57.45 E-value=2.5e+02 Score=29.49 Aligned_cols=89 Identities=15% Similarity=-0.012 Sum_probs=53.5
Q ss_pred HHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHH
Q 011352 169 SLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYL 246 (488)
Q Consensus 169 s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~ 246 (488)
..+....|+.+.+...+..+.+. ++.......-...++|+..|++++|...++.. ..|.+. ...+..
T Consensus 125 A~aA~~~g~~~~A~~~l~~A~~~-----~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~------~al~ll 193 (398)
T PRK10747 125 AEAAQQRGDEARANQHLERAAEL-----ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHP------EVLRLA 193 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhc-----CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCH------HHHHHH
Confidence 33334456666666666555421 11111111112357888888888888877764 233322 235677
Q ss_pred HHHHHHhhcHHHHHHHHHHHHH
Q 011352 247 GKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 247 Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
+.+|...++|.+|.+.|.....
T Consensus 194 ~~~~~~~gdw~~a~~~l~~l~k 215 (398)
T PRK10747 194 EQAYIRTGAWSSLLDILPSMAK 215 (398)
T ss_pred HHHHHHHHhHHHHHHHHHHHHH
Confidence 8888888899888887777765
No 144
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=57.01 E-value=69 Score=33.73 Aligned_cols=52 Identities=21% Similarity=0.096 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCC
Q 011352 238 QFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGE 294 (488)
Q Consensus 238 ~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~ 294 (488)
.-+.=+|=+|.-.+..+.|+.|..+|..|+..-|. +.+.+++... |-|-||+
T Consensus 36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~----~Y~aifrRaT-~yLAmGk 87 (504)
T KOG0624|consen 36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPN----NYQAIFRRAT-VYLAMGK 87 (504)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch----hHHHHHHHHH-HHhhhcC
Confidence 34555788999999999999999999999985454 3333333322 2344676
No 145
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=56.92 E-value=61 Score=28.94 Aligned_cols=61 Identities=16% Similarity=-0.128 Sum_probs=45.3
Q ss_pred HHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 209 LRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 209 lr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
-..++..|.++.|...+...... ......+++-.|.++...++|.+|..+|..|+...|..
T Consensus 31 g~~~~~~g~~~~A~~~~~~al~~----~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~ 91 (144)
T PRK15359 31 GYASWQEGDYSRAVIDFSWLVMA----QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASH 91 (144)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHc----CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC
Confidence 34667889999887766653111 01234667889999999999999999999999866654
No 146
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=56.31 E-value=1.4e+02 Score=26.21 Aligned_cols=100 Identities=18% Similarity=0.070 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHH
Q 011352 163 RLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFC 240 (488)
Q Consensus 163 k~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v 240 (488)
++.|....+++..|+-+++.+..-.++.. .+....... .++ .+-..|-..|.++.|..+++.. .+|+.- ....+
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-GLSGADRRR-ALI-QLASTLRNLGRYDEALALLEEALEEFPDDE-LNAAL 77 (120)
T ss_pred chHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCchHHHH-HHH-HHHHHHHHcCCHHHHHHHHHHHHHHCCCcc-ccHHH
Confidence 45678888999999888887766666531 111111111 222 3456788999999999999885 455421 23344
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
++ ..++.....+++.+|.+.+..++.
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 456777889999999999999885
No 147
>PRK14574 hmsH outer membrane protein; Provisional
Probab=56.06 E-value=4e+02 Score=31.36 Aligned_cols=26 Identities=8% Similarity=-0.155 Sum_probs=16.9
Q ss_pred HHHHHHHHHHcccCHHHHHHHHHHHH
Q 011352 121 CYLLVLIFLIDKKRYNEAKACSSASI 146 (488)
Q Consensus 121 ~~ll~~~~l~d~~~~~~A~~~~~~lv 146 (488)
...+..+....+|+|..|.....+++
T Consensus 36 ~~y~~aii~~r~Gd~~~Al~~L~qaL 61 (822)
T PRK14574 36 TQYDSLIIRARAGDTAPVLDYLQEES 61 (822)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 44566666777777777776655554
No 148
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=55.30 E-value=4.7e+02 Score=32.66 Aligned_cols=160 Identities=16% Similarity=0.142 Sum_probs=93.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhh---hHHHHHHHHHHHHHHHHHhhccHHHHHHHH
Q 011352 109 PAKHPLPELEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRR---TVDVLAARLYFYYSLCYELTGDLAEIRGNL 185 (488)
Q Consensus 109 ~~~~~~p~~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r---~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L 185 (488)
.+.+..||++...++|- .++.+.|-+.+...+..|..=... -.|.- |+-+-.+| | ....+
T Consensus 1454 sPNSSi~WI~YMaf~Le------lsEiekAR~iaerAL~tIN~REeeEKLNiWiA----~lNlEn~y---G----~eesl 1516 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLE------LSEIEKARKIAERALKTINFREEEEKLNIWIA----YLNLENAY---G----TEESL 1516 (1710)
T ss_pred CCCcchHHHHHHHHHhh------hhhhHHHHHHHHHHhhhCCcchhHHHHHHHHH----HHhHHHhh---C----cHHHH
Confidence 45667899998887654 467788888877766554211000 12321 22111111 1 12356
Q ss_pred HHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHH
Q 011352 186 LALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESL 263 (488)
Q Consensus 186 ~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L 263 (488)
...|-.|+..++. +.+.-.|+.+|-+...++.|..+++.+ .|-+ ...-|+.| |-..+-+.+=+.|++.|
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 KKVFERACQYCDA---YTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQ--TRKVWIMY----ADFLLRQNEAEAARELL 1587 (1710)
T ss_pred HHHHHHHHHhcch---HHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcc--hhhHHHHH----HHHHhcccHHHHHHHHH
Confidence 6667666655553 344456889999999999999988875 2221 12223333 44556677778899999
Q ss_pred HHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCC
Q 011352 264 LQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPE 297 (488)
Q Consensus 264 ~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~ 297 (488)
..|+.-.|. ...++..-+..-++.=.|+-|.
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 3334444333333433566554
No 149
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.12 E-value=27 Score=35.06 Aligned_cols=64 Identities=22% Similarity=0.250 Sum_probs=46.5
Q ss_pred HHHHHHHHHHccCCHHHHHHHHhc-C-CCCcc--CChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 204 LLNLLLRNYLHYNLYDQAEKLRSK-A-PRFEA--HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 204 l~n~llr~Yl~~~~~~~a~~li~~-~-~~pe~--~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+.+.-+.. ++.|.|..|..-+.. . .+|.+ .+++ +|.+|..+..+++|.+|...|..+.+..|.+
T Consensus 144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA-----~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s 211 (262)
T COG1729 144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNA-----YYWLGESLYAQGDYEDAAYIFARVVKDYPKS 211 (262)
T ss_pred HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchh-----HHHHHHHHHhcccchHHHHHHHHHHHhCCCC
Confidence 34444444 455668888775444 2 45653 4454 7899999999999999999999999988873
No 150
>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=55.09 E-value=3.5e+02 Score=30.37 Aligned_cols=151 Identities=17% Similarity=0.032 Sum_probs=93.3
Q ss_pred CCCCCHHHHHHHHHHHHHHH-cccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH
Q 011352 111 KHPLPELEIYCYLLVLIFLI-DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALH 189 (488)
Q Consensus 111 ~~~~p~~e~~~~ll~~~~l~-d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~ 189 (488)
....|+.|+.+++=..--++ ...++++|.....+.+...+. ..++-+.-.+.+..+++++..+.-. +...+-++.
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 35578999988765444444 688999999888766655544 2222222223445566666666444 555555544
Q ss_pred HHhhh-cCCcccHHHHHHHHHH--HHHccCCHHHHHHHHhcC-CCCc-cCChhHHHHHHHHHHHHHHHhhcHHHHHHHHH
Q 011352 190 RIATL-RHDELGQETLLNLLLR--NYLHYNLYDQAEKLRSKA-PRFE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKESLL 264 (488)
Q Consensus 190 rta~~-~~~~~~~~~l~n~llr--~Yl~~~~~~~a~~li~~~-~~pe-~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~ 264 (488)
..+.. .|..|.-++ .++| .++..+++..|...+... ..+. .-.+.-.+.+.++.|.++...+...++.+.+.
T Consensus 127 ~~~~~~~~~~w~~~f---rll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~ 203 (608)
T PF10345_consen 127 EDSETYGHSAWYYAF---RLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQ 203 (608)
T ss_pred HHHhccCchhHHHHH---HHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHH
Confidence 43322 233333222 2333 344457888787776664 3343 35566788899999999999998888888888
Q ss_pred HHHH
Q 011352 265 QAAR 268 (488)
Q Consensus 265 ~A~~ 268 (488)
.|..
T Consensus 204 ~~~~ 207 (608)
T PF10345_consen 204 RAIA 207 (608)
T ss_pred HHHH
Confidence 8743
No 151
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=54.91 E-value=1.2e+02 Score=24.99 Aligned_cols=86 Identities=19% Similarity=0.070 Sum_probs=56.6
Q ss_pred HHHHHHHHcccCHHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccH
Q 011352 123 LLVLIFLIDKKRYNEAKACSSASIARLKNM-NRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 201 (488)
Q Consensus 123 ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~-~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~ 201 (488)
.|.-+..+..++|.+|.+...........- +......+ +-...-.+.++-..|+.+++...+..+.+.|-..+|..+.
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 455566778899999988877776663322 22211111 1113445556667799999999999999999888888777
Q ss_pred HHHHHHHH
Q 011352 202 ETLLNLLL 209 (488)
Q Consensus 202 ~~l~n~ll 209 (488)
......+.
T Consensus 81 ~~al~~~~ 88 (94)
T PF12862_consen 81 AYALSWLA 88 (94)
T ss_pred HHHHHHHH
Confidence 66555443
No 152
>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=54.68 E-value=32 Score=34.97 Aligned_cols=89 Identities=21% Similarity=0.087 Sum_probs=60.2
Q ss_pred cHHHHHHHHHHHHHccCCHHHHHHHHhcCC-CCccCChhHHHHHHHHHHHHHHHhh--cHHHHHHHHHHHHHhCCccchh
Q 011352 200 GQETLLNLLLRNYLHYNLYDQAEKLRSKAP-RFEAHSNQQFCRYLFYLGKIRTIQL--EYTDAKESLLQAARKAPVAALG 276 (488)
Q Consensus 200 ~~~~l~n~llr~Yl~~~~~~~a~~li~~~~-~pe~~~~~~~v~Y~YY~Gri~~~~~--dy~~A~~~L~~A~~~~P~~~~~ 276 (488)
+.+-...+...+|++.|++++|.+.+++.. ..+ +-+.+....+-+.+..| +|.+|+..|+..-.++|.+.
T Consensus 129 ~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~e-----D~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~-- 201 (290)
T PF04733_consen 129 GSLELLALAVQILLKMNRPDLAEKELKNMQQIDE-----DSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTP-- 201 (290)
T ss_dssp TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSC-----CHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SH--
T ss_pred CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCH--
Confidence 334445567789999999999999988863 222 34444566777777766 69999999999776655432
Q ss_pred hHHHHHHHHHHHHHhcCCCCCc
Q 011352 277 FRVQCNKWAIIVRLLLGEIPER 298 (488)
Q Consensus 277 ~~~~alK~lIlv~LL~G~iP~~ 298 (488)
.++--+.+|.|.+|+.|+.
T Consensus 202 ---~~lng~A~~~l~~~~~~eA 220 (290)
T PF04733_consen 202 ---KLLNGLAVCHLQLGHYEEA 220 (290)
T ss_dssp ---HHHHHHHHHHHHCT-HHHH
T ss_pred ---HHHHHHHHHHHHhCCHHHH
Confidence 3344556678889999874
No 153
>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=53.87 E-value=39 Score=25.03 Aligned_cols=41 Identities=20% Similarity=0.354 Sum_probs=33.7
Q ss_pred hhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCC
Q 011352 366 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHA 410 (488)
Q Consensus 366 ~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~ 410 (488)
.+..++..+|+..++++. ..+=.++.+|+.+|.|.-.-+..
T Consensus 14 ~~~~~~~~~la~~~~~~~----~~~t~~i~~L~~~g~I~r~~~~~ 54 (59)
T PF01047_consen 14 ENGGITQSELAEKLGISR----STVTRIIKRLEKKGLIERERDPD 54 (59)
T ss_dssp HHSSEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSEEEEEETT
T ss_pred HcCCCCHHHHHHHHCCCh----hHHHHHHHHHHHCCCEEeccCCC
Confidence 346799999999999988 78999999999999996655543
No 154
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=53.36 E-value=33 Score=28.06 Aligned_cols=43 Identities=12% Similarity=0.144 Sum_probs=35.7
Q ss_pred HHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEe
Q 011352 361 RNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATV 407 (488)
Q Consensus 361 r~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~I 407 (488)
|..-.-+-+.++++|+..++.+. +-+|.++..++..|.|.-.-
T Consensus 8 Rd~l~~~gr~s~~~Ls~~~~~p~----~~VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 8 RDLLALRGRMEAAQISQTLNTPQ----PMINAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHHHHcCcccHHHHHHHHCcCH----HHHHHHHHHHHHCCCeEeec
Confidence 33345678999999999999887 89999999999999995443
No 155
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=52.75 E-value=3.5e+02 Score=29.66 Aligned_cols=96 Identities=22% Similarity=0.147 Sum_probs=64.3
Q ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHH
Q 011352 165 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRY 242 (488)
Q Consensus 165 ~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y 242 (488)
.|-..+.+|..++|.++...+++.+-.. +.. +-++..+..+|=...+..||-.++... ..|... . -
T Consensus 527 lfniglt~e~~~~ldeald~f~klh~il--~nn----~evl~qianiye~led~aqaie~~~q~~slip~dp----~--i 594 (840)
T KOG2003|consen 527 LFNIGLTAEALGNLDEALDCFLKLHAIL--LNN----AEVLVQIANIYELLEDPAQAIELLMQANSLIPNDP----A--I 594 (840)
T ss_pred HHHhcccHHHhcCHHHHHHHHHHHHHHH--Hhh----HHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCH----H--H
Confidence 4566777888899988877666554221 111 223344566777778888887766653 233221 1 1
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+--+|-+|--+||-+.|++|....++..|.
T Consensus 595 lskl~dlydqegdksqafq~~ydsyryfp~ 624 (840)
T KOG2003|consen 595 LSKLADLYDQEGDKSQAFQCHYDSYRYFPC 624 (840)
T ss_pred HHHHHHHhhcccchhhhhhhhhhcccccCc
Confidence 235788889999999999999999998887
No 156
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=52.22 E-value=57 Score=33.99 Aligned_cols=59 Identities=14% Similarity=0.038 Sum_probs=45.8
Q ss_pred HHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 210 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
..+|..++|+.|....... ..|.. ..+++..|.++...++|.+|...+..|+...|..+
T Consensus 10 ~~a~~~~~~~~Ai~~~~~Al~~~P~~------~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~ 70 (356)
T PLN03088 10 KEAFVDDDFALAVDLYTQAIDLDPNN------AELYADRAQANIKLGNFTEAVADANKAIELDPSLA 70 (356)
T ss_pred HHHHHcCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCH
Confidence 4567888888888877664 22321 34678999999999999999999999999777643
No 157
>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=52.16 E-value=44 Score=25.49 Aligned_cols=41 Identities=15% Similarity=0.271 Sum_probs=32.9
Q ss_pred ccc-cHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEE
Q 011352 368 SRI-SLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWM 414 (488)
Q Consensus 368 srI-sL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v 414 (488)
.++ +..++|..++++. .-+...+..|..+|.| ...+.+|+.
T Consensus 22 ~~lps~~~la~~~~vsr----~tvr~al~~L~~~g~i--~~~~~~G~~ 63 (64)
T PF00392_consen 22 DRLPSERELAERYGVSR----TTVREALRRLEAEGLI--ERRPGRGTF 63 (64)
T ss_dssp SBE--HHHHHHHHTS-H----HHHHHHHHHHHHTTSE--EEETTTEEE
T ss_pred CEeCCHHHHHHHhccCC----cHHHHHHHHHHHCCcE--EEECCceEE
Confidence 789 9999999999988 8899999999999999 445556654
No 158
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=51.99 E-value=32 Score=31.28 Aligned_cols=39 Identities=23% Similarity=0.336 Sum_probs=34.5
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc---eEeeCC
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID---ATVDHA 410 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~---A~Id~~ 410 (488)
.|+|.++||..+|++. ..+-.-+.+|..+|.|. |.+|+.
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 89999999999999996 345643
No 159
>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=51.69 E-value=17 Score=31.95 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=36.7
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEE
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMV 415 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~ 415 (488)
..++..+||.+++++. .-+..++..|...|.|.+.-...+||.-
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 8999999999999999775444456554
No 160
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=51.11 E-value=21 Score=24.97 Aligned_cols=32 Identities=16% Similarity=0.320 Sum_probs=28.9
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
.++..++|..++++. ..+-.++..|...|.|.
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 478899999999987 89999999999999994
No 161
>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=51.10 E-value=42 Score=25.28 Aligned_cols=33 Identities=15% Similarity=0.244 Sum_probs=29.9
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
..++.++||..+|++. ..+..++.+|..+|.|.
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 89999999999999994
No 162
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=50.70 E-value=32 Score=31.67 Aligned_cols=37 Identities=24% Similarity=0.305 Sum_probs=33.1
Q ss_pred HhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce
Q 011352 365 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA 405 (488)
Q Consensus 365 ~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A 405 (488)
+--.|+|.++||.++|++. ..+-.-+.+|..+|.|.+
T Consensus 24 q~d~R~s~~eiA~~lglS~----~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 24 QKDGRISNVELSKRVGLSP----TPCLERVRRLERQGFIQG 60 (164)
T ss_pred ccCCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCeEE
Confidence 3458999999999999998 789999999999999964
No 163
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=49.86 E-value=40 Score=24.51 Aligned_cols=43 Identities=12% Similarity=0.232 Sum_probs=34.1
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcE
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 413 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~ 413 (488)
-..+++.+|+..++++. ..+-..+..|..+|.|...-+...++
T Consensus 8 ~~~~~~~~i~~~l~is~----~~v~~~l~~L~~~g~i~~~~~~~~~~ 50 (66)
T smart00418 8 EGELCVCELAEILGLSQ----STVSHHLKKLREAGLVESRREGKRVY 50 (66)
T ss_pred cCCccHHHHHHHHCCCH----HHHHHHHHHHHHCCCeeeeecCCEEE
Confidence 45688999999999887 78999999999999997544333333
No 164
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=49.55 E-value=2.6e+02 Score=30.63 Aligned_cols=134 Identities=16% Similarity=0.184 Sum_probs=86.5
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCc-chhcc--hhh-h-hhhhhHHHHH
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPER-TVFMQ--KGM-E-KALRPYFELT 317 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~-~ll~~--~~l-~-~~l~~Y~~L~ 317 (488)
|---+||.+-.||..+--+|..+-....-....+...+-.-|-||--+++..-|+. +++.. ... + .....=.++-
T Consensus 351 YEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~~~EF~AYriLY~i~tkN~~di~sll~~lt~E~ked~~V~hAL~vR 430 (540)
T KOG1861|consen 351 YETHARIALEKGDLEEFNQCQTQLKALYSEGIPGAYLEFTAYRILYYIFTKNYPDILSLLRDLTEEDKEDEAVAHALEVR 430 (540)
T ss_pred ehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCchhhHHHHHHHHHHHhcCchHHHHHHHhccHhhccCHHHHHHHHHH
Confidence 44568999999999888888887766442344555677777777777776555542 22221 111 1 2334456899
Q ss_pred HHHhcCCHHHHHHHHHHcchhhhcCcch--HHHHHHHHHHHHHhHHHHHHhhc-cccHHHHHHHhcCCC
Q 011352 318 NAVRIGDLELFKSVAEKFSSTFSSDRTN--NLIVRLRHNVIRTGLRNISISYS-RISLADVAKKLRLDS 383 (488)
Q Consensus 318 ~Av~~Gdl~~f~~~l~~~~~~f~~D~~~--~Lv~rLr~~vir~~ir~i~~~Ys-rIsL~dIa~~L~l~~ 383 (488)
.|+..||...|=..-- .-.++ -|+..-...-.+..+..|+++|. .|++.-|+..|.+++
T Consensus 431 ~A~~~GNY~kFFrLY~-------~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~ 492 (540)
T KOG1861|consen 431 SAVTLGNYHKFFRLYL-------TAPNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDS 492 (540)
T ss_pred HHHHhccHHHHHHHHh-------hcccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhch
Confidence 9999999888765422 22222 13333333334556788999997 999999999888765
No 165
>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=49.33 E-value=3.8e+02 Score=29.13 Aligned_cols=76 Identities=16% Similarity=0.164 Sum_probs=51.8
Q ss_pred cCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhc
Q 011352 215 YNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLL 292 (488)
Q Consensus 215 ~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~ 292 (488)
....+.|..++... .+|+ -+-|.++.||++..+++..+|.+.|+.|+. +...-..+...++-=+..+.+++
T Consensus 246 ~~~~~~a~~lL~~~~~~yP~------s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~-~q~~~~Ql~~l~~~El~w~~~~~ 318 (468)
T PF10300_consen 246 DVPLEEAEELLEEMLKRYPN------SALFLFFEGRLERLKGNLEEAIESFERAIE-SQSEWKQLHHLCYFELAWCHMFQ 318 (468)
T ss_pred CCCHHHHHHHHHHHHHhCCC------cHHHHHHHHHHHHHhcCHHHHHHHHHHhcc-chhhHHhHHHHHHHHHHHHHHHH
Confidence 34667788888775 4553 467899999999999999999999999985 22222333333444444555666
Q ss_pred CCCCC
Q 011352 293 GEIPE 297 (488)
Q Consensus 293 G~iP~ 297 (488)
++...
T Consensus 319 ~~w~~ 323 (468)
T PF10300_consen 319 HDWEE 323 (468)
T ss_pred chHHH
Confidence 76554
No 166
>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=49.09 E-value=46 Score=24.70 Aligned_cols=33 Identities=12% Similarity=0.326 Sum_probs=28.6
Q ss_pred cccc-HHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 368 SRIS-LADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 368 srIs-L~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
..++ ..+||..++++. ..+...+.+|...|.|.
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 999999999987 89999999999999884
No 167
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.06 E-value=58 Score=33.01 Aligned_cols=82 Identities=17% Similarity=0.170 Sum_probs=53.2
Q ss_pred HHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcc-hhcchhhhhhhhhHHHHHHHHhcCCH
Q 011352 247 GKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERT-VFMQKGMEKALRPYFELTNAVRIGDL 325 (488)
Q Consensus 247 Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~-ll~~~~l~~~l~~Y~~L~~Av~~Gdl 325 (488)
+.+++.+++|.+|...|..|+.+-|.. -+.+-.+|++.++.|+-|+.. .+... + +...|=..+++-+..-+
T Consensus 214 Av~~l~~~~~eeAe~lL~eaL~kd~~d-----petL~Nliv~a~~~Gkd~~~~~r~l~Q-L-k~~~p~h~~vk~~~eke- 285 (299)
T KOG3081|consen 214 AVCHLQLGRYEEAESLLEEALDKDAKD-----PETLANLIVLALHLGKDAEVTERNLSQ-L-KLSHPEHPFVKHLNEKE- 285 (299)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhccCCC-----HHHHHHHHHHHHHhCCChHHHHHHHHH-H-HhcCCcchHHHHHHHHH-
Confidence 456778999999999999999875543 567788899999999976531 11111 0 12223345555554433
Q ss_pred HHHHHHHHHcc
Q 011352 326 ELFKSVAEKFS 336 (488)
Q Consensus 326 ~~f~~~l~~~~ 336 (488)
..|++.+.+|.
T Consensus 286 aeFDrl~~qy~ 296 (299)
T KOG3081|consen 286 AEFDRLVLQYD 296 (299)
T ss_pred HHHHHHHHHhc
Confidence 46777766653
No 168
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=48.38 E-value=39 Score=30.15 Aligned_cols=36 Identities=22% Similarity=0.352 Sum_probs=32.1
Q ss_pred hhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce
Q 011352 366 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA 405 (488)
Q Consensus 366 ~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A 405 (488)
-=.++|+++||.++|++. ..+-..+-+|..+|.|.+
T Consensus 19 ~d~r~~~~eia~~lglS~----~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 19 EDARISNAELAERVGLSP----STVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HhCCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCceee
Confidence 346799999999999998 899999999999999944
No 169
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=48.15 E-value=69 Score=37.31 Aligned_cols=62 Identities=23% Similarity=0.121 Sum_probs=47.6
Q ss_pred HHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 208 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+.+.|...++|+.|.++++...--+.. +..-++|-.|++++..+.|.+|.++|..++...|.
T Consensus 420 ~a~al~~~~~~~~Al~~l~~i~~~~~~---~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~ 481 (895)
T KOG2076|consen 420 LADALTNIGKYKEALRLLSPITNREGY---QNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD 481 (895)
T ss_pred HHHHHHhcccHHHHHHHHHHHhcCccc---cchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence 445677788888888877764221112 22556888999999999999999999999998886
No 170
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=48.11 E-value=63 Score=31.65 Aligned_cols=123 Identities=13% Similarity=0.157 Sum_probs=77.2
Q ss_pred hhhHHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhhccccHHHHHHHhcCCCCCChHH
Q 011352 310 LRPYFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISYSRISLADVAKKLRLDSANPVAD 389 (488)
Q Consensus 310 l~~Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~ee 389 (488)
-..|..+...|-.|+...+........ +-.... +.+|++.-+-++ ...-..|+...+-..+.++. +-+
T Consensus 59 dsa~lrlL~lFa~Gt~~Dy~aea~rlp----~Ls~~q-~~kLk~ltV~sl----as~~k~lpy~~Ll~~l~~~n---vre 126 (258)
T KOG3250|consen 59 DSAYLRLLELFAYGTYRDYSAEALRLP----KLSLAQ-LNKLKHLTVVSL----ASFEKCLPYLVLLRLLPSRN---VRE 126 (258)
T ss_pred cHHHHHHHHHHhcCchhhhhhhhhcCC----CCCHHH-HHhhhcceehhh----hhhchhhhHHHHHhhccCCc---hhH
Confidence 357999999999999887765543222 111111 222332211111 11113455555555555554 589
Q ss_pred HHHHHHHHHHcCCcceEeeCCCcEEEEccc--CcccCC--ccccHHHHHHHHHHHHhhH
Q 011352 390 AESIVSKAIRDGAIDATVDHANGWMVSKET--GDIYST--NEPQLAFNSRIAFCLNMHN 444 (488)
Q Consensus 390 aE~ila~mI~dG~I~A~Id~~~G~v~~~~~--~dv~s~--~ep~~~l~~rI~~~l~l~~ 444 (488)
+|.+|..+.+.|.+.|+||+.+..+..... .|+-++ .+....++.++..|=.+--
T Consensus 127 lEd~iieamya~IlrGkldqr~q~leV~faigRdlr~k~i~nm~~TL~~w~~~cenvL~ 185 (258)
T KOG3250|consen 127 LEDLIIEAMYADILRGKLDQRNQTLEVDFAIGRDLRSKDIDNMKYTLDEWCEGCENVLF 185 (258)
T ss_pred HHHHHHHHHHHHHHHhhHHhhcceEeechhhcccccHhHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998876542 233222 3566788999998877655
No 171
>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=47.69 E-value=23 Score=27.74 Aligned_cols=32 Identities=22% Similarity=0.316 Sum_probs=26.8
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
.-|+.+||..+|+.|. .-|-..|..|...|+|
T Consensus 25 ~Pt~rEIa~~~g~~S~---~tv~~~L~~Le~kG~I 56 (65)
T PF01726_consen 25 PPTVREIAEALGLKST---STVQRHLKALERKGYI 56 (65)
T ss_dssp ---HHHHHHHHTSSSH---HHHHHHHHHHHHTTSE
T ss_pred CCCHHHHHHHhCCCCh---HHHHHHHHHHHHCcCc
Confidence 3588999999999975 8899999999999888
No 172
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=46.64 E-value=24 Score=30.82 Aligned_cols=43 Identities=16% Similarity=0.363 Sum_probs=35.9
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEE
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMV 415 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~ 415 (488)
.++.++||..++++. ..+..++..|...|.|...-....||.-
T Consensus 25 ~~s~~eia~~~~i~~----~~v~~il~~L~~~gli~~~~g~~ggy~l 67 (132)
T TIGR00738 25 PVSVKEIAERQGISR----SYLEKILRTLRRAGLVESVRGPGGGYRL 67 (132)
T ss_pred cCcHHHHHHHHCcCH----HHHHHHHHHHHHCCcEEeccCCCCCccC
Confidence 689999999999997 8999999999999999664344456654
No 173
>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=45.40 E-value=27 Score=25.64 Aligned_cols=32 Identities=16% Similarity=0.466 Sum_probs=28.6
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
..+++++|+.++|++. ..+-.++..|...|++
T Consensus 17 ~~~t~~eia~~~gl~~----stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 17 GPLTLSEIARALGLPK----STVHRLLQTLVEEGYV 48 (52)
T ss_dssp SCEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred CCCCHHHHHHHHCcCH----HHHHHHHHHHHHCcCe
Confidence 5689999999999998 8999999999999987
No 174
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=44.95 E-value=3e+02 Score=26.65 Aligned_cols=36 Identities=14% Similarity=0.219 Sum_probs=31.2
Q ss_pred hhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 236 NQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 236 ~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.-+.++..|+.|-++.-.|++.+|..+|..++. .|.
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 345677889999999999999999999999997 555
No 175
>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=44.88 E-value=96 Score=23.05 Aligned_cols=41 Identities=12% Similarity=0.308 Sum_probs=33.7
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEE
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWM 414 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v 414 (488)
++.++|+..++++. ..+-..+..|...|.|...-+...++.
T Consensus 21 ~~~~ei~~~~~i~~----~~i~~~l~~L~~~g~i~~~~~~~~~~~ 61 (78)
T cd00090 21 LTVSELAERLGLSQ----STVSRHLKKLEEAGLVESRREGRRVYY 61 (78)
T ss_pred cCHHHHHHHHCcCH----hHHHHHHHHHHHCCCeEEEEeccEEEE
Confidence 89999999999876 789999999999999987655433333
No 176
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=44.50 E-value=87 Score=33.33 Aligned_cols=60 Identities=22% Similarity=0.236 Sum_probs=46.0
Q ss_pred HHHHHHccCCHHHHHHHHhcC-C-CCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA-P-RFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~-~-~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
+.-+|++.+.|..|..-.+++ . -|. +-.+ +|=.|+.++..++|..|...|..|+..-|..
T Consensus 263 lA~c~lKl~~~~~Ai~~c~kvLe~~~~----N~KA--LyRrG~A~l~~~e~~~A~~df~ka~k~~P~N 324 (397)
T KOG0543|consen 263 LAACYLKLKEYKEAIESCNKVLELDPN----NVKA--LYRRGQALLALGEYDLARDDFQKALKLEPSN 324 (397)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHhcCCC----chhH--HHHHHHHHHhhccHHHHHHHHHHHHHhCCCc
Confidence 556899999999887666654 1 122 2222 6789999999999999999999999987873
No 177
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.34 E-value=32 Score=34.14 Aligned_cols=47 Identities=15% Similarity=0.339 Sum_probs=41.0
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSK 417 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~ 417 (488)
-..++|.|+|..+||-+ +++-.-+.+++.+|.|.|.||.-..||...
T Consensus 212 nKvV~ledLas~f~Lrt----qd~inriq~~l~eg~ltGVmDDRGKfIYIS 258 (299)
T KOG3054|consen 212 NKVVPLEDLASEFGLRT----QDSINRIQELLAEGLLTGVMDDRGKFIYIS 258 (299)
T ss_pred cCeeeHHHHHHHhCccH----HHHHHHHHHHHHhhhheeeecCCCceEEec
Confidence 35689999999999998 788889999999999999999877776554
No 178
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=44.04 E-value=5.4e+02 Score=29.37 Aligned_cols=89 Identities=11% Similarity=0.113 Sum_probs=53.7
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCc----c-hhcchhhhhhhhhHHHHHH
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPER----T-VFMQKGMEKALRPYFELTN 318 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~----~-ll~~~~l~~~l~~Y~~L~~ 318 (488)
.-.|.++-..++|.+|..||..|+..-| +=.++++-+-+++.=||++-.. . +++-. ......+..--+.
T Consensus 79 Hv~gl~~R~dK~Y~eaiKcy~nAl~~~~-----dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs 152 (700)
T KOG1156|consen 79 HVLGLLQRSDKKYDEAIKCYRNALKIEK-----DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVA 152 (700)
T ss_pred HHHHHHHhhhhhHHHHHHHHHHHHhcCC-----CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHH
Confidence 4679999999999999999999997433 2245666666666666665432 1 11111 0111122233445
Q ss_pred HHhcCCHHHHHHHHHHcchh
Q 011352 319 AVRIGDLELFKSVAEKFSST 338 (488)
Q Consensus 319 Av~~Gdl~~f~~~l~~~~~~ 338 (488)
++..|+-..=..+++.++..
T Consensus 153 ~~L~g~y~~A~~il~ef~~t 172 (700)
T KOG1156|consen 153 QHLLGEYKMALEILEEFEKT 172 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 56777766666666665543
No 179
>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=43.92 E-value=92 Score=22.70 Aligned_cols=41 Identities=15% Similarity=0.243 Sum_probs=30.0
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcE
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 413 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~ 413 (488)
..++..++|..|+++. ..+...+..+-..| +.-.-.+.+||
T Consensus 14 ~~it~~eLa~~l~vS~----rTi~~~i~~L~~~~-~~I~~~~~~GY 54 (55)
T PF08279_consen 14 EPITAKELAEELGVSR----RTIRRDIKELREWG-IPIESKRGKGY 54 (55)
T ss_dssp TSBEHHHHHHHCTS-H----HHHHHHHHHHHHTT--EEEEETTTEE
T ss_pred CCcCHHHHHHHhCCCH----HHHHHHHHHHHHCC-CeEEeeCCCCc
Confidence 4599999999999987 88999999998888 22222344465
No 180
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=42.53 E-value=57 Score=23.68 Aligned_cols=40 Identities=15% Similarity=0.283 Sum_probs=32.4
Q ss_pred ccc-cHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcE
Q 011352 368 SRI-SLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 413 (488)
Q Consensus 368 srI-sL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~ 413 (488)
.++ |..++|..++++. ..+...+..|..+|.|. -.+..|+
T Consensus 18 ~~l~s~~~la~~~~vs~----~tv~~~l~~L~~~g~i~--~~~~~g~ 58 (60)
T smart00345 18 DKLPSERELAAQLGVSR----TTVREALSRLEAEGLVQ--RRPGSGT 58 (60)
T ss_pred CcCcCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEE--EecCCee
Confidence 457 8999999999987 89999999999999984 2344454
No 181
>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=42.53 E-value=36 Score=30.31 Aligned_cols=61 Identities=15% Similarity=0.277 Sum_probs=44.1
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHH
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNS 434 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~ 434 (488)
.++.++||..++++. ..++.++.+|...|.|...=-...||.-..+. +-.+-.+.+.+++.
T Consensus 25 ~~s~~~ia~~~~ip~----~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~-~~Itl~dv~~a~eg 85 (135)
T TIGR02010 25 PVTLADISERQGISL----SYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPA-EDISVADIIDAVDE 85 (135)
T ss_pred cCcHHHHHHHHCcCH----HHHHHHHHHHHHCCceEEEeCCCCCEeccCCH-HHCcHHHHHHHhCC
Confidence 589999999999998 89999999999999997654555677654433 22233344444443
No 182
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=42.52 E-value=63 Score=27.06 Aligned_cols=34 Identities=35% Similarity=0.504 Sum_probs=31.4
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
..++|.++||..+|++. ..+-..+.+|..+|.|.
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 183
>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=42.22 E-value=34 Score=23.11 Aligned_cols=30 Identities=30% Similarity=0.416 Sum_probs=24.5
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
++-.|||..+|+.. +-|=.++.++-.+|.|
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 56689999999987 8999999999999976
No 184
>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=41.69 E-value=1.1e+02 Score=25.52 Aligned_cols=45 Identities=13% Similarity=0.099 Sum_probs=37.1
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSK 417 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~ 417 (488)
...|+-++||..+|++. +.|-..|..|..+|.|. .....|.++..
T Consensus 45 ~~~is~~eLa~~~g~sr----~tVsr~L~~Le~~GlI~--r~~~~~~~~~n 89 (95)
T TIGR01610 45 QDRVTATVIAELTGLSR----THVSDAIKSLARRRIIF--RQGMMGIVGVN 89 (95)
T ss_pred CCccCHHHHHHHHCcCH----HHHHHHHHHHHHCCCee--eecCCceeecC
Confidence 46788899999999988 89999999999999994 34556777655
No 185
>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]
Probab=41.36 E-value=3.3e+02 Score=27.16 Aligned_cols=127 Identities=20% Similarity=0.155 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHhcC-CC-Cc-cCChhHHHHHHHHHHHHHHHhhcHHHHHH----------HHHHH-
Q 011352 201 QETLLNLLLRNYLHYNLYDQAEKLRSKA-PR-FE-AHSNQQFCRYLFYLGKIRTIQLEYTDAKE----------SLLQA- 266 (488)
Q Consensus 201 ~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~-pe-~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~----------~L~~A- 266 (488)
+..+.|.+=-.++..++|+.|...++.+ +. |. .+..-.+..=+||+||....+.|+..-++ +|...
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 3344554433456889999998887775 22 22 12222233347999999999998875441 11111
Q ss_pred HHhCCccchhhHHHHHH-------HHHHHHHhcCCCCCcchhcchh--------h-hhhhhhHHHHHHHHh-cCCHHH
Q 011352 267 ARKAPVAALGFRVQCNK-------WAIIVRLLLGEIPERTVFMQKG--------M-EKALRPYFELTNAVR-IGDLEL 327 (488)
Q Consensus 267 ~~~~P~~~~~~~~~alK-------~lIlv~LL~G~iP~~~ll~~~~--------l-~~~l~~Y~~L~~Av~-~Gdl~~ 327 (488)
-..-|+.+..+..+-++ =+.+|+..+|++....++.+-. + ......|+-|.+-.. .|++..
T Consensus 178 ~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~ 255 (297)
T COG4785 178 QKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISEETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGDLDE 255 (297)
T ss_pred hhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccccHHH
Confidence 11224444444444333 3678999999998876654321 1 123356777877764 476543
No 186
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=41.14 E-value=3e+02 Score=28.31 Aligned_cols=143 Identities=16% Similarity=0.156 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc--hhhHHHHHHHHHHHHHhcCCCCCc------chhcchhhhhhhhh
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA--LGFRVQCNKWAIIVRLLLGEIPER------TVFMQKGMEKALRP 312 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~--~~~~~~alK~lIlv~LL~G~iP~~------~ll~~~~l~~~l~~ 312 (488)
.=+---|--.+..++|.+|...|.+||.--|..+ .-++-.+|-.| |..-.. .+--.+ ...+.
T Consensus 82 E~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~L-------g~~~~AVkDce~Al~iDp---~yska 151 (304)
T KOG0553|consen 82 ESLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKL-------GEYEDAVKDCESALSIDP---HYSKA 151 (304)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHh-------cchHHHHHHHHHHHhcCh---HHHHH
Confidence 3345678888999999999999999999888754 55666665432 322110 000011 13356
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHcchhhhcCcchHHHHHHHHHHHHHhHHHHHHhh-------ccccHHHHHHHhcCCCC-
Q 011352 313 YFELTNAVRIGDLELFKSVAEKFSSTFSSDRTNNLIVRLRHNVIRTGLRNISISY-------SRISLADVAKKLRLDSA- 384 (488)
Q Consensus 313 Y~~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~vir~~ir~i~~~Y-------srIsL~dIa~~L~l~~~- 384 (488)
|.-|-.|+-.++ +|..+++.|+..+.=|+..- ++|.+++...+-. .++.-.|++..+|...+
T Consensus 152 y~RLG~A~~~~g--k~~~A~~aykKaLeldP~Ne--------~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~ 221 (304)
T KOG0553|consen 152 YGRLGLAYLALG--KYEEAIEAYKKALELDPDNE--------SYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDS 221 (304)
T ss_pred HHHHHHHHHccC--cHHHHHHHHHhhhccCCCcH--------HHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccc
Confidence 778888887653 78889999998888887654 4555555544432 45666677777765110
Q ss_pred --------CChHHHHHHHHHHHHcCCc
Q 011352 385 --------NPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 385 --------~d~eeaE~ila~mI~dG~I 403 (488)
+.-..+-.....||.+|.+
T Consensus 222 ~s~~~~~l~nnp~l~~~~~~m~~~~~~ 248 (304)
T KOG0553|consen 222 RSMFNGDLMNNPQLMQLASQMMKDGAL 248 (304)
T ss_pred hhhhccccccCHHHHHHHHHHhhcccc
Confidence 1114566677788887666
No 187
>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=41.12 E-value=77 Score=24.26 Aligned_cols=33 Identities=12% Similarity=0.320 Sum_probs=28.7
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
-..++..+||..|+++. ..|=.++.+|-.+|.|
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 37899999999999987 7888899999998887
No 188
>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=40.75 E-value=36 Score=21.20 Aligned_cols=23 Identities=17% Similarity=0.028 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHH
Q 011352 242 YLFYLGKIRTIQLEYTDAKESLL 264 (488)
Q Consensus 242 Y~YY~Gri~~~~~dy~~A~~~L~ 264 (488)
..+.+|+.+..+|++.+|...+.
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 46788999999999999988765
No 189
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=40.48 E-value=5.8e+02 Score=29.43 Aligned_cols=143 Identities=11% Similarity=-0.004 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHH
Q 011352 162 ARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQF 239 (488)
Q Consensus 162 ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~ 239 (488)
+..++....+....+.++++...+-+++. .++.-....++ +..+..+.+.++.|...+... .-|++...
T Consensus 86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~-----~~Pd~~~a~~~-~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~--- 156 (694)
T PRK15179 86 ELFQVLVARALEAAHRSDEGLAVWRGIHQ-----RFPDSSEAFIL-MLRGVKRQQGIEAGRAEIELYFSGGSSSARE--- 156 (694)
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHh-----hCCCcHHHHHH-HHHHHHHhccHHHHHHHHHHHhhcCCCCHHH---
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHh-cCCCCCcchhcchhhhhhhhhHHHHHH
Q 011352 240 CRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLL-LGEIPERTVFMQKGMEKALRPYFELTN 318 (488)
Q Consensus 240 v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL-~G~iP~~~ll~~~~l~~~l~~Y~~L~~ 318 (488)
++-.|+.....++|.+|...|..++..-|.......-.+. .|. +|+... ....|....+
T Consensus 157 ---~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~------~l~~~G~~~~-----------A~~~~~~a~~ 216 (694)
T PRK15179 157 ---ILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQ------SLTRRGALWR-----------ARDVLQAGLD 216 (694)
T ss_pred ---HHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHH------HHHHcCCHHH-----------HHHHHHHHHH
Q ss_pred HHhcCCHHHHHHHHHH
Q 011352 319 AVRIGDLELFKSVAEK 334 (488)
Q Consensus 319 Av~~Gdl~~f~~~l~~ 334 (488)
+...|. +++...+.+
T Consensus 217 ~~~~~~-~~~~~~~~~ 231 (694)
T PRK15179 217 AIGDGA-RKLTRRLVD 231 (694)
T ss_pred hhCcch-HHHHHHHHH
No 190
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=39.46 E-value=6.7e+02 Score=29.16 Aligned_cols=57 Identities=18% Similarity=0.116 Sum_probs=39.8
Q ss_pred HHHHccCCHHHHHHHHhc-C-CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 210 RNYLHYNLYDQAEKLRSK-A-PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~-~-~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
-.+.+.++.+.|..-+-. . ..|. .+.=+|..|+.+..++.+.+|.+.|..|+.--|.
T Consensus 658 ~~~~~~~~~~~a~~CL~Ea~~~~~l------~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~ 716 (799)
T KOG4162|consen 658 DLFLLSGNDDEARSCLLEASKIDPL------SASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD 716 (799)
T ss_pred HHHHhcCCchHHHHHHHHHHhcchh------hHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC
Confidence 356677777777653332 2 2222 2223678899999999999999999999985554
No 191
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=38.75 E-value=40 Score=33.49 Aligned_cols=50 Identities=18% Similarity=0.328 Sum_probs=39.9
Q ss_pred HHHHHHHhHHHHHHhh-ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce
Q 011352 352 RHNVIRTGLRNISISY-SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA 405 (488)
Q Consensus 352 r~~vir~~ir~i~~~Y-srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A 405 (488)
+....|.+|......| -++..++||.+||+.. +-+-..+-+|+.+|.|+-
T Consensus 7 kk~~t~fqIL~ei~~~qp~v~q~eIA~~lgiT~----QaVsehiK~Lv~eG~i~~ 57 (260)
T COG1497 7 KKNLTRFQILSEIAVRQPRVKQKEIAKKLGITL----QAVSEHIKELVKEGLIEK 57 (260)
T ss_pred cccchHHHHHHHHHHhCCCCCHHHHHHHcCCCH----HHHHHHHHHHHhccceee
Confidence 4455666665544555 7899999999999886 889999999999999953
No 192
>PRK09954 putative kinase; Provisional
Probab=37.77 E-value=70 Score=33.11 Aligned_cols=49 Identities=14% Similarity=0.232 Sum_probs=39.1
Q ss_pred hhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce---EeeCCCcEEEEcc
Q 011352 366 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA---TVDHANGWMVSKE 418 (488)
Q Consensus 366 ~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A---~Id~~~G~v~~~~ 418 (488)
-..++|.++||..|+++. ..+...+.+|..+|+|.+ .+++..+++.+..
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 346999999999999988 899999999999999954 3455555555554
No 193
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=37.59 E-value=3.6e+02 Score=25.42 Aligned_cols=62 Identities=18% Similarity=0.081 Sum_probs=42.7
Q ss_pred HHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccc
Q 011352 210 RNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAA 274 (488)
Q Consensus 210 r~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~ 274 (488)
..++..|+|..|...++.. .+|.+- ....+ .+..|..+...++|..|...+..-++..|.+.
T Consensus 13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~-~a~~A--~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~ 76 (203)
T PF13525_consen 13 LEALQQGDYEEAIKLFEKLIDRYPNSP-YAPQA--QLMLAYAYYKQGDYEEAIAAYERFIKLYPNSP 76 (203)
T ss_dssp HHHHHCT-HHHHHHHHHHHHHH-TTST-THHHH--HHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-T
T ss_pred HHHHHCCCHHHHHHHHHHHHHHCCCCh-HHHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc
Confidence 4678889999998877775 455432 22333 35788888899999999999999999888743
No 194
>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=36.95 E-value=85 Score=27.86 Aligned_cols=41 Identities=22% Similarity=0.206 Sum_probs=30.9
Q ss_pred HHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHH
Q 011352 245 YLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAII 287 (488)
Q Consensus 245 Y~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIl 287 (488)
-.|--.+.+|++.+|..||..|+.-||+ +...+.+|+.-+|
T Consensus 68 ~lGE~L~~~G~~~~aa~hf~nAl~V~~q--P~~LL~i~q~tlP 108 (121)
T PF02064_consen 68 QLGEQLLAQGDYEEAAEHFYNALKVCPQ--PAELLQIYQKTLP 108 (121)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHTSSS--HHHHHHHHHHHS-
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHhCCC--HHHHHHHHHhhCC
Confidence 6788889999999999999999998887 3445555555444
No 195
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=35.76 E-value=3.4e+02 Score=24.73 Aligned_cols=61 Identities=18% Similarity=0.092 Sum_probs=43.4
Q ss_pred HHHHHHccCCHHHHHHHHhcC--CCCc--cCChhHHHHHHHHHHHHHHHhhc---------------HHHHHHHHHHHHH
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA--PRFE--AHSNQQFCRYLFYLGKIRTIQLE---------------YTDAKESLLQAAR 268 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~--~~pe--~~~~~~~v~Y~YY~Gri~~~~~d---------------y~~A~~~L~~A~~ 268 (488)
|...|++.+.|+.|..-...= -.|. .++.. +|..|..+..+.+ ...|+..|...++
T Consensus 53 l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa-----~Y~~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~ 127 (142)
T PF13512_consen 53 LAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYA-----YYMRGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVR 127 (142)
T ss_pred HHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHH-----HHHHHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHH
Confidence 556899999999886644431 2232 23333 5677888888776 8889999999998
Q ss_pred hCCcc
Q 011352 269 KAPVA 273 (488)
Q Consensus 269 ~~P~~ 273 (488)
..|.+
T Consensus 128 ~yP~S 132 (142)
T PF13512_consen 128 RYPNS 132 (142)
T ss_pred HCcCC
Confidence 88874
No 196
>PF09999 DUF2240: Uncharacterized protein conserved in archaea (DUF2240); InterPro: IPR018716 This family of various hypothetical archaeal proteins has no known function.
Probab=35.75 E-value=53 Score=30.06 Aligned_cols=78 Identities=21% Similarity=0.366 Sum_probs=50.1
Q ss_pred ccccHHHHHHHhcCCCC-CChHHHHHHHHHHHHcCCcceEeeCCCcEEEEc-cc------------CcccCCccccHHHH
Q 011352 368 SRISLADVAKKLRLDSA-NPVADAESIVSKAIRDGAIDATVDHANGWMVSK-ET------------GDIYSTNEPQLAFN 433 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~-~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~-~~------------~dv~s~~ep~~~l~ 433 (488)
.+++-+++--.|.++-. ++.+++..++..++..|.|. .++|++.-. +. .+++...+||...-
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 DRLSKSEFVFALSFDRKWMSPDQAKRLIDEAIEEGLLE----EEGGYLVPNFDPSEVEIPLGFKPDEEILQERDPFERIL 91 (144)
T ss_pred cccChhheEeeEeeecCCCCHHHHHHHHHHHHHCCCee----ecCCEEEEecCccccccCCCCCCcHHHHhcccHHHHHH
Confidence 45666666555544332 44599999999999999984 245655522 21 12235567788888
Q ss_pred HHHHHHHHhhHHHHHh
Q 011352 434 SRIAFCLNMHNEAVRA 449 (488)
Q Consensus 434 ~rI~~~l~l~~~~v~a 449 (488)
.+|..+..+..+-|-+
T Consensus 92 d~ia~~~g~~~~evv~ 107 (144)
T PF09999_consen 92 DYIAAKTGIEKQEVVA 107 (144)
T ss_pred HHHHHhcCCCHHHHHH
Confidence 8888777766644433
No 197
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=35.48 E-value=57 Score=34.60 Aligned_cols=32 Identities=25% Similarity=0.257 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
--++++|+.+..++.|.+|..+|+.|+..-|+
T Consensus 329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s 360 (400)
T COG3071 329 LLLSTLGRLALKNKLWGKASEALEAALKLRPS 360 (400)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC
Confidence 45789999999999999999999999875444
No 198
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=35.25 E-value=5.9e+02 Score=27.28 Aligned_cols=145 Identities=12% Similarity=-0.022 Sum_probs=69.5
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccH
Q 011352 122 YLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQ 201 (488)
Q Consensus 122 ~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~ 201 (488)
+...-+.++.+++++.|...+.+.+..+...-.| +.. +=|..-++--.+....+...-..-..+++.-.+...+
T Consensus 9 q~~~g~~Ly~s~~~~~al~~w~~~L~~l~~~~~R----f~~--lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~ 82 (518)
T KOG1941|consen 9 QIEKGLQLYQSNQTEKALQVWTKVLEKLSDLMGR----FRV--LGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFL 82 (518)
T ss_pred HHHHHHhHhcCchHHHHHHHHHHHHHHHHHHHHH----HHH--hccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677888899999999888877766543222 100 0000001100111111100000011222222222222
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHhcC-CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 202 ETLLNLLLRNYLHYNLYDQAEKLRSKA-PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 202 ~~l~n~llr~Yl~~~~~~~a~~li~~~-~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+--.-.|-|.|=++-.++++...-+.. ..|...+...--.-..-.|+-++..+-|+++.++|+.|++-++.
T Consensus 83 ~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~ 154 (518)
T KOG1941|consen 83 LEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHN 154 (518)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhc
Confidence 211112445555555555554444442 23332111111111223788899999999999999999986655
No 199
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=35.15 E-value=1.5e+02 Score=20.66 Aligned_cols=33 Identities=15% Similarity=0.285 Sum_probs=29.6
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
..++..+++..++++. ..+...+..|...|.|.
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 4589999999999977 89999999999999985
No 200
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=34.86 E-value=54 Score=29.99 Aligned_cols=49 Identities=8% Similarity=0.180 Sum_probs=41.3
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccC
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETG 420 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~ 420 (488)
..++.++||...+++. .-++.+++.|.+.|.|...==...||.--.++.
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 3589999999999988 899999999999999988776777887655543
No 201
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.82 E-value=5e+02 Score=26.35 Aligned_cols=41 Identities=17% Similarity=0.110 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHH
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK 283 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK 283 (488)
..+++-||...++|.+|..||++.+-..|....-|.+.+=.
T Consensus 157 W~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~ 197 (289)
T KOG3060|consen 157 WHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEV 197 (289)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence 45788999999999999999999998777665555554433
No 202
>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=34.82 E-value=71 Score=24.78 Aligned_cols=42 Identities=17% Similarity=0.361 Sum_probs=33.9
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
.++..+||..+|++. +.+-.++..|..+|.|. + .+|.+...+
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 467899999999998 89999999999999984 2 355555543
No 203
>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=34.75 E-value=1.4e+02 Score=28.82 Aligned_cols=35 Identities=11% Similarity=0.129 Sum_probs=28.3
Q ss_pred HcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q 011352 130 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLY 165 (488)
Q Consensus 130 ~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~ 165 (488)
+.+|+++.|+++..-++. ++..+-|++|.+.+.+.
T Consensus 52 llr~d~~rA~Raf~lLiR-~~~VDiR~~W~iG~eIL 86 (199)
T PF04090_consen 52 LLRGDWDRAYRAFGLLIR-CPEVDIRSLWGIGAEIL 86 (199)
T ss_pred HHhccHHHHHHHHHHHHc-CCCCChHhcchHHHHHH
Confidence 457999999999888874 56777888999988764
No 204
>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=34.68 E-value=3.8e+02 Score=24.95 Aligned_cols=63 Identities=14% Similarity=0.078 Sum_probs=48.3
Q ss_pred HHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 208 LLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+...|.+.|.++.|.+...++ .....++.+.+..++..-++.+..+||.....++..|-. .+.
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 456778888888887776663 222467788888888899999999999999999888876 444
No 205
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=34.62 E-value=6.8e+02 Score=27.79 Aligned_cols=143 Identities=16% Similarity=0.166 Sum_probs=89.9
Q ss_pred HcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHH
Q 011352 130 IDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLL 209 (488)
Q Consensus 130 ~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~ll 209 (488)
+..++.+.+-+....+++.|-.- . .--||+|.+|+-.--...++..+|..|=.+.-.| +. +.+|
T Consensus 377 le~ed~ertr~vyq~~l~lIPHk--k---FtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~c-PK----------~KlF 440 (677)
T KOG1915|consen 377 LEAEDVERTRQVYQACLDLIPHK--K---FTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKC-PK----------DKLF 440 (677)
T ss_pred HHhhhHHHHHHHHHHHHhhcCcc--c---chHHHHHHHHHHHHHHHcccHHHHHHHHHHhccC-Cc----------hhHH
Confidence 44566666666655555543211 0 2347888887765545678888888776665433 22 3467
Q ss_pred HHHH----ccCCHHHHHHHHhcC-CC-CccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHH
Q 011352 210 RNYL----HYNLYDQAEKLRSKA-PR-FEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK 283 (488)
Q Consensus 210 r~Yl----~~~~~~~a~~li~~~-~~-pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK 283 (488)
|-|+ +++.+|.|.++-.+- .+ |++ ...+.-| |-+-...||+..|..-|+.|+. -|. ...-...+|
T Consensus 441 k~YIelElqL~efDRcRkLYEkfle~~Pe~-----c~~W~ky-aElE~~LgdtdRaRaifelAi~-qp~--ldmpellwk 511 (677)
T KOG1915|consen 441 KGYIELELQLREFDRCRKLYEKFLEFSPEN-----CYAWSKY-AELETSLGDTDRARAIFELAIS-QPA--LDMPELLWK 511 (677)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhcChHh-----hHHHHHH-HHHHHHhhhHHHHHHHHHHHhc-Ccc--cccHHHHHH
Confidence 7664 568999999987773 22 333 2222222 4566778999999999999997 555 333355677
Q ss_pred HHHHHHHhcCCCCC
Q 011352 284 WAIIVRLLLGEIPE 297 (488)
Q Consensus 284 ~lIlv~LL~G~iP~ 297 (488)
.+|-.+.-.|+.-.
T Consensus 512 aYIdFEi~~~E~ek 525 (677)
T KOG1915|consen 512 AYIDFEIEEGEFEK 525 (677)
T ss_pred HhhhhhhhcchHHH
Confidence 77777766666543
No 206
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=33.94 E-value=24 Score=38.11 Aligned_cols=121 Identities=18% Similarity=0.181 Sum_probs=76.6
Q ss_pred HHHHHHccCCHHHHHH----HHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHH
Q 011352 208 LLRNYLHYNLYDQAEK----LRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK 283 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~----li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK 283 (488)
|..-|-....+..|.+ ++++--||.. -. ...-.|-||+.+++|++|..++..|+...|+.....++.++.
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 4456666666666665 3443445542 11 012468899999999999999999999888866555555544
Q ss_pred HHHHHHHh-cCCCCCc-chhcchh-hhh-hhhhHHHHHHHHhcCCHHHHHHHHHHc
Q 011352 284 WAIIVRLL-LGEIPER-TVFMQKG-MEK-ALRPYFELTNAVRIGDLELFKSVAEKF 335 (488)
Q Consensus 284 ~lIlv~LL-~G~iP~~-~ll~~~~-l~~-~l~~Y~~L~~Av~~Gdl~~f~~~l~~~ 335 (488)
. |-|..+ +|...+. +.|.+-. ..+ ....|.-+.-+|-.||-++..++..+-
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 333334 5775542 2232211 112 234577788889999999888888774
No 207
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=33.92 E-value=47 Score=30.86 Aligned_cols=48 Identities=17% Similarity=0.425 Sum_probs=40.3
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEccc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 419 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~ 419 (488)
..++.++||..++++. .-++.++.+|-..|.|...=-...||.--.+.
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 4689999999999998 89999999999999998755666787655543
No 208
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=33.89 E-value=90 Score=28.56 Aligned_cols=39 Identities=15% Similarity=0.135 Sum_probs=33.4
Q ss_pred CChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 234 HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 234 ~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.++...-.|.||++.=+.-.++|+.|..+....+++=|+
T Consensus 65 ~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~ 103 (149)
T KOG3364|consen 65 AHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPN 103 (149)
T ss_pred cCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCC
Confidence 345667789999999999999999999999999986554
No 209
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=33.68 E-value=86 Score=30.72 Aligned_cols=47 Identities=11% Similarity=0.204 Sum_probs=38.6
Q ss_pred HHhHHHHHHhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEe
Q 011352 357 RTGLRNISISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATV 407 (488)
Q Consensus 357 r~~ir~i~~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~I 407 (488)
|..|..+-+--..++..++|..||++. .-|-..+-++..+|.+....
T Consensus 13 r~~il~lL~~~g~~sa~elA~~Lgis~----~avR~HL~~Le~~Glv~~~~ 59 (218)
T COG2345 13 RERILELLKKSGPVSADELAEELGISP----MAVRRHLDDLEAEGLVEVER 59 (218)
T ss_pred HHHHHHHHhccCCccHHHHHHHhCCCH----HHHHHHHHHHHhCcceeeee
Confidence 334444445567899999999999998 89999999999999998883
No 210
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=33.22 E-value=1e+02 Score=23.29 Aligned_cols=40 Identities=20% Similarity=0.346 Sum_probs=30.1
Q ss_pred HhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEee
Q 011352 365 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVD 408 (488)
Q Consensus 365 ~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id 408 (488)
.....++.++|+..++++. ..+-..|.+|+..|.|.=.=|
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 3457899999999999987 889999999999999954433
No 211
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=32.94 E-value=1.2e+02 Score=32.97 Aligned_cols=59 Identities=14% Similarity=-0.039 Sum_probs=44.2
Q ss_pred HHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHh
Q 011352 208 LLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARK 269 (488)
Q Consensus 208 llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~ 269 (488)
+=-.|++.++|+.|...+++. ..|+... .-.-+|..|..|+.++++.+|..+|..|+..
T Consensus 81 LG~AL~~lGryeEAIa~f~rALeL~Pd~ae---A~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 81 LGLSLFSKGRVKDALAQFETALELNPNPDE---AQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCCCchH---HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 334778899999998887774 2233211 0022689999999999999999999999983
No 212
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=32.70 E-value=86 Score=24.42 Aligned_cols=34 Identities=18% Similarity=0.303 Sum_probs=29.3
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
..-++-.|||..+|++. -.|..+|..|-.+|.|.
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 56688899999999987 89999999999999983
No 213
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=31.75 E-value=1.1e+02 Score=31.79 Aligned_cols=43 Identities=21% Similarity=0.277 Sum_probs=34.5
Q ss_pred ccCHHHHHHHHHHHHHHHH------hhhhhhHHHHHHHHHHHHHHHHHh
Q 011352 132 KKRYNEAKACSSASIARLK------NMNRRTVDVLAARLYFYYSLCYEL 174 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~------~~~~r~ld~l~ak~~~y~s~~~e~ 174 (488)
.++|++|+.+....++.+. ..+.++-|.|.||+.-|+.|+.++
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 4899999999999888743 124668899999999998888766
No 214
>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=31.64 E-value=74 Score=28.85 Aligned_cols=46 Identities=15% Similarity=0.195 Sum_probs=36.8
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHH
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYT 257 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~ 257 (488)
.-++-|.||..+.|+.|.-+++... +....|++|-.++.+.+++=.
T Consensus 77 ~yllAksyFD~kEy~RaA~~L~~~~-------s~~~~FL~lYs~YLa~EKr~~ 122 (142)
T PF04049_consen 77 KYLLAKSYFDCKEYDRAAHVLKDCK-------SPKALFLRLYSRYLAGEKRKE 122 (142)
T ss_pred HHHHHHHHhchhHHHHHHHHHccCC-------CchHHHHHHHHHHHHHHHHHh
Confidence 3457799999999999999999865 456778888888888876533
No 215
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=31.51 E-value=1.6e+02 Score=32.49 Aligned_cols=44 Identities=11% Similarity=-0.066 Sum_probs=35.6
Q ss_pred CChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhh
Q 011352 234 HSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGF 277 (488)
Q Consensus 234 ~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~ 277 (488)
.+.+-.+.-.|-.|..+.+-|+-..|++||..|..-.+..+.-|
T Consensus 329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlW 372 (696)
T KOG2471|consen 329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLW 372 (696)
T ss_pred hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHH
Confidence 45566778889999999999999999999999987555544333
No 216
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.46 E-value=5.2e+02 Score=30.26 Aligned_cols=87 Identities=18% Similarity=0.239 Sum_probs=53.9
Q ss_pred CCCCHHHH-HHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Q 011352 112 HPLPELEI-YCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHR 190 (488)
Q Consensus 112 ~~~p~~e~-~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~r 190 (488)
+..|++-= .++-+-=+|.+|..++.+..++...| +++++--.+.+-++.|-..|-|..+ .+++-||
T Consensus 154 D~s~yVRk~AA~AIpKLYsLd~e~k~qL~e~I~~L------LaD~splVvgsAv~AF~evCPerld-------LIHknyr 220 (968)
T KOG1060|consen 154 DPSPYVRKTAAHAIPKLYSLDPEQKDQLEEVIKKL------LADRSPLVVGSAVMAFEEVCPERLD-------LIHKNYR 220 (968)
T ss_pred CCcHHHHHHHHHhhHHHhcCChhhHHHHHHHHHHH------hcCCCCcchhHHHHHHHHhchhHHH-------HhhHHHH
Confidence 33555543 44455567777777766444333332 2344444566666777777766544 5666666
Q ss_pred Hhhh---cCCcccHHHHHHHHHHH
Q 011352 191 IATL---RHDELGQETLLNLLLRN 211 (488)
Q Consensus 191 ta~~---~~~~~~~~~l~n~llr~ 211 (488)
..|. .-+.|||.++++.|.|.
T Consensus 221 klC~ll~dvdeWgQvvlI~mL~RY 244 (968)
T KOG1060|consen 221 KLCRLLPDVDEWGQVVLINMLTRY 244 (968)
T ss_pred HHHhhccchhhhhHHHHHHHHHHH
Confidence 5432 47899999999998875
No 217
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=31.31 E-value=6.4e+02 Score=30.06 Aligned_cols=135 Identities=13% Similarity=0.118 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHH-cccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhh
Q 011352 116 ELEIYCYLLVLIFLI-DKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL 194 (488)
Q Consensus 116 ~~e~~~~ll~~~~l~-d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~ 194 (488)
..+.+.+++. .. +.+++++|...+...+ ..+ ...+.. |+|.+..+...++..++. +..+......
T Consensus 30 n~~a~~~Li~---~~~~~~~~deai~i~~~~l---~~~-P~~i~~-----yy~~G~l~~q~~~~~~~~--lv~~l~~~~~ 95 (906)
T PRK14720 30 KFKELDDLID---AYKSENLTDEAKDICEEHL---KEH-KKSISA-----LYISGILSLSRRPLNDSN--LLNLIDSFSQ 95 (906)
T ss_pred hHHHHHHHHH---HHHhcCCHHHHHHHHHHHH---HhC-Ccceeh-----HHHHHHHHHhhcchhhhh--hhhhhhhccc
Confidence 4555554443 44 7889999988877443 322 222211 334444444455544333 2244333333
Q ss_pred cCCcccHHHHHHHHHHH-------------HHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHhhcHHHHHH
Q 011352 195 RHDELGQETLLNLLLRN-------------YLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKE 261 (488)
Q Consensus 195 ~~~~~~~~~l~n~llr~-------------Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~ 261 (488)
.++.....++..+++.. |=+.|.++.|..+-...---+ ..+...+.++ |-.++-+ |..+|.+
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 NLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKL---ATSYEEE-DKEKAIT 170 (906)
T ss_pred ccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHH---HHHHHHh-hHHHHHH
Confidence 33333334445444443 334477776666555531100 2223333332 2233444 8999999
Q ss_pred HHHHHHHh
Q 011352 262 SLLQAARK 269 (488)
Q Consensus 262 ~L~~A~~~ 269 (488)
++..|+..
T Consensus 171 m~~KAV~~ 178 (906)
T PRK14720 171 YLKKAIYR 178 (906)
T ss_pred HHHHHHHH
Confidence 99998864
No 218
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=31.26 E-value=65 Score=28.80 Aligned_cols=47 Identities=17% Similarity=0.258 Sum_probs=39.5
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKE 418 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~ 418 (488)
..+|.++||..++++. .-++.++..+-..|.|..+=-...||.....
T Consensus 24 ~~~s~~~ia~~~~is~----~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~ 70 (141)
T PRK11014 24 RMTSISEVTEVYGVSR----NHMVKIINQLSRAGYVTAVRGKNGGIRLGKP 70 (141)
T ss_pred CccCHHHHHHHHCcCH----HHHHHHHHHHHhCCEEEEecCCCCCeeecCC
Confidence 4689999999999998 8999999999999999776666668766553
No 219
>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=30.63 E-value=1.1e+02 Score=22.77 Aligned_cols=22 Identities=32% Similarity=0.341 Sum_probs=19.3
Q ss_pred HHhhcHHHHHHHHHHHHHhCCc
Q 011352 251 TIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 251 ~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+.+++|.+|...|..++...|.
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 4689999999999999987775
No 220
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.92 E-value=8.4e+02 Score=27.44 Aligned_cols=30 Identities=27% Similarity=0.174 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
+.|.|+=|+..+++.-|..+|.+|+.-||.
T Consensus 383 ~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~ 412 (611)
T KOG1173|consen 383 SLYLGMEYMRTNNLKLAEKFFKQALAIAPS 412 (611)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhcCCC
Confidence 467888888888888888888888877776
No 221
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=29.82 E-value=2.1e+02 Score=22.77 Aligned_cols=34 Identities=21% Similarity=0.404 Sum_probs=30.3
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA 405 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A 405 (488)
..+++++||..++++. ..+-.++..|...|.|.-
T Consensus 19 ~~~t~~~ia~~l~i~~----~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 19 GGLTLAELAERLGLSK----STAHRLLNTLQELGYVEQ 52 (91)
T ss_pred CCcCHHHHHHHhCCCH----HHHHHHHHHHHHCCCeee
Confidence 3699999999999987 899999999999999843
No 222
>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=29.75 E-value=5.8e+02 Score=25.47 Aligned_cols=136 Identities=16% Similarity=0.142 Sum_probs=70.4
Q ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHH
Q 011352 165 YFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRY 242 (488)
Q Consensus 165 ~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y 242 (488)
|--|.+.....+.++.+|..+..+. ...+..-..++.+-.+ -|-..++.+.|.++.+.. .||.. ..-+..|
T Consensus 4 ~i~~m~~~~r~~g~~~aR~vF~~a~----~~~~~~~~vy~~~A~~-E~~~~~d~~~A~~Ife~glk~f~~~--~~~~~~Y 76 (280)
T PF05843_consen 4 WIQYMRFMRRTEGIEAARKVFKRAR----KDKRCTYHVYVAYALM-EYYCNKDPKRARKIFERGLKKFPSD--PDFWLEY 76 (280)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH----CCCCS-THHHHHHHHH-HHHTCS-HHHHHHHHHHHHHHHTT---HHHHHHH
T ss_pred HHHHHHHHHHhCChHHHHHHHHHHH----cCCCCCHHHHHHHHHH-HHHhCCCHHHHHHHHHHHHHHCCCC--HHHHHHH
Confidence 4444455555556788887777663 1111111222222222 233356777788887774 34432 2334444
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHHHHhcCCCCCcchhcchhhhhhhhhHHHHHHHHhc
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELTNAVRI 322 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~ 322 (488)
.-|+ ...+|...|...|+.|+...|... ....++++|+= +- .+.
T Consensus 77 ~~~l----~~~~d~~~aR~lfer~i~~l~~~~--~~~~iw~~~i~----------------------------fE--~~~ 120 (280)
T PF05843_consen 77 LDFL----IKLNDINNARALFERAISSLPKEK--QSKKIWKKFIE----------------------------FE--SKY 120 (280)
T ss_dssp HHHH----HHTT-HHHHHHHHHHHCCTSSCHH--HCHHHHHHHHH----------------------------HH--HHH
T ss_pred HHHH----HHhCcHHHHHHHHHHHHHhcCchh--HHHHHHHHHHH----------------------------HH--HHc
Confidence 4444 345788999999999987644311 12333333332 21 344
Q ss_pred CCHHHHHHHHHHcchhhhcCc
Q 011352 323 GDLELFKSVAEKFSSTFSSDR 343 (488)
Q Consensus 323 Gdl~~f~~~l~~~~~~f~~D~ 343 (488)
||+....++-.++...|..+.
T Consensus 121 Gdl~~v~~v~~R~~~~~~~~~ 141 (280)
T PF05843_consen 121 GDLESVRKVEKRAEELFPEDN 141 (280)
T ss_dssp S-HHHHHHHHHHHHHHTTTS-
T ss_pred CCHHHHHHHHHHHHHHhhhhh
Confidence 777777777777766666543
No 223
>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=29.57 E-value=1.6e+02 Score=22.06 Aligned_cols=36 Identities=17% Similarity=0.306 Sum_probs=31.4
Q ss_pred HhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcc
Q 011352 365 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAID 404 (488)
Q Consensus 365 ~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~ 404 (488)
......+.++|+..++++. ..+-+.+..|..-|.|.
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 4568899999999999987 88999999999999984
No 224
>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=29.38 E-value=57 Score=21.45 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=17.0
Q ss_pred cCCccccHHHHHHHHHHHHhhH
Q 011352 423 YSTNEPQLAFNSRIAFCLNMHN 444 (488)
Q Consensus 423 ~s~~ep~~~l~~rI~~~l~l~~ 444 (488)
.|+.+||.+|=+|++..-+-|.
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 3577999999999999999998
No 225
>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=28.92 E-value=1.5e+02 Score=22.48 Aligned_cols=41 Identities=20% Similarity=0.313 Sum_probs=31.0
Q ss_pred hHH-HHHHHHhcCCHHHHHHHHHHcchhhhcCcch-HHHHHHH
Q 011352 312 PYF-ELTNAVRIGDLELFKSVAEKFSSTFSSDRTN-NLIVRLR 352 (488)
Q Consensus 312 ~Y~-~L~~Av~~Gdl~~f~~~l~~~~~~f~~D~~~-~Lv~rLr 352 (488)
+|. .+-+|+.+|||...+.....-+..+...|.. ..++.|.
T Consensus 2 lYgvaiq~AiasGDLa~MK~l~~~aeq~L~~~~~i~~al~~Lk 44 (53)
T PF08898_consen 2 LYGVAIQQAIASGDLAQMKALAAQAEQQLAEAGDIAAALEKLK 44 (53)
T ss_pred CchHHHHHHHHcCcHHHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence 343 6888999999999999999888887776654 3444443
No 226
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=28.90 E-value=98 Score=23.40 Aligned_cols=27 Identities=30% Similarity=0.268 Sum_probs=23.1
Q ss_pred HHHHHHhhcHHHHHHHHHHHHHhCCcc
Q 011352 247 GKIRTIQLEYTDAKESLLQAARKAPVA 273 (488)
Q Consensus 247 Gri~~~~~dy~~A~~~L~~A~~~~P~~ 273 (488)
..+|..+++|.+|..++..++...|..
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~ 28 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPDD 28 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCccc
Confidence 468889999999999999999865653
No 227
>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=28.79 E-value=60 Score=22.51 Aligned_cols=31 Identities=19% Similarity=0.319 Sum_probs=24.5
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEee
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVD 408 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id 408 (488)
+++.++|..||++.. -+-++|.+|.|.+...
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 578899999998752 5777889999977554
No 228
>PHA02537 M terminase endonuclease subunit; Provisional
Probab=28.78 E-value=4.7e+02 Score=25.85 Aligned_cols=43 Identities=9% Similarity=-0.088 Sum_probs=30.8
Q ss_pred CChhHHHHHHHHHHHHHH---------HhhcHHHHHHHHHHHHHhCCccchh
Q 011352 234 HSNQQFCRYLFYLGKIRT---------IQLEYTDAKESLLQAARKAPVAALG 276 (488)
Q Consensus 234 ~~~~~~v~Y~YY~Gri~~---------~~~dy~~A~~~L~~A~~~~P~~~~~ 276 (488)
.|-.-.+.+|-..|.... -.++...|..+|.+|+..-|..+.+
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 334556777778888773 3458899999999999865655433
No 229
>PF07729 FCD: FCD domain; InterPro: IPR011711 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 []. 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. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=28.72 E-value=3.2e+02 Score=22.22 Aligned_cols=29 Identities=28% Similarity=0.415 Sum_probs=24.2
Q ss_pred hhhhhhHHHHHHHHhcCCHHHHHHHHHHc
Q 011352 307 EKALRPYFELTNAVRIGDLELFKSVAEKF 335 (488)
Q Consensus 307 ~~~l~~Y~~L~~Av~~Gdl~~f~~~l~~~ 335 (488)
...+..+..|++|++.||.....+++..|
T Consensus 94 ~~~~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 94 ERSLEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34667799999999999999999998876
No 230
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=28.49 E-value=4.6e+02 Score=24.73 Aligned_cols=60 Identities=23% Similarity=0.115 Sum_probs=37.1
Q ss_pred HHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHH-HHHhhc--HHHHHHHHHHHHHhCCc
Q 011352 207 LLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKI-RTIQLE--YTDAKESLLQAARKAPV 272 (488)
Q Consensus 207 ~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri-~~~~~d--y~~A~~~L~~A~~~~P~ 272 (488)
.+-+.|...|+++.|.....+. -.|++ ...++..|.+ +...++ +.+|...|..|++.-|.
T Consensus 78 ~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~------~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~ 142 (198)
T PRK10370 78 LLGEYYLWRNDYDNALLAYRQALQLRGEN------AELYAALATVLYYQAGQHMTPQTREMIDKALALDAN 142 (198)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCCC------HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC
Confidence 3456788888888887777664 22321 2223444544 345555 58888888888875554
No 231
>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=27.95 E-value=1.7e+02 Score=24.93 Aligned_cols=41 Identities=12% Similarity=0.227 Sum_probs=34.6
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCC
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHAN 411 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~ 411 (488)
...++.++||..++++. ..+-.+|.+|..+|.|...-+..+
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 45788999999999998 688899999999999977665543
No 232
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=26.68 E-value=74 Score=29.07 Aligned_cols=71 Identities=20% Similarity=0.390 Sum_probs=50.7
Q ss_pred cccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHH--HHHHhhH
Q 011352 369 RISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIA--FCLNMHN 444 (488)
Q Consensus 369 rIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~--~~l~l~~ 444 (488)
.+++++||...+++. .-++.++++|-..|.|+..==+..||.--++..++ +=-+...+++..+. .|...++
T Consensus 25 ~~s~~~IA~~~~is~----~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~~I-sl~dVv~ave~~~~~~~c~~~~~ 97 (150)
T COG1959 25 PVSSAEIAERQGISP----SYLEKILSKLRKAGLVKSVRGKGGGYRLARPPEEI-TLGDVVRALEGPLALVECFSITN 97 (150)
T ss_pred cccHHHHHHHhCcCH----HHHHHHHHHHHHcCCEEeecCCCCCccCCCChHHC-cHHHHHHHhcCCCCccccCCCCC
Confidence 688999999999987 89999999999999998877777888766554332 22233444444333 3554444
No 233
>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=26.60 E-value=2.1e+02 Score=22.96 Aligned_cols=45 Identities=13% Similarity=0.149 Sum_probs=34.5
Q ss_pred cccCHHHHHHHHHHHHHHHHhh-----hhhhHHHHHHHHHHHHHHHHHhh
Q 011352 131 DKKRYNEAKACSSASIARLKNM-----NRRTVDVLAARLYFYYSLCYELT 175 (488)
Q Consensus 131 d~~~~~~A~~~~~~lv~~l~~~-----~~r~ld~l~ak~~~y~s~~~e~~ 175 (488)
..++|++|+.+-...++.+..+ |...-+.+..|+--|..|+-++.
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 33455788888888888877653
No 234
>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=26.41 E-value=2.4e+02 Score=22.75 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=33.7
Q ss_pred ccCHHHHHHHHHHHHHHHHhh-----hhhhHHHHHHHHHHHHHHHHHhhccH
Q 011352 132 KKRYNEAKACSSASIARLKNM-----NRRTVDVLAARLYFYYSLCYELTGDL 178 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~-----~~r~ld~l~ak~~~y~s~~~e~~~~l 178 (488)
.|+|++|+.+-...+..+..+ |....+.+..|+--|..|+-.+...+
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 589999999999988775543 23455677777777777776665443
No 235
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=26.39 E-value=78 Score=26.92 Aligned_cols=56 Identities=5% Similarity=0.189 Sum_probs=37.8
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHHHHHhhH
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFCLNMHN 444 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~~l~l~~ 444 (488)
.++++.++|...|++.+ .|..+|.-|.|...-....+|.-... =-.|++....||+
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 57899999999998763 68889999999654444444443221 1245666666666
No 236
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.25 E-value=6.1e+02 Score=24.64 Aligned_cols=87 Identities=15% Similarity=0.062 Sum_probs=62.3
Q ss_pred hccHHHHHHHHHHHHHHhhhcCCcccHHHHHH-HHHHHHHccCCHHHHHHHHhcCCCCccCChhHHHHHHHHHHHHHHHh
Q 011352 175 TGDLAEIRGNLLALHRIATLRHDELGQETLLN-LLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQ 253 (488)
Q Consensus 175 ~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n-~llr~Yl~~~~~~~a~~li~~~~~pe~~~~~~~v~Y~YY~Gri~~~~ 253 (488)
.+++.++...|-.++. ......--.+++ .|-|.-+..+.+|.|.+.+..+.- .+...++.-..|-+++..
T Consensus 102 ~~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-----~~w~~~~~elrGDill~k 172 (207)
T COG2976 102 ANNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKE-----ESWAAIVAELRGDILLAK 172 (207)
T ss_pred hccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-----ccHHHHHHHHhhhHHHHc
Confidence 3456665555544431 111222224444 588999999999999999987643 345677788999999999
Q ss_pred hcHHHHHHHHHHHHHhC
Q 011352 254 LEYTDAKESLLQAARKA 270 (488)
Q Consensus 254 ~dy~~A~~~L~~A~~~~ 270 (488)
||=.+|...|..|+..-
T Consensus 173 g~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 173 GDKQEARAAYEKALESD 189 (207)
T ss_pred CchHHHHHHHHHHHHcc
Confidence 99999999999999843
No 237
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=25.75 E-value=4.8e+02 Score=29.86 Aligned_cols=60 Identities=25% Similarity=0.073 Sum_probs=46.7
Q ss_pred HHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 207 LLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 207 ~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.|--+|-..|.++.|..+..++ -+|+- +.=+--+|.||--++++.+|..|+..|++-.|.
T Consensus 359 NLgni~~E~~~~e~A~~ly~~al~v~p~~------aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~ 420 (966)
T KOG4626|consen 359 NLGNIYREQGKIEEATRLYLKALEVFPEF------AAAHNNLASIYKQQGNLDDAIMCYKEALRIKPT 420 (966)
T ss_pred HHHHHHHHhccchHHHHHHHHHHhhChhh------hhhhhhHHHHHHhcccHHHHHHHHHHHHhcCch
Confidence 3445889999999999988875 34542 111335789999999999999999999997776
No 238
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=25.03 E-value=3.8e+02 Score=27.59 Aligned_cols=48 Identities=23% Similarity=0.079 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHH-HHHHHHHhcCCCC
Q 011352 243 LFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNK-WAIIVRLLLGEIP 296 (488)
Q Consensus 243 ~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK-~lIlv~LL~G~iP 296 (488)
|-=+|+.|..+++|.+|.+.|..|+.--|... .+| -|=.++..+++.+
T Consensus 152 y~RLG~A~~~~gk~~~A~~aykKaLeldP~Ne------~~K~nL~~Ae~~l~e~~ 200 (304)
T KOG0553|consen 152 YGRLGLAYLALGKYEEAIEAYKKALELDPDNE------SYKSNLKIAEQKLNEPK 200 (304)
T ss_pred HHHHHHHHHccCcHHHHHHHHHhhhccCCCcH------HHHHHHHHHHHHhcCCC
Confidence 34689999999999999999999998656532 222 2333455556555
No 239
>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=24.88 E-value=1.1e+02 Score=23.50 Aligned_cols=38 Identities=8% Similarity=0.173 Sum_probs=32.8
Q ss_pred hhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEe
Q 011352 366 SYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATV 407 (488)
Q Consensus 366 ~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~I 407 (488)
.....+..+||..++++. ..|-.+|.+|...|.|.-.-
T Consensus 19 ~~~~~t~~eIa~~l~i~~----~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISR----STVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHCHEEHHHHHHHHTSSH----HHHHHHHHHHHHTTSEEEEE
T ss_pred HcCCCCHHHHHHHHCcCH----HHHHHHHHHHHHCCCEEEEc
Confidence 456788999999999998 89999999999999995433
No 240
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=24.50 E-value=8.2e+02 Score=26.99 Aligned_cols=91 Identities=18% Similarity=0.170 Sum_probs=50.1
Q ss_pred HHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC---CCCccCChhHHHHHHHHHHH
Q 011352 172 YELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA---PRFEAHSNQQFCRYLFYLGK 248 (488)
Q Consensus 172 ~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~---~~pe~~~~~~~v~Y~YY~Gr 248 (488)
++..++++++. +||..|..-++..|.+ .+.|-+.|=+...+..|.....+. ..-+..-....+.=.-+++.
T Consensus 442 Y~kl~~~~eAi----KCykrai~~~dte~~~--l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~ 515 (559)
T KOG1155|consen 442 YEKLNRLEEAI----KCYKRAILLGDTEGSA--LVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAE 515 (559)
T ss_pred HHHhccHHHHH----HHHHHHHhccccchHH--HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHH
Confidence 33344554443 3444444444544443 335566777777778777655542 11111001111222234777
Q ss_pred HHHHhhcHHHHHHHHHHHHH
Q 011352 249 IRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 249 i~~~~~dy~~A~~~L~~A~~ 268 (488)
.+...+||.+|..|...+..
T Consensus 516 ~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 516 YFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHhhcchHHHHHHHHHHhc
Confidence 77888899999998888875
No 241
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.48 E-value=1e+03 Score=26.55 Aligned_cols=114 Identities=18% Similarity=0.212 Sum_probs=68.2
Q ss_pred HHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccchhhHHHHHHHHHHH
Q 011352 211 NYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAALGFRVQCNKWAIIV 288 (488)
Q Consensus 211 ~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~~~~~~alK~lIlv 288 (488)
.|...++-..--+.+.+. -.|++.+. ||..|.+++...+|.+|...|+.|++-.|....++.+.+.-.+=
T Consensus 369 ~y~d~~~~~~~~~~F~~A~~ldp~n~dv------YyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr-- 440 (606)
T KOG0547|consen 369 AYADENQSEKMWKDFNKAEDLDPENPDV------YYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCALYR-- 440 (606)
T ss_pred HHhhhhccHHHHHHHHHHHhcCCCCCch------hHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHH--
Confidence 577777776666666664 23554443 78999999999999999999999999888766555544422111
Q ss_pred HHhcCCCCCc-chhcchhhh-hhh-hhHHHHHHHHhcCCHHHHHHHHHHcch
Q 011352 289 RLLLGEIPER-TVFMQKGME-KAL-RPYFELTNAVRIGDLELFKSVAEKFSS 337 (488)
Q Consensus 289 ~LL~G~iP~~-~ll~~~~l~-~~l-~~Y~~L~~Av~~Gdl~~f~~~l~~~~~ 337 (488)
.|+|-+- ..|..-..+ +.| ..|.-++++.. |-..|+++++.|..
T Consensus 441 ---~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLt--DqqqFd~A~k~YD~ 487 (606)
T KOG0547|consen 441 ---QHKIAESMKTFEEAKKKFPNCPEVYNLFAEILT--DQQQFDKAVKQYDK 487 (606)
T ss_pred ---HHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHh--hHHhHHHHHHHHHH
Confidence 1222211 111111000 112 33444555443 55788888888754
No 242
>PF13730 HTH_36: Helix-turn-helix domain
Probab=24.37 E-value=1e+02 Score=22.51 Aligned_cols=29 Identities=21% Similarity=0.284 Sum_probs=26.3
Q ss_pred cHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 371 SLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 371 sL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
|.+.||..+|++. ..+...+..++..|.|
T Consensus 27 S~~~la~~~g~s~----~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSR----RTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCH----HHHHHHHHHHHHCcCC
Confidence 7899999999986 8999999999998876
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=24.11 E-value=1e+02 Score=25.28 Aligned_cols=45 Identities=11% Similarity=0.170 Sum_probs=34.2
Q ss_pred HhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcE
Q 011352 365 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGW 413 (488)
Q Consensus 365 ~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~ 413 (488)
+-|.-+|++.|+...++.. .+++..+.+++..|.|.-+.-+-.||
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 4567899999999999997 89999999999999997655445566
No 244
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=24.10 E-value=1.5e+02 Score=28.98 Aligned_cols=48 Identities=21% Similarity=0.226 Sum_probs=40.9
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEccc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKET 419 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~ 419 (488)
..||.+++|..++++. ..+-.+|.+|...|.|.-..+..+.++...+.
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 4799999999999988 89999999999999998888876666666554
No 245
>PF12854 PPR_1: PPR repeat
Probab=23.87 E-value=1.3e+02 Score=19.93 Aligned_cols=26 Identities=23% Similarity=0.230 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHhcC
Q 011352 203 TLLNLLLRNYLHYNLYDQAEKLRSKA 228 (488)
Q Consensus 203 ~l~n~llr~Yl~~~~~~~a~~li~~~ 228 (488)
...|.++.-|.+.|+.+.|..+++..
T Consensus 8 ~ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 8 VTYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred hHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 45678889999999999999988753
No 246
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=23.80 E-value=3.7e+02 Score=29.00 Aligned_cols=84 Identities=21% Similarity=0.192 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcC
Q 011352 117 LEIYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRH 196 (488)
Q Consensus 117 ~e~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~ 196 (488)
.-..+.-+.+--++.++.|+.|-++..+.+ .....++. ..|+..||.+++.-.......+...++.|.|.|+. |
T Consensus 207 ~qavLiN~LLr~yL~n~lydqa~~lvsK~~----~pe~~snn-e~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq-~ 280 (493)
T KOG2581|consen 207 GQAVLINLLLRNYLHNKLYDQADKLVSKSV----YPEAASNN-EWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQ-H 280 (493)
T ss_pred hHHHHHHHHHHHHhhhHHHHHHHHHhhccc----CccccccH-HHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcc-h
Confidence 334444445555666778887666544432 22111222 45777788899988888889999999999998876 5
Q ss_pred CcccHHHHHH
Q 011352 197 DELGQETLLN 206 (488)
Q Consensus 197 ~~~~~~~l~n 206 (488)
.-.|..--+|
T Consensus 281 ~alGf~q~v~ 290 (493)
T KOG2581|consen 281 AALGFRQQVN 290 (493)
T ss_pred hhhhHHHHHH
Confidence 5555443333
No 247
>KOG2316 consensus Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=23.67 E-value=62 Score=31.84 Aligned_cols=46 Identities=28% Similarity=0.356 Sum_probs=35.1
Q ss_pred HHHhhccccHHHHHHHhcCCC--CCChHHHHHHHHHHHHcCCcceEeeC
Q 011352 363 ISISYSRISLADVAKKLRLDS--ANPVADAESIVSKAIRDGAIDATVDH 409 (488)
Q Consensus 363 i~~~YsrIsL~dIa~~L~l~~--~~d~eeaE~ila~mI~dG~I~A~Id~ 409 (488)
|--.|-|+....||.+|+|-+ -.+-.+-|.++..||..| ++|.|-.
T Consensus 116 IlS~YQr~RVEnVC~RL~L~~Ls~LW~rdQ~~LL~eMi~~g-~~AiiiK 163 (277)
T KOG2316|consen 116 ILSDYQRTRVENVCSRLGLVSLSYLWQRDQEELLQEMILSG-LDAIIIK 163 (277)
T ss_pred hHhHHHHHHHHHHHhhhCceeehHHHhccHHHHHHHHHHcC-CCeEEEE
Confidence 445688888999999999865 123356778999999999 7787753
No 248
>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]
Probab=23.49 E-value=2.2e+02 Score=32.17 Aligned_cols=31 Identities=19% Similarity=0.145 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 242 YLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 242 Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
++|-.|+.+...+|...|.++|.+|+.+.|.
T Consensus 678 ~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~ 708 (886)
T KOG4507|consen 678 TFLSLGNAYLALKNISGALEAFRQALKLTTK 708 (886)
T ss_pred HHHhcchhHHHHhhhHHHHHHHHHHHhcCCC
Confidence 5889999999999999999999999987665
No 249
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=23.24 E-value=1.6e+03 Score=28.41 Aligned_cols=153 Identities=10% Similarity=0.062 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhh
Q 011352 116 ELEIYCYLLVLIFLID-KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATL 194 (488)
Q Consensus 116 ~~e~~~~ll~~~~l~d-~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~ 194 (488)
+.+.|.-|+.+...++ ..++++|.++....++.++ +.+..|..-+- | --..+.-++++..|-.++... +
T Consensus 1526 ycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~--f-----Ll~~ne~~aa~~lL~rAL~~l-P 1595 (1710)
T KOG1070|consen 1526 YCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYAD--F-----LLRQNEAEAARELLKRALKSL-P 1595 (1710)
T ss_pred hcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHH--H-----HhcccHHHHHHHHHHHHHhhc-c
Confidence 4555666666666665 3677887777777666666 35666765221 1 111233356777777776433 3
Q ss_pred cCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 195 RHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 195 ~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
++... -++......-|+.|..+.+..++... ..|.... -|.-| ...-+.+++-.-+...|+.++.. .
T Consensus 1596 k~eHv---~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtD--lW~VY----id~eik~~~~~~vR~lfeRvi~l--~ 1664 (1710)
T KOG1070|consen 1596 KQEHV---EFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTD--LWSVY----IDMEIKHGDIKYVRDLFERVIEL--K 1664 (1710)
T ss_pred hhhhH---HHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchh--HHHHH----HHHHHccCCHHHHHHHHHHHHhc--C
Confidence 32222 23334445668889999888877763 4453221 11111 12223456777788899999864 3
Q ss_pred cchhhHHHHHHHHHHHH
Q 011352 273 AALGFRVQCNKWAIIVR 289 (488)
Q Consensus 273 ~~~~~~~~alK~lIlv~ 289 (488)
-+.+.+.-.+|+|+=-+
T Consensus 1665 l~~kkmKfffKkwLeyE 1681 (1710)
T KOG1070|consen 1665 LSIKKMKFFFKKWLEYE 1681 (1710)
T ss_pred CChhHhHHHHHHHHHHH
Confidence 55777888888887644
No 250
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=23.04 E-value=1.2e+02 Score=19.12 Aligned_cols=25 Identities=28% Similarity=0.150 Sum_probs=20.2
Q ss_pred HHHHHHHHHHccCCHHHHHHHHhcC
Q 011352 204 LLNLLLRNYLHYNLYDQAEKLRSKA 228 (488)
Q Consensus 204 l~n~llr~Yl~~~~~~~a~~li~~~ 228 (488)
..|.+++.|.+.++++.|..+++..
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~M 27 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDEM 27 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 4577889999999999988877653
No 251
>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=22.72 E-value=1.6e+02 Score=20.53 Aligned_cols=25 Identities=24% Similarity=0.222 Sum_probs=22.5
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 244 FYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 244 YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
--+|-|.+-..+|.+|.+.|..|+.
T Consensus 5 ~~Lgeisle~e~f~qA~~D~~~aL~ 29 (38)
T PF10516_consen 5 DLLGEISLENENFEQAIEDYEKALE 29 (38)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHH
Confidence 4679999999999999999999985
No 252
>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=22.57 E-value=2.7e+02 Score=22.56 Aligned_cols=45 Identities=18% Similarity=0.069 Sum_probs=30.9
Q ss_pred ccCHHHHHHHHHHHHHHHHh-hhhhhHHHHHHHHH----HHHHHHHHhhc
Q 011352 132 KKRYNEAKACSSASIARLKN-MNRRTVDVLAARLY----FYYSLCYELTG 176 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~-~~~r~ld~l~ak~~----~y~s~~~e~~~ 176 (488)
.|+|++|+.+....|..+.. -|.++-..+.+|+- -|..|+-++.+
T Consensus 19 ~gny~eA~~lY~~ale~~~~ekn~~~k~~i~~K~~~~a~~yl~RAE~Lk~ 68 (75)
T cd02680 19 KGNAEEAIELYTEAVELCINTSNETMDQALQTKLKQLARQALDRAEALKE 68 (75)
T ss_pred hhhHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999988443 35556677777774 45555544433
No 253
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=22.17 E-value=9.9e+02 Score=25.65 Aligned_cols=101 Identities=14% Similarity=-0.003 Sum_probs=57.7
Q ss_pred HHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccCCHHHHHHHHhcC-CCC-----ccCChhHHHH
Q 011352 168 YSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKA-PRF-----EAHSNQQFCR 241 (488)
Q Consensus 168 ~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~~~~~a~~li~~~-~~p-----e~~~~~~~v~ 241 (488)
.+++|-..+.++++...+-+++|.|+...|+.-.+-+..-|=..|-...+++-|..+.++. ... ...+......
T Consensus 128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~ 207 (518)
T KOG1941|consen 128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM 207 (518)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence 3445555667788888899999999888776544433222223344555666555555443 111 1233344444
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHHHHHH
Q 011352 242 YLFYLGKIRTIQLEYTDAKESLLQAAR 268 (488)
Q Consensus 242 Y~YY~Gri~~~~~dy~~A~~~L~~A~~ 268 (488)
-.|-++.-+-.+|..-.|.++-.+|..
T Consensus 208 ~lyhmaValR~~G~LgdA~e~C~Ea~k 234 (518)
T KOG1941|consen 208 SLYHMAVALRLLGRLGDAMECCEEAMK 234 (518)
T ss_pred HHHHHHHHHHHhcccccHHHHHHHHHH
Confidence 455555555566666666666666654
No 254
>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=22.05 E-value=2.3e+02 Score=21.25 Aligned_cols=35 Identities=14% Similarity=0.273 Sum_probs=31.0
Q ss_pred HhhccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 365 ISYSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 365 ~~YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
.....++++++|..++++. ..+..-+..|-..|.|
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 3457899999999999987 8899999999999986
No 255
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.83 E-value=8.3e+02 Score=24.62 Aligned_cols=88 Identities=13% Similarity=0.041 Sum_probs=44.6
Q ss_pred ccCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHH
Q 011352 132 KKRYNEAKACSSASIARLKNMNRRTVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRN 211 (488)
Q Consensus 132 ~~~~~~A~~~~~~lv~~l~~~~~r~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~ 211 (488)
.++|++|.++....-+..+- .-.|..+...+.=.+-+|-..++-.++......+...- -+.++.-..-.+..-..+
T Consensus 27 ~~k~eeAadl~~~Aan~ykl---aK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cy-kk~~~~eAv~cL~~aieI 102 (288)
T KOG1586|consen 27 SNKYEEAAELYERAANMYKL---AKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCY-KKVDPEEAVNCLEKAIEI 102 (288)
T ss_pred CcchHHHHHHHHHHHHHHHH---HHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHh-hccChHHHHHHHHHHHHH
Confidence 45899998887766555332 23455555444444445555555444554444443111 111222222222233457
Q ss_pred HHccCCHHHHHH
Q 011352 212 YLHYNLYDQAEK 223 (488)
Q Consensus 212 Yl~~~~~~~a~~ 223 (488)
|-+.|++..|.+
T Consensus 103 yt~~Grf~~aAk 114 (288)
T KOG1586|consen 103 YTDMGRFTMAAK 114 (288)
T ss_pred HHhhhHHHHHHh
Confidence 778887776654
No 256
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=21.70 E-value=3.7e+02 Score=23.75 Aligned_cols=41 Identities=12% Similarity=0.241 Sum_probs=35.3
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANG 412 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G 412 (488)
..++.++||..++++. ..+=.+|.+|...|.|.=.-|..++
T Consensus 53 ~~~t~~eLa~~l~i~~----~tvsr~l~~Le~~GlI~R~~~~~Dr 93 (144)
T PRK11512 53 ACITPVELKKVLSVDL----GALTRMLDRLVCKGWVERLPNPNDK 93 (144)
T ss_pred CCCCHHHHHHHHCCCH----HHHHHHHHHHHHCCCEEeccCcccC
Confidence 4699999999999998 7899999999999999777665543
No 257
>PHA02943 hypothetical protein; Provisional
Probab=21.32 E-value=1e+02 Score=28.62 Aligned_cols=35 Identities=14% Similarity=0.186 Sum_probs=30.8
Q ss_pred hccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcce
Q 011352 367 YSRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDA 405 (488)
Q Consensus 367 YsrIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A 405 (488)
...-+.++||++||++. .+|++++--+=++|+|.-
T Consensus 22 ~G~~TtseIAkaLGlS~----~qa~~~LyvLErEG~Vkr 56 (165)
T PHA02943 22 DGCKTTSRIANKLGVSH----SMARNALYQLAKEGMVLK 56 (165)
T ss_pred cCCccHHHHHHHHCCCH----HHHHHHHHHHHHcCceEE
Confidence 45567899999999998 899999999999999953
No 258
>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=21.04 E-value=2.5e+02 Score=19.95 Aligned_cols=32 Identities=16% Similarity=0.343 Sum_probs=28.5
Q ss_pred ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCc
Q 011352 368 SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAI 403 (488)
Q Consensus 368 srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I 403 (488)
...+..+|+..++++. ..+-..+..|...|.|
T Consensus 14 ~~~~~~el~~~l~~s~----~~vs~hL~~L~~~glV 45 (47)
T PF01022_consen 14 GPLTVSELAEELGLSQ----STVSHHLKKLREAGLV 45 (47)
T ss_dssp SSEEHHHHHHHHTS-H----HHHHHHHHHHHHTTSE
T ss_pred CCCchhhHHHhccccc----hHHHHHHHHHHHCcCe
Confidence 6788999999999988 8999999999999987
No 259
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=21.02 E-value=1.3e+03 Score=26.61 Aligned_cols=211 Identities=16% Similarity=0.160 Sum_probs=109.2
Q ss_pred HcccCHHHHHHHHHHHHH-----HHHhhhh-hhH---HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH--HHhhhcCCc
Q 011352 130 IDKKRYNEAKACSSASIA-----RLKNMNR-RTV---DVLAARLYFYYSLCYELTGDLAEIRGNLLALH--RIATLRHDE 198 (488)
Q Consensus 130 ~d~~~~~~A~~~~~~lv~-----~l~~~~~-r~l---d~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~--rta~~~~~~ 198 (488)
++.++++.|+++...... .+..|+. ... =.=..|+|-+|.---|..|-++..+...-.++ |.||+.
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 456788888887655431 1333421 111 11224678888888888888888887766665 777663
Q ss_pred ccHHHHHHHHHHHHHccCCH-HHHHHHHhcC--CCCccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCccch
Q 011352 199 LGQETLLNLLLRNYLHYNLY-DQAEKLRSKA--PRFEAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPVAAL 275 (488)
Q Consensus 199 ~~~~~l~n~llr~Yl~~~~~-~~a~~li~~~--~~pe~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~~~~ 275 (488)
.+.|- -.+|.-+.| +.+-++-.+. -|+-..-..-+.+|+----. .-.-.....|...|++|+..||..
T Consensus 513 ----ii~Ny--AmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~-rygg~klEraRdLFEqaL~~Cpp~-- 583 (835)
T KOG2047|consen 513 ----IIINY--AMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIK-RYGGTKLERARDLFEQALDGCPPE-- 583 (835)
T ss_pred ----HHHHH--HHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHH-HhcCCCHHHHHHHHHHHHhcCCHH--
Confidence 33331 112222222 2333333442 22211112234444321111 122347889999999999999952
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCcchhcchhhhhhhhhHHHHHHHHhcCC-HHHHHHHHHHcchhhhcCcchHHHHHHHHH
Q 011352 276 GFRVQCNKWAIIVRLLLGEIPERTVFMQKGMEKALRPYFELTNAVRIGD-LELFKSVAEKFSSTFSSDRTNNLIVRLRHN 354 (488)
Q Consensus 276 ~~~~~alK~lIlv~LL~G~iP~~~ll~~~~l~~~l~~Y~~L~~Av~~Gd-l~~f~~~l~~~~~~f~~D~~~~Lv~rLr~~ 354 (488)
....++-.+--.+==.|. .+.++..|..-+.+|..++ +..|+-.+.+-...+---.+=++-+++-+.
T Consensus 584 -~aKtiyLlYA~lEEe~GL-----------ar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~ 651 (835)
T KOG2047|consen 584 -HAKTIYLLYAKLEEEHGL-----------ARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES 651 (835)
T ss_pred -HHHHHHHHHHHHHHHhhH-----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh
Confidence 333333222211111121 1245677888888887765 666776777666655444444444444443
Q ss_pred HHHHhHHHHH
Q 011352 355 VIRTGLRNIS 364 (488)
Q Consensus 355 vir~~ir~i~ 364 (488)
+-....|-.+
T Consensus 652 Lp~~~~r~mc 661 (835)
T KOG2047|consen 652 LPDSKAREMC 661 (835)
T ss_pred CChHHHHHHH
Confidence 3333333333
No 260
>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=20.98 E-value=5.6e+02 Score=28.78 Aligned_cols=35 Identities=23% Similarity=0.354 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHcccCHHHHHHHHHHHHHHHHhhh
Q 011352 119 IYCYLLVLIFLIDKKRYNEAKACSSASIARLKNMN 153 (488)
Q Consensus 119 ~~~~ll~~~~l~d~~~~~~A~~~~~~lv~~l~~~~ 153 (488)
+|.+....-+++..++|.+|+..+....+-|+.+|
T Consensus 318 vYPYty~gg~~yR~~~~~eA~~~Wa~aa~Vi~~Yn 352 (618)
T PF05053_consen 318 VYPYTYLGGYYYRHKRYREALRSWAEAADVIRKYN 352 (618)
T ss_dssp SHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHTTSB
T ss_pred cccceehhhHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 35556666677788899999999999999999887
No 261
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.70 E-value=9.2e+02 Score=24.68 Aligned_cols=99 Identities=19% Similarity=0.080 Sum_probs=56.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhhhcCCcccHHHHHHHHHHHHHccC--CHHHHHHHHhcCC--CC
Q 011352 156 TVDVLAARLYFYYSLCYELTGDLAEIRGNLLALHRIATLRHDELGQETLLNLLLRNYLHYN--LYDQAEKLRSKAP--RF 231 (488)
Q Consensus 156 ~ld~l~ak~~~y~s~~~e~~~~l~~~r~~L~~~~rta~~~~~~~~~~~l~n~llr~Yl~~~--~~~~a~~li~~~~--~p 231 (488)
.-|.+.+++|. ..++...+-..+..++|-+-...+.. ..+.- . .|+..+ ....+..++++.- -|
T Consensus 157 egW~~Lg~~ym-------~~~~~~~A~~AY~~A~rL~g~n~~~~--~g~ae-a--L~~~a~~~~ta~a~~ll~~al~~D~ 224 (287)
T COG4235 157 EGWDLLGRAYM-------ALGRASDALLAYRNALRLAGDNPEIL--LGLAE-A--LYYQAGQQMTAKARALLRQALALDP 224 (287)
T ss_pred hhHHHHHHHHH-------HhcchhHHHHHHHHHHHhCCCCHHHH--HHHHH-H--HHHhcCCcccHHHHHHHHHHHhcCC
Confidence 45666666665 44555555444444444332211111 11111 1 133333 3345566666641 22
Q ss_pred ccCChhHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 232 EAHSNQQFCRYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 232 e~~~~~~~v~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.+ ++=.||+|..++-+++|.+|...++.-+...|.
T Consensus 225 ~~------iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~ 259 (287)
T COG4235 225 AN------IRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPA 259 (287)
T ss_pred cc------HHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence 22 334789999999999999999999999987776
No 262
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=20.66 E-value=2.9e+02 Score=22.83 Aligned_cols=32 Identities=19% Similarity=0.228 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHHHHhCCc
Q 011352 241 RYLFYLGKIRTIQLEYTDAKESLLQAARKAPV 272 (488)
Q Consensus 241 ~Y~YY~Gri~~~~~dy~~A~~~L~~A~~~~P~ 272 (488)
.-.|-++..++..++|.+|.+.|..+++.-|.
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 34678999999999999999999999986555
No 263
>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=20.60 E-value=92 Score=19.12 Aligned_cols=24 Identities=17% Similarity=0.336 Sum_probs=19.2
Q ss_pred HHHHHHHHHccCCHHHHHHHHhcC
Q 011352 205 LNLLLRNYLHYNLYDQAEKLRSKA 228 (488)
Q Consensus 205 ~n~llr~Yl~~~~~~~a~~li~~~ 228 (488)
.|.+++.|.+.+.++.|..+++..
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M 26 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEM 26 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHH
Confidence 567888899999999988877653
No 264
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=20.30 E-value=3e+02 Score=28.33 Aligned_cols=65 Identities=14% Similarity=0.292 Sum_probs=49.3
Q ss_pred HHHHHhh-ccccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceEeeCCCcEEEEcccCcccCCccccHHHHHHHHHH
Q 011352 361 RNISISY-SRISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDATVDHANGWMVSKETGDIYSTNEPQLAFNSRIAFC 439 (488)
Q Consensus 361 r~i~~~Y-srIsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~Id~~~G~v~~~~~~dv~s~~ep~~~l~~rI~~~ 439 (488)
+.-+..| .-.+=++||++||++- -.|-.+|+++...|.++=+|+++. .....+.++++..
T Consensus 20 ~vA~lYY~~g~tQ~eIA~~lgiSR----~~VsRlL~~Ar~~GiV~I~I~~~~---------------~~~~~Le~~L~~~ 80 (318)
T PRK15418 20 RIAWFYYHDGLTQSEIGERLGLTR----LKVSRLLEKGRQSGIIRVQINSRF---------------EGCLELENALRQH 80 (318)
T ss_pred HHHHHHHhcCCCHHHHHHHhCCCH----HHHHHHHHHHHHcCcEEEEEeCCC---------------ccHHHHHHHHHHH
Confidence 3344455 6789999999999998 789999999999999977776541 1224677777777
Q ss_pred HHhhH
Q 011352 440 LNMHN 444 (488)
Q Consensus 440 l~l~~ 444 (488)
+.|-.
T Consensus 81 fgLk~ 85 (318)
T PRK15418 81 FSLQH 85 (318)
T ss_pred hCCCE
Confidence 77766
No 265
>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=20.28 E-value=2.3e+02 Score=22.08 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=22.1
Q ss_pred HHHHHHhcCCHHHHHHHHHHcchhhh
Q 011352 315 ELTNAVRIGDLELFKSVAEKFSSTFS 340 (488)
Q Consensus 315 ~L~~Av~~Gdl~~f~~~l~~~~~~f~ 340 (488)
+++.+-+.||....++++..|+....
T Consensus 2 ~vI~~A~~GD~~A~~~IL~~y~~yI~ 27 (65)
T PF12645_consen 2 EVIKAAKQGDPEAMEEILKHYEPYIS 27 (65)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 46777899999999999999987655
No 266
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=20.02 E-value=1.4e+02 Score=20.44 Aligned_cols=29 Identities=14% Similarity=0.387 Sum_probs=22.5
Q ss_pred ccHHHHHHHhcCCCCCChHHHHHHHHHHHHcCCcceE
Q 011352 370 ISLADVAKKLRLDSANPVADAESIVSKAIRDGAIDAT 406 (488)
Q Consensus 370 IsL~dIa~~L~l~~~~d~eeaE~ila~mI~dG~I~A~ 406 (488)
+++.++|..+|++.. .|.+++.+|.+.+.
T Consensus 1 ~s~~e~a~~lgvs~~--------tl~~~~~~g~~~~~ 29 (49)
T cd04762 1 LTTKEAAELLGVSPS--------TLRRWVKEGKLKAI 29 (49)
T ss_pred CCHHHHHHHHCcCHH--------HHHHHHHcCCCCce
Confidence 367899999998752 57788888998654
Done!