Query 015984
Match_columns 397
No_of_seqs 258 out of 764
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 02:43:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015984hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1497 COP9 signalosome, subu 100.0 2.3E-83 4.9E-88 601.2 37.0 384 4-395 8-394 (399)
2 KOG1498 26S proteasome regulat 100.0 1.7E-56 3.8E-61 430.4 29.8 366 23-394 57-433 (439)
3 COG5071 RPN5 26S proteasome re 100.0 5.4E-50 1.2E-54 373.9 27.3 360 28-393 62-432 (439)
4 KOG1463 26S proteasome regulat 100.0 3.9E-42 8.6E-47 325.9 23.4 338 27-382 57-409 (411)
5 COG5159 RPN6 26S proteasome re 100.0 2.2E-35 4.7E-40 274.9 21.9 345 31-391 58-416 (421)
6 KOG0687 26S proteasome regulat 100.0 8.5E-31 1.8E-35 247.7 29.0 307 48-387 63-387 (393)
7 KOG1464 COP9 signalosome, subu 100.0 2E-29 4.4E-34 234.0 21.7 291 74-382 125-436 (440)
8 COG5187 RPN7 26S proteasome re 100.0 8.8E-27 1.9E-31 217.6 21.2 276 92-386 111-400 (412)
9 KOG2581 26S proteasome regulat 99.9 2.6E-19 5.7E-24 174.1 30.1 286 86-388 159-455 (493)
10 KOG2908 26S proteasome regulat 99.7 3.8E-15 8.2E-20 142.6 27.0 269 105-388 84-378 (380)
11 KOG0686 COP9 signalosome, subu 99.7 1.9E-15 4E-20 147.7 21.6 251 97-362 151-410 (466)
12 PF01399 PCI: PCI domain; Int 99.6 9.7E-16 2.1E-20 125.5 10.3 100 258-362 1-105 (105)
13 PF10602 RPN7: 26S proteasome 99.6 8.2E-15 1.8E-19 132.3 12.6 149 88-246 28-176 (177)
14 smart00753 PAM PCI/PINT associ 99.4 1.1E-12 2.3E-17 104.7 10.0 67 297-363 4-70 (88)
15 smart00088 PINT motif in prote 99.4 1.1E-12 2.3E-17 104.7 10.0 67 297-363 4-70 (88)
16 KOG2582 COP9 signalosome, subu 99.4 1.2E-10 2.5E-15 112.9 21.2 344 20-388 20-388 (422)
17 KOG2753 Uncharacterized conser 98.3 0.00086 1.9E-08 65.1 25.8 165 183-362 171-339 (378)
18 KOG2688 Transcription-associat 98.2 2.7E-05 5.8E-10 77.8 13.0 203 141-362 167-384 (394)
19 KOG1076 Translation initiation 98.1 0.0033 7.2E-08 66.3 26.1 66 297-362 694-763 (843)
20 COG5600 Transcription-associat 98.0 0.00055 1.2E-08 67.5 17.9 232 110-362 144-403 (413)
21 KOG2758 Translation initiation 97.7 0.0068 1.5E-07 58.9 19.1 245 93-363 126-395 (432)
22 PF10255 Paf67: RNA polymerase 97.3 0.062 1.4E-06 54.5 22.3 189 132-338 115-342 (404)
23 PF09976 TPR_21: Tetratricopep 97.3 0.0026 5.7E-08 55.1 10.3 95 98-203 50-144 (145)
24 PF14938 SNAP: Soluble NSF att 97.2 0.0077 1.7E-07 58.3 13.6 188 97-296 76-269 (282)
25 KOG2072 Translation initiation 96.7 0.4 8.7E-06 52.0 21.9 249 102-362 186-493 (988)
26 PF14938 SNAP: Soluble NSF att 96.2 0.096 2.1E-06 50.6 13.0 112 94-208 33-146 (282)
27 cd00189 TPR Tetratricopeptide 95.7 0.17 3.7E-06 37.4 10.2 94 99-205 3-96 (100)
28 TIGR02795 tol_pal_ybgF tol-pal 95.6 0.094 2E-06 42.4 8.8 104 97-207 3-106 (119)
29 TIGR02521 type_IV_pilW type IV 95.5 1.7 3.7E-05 38.5 17.5 168 18-206 31-198 (234)
30 KOG1840 Kinesin light chain [C 95.4 0.44 9.6E-06 50.0 15.1 135 70-206 215-354 (508)
31 KOG2076 RNA polymerase III tra 95.2 1.9 4.1E-05 47.5 19.2 130 55-206 140-270 (895)
32 PF10075 PCI_Csn8: COP9 signal 95.1 0.14 3.1E-06 44.3 8.8 63 275-341 54-121 (143)
33 PF13424 TPR_12: Tetratricopep 95.0 0.13 2.8E-06 39.0 7.4 71 136-206 4-75 (78)
34 PF09976 TPR_21: Tetratricopep 95.0 1.7 3.8E-05 37.2 15.2 131 19-163 13-144 (145)
35 KOG2300 Uncharacterized conser 94.6 2.6 5.7E-05 43.6 17.3 137 57-199 9-149 (629)
36 PF09012 FeoC: FeoC like trans 94.6 0.073 1.6E-06 40.2 4.9 46 310-355 7-52 (69)
37 PRK02603 photosystem I assembl 94.0 1.1 2.4E-05 39.6 12.2 106 97-206 36-142 (172)
38 PRK11788 tetratricopeptide rep 93.8 7.7 0.00017 38.4 23.6 100 98-205 143-242 (389)
39 PF13424 TPR_12: Tetratricopep 93.7 0.32 6.9E-06 36.8 6.9 70 95-166 4-75 (78)
40 TIGR02521 type_IV_pilW type IV 93.7 0.81 1.8E-05 40.7 10.7 100 94-206 29-128 (234)
41 PF12895 Apc3: Anaphase-promot 93.6 0.36 7.8E-06 37.3 7.3 83 108-202 1-83 (84)
42 COG3063 PilF Tfp pilus assembl 93.6 1.2 2.5E-05 41.9 11.6 140 93-254 32-172 (250)
43 CHL00033 ycf3 photosystem I as 93.3 2.4 5.3E-05 37.2 13.0 109 95-207 34-143 (168)
44 TIGR02552 LcrH_SycD type III s 93.2 0.84 1.8E-05 38.1 9.4 97 97-206 18-114 (135)
45 COG2956 Predicted N-acetylgluc 92.9 4.6 0.0001 39.9 14.9 79 79-165 57-135 (389)
46 PRK11788 tetratricopeptide rep 92.8 11 0.00023 37.3 19.6 101 94-206 178-278 (389)
47 PF10345 Cohesin_load: Cohesin 92.8 3.1 6.7E-05 44.8 15.2 132 73-207 36-169 (608)
48 PF04348 LppC: LppC putative l 92.3 0.04 8.7E-07 58.3 0.0 107 93-206 21-127 (536)
49 KOG1840 Kinesin light chain [C 92.2 2.6 5.6E-05 44.3 13.3 133 74-207 261-397 (508)
50 PF12569 NARP1: NMDA receptor- 92.1 11 0.00025 39.7 17.9 123 70-205 124-256 (517)
51 PF09295 ChAPs: ChAPs (Chs5p-A 92.0 2.7 5.8E-05 42.9 12.8 129 50-201 164-292 (395)
52 PF14559 TPR_19: Tetratricopep 92.0 0.86 1.9E-05 33.3 7.1 56 107-169 2-57 (68)
53 PF13432 TPR_16: Tetratricopep 91.9 0.94 2E-05 32.9 7.1 59 101-166 2-60 (65)
54 PF09756 DDRGK: DDRGK domain; 91.9 0.38 8.2E-06 43.8 5.8 52 311-362 107-158 (188)
55 KOG2003 TPR repeat-containing 91.7 3.6 7.8E-05 42.3 12.9 137 51-208 554-691 (840)
56 PLN03218 maturation of RBCL 1; 91.6 25 0.00054 40.6 21.2 92 101-203 619-710 (1060)
57 COG2956 Predicted N-acetylgluc 91.3 3.3 7.1E-05 40.9 11.8 100 99-206 144-243 (389)
58 PF12895 Apc3: Anaphase-promot 91.1 1.1 2.4E-05 34.5 7.1 59 97-163 26-84 (84)
59 PLN03218 maturation of RBCL 1; 91.1 35 0.00075 39.5 24.6 98 99-205 545-642 (1060)
60 TIGR00540 hemY_coli hemY prote 91.0 6 0.00013 40.2 14.3 98 95-201 262-359 (409)
61 PF13414 TPR_11: TPR repeat; P 90.9 1.1 2.5E-05 32.8 6.7 64 137-206 3-67 (69)
62 TIGR03302 OM_YfiO outer membra 90.7 2.5 5.5E-05 38.9 10.5 110 90-207 27-145 (235)
63 PRK10049 pgaA outer membrane p 90.6 16 0.00035 40.5 18.2 100 95-207 358-457 (765)
64 PF03704 BTAD: Bacterial trans 90.0 1.1 2.4E-05 38.3 6.8 92 82-180 48-143 (146)
65 KOG1586 Protein required for f 89.8 13 0.00029 35.2 14.0 88 101-190 59-147 (288)
66 TIGR02917 PEP_TPR_lipo putativ 89.7 16 0.00034 39.7 17.1 98 95-205 124-221 (899)
67 PF13414 TPR_11: TPR repeat; P 89.7 0.99 2.1E-05 33.1 5.5 63 96-165 3-66 (69)
68 PF13432 TPR_16: Tetratricopep 89.5 1.7 3.7E-05 31.5 6.6 59 142-206 2-60 (65)
69 cd05804 StaR_like StaR_like; a 89.4 2 4.3E-05 42.1 9.1 100 97-205 115-214 (355)
70 PF08784 RPA_C: Replication pr 89.4 0.41 8.9E-06 38.9 3.5 38 316-353 64-101 (102)
71 TIGR00990 3a0801s09 mitochondr 89.0 6.5 0.00014 42.2 13.3 98 96-206 331-428 (615)
72 COG3107 LppC Putative lipoprot 88.7 8 0.00017 40.6 12.7 119 77-206 47-165 (604)
73 TIGR00990 3a0801s09 mitochondr 88.4 33 0.00072 36.7 18.3 98 96-206 399-496 (615)
74 PLN03088 SGT1, suppressor of 88.3 3.5 7.7E-05 41.3 10.0 93 101-206 7-99 (356)
75 KOG2003 TPR repeat-containing 88.3 4 8.7E-05 41.9 10.1 90 106-208 534-623 (840)
76 PRK15359 type III secretion sy 88.0 11 0.00025 32.2 11.9 93 101-206 29-121 (144)
77 TIGR02917 PEP_TPR_lipo putativ 88.0 33 0.00072 37.1 18.2 95 98-206 705-799 (899)
78 KOG2300 Uncharacterized conser 87.5 40 0.00087 35.3 16.9 150 77-238 346-499 (629)
79 PRK10370 formate-dependent nit 87.1 12 0.00026 34.1 12.0 97 97-206 74-173 (198)
80 TIGR03302 OM_YfiO outer membra 86.8 13 0.00027 34.2 12.3 107 97-207 71-196 (235)
81 PRK11189 lipoprotein NlpI; Pro 86.3 11 0.00024 36.5 12.0 101 93-206 61-161 (296)
82 KOG1129 TPR repeat-containing 86.1 5.8 0.00013 39.3 9.5 96 99-208 226-321 (478)
83 PF12802 MarR_2: MarR family; 86.0 3.5 7.5E-05 29.7 6.4 52 305-356 7-60 (62)
84 PRK15431 ferrous iron transpor 85.8 2.1 4.5E-05 33.3 5.2 40 312-351 11-50 (78)
85 PF04733 Coatomer_E: Coatomer 85.6 2.7 5.8E-05 41.0 7.2 142 73-246 82-225 (290)
86 PLN03081 pentatricopeptide (PP 83.5 31 0.00067 37.6 15.1 92 100-206 466-557 (697)
87 PRK11447 cellulose synthase su 83.2 6.5 0.00014 45.7 10.2 96 98-206 605-700 (1157)
88 KOG2076 RNA polymerase III tra 83.1 5.3 0.00011 44.1 8.6 101 92-204 410-510 (895)
89 PRK11447 cellulose synthase su 83.1 7.1 0.00015 45.4 10.4 102 97-205 638-739 (1157)
90 PF13412 HTH_24: Winged helix- 83.0 5.2 0.00011 27.4 5.9 34 315-348 15-48 (48)
91 KOG3785 Uncharacterized conser 83.0 16 0.00035 36.6 11.2 103 96-205 57-179 (557)
92 PRK09782 bacteriophage N4 rece 82.9 12 0.00025 42.9 11.8 94 97-207 45-138 (987)
93 PF12688 TPR_5: Tetratrico pep 82.6 16 0.00034 30.8 9.7 101 98-205 3-103 (120)
94 KOG3250 COP9 signalosome, subu 82.5 3.2 7E-05 38.4 5.8 49 314-362 106-155 (258)
95 PF13371 TPR_9: Tetratricopept 82.5 9.1 0.0002 28.1 7.6 56 145-206 3-58 (73)
96 KOG1586 Protein required for f 82.3 47 0.001 31.7 16.2 134 93-235 31-168 (288)
97 PF03399 SAC3_GANP: SAC3/GANP/ 82.2 7.5 0.00016 35.2 8.4 100 223-329 100-204 (204)
98 PF12569 NARP1: NMDA receptor- 82.1 20 0.00043 38.0 12.3 64 137-206 4-67 (517)
99 PF04733 Coatomer_E: Coatomer 81.8 21 0.00045 34.8 11.6 128 100-250 135-264 (290)
100 PF13371 TPR_9: Tetratricopept 81.8 3.6 7.8E-05 30.3 5.0 61 102-169 1-61 (73)
101 CHL00033 ycf3 photosystem I as 81.7 7.5 0.00016 34.0 7.9 90 109-206 12-101 (168)
102 KOG2002 TPR-containing nuclear 81.6 12 0.00026 41.9 10.6 100 98-206 272-371 (1018)
103 smart00550 Zalpha Z-DNA-bindin 81.6 5.2 0.00011 30.0 5.8 32 318-349 23-54 (68)
104 PRK10803 tol-pal system protei 81.4 14 0.0003 35.5 10.2 95 106-208 153-248 (263)
105 PRK14574 hmsH outer membrane p 80.4 55 0.0012 36.8 15.6 153 47-205 297-478 (822)
106 PF13429 TPR_15: Tetratricopep 80.4 13 0.00028 35.4 9.6 97 97-206 147-243 (280)
107 cd00189 TPR Tetratricopeptide 80.1 10 0.00023 27.3 7.2 62 139-206 2-63 (100)
108 PF01047 MarR: MarR family; I 79.9 6.9 0.00015 27.9 5.9 51 306-356 6-56 (59)
109 TIGR02795 tol_pal_ybgF tol-pal 79.7 6.1 0.00013 31.5 6.2 69 97-169 40-108 (119)
110 PF10300 DUF3808: Protein of u 79.3 18 0.0004 37.7 11.0 89 109-206 246-334 (468)
111 KOG3081 Vesicle coat complex C 79.1 45 0.00097 32.3 12.3 57 183-250 213-270 (299)
112 PRK10747 putative protoheme IX 78.8 78 0.0017 32.0 16.3 90 104-205 126-215 (398)
113 PF13429 TPR_15: Tetratricopep 78.3 6.8 0.00015 37.3 7.0 96 99-207 81-176 (280)
114 PRK10049 pgaA outer membrane p 78.3 16 0.00035 40.5 10.7 102 99-206 313-422 (765)
115 TIGR01764 excise DNA binding d 77.8 6.8 0.00015 26.3 5.1 47 318-372 2-48 (49)
116 PRK14574 hmsH outer membrane p 77.7 1.3E+02 0.0028 33.9 24.4 95 99-207 105-199 (822)
117 COG2976 Uncharacterized protei 77.2 22 0.00047 32.8 9.3 97 99-206 92-188 (207)
118 KOG1861 Leucine permease trans 77.0 81 0.0018 32.8 14.2 87 108-195 319-405 (540)
119 KOG3060 Uncharacterized conser 76.8 74 0.0016 30.7 13.4 97 97-206 87-183 (289)
120 PF13176 TPR_7: Tetratricopept 76.0 3 6.5E-05 26.9 2.6 23 100-122 3-25 (36)
121 PF12728 HTH_17: Helix-turn-he 75.8 8.9 0.00019 26.6 5.3 47 318-372 2-48 (51)
122 smart00344 HTH_ASNC helix_turn 75.6 8.3 0.00018 31.2 5.8 35 314-348 14-48 (108)
123 PF13545 HTH_Crp_2: Crp-like h 75.5 12 0.00026 28.0 6.4 43 316-362 27-69 (76)
124 PLN03077 Protein ECB2; Provisi 75.4 1E+02 0.0022 34.5 16.2 93 98-205 627-719 (857)
125 COG3071 HemY Uncharacterized e 75.3 43 0.00094 33.9 11.6 156 18-206 229-390 (400)
126 PF08220 HTH_DeoR: DeoR-like h 75.2 11 0.00024 27.1 5.7 47 311-361 8-54 (57)
127 PF13525 YfiO: Outer membrane 75.1 65 0.0014 29.2 12.6 110 97-208 43-172 (203)
128 TIGR03879 near_KaiC_dom probab 74.9 5.5 0.00012 30.6 4.1 38 310-347 25-62 (73)
129 TIGR00540 hemY_coli hemY prote 74.6 36 0.00077 34.6 11.4 94 101-206 89-182 (409)
130 KOG0553 TPR repeat-containing 74.5 18 0.00039 35.3 8.5 145 182-349 86-250 (304)
131 smart00419 HTH_CRP helix_turn_ 74.4 6.7 0.00015 26.4 4.3 32 317-348 8-39 (48)
132 cd00090 HTH_ARSR Arsenical Res 74.4 23 0.0005 25.5 7.7 44 318-361 21-64 (78)
133 PRK10866 outer membrane biogen 74.4 76 0.0016 29.9 12.8 107 97-208 70-206 (243)
134 KOG3054 Uncharacterized conser 74.3 11 0.00025 35.4 6.8 52 311-362 208-259 (299)
135 TIGR02337 HpaR homoprotocatech 74.2 40 0.00087 27.6 9.8 50 307-356 32-81 (118)
136 PRK15174 Vi polysaccharide exp 74.1 39 0.00084 36.8 12.1 96 97-206 111-206 (656)
137 KOG1585 Protein required for f 74.1 86 0.0019 30.1 12.8 26 179-204 152-177 (308)
138 smart00347 HTH_MARR helix_turn 73.6 40 0.00086 26.1 9.6 41 316-356 23-63 (101)
139 PF00325 Crp: Bacterial regula 72.8 7.9 0.00017 24.8 3.8 30 318-347 3-32 (32)
140 PF02259 FAT: FAT domain; Int 72.5 96 0.0021 30.0 16.6 112 92-206 142-287 (352)
141 cd00092 HTH_CRP helix_turn_hel 72.4 7.1 0.00015 28.3 4.3 34 316-349 24-57 (67)
142 KOG1585 Protein required for f 72.2 96 0.0021 29.8 14.8 103 100-205 55-158 (308)
143 PF09295 ChAPs: ChAPs (Chs5p-A 71.7 75 0.0016 32.5 12.7 95 96-206 169-263 (395)
144 PRK10803 tol-pal system protei 71.0 16 0.00036 35.0 7.5 69 97-169 181-249 (263)
145 PF14559 TPR_19: Tetratricopep 70.9 12 0.00026 27.0 5.2 53 148-206 2-54 (68)
146 KOG3060 Uncharacterized conser 70.6 94 0.002 29.9 12.1 67 97-167 155-221 (289)
147 COG3629 DnrI DNA-binding trans 70.6 23 0.0005 34.4 8.3 80 82-168 139-218 (280)
148 TIGR03504 FimV_Cterm FimV C-te 70.5 4.4 9.5E-05 27.9 2.5 26 99-124 2-27 (44)
149 COG3118 Thioredoxin domain-con 70.0 1.1E+02 0.0025 29.9 15.2 123 96-240 168-291 (304)
150 PF13174 TPR_6: Tetratricopept 70.0 5.7 0.00012 24.2 2.8 27 99-125 3-29 (33)
151 KOG1070 rRNA processing protei 69.7 81 0.0018 37.2 13.3 148 25-180 1448-1607(1710)
152 PF04545 Sigma70_r4: Sigma-70, 69.6 17 0.00037 25.0 5.5 30 314-343 17-46 (50)
153 PRK10747 putative protoheme IX 69.4 1.3E+02 0.0029 30.3 20.9 107 97-206 188-357 (398)
154 PRK15174 Vi polysaccharide exp 69.4 1.8E+02 0.0038 31.7 21.3 98 96-206 284-381 (656)
155 PRK11179 DNA-binding transcrip 69.0 15 0.00033 32.0 6.3 38 316-353 22-62 (153)
156 TIGR02552 LcrH_SycD type III s 69.0 63 0.0014 26.4 10.1 64 137-206 17-80 (135)
157 PRK11169 leucine-responsive tr 68.7 14 0.00031 32.5 6.1 42 308-349 19-60 (164)
158 PLN03088 SGT1, suppressor of 68.5 28 0.0006 34.9 8.8 83 97-188 37-119 (356)
159 PRK14720 transcript cleavage f 68.1 26 0.00057 39.5 9.2 108 90-206 25-145 (906)
160 PF13428 TPR_14: Tetratricopep 67.7 7.3 0.00016 26.1 3.2 27 98-124 3-29 (44)
161 KOG1155 Anaphase-promoting com 67.6 47 0.001 34.5 10.1 102 95-205 431-535 (559)
162 PF02082 Rrf2: Transcriptional 67.5 32 0.00069 26.5 7.2 46 318-363 26-71 (83)
163 COG5010 TadD Flp pilus assembl 67.5 38 0.00083 32.4 8.9 98 97-208 68-165 (257)
164 PF13525 YfiO: Outer membrane 66.9 1E+02 0.0022 28.0 13.2 107 97-208 6-121 (203)
165 PF04703 FaeA: FaeA-like prote 66.4 14 0.00029 27.5 4.5 34 315-348 13-46 (62)
166 smart00418 HTH_ARSR helix_turn 66.0 20 0.00042 25.1 5.4 47 315-361 8-54 (66)
167 PF13181 TPR_8: Tetratricopept 66.0 10 0.00022 23.4 3.4 26 97-122 2-27 (34)
168 PF13512 TPR_18: Tetratricopep 64.8 66 0.0014 28.0 9.2 64 101-168 15-78 (142)
169 PF10345 Cohesin_load: Cohesin 64.2 2.1E+02 0.0046 30.8 22.0 128 72-204 78-206 (608)
170 cd05804 StaR_like StaR_like; a 64.1 47 0.001 32.3 9.5 65 97-164 149-213 (355)
171 TIGR01610 phage_O_Nterm phage 63.7 34 0.00073 27.4 6.8 46 314-361 44-89 (95)
172 PF07064 RIC1: RIC1; InterPro 63.1 1.1E+02 0.0023 29.4 11.2 129 35-166 116-249 (258)
173 PF13181 TPR_8: Tetratricopept 62.9 15 0.00032 22.6 3.7 28 138-165 2-29 (34)
174 smart00420 HTH_DEOR helix_turn 62.9 34 0.00073 23.1 6.0 34 316-349 13-46 (53)
175 KOG1497 COP9 signalosome, subu 62.9 1.7E+02 0.0037 29.2 14.2 145 16-161 39-208 (399)
176 PF09986 DUF2225: Uncharacteri 61.9 29 0.00062 32.3 7.0 73 132-206 113-194 (214)
177 PF07719 TPR_2: Tetratricopept 61.5 15 0.00032 22.4 3.6 27 97-123 2-28 (34)
178 KOG0543 FKBP-type peptidyl-pro 61.4 51 0.0011 33.5 9.0 104 97-206 209-320 (397)
179 PF07721 TPR_4: Tetratricopept 61.4 13 0.00029 22.0 3.1 24 97-120 2-25 (26)
180 smart00345 HTH_GNTR helix_turn 61.0 21 0.00046 24.9 4.8 32 317-348 19-51 (60)
181 KOG1125 TPR repeat-containing 60.9 1.6E+02 0.0035 31.4 12.7 157 70-251 407-567 (579)
182 PRK02603 photosystem I assembl 60.8 45 0.00097 29.2 7.8 71 133-206 31-101 (172)
183 PRK12370 invasion protein regu 60.7 63 0.0014 34.3 10.2 96 97-205 339-434 (553)
184 PF13404 HTH_AsnC-type: AsnC-t 60.5 24 0.00052 23.8 4.6 26 316-341 16-41 (42)
185 COG1497 Predicted transcriptio 59.6 68 0.0015 30.4 8.8 63 316-381 24-87 (260)
186 TIGR02010 IscR iron-sulfur clu 59.5 22 0.00048 30.2 5.4 45 317-361 25-69 (135)
187 COG1729 Uncharacterized protei 59.2 21 0.00045 34.3 5.6 102 99-208 144-246 (262)
188 PF06163 DUF977: Bacterial pro 59.1 1E+02 0.0022 26.3 8.9 61 312-377 21-81 (127)
189 KOG4414 COP9 signalosome, subu 58.5 20 0.00043 31.3 4.8 40 299-338 114-153 (197)
190 TIGR02944 suf_reg_Xantho FeS a 58.4 17 0.00037 30.6 4.5 41 316-356 24-64 (130)
191 KOG2034 Vacuolar sorting prote 57.6 61 0.0013 36.2 9.3 56 143-207 364-419 (911)
192 PF13374 TPR_10: Tetratricopep 57.3 17 0.00038 23.1 3.5 28 96-123 2-29 (42)
193 PF07719 TPR_2: Tetratricopept 57.1 21 0.00046 21.7 3.8 29 178-206 2-30 (34)
194 PF13428 TPR_14: Tetratricopep 56.7 28 0.00061 23.2 4.5 32 138-169 2-33 (44)
195 PRK13777 transcriptional regul 56.4 1.3E+02 0.0028 27.3 10.1 53 305-357 47-99 (185)
196 PRK09782 bacteriophage N4 rece 56.1 66 0.0014 37.0 9.8 26 181-206 681-706 (987)
197 TIGR00738 rrf2_super rrf2 fami 56.1 21 0.00046 29.9 4.7 42 317-358 25-66 (132)
198 PRK04841 transcriptional regul 56.0 84 0.0018 35.1 10.7 107 99-206 494-602 (903)
199 PF09339 HTH_IclR: IclR helix- 56.0 22 0.00048 24.8 4.0 34 315-348 16-49 (52)
200 COG1522 Lrp Transcriptional re 55.4 29 0.00062 29.7 5.5 38 316-353 21-61 (154)
201 PRK11512 DNA-binding transcrip 54.9 1E+02 0.0023 26.1 8.9 43 315-357 52-94 (144)
202 COG2976 Uncharacterized protei 54.6 79 0.0017 29.2 8.2 63 97-167 127-189 (207)
203 PRK12370 invasion protein regu 54.4 79 0.0017 33.5 9.7 97 97-205 373-469 (553)
204 KOG1941 Acetylcholine receptor 54.1 1.8E+02 0.0039 29.6 11.2 111 97-207 163-276 (518)
205 PF08311 Mad3_BUB1_I: Mad3/BUB 53.9 94 0.002 26.2 8.3 103 18-120 5-123 (126)
206 PF01325 Fe_dep_repress: Iron 53.9 52 0.0011 24.0 5.8 34 315-348 20-53 (60)
207 KOG1156 N-terminal acetyltrans 53.5 3.3E+02 0.0072 29.6 15.0 100 101-207 148-249 (700)
208 PF01022 HTH_5: Bacterial regu 52.8 35 0.00077 23.2 4.6 33 316-348 14-46 (47)
209 PRK03573 transcriptional regul 52.8 1.2E+02 0.0026 25.6 9.0 42 316-357 45-86 (144)
210 PRK09954 putative kinase; Prov 52.4 51 0.0011 32.7 7.5 54 308-361 8-64 (362)
211 PF09613 HrpB1_HrpK: Bacterial 52.3 1E+02 0.0022 27.5 8.3 65 54-125 6-73 (160)
212 KOG1128 Uncharacterized conser 51.6 49 0.0011 36.1 7.3 202 35-242 323-556 (777)
213 cd07377 WHTH_GntR Winged helix 51.5 46 0.00099 23.6 5.3 30 319-348 27-56 (66)
214 PRK10857 DNA-binding transcrip 51.4 29 0.00062 30.9 4.9 46 316-361 24-69 (164)
215 KOG1155 Anaphase-promoting com 51.2 70 0.0015 33.3 8.1 68 97-166 467-536 (559)
216 PF12755 Vac14_Fab1_bd: Vacuol 49.4 57 0.0012 26.3 5.9 53 156-208 21-74 (97)
217 PF08625 Utp13: Utp13 specific 49.3 1.3E+02 0.0028 26.0 8.5 101 20-126 12-116 (141)
218 PF04967 HTH_10: HTH DNA bindi 49.1 30 0.00065 24.8 3.7 27 316-342 22-48 (53)
219 PF04190 DUF410: Protein of un 49.0 2.4E+02 0.0053 26.8 13.9 124 35-162 30-166 (260)
220 PRK15359 type III secretion sy 49.0 1.7E+02 0.0036 24.9 9.5 59 142-206 29-87 (144)
221 PF12840 HTH_20: Helix-turn-he 48.4 62 0.0013 23.3 5.5 36 314-349 21-56 (61)
222 KOG1173 Anaphase-promoting com 48.0 1E+02 0.0022 32.9 8.8 101 98-206 416-518 (611)
223 COG1959 Predicted transcriptio 47.2 60 0.0013 28.3 6.2 44 317-360 25-68 (150)
224 PF01978 TrmB: Sugar-specific 47.1 53 0.0011 24.1 5.1 38 315-352 20-57 (68)
225 PLN03081 pentatricopeptide (PP 47.0 4.1E+02 0.0089 28.9 23.1 54 143-205 366-419 (697)
226 PF09743 DUF2042: Uncharacteri 46.8 60 0.0013 31.4 6.7 39 316-354 129-167 (272)
227 PRK15363 pathogenicity island 46.6 1.5E+02 0.0032 26.2 8.5 94 100-206 39-132 (157)
228 PF09670 Cas_Cas02710: CRISPR- 46.5 1.6E+02 0.0035 29.7 10.1 61 99-164 134-196 (379)
229 PRK11189 lipoprotein NlpI; Pro 46.4 1.2E+02 0.0026 29.2 8.9 71 130-206 57-127 (296)
230 PF13463 HTH_27: Winged helix 46.3 68 0.0015 23.1 5.6 43 314-356 15-57 (68)
231 COG3063 PilF Tfp pilus assembl 46.3 2.7E+02 0.0058 26.5 13.4 172 12-205 29-200 (250)
232 PF08279 HTH_11: HTH domain; 44.7 1E+02 0.0023 21.3 6.3 28 318-345 16-43 (55)
233 PRK11014 transcriptional repre 44.0 91 0.002 26.6 6.8 48 316-363 24-71 (141)
234 KOG2047 mRNA splicing factor [ 43.5 3E+02 0.0065 30.1 11.5 102 99-207 172-278 (835)
235 PF00515 TPR_1: Tetratricopept 43.1 50 0.0011 20.2 3.8 26 180-205 4-29 (34)
236 PLN03077 Protein ECB2; Provisi 43.0 5.2E+02 0.011 28.9 24.2 55 98-162 325-379 (857)
237 KOG2796 Uncharacterized conser 43.0 1.5E+02 0.0033 28.8 8.4 104 97-206 178-281 (366)
238 PRK11920 rirA iron-responsive 42.5 1E+02 0.0022 27.0 6.9 43 316-358 23-65 (153)
239 cd04762 HTH_MerR-trunc Helix-T 42.3 64 0.0014 21.1 4.6 39 319-362 2-40 (49)
240 PF03081 Exo70: Exo70 exocyst 42.2 41 0.00088 33.5 4.9 62 279-341 305-371 (371)
241 PF05584 Sulfolobus_pRN: Sulfo 42.1 1E+02 0.0022 23.6 5.8 41 307-349 10-50 (72)
242 KOG2376 Signal recognition par 42.1 3.6E+02 0.0079 29.1 11.8 108 98-206 112-253 (652)
243 PF08281 Sigma70_r4_2: Sigma-7 41.9 57 0.0012 22.6 4.3 29 314-342 23-51 (54)
244 KOG0548 Molecular co-chaperone 41.5 4.6E+02 0.01 27.8 13.6 130 103-256 365-494 (539)
245 smart00346 HTH_ICLR helix_turn 40.9 1.6E+02 0.0035 22.4 7.7 34 316-349 19-52 (91)
246 PF12862 Apc5: Anaphase-promot 40.6 1.2E+02 0.0027 23.7 6.6 67 108-175 10-79 (94)
247 PF07328 VirD1: T-DNA border e 40.6 78 0.0017 27.1 5.5 65 319-395 39-104 (147)
248 PF09613 HrpB1_HrpK: Bacterial 40.1 2.7E+02 0.0058 24.7 9.5 67 134-206 7-73 (160)
249 PF12854 PPR_1: PPR repeat 40.1 31 0.00066 21.9 2.4 24 100-123 11-34 (34)
250 PRK13509 transcriptional repre 40.1 69 0.0015 30.4 5.9 43 307-349 9-51 (251)
251 KOG4162 Predicted calmodulin-b 39.9 4.7E+02 0.01 29.1 12.5 112 137-269 650-766 (799)
252 PRK04217 hypothetical protein; 39.9 1E+02 0.0022 25.6 6.1 44 314-357 55-105 (110)
253 PF08631 SPO22: Meiosis protei 39.8 3.4E+02 0.0074 25.9 14.2 127 74-205 9-149 (278)
254 PRK10411 DNA-binding transcrip 39.8 70 0.0015 30.1 5.9 42 307-348 8-49 (240)
255 PRK04841 transcriptional regul 39.7 5.8E+02 0.012 28.5 19.0 109 96-206 452-560 (903)
256 TIGR02561 HrpB1_HrpK type III 39.5 1.9E+02 0.0041 25.5 7.9 66 135-206 8-73 (153)
257 KOG1941 Acetylcholine receptor 39.1 1.1E+02 0.0023 31.1 7.1 104 100-206 87-191 (518)
258 COG3355 Predicted transcriptio 38.9 2.5E+02 0.0053 24.0 9.1 67 316-382 41-119 (126)
259 TIGR02702 SufR_cyano iron-sulf 38.7 2.8E+02 0.0061 25.1 9.6 36 315-350 13-48 (203)
260 smart00299 CLH Clathrin heavy 38.6 1.3E+02 0.0029 25.0 7.0 44 22-68 11-54 (140)
261 PF13613 HTH_Tnp_4: Helix-turn 38.1 70 0.0015 22.4 4.3 38 305-342 7-44 (53)
262 PF14947 HTH_45: Winged helix- 37.8 1.2E+02 0.0026 23.0 5.9 52 315-370 17-69 (77)
263 PF12793 SgrR_N: Sugar transpo 37.8 50 0.0011 27.5 4.0 47 316-362 18-67 (115)
264 PRK10866 outer membrane biogen 37.6 3.5E+02 0.0076 25.4 12.7 67 99-169 35-101 (243)
265 PRK10370 formate-dependent nit 37.6 3.1E+02 0.0066 24.8 9.6 85 109-206 52-139 (198)
266 PF12964 DUF3853: Protein of u 37.4 24 0.00052 28.5 1.9 40 319-362 47-86 (96)
267 KOG2796 Uncharacterized conser 36.9 2E+02 0.0044 28.0 8.3 106 93-206 209-315 (366)
268 KOG1156 N-terminal acetyltrans 36.6 2.2E+02 0.0049 30.9 9.3 64 136-205 370-433 (700)
269 PHA02943 hypothetical protein; 36.3 3.1E+02 0.0067 24.3 8.7 66 315-385 22-87 (165)
270 PRK10434 srlR DNA-bindng trans 36.2 76 0.0016 30.2 5.5 42 306-347 8-49 (256)
271 PF10078 DUF2316: Uncharacteri 36.2 42 0.0009 26.8 3.1 24 316-339 22-45 (89)
272 COG4235 Cytochrome c biogenesi 36.2 4E+02 0.0088 26.0 10.4 104 90-206 137-256 (287)
273 PF13730 HTH_36: Helix-turn-he 36.1 58 0.0013 22.6 3.6 29 319-347 27-55 (55)
274 PRK15331 chaperone protein Sic 36.1 2.2E+02 0.0047 25.5 7.9 94 100-206 41-134 (165)
275 PF04492 Phage_rep_O: Bacterio 36.0 54 0.0012 26.7 3.8 35 313-347 50-84 (100)
276 PF11817 Foie-gras_1: Foie gra 35.9 2.6E+02 0.0056 26.3 9.1 79 73-155 157-236 (247)
277 smart00028 TPR Tetratricopepti 35.5 79 0.0017 17.3 4.2 27 179-205 3-29 (34)
278 KOG4626 O-linked N-acetylgluco 35.5 6.4E+02 0.014 27.7 14.2 116 74-206 302-417 (966)
279 PF00392 GntR: Bacterial regul 35.1 73 0.0016 23.1 4.2 34 316-349 22-56 (64)
280 PF12324 HTH_15: Helix-turn-he 35.1 46 0.001 25.8 3.1 27 316-342 37-63 (77)
281 KOG2002 TPR-containing nuclear 35.0 7.4E+02 0.016 28.4 14.9 109 93-206 411-525 (1018)
282 cd06170 LuxR_C_like C-terminal 34.2 78 0.0017 21.5 4.1 29 314-342 12-40 (57)
283 PF03704 BTAD: Bacterial trans 34.1 2.8E+02 0.006 23.1 9.0 65 137-207 62-126 (146)
284 smart00421 HTH_LUXR helix_turn 33.9 1.2E+02 0.0025 20.4 5.0 29 314-342 15-43 (58)
285 KOG2047 mRNA splicing factor [ 33.9 2E+02 0.0043 31.4 8.4 91 70-165 363-453 (835)
286 COG3071 HemY Uncharacterized e 33.2 5.4E+02 0.012 26.3 12.5 94 58-167 298-391 (400)
287 PF14561 TPR_20: Tetratricopep 32.9 1.4E+02 0.0031 23.5 5.8 30 97-126 23-52 (90)
288 PRK13918 CRP/FNR family transc 32.8 1.2E+02 0.0027 26.8 6.2 50 316-370 148-197 (202)
289 PRK10153 DNA-binding transcrip 32.6 1.3E+02 0.0029 31.8 7.1 61 139-206 422-482 (517)
290 PRK10046 dpiA two-component re 32.4 96 0.0021 28.3 5.5 44 310-353 170-213 (225)
291 PF02002 TFIIE_alpha: TFIIE al 32.3 1.4E+02 0.003 24.0 5.8 35 316-350 26-60 (105)
292 PF01984 dsDNA_bind: Double-st 32.2 25 0.00053 29.1 1.2 22 331-352 61-82 (107)
293 PRK11050 manganese transport r 31.6 3.4E+02 0.0074 23.4 9.5 35 316-350 50-84 (152)
294 PF01726 LexA_DNA_bind: LexA D 31.5 92 0.002 23.1 4.2 32 317-348 25-57 (65)
295 PRK06266 transcription initiat 31.5 3.9E+02 0.0084 24.0 9.3 47 316-362 35-83 (178)
296 KOG0495 HAT repeat protein [RN 31.4 5.3E+02 0.011 28.5 11.0 110 97-206 686-846 (913)
297 TIGR00373 conserved hypothetic 31.2 3.6E+02 0.0079 23.6 10.8 47 316-362 27-75 (158)
298 PRK15179 Vi polysaccharide bio 31.2 3.3E+02 0.0071 30.1 10.0 98 94-204 84-181 (694)
299 KOG4521 Nuclear pore complex, 31.1 5.3E+02 0.011 30.3 11.4 147 71-235 1000-1160(1480)
300 PF04760 IF2_N: Translation in 31.0 45 0.00098 23.5 2.3 25 316-340 2-26 (54)
301 KOG2471 TPR repeat-containing 30.1 90 0.002 32.8 5.1 144 103-258 247-430 (696)
302 PRK14165 winged helix-turn-hel 29.9 2.8E+02 0.006 25.9 8.0 48 315-362 19-66 (217)
303 COG4367 Uncharacterized protei 29.8 65 0.0014 25.6 3.1 25 315-339 21-45 (97)
304 PRK04778 septation ring format 29.8 6.6E+02 0.014 26.8 12.0 100 80-180 460-562 (569)
305 PF08679 DsrD: Dissimilatory s 29.5 79 0.0017 23.8 3.4 34 315-348 17-51 (67)
306 KOG3677 RNA polymerase I-assoc 29.2 6.1E+02 0.013 26.3 10.6 228 129-361 225-484 (525)
307 PF13542 HTH_Tnp_ISL3: Helix-t 29.2 93 0.002 21.3 3.7 27 315-341 25-51 (52)
308 COG5010 TadD Flp pilus assembl 29.0 3.6E+02 0.0077 25.9 8.6 92 102-206 106-197 (257)
309 PF06971 Put_DNA-bind_N: Putat 28.8 69 0.0015 22.6 2.9 25 315-339 26-50 (50)
310 KOG1538 Uncharacterized conser 28.8 2.1E+02 0.0044 31.4 7.5 28 308-335 961-990 (1081)
311 COG4783 Putative Zn-dependent 28.7 4.6E+02 0.0099 27.5 9.8 103 99-221 309-411 (484)
312 PF09986 DUF2225: Uncharacteri 28.6 4.7E+02 0.01 24.1 9.6 76 94-169 116-197 (214)
313 TIGR01884 cas_HTH CRISPR locus 28.5 1.9E+02 0.0042 26.2 6.7 37 316-352 156-192 (203)
314 PRK04424 fatty acid biosynthes 28.4 83 0.0018 28.4 4.2 43 305-347 9-51 (185)
315 PF13518 HTH_28: Helix-turn-he 28.2 1E+02 0.0022 20.9 3.8 38 315-353 10-47 (52)
316 PF08672 APC2: Anaphase promot 28.0 65 0.0014 23.6 2.8 24 327-350 31-54 (60)
317 TIGR03697 NtcA_cyano global ni 27.9 87 0.0019 27.5 4.2 33 317-349 143-175 (193)
318 PRK10870 transcriptional repre 27.4 4.4E+02 0.0095 23.4 12.9 42 316-357 70-111 (176)
319 PF13431 TPR_17: Tetratricopep 27.4 60 0.0013 20.5 2.2 21 96-116 13-33 (34)
320 COG3413 Predicted DNA binding 27.1 74 0.0016 29.3 3.7 27 316-342 177-203 (215)
321 PF04539 Sigma70_r3: Sigma-70 26.8 79 0.0017 23.7 3.2 25 316-340 19-43 (78)
322 TIGR02561 HrpB1_HrpK type III 26.7 4.5E+02 0.0097 23.2 10.0 64 54-125 6-73 (153)
323 TIGR03826 YvyF flagellar opero 26.5 1.2E+02 0.0025 26.3 4.5 33 317-353 46-78 (137)
324 PRK11753 DNA-binding transcrip 26.4 95 0.0021 27.8 4.3 32 317-348 168-199 (211)
325 PF01535 PPR: PPR repeat; Int 26.2 67 0.0015 18.7 2.3 24 101-124 5-28 (31)
326 PF13934 ELYS: Nuclear pore co 25.8 5.4E+02 0.012 23.9 11.9 115 34-169 26-140 (226)
327 COG5481 Uncharacterized conser 25.5 1.1E+02 0.0024 22.4 3.5 26 96-121 7-32 (67)
328 PRK09334 30S ribosomal protein 25.5 3.4E+02 0.0075 21.5 7.0 45 315-360 39-83 (86)
329 KOG2376 Signal recognition par 25.4 4.2E+02 0.0092 28.6 9.1 108 97-206 377-487 (652)
330 PF09202 Rio2_N: Rio2, N-termi 25.4 1.5E+02 0.0032 23.2 4.5 49 313-361 20-69 (82)
331 TIGR03362 VI_chp_7 type VI sec 25.3 3.4E+02 0.0074 26.6 8.1 61 103-168 220-281 (301)
332 PF04184 ST7: ST7 protein; In 25.3 2E+02 0.0043 30.4 6.6 64 96-164 259-322 (539)
333 KOG3470 Beta-tubulin folding c 25.2 1.3E+02 0.0028 24.7 4.2 52 72-123 51-104 (107)
334 COG1349 GlpR Transcriptional r 25.1 1.4E+02 0.0031 28.3 5.3 42 308-349 10-51 (253)
335 cd04761 HTH_MerR-SF Helix-Turn 25.0 1.2E+02 0.0025 20.2 3.6 39 319-362 2-40 (49)
336 KOG4318 Bicoid mRNA stability 24.9 1.1E+03 0.023 27.1 12.2 94 102-205 713-806 (1088)
337 KOG3650 Predicted coiled-coil 24.8 97 0.0021 25.1 3.4 44 23-66 60-104 (120)
338 PRK10906 DNA-binding transcrip 24.5 1.6E+02 0.0035 27.9 5.6 41 308-348 10-50 (252)
339 PF14493 HTH_40: Helix-turn-he 23.7 1.1E+02 0.0024 24.0 3.6 31 316-346 12-42 (91)
340 KOG3616 Selective LIM binding 23.5 1.2E+02 0.0025 33.7 4.6 83 74-165 1022-1107(1636)
341 COG1846 MarR Transcriptional r 23.5 2.8E+02 0.0061 21.8 6.3 37 321-357 40-76 (126)
342 PRK11161 fumarate/nitrate redu 23.4 1.1E+02 0.0024 28.0 4.2 32 317-348 184-215 (235)
343 KOG1129 TPR repeat-containing 23.3 2.1E+02 0.0046 28.8 6.0 59 100-165 260-318 (478)
344 TIGR01889 Staph_reg_Sar staphy 23.2 4E+02 0.0086 21.4 9.2 42 316-357 42-83 (109)
345 PF11207 DUF2989: Protein of u 23.1 6E+02 0.013 23.5 9.9 74 35-116 124-198 (203)
346 KOG1126 DNA-binding cell divis 23.1 7.7E+02 0.017 26.8 10.6 106 94-206 315-450 (638)
347 cd02681 MIT_calpain7_1 MIT: do 23.1 1.7E+02 0.0037 22.5 4.4 32 176-207 5-36 (76)
348 PF13601 HTH_34: Winged helix 23.1 3.5E+02 0.0076 20.7 8.9 42 315-356 12-53 (80)
349 PRK10681 DNA-binding transcrip 23.0 1.5E+02 0.0033 28.0 5.1 41 305-345 9-49 (252)
350 KOG0543 FKBP-type peptidyl-pro 22.8 8.4E+02 0.018 25.0 11.1 97 97-205 258-354 (397)
351 COG1747 Uncharacterized N-term 22.8 9.7E+02 0.021 25.7 15.0 101 20-123 101-232 (711)
352 smart00529 HTH_DTXR Helix-turn 22.6 3.6E+02 0.0078 20.7 7.7 33 320-352 2-34 (96)
353 PHA02591 hypothetical protein; 22.6 95 0.0021 24.2 2.8 25 316-340 58-82 (83)
354 KOG3616 Selective LIM binding 22.5 1.4E+02 0.0031 33.1 5.0 66 137-202 765-849 (1636)
355 PF11873 DUF3393: Domain of un 22.2 44 0.00095 30.9 1.2 67 222-290 110-177 (204)
356 PF10602 RPN7: 26S proteasome 22.0 5.6E+02 0.012 22.7 13.3 73 131-206 30-102 (177)
357 KOG1538 Uncharacterized conser 21.9 1.1E+03 0.024 26.1 13.4 133 54-205 670-832 (1081)
358 PF05331 DUF742: Protein of un 21.8 1.3E+02 0.0029 25.1 3.8 36 316-351 54-89 (114)
359 PF04079 DUF387: Putative tran 21.7 1.3E+02 0.0029 26.5 4.1 38 303-344 2-39 (159)
360 PF00440 TetR_N: Bacterial reg 21.5 2.2E+02 0.0047 19.1 4.3 22 313-334 12-33 (47)
361 PRK09642 RNA polymerase sigma 21.5 1.6E+02 0.0035 25.1 4.6 29 314-342 119-147 (160)
362 PF07079 DUF1347: Protein of u 21.4 9.7E+02 0.021 25.2 17.9 66 132-205 458-523 (549)
363 PF13411 MerR_1: MerR HTH fami 21.4 1.9E+02 0.0042 20.8 4.4 39 319-362 2-40 (69)
364 COG4190 Predicted transcriptio 21.3 3.8E+02 0.0083 23.1 6.4 34 316-349 77-110 (144)
365 PF08221 HTH_9: RNA polymerase 21.2 1.6E+02 0.0035 21.5 3.8 34 315-348 25-58 (62)
366 KOG0624 dsRNA-activated protei 21.1 8.9E+02 0.019 24.7 12.6 66 99-164 226-296 (504)
367 PF01638 HxlR: HxlR-like helix 21.1 3.9E+02 0.0084 20.7 6.3 46 316-361 17-64 (90)
368 PRK10402 DNA-binding transcrip 21.0 3E+02 0.0066 25.1 6.6 49 318-371 170-218 (226)
369 COG2345 Predicted transcriptio 21.0 1.7E+02 0.0037 27.4 4.8 37 315-351 23-59 (218)
370 KOG0553 TPR repeat-containing 20.9 5.4E+02 0.012 25.3 8.3 89 105-206 90-178 (304)
371 smart00777 Mad3_BUB1_I Mad3/BU 20.9 5.2E+02 0.011 21.9 11.4 101 19-120 6-123 (125)
372 PRK12798 chemotaxis protein; R 20.9 1.9E+02 0.0041 29.7 5.4 69 130-200 250-318 (421)
373 COG1747 Uncharacterized N-term 20.8 4.8E+02 0.01 27.9 8.2 105 93-204 165-286 (711)
374 PRK12533 RNA polymerase sigma 20.7 1.5E+02 0.0032 27.4 4.4 29 313-341 146-174 (216)
375 PRK06759 RNA polymerase factor 20.6 1.6E+02 0.0034 24.8 4.3 29 314-342 119-147 (154)
376 PF13591 MerR_2: MerR HTH fami 20.6 3.3E+02 0.0072 21.1 5.7 39 318-362 1-39 (84)
377 PRK12537 RNA polymerase sigma 20.6 1.8E+02 0.0038 25.6 4.8 30 313-342 145-174 (182)
378 PRK09802 DNA-binding transcrip 20.5 2.2E+02 0.0047 27.3 5.6 40 309-348 23-62 (269)
379 PF08847 DUF1817: Domain of un 20.5 1.1E+02 0.0024 26.8 3.1 56 275-332 78-143 (150)
380 PRK12529 RNA polymerase sigma 20.3 2E+02 0.0043 25.3 5.0 29 314-342 140-168 (178)
381 PRK04239 hypothetical protein; 20.3 61 0.0013 27.0 1.5 22 331-352 66-87 (110)
382 cd06171 Sigma70_r4 Sigma70, re 20.3 2.2E+02 0.0048 18.4 4.3 27 316-342 25-51 (55)
383 TIGR02943 Sig70_famx1 RNA poly 20.3 1.8E+02 0.0039 25.9 4.7 30 313-342 143-172 (188)
384 PF14394 DUF4423: Domain of un 20.2 5.7E+02 0.012 22.7 7.9 31 319-349 41-73 (171)
No 1
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-83 Score=601.16 Aligned_cols=384 Identities=57% Similarity=0.886 Sum_probs=369.7
Q ss_pred HHHhhhhcchhhHhHHHHHHHHHHhhcCCC---HHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHH
Q 015984 4 ALASASAITDQRQKIEQYKHILSSVISSND---IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYT 80 (397)
Q Consensus 4 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~ 80 (397)
.+.-+-..+|||++.++|+.+|+..++++. .+.++.|++++++++|++|+|||+++.|...|+.+|++++|++.+++
T Consensus 8 ev~~~~~~g~hk~~~~qyr~~l~~~lt~~~~el~e~~k~~id~~~~~~vslvvsrqllsl~~~~l~~l~~e~~Kei~~~~ 87 (399)
T KOG1497|consen 8 EVVLIFAEGDHKDQAEQYRQLLAKVLTNNGMELLEALKRFIDAIVNENVSLVVSRQLLSLFDVELSILEDELRKEISHFT 87 (399)
T ss_pred HHHHHHhcCchhhHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence 344556678999999999999999998873 58899999999999999999999999999999999999999999999
Q ss_pred HHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHH
Q 015984 81 LAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFI 160 (397)
Q Consensus 81 l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l 160 (397)
++.++||.+|||+|++.+|.+||.+||++++|+.||.+|.+|+.+||++..+.+.|+..|+++.|+||+.+|.+.|+.++
T Consensus 88 l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~i 167 (399)
T KOG1497|consen 88 LEKIQPRVISFEEQVASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYI 167 (399)
T ss_pred HHhcccccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCc
Q 015984 161 NKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQ 240 (397)
Q Consensus 161 ~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~ 240 (397)
||++-......++++++.|++|+||++|.+|+|.|||++||+++++ ..+++.++.++|+.++.|++||.+||+
T Consensus 168 nRaSil~a~~~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~-------ki~~e~~~~~aL~~a~~CtlLA~~gpq 240 (399)
T KOG1497|consen 168 NRASILQAESSNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQR-------KIVDESERLEALKKALQCTLLASAGPQ 240 (399)
T ss_pred HHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhcchHHHHHHHHHhHhheeecCCChH
Confidence 9999988777899999999999999999999999999999999995 457899999999999999999999999
Q ss_pred chHHHHhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCchhhHHHHHHHHHHHHHHhhccccCH
Q 015984 241 RSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNISF 320 (397)
Q Consensus 241 rs~ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~~~L~~~v~EhNl~~is~~Y~~Isl 320 (397)
|+|+|+.+++|+||+++|.|..+.|||++++|+.+++++|++.|.|||++-+.||.++|.++++||||+.+|++|.||||
T Consensus 241 rsr~Latlfkder~~~l~~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgssil~ra~~EhNlls~Skly~nisf 320 (399)
T KOG1497|consen 241 RSRMLATLFKDERCQKLPAYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSSILDRAVIEHNLLSASKLYNNISF 320 (399)
T ss_pred HHHHHHHHhcCcccccccchHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcchhhhhHHHHHhHHHHHHHHHhccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 015984 321 EELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDILDSMAKKGLPI 395 (397)
Q Consensus 321 ~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~~I~~l~~~v~~v~~~i~~~~~~~ 395 (397)
+.||.+|++|++++|+++++||.+||++|.|||.+|+|+|++ .+.+..||.+|.++|..||++.+.|.+.|+.|
T Consensus 321 ~~Lg~ll~i~~ekaekiaa~MI~qeRmng~IDQ~egiihFe~-~e~l~~wdkqi~sl~~qvNki~~~i~~~~s~~ 394 (399)
T KOG1497|consen 321 EELGALLKIDAEKAEKIAAQMITQERMNGSIDQIEGIIHFED-REELPQWDKQIQSLCNQVNKILDKISHYGSEW 394 (399)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHhHHHhccchHhhcceEeecc-hhhhhhhhHHHHHHHHHHHHHHHHHHHhCcch
Confidence 999999999999999999999999999999999999999997 47899999999999999999999999998654
No 2
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.7e-56 Score=430.40 Aligned_cols=366 Identities=20% Similarity=0.264 Sum_probs=322.5
Q ss_pred HHHHHhhcCCCHHHHHHHHHHHhcCCcch-hhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHH
Q 015984 23 HILSSVISSNDIVQAKKFIDHMLSDDVPL-VVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREK 101 (397)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~ 101 (397)
.+..-+++.++-+.|+..+..++.....+ .+=..++.+.+.++++.|+...+.-..++|..+++|+|++|.+|+|++..
T Consensus 57 ~i~~lc~~~~~w~~Lne~i~~Lskkrgqlk~ai~~Mvq~~~~y~~~~~d~~~k~~li~tLr~VtegkIyvEvERarlTk~ 136 (439)
T KOG1498|consen 57 EIMKLCFSAKDWDLLNEQIRLLSKKRGQLKQAIQSMVQQAMTYIDGTPDLETKIKLIETLRTVTEGKIYVEVERARLTKM 136 (439)
T ss_pred HHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCCchhHHHHHHHHHHhhcCceEEeehHHHHHHH
Confidence 34444555666677777777777555444 22345677777788888865555555689999999999999999999999
Q ss_pred HHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc-hHHHHHHHH
Q 015984 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYK 180 (397)
Q Consensus 102 La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~-~~~l~~~~~ 180 (397)
|++++|.+||..+||.+|.+++||| ||+|+.++|+.++|+|||||+..+||.+|.++.+|++.++++.+ -.+++++||
T Consensus 137 L~~ike~~Gdi~~Aa~il~el~VET-ygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlkyY 215 (439)
T KOG1498|consen 137 LAKIKEEQGDIAEAADILCELQVET-YGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLKYY 215 (439)
T ss_pred HHHHHHHcCCHHHHHHHHHhcchhh-hhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHHH
Confidence 9999999999999999999999999 99999999999999999999999999999999999999999764 569999999
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccch
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIY 260 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~ 260 (397)
..+.+++.|.+.|+++|++|.+++.+++ ...|++.|...|..++++++|||.+++++++++++..|....++|.|
T Consensus 216 ~lmI~l~lh~~~Yl~v~~~Yraiy~t~~-----vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is~dKkL~e~p~~ 290 (439)
T KOG1498|consen 216 ELMIRLGLHDRAYLNVCRSYRAIYDTGN-----VKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARISNDKKLSELPDY 290 (439)
T ss_pred HHHHHhcccccchhhHHHHHHHHhcccc-----cccChhhhhhhhhhheeEEeecCCCcHHHHHHHHHhcccccccCccH
Confidence 9999999999999999999999999864 34588999999999999999999999999999999999999999999
Q ss_pred HHHHHHHH-HhhcChhhHH-HHHHHhchhhhhh----CCCchhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHH
Q 015984 261 PILQKVYL-ERILRKPEID-AFAEELKPHQKAL----LPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKA 334 (397)
Q Consensus 261 ~~L~k~f~-~~ii~~~~l~-~F~~~L~~h~~~~----~~d~~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~ 334 (397)
..+.+.|. .++++|..+. .|...|.....+. .+..|++|+.+|+|||++.+++||++|++.+||+++++|+++.
T Consensus 291 k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~ 370 (439)
T KOG1498|consen 291 KELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPVEEM 370 (439)
T ss_pred HHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCHHHH
Confidence 99999996 6999998655 6777776552221 1223799999999999999999999999999999999999999
Q ss_pred HHHHHHhHhcCceEEEeccCCcEEEECCc---chHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 015984 335 EKIASRMIFEDRMRGSIDQVEAVIHFEDD---TEELQQWDQQIVGLCQALNDILDSMAKKGLP 394 (397)
Q Consensus 335 E~~ls~mI~~grl~gkIDQv~giV~f~~~---~~~l~~w~~~I~~l~~~v~~v~~~i~~~~~~ 394 (397)
|.++|.||..|.+.|||||+.|+|.|..+ .+.++.|+.++.++++.++++.|+|+||+|-
T Consensus 371 E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~~~LneW~~nve~L~~ll~K~~HLI~KEemm 433 (439)
T KOG1498|consen 371 EKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSNEILNEWASNVEKLLGLLEKVSHLIHKEEMM 433 (439)
T ss_pred HHHHHHHHhccceEEEecCCCceEEEEecccHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999974 5789999999999999999999999999863
No 3
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.4e-50 Score=373.91 Aligned_cols=360 Identities=19% Similarity=0.302 Sum_probs=318.3
Q ss_pred hhcCCCHHHHHHHHHHHhcCCcchhhh-HHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHH
Q 015984 28 VISSNDIVQAKKFIDHMLSDDVPLVVS-RQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLY 106 (397)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~~~~~~~~~s-r~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~ 106 (397)
+.+.++-++|+.-+..++-....+-.| .-++..+.+.++..++-..+.-..++|..++++++++|.+|++++..|..+|
T Consensus 62 l~S~~~~~~Lneql~~L~kKhGQlk~sI~~MIq~vmEylKg~~dl~t~i~~ietlr~VtEgkIFvEvERariT~~L~~ik 141 (439)
T COG5071 62 LFSAGDFQGLNEQLVSLFKKHGQLKQSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTEGKIFVEVERARLTQLLSQIK 141 (439)
T ss_pred HhhcCchhhhhhHHHHHHHHcchHHHHHHHHHHHHHHhccCcccccchHhHHHHHHHHhcCceEEehhHHHHHHHHHHHH
Confidence 444556788888888888766655333 3345566666666653334555567889999999999999999999999999
Q ss_pred HhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc-hHHHHHHHHHHHHH
Q 015984 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYAR 185 (397)
Q Consensus 107 e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~-~~~l~~~~~~~~~~ 185 (397)
+.+||.++|+.++.++|+|| +++++..+|+.++|+|+|||+..+||.+|.++.+|+..+.++.+ -..++++||....+
T Consensus 142 ee~Gdi~sA~Dilcn~pVET-ygs~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~ 220 (439)
T COG5071 142 EEQGDIKSAQDILCNEPVET-YGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVR 220 (439)
T ss_pred HHhcchhHHHHHHhcCchhh-ccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhe
Confidence 99999999999999999999 89999999999999999999999999999999999999998764 56899999999999
Q ss_pred HHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccchHHHHH
Q 015984 186 ILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQK 265 (397)
Q Consensus 186 ~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~~~L~k 265 (397)
++.++|.|++||+||.+++.+.. ..-++..|..+|+..+++++|+|.++++.+++.++..|-.+.++|....+.+
T Consensus 221 i~Lh~R~Yl~v~~y~~~vY~t~~-----~~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvhKi~~d~kl~sl~~~~~lVk 295 (439)
T COG5071 221 IGLHDRAYLDVCKYYRAVYDTAV-----VQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVK 295 (439)
T ss_pred eecccHHHHHHHHHHHHHHHHHH-----hccCcccccchhhcceeeEEecccccHHHHHHHHhhhhhhhccchhhhhHHH
Confidence 99999999999999999999854 3446778999999999999999999999999999999988888999999999
Q ss_pred HHH-HhhcChhhHH-HHHHHhchhhhhhCCC----chhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHH
Q 015984 266 VYL-ERILRKPEID-AFAEELKPHQKALLPD----NFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIAS 339 (397)
Q Consensus 266 ~f~-~~ii~~~~l~-~F~~~L~~h~~~~~~d----~~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls 339 (397)
.|. +++++|+-+. .+++.|....-++..| .|.+|+++|+|||+++|++||++|+..+|+.++++|++++|+.+|
T Consensus 296 ~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~IS 375 (439)
T COG5071 296 CFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFIS 375 (439)
T ss_pred HHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHH
Confidence 995 9999999888 4677776654444333 378999999999999999999999999999999999999999999
Q ss_pred HhHhcCceEEEeccCCcEEEECCc---chHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 015984 340 RMIFEDRMRGSIDQVEAVIHFEDD---TEELQQWDQQIVGLCQALNDILDSMAKKGL 393 (397)
Q Consensus 340 ~mI~~grl~gkIDQv~giV~f~~~---~~~l~~w~~~I~~l~~~v~~v~~~i~~~~~ 393 (397)
.|+..|-++|||+|+.|||.|+.+ .+.++.|+.+|.++++.++++.|+|.||++
T Consensus 376 dlVN~G~~yaKiNrpa~Ii~FEK~~n~~~~lneW~~NV~ellgklek~~HLI~KEe~ 432 (439)
T COG5071 376 DLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLGKLEKVRHLIIKEEM 432 (439)
T ss_pred HHHhcCcEEEEecCccceEEeeccccHHHHHHHhcccHHHHHHHHHHHhHHHhHHHH
Confidence 999999999999999999999986 478999999999999999999999999976
No 4
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.9e-42 Score=325.88 Aligned_cols=338 Identities=15% Similarity=0.248 Sum_probs=291.8
Q ss_pred HhhcCCCHHHHHHHHHHHh--cCCcchhhhHHHHHHHHHHhCCCC--hHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Q 015984 27 SVISSNDIVQAKKFIDHML--SDDVPLVVSRQLLQTFAQELGRLE--PETQKEIANYTLAQIQPRVVSFEEQVLIIREKL 102 (397)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~sr~~~~~~~~~l~~l~--~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~L 102 (397)
.+...++..+|..+|.++- =++++=.=+.++++++++.+.++| .+.++++|..+++|.+.+++.|.+| +|+-+|
T Consensus 57 ll~~~~~~~~lr~li~~~Rpf~~~v~KakaaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFLRq--~Learl 134 (411)
T KOG1463|consen 57 LLAKEGDAEELRDLITSLRPFLSSVSKAKAAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFLRQ--SLEARL 134 (411)
T ss_pred HHHhccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHHHH--HHHHHH
Confidence 3444556677777777743 245555667789999999999887 4579999999999999999999999 999999
Q ss_pred HHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhc---ccccCcchHHHHHH
Q 015984 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKAS---FLVSSSQQEVLNLQ 178 (397)
Q Consensus 103 a~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~---~~~~~~~~~~l~~~ 178 (397)
+.+|.+.++|.+|...+..+..|- +++||+. .+++++.+.+.|...+|.++|+..+..|. +.+++ +|.+++.
T Consensus 135 i~Ly~d~~~YteAlaL~~~L~rEl--KKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYc--pPqlQa~ 210 (411)
T KOG1463|consen 135 IRLYNDTKRYTEALALINDLLREL--KKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYC--PPQLQAT 210 (411)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHH--HhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhccccc--CHHHHHH
Confidence 999999999999999999999996 8999996 89999999999999999999999998865 45555 9999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhh-chhhccc
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYK-DERCSKL 257 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~-d~~~~~l 257 (397)
.....|.+|+.++||++|++||||+|+.|. ..-++.++.+.||||++|.||.+...+...+++..+. ....+.+
T Consensus 211 lDLqSGIlha~ekDykTafSYFyEAfEgf~-----s~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~y~g~~i 285 (411)
T KOG1463|consen 211 LDLQSGILHAAEKDYKTAFSYFYEAFEGFD-----SLDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALKYAGRDI 285 (411)
T ss_pred HHHhccceeecccccchHHHHHHHHHcccc-----ccCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHhccCcch
Confidence 999999999999999999999999999864 2223468899999999999999887777777766543 3455778
Q ss_pred cchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCc-----hhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChH
Q 015984 258 KIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQ 332 (397)
Q Consensus 258 ~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~-----~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~ 332 (397)
.+|+.+..+|-+ +++..|+..|..|...+..|+ +..|++.+.|.||.++.+||++|.++++|+.+|+|..
T Consensus 286 ~AmkavAeA~~n-----RSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~ 360 (411)
T KOG1463|consen 286 DAMKAVAEAFGN-----RSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVP 360 (411)
T ss_pred HHHHHHHHHhcC-----CcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcH
Confidence 999999999976 889999999999999998888 4789999999999999999999999999999999999
Q ss_pred HHHHHHHHhHhcCceEEEeccCCcE-EEECCcchHHHHHHHHHHHHHHHHH
Q 015984 333 KAEKIASRMIFEDRMRGSIDQVEAV-IHFEDDTEELQQWDQQIVGLCQALN 382 (397)
Q Consensus 333 ~~E~~ls~mI~~grl~gkIDQv~gi-V~f~~~~~~l~~w~~~I~~l~~~v~ 382 (397)
.||+.+++||.|+++.|.+||++|+ |.|+.| ..-+.|+..+ ++..+++
T Consensus 361 ~VEkKLsqMILDKkf~G~LDQg~g~Liv~~e~-~~d~~y~~aL-etI~~m~ 409 (411)
T KOG1463|consen 361 QVEKKLSQMILDKKFYGTLDQGEGCLIVFEEP-PADNTYDAAL-ETIQNMG 409 (411)
T ss_pred HHHHHHHHHHHHHHhhcccccCCCeEEEeCCC-CcchHHHHHH-HHHHhcc
Confidence 9999999999999999999999996 888876 2334577666 4444443
No 5
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.2e-35 Score=274.93 Aligned_cols=345 Identities=15% Similarity=0.187 Sum_probs=288.0
Q ss_pred CCCHHHHHHHHHHHhc--CCcchhhhHHHHHHHHHHhCCCC--hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHH
Q 015984 31 SNDIVQAKKFIDHMLS--DDVPLVVSRQLLQTFAQELGRLE--PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLY 106 (397)
Q Consensus 31 ~~~~~~~~~~~~~~~~--~~~~~~~sr~~~~~~~~~l~~l~--~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~ 106 (397)
.++-.++..||.+.-. +++.---+-+|++++++.++.-| -+.|+.+|..+++|...+++.|.++ .+..+|+.+|
T Consensus 58 ~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~--~Le~Kli~l~ 135 (421)
T COG5159 58 KGDYCSLGDTITSSREAMEDFTKPKITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRL--ELECKLIYLL 135 (421)
T ss_pred cCCcchHHHHHHhhHHHHHHhcchhHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence 3344556666666431 23333345678999999998776 4679999999999999999999999 9999999999
Q ss_pred HhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-chHHHHHHHHHHHH
Q 015984 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQYKVCYA 184 (397)
Q Consensus 107 e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~~l~~~~~~~~~ 184 (397)
.+.|.|.+|...+..+.-|- +++||+- .+++++.+.+.|.+.++..+++..++.|....... .+|.+++......|
T Consensus 136 y~~~~YsdalalIn~ll~El--Kk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~sG 213 (421)
T COG5159 136 YKTGKYSDALALINPLLHEL--KKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLSG 213 (421)
T ss_pred HhcccHHHHHHHHHHHHHHH--HhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhcc
Confidence 99999999999999988885 8999984 89999999999999999999999888865443322 38999999999999
Q ss_pred HHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhc--hhhccccchHH
Q 015984 185 RILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKD--ERCSKLKIYPI 262 (397)
Q Consensus 185 ~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d--~~~~~l~~~~~ 262 (397)
.+++.++||..|++||+|+++.|+ ..-+..++.+.|+|+++..|+.+.-.+...++...+.- ...+.+.+|..
T Consensus 214 Ilhcdd~dyktA~SYF~Ea~Egft-----~l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~a 288 (421)
T COG5159 214 ILHCDDRDYKTASSYFIEALEGFT-----LLKMDVKACVSLKYMLLSKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLA 288 (421)
T ss_pred ceeeccccchhHHHHHHHHHhccc-----cccchHHHHHHHHHHHHHHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHH
Confidence 999999999999999999999875 22344778899999999999977655555555544431 23356788999
Q ss_pred HHHHHHHhhcChhhHHHHHHHhchhhhhhCCCc-----hhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHH
Q 015984 263 LQKVYLERILRKPEIDAFAEELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKI 337 (397)
Q Consensus 263 L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~-----~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ 337 (397)
+..+|-+ +++..|...|+.+...+.+|+ +..|++.+.|.|+..|.+||++|.+++||+.+|++..++|..
T Consensus 289 vaea~~N-----RsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgK 363 (421)
T COG5159 289 VAEAFGN-----RSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGK 363 (421)
T ss_pred HHHHhCC-----CcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHH
Confidence 9999976 788999999998877777776 478999999999999999999999999999999999999999
Q ss_pred HHHhHhcCceEEEeccCCcE-EEECCcchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 015984 338 ASRMIFEDRMRGSIDQVEAV-IHFEDDTEELQQWDQQIVGLCQALNDILDSMAKK 391 (397)
Q Consensus 338 ls~mI~~grl~gkIDQv~gi-V~f~~~~~~l~~w~~~I~~l~~~v~~v~~~i~~~ 391 (397)
+++||.++-++|.+||++|+ +.++.|.+ -+.+++.+ ++.+.++.|++++.++
T Consensus 364 LsqMILDKifyG~LDqg~gcLivy~ep~q-d~tyd~al-e~v~~l~~vVd~l~ek 416 (421)
T COG5159 364 LSQMILDKIFYGTLDQGDGCLIVYGEPAQ-DNTYDEAL-EQVEALDCVVDSLYEK 416 (421)
T ss_pred HHHHHHHHHHHhhhccCCceEEEeCCccc-cchHHHHH-HHHHHhhhHHHHHHHH
Confidence 99999999999999999997 66666633 24588887 8889999999988764
No 6
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.5e-31 Score=247.70 Aligned_cols=307 Identities=18% Similarity=0.149 Sum_probs=243.4
Q ss_pred CcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccC
Q 015984 48 DVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSG 127 (397)
Q Consensus 48 ~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~ 127 (397)
+..+.+-+..+.++++.= +..++-....++..... -=|-++...-.+.|++|...||.+.|.+.+...-
T Consensus 63 ~~~i~~D~~~l~~m~~~n-----eeki~eld~~iedaeen--lGE~ev~ea~~~kaeYycqigDkena~~~~~~t~---- 131 (393)
T KOG0687|consen 63 SLVIKLDQDLLNSMKKAN-----EEKIKELDEKIEDAEEN--LGESEVREAMLRKAEYYCQIGDKENALEALRKTY---- 131 (393)
T ss_pred hcceeccHHHHHHHHHhh-----HHHHHHHHHHHHHHHHh--cchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH----
Confidence 455666666666655431 11122222233332222 1244555677889999999999999999998843
Q ss_pred CCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 128 MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 128 ~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
.++++.+.|+++.+..+|+.+...|..-....+.||+..+..++||+.+++|+.|+|.+.+..|||++||..|.++..||
T Consensus 132 ~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTF 211 (393)
T KOG0687|consen 132 EKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTF 211 (393)
T ss_pred HHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccc
Confidence 26789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhh----ccccchHHHHHHHHH----hhcChhhHH-
Q 015984 208 KRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERC----SKLKIYPILQKVYLE----RILRKPEID- 278 (397)
Q Consensus 208 ~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~----~~l~~~~~L~k~f~~----~ii~~~~l~- 278 (397)
+. +..++.+. +..|+|+|+++ ..+|.++.+++.+.|++ .++|....+.....+ ..+ ..+.
T Consensus 212 tS---~El~~Y~~---~v~Ytv~~g~i---~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff--~~L~~ 280 (393)
T KOG0687|consen 212 TS---YELMSYET---FVRYTVITGLI---ALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFF--NDLAA 280 (393)
T ss_pred cc---eecccHHH---HHHHHHHHhhh---eeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHH--HHHHH
Confidence 72 33456554 77899999998 67999999999998765 446766666654321 000 1221
Q ss_pred ------HHHHHhchhhhhhCCCchhhHHHHHHHHHHHHHHhh---ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 279 ------AFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKL---YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 279 ------~F~~~L~~h~~~~~~d~~~~L~~~v~EhNl~~is~~---Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
+++.+|.||..+. ++|.++++++|+ |++++++.||+.||+|++.++..++++|.+|+++|
T Consensus 281 ~~~~~lk~D~~l~~h~~yy-----------vREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~c 349 (393)
T KOG0687|consen 281 VEAKQLKDDRYLGPHYRYY-----------VREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHC 349 (393)
T ss_pred HHHHhhccchhcchHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceee
Confidence 3466677776654 789999999995 99999999999999999999999999999999999
Q ss_pred EeccCCcEEEECCcchHHHHHHHHHHHHHHHHHHHHHH
Q 015984 350 SIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDILDS 387 (397)
Q Consensus 350 kIDQv~giV~f~~~~~~l~~w~~~I~~l~~~v~~v~~~ 387 (397)
+||+++|+|+.++|++.-.++..-|.+-+..+|++-..
T Consensus 350 kIDrVnGVVEtNrpD~KN~qyq~vikqGd~LLnriQK~ 387 (393)
T KOG0687|consen 350 KIDRVNGVVETNRPDEKNAQYQAVIKQGDLLLNRIQKL 387 (393)
T ss_pred eeecccceeecCCccccchHHHHHHhhhHHHHHHHHHH
Confidence 99999999999998766566888888888888887553
No 7
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.97 E-value=2e-29 Score=234.03 Aligned_cols=291 Identities=20% Similarity=0.290 Sum_probs=245.2
Q ss_pred HHHHHHHHHhhc---cccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCC-chh----HHHHHHHHHHH
Q 015984 74 KEIANYTLAQIQ---PRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVI-DDT----FRLSKCVQIAR 145 (397)
Q Consensus 74 ~~~~~~~l~~~~---~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~-~~~----~kle~~L~i~R 145 (397)
.+.-+-+|+.+. .....|-. ..+|+++|.+.|+|....++|..++..+....- +|. +.+++|-..++
T Consensus 125 Q~FYeTTL~ALkdAKNeRLWFKT-----NtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ 199 (440)
T KOG1464|consen 125 QEFYETTLDALKDAKNERLWFKT-----NTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ 199 (440)
T ss_pred HHHHHHHHHHHHhhhcceeeeec-----cchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence 344444444443 33334433 478999999999999999999999986621111 222 24899999999
Q ss_pred HHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHH
Q 015984 146 LYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQAL 225 (397)
Q Consensus 146 l~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L 225 (397)
+|.+.+|..+.+..+.++...-...++|-+....+.|+|.+|+.+|.|.+|.-.|+|+|.. +.+.+.++|.+||
T Consensus 200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKN------YDEsGspRRttCL 273 (440)
T KOG1464|consen 200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKN------YDESGSPRRTTCL 273 (440)
T ss_pred hhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhc------ccccCCcchhHHH
Confidence 9999999999999999998888888999999999999999999999999999999999997 5566778999999
Q ss_pred HHHHHHHHhcCCCCcchH-HHHhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch-----hhH
Q 015984 226 SAAVTCTILAAAGPQRSR-VLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF-----TVL 299 (397)
Q Consensus 226 ~~av~~~ILa~~~~~rs~-ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~-----~~L 299 (397)
+|+|++.+|..+|-...+ --++.|+++ +++-+|..|..+|.+ .++.+|++.|+.|+..+++||+ ..|
T Consensus 274 KYLVLANMLmkS~iNPFDsQEAKPyKNd--PEIlAMTnlv~aYQ~-----NdI~eFE~Il~~~~~~IM~DpFIReh~EdL 346 (440)
T KOG1464|consen 274 KYLVLANMLMKSGINPFDSQEAKPYKND--PEILAMTNLVAAYQN-----NDIIEFERILKSNRSNIMDDPFIREHIEDL 346 (440)
T ss_pred HHHHHHHHHHHcCCCCCcccccCCCCCC--HHHHHHHHHHHHHhc-----ccHHHHHHHHHhhhccccccHHHHHHHHHH
Confidence 999999999887632222 246677732 346789999999986 8899999999999999999996 689
Q ss_pred HHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc-------chHHHHHHH
Q 015984 300 DRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD-------TEELQQWDQ 372 (397)
Q Consensus 300 ~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~-------~~~l~~w~~ 372 (397)
.+.|+-+.++...+||++|.+..|++.|++|+.+||.++..+|.+.+|.|+||++++++..... .+.+..|++
T Consensus 347 l~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~~k~~~al~kW~~ 426 (440)
T KOG1464|consen 347 LRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSGSKLYKALDKWNN 426 (440)
T ss_pred HHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHhhhHhccCccCCcchHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999988752 368999999
Q ss_pred HHHHHHHHHH
Q 015984 373 QIVGLCQALN 382 (397)
Q Consensus 373 ~I~~l~~~v~ 382 (397)
++.++-..|-
T Consensus 427 ql~Sl~~~i~ 436 (440)
T KOG1464|consen 427 QLKSLQSNIV 436 (440)
T ss_pred HHHHHHHHHH
Confidence 9998877664
No 8
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=8.8e-27 Score=217.63 Aligned_cols=276 Identities=17% Similarity=0.173 Sum_probs=223.3
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc
Q 015984 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (397)
Q Consensus 92 e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~ 171 (397)
|.+.++.-..+|++|...+|.+.+.+.+.+.-- +.++.+.|+++.|.++||.+..+|-.-.+..+.++.+.+.+++
T Consensus 111 E~e~~ea~~n~aeyY~qi~D~~ng~~~~~~~~~----~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGg 186 (412)
T COG5187 111 ETEGSEADRNIAEYYCQIMDIQNGFEWMRRLMR----DAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGG 186 (412)
T ss_pred chHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH----HHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCC
Confidence 455567788999999999999999999988653 4578889999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCC-CCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhh
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDET-IDEEALEQALSAAVTCTILAAAGPQRSRVLATLYK 250 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~-~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~ 250 (397)
||+.+++|+.|+|.+.+..|+|++|+..+.+...||+ +.+ ++..+ +..||++|+++ ..+|.++.+++.+
T Consensus 187 DWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~----S~El~sY~~---~vrYa~~~Gl~---~leR~diktki~d 256 (412)
T COG5187 187 DWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFE----SSELISYSR---AVRYAIFCGLL---RLERRDIKTKILD 256 (412)
T ss_pred CHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhcccc----ccccccHHH---HHHHHHHhhhh---eeehhhhhhhhcC
Confidence 9999999999999999999999999999999999997 444 45544 78899999998 7899999999999
Q ss_pred chhhcc-c---cchHHHHH---H-HHHhh--cChhhHHHHHHHhchhhhhhCCCchhhHHHHHHHHHHHHHHhh---ccc
Q 015984 251 DERCSK-L---KIYPILQK---V-YLERI--LRKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKL---YTN 317 (397)
Q Consensus 251 d~~~~~-l---~~~~~L~k---~-f~~~i--i~~~~l~~F~~~L~~h~~~~~~d~~~~L~~~v~EhNl~~is~~---Y~~ 317 (397)
.|++-. + +.+..|.. . |.-.. .-+..+.-|...|++.+ ++. ...+-.|+|.+.+++.|. |+.
T Consensus 257 spevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~-fl~----rh~d~fvREMRrrvYaQlLESYr~ 331 (412)
T COG5187 257 SPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDV-FLG----RHVDLFVREMRRRVYAQLLESYRL 331 (412)
T ss_pred CHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchH-HHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 886522 2 23332222 1 11000 00123344544444332 111 123345889999999986 999
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHHHHHHHHHHHHHHHH
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDILD 386 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~~I~~l~~~v~~v~~ 386 (397)
.+++.||+.||+|++.++.-+..+|-+|+++|.||+++|+|+.++|++.-++++.-|..-+..++++-.
T Consensus 332 lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~vVkqGd~ll~klqK 400 (412)
T COG5187 332 LSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSVVKQGDDLLRKLQK 400 (412)
T ss_pred hhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHHHhcchHHHHHHHH
Confidence 999999999999999999999999999999999999999999999987777888888888888777543
No 9
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.87 E-value=2.6e-19 Score=174.10 Aligned_cols=286 Identities=17% Similarity=0.215 Sum_probs=227.5
Q ss_pred cccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcc
Q 015984 86 PRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF 165 (397)
Q Consensus 86 ~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~ 165 (397)
-..+++.--.+.+-..++-.||..|+...-...|.....-..-| -+...+.-++....|.||..+-+.+|...+.|...
T Consensus 159 ~nrRtlD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~lrtAtLr-hd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~ 237 (493)
T KOG2581|consen 159 QNRRTLDLIAAKLYFYLYLSYELEGRLADIRSFLHALLRTATLR-HDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVY 237 (493)
T ss_pred cchhhHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhhhc-CcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccC
Confidence 34457777788999999999999999777777777644322122 23344777788899999999999999999999875
Q ss_pred cccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHH
Q 015984 166 LVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVL 245 (397)
Q Consensus 166 ~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll 245 (397)
.-...++ ...+|-.|.|++.+.+.+|.+|..+|+.+....++ ...-.-+.++-+.+++..+|.+..|+|+-.-
T Consensus 238 pe~~snn--e~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq-----~~alGf~q~v~k~~ivv~ll~geiPers~F~ 310 (493)
T KOG2581|consen 238 PEAASNN--EWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQ-----HAALGFRQQVNKLMIVVELLLGEIPERSVFR 310 (493)
T ss_pred ccccccH--HHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcc-----hhhhhHHHHHHHHHHHHHHHcCCCcchhhhc
Confidence 5443333 56889999999999999999999999999986431 1223456778888999999999899998654
Q ss_pred HhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch----hhHHHHHHHHHHHHHHhhccccCHH
Q 015984 246 ATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF----TVLDRAMIEHNLLSASKLYTNISFE 321 (397)
Q Consensus 246 ~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~----~~L~~~v~EhNl~~is~~Y~~Isl~ 321 (397)
+.-++. .+-.|-.|. +-++.+++++|...+..+...+..||+ -.|+.+|+...|+.||-.|++|++.
T Consensus 311 Qp~~~k----sL~~Yf~Lt-----~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRISl~ 381 (493)
T KOG2581|consen 311 QPGMRK----SLRPYFKLT-----QAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRISLQ 381 (493)
T ss_pred CccHHH----HHHHHHHHH-----HHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeeccHH
Confidence 444331 122233444 444559999999999998888888885 4688999999999999999999999
Q ss_pred HHHHHhCCC-hHHHHHHHHHhHhcCceEEEeccCCcEEEECC------cchHHHHHHHHHHHHHHHHHHHHHHH
Q 015984 322 ELGTLLGIA-PQKAEKIASRMIFEDRMRGSIDQVEAVIHFED------DTEELQQWDQQIVGLCQALNDILDSM 388 (397)
Q Consensus 322 ~La~ll~ls-~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~------~~~~l~~w~~~I~~l~~~v~~v~~~i 388 (397)
.||..|+++ ++++|.++++.|.+|.|.|+||..+|.+...+ +.++-..++.+|+.+++..|..+..+
T Consensus 382 DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~LhN~~vkam 455 (493)
T KOG2581|consen 382 DIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLHNEAVKAM 455 (493)
T ss_pred HHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHHHHHHHHh
Confidence 999999995 55599999999999999999999999887664 24677789999999999999998877
No 10
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=3.8e-15 Score=142.62 Aligned_cols=269 Identities=16% Similarity=0.179 Sum_probs=187.3
Q ss_pred HHHhhhcHHHHHHHHhhchhccCCCCCchh-HHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-c-hHHHHHHHHH
Q 015984 105 LYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-Q-QEVLNLQYKV 181 (397)
Q Consensus 105 ~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~-~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~-~~~l~~~~~~ 181 (397)
+.+..+|..+|.+.|.++.-.+ +..+.. .-.-+...++|++|+.+|...++..+.........- + ++.....||.
T Consensus 84 ~~~~~~D~~~al~~Le~i~~~~--~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~ 161 (380)
T KOG2908|consen 84 VSEQISDKDEALEFLEKIIEKL--KEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYS 161 (380)
T ss_pred HHHHhccHHHHHHHHHHHHHHH--HhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHH
Confidence 3345568899999999887554 222222 344555889999999999999999999988876543 3 4558999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHH-HHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHh-hhhchhhccccc
Q 015984 182 CYARILDLKRKFLEAALRYYD-ISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLAT-LYKDERCSKLKI 259 (397)
Q Consensus 182 ~~~~~~~~~r~f~~Aa~~y~e-~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~-l~~d~~~~~l~~ 259 (397)
....||...+|| +.+|.. +.+..+.+ ....+.+++.+.-....++|+|+..--.-..+++. +++.=....-.+
T Consensus 162 lssqYyk~~~d~---a~yYr~~L~YL~~~d--~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eW 236 (380)
T KOG2908|consen 162 LSSQYYKKIGDF---ASYYRHALLYLGCSD--IDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREW 236 (380)
T ss_pred HHHHHHHHHHhH---HHHHHHHHHHhcccc--ccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHH
Confidence 999999999999 444544 44443321 23456777777777889999998743333333322 222222233457
Q ss_pred hHHHHHHHHHhhcChhhHHHHHHHhchhhh-hhCCCchhhHHHHHHHHHHHHH-----Hhh--ccccCHHHHHHHhCCCh
Q 015984 260 YPILQKVYLERILRKPEIDAFAEELKPHQK-ALLPDNFTVLDRAMIEHNLLSA-----SKL--YTNISFEELGTLLGIAP 331 (397)
Q Consensus 260 ~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~-~~~~d~~~~L~~~v~EhNl~~i-----s~~--Y~~Isl~~La~ll~ls~ 331 (397)
...+..||.. +++..|+.....+.. .........|.+-+ ++.+. ++| =+.|||+.||+...+|.
T Consensus 237 L~dll~Afn~-----Gdl~~f~~l~~~~~~~p~L~~~e~~L~qKI---~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip~ 308 (380)
T KOG2908|consen 237 LKDLLIAFNS-----GDLKRFESLKGVWGKQPDLASNEDFLLQKI---RLLALIEITFSRPANERTLSFKEIAEATKIPN 308 (380)
T ss_pred HHHHHHHhcc-----CCHHHHHHHHHHhccCchHHHHHHHHHHHH---HHHHHHHHHhcCcchhccccHHHHHHHhCCCH
Confidence 7788888865 889988765544432 00000111222211 22222 332 46799999999999999
Q ss_pred HHHHHHHHHhHhcCceEEEeccCCcEEEECC--c-----------chHHHHHHHHHHHHHHHHHHHHHHH
Q 015984 332 QKAEKIASRMIFEDRMRGSIDQVEAVIHFED--D-----------TEELQQWDQQIVGLCQALNDILDSM 388 (397)
Q Consensus 332 ~~~E~~ls~mI~~grl~gkIDQv~giV~f~~--~-----------~~~l~~w~~~I~~l~~~v~~v~~~i 388 (397)
++||.++++.++-|.|.|.|||++|+|++.| | .+.+..|+.+|.++-..|+.-.+.|
T Consensus 309 ~eVE~LVMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~~~i 378 (380)
T KOG2908|consen 309 KEVELLVMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRGHEI 378 (380)
T ss_pred HHHHHHHHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 9999999999999999999999999999998 4 2678889999988887777655544
No 11
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.70 E-value=1.9e-15 Score=147.67 Aligned_cols=251 Identities=15% Similarity=0.114 Sum_probs=195.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC--cchHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS--SQQEV 174 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~--~~~~~ 174 (397)
+--..|++.|...|++..|.+.+..++-.+ .+.++-+.+|+.-+++.+..+||.+.-.+++||...... .-.++
T Consensus 151 ra~~Dl~dhy~~cG~l~~Alr~YsR~RdYC----Ts~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~ 226 (466)
T KOG0686|consen 151 RALEDLGDHYLDCGQLDNALRCYSRARDYC----TSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQE 226 (466)
T ss_pred HHHHHHHHHHHHhccHHHHHhhhhhhhhhh----cchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHh
Confidence 445778999999999999999999977654 577899999999999999999999999999999876432 23556
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCC-CCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchh
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDE-TIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDER 253 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~-~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~ 253 (397)
.-.+.+.+.|..+...++|..|+++|......-+. ++ .+++.+ .+++.+++|-++.+|.+++..+.++..
T Consensus 227 v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d---~~~ivtpsd------v~iYggLcALAtfdr~~Lk~~vi~n~~ 297 (466)
T KOG0686|consen 227 VPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCD---YPEIVTPSD------VAIYGGLCALATFDRQDLKLNVIKNES 297 (466)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccC---ccceecchh------hHHHHhhHhhccCCHHHHHHHHHcchh
Confidence 77789999999999999999999999888765441 22 356666 467777777789999999988887765
Q ss_pred hc----cccchHHHHHHHHHhhcChhhHHHHHHHhchhhh--hhCCCchhhHHHHHHHHHHHHHHhhccccCHHHHHHHh
Q 015984 254 CS----KLKIYPILQKVYLERILRKPEIDAFAEELKPHQK--ALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLL 327 (397)
Q Consensus 254 ~~----~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~--~~~~d~~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll 327 (397)
+. ..|.+..+...|.+.-+ +..-+....+++|-. ...++..+.|..-+++.-++.+-.||+++.+..||..|
T Consensus 298 Fk~flel~Pqlr~il~~fy~sky--~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af 375 (466)
T KOG0686|consen 298 FKLFLELEPQLREILFKFYSSKY--ASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAF 375 (466)
T ss_pred hhhHHhcChHHHHHHHHHhhhhH--HHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHh
Confidence 43 34777777777754111 111111111222211 12233346788888888888899999999999999999
Q ss_pred CCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 328 GIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 328 ~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
|.++...|..+-++|.+|.|+||||+.++++.-..
T Consensus 376 ~~sv~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~ 410 (466)
T KOG0686|consen 376 NTSVAILESELLELILEGKISGRIDSHNKILYARD 410 (466)
T ss_pred cccHHHHHHHHHHHHHccchheeeccccceeeecc
Confidence 99999999999999999999999999999987764
No 12
>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=99.65 E-value=9.7e-16 Score=125.49 Aligned_cols=100 Identities=25% Similarity=0.384 Sum_probs=87.0
Q ss_pred cchHHHHHHHHHhhcChhhHHHHHHHhchh-hhhhCCCc----hhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChH
Q 015984 258 KIYPILQKVYLERILRKPEIDAFAEELKPH-QKALLPDN----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQ 332 (397)
Q Consensus 258 ~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h-~~~~~~d~----~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~ 332 (397)
|+|..|.++|.. +++..|.+.+..| ...+..++ ...|.+.++++++..++++|++|++++||+.++++.+
T Consensus 1 ~~~~~l~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~ 75 (105)
T PF01399_consen 1 PPYSELLRAFRS-----GDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEE 75 (105)
T ss_dssp HHHHHHHHHHHC-----T-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHH
T ss_pred CHHHHHHHHHHh-----CCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchH
Confidence 678899999975 7899999999999 44444444 2678999999999999999999999999999999999
Q ss_pred HHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 333 KAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 333 ~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
++|..+++||.+|+|+|+|||++|+|+|.+
T Consensus 76 ~vE~~l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 76 EVESILIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHHHHHHCCCEEEEEECCCCEEEecC
Confidence 999999999999999999999999999975
No 13
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=99.60 E-value=8.2e-15 Score=132.34 Aligned_cols=149 Identities=19% Similarity=0.124 Sum_probs=125.9
Q ss_pred cchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccc
Q 015984 88 VVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (397)
Q Consensus 88 ~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~ 167 (397)
....++++.+....+|++|.+.||+++|.+.+...+- .+.+.++++++++.++|++++.+||..+..+++|+...+
T Consensus 28 ~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~----~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~ 103 (177)
T PF10602_consen 28 SNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARD----YCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLI 103 (177)
T ss_pred hccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh----hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 3456677778888999999999999999999999774 457899999999999999999999999999999999999
Q ss_pred cCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHH
Q 015984 168 SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA 246 (397)
Q Consensus 168 ~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~ 246 (397)
..++||+.+++++.+.|.+++..|+|.+||+.|.++..+++.......+++++ +..|.++|+++ +.+|+++.+
T Consensus 104 ~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d---~a~Y~~l~aLa---t~~R~eLk~ 176 (177)
T PF10602_consen 104 EKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQYTELISYND---FAIYGGLCALA---TLDRSELKK 176 (177)
T ss_pred hccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCchhhhcCHHH---HHHHHHHHHHH---hCCHHHHcc
Confidence 99999999999999999999999999999999999999885100123456666 44455555555 888988754
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=99.42 E-value=1.1e-12 Score=104.74 Aligned_cols=67 Identities=34% Similarity=0.566 Sum_probs=64.1
Q ss_pred hhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc
Q 015984 297 TVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 363 (397)
Q Consensus 297 ~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~ 363 (397)
..|.+.++++++..++++|++|++++||+.|++|.+++|..+++||.+|.|+|+|||.+|+|.|.++
T Consensus 4 ~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00753 4 ERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred HHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 4577889999999999999999999999999999999999999999999999999999999999984
No 15
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.42 E-value=1.1e-12 Score=104.74 Aligned_cols=67 Identities=34% Similarity=0.566 Sum_probs=64.1
Q ss_pred hhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc
Q 015984 297 TVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 363 (397)
Q Consensus 297 ~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~ 363 (397)
..|.+.++++++..++++|++|++++||+.|++|.+++|..+++||.+|.|+|+|||.+|+|.|.++
T Consensus 4 ~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00088 4 ERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred HHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 4577889999999999999999999999999999999999999999999999999999999999984
No 16
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.36 E-value=1.2e-10 Score=112.92 Aligned_cols=344 Identities=16% Similarity=0.188 Sum_probs=202.0
Q ss_pred HHHHHHHHhhcCCC-----HHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhC----CCChHHHHHHHHHHHHhhccccc-
Q 015984 20 QYKHILSSVISSND-----IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELG----RLEPETQKEIANYTLAQIQPRVV- 89 (397)
Q Consensus 20 ~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~----~l~~~~~~~~~~~~l~~~~~~~~- 89 (397)
.|..|-+-|..+.+ +.++-+|+.|+--..- |--++..+--.+. .-+++..+++..+.++.+..+-+
T Consensus 20 ~~~eL~~~i~~~~ell~k~~~~~~~~L~~ld~~~h----Slgml~~l~~~f~~~~~~~~~~~li~~~~~FV~~~n~eqlr 95 (422)
T KOG2582|consen 20 NVGELAELIVKSKELLAKNSSDLDAVLLHLDPQVH----SLGMLAVLKVKFHTPSANPDPETLIELLNDFVDENNGEQLR 95 (422)
T ss_pred cHHHHHHHHHhhHHHHHhCcchHHHHHHhcCcccc----chhhhhhhhccccCcccCCCHHHHHHHHHHHHHhcChHHHh
Confidence 45555555554443 3667777777542211 2222222211121 11245566666666665542221
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccc--
Q 015984 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV-- 167 (397)
Q Consensus 90 ~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~-- 167 (397)
..-+-...+...|+....+.++-.-..+++... ++. -....+...-++-....+||+.+|+..+..+++---.-+
T Consensus 96 ~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~a-v~k--~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~ld~divei~~ 172 (422)
T KOG2582|consen 96 LASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQA-VDK--MQPSNGQLTSIHADLLQLCLEAKDYASVLPYLDDDIVEICK 172 (422)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCccccchHHHHH-HHH--hccCccchhhhHHHHHHHHHHhhcccccCCccchhHHHHhc
Confidence 122222344445555555433322222221110 111 011112344556677888999999887765554311111
Q ss_pred -cCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCC----cch
Q 015984 168 -SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGP----QRS 242 (397)
Q Consensus 168 -~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~----~rs 242 (397)
..-.+|..-+.|..|.|-++..-++|..|-..|+....++. ..++.--....-|+++++.|+.+.-. .-+
T Consensus 173 ~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa-----~~vs~~hlEaYkkylLvsLI~~GK~~ql~k~ts 247 (422)
T KOG2582|consen 173 ANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPA-----MAVSHIHLEAYKKYLLVSLILTGKVFQLPKNTS 247 (422)
T ss_pred cCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcch-----hHHHHHHHHHHHHHHHHHhhhcCceeeccccch
Confidence 11247899999999999999999999997777777666543 11221111124456778888866421 111
Q ss_pred HHHHhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCchhhHHHHH----HHHHHHHHHhhcccc
Q 015984 243 RVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLDRAM----IEHNLLSASKLYTNI 318 (397)
Q Consensus 243 ~ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~~~L~~~v----~EhNl~~is~~Y~~I 318 (397)
..-.+.++ ...+.|..+.++|+++. ..+.....+.|-..+++|+.+.|-+.+ -.|||.+..|.|.++
T Consensus 248 ~~~~r~~K----~ms~pY~ef~~~Y~~~~-----~~eLr~lVk~~~~rF~kDnnt~l~k~av~sl~k~nI~rltktF~sL 318 (422)
T KOG2582|consen 248 QNAGRFFK----PMSNPYHEFLNVYLKDS-----STELRTLVKKHSERFTKDNNTGLAKQAVSSLYKKNIQRLTKTFLSL 318 (422)
T ss_pred hhhHHhcc----cCCchHHHHHHHHhcCC-----cHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22223333 23468999999998632 223445667888889999987665444 458999999999999
Q ss_pred CHHHHHHHhCC-ChHHHHHHHHHhHhcCceEEEeccCCcEEEECC-cc--hHHHHHHHHHHHHHHHHHHHHHHH
Q 015984 319 SFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED-DT--EELQQWDQQIVGLCQALNDILDSM 388 (397)
Q Consensus 319 sl~~La~ll~l-s~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~-~~--~~l~~w~~~I~~l~~~v~~v~~~i 388 (397)
++++||+...+ ++++||+.+-+||.+|++.++|| |-|.|.. |. ..-+...+.| .+|..++...+.+
T Consensus 319 sL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~nk~-~~~~~L~e~l~~~ 388 (422)
T KOG2582|consen 319 SLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPEMHENKI-DLCIQLIEALKAM 388 (422)
T ss_pred hHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHHHHhhHH-HHHHHHHHHHHhc
Confidence 99999998888 78999999999999999999999 8877764 21 1112234455 5555555555544
No 17
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=98.30 E-value=0.00086 Score=65.06 Aligned_cols=165 Identities=15% Similarity=0.147 Sum_probs=102.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccc--cch
Q 015984 183 YARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKL--KIY 260 (397)
Q Consensus 183 ~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l--~~~ 260 (397)
-.+.....+.-.++++.+.+++.+++. .+...+.......|+-++-+|....-..++.- |-++.+ ..+
T Consensus 171 v~~al~~~k~~~~s~kvmt~lLgtyt~------dnas~AredA~rcV~~av~dP~~F~fD~Ll~L----~pV~qLE~d~i 240 (378)
T KOG2753|consen 171 VHKALKDNKSVDESSKVMTELLGTYTE------DNASEAREDAMRCVVEAVKDPKIFLFDHLLTL----PPVKQLEGDLI 240 (378)
T ss_pred HHHHHHhcchhhhHHHHHHHHHHHhcc------cchhHHHHHHHHHHHHHHcCCceeccchhccC----chHHHhccchH
Confidence 334444444477888999999998752 22222222223456666676654433222211 111111 125
Q ss_pred HHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch--hhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHH
Q 015984 261 PILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF--TVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIA 338 (397)
Q Consensus 261 ~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~--~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~l 338 (397)
..|.+.|.. +-+.+|-+..+.|..|...-|. ...-+-++---+......=..|+++.|++.|.+..+++|..+
T Consensus 241 ~qLL~IF~s-----~~L~aYveF~~~N~~Fvqs~gl~~E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fV 315 (378)
T KOG2753|consen 241 HQLLKIFVS-----GKLDAYVEFVAANSGFVQSQGLVHEQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFV 315 (378)
T ss_pred HHHHHHHHh-----cchHHHHHHHHhChHHHHHhcccHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHH
Confidence 677777864 4555555555566555544332 122222222233334446789999999999999999999999
Q ss_pred HHhHhcCceEEEeccCCcEEEECC
Q 015984 339 SRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 339 s~mI~~grl~gkIDQv~giV~f~~ 362 (397)
.+.|.-|.+.|||||.++.|+..+
T Consensus 316 IdaI~aklV~~kidq~~~~viVs~ 339 (378)
T KOG2753|consen 316 IDAIRAKLVEGKIDQMNRTVIVSS 339 (378)
T ss_pred HHHHHHHHHHhhHHhhcceEEeeh
Confidence 999999999999999999876654
No 18
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=98.16 E-value=2.7e-05 Score=77.77 Aligned_cols=203 Identities=16% Similarity=0.200 Sum_probs=142.6
Q ss_pred HHHHHHHhhcCChHHHHHHHHHhcccccCcchH--HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCH
Q 015984 141 VQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDE 218 (397)
Q Consensus 141 L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~--~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~ 218 (397)
...-++|+..+...-++..++...+......++ .-...|..+-|++.+.+.||.+|...+.+++.. .+..--
T Consensus 167 n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~------cp~~~~ 240 (394)
T KOG2688|consen 167 NQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRL------CPDLLL 240 (394)
T ss_pred HHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHHHh------CcHHHH
Confidence 556788998888888888888776664322222 335677778889999999999999999999985 221111
Q ss_pred HHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch-h
Q 015984 219 EALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF-T 297 (397)
Q Consensus 219 ~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~-~ 297 (397)
......+.|.+-++++-+..|.+. ++.+.- +..|..|.++- +.+++..|...|++|+.++..-|. -
T Consensus 241 ~n~~~iliylip~~~llg~~Pt~~-lL~~~~-------~~~~~~lv~aV-----r~Gnl~~f~~al~~~E~~f~~~gi~l 307 (394)
T KOG2688|consen 241 KNKRLILIYLIPTGLLLGRIPTKE-LLDFYT-------LDKYSPLVQAV-----RSGNLRLFDLALADNERFFIRSGIYL 307 (394)
T ss_pred hhhhhHHHHHhHHHHHhccCcchh-hHhHhh-------HHhHHHHHHHH-----HhccHHHHHHHHhhhHHHHHHhccHH
Confidence 122347788888888877755542 222111 23455555554 348899999999999987765552 1
Q ss_pred hH--HHHHHHHH-HHHHHhhc---cccCHHHHHHHhCCC------hHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 298 VL--DRAMIEHN-LLSASKLY---TNISFEELGTLLGIA------PQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 298 ~L--~~~v~EhN-l~~is~~Y---~~Isl~~La~ll~ls------~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+| .+-+.=+| +..+.+.- +++.++++-..+... .+++|-+++.+|.+|+|+|.|+.....++|..
T Consensus 308 ~l~~l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgYish~~~~~V~sK 384 (394)
T KOG2688|consen 308 TLEKLPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGYISHQLQTLVFSK 384 (394)
T ss_pred HhhhhhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccchhchhhheEEEec
Confidence 11 23333344 33455555 888999988877653 69999999999999999999999999888865
No 19
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.05 E-value=0.0033 Score=66.30 Aligned_cols=66 Identities=24% Similarity=0.468 Sum_probs=59.2
Q ss_pred hhHHHHHHHHHH----HHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 297 TVLDRAMIEHNL----LSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 297 ~~L~~~v~EhNl----~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+-|.++|.|.-| ..+|.+|.+||++.||++|.||...|=.++++||.+.-|.|+.||+.++|.|.+
T Consensus 694 ~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hr 763 (843)
T KOG1076|consen 694 DMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHR 763 (843)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEee
Confidence 345677777654 467888999999999999999999999999999999999999999999999987
No 20
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=97.99 E-value=0.00055 Score=67.50 Aligned_cols=232 Identities=16% Similarity=0.190 Sum_probs=147.9
Q ss_pred hcHHHHHHHHhhchh---ccCCCCCchhHHHHHH---HHHHHHHhhcCChHHHHHHHHHhcccc-cCc--chHHHHHHHH
Q 015984 110 QQWSKAAQMLSGIDL---DSGMRVIDDTFRLSKC---VQIARLYLEDDDAVNAEAFINKASFLV-SSS--QQEVLNLQYK 180 (397)
Q Consensus 110 ~d~~~Aa~~L~~i~~---et~~~~~~~~~kle~~---L~i~Rl~L~~~d~~~A~~~l~ka~~~~-~~~--~~~~l~~~~~ 180 (397)
...+++.+++..+-- +-..-.+.+..|.-.| -....+|+..+.+.-++.+++.-...- .+. ....-...|.
T Consensus 144 d~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~~~~~sq~v~f~ 223 (413)
T COG5600 144 DNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVFH 223 (413)
T ss_pred hhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeehh
Confidence 456677777766432 1101123445554433 455788999999999988877644411 111 1223356788
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCC-CCHHHHHHHHHHHHHHHHhcCC-CCcchHHHHhhhhchhhcccc
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQIQKRQIGDET-IDEEALEQALSAAVTCTILAAA-GPQRSRVLATLYKDERCSKLK 258 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~-~~~~~~~~~L~~av~~~ILa~~-~~~rs~ll~~l~~d~~~~~l~ 258 (397)
.|.|++|..+++|.+|.-.+.++|.. .+. +.. .+...+-+.+..++|-.. .|-+. +|.+- ++ ..
T Consensus 224 YYLG~~~l~~en~heA~~~L~~aFl~------c~~l~~~-n~~rIl~~~ipt~Llv~~~~Ptk~-~L~r~---~~---~s 289 (413)
T COG5600 224 YYLGIYYLLNENFHEAFLHLNEAFLQ------CPWLITR-NRKRILPYYIPTSLLVNKFPPTKD-LLERF---KR---CS 289 (413)
T ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHh------Chhhhhc-chheehhHHhhHHHHhCCCCCchH-HHHhc---cc---cc
Confidence 89999999999999999999999874 222 211 123355566666666543 34443 43332 11 34
Q ss_pred chHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch----hhHHHHHHHHHHHHHHhhc------cc--cCHHHHHHH
Q 015984 259 IYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF----TVLDRAMIEHNLLSASKLY------TN--ISFEELGTL 326 (397)
Q Consensus 259 ~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~----~~L~~~v~EhNl~~is~~Y------~~--Isl~~La~l 326 (397)
.|.-|.++-- .++++.|+..|+.|...+.+-|. .....-|.-.|+.+ +.| ++ .++-.++..
T Consensus 290 ~~~~Lvkavr-----sGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~r--k~w~~~~~qsrlp~sil~~~~q 362 (413)
T COG5600 290 VYSPLVKAVR-----SGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFR--KIWRLHGKQSRLPLSILLIVLQ 362 (413)
T ss_pred hhHHHHHHHH-----cCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHH--HHHhhccccccCcHHHHHHHHH
Confidence 5777776654 48999999999999877655442 22233444455544 332 33 334445555
Q ss_pred hCC-C----hHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 327 LGI-A----PQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 327 l~l-s----~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+.. + .+++|-.++.||..|.|.|.|-.-...|+|..
T Consensus 363 ls~~dn~~~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk 403 (413)
T COG5600 363 LSAIDNFHSFKEVECILVTLIGLGLLRGYISHSRRTVVFSK 403 (413)
T ss_pred ccCCCcccChHHHHHHHHHHHhhhhhhheecccceEEEEec
Confidence 543 3 78999999999999999999999999999976
No 21
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=97.66 E-value=0.0068 Score=58.88 Aligned_cols=245 Identities=17% Similarity=0.164 Sum_probs=127.8
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc--
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-- 170 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-- 170 (397)
.++...-.++|++..+.|+|..|+..|---+.-+ ...+....-..|=.-+- -+...||..|..-++|....+...
T Consensus 126 ~e~i~~lykyakfqyeCGNY~gAs~yLY~~r~l~--~~~d~n~lsalwGKlAS-EIL~qnWd~A~edL~rLre~IDs~~f 202 (432)
T KOG2758|consen 126 PERIETLYKYAKFQYECGNYSGASDYLYFYRALV--SDPDRNYLSALWGKLAS-EILTQNWDGALEDLTRLREYIDSKSF 202 (432)
T ss_pred HHHHHHHHHHHHHHHhccCcccHHHHHHHHHHhc--CCcchhhHHHHHHHHHH-HHHHhhHHHHHHHHHHHHHHHccccc
Confidence 3434556889999999999999999987755433 12222232223321111 112346777777777755554332
Q ss_pred --c-----------hHHHHHHHHHHHHHHHHHHHhHHHHHH---HHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHh
Q 015984 171 --Q-----------QEVLNLQYKVCYARILDLKRKFLEAAL---RYYDISQIQKRQIGDETIDEEALEQALSAAVTCTIL 234 (397)
Q Consensus 171 --~-----------~~~l~~~~~~~~~~~~~~~r~f~~Aa~---~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~IL 234 (397)
+ +|.+-.-|..-.|+ ....++.- -|..+..+.+ -..|.|+.++.|.
T Consensus 203 ~~~~~~l~qRtWLiHWslfv~fnhpkgr-----d~iid~fly~p~YLNaIQt~c-------------PhllRYLatAvvt 264 (432)
T KOG2758|consen 203 STSAQQLQQRTWLIHWSLFVFFNHPKGR-----DTIIDMFLYQPPYLNAIQTSC-------------PHLLRYLATAVVT 264 (432)
T ss_pred ccHHHHHHHHHHHHHHHHHhhccCCChh-----hHHHHHHccCHHHHHHHHhhC-------------HHHHHHHHHHhhc
Confidence 1 22222222222222 11112111 1344444321 1356666666555
Q ss_pred cCCCCcchHHH--HhhhhchhhccccchHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch-hhHHHHHHHHH-HHH
Q 015984 235 AAAGPQRSRVL--ATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF-TVLDRAMIEHN-LLS 310 (397)
Q Consensus 235 a~~~~~rs~ll--~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~-~~L~~~v~EhN-l~~ 310 (397)
.. ...|.++. -++...++ -.|+.=..-|+.-++-.-+.+.-.+.|+.-+.-+..|.+ ..+..-++|.- +..
T Consensus 265 nk-~~rr~~lkdlvkVIqqE~----ysYkDPiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~i 339 (432)
T KOG2758|consen 265 NK-RRRRNRLKDLVKVIQQES----YSYKDPITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLI 339 (432)
T ss_pred ch-HhhHHHHHHHHHHHHHhc----cccCCcHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHH
Confidence 32 12222221 11111111 012222222222222223333223344444444445554 22233333322 221
Q ss_pred ---HHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc
Q 015984 311 ---ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 363 (397)
Q Consensus 311 ---is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~ 363 (397)
+-+.-++||++-||..|+++++++|.-+..+|.+-||.|+||...|-|..+.+
T Consensus 340 fEtfCRIHqcIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg~~ 395 (432)
T KOG2758|consen 340 FETFCRIHQCITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMGHP 395 (432)
T ss_pred HHHHHHHHHheeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeecCC
Confidence 22335899999999999999999999999999999999999999999888763
No 22
>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=97.34 E-value=0.062 Score=54.55 Aligned_cols=189 Identities=16% Similarity=0.173 Sum_probs=106.6
Q ss_pred chhHHHHHH--HHHHHHHhhcCChHHHHHHHHHhcccccC--cchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 132 DDTFRLSKC--VQIARLYLEDDDAVNAEAFINKASFLVSS--SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 132 ~~~~kle~~--L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~--~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
+....+-+. +-.+|++...|||..|-..+.-+...... ...+.-....+.+.|--|+.-|+|.+|.+.|..++...
T Consensus 115 ~l~~~LGYFSligLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi 194 (404)
T PF10255_consen 115 PLYKMLGYFSLIGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYI 194 (404)
T ss_pred cHHHHhhHHHHHHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445554 55699999999999999887775431111 12344455566668889999999999999998877533
Q ss_pred hhhc-----CCCCCC----HHHHHHHHHHHHHHHHhcCCC--CcchHHHHhhhhchhhccccchHHHHHHHHHhhcChhh
Q 015984 208 KRQI-----GDETID----EEALEQALSAAVTCTILAAAG--PQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPE 276 (397)
Q Consensus 208 ~~~~-----~~~~~~----~~~~~~~L~~av~~~ILa~~~--~~rs~ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~ 276 (397)
...- .+..-| ..|++.+ .+.+|..|+|.- ..-+..+...+.|.- .+| ..++
T Consensus 195 ~r~k~~~~~~~~q~d~i~K~~eqMya--LlAic~~l~p~~lde~i~~~lkeky~ek~----------~km------q~gd 256 (404)
T PF10255_consen 195 QRTKNQYHQRSYQYDQINKKNEQMYA--LLAICLSLCPQRLDESISSQLKEKYGEKM----------EKM------QRGD 256 (404)
T ss_pred HHhhhhhccccchhhHHHhHHHHHHH--HHHHHHHhCCCCCCHHHHHHHHHHHHHHH----------HHH------HccC
Confidence 3110 011111 2344444 377888887742 122222332333210 000 0123
Q ss_pred HHHHHHHhch-hhhhhCC---------------Cch----hhHHHHHHH----HHHHHHHhhccccCHHHHHHHhCCChH
Q 015984 277 IDAFAEELKP-HQKALLP---------------DNF----TVLDRAMIE----HNLLSASKLYTNISFEELGTLLGIAPQ 332 (397)
Q Consensus 277 l~~F~~~L~~-h~~~~~~---------------d~~----~~L~~~v~E----hNl~~is~~Y~~Isl~~La~ll~ls~~ 332 (397)
++.|++.+.. -.+|+.+ |+. ..+.+.|.+ -+|+.+-|.|++|+++-||.+++++++
T Consensus 257 ~~~f~elF~~acPKFIsp~~pp~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~ 336 (404)
T PF10255_consen 257 EEAFEELFSFACPKFISPVSPPDYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEE 336 (404)
T ss_pred HHHHHHHHHhhCCCccCCCCCCCcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHH
Confidence 3333322210 0011110 121 233344443 488999999999999999999999988
Q ss_pred HHHHHH
Q 015984 333 KAEKIA 338 (397)
Q Consensus 333 ~~E~~l 338 (397)
++-..+
T Consensus 337 ~lr~~L 342 (404)
T PF10255_consen 337 ELRSQL 342 (404)
T ss_pred HHHHHH
Confidence 555444
No 23
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.27 E-value=0.0026 Score=55.06 Aligned_cols=95 Identities=16% Similarity=0.139 Sum_probs=77.8
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
-...+|+.+...|++++|...|..+.-.+ -++..+-...++.+++++..+++..|...++.+. ++....
T Consensus 50 A~l~lA~~~~~~g~~~~A~~~l~~~~~~~----~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-------~~~~~~ 118 (145)
T PF09976_consen 50 AALQLAKAAYEQGDYDEAKAALEKALANA----PDPELKPLARLRLARILLQQGQYDEALATLQQIP-------DEAFKA 118 (145)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhhC----CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc-------CcchHH
Confidence 35679999999999999999999976432 3455566778899999999999999999997732 233456
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHH
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDI 203 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~ 203 (397)
.+....|.++...+++.+|-..|..+
T Consensus 119 ~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 119 LAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 68889999999999999999998764
No 24
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.19 E-value=0.0077 Score=58.29 Aligned_cols=188 Identities=15% Similarity=0.146 Sum_probs=111.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCc-hhHHHHHHHHHHHHHhhc-CChHHHHHHHHHhcccccCcchHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID-DTFRLSKCVQIARLYLED-DDAVNAEAFINKASFLVSSSQQEV 174 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~-~~~kle~~L~i~Rl~L~~-~d~~~A~~~l~ka~~~~~~~~~~~ 174 (397)
..-...+.+|.+. ++.+|.+.+.... +. +...+ ...-...+..++++|-.. +|+.+|-.++.+|.......+.+.
T Consensus 76 ~~~~~Aa~~~k~~-~~~~Ai~~~~~A~-~~-y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~ 152 (282)
T PF14938_consen 76 KAYEEAANCYKKG-DPDEAIECYEKAI-EI-YREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPH 152 (282)
T ss_dssp HHHHHHHHHHHHT-THHHHHHHHHHHH-HH-HHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HH
T ss_pred HHHHHHHHHHHhh-CHHHHHHHHHHHH-HH-HHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChh
Confidence 3334455555444 6666666665422 11 12222 234566777888888888 899999999999999887666777
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhh-hchh
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLY-KDER 253 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~-~d~~ 253 (397)
.-.....-.|.++...++|.+|...|-++...... .+..... ....+-.+++|.+..+-...=...+.+.. .||.
T Consensus 153 ~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~---~~l~~~~-~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~ 228 (282)
T PF14938_consen 153 SAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLE---NNLLKYS-AKEYFLKAILCHLAMGDYVAARKALERYCSQDPS 228 (282)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCC---HCTTGHH-HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhc---ccccchh-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence 77888888999999999999999999888764320 1112223 23344457778777643222223334433 2555
Q ss_pred hccccc---hHHHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCch
Q 015984 254 CSKLKI---YPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNF 296 (397)
Q Consensus 254 ~~~l~~---~~~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~ 296 (397)
+..-.. ...|..+|.+ ++.+.|...+..+.....=|+|
T Consensus 229 F~~s~E~~~~~~l~~A~~~-----~D~e~f~~av~~~d~~~~ld~w 269 (282)
T PF14938_consen 229 FASSREYKFLEDLLEAYEE-----GDVEAFTEAVAEYDSISRLDNW 269 (282)
T ss_dssp STTSHHHHHHHHHHHHHHT-----T-CCCHHHHCHHHTTSS---HH
T ss_pred CCCcHHHHHHHHHHHHHHh-----CCHHHHHHHHHHHcccCccHHH
Confidence 433333 3455566654 7777888888877655445666
No 25
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.69 E-value=0.4 Score=51.97 Aligned_cols=249 Identities=18% Similarity=0.213 Sum_probs=142.3
Q ss_pred HHHHHHhhhcHHHHHHHHhhchhccC-----C---CCCchhHH----HHHHHHHHHHHhhcCChHHHHHHHHHhccccc-
Q 015984 102 LADLYESEQQWSKAAQMLSGIDLDSG-----M---RVIDDTFR----LSKCVQIARLYLEDDDAVNAEAFINKASFLVS- 168 (397)
Q Consensus 102 La~~~e~~~d~~~Aa~~L~~i~~et~-----~---~~~~~~~k----le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~- 168 (397)
.+--|-....|...+.+|.. |++.- + -.+++.+- ++.-+.|.-...+.+=|..|-..+.-+-.++.
T Consensus 186 FCLkYqRktEFRrLCe~LR~-HL~~i~k~~nq~~~v~Ln~~Etlql~LDtRf~QLdvAi~lELWQEAyrSiEDIhgLm~l 264 (988)
T KOG2072|consen 186 FCLKYQRKTEFRRLCELLRM-HLDNINKHQNQSTRVDLNDPETLQLYLDTRFQQLDVAIELELWQEAYRSIEDIHGLMKL 264 (988)
T ss_pred HHHHHhhhHHHHHHHHHHHH-HHHHHHHhhccCcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445556667666666543 32210 0 12333333 44446666666777778888777777655442
Q ss_pred --CcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCC--------
Q 015984 169 --SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-------- 238 (397)
Q Consensus 169 --~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~-------- 238 (397)
..+-|.+.+.||.-.+.++--.+|++==|..++..|...... ....+.++....-..++++++--|-.
T Consensus 265 SKrtPkp~~laNYY~KL~~VF~~sgn~LfHAaAw~k~f~l~k~~--~K~~Tqde~q~~as~VlLaaLSIP~~~~~~~~~r 342 (988)
T KOG2072|consen 265 SKRTPKPSTLANYYEKLAKVFWKSGNPLFHAAAWLKLFKLYKNM--NKNLTQDELQRMASRVLLAALSIPIPDARSDSAR 342 (988)
T ss_pred hcCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHh--cccccHHHHHHHHHHHHHHHhcCCCCCccccccc
Confidence 236788889999999988888888775444444444322100 23344444333333344444433321
Q ss_pred ------------------------CcchHHHHhhhhchhhcc-----c-cchHHHHHHHHHhhcChhhHHHHHHHhchhh
Q 015984 239 ------------------------PQRSRVLATLYKDERCSK-----L-KIYPILQKVYLERILRKPEIDAFAEELKPHQ 288 (397)
Q Consensus 239 ------------------------~~rs~ll~~l~~d~~~~~-----l-~~~~~L~k~f~~~ii~~~~l~~F~~~L~~h~ 288 (397)
|.|..|++.+.. ..+.+ + +.|.+|+--|. +-.+. +-+++--
T Consensus 343 ~~e~e~~~~ek~~rla~LL~L~~~PTR~~ll~e~v~-~gV~~~v~qe~kdLY~iLEveF~-----PL~l~---k~lq~ll 413 (988)
T KOG2072|consen 343 LIEIEDIGKEKNLRLANLLGLPAPPTRKGLLKEAVR-EGVLSKVDQEVKDLYNILEVEFH-----PLKLC---KKLQPLL 413 (988)
T ss_pred ccccccchhhHHHHHHHHhCCCCCccHHHHHHHHHH-hccHhhhhHHHHHHHHHHHhcCC-----HHHHH---HHHHHHH
Confidence 222222222211 00000 0 01222222221 11111 1122211
Q ss_pred hhhCCCc-----hhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCC-ChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 289 KALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 289 ~~~~~d~-----~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~l-s~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
..+...| ...|...++-.-+..+|+.|.+|++++|-++.-+ ++-++|+.+.+....+-+..+||...+.|.|.+
T Consensus 414 ~~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 414 DKLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred HHHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeecc
Confidence 1222211 1456777777778889999999999999998876 899999999999999999999999999999984
No 26
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.17 E-value=0.096 Score=50.63 Aligned_cols=112 Identities=18% Similarity=0.203 Sum_probs=85.5
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcch
Q 015984 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (397)
Q Consensus 94 q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~ 172 (397)
..+.+-.+-|..|-..|+|.+|+..+...- +. +..+.+.. -...+..-+.+|-. .|+..|..++++|....-..++
T Consensus 33 ~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa-~~-~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G~ 109 (282)
T PF14938_consen 33 EAADLYEKAANCFKLAKDWEKAAEAYEKAA-DC-YEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAGR 109 (282)
T ss_dssp HHHHHHHHHHHHHHHTT-CHHHHHHHHHHH-HH-HHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT-
T ss_pred HHHHHHHHHHHHHHHHhccchhHHHHHHHH-HH-HHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcCc
Confidence 446888899999999999999999888742 22 22244444 45555555555544 4999999999999998877788
Q ss_pred HHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHhhh
Q 015984 173 EVLNLQYKVCYARILDLK-RKFLEAALRYYDISQIQK 208 (397)
Q Consensus 173 ~~l~~~~~~~~~~~~~~~-r~f~~Aa~~y~e~~~~~~ 208 (397)
+..-.+...-.|.+|... +++.+|..+|..+...+.
T Consensus 110 ~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~ 146 (282)
T PF14938_consen 110 FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYE 146 (282)
T ss_dssp HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 999999999999999999 999999999999998765
No 27
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=95.72 E-value=0.17 Score=37.37 Aligned_cols=94 Identities=16% Similarity=0.021 Sum_probs=72.1
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
...+|..+...|++.+|.+.+....... +... ..+.....++...+++..|..+++++...... ++ .
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~ 69 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD-----PDNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPD--NA----K 69 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC-----CccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--ch----h
Confidence 3568899999999999999998865322 1111 66788888999999999999999998765433 22 4
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.....|.++...+++.+|...|..+..
T Consensus 70 ~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 70 AYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 556778888899999998888877665
No 28
>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=95.58 E-value=0.094 Score=42.43 Aligned_cols=104 Identities=10% Similarity=-0.065 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|..+...|++.+|.+.+..+.-.. -+.....+.++...+++...+++..|..+++++....... + ..
T Consensus 3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~-~~ 75 (119)
T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKY----PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS--P-KA 75 (119)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC----CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC--C-cc
Confidence 345778999999999999999998875322 1222345677889999999999999999999987654321 1 11
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
.......|.++...+++.+|...|.++...+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 76 PDALLKLGMSLQELGDKEKAKATLQQVIKRY 106 (119)
T ss_pred cHHHHHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence 2345667788889999999999999998864
No 29
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=95.46 E-value=1.7 Score=38.54 Aligned_cols=168 Identities=15% Similarity=0.118 Sum_probs=100.7
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHH
Q 015984 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLI 97 (397)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~ 97 (397)
...|..+-......++.+.-...++..+...-.-......+..+....+ ..+...+....+++.. +. ...
T Consensus 31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~--~~~~A~~~~~~al~~~-~~-------~~~ 100 (234)
T TIGR02521 31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLG--ELEKAEDSFRRALTLN-PN-------NGD 100 (234)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhhC-CC-------CHH
Confidence 4456666666666677655555555544332111111112221111111 2233344444444432 11 124
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
....++.+|...|++++|.+.+....-.. ........+......+...+++..|..++.++...... ++
T Consensus 101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~---- 169 (234)
T TIGR02521 101 VLNNYGTFLCQQGKYEQAMQQFEQAIEDP-----LYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ--RP---- 169 (234)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHhcc-----ccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--Ch----
Confidence 56778999999999999999988865211 11123445666788899999999999999998765432 22
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..+...|.++...++|.+|...|.+....
T Consensus 170 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 170 ESLLELAELYYLRGQYKDARAYLERYQQT 198 (234)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 23446788889999999998888877764
No 30
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=95.45 E-value=0.44 Score=49.96 Aligned_cols=135 Identities=16% Similarity=0.130 Sum_probs=102.8
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchh--ccCCCCCchhHHHHHHHHHHHHH
Q 015984 70 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDL--DSGMRVIDDTFRLSKCVQIARLY 147 (397)
Q Consensus 70 ~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~--et~~~~~~~~~kle~~L~i~Rl~ 147 (397)
-+....+|+.+++.+..++-.-..-++.....+|.+|...+++.+|..++.+..- +..+|. +...-..++...+-+|
T Consensus 215 ~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~-~h~~va~~l~nLa~ly 293 (508)
T KOG1840|consen 215 LEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE-DHPAVAATLNNLAVLY 293 (508)
T ss_pred HHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHH
Confidence 4566788888888875555533444556667799999999999999999987542 322454 4456778888999999
Q ss_pred hhcCChHHHHHHHHHhcccccC---cchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 148 LEDDDAVNAEAFINKASFLVSS---SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 148 L~~~d~~~A~~~l~ka~~~~~~---~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...+++..|+.++.+|..+... ..++++...+- ..+-++.+.++|.+|-.+|..++..
T Consensus 294 ~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~-~~~~~~~~~~~~Eea~~l~q~al~i 354 (508)
T KOG1840|consen 294 YKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLS-ELAAILQSMNEYEEAKKLLQKALKI 354 (508)
T ss_pred hccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHH-HHHHHHHHhcchhHHHHHHHHHHHH
Confidence 9999999999999998877755 34666655554 4566789999999999999776664
No 31
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=95.24 E-value=1.9 Score=47.45 Aligned_cols=130 Identities=19% Similarity=0.137 Sum_probs=90.6
Q ss_pred HHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHH-HhhchhccCCCCCch
Q 015984 55 RQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQM-LSGIDLDSGMRVIDD 133 (397)
Q Consensus 55 r~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~-L~~i~~et~~~~~~~ 133 (397)
|++|...-..+..=+.+...++|.++|... |+.. .=...||.+||..||.++|... |..-+ +.+
T Consensus 140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~-------~ay~tL~~IyEqrGd~eK~l~~~llAAH-------L~p 204 (895)
T KOG2076|consen 140 RQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNP-------IAYYTLGEIYEQRGDIEKALNFWLLAAH-------LNP 204 (895)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccch-------hhHHHHHHHHHHcccHHHHHHHHHHHHh-------cCC
Confidence 344444333333334556677777776543 2221 2346799999999999988753 22223 344
Q ss_pred hHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 134 TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 134 ~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+.. ++|..-.-+....+++.+|.-+.+||-..-.. +|+ |+.-.+.+|...|++..|...|..++..
T Consensus 205 ~d~-e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~--n~~----~~~ers~L~~~~G~~~~Am~~f~~l~~~ 270 (895)
T KOG2076|consen 205 KDY-ELWKRLADLSEQLGNINQARYCYSRAIQANPS--NWE----LIYERSSLYQKTGDLKRAMETFLQLLQL 270 (895)
T ss_pred CCh-HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc--chH----HHHHHHHHHHHhChHHHHHHHHHHHHhh
Confidence 445 89999999999999999999999999776443 444 3334566778889999999999999985
No 32
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=95.12 E-value=0.14 Score=44.33 Aligned_cols=63 Identities=22% Similarity=0.365 Sum_probs=44.8
Q ss_pred hhHHHHHHHhchh-----hhhhCCCchhhHHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHh
Q 015984 275 PEIDAFAEELKPH-----QKALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRM 341 (397)
Q Consensus 275 ~~l~~F~~~L~~h-----~~~~~~d~~~~L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~m 341 (397)
++..+|-..++.+ ...+ ...|...+++.-+..+++.|++|+++.+++.||++.+++++.+.+-
T Consensus 54 ~~~~~~~~~~~~~~~~~~~~~~----v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~ 121 (143)
T PF10075_consen 54 GDYSKFWQALRSNPWSPDYKPF----VPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSR 121 (143)
T ss_dssp T-HHHHHHHS-TT----HHHHT----STTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHH
T ss_pred CCHHHHHHHHHhccchHHHHHH----HHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHc
Confidence 6666666655543 1111 2568899999999999999999999999999999988877777665
No 33
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=95.02 E-value=0.13 Score=39.03 Aligned_cols=71 Identities=15% Similarity=0.013 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc-hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 136 kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~-~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
-...+.....+|...+++.+|..+++++.......+ +....+..+...|.++...++|.+|-.+|.+++..
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 356788899999999999999999999988843333 33445888999999999999999999999888764
No 34
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=94.96 E-value=1.7 Score=37.24 Aligned_cols=131 Identities=19% Similarity=0.221 Sum_probs=80.2
Q ss_pred HHHHHHHHHhhcCCCHHHHHHHHHHHhcCCcchhhhHHHHHHHHHH-hCCCChHHHHHHHHHHHHhhccccchHHHHHHH
Q 015984 19 EQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQE-LGRLEPETQKEIANYTLAQIQPRVVSFEEQVLI 97 (397)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~-l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~ 97 (397)
..|..++... ..++...+...++.+..+.-+-.-.....-.+... +..=.-+.-++....+++.. +.. -... .
T Consensus 13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~--~l~~--~ 86 (145)
T PF09976_consen 13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDP--ELKP--L 86 (145)
T ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCH--HHHH--H
Confidence 4677777666 46677777777777775544332121111112222 22223333444444444432 111 1123 4
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHh
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 163 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka 163 (397)
.+.+||.++...|+|++|.+.|..++-+ ..+-.+......+|+..||+.+|...+.+|
T Consensus 87 a~l~LA~~~~~~~~~d~Al~~L~~~~~~--------~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 87 ARLRLARILLQQGQYDEALATLQQIPDE--------AFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHhccCc--------chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 5678999999999999999999774322 234456777889999999999999998876
No 35
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.65 E-value=2.6 Score=43.59 Aligned_cols=137 Identities=18% Similarity=0.094 Sum_probs=100.0
Q ss_pred HHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHh-hhcHHHHHHHHhhchhccCCCCCch--
Q 015984 57 LLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYES-EQQWSKAAQMLSGIDLDSGMRVIDD-- 133 (397)
Q Consensus 57 ~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~-~~d~~~Aa~~L~~i~~et~~~~~~~-- 133 (397)
-|-.+.+++++..+ ..+..|..|++.+-+-.++|+.+ ++...+|+.++.. ..+++-|-.-|+.--.=+ +.++.
T Consensus 9 aLlGlAe~~rt~~P-PkIkk~IkClqA~~~~~is~~ve-art~LqLg~lL~~yT~N~elAksHLekA~~i~--~~ip~fy 84 (629)
T KOG2300|consen 9 ALLGLAEHFRTSGP-PKIKKCIKCLQAIFQFQISFLVE-ARTHLQLGALLLRYTKNVELAKSHLEKAWLIS--KSIPSFY 84 (629)
T ss_pred HHHHHHHHHhhcCC-hhHHHHHHHHHHHhccCChHHHH-HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH--cccccHH
Confidence 35567788887632 23566789999999999999977 7889999998765 445555555544422211 22222
Q ss_pred hHHHHHHHHHHHHHhhcC-ChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 015984 134 TFRLSKCVQIARLYLEDD-DAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALR 199 (397)
Q Consensus 134 ~~kle~~L~i~Rl~L~~~-d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~ 199 (397)
+.|.+.+-..+.+|+..+ .++.|+..++|+-..-.. .|-+-.++-...|.++..++||..|...
T Consensus 85 dvKf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq~--~p~wsckllfQLaql~~idkD~~sA~el 149 (629)
T KOG2300|consen 85 DVKFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQS--VPYWSCKLLFQLAQLHIIDKDFPSALEL 149 (629)
T ss_pred hhhhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcC--CchhhHHHHHHHHHHHhhhccchhHHHH
Confidence 458888888888888777 999999999999887766 4455566666688899999999998876
No 36
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=94.60 E-value=0.073 Score=40.22 Aligned_cols=46 Identities=20% Similarity=0.237 Sum_probs=34.9
Q ss_pred HHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCC
Q 015984 310 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVE 355 (397)
Q Consensus 310 ~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~ 355 (397)
.+.+--.++|+.+||..|++|++.+|.+|..+|..|+|.-.-+...
T Consensus 7 ~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~~ 52 (69)
T PF09012_consen 7 DYLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSSC 52 (69)
T ss_dssp HHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE--
T ss_pred HHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCCC
Confidence 3344458999999999999999999999999999999986555443
No 37
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=94.04 E-value=1.1 Score=39.63 Aligned_cols=106 Identities=8% Similarity=-0.054 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc-hHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVL 175 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~-~~~l 175 (397)
.....+|..|...|++++|...+....-.. . +.......+.....++...+++.+|..++.++........ ....
T Consensus 36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~ 111 (172)
T PRK02603 36 FVYYRDGMSAQADGEYAEALENYEEALKLE--E--DPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNN 111 (172)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--h--ccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHH
Confidence 566889999999999999999998754221 1 1223467888999999999999999999999877543311 1122
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
....+...|+.....+++..|-.+|.++...
T Consensus 112 lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~ 142 (172)
T PRK02603 112 IAVIYHKRGEKAEEAGDQDEAEALFDKAAEY 142 (172)
T ss_pred HHHHHHHcCChHhHhhCHHHHHHHHHHHHHH
Confidence 3333444444444555666666655555443
No 38
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=93.79 E-value=7.7 Score=38.42 Aligned_cols=100 Identities=14% Similarity=0.128 Sum_probs=48.0
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
....|+.+|...|+|++|.+.+..+.... ..........++...+++++..+++..|..+++++...... +.
T Consensus 143 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~--~~---- 214 (389)
T PRK11788 143 ALQQLLEIYQQEKDWQKAIDVAERLEKLG--GDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ--CV---- 214 (389)
T ss_pred HHHHHHHHHHHhchHHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC--CH----
Confidence 34455555666666666655555543211 00011122334445555556666666666666655433211 11
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
..+...|.++...++|.+|...|.++..
T Consensus 215 ~~~~~la~~~~~~g~~~~A~~~~~~~~~ 242 (389)
T PRK11788 215 RASILLGDLALAQGDYAAAIEALERVEE 242 (389)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 1233455555566666666655555554
No 39
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=93.66 E-value=0.32 Score=36.84 Aligned_cols=70 Identities=14% Similarity=0.071 Sum_probs=54.8
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCch--hHHHHHHHHHHHHHhhcCChHHHHHHHHHhccc
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD--TFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~--~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~ 166 (397)
.+.+...+|.+|...|+|++|.+.+....-- .+.+++ ...+..+..+..+|...+|+..|..+++++-..
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDI--EEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--HHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 4567788999999999999999998874321 122332 246889999999999999999999999998654
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=93.65 E-value=0.81 Score=40.71 Aligned_cols=100 Identities=17% Similarity=0.091 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH
Q 015984 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 94 q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~ 173 (397)
..+.....+|..|...|++++|...+....... ......+.....+|...+++.+|..+++++...... ++
T Consensus 29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-------p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~--~~ 99 (234)
T TIGR02521 29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-------PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN--NG 99 (234)
T ss_pred cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC--CH
Confidence 345777889999999999999999988754221 112467778899999999999999999998765433 22
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
......|.++...++|.+|...|..+...
T Consensus 100 ----~~~~~~~~~~~~~g~~~~A~~~~~~~~~~ 128 (234)
T TIGR02521 100 ----DVLNNYGTFLCQQGKYEQAMQQFEQAIED 128 (234)
T ss_pred ----HHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence 24455688889999999999999888763
No 41
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=93.64 E-value=0.36 Score=37.32 Aligned_cols=83 Identities=13% Similarity=0.069 Sum_probs=59.1
Q ss_pred hhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHH
Q 015984 108 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 187 (397)
Q Consensus 108 ~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~ 187 (397)
+.|+|++|...+..+.-.. .. ...-.+++..++.|...+++.+|-.++++ .. . ...+ .......|+.+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~--~~---~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~-~~~~----~~~~~l~a~~~ 68 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELD--PT---NPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK-L-DPSN----PDIHYLLARCL 68 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHH--CG---THHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT-H-HHCH----HHHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHC--CC---ChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC-C-CCCC----HHHHHHHHHHH
Confidence 3689999999999976544 11 12556788899999999999999999999 11 1 1112 22333459999
Q ss_pred HHHHhHHHHHHHHHH
Q 015984 188 DLKRKFLEAALRYYD 202 (397)
Q Consensus 188 ~~~r~f~~Aa~~y~e 202 (397)
...++|.+|-..|.+
T Consensus 69 ~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 69 LKLGKYEEAIKALEK 83 (84)
T ss_dssp HHTT-HHHHHHHHHH
T ss_pred HHhCCHHHHHHHHhc
Confidence 999999999888764
No 42
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.61 E-value=1.2 Score=41.91 Aligned_cols=140 Identities=16% Similarity=0.063 Sum_probs=102.1
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcch
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~ 172 (397)
.+.+..+..||-=|.+.||+..|.+-|.+-. +. |..--..|+--+-+|-..++.+.|...+.||...-.. +
T Consensus 32 ~~aa~arlqLal~YL~~gd~~~A~~nlekAL-~~------DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~--~ 102 (250)
T COG3063 32 NEAAKARLQLALGYLQQGDYAQAKKNLEKAL-EH------DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN--N 102 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH-Hh------CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC--c
Confidence 4556889999999999999999998887733 21 2233456777888899999999999999999887665 4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCC-CcchHHHHhhhhc
Q 015984 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYKD 251 (397)
Q Consensus 173 ~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~-~~rs~ll~~l~~d 251 (397)
-++.+. +|-.++.+++|.+|.++|..+...+. +++.. ..+.++.+|++=++.. .-+..+...+..|
T Consensus 103 GdVLNN----YG~FLC~qg~~~eA~q~F~~Al~~P~----Y~~~s-----~t~eN~G~Cal~~gq~~~A~~~l~raL~~d 169 (250)
T COG3063 103 GDVLNN----YGAFLCAQGRPEEAMQQFERALADPA----YGEPS-----DTLENLGLCALKAGQFDQAEEYLKRALELD 169 (250)
T ss_pred cchhhh----hhHHHHhCCChHHHHHHHHHHHhCCC----CCCcc-----hhhhhhHHHHhhcCCchhHHHHHHHHHHhC
Confidence 444444 45566889999999999999998543 33322 2566899999976643 3444445556667
Q ss_pred hhh
Q 015984 252 ERC 254 (397)
Q Consensus 252 ~~~ 254 (397)
+..
T Consensus 170 p~~ 172 (250)
T COG3063 170 PQF 172 (250)
T ss_pred cCC
Confidence 653
No 43
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=93.30 E-value=2.4 Score=37.16 Aligned_cols=109 Identities=11% Similarity=-0.148 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-chH
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQE 173 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~ 173 (397)
.+.....++..+...|++++|...+....... .+.......+.....+|...+++..|..++.++....... ..+
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~----~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~ 109 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLE----IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQAL 109 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc----ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHH
Confidence 34666888999999999999999988764322 1222345678889999999999999999999987664332 233
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
-.....+...|+.+...++|.+|-.+|.++...+
T Consensus 110 ~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~ 143 (168)
T CHL00033 110 NNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYW 143 (168)
T ss_pred HHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHH
Confidence 4456666666777778888887777776665543
No 44
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=93.18 E-value=0.84 Score=38.09 Aligned_cols=97 Identities=12% Similarity=-0.092 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|..+...|++.+|...+..+.- . ++ .-.+.+......+...+++..|..+++++...... +++
T Consensus 18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~-----~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~--~~~-- 86 (135)
T TIGR02552 18 EQIYALAYNLYQQGRYDEALKLFQLLAA-Y-----DP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD--DPR-- 86 (135)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHHHHH-h-----CC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--ChH--
Confidence 4457889999999999999999988532 1 11 12467778889999999999999999998665432 332
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
++...|.++...++|.+|...|..+...
T Consensus 87 --~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 87 --PYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred --HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3455778889999999999999888885
No 45
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=92.93 E-value=4.6 Score=39.89 Aligned_cols=79 Identities=22% Similarity=0.188 Sum_probs=66.5
Q ss_pred HHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHH
Q 015984 79 YTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEA 158 (397)
Q Consensus 79 ~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~ 158 (397)
..++.++..+-+||-+ ..|+++|-+.|+.+.|.++=+.+.. + ..++..+|+-......|=|+..|=+++|+.
T Consensus 57 lF~e~l~~d~~t~e~~-----ltLGnLfRsRGEvDRAIRiHQ~L~~-s--pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~ 128 (389)
T COG2956 57 LFLEMLQEDPETFEAH-----LTLGNLFRSRGEVDRAIRIHQTLLE-S--PDLTFEQRLLALQQLGRDYMAAGLLDRAED 128 (389)
T ss_pred HHHHHHhcCchhhHHH-----HHHHHHHHhcchHHHHHHHHHHHhc-C--CCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence 4456667788889888 7899999999999999999988553 3 357888999999999999999999999999
Q ss_pred HHHHhcc
Q 015984 159 FINKASF 165 (397)
Q Consensus 159 ~l~ka~~ 165 (397)
..+-...
T Consensus 129 ~f~~L~d 135 (389)
T COG2956 129 IFNQLVD 135 (389)
T ss_pred HHHHHhc
Confidence 8887543
No 46
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.82 E-value=11 Score=37.33 Aligned_cols=101 Identities=9% Similarity=-0.080 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH
Q 015984 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 94 q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~ 173 (397)
+.+.....+|..+...|++++|.+.+....--. + .-.+.++..++++...+++.+|..+++++...- |
T Consensus 178 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~------p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-----p 245 (389)
T PRK11788 178 EIAHFYCELAQQALARGDLDAARALLKKALAAD------P-QCVRASILLGDLALAQGDYAAAIEALERVEEQD-----P 245 (389)
T ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC------c-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-----h
Confidence 344556678999999999999999998854211 1 123466778899999999999999999987542 2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..........+..+...+++.+|...|..+...
T Consensus 246 ~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~ 278 (389)
T PRK11788 246 EYLSEVLPKLMECYQALGDEAEGLEFLRRALEE 278 (389)
T ss_pred hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 211223344577788889999999988887764
No 47
>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=92.76 E-value=3.1 Score=44.82 Aligned_cols=132 Identities=15% Similarity=0.093 Sum_probs=92.4
Q ss_pred HHHHHHHHHHhhc-cccchHHHHHHHHHHHHHHHHH-hhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhc
Q 015984 73 QKEIANYTLAQIQ-PRVVSFEEQVLIIREKLADLYE-SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED 150 (397)
Q Consensus 73 ~~~~~~~~l~~~~-~~~~~~e~q~~~l~~~La~~~e-~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~ 150 (397)
.+..+..||+.+. ..+.+- ++.++++.+||.+|. +..++++|-..|..-..=+ .+.-=.+.|.......+|++...
T Consensus 36 LI~~ai~CL~~~~~~~~l~p-~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~-~~~~~~d~k~~~~~ll~~i~~~~ 113 (608)
T PF10345_consen 36 LIATAIKCLEAVLKQFKLSP-RQEARVRLRLASILLEETENLDLAETYLEKAILLC-ERHRLTDLKFRCQFLLARIYFKT 113 (608)
T ss_pred HHHHHHHHHHHHhccCCCCH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-cccchHHHHHHHHHHHHHHHHhc
Confidence 3677788888876 556555 555899999999977 6789999999998654333 22212234555555669999888
Q ss_pred CChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 151 DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 151 ~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
+-.. |..+++++-.....-+...+...|+...+.++...+|+..|...+..+....
T Consensus 114 ~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a 169 (608)
T PF10345_consen 114 NPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLA 169 (608)
T ss_pred CHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh
Confidence 8777 9999999766554433334444555555656655589999999999988864
No 48
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=92.26 E-value=0.04 Score=58.30 Aligned_cols=107 Identities=19% Similarity=0.186 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcch
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~ 172 (397)
+++..+...-|+.+.++|++..|..+|..|... .+++..+.+..|..+++.+..+++..|...++....... .
T Consensus 21 ~~~~~~~L~Aa~a~l~~g~~~~A~~ll~~l~~~----~L~~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~~~~l---~ 93 (536)
T PF04348_consen 21 EQRAQLLLLAARALLQEGDWAQAQALLNQLDPQ----QLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDLWQL---P 93 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HhHHHHHHHHHHHHHhCCCHHHHHHHHHhcccc----cCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCcccC---C
Confidence 556688888899999999999999999998753 467888999999999999999999999999987433222 4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 173 ~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+....+|+...|.++...+++.+|++.+..+...
T Consensus 94 ~~~~~~~~~l~A~a~~~~~~~l~Aa~~~i~l~~l 127 (536)
T PF04348_consen 94 PEQQARYHQLRAQAYEQQGDPLAAARERIALDPL 127 (536)
T ss_dssp ----------------------------------
T ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence 5678899999999999999999999999887764
No 49
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=92.24 E-value=2.6 Score=44.32 Aligned_cols=133 Identities=14% Similarity=0.057 Sum_probs=93.7
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCC--CCchhHHHHHHHHHHHHHhhcC
Q 015984 74 KEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMR--VIDDTFRLSKCVQIARLYLEDD 151 (397)
Q Consensus 74 ~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~--~~~~~~kle~~L~i~Rl~L~~~ 151 (397)
+-+-+.++..-..-.-.--+.++..-..||..|...|+|.+|...+.... +-..+ ..+.++-...+...+-+|-..+
T Consensus 261 v~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al-~I~~~~~~~~~~~v~~~l~~~~~~~~~~~ 339 (508)
T KOG1840|consen 261 VNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERAL-EIYEKLLGASHPEVAAQLSELAAILQSMN 339 (508)
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHH-HHHHHhhccChHHHHHHHHHHHHHHHHhc
Confidence 44444444433222222335667888899999999999999987766532 11001 1244455666677788888899
Q ss_pred ChHHHHHHHHHhcccccCc--chHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 152 DAVNAEAFINKASFLVSSS--QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 152 d~~~A~~~l~ka~~~~~~~--~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
.+..|..++.++...+... .+.-.-..++.-+|..|...|+|.+|-..|-++....
T Consensus 340 ~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~ 397 (508)
T KOG1840|consen 340 EYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL 397 (508)
T ss_pred chhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 9999999999988777532 2333568899999999999999999999998888754
No 50
>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=92.07 E-value=11 Score=39.73 Aligned_cols=123 Identities=20% Similarity=0.158 Sum_probs=80.0
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhch--hccC--CC------CCchhHHHHH
Q 015984 70 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGID--LDSG--MR------VIDDTFRLSK 139 (397)
Q Consensus 70 ~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~--~et~--~~------~~~~~~kle~ 139 (397)
++-...+..++...++.|+.|+..-.- .+|....+..-..+++.+.. +++. .. .-++...+=+
T Consensus 124 ~~F~~~~~~yl~~~l~KgvPslF~~lk-------~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~ 196 (517)
T PF12569_consen 124 DEFKERLDEYLRPQLRKGVPSLFSNLK-------PLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWT 196 (517)
T ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHH-------HHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHH
Confidence 334555666666777888877766633 34443333222223333221 1110 11 1122234556
Q ss_pred HHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 140 CVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 140 ~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
+.-.++.|-..|++.+|-.++++|-..... ...+|...|+++.+.|++.+|+..+-++-.
T Consensus 197 ~~~lAqhyd~~g~~~~Al~~Id~aI~htPt------~~ely~~KarilKh~G~~~~Aa~~~~~Ar~ 256 (517)
T PF12569_consen 197 LYFLAQHYDYLGDYEKALEYIDKAIEHTPT------LVELYMTKARILKHAGDLKEAAEAMDEARE 256 (517)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhcCCC------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 677899999999999999999998776433 245899999999999999999999888776
No 51
>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=91.99 E-value=2.7 Score=42.85 Aligned_cols=129 Identities=19% Similarity=0.092 Sum_probs=90.7
Q ss_pred chhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCC
Q 015984 50 PLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMR 129 (397)
Q Consensus 50 ~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~ 129 (397)
+-.++--+++.+++.+..-+ +.+-+...++.+..+.. .+-..||++|...++-.+|.++|.+...+.
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~---~~~~ai~lle~L~~~~p-------ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~--- 230 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQ---RYDEAIELLEKLRERDP-------EVAVLLARVYLLMNEEVEAIRLLNEALKEN--- 230 (395)
T ss_pred CCCcchHHHHHHHHHHhhcc---cHHHHHHHHHHHHhcCC-------cHHHHHHHHHHhcCcHHHHHHHHHHHHHhC---
Confidence 34556777777777774432 24445555555544432 233458999888888999999999876543
Q ss_pred CCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 015984 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYY 201 (397)
Q Consensus 130 ~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~ 201 (397)
..+ .++...+++.++..+++..|..+.+++....... .......|.+|...++|.+|-....
T Consensus 231 p~d----~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~------f~~W~~La~~Yi~~~d~e~ALlaLN 292 (395)
T PF09295_consen 231 PQD----SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE------FETWYQLAECYIQLGDFENALLALN 292 (395)
T ss_pred CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh------HHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 222 7888899999999999999999999988776541 2234457888899999998764443
No 52
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=91.98 E-value=0.86 Score=33.26 Aligned_cols=56 Identities=13% Similarity=0.114 Sum_probs=44.6
Q ss_pred HhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 107 e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
.+.|+|++|.+.+..+.... + .-.++++..+++|+..|++.+|...++++......
T Consensus 2 l~~~~~~~A~~~~~~~l~~~-----p--~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRN-----P--DNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHT-----T--TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHC-----C--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 46899999999999976432 1 24567788999999999999999999998877544
No 53
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=91.93 E-value=0.94 Score=32.91 Aligned_cols=59 Identities=14% Similarity=0.086 Sum_probs=45.7
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhccc
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~ 166 (397)
.+|..+...|+|++|.+.+..+.... ..-.+.+....+++...|++..|..++.++...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~-------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQD-------PDNPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCS-------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 57888899999999999998866321 235678888888899999999999888887544
No 54
>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=91.89 E-value=0.38 Score=43.84 Aligned_cols=52 Identities=21% Similarity=0.277 Sum_probs=37.1
Q ss_pred HHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 311 is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+.+-=+.|.|+.||..||++++++-..+-.+..+|+|.|.||--...|+...
T Consensus 107 yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~ 158 (188)
T PF09756_consen 107 YIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISE 158 (188)
T ss_dssp HHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE---
T ss_pred HHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecH
Confidence 4445588999999999999999999999999999999999999666777664
No 55
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=91.67 E-value=3.6 Score=42.28 Aligned_cols=137 Identities=24% Similarity=0.267 Sum_probs=89.9
Q ss_pred hhhhHHHHHHHHHHhCCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCC
Q 015984 51 LVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMR 129 (397)
Q Consensus 51 ~~~sr~~~~~~~~~l~~l~-~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~ 129 (397)
+.-+-++|-.+.+....|. +.+.+++.-.+...+ .-.-.+--+||++|-.+||...|....- |+ +|
T Consensus 554 l~nn~evl~qianiye~led~aqaie~~~q~~sli--------p~dp~ilskl~dlydqegdksqafq~~y----ds-yr 620 (840)
T KOG2003|consen 554 LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLI--------PNDPAILSKLADLYDQEGDKSQAFQCHY----DS-YR 620 (840)
T ss_pred HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccC--------CCCHHHHHHHHHHhhcccchhhhhhhhh----hc-cc
Confidence 3444555555555554443 233344443333222 2222566789999999999999987743 33 33
Q ss_pred CCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 130 ~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
-.+ .-++++-...-.|++..-|.+|-.|+.|++........| ++..-.| +-..++|..|...|.++-..|+
T Consensus 621 yfp--~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kw--qlmiasc----~rrsgnyqka~d~yk~~hrkfp 691 (840)
T KOG2003|consen 621 YFP--CNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKW--QLMIASC----FRRSGNYQKAFDLYKDIHRKFP 691 (840)
T ss_pred ccC--cchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHH--HHHHHHH----HHhcccHHHHHHHHHHHHHhCc
Confidence 322 245666677888999999999999999999887653344 3333344 4668899999999999888753
No 56
>PLN03218 maturation of RBCL 1; Provisional
Probab=91.58 E-value=25 Score=40.60 Aligned_cols=92 Identities=12% Similarity=0.019 Sum_probs=42.4
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~ 180 (397)
.|...|.+.|++++|.+++.++... +..++ ...|...+..|...+++..|..+++.....-.. ++ ...+
T Consensus 619 sLI~ay~k~G~~deAl~lf~eM~~~---Gv~PD---~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~-pd----~~ty 687 (1060)
T PLN03218 619 IAVNSCSQKGDWDFALSIYDDMKKK---GVKPD---EVFFSALVDVAGHAGDLDKAFEILQDARKQGIK-LG----TVSY 687 (1060)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHc---CCCCC---HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CC----HHHH
Confidence 3445555556666666655554422 11111 223444455555555555555555554332111 11 1133
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHH
Q 015984 181 VCYARILDLKRKFLEAALRYYDI 203 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~ 203 (397)
...+..|...+++.+|...|.+.
T Consensus 688 nsLI~ay~k~G~~eeA~~lf~eM 710 (1060)
T PLN03218 688 SSLMGACSNAKNWKKALELYEDI 710 (1060)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHH
Confidence 44444555555555555555544
No 57
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=91.26 E-value=3.3 Score=40.89 Aligned_cols=100 Identities=14% Similarity=0.149 Sum_probs=77.4
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
...|..+|..+.+|++|.++=.++..-+ +.--..+...+|.+.+.-++..+|..+|...+.||...-.++ .+
T Consensus 144 lqqLl~IYQ~treW~KAId~A~~L~k~~--~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~c------vR 215 (389)
T COG2956 144 LQQLLNIYQATREWEKAIDVAERLVKLG--GQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKC------VR 215 (389)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHcC--CccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccc------ee
Confidence 4678999999999999998877655433 221223567889999999999999999999999987654331 22
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
--...|++++.+++|..|-..+-.+.+.
T Consensus 216 Asi~lG~v~~~~g~y~~AV~~~e~v~eQ 243 (389)
T COG2956 216 ASIILGRVELAKGDYQKAVEALERVLEQ 243 (389)
T ss_pred hhhhhhHHHHhccchHHHHHHHHHHHHh
Confidence 3456899999999999999999887763
No 58
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=91.09 E-value=1.1 Score=34.54 Aligned_cols=59 Identities=22% Similarity=0.207 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHh
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 163 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka 163 (397)
..-..||..|...|+|.+|..++..... ++.. .+.....++.+++.+++..|...+.++
T Consensus 26 ~~~~~la~~~~~~~~y~~A~~~~~~~~~-------~~~~-~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 26 AYLYNLAQCYFQQGKYEEAIELLQKLKL-------DPSN-PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHCHTH-------HHCH-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHhCC-------CCCC-HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 4556699999999999999999988222 2222 344445599999999999999998875
No 59
>PLN03218 maturation of RBCL 1; Provisional
Probab=91.07 E-value=35 Score=39.46 Aligned_cols=98 Identities=9% Similarity=-0.009 Sum_probs=61.3
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
...|...|.+.|++++|.+++.++..+. .+..++ ...|-..+..|...+++.+|..++.+....-.. ++ ..
T Consensus 545 YnsLI~a~~k~G~~deA~~lf~eM~~~~-~gi~PD---~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~-p~----~~ 615 (1060)
T PLN03218 545 FNALISACGQSGAVDRAFDVLAEMKAET-HPIDPD---HITVGALMKACANAGQVDRAKEVYQMIHEYNIK-GT----PE 615 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhc-CCCCCc---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CC----hH
Confidence 3455666777777777777777765432 111111 345666677777788888888777776543221 11 23
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+...+..|...+++.+|...|.+...
T Consensus 616 tynsLI~ay~k~G~~deAl~lf~eM~~ 642 (1060)
T PLN03218 616 VYTIAVNSCSQKGDWDFALSIYDDMKK 642 (1060)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 456666777778888888888877765
No 60
>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=90.97 E-value=6 Score=40.21 Aligned_cols=98 Identities=16% Similarity=0.116 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHH
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~ 174 (397)
..++...+|..+...|++++|.+.+.+..... ++.....+.+...-..+..+|...+...+.++...... +|+
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-----pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~--~~~ 334 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-----GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD--KPK 334 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-----CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC--Chh
Confidence 45788899999999999999999999966432 22221111122222234457888888888887765433 554
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYY 201 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~ 201 (397)
..+..++|+++...++|.+|-.+|-
T Consensus 335 --~~ll~sLg~l~~~~~~~~~A~~~le 359 (409)
T TIGR00540 335 --CCINRALGQLLMKHGEFIEAADAFK 359 (409)
T ss_pred --HHHHHHHHHHHHHcccHHHHHHHHH
Confidence 5688899999999999999888665
No 61
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=90.86 E-value=1.1 Score=32.78 Aligned_cols=64 Identities=13% Similarity=0.095 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHH-hHHHHHHHHHHHHHh
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKR-KFLEAALRYYDISQI 206 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r-~f~~Aa~~y~e~~~~ 206 (397)
.+.+......++..+|+.+|..+++++...-.. ++. .+...|..+...+ +|.+|-.+|..+...
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~--~~~----~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN--NAE----AYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT--HHH----HHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--CHH----HHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 467889999999999999999999999886433 333 6667888889988 899999999888764
No 62
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=90.75 E-value=2.5 Score=38.92 Aligned_cols=110 Identities=12% Similarity=0.003 Sum_probs=79.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 90 ~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
+..++.......+|..|...|+|++|...+.++.... . +.....+.++.....+...+++..|...++++......
T Consensus 27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p--~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~ 102 (235)
T TIGR03302 27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRY--P--FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN 102 (235)
T ss_pred CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C--CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC
Confidence 5567777888999999999999999999999875322 1 12234567788899999999999999999998776554
Q ss_pred cchHHHH-HHHHHHHHHHHHH--------HHhHHHHHHHHHHHHHhh
Q 015984 170 SQQEVLN-LQYKVCYARILDL--------KRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 170 ~~~~~l~-~~~~~~~~~~~~~--------~r~f~~Aa~~y~e~~~~~ 207 (397)
++... ..|. .|..+.. .+++.+|...|..+....
T Consensus 103 --~~~~~~a~~~--~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~ 145 (235)
T TIGR03302 103 --HPDADYAYYL--RGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY 145 (235)
T ss_pred --CCchHHHHHH--HHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC
Confidence 22221 2222 3333333 378999999988888753
No 63
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=90.63 E-value=16 Score=40.47 Aligned_cols=100 Identities=12% Similarity=-0.006 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHH
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~ 174 (397)
.......+|.++...|++++|.+.+.++.... + .. .++++..+.++...+++.+|...++++...... ++.
T Consensus 358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-----P-~n-~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd--~~~ 428 (765)
T PRK10049 358 WLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-----P-GN-QGLRIDYASVLQARGWPRAAENELKKAEVLEPR--NIN 428 (765)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----C-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC--ChH
Confidence 34566789999999999999999999975322 2 22 478899999999999999999999999886543 333
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
++...|..+...++|.+|-..+-++....
T Consensus 429 ----l~~~~a~~al~~~~~~~A~~~~~~ll~~~ 457 (765)
T PRK10049 429 ----LEVEQAWTALDLQEWRQMDVLTDDVVARE 457 (765)
T ss_pred ----HHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence 56677888999999999999999999863
No 64
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=89.97 E-value=1.1 Score=38.27 Aligned_cols=92 Identities=12% Similarity=0.091 Sum_probs=67.8
Q ss_pred HhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHH
Q 015984 82 AQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFIN 161 (397)
Q Consensus 82 ~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ 161 (397)
.|+.+....+..+...+-..++..+...|++++|...+..+...- . .--..|...|+.|...|+...|...+.
T Consensus 48 ~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d---P----~~E~~~~~lm~~~~~~g~~~~A~~~Y~ 120 (146)
T PF03704_consen 48 EWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALD---P----YDEEAYRLLMRALAAQGRRAEALRVYE 120 (146)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS---T----T-HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC---C----CCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence 566666667888888888999999999999999999998865321 1 223578888999999999999999999
Q ss_pred HhcccccCc----chHHHHHHHH
Q 015984 162 KASFLVSSS----QQEVLNLQYK 180 (397)
Q Consensus 162 ka~~~~~~~----~~~~l~~~~~ 180 (397)
+......+. +.++++.-|.
T Consensus 121 ~~~~~l~~elg~~Ps~~~~~l~~ 143 (146)
T PF03704_consen 121 RYRRRLREELGIEPSPETRALYR 143 (146)
T ss_dssp HHHHHHHHHHS----HHHHHHHH
T ss_pred HHHHHHHHHhCcCcCHHHHHHHH
Confidence 987776532 4556554443
No 65
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.80 E-value=13 Score=35.18 Aligned_cols=88 Identities=14% Similarity=-0.020 Sum_probs=40.8
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-chHHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQY 179 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~~l~~~~ 179 (397)
+.|+++.+.|+-.+|+..+.+ ...++|+.++.+-++..-.-+.+|...|.+..|-.+--.+....... .|-+--+.+
T Consensus 59 kaA~~h~k~~skhDaat~Yve--A~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~ 136 (288)
T KOG1586|consen 59 KAADLHLKAGSKHDAATTYVE--AANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAH 136 (288)
T ss_pred HHHHHHHhcCCchhHHHHHHH--HHHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHH
Confidence 345555555555555555444 11224555555555555555555555555555544444443333321 222333444
Q ss_pred HHHHHHHHHHH
Q 015984 180 KVCYARILDLK 190 (397)
Q Consensus 180 ~~~~~~~~~~~ 190 (397)
|..-|.+|..+
T Consensus 137 YE~Aae~yk~e 147 (288)
T KOG1586|consen 137 YEQAAEYYKGE 147 (288)
T ss_pred HHHHHHHHcch
Confidence 44444444333
No 66
>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=89.74 E-value=16 Score=39.72 Aligned_cols=98 Identities=13% Similarity=-0.042 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHH
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~ 174 (397)
.+.+...++..|...|++++|.+.+....-.. . .-.+.++..+++++..+++..|...++++...... +.
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~---~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~--~~- 193 (899)
T TIGR02917 124 AAELLALRGLAYLGLGQLELAQKSYEQALAID---P----RSLYAKLGLAQLALAENRFDEARALIDEVLTADPG--NV- 193 (899)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---C----CChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--Ch-
Confidence 34555666777777777777777776643211 0 11234556666666666777776666665433211 11
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
......|.++...++|.+|...|..+..
T Consensus 194 ---~~~~~~~~~~~~~g~~~~A~~~~~~a~~ 221 (899)
T TIGR02917 194 ---DALLLKGDLLLSLGNIELALAAYRKAIA 221 (899)
T ss_pred ---HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence 1233345555555566665555555544
No 67
>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=89.69 E-value=0.99 Score=33.10 Aligned_cols=63 Identities=14% Similarity=0.063 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcC-ChHHHHHHHHHhcc
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD-DAVNAEAFINKASF 165 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~-d~~~A~~~l~ka~~ 165 (397)
+..-..+|..+...|+|++|...+...-. . ++ .-...+......|...+ ++.+|...++++..
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~-~-----~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIE-L-----DP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHH-H-----ST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-c-----CC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 45667899999999999999999888442 1 22 23568999999999999 79999999998754
No 68
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=89.54 E-value=1.7 Score=31.51 Aligned_cols=59 Identities=22% Similarity=0.140 Sum_probs=48.2
Q ss_pred HHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 142 QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 142 ~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..++.++..+|+..|...++++...... ........|.++...++|.+|...|.++...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~------~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDPD------NPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCSTT------HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4678899999999999999998877543 3346667889999999999999999888765
No 69
>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=89.45 E-value=2 Score=42.12 Aligned_cols=100 Identities=12% Similarity=-0.073 Sum_probs=78.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|.++...|++++|...+.....-. +.. ...+.....++.+.|++..|..++.++...... ++...
T Consensus 115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~------p~~-~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~ 185 (355)
T cd05804 115 YLLGMLAFGLEEAGQYDRAEEAARRALELN------PDD-AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLR 185 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC------CCC-cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--Ccchh
Confidence 344578889999999999999988854211 111 345667789999999999999999998776543 45556
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
...+...|+++...+++.+|-..|.++..
T Consensus 186 ~~~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 186 GHNWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 66777899999999999999999988754
No 70
>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=89.43 E-value=0.41 Score=38.88 Aligned_cols=38 Identities=18% Similarity=0.355 Sum_probs=34.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEecc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQ 353 (397)
.=|+++.|++.|+++.++++..+-.|+.+|.|+-.||-
T Consensus 64 ~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 64 EGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred CcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecccCC
Confidence 34999999999999999999999999999999999984
No 71
>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=88.99 E-value=6.5 Score=42.17 Aligned_cols=98 Identities=20% Similarity=0.058 Sum_probs=75.7
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
+.....++.+|...|++++|...+..... . ++ .-...++....+++..+++..|..++.++..... ++++
T Consensus 331 a~a~~~lg~~~~~~g~~~eA~~~~~kal~-l-----~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p--~~~~- 400 (615)
T TIGR00990 331 AIALNLRGTFKCLKGKHLEALADLSKSIE-L-----DP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS--EDPD- 400 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-c-----CC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHH-
Confidence 34567788999999999999999888542 1 11 1235678888999999999999999999865432 2333
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+...|.++...++|.+|..+|..+...
T Consensus 401 ---~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 401 ---IYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 4556788899999999999999998875
No 72
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=88.65 E-value=8 Score=40.56 Aligned_cols=119 Identities=19% Similarity=0.106 Sum_probs=97.3
Q ss_pred HHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHH
Q 015984 77 ANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNA 156 (397)
Q Consensus 77 ~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A 156 (397)
..+.+..++... .+|.......=++...++|+...|..++..++. .+++..|.+.-|..+++.+..+++..|
T Consensus 47 s~~yl~qa~qs~---~~~~~~~~llAa~al~~e~k~~qA~~Ll~ql~~-----~Ltd~Q~~~~~LL~ael~la~~q~~~A 118 (604)
T COG3107 47 SQFYLQQAQQSS---GEQQNDWLLLAARALVEEGKTAQAQALLNQLPQ-----ELTDAQRAEKSLLAAELALAQKQPAAA 118 (604)
T ss_pred HHHHHHHHhhcC---chhhhhHHHHHHHHHHHcCChHHHHHHHHhccc-----cCCHHHHHHHHHHHHHHHHhccChHHH
Confidence 345555554433 266667777778889999999999999999986 378999999999999999999999999
Q ss_pred HHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 157 EAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 157 ~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..++.+...-... +--+.+|+...+...-.+++-.+|++........
T Consensus 119 l~~L~~~~~~~ls---~~Qq~Ry~q~~a~a~ea~~~~~~a~rari~~~~l 165 (604)
T COG3107 119 LQQLAKLLPADLS---QNQQARYYQARADALEARGDSIDAARARIAQDPL 165 (604)
T ss_pred HHHHhhcchhhcC---HHHHHHHHHHHHHHHhcccchHHHHHHHHHhhhh
Confidence 9999998765543 2247899999999999999999999988776664
No 73
>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=88.43 E-value=33 Score=36.74 Aligned_cols=98 Identities=13% Similarity=0.015 Sum_probs=72.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
..+...+|.+|...|++++|...+.....- ++ .-...+.....++...+++..|...++++...... +++
T Consensus 399 ~~~~~~lg~~~~~~g~~~~A~~~~~kal~l------~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~--~~~- 468 (615)
T TIGR00990 399 PDIYYHRAQLHFIKGEFAQAGKDYQKSIDL------DP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPE--APD- 468 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc------Cc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--ChH-
Confidence 356677888899999999999888875421 11 12345677788888999999999999988765433 333
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+...|.++...++|.+|...|..+...
T Consensus 469 ---~~~~lg~~~~~~g~~~~A~~~~~~Al~l 496 (615)
T TIGR00990 469 ---VYNYYGELLLDQNKFDEAIEKFDTAIEL 496 (615)
T ss_pred ---HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 4455688889999999999999888875
No 74
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=88.32 E-value=3.5 Score=41.27 Aligned_cols=93 Identities=12% Similarity=-0.086 Sum_probs=73.0
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~ 180 (397)
..|.-....|+|.+|...+....... + .-...+...+..|+..+++..|...+.++...... ++. .+
T Consensus 7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~------P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~--~~~----a~ 73 (356)
T PLN03088 7 DKAKEAFVDDDFALAVDLYTQAIDLD------P-NNAELYADRAQANIKLGNFTEAVADANKAIELDPS--LAK----AY 73 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhC------C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--CHH----HH
Confidence 45777888999999999998865322 1 12457788899999999999999999999776432 222 34
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...|.++...++|.+|...|..+...
T Consensus 74 ~~lg~~~~~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 74 LRKGTACMKLEEYQTAKAALEKGASL 99 (356)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 56688999999999999999998885
No 75
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=88.30 E-value=4 Score=41.94 Aligned_cols=90 Identities=18% Similarity=0.107 Sum_probs=69.2
Q ss_pred HHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHH
Q 015984 106 YESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYAR 185 (397)
Q Consensus 106 ~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~ 185 (397)
+++.|+.++|..++-.++-=. ..-+++...++-+|-...|+.+|-..+..+...+.. ||.+.-+ .|.
T Consensus 534 ~e~~~~ldeald~f~klh~il-------~nn~evl~qianiye~led~aqaie~~~q~~slip~--dp~ilsk----l~d 600 (840)
T KOG2003|consen 534 AEALGNLDEALDCFLKLHAIL-------LNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPN--DPAILSK----LAD 600 (840)
T ss_pred HHHhcCHHHHHHHHHHHHHHH-------HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCC--CHHHHHH----HHH
Confidence 556666666666655554211 123577888899999999999999999999998865 7776544 467
Q ss_pred HHHHHHhHHHHHHHHHHHHHhhh
Q 015984 186 ILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 186 ~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
+|+.++|=..|.+|||+.+..|+
T Consensus 601 lydqegdksqafq~~ydsyryfp 623 (840)
T KOG2003|consen 601 LYDQEGDKSQAFQCHYDSYRYFP 623 (840)
T ss_pred HhhcccchhhhhhhhhhcccccC
Confidence 78999999999999999998765
No 76
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=88.04 E-value=11 Score=32.25 Aligned_cols=93 Identities=13% Similarity=0.029 Sum_probs=74.2
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~ 180 (397)
.+|..+...|++++|...+.....-. ..-.+.+.....++...+++..|...++++...-.. +++ ..
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~~-------P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~--~~~----a~ 95 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMAQ-------PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS--HPE----PV 95 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcC-------CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CcH----HH
Confidence 46888999999999999988854221 123578888999999999999999999999876433 332 45
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...|..+...+++.+|...|..+...
T Consensus 96 ~~lg~~l~~~g~~~eAi~~~~~Al~~ 121 (144)
T PRK15359 96 YQTGVCLKMMGEPGLAREAFQTAIKM 121 (144)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 55777788999999999999998875
No 77
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=88.00 E-value=33 Score=37.15 Aligned_cols=95 Identities=13% Similarity=0.130 Sum_probs=65.2
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
....++.+|...|+|++|.+.+....... . +. ..+...+.++...|++.+|...+.++...... ++
T Consensus 705 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~---~-~~----~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~--~~---- 770 (899)
T TIGR02917 705 GFELEGDLYLRQKDYPAAIQAYRKALKRA---P-SS----QNAIKLHRALLASGNTAEAVKTLEAWLKTHPN--DA---- 770 (899)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhhC---C-Cc----hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CH----
Confidence 34557777788888888888777744321 1 11 45556677788888888888888776654322 22
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..+...|.++...+++.+|-..|..+...
T Consensus 771 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~ 799 (899)
T TIGR02917 771 VLRTALAELYLAQKDYDKAIKHYRTVVKK 799 (899)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence 35566778888888999988888888774
No 78
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.48 E-value=40 Score=35.27 Aligned_cols=150 Identities=12% Similarity=-0.025 Sum_probs=103.7
Q ss_pred HHHHHHhhccccc--hHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCCh
Q 015984 77 ANYTLAQIQPRVV--SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDA 153 (397)
Q Consensus 77 ~~~~l~~~~~~~~--~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~ 153 (397)
.....+|++.-.. -+-..-+.+...++-+...-|.+++|..-..+--..| ...+ +.-..+-.+=.|+..++-
T Consensus 346 i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~t-----~~~dl~a~~nlnlAi~YL~~~~~ 420 (629)
T KOG2300|consen 346 IVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKLT-----ESIDLQAFCNLNLAISYLRIGDA 420 (629)
T ss_pred HHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHhh-----hHHHHHHHHHHhHHHHHHHhccH
Confidence 3456688864433 5556666777778888888889999887766544333 1222 444446667788888888
Q ss_pred HHHHHHHHHhcccc-cCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHH
Q 015984 154 VNAEAFINKASFLV-SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCT 232 (397)
Q Consensus 154 ~~A~~~l~ka~~~~-~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ 232 (397)
......+..+.+.- +......+++.++..+|.....+++|.||-+...|.+.-. ... +-.|+.++...++.-
T Consensus 421 ed~y~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkma------nae-d~~rL~a~~LvLLs~ 493 (629)
T KOG2300|consen 421 EDLYKALDLIGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMA------NAE-DLNRLTACSLVLLSH 493 (629)
T ss_pred HHHHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc------chh-hHHHHHHHHHHHHHH
Confidence 88888888877662 3335788999999999999999999999988889999852 222 345666766555555
Q ss_pred HhcCCC
Q 015984 233 ILAAAG 238 (397)
Q Consensus 233 ILa~~~ 238 (397)
+.-.-|
T Consensus 494 v~lslg 499 (629)
T KOG2300|consen 494 VFLSLG 499 (629)
T ss_pred HHHHhc
Confidence 543333
No 79
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=87.06 E-value=12 Score=34.10 Aligned_cols=97 Identities=11% Similarity=0.070 Sum_probs=74.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHH-HhhcCC--hHHHHHHHHHhcccccCcchH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARL-YLEDDD--AVNAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl-~L~~~d--~~~A~~~l~ka~~~~~~~~~~ 173 (397)
..-..||.+|...|++++|...+.....- ++ ...+++...+.. +...++ +.+|...++++...-.. ++
T Consensus 74 ~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l------~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~--~~ 144 (198)
T PRK10370 74 EQWALLGEYYLWRNDYDNALLAYRQALQL------RG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN--EV 144 (198)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHh------CC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC--Ch
Confidence 45578999999999999999999874421 11 345677777774 566666 59999999999887554 33
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
......|..+...++|.+|-.+|..+...
T Consensus 145 ----~al~~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 145 ----TALMLLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred ----hHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 35566788889999999999999999885
No 80
>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=86.84 E-value=13 Score=34.19 Aligned_cols=107 Identities=10% Similarity=-0.049 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhh--------cCChHHHHHHHHHhccccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLE--------DDDAVNAEAFINKASFLVS 168 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~--------~~d~~~A~~~l~ka~~~~~ 168 (397)
.....+|..|...|+|++|...+..+.-... . .......+......+.. .+++.+|...++++.....
T Consensus 71 ~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~---~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 146 (235)
T TIGR03302 71 QAQLDLAYAYYKSGDYAEAIAAADRFIRLHP-N---HPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP 146 (235)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc-C---CCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC
Confidence 3457789999999999999999999753321 1 11111223333334433 3788999999999876554
Q ss_pred Ccc-hHHHH----------HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 169 SSQ-QEVLN----------LQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 169 ~~~-~~~l~----------~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
... .++.. .......|.++...++|.+|-..|.++...+
T Consensus 147 ~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~ 196 (235)
T TIGR03302 147 NSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENY 196 (235)
T ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHC
Confidence 321 11111 1223457888899999999999999988864
No 81
>PRK11189 lipoprotein NlpI; Provisional
Probab=86.27 E-value=11 Score=36.52 Aligned_cols=101 Identities=11% Similarity=-0.088 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcch
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~ 172 (397)
++.+..-..+|.+|...|++.+|...+....-- +++ -.+.+.....++...+++..|...++++...-.. +
T Consensus 61 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l------~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~--~ 131 (296)
T PRK11189 61 EERAQLHYERGVLYDSLGLRALARNDFSQALAL------RPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT--Y 131 (296)
T ss_pred HhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--C
Confidence 455677788899999999999999887764321 111 2467888899999999999999999999765433 2
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 173 ~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.. .+...|..+...++|.+|...|......
T Consensus 132 ~~----a~~~lg~~l~~~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 132 NY----AYLNRGIALYYGGRYELAQDDLLAFYQD 161 (296)
T ss_pred HH----HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 21 3345677778889999999999888874
No 82
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=86.12 E-value=5.8 Score=39.34 Aligned_cols=96 Identities=14% Similarity=0.110 Sum_probs=78.2
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
..++++.|..-|-+.+|.+.|+.-. ....-.|.++...|.|-..+.+.+|-..+......+.. ...
T Consensus 226 k~Q~gkCylrLgm~r~AekqlqssL--------~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~------~VT 291 (478)
T KOG1129|consen 226 KQQMGKCYLRLGMPRRAEKQLQSSL--------TQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF------DVT 291 (478)
T ss_pred HHHHHHHHHHhcChhhhHHHHHHHh--------hcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc------hhh
Confidence 3568999999999999999988732 23345788999999999999999998888777666543 345
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
|..-+||+|-.-+++.+|.++|-......+
T Consensus 292 ~l~g~ARi~eam~~~~~a~~lYk~vlk~~~ 321 (478)
T KOG1129|consen 292 YLLGQARIHEAMEQQEDALQLYKLVLKLHP 321 (478)
T ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhcCC
Confidence 778899999999999999999999987543
No 83
>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=86.02 E-value=3.5 Score=29.66 Aligned_cols=52 Identities=19% Similarity=0.228 Sum_probs=40.6
Q ss_pred HHHHHHHHhhccc--cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 305 EHNLLSASKLYTN--ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 305 EhNl~~is~~Y~~--Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
+..++.+...+.. ++..+||+.+++++.-+-..+.+|+..|-+.-.-|..++
T Consensus 7 q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D~ 60 (62)
T PF12802_consen 7 QFRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGDR 60 (62)
T ss_dssp HHHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSST
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCCC
Confidence 3444444445555 999999999999999999999999999999887776654
No 84
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=85.77 E-value=2.1 Score=33.25 Aligned_cols=40 Identities=5% Similarity=-0.009 Sum_probs=35.2
Q ss_pred HhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEe
Q 015984 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 351 (397)
Q Consensus 312 s~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkI 351 (397)
.+.+.+++...||..|+.|++-||.+|.+++.-|++.-.-
T Consensus 11 l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 11 LALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEeec
Confidence 3446899999999999999999999999999999996443
No 85
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=85.56 E-value=2.7 Score=41.00 Aligned_cols=142 Identities=11% Similarity=0.076 Sum_probs=85.9
Q ss_pred HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCC
Q 015984 73 QKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDD 152 (397)
Q Consensus 73 ~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d 152 (397)
+..+...+-+++.......- .-+....|.+|..+|++++|.+++.+. .-+|.....+.+||..+.
T Consensus 82 ~e~~l~~l~~~~~~~~~~~~---~~~~~~~A~i~~~~~~~~~AL~~l~~~------------~~lE~~al~Vqi~L~~~R 146 (290)
T PF04733_consen 82 KESALEELKELLADQAGESN---EIVQLLAATILFHEGDYEEALKLLHKG------------GSLELLALAVQILLKMNR 146 (290)
T ss_dssp HHCHHHHHHHCCCTS---CH---HHHHHHHHHHHCCCCHHHHHHCCCTTT------------TCHHHHHHHHHHHHHTT-
T ss_pred hHHHHHHHHHHHHhcccccc---HHHHHHHHHHHHHcCCHHHHHHHHHcc------------CcccHHHHHHHHHHHcCC
Confidence 34444444455554433111 134566788999999999999887652 235777889999999999
Q ss_pred hHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHH--HHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHH
Q 015984 153 AVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDL--KRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVT 230 (397)
Q Consensus 153 ~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~--~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~ 230 (397)
++.|+..+++....- +..+-. ..+.+-+... ..+|.+|...|-|+...+. -+ ...|....+
T Consensus 147 ~dlA~k~l~~~~~~~----eD~~l~--qLa~awv~l~~g~e~~~~A~y~f~El~~~~~-------~t----~~~lng~A~ 209 (290)
T PF04733_consen 147 PDLAEKELKNMQQID----EDSILT--QLAEAWVNLATGGEKYQDAFYIFEELSDKFG-------ST----PKLLNGLAV 209 (290)
T ss_dssp HHHHHHHHHHHHCCS----CCHHHH--HHHHHHHHHHHTTTCCCHHHHHHHHHHCCS---------S----HHHHHHHHH
T ss_pred HHHHHHHHHHHHhcC----CcHHHH--HHHHHHHHHHhCchhHHHHHHHHHHHHhccC-------CC----HHHHHHHHH
Confidence 999999998876542 223333 3444444444 4469999999999887532 01 124445566
Q ss_pred HHHhcCCCCcchHHHH
Q 015984 231 CTILAAAGPQRSRVLA 246 (397)
Q Consensus 231 ~~ILa~~~~~rs~ll~ 246 (397)
|.+....-++=..+|.
T Consensus 210 ~~l~~~~~~eAe~~L~ 225 (290)
T PF04733_consen 210 CHLQLGHYEEAEELLE 225 (290)
T ss_dssp HHHHCT-HHHHHHHHH
T ss_pred HHHHhCCHHHHHHHHH
Confidence 6666554333333333
No 86
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=83.47 E-value=31 Score=37.64 Aligned_cols=92 Identities=11% Similarity=0.027 Sum_probs=69.9
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~ 179 (397)
.-+.+.|.+.|++++|.+++.+++... + ..+|-..+.-|...+++..|+...++....-.. ....
T Consensus 466 ~~li~~l~r~G~~~eA~~~~~~~~~~p------~---~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~------~~~~ 530 (697)
T PLN03081 466 ACMIELLGREGLLDEAYAMIRRAPFKP------T---VNMWAALLTACRIHKNLELGRLAAEKLYGMGPE------KLNN 530 (697)
T ss_pred HhHHHHHHhcCCHHHHHHHHHHCCCCC------C---HHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC------CCcc
Confidence 457788899999999999988765432 1 235778888888999999999988886443221 1235
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 180 KVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 180 ~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
|.+.+.+|...++|.+|.+.+.+.-..
T Consensus 531 y~~L~~~y~~~G~~~~A~~v~~~m~~~ 557 (697)
T PLN03081 531 YVVLLNLYNSSGRQAEAAKVVETLKRK 557 (697)
T ss_pred hHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 778889999999999999999887763
No 87
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=83.18 E-value=6.5 Score=45.66 Aligned_cols=96 Identities=11% Similarity=0.012 Sum_probs=66.2
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
+...||.+|++.|++++|...+..+..-. + .-.+.++..++++...+++.+|...++++...... ++.
T Consensus 605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~------P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~--~~~--- 672 (1157)
T PRK11447 605 IDLTLADWAQQRGDYAAARAAYQRVLTRE------P-GNADARLGLIEVDIAQGDLAAARAQLAKLPATAND--SLN--- 672 (1157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhC------C-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC--ChH---
Confidence 44567888888888888888777755321 1 12456777788888888888888888876544222 222
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.....|.++...+++.+|...|..+...
T Consensus 673 -~~~~la~~~~~~g~~~eA~~~~~~al~~ 700 (1157)
T PRK11447 673 -TQRRVALAWAALGDTAAAQRTFNRLIPQ 700 (1157)
T ss_pred -HHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence 2334677778888888888888887764
No 88
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=83.11 E-value=5.3 Score=44.09 Aligned_cols=101 Identities=19% Similarity=0.168 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc
Q 015984 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (397)
Q Consensus 92 e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~ 171 (397)
...+..+...+|+.|-..|.+.+|.+.+..|.-.-+. .-..+|..++|+|.+.+.+..|..++.|+-......-
T Consensus 410 ~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~------~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~ 483 (895)
T KOG2076|consen 410 VSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGY------QNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNL 483 (895)
T ss_pred hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccc------cchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCch
Confidence 4455688999999999999999999999997643222 2378999999999999999999999999988765532
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 204 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~ 204 (397)
|. +.. .+-++-..+++.+|-.....++
T Consensus 484 D~--Ri~----Lasl~~~~g~~EkalEtL~~~~ 510 (895)
T KOG2076|consen 484 DA--RIT----LASLYQQLGNHEKALETLEQII 510 (895)
T ss_pred hh--hhh----HHHHHHhcCCHHHHHHHHhccc
Confidence 32 222 2344456666665554444433
No 89
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=83.07 E-value=7.1 Score=45.36 Aligned_cols=102 Identities=15% Similarity=0.028 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....|+.+|...|++.+|.+.+..+.--. + .-...+...++++...+++.+|..+++++.......++..-.
T Consensus 638 ~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-----p--~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~ 710 (1157)
T PRK11447 638 DARLGLIEVDIAQGDLAAARAQLAKLPATA-----N--DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMES 710 (1157)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHhccC-----C--CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhh
Confidence 566789999999999999999999755211 1 123456677888899999999999999988765432211112
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
...+.-.|+++...+++.+|...|..+..
T Consensus 711 a~~~~~~a~~~~~~G~~~~A~~~y~~Al~ 739 (1157)
T PRK11447 711 ALVLRDAARFEAQTGQPQQALETYKDAMV 739 (1157)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 44555569999999999999999988875
No 90
>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=83.04 E-value=5.2 Score=27.45 Aligned_cols=34 Identities=18% Similarity=0.265 Sum_probs=29.1
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
=..+|..+||+.+|+|..-+-..+.+|+..|-|.
T Consensus 15 ~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 15 NPRITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp CTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred cCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 3569999999999999999999999999999763
No 91
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.97 E-value=16 Score=36.64 Aligned_cols=103 Identities=16% Similarity=0.136 Sum_probs=68.2
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC------
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS------ 169 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~------ 169 (397)
..+...+|..|..-|||++|+..+..+.-+. +...++.+.|--...| .|.|..|+.+..||...-.+
T Consensus 57 ~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-----~~~~el~vnLAcc~Fy--Lg~Y~eA~~~~~ka~k~pL~~RLlfh 129 (557)
T KOG3785|consen 57 DSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-----DAPAELGVNLACCKFY--LGQYIEAKSIAEKAPKTPLCIRLLFH 129 (557)
T ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHhccC-----CCCcccchhHHHHHHH--HHHHHHHHHHHhhCCCChHHHHHHHH
Confidence 5788899999999999999999998876322 3345566666555444 56799999999997653322
Q ss_pred ----cchHHHHHHHHH----------HHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 170 ----SQQEVLNLQYKV----------CYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 170 ----~~~~~l~~~~~~----------~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
-+|++.-+.|.. ..|-++-.+--|.+|-..|-.++.
T Consensus 130 lahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~ 179 (557)
T KOG3785|consen 130 LAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQ 179 (557)
T ss_pred HHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 245555555543 334455555556666655555554
No 92
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=82.95 E-value=12 Score=42.86 Aligned_cols=94 Identities=11% Similarity=-0.027 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.-....|..+...|||.+|...+.... + .++.. .++++..+++|+..+++.+|..++.|+...-.. |..
T Consensus 45 ~~~f~~a~~~~~~Gd~~~A~~~l~~Al-~-----~dP~n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~--n~~-- 113 (987)
T PRK09782 45 YPRLDKALKAQKNNDEATAIREFEYIH-Q-----QVPDN-IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG--DAR-- 113 (987)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHH-H-----hCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc--cHH--
Confidence 334455677778899999999998864 2 24444 778899999999999999999999999877432 332
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
|+...+.+ ++|.+|...|.++...+
T Consensus 114 --~~~~La~i----~~~~kA~~~ye~l~~~~ 138 (987)
T PRK09782 114 --LERSLAAI----PVEVKSVTTVEELLAQQ 138 (987)
T ss_pred --HHHHHHHh----ccChhHHHHHHHHHHhC
Confidence 33333554 99999999999999864
No 93
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=82.58 E-value=16 Score=30.79 Aligned_cols=101 Identities=17% Similarity=-0.012 Sum_probs=80.7
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
+-..+|..|-..|+.++|...+..-. +. .+++....+.++.-..-+...|++.+|...++++.... ++.++..
T Consensus 3 ~~~~~A~a~d~~G~~~~Ai~~Y~~Al-~~---gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~---p~~~~~~ 75 (120)
T PF12688_consen 3 ALYELAWAHDSLGREEEAIPLYRRAL-AA---GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF---PDDELNA 75 (120)
T ss_pred hHHHHHHHHHhcCCHHHHHHHHHHHH-Hc---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCccccH
Confidence 45678999999999999999999853 32 35666777889999999999999999999999886543 3334555
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
......+..+...+++.+|-..+..+.-
T Consensus 76 ~l~~f~Al~L~~~gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 76 ALRVFLALALYNLGRPKEALEWLLEALA 103 (120)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 5666677788888999999999988765
No 94
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=82.51 E-value=3.2 Score=38.43 Aligned_cols=49 Identities=18% Similarity=0.295 Sum_probs=41.5
Q ss_pred hccccCHHHHHHHhCC-ChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 314 LYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~l-s~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+-+.|.-.-|-.++.+ ++-++|.++.+.+-.+-+.|||||-+...+..+
T Consensus 106 ~~k~lpy~~Ll~~l~~~nvrelEd~iieamya~IlrGkldqr~q~leV~f 155 (258)
T KOG3250|consen 106 FEKCLPYLVLLRLLPSRNVRELEDLIIEAMYADILRGKLDQRNQTLEVDF 155 (258)
T ss_pred hchhhhHHHHHhhccCCchhHHHHHHHHHHHHHHHHhhHHhhcceEeech
Confidence 3466666667777887 688999999999999999999999999987775
No 95
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=82.49 E-value=9.1 Score=28.08 Aligned_cols=56 Identities=20% Similarity=0.176 Sum_probs=46.5
Q ss_pred HHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 145 RLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 145 Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+|+..+|+..|..+++++...... ....+...|.++...++|.+|...|......
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p~------~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDPD------DPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCcc------cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 5789999999999999998877433 2335566899999999999999999888874
No 96
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.34 E-value=47 Score=31.65 Aligned_cols=134 Identities=19% Similarity=0.197 Sum_probs=91.0
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhh---chhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSG---IDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~---i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
++.+.|..+=|.+|--..+|..|-....+ +++-+ -+...-...|.+ +--|....|+..|-..+.++..++-.
T Consensus 31 eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~----~skhDaat~Yve-A~~cykk~~~~eAv~cL~~aieIyt~ 105 (288)
T KOG1586|consen 31 EEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKA----GSKHDAATTYVE-AANCYKKVDPEEAVNCLEKAIEIYTD 105 (288)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhc----CCchhHHHHHHH-HHHHhhccChHHHHHHHHHHHHHHHh
Confidence 44477888888888888888877766544 23322 133334455554 44556666999999999999998877
Q ss_pred cchHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhc
Q 015984 170 SQQEVLNLQYKVCYARILDLK-RKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILA 235 (397)
Q Consensus 170 ~~~~~l~~~~~~~~~~~~~~~-r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa 235 (397)
.+.-.+-.+|+.--|.||-.+ .||..|-.+|-.+-+.+. ..+.+..--.-.||.+-+.+.|.
T Consensus 106 ~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk----~ees~ssANKC~lKvA~yaa~le 168 (288)
T KOG1586|consen 106 MGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYK----GEESVSSANKCLLKVAQYAAQLE 168 (288)
T ss_pred hhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHc----chhhhhhHHHHHHHHHHHHHHHH
Confidence 677777788999999999888 899999888887777654 22222221122356566666663
No 97
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=82.24 E-value=7.5 Score=35.20 Aligned_cols=100 Identities=17% Similarity=0.110 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccchH---HHHHHHHHhhcChhhHHHHHHHhchhhh-hhCCCchhh
Q 015984 223 QALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYP---ILQKVYLERILRKPEIDAFAEELKPHQK-ALLPDNFTV 298 (397)
Q Consensus 223 ~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~~---~L~k~f~~~ii~~~~l~~F~~~L~~h~~-~~~~d~~~~ 298 (397)
....+.+++.++.+..++-...+..+- +....-|.++ .+.+++.+ ++...|-+.++.... .+..--...
T Consensus 100 ef~~y~lL~~l~~~~~~~~~~~l~~l~--~~~~~~~~i~~al~l~~a~~~-----gny~~ff~l~~~~~~~~l~~~l~~~ 172 (204)
T PF03399_consen 100 EFIAYYLLYLLCQNNIPDFHMELELLP--SEILSSPYIQFALELCRALME-----GNYVRFFRLYRSKSAPYLFACLMER 172 (204)
T ss_dssp HHHHHHHHHTT-T---THHHHHHTTS---HHHHTSHHHHHHHHHHHHH-------TTHHHHHHHHT-TTS-HHHHHHHGG
T ss_pred HHHHHHHHHHHHcccchHHHHHHHHCc--hhhhcCHHHHHHHHHHHHHHc-----CCHHHHHHHHhccCCChHHHHHHHH
Confidence 366667777665544444444443331 1122223333 33344443 666666655511100 000000133
Q ss_pred HHHHHHHHHHHHHHhhccc-cCHHHHHHHhCC
Q 015984 299 LDRAMIEHNLLSASKLYTN-ISFEELGTLLGI 329 (397)
Q Consensus 299 L~~~v~EhNl~~is~~Y~~-Isl~~La~ll~l 329 (397)
+-..++.+-+..+++.|.+ |+++.+++.||.
T Consensus 173 ~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 173 FFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp GHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 6678889999999999999 999999999974
No 98
>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=82.10 E-value=20 Score=37.99 Aligned_cols=64 Identities=16% Similarity=0.010 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
=|++|-++.++.+.|++.+|-.++.+....+.+ +..+....|.++..-+++.+|...|.+++..
T Consensus 4 SE~lLY~~~il~e~g~~~~AL~~L~~~~~~I~D------k~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r 67 (517)
T PF12569_consen 4 SELLLYKNSILEEAGDYEEALEHLEKNEKQILD------KLAVLEKRAELLLKLGRKEEAEKIYRELIDR 67 (517)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHhhhhhCCC------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 478888999999999999999999998888776 6778899999999999999999999999986
No 99
>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=81.80 E-value=21 Score=34.79 Aligned_cols=128 Identities=13% Similarity=0.038 Sum_probs=83.2
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
.....+|...+.++.|.+.+..++ .++++. ..-+..-.+.++...+.+..|--++........ +.|.+
T Consensus 135 al~Vqi~L~~~R~dlA~k~l~~~~------~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~--~t~~~--- 203 (290)
T PF04733_consen 135 ALAVQILLKMNRPDLAEKELKNMQ------QIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFG--STPKL--- 203 (290)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHH------CCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHHH---
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH------hcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccC--CCHHH---
Confidence 345678889999999999998865 233332 333333334444455578889888888776643 24433
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCC-CcchHHHHhhhh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYK 250 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~-~~rs~ll~~l~~ 250 (397)
...+|..++..++|.+|-....+++... ...++ +|-+.++|..+.+.. ..-.+.+..+..
T Consensus 204 -lng~A~~~l~~~~~~eAe~~L~~al~~~--------~~~~d---~LaNliv~~~~~gk~~~~~~~~l~qL~~ 264 (290)
T PF04733_consen 204 -LNGLAVCHLQLGHYEEAEELLEEALEKD--------PNDPD---TLANLIVCSLHLGKPTEAAERYLSQLKQ 264 (290)
T ss_dssp -HHHHHHHHHHCT-HHHHHHHHHHHCCC---------CCHHH---HHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred -HHHHHHHHHHhCCHHHHHHHHHHHHHhc--------cCCHH---HHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence 5578888899999999999988876531 12333 677778877776654 345567777665
No 100
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=81.75 E-value=3.6 Score=30.34 Aligned_cols=61 Identities=16% Similarity=0.079 Sum_probs=49.3
Q ss_pred HHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 102 La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
|+.+|...++|++|.+++..+..-. + .-...+..-.+++...|++..|...++++...-..
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~~------p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~ 61 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALELD------P-DDPELWLQRARCLFQLGRYEEALEDLERALELSPD 61 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHhC------c-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence 5688999999999999999865422 1 24567788899999999999999999998866543
No 101
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=81.74 E-value=7.5 Score=34.00 Aligned_cols=90 Identities=10% Similarity=-0.056 Sum_probs=67.2
Q ss_pred hhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHH
Q 015984 109 EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILD 188 (397)
Q Consensus 109 ~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~ 188 (397)
+.++..+...|..+. +..+...+...++....++...+++..|...++++.....+ +......+...|.++.
T Consensus 12 ~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~---~~~~~~~~~~lg~~~~ 83 (168)
T CHL00033 12 DKTFTIVADILLRIL-----PTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEID---PYDRSYILYNIGLIHT 83 (168)
T ss_pred ccccccchhhhhHhc-----cCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcccc---chhhHHHHHHHHHHHH
Confidence 345666666666553 22344558889999999999999999999999999766432 2222335566899999
Q ss_pred HHHhHHHHHHHHHHHHHh
Q 015984 189 LKRKFLEAALRYYDISQI 206 (397)
Q Consensus 189 ~~r~f~~Aa~~y~e~~~~ 206 (397)
..++|.+|-.+|..+...
T Consensus 84 ~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 84 SNGEHTKALEYYFQALER 101 (168)
T ss_pred HcCCHHHHHHHHHHHHHh
Confidence 999999999999888874
No 102
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=81.63 E-value=12 Score=41.87 Aligned_cols=100 Identities=9% Similarity=0.098 Sum_probs=70.7
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
+-..||..|+..|||..+..+....-.-| .....+.+-+....|.|+..||+.+|..|+-.+...-... -+-.
T Consensus 272 ~l~~LAn~fyfK~dy~~v~~la~~ai~~t----~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~---~~l~ 344 (1018)
T KOG2002|consen 272 ALNHLANHFYFKKDYERVWHLAEHAIKNT----ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN---FVLP 344 (1018)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC---cccc
Confidence 44568888888888888887765533222 2333577778888999999999999998888876554331 1111
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+.-.|.++++++++.+|..+|..++..
T Consensus 345 --~~GlgQm~i~~~dle~s~~~fEkv~k~ 371 (1018)
T KOG2002|consen 345 --LVGLGQMYIKRGDLEESKFCFEKVLKQ 371 (1018)
T ss_pred --ccchhHHHHHhchHHHHHHHHHHHHHh
Confidence 223578888999999988888888875
No 103
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=81.62 E-value=5.2 Score=29.99 Aligned_cols=32 Identities=9% Similarity=0.172 Sum_probs=30.4
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
++..+||+.+|++...|.+.|.+|..+|.+.-
T Consensus 23 ~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 23 STALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 99999999999999999999999999998855
No 104
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=81.42 E-value=14 Score=35.47 Aligned_cols=95 Identities=12% Similarity=0.081 Sum_probs=69.6
Q ss_pred HHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-chHHHHHHHHHHHH
Q 015984 106 YESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQYKVCYA 184 (397)
Q Consensus 106 ~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~~l~~~~~~~~~ 184 (397)
+...|+|.+|...+..+.-.- -+..+.-..+.....+|+..+|+..|..+..++....... ..++ ..|+ .|
T Consensus 153 ~~~~~~y~~Ai~af~~fl~~y----P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~d--Al~k--lg 224 (263)
T PRK10803 153 VQDKSRQDDAIVAFQNFVKKY----PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAAD--AMFK--VG 224 (263)
T ss_pred HHhcCCHHHHHHHHHHHHHHC----cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhH--HHHH--HH
Confidence 345689999999998866432 1222445677888999999999999999999987765432 2222 2222 56
Q ss_pred HHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 185 RILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 185 ~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
.++...+++.+|...|.++...++
T Consensus 225 ~~~~~~g~~~~A~~~~~~vi~~yP 248 (263)
T PRK10803 225 VIMQDKGDTAKAKAVYQQVIKKYP 248 (263)
T ss_pred HHHHHcCCHHHHHHHHHHHHHHCc
Confidence 777889999999999999988643
No 105
>PRK14574 hmsH outer membrane protein; Provisional
Probab=80.37 E-value=55 Score=36.75 Aligned_cols=153 Identities=11% Similarity=0.068 Sum_probs=108.7
Q ss_pred CCcchhhhHHHHHHHHHHhC-------CCChHHHHHHHHHHHHhhccccc-hHHHHHH-----------HH--HHHHHHH
Q 015984 47 DDVPLVVSRQLLQTFAQELG-------RLEPETQKEIANYTLAQIQPRVV-SFEEQVL-----------II--REKLADL 105 (397)
Q Consensus 47 ~~~~~~~sr~~~~~~~~~l~-------~l~~~~~~~~~~~~l~~~~~~~~-~~e~q~~-----------~l--~~~La~~ 105 (397)
|.+..-..|.-.+++++... .+|+-.+..++-..|..-+|.+- ....+.. .+ +..|.-.
T Consensus 297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA 376 (822)
T PRK14574 297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS 376 (822)
T ss_pred HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence 44455667777778877643 35777778888777776676664 2222210 12 3567777
Q ss_pred HHhhhcHHHHHHHHhhchhccCC--------CCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 106 YESEQQWSKAAQMLSGIDLDSGM--------RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 106 ~e~~~d~~~Aa~~L~~i~~et~~--------~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
|.+.|+|++|...+..+.-.+.+ ...+...=.+.....+..+.-.||..+|+..+.+...... +|+.+++
T Consensus 377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP--~n~~l~~ 454 (822)
T PRK14574 377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAP--ANQNLRI 454 (822)
T ss_pred HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHH
Confidence 88999999999999998754431 1233344568888889999999999999999999855443 4666555
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+|.++..++.+.+|-..|-.+..
T Consensus 455 ----~~A~v~~~Rg~p~~A~~~~k~a~~ 478 (822)
T PRK14574 455 ----ALASIYLARDLPRKAEQELKAVES 478 (822)
T ss_pred ----HHHHHHHhcCCHHHHHHHHHHHhh
Confidence 788999999999999888854444
No 106
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=80.36 E-value=13 Score=35.36 Aligned_cols=97 Identities=14% Similarity=-0.014 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.+-..+|.++.+.|++++|.+.+.....-. ++.. ++....+.+++..++..+++..+++....... ++.
T Consensus 147 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-----P~~~--~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~--~~~-- 215 (280)
T PF13429_consen 147 RFWLALAEIYEQLGDPDKALRDYRKALELD-----PDDP--DARNALAWLLIDMGDYDEAREALKRLLKAAPD--DPD-- 215 (280)
T ss_dssp HHHHHHHHHHHHCCHHHHHHHHHHHHHHH------TT-H--HHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HT--SCC--
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----CCCH--HHHHHHHHHHHHCCChHHHHHHHHHHHHHCcC--HHH--
Confidence 444556666666666666666665543211 1111 22333455556666666666666555444321 222
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+....|..+..-+++.+|-.+|..+...
T Consensus 216 --~~~~la~~~~~lg~~~~Al~~~~~~~~~ 243 (280)
T PF13429_consen 216 --LWDALAAAYLQLGRYEEALEYLEKALKL 243 (280)
T ss_dssp --HCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred --HHHHHHHHhccccccccccccccccccc
Confidence 2334466667777777777777776664
No 107
>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=80.06 E-value=10 Score=27.28 Aligned_cols=62 Identities=19% Similarity=0.121 Sum_probs=49.0
Q ss_pred HHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 139 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 139 ~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+...+..+...+++.+|..++.++...... ++ ......|.++...++|.+|...|..+...
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~~~~~~a~~~~~~~~~~ 63 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPD--NA----DAYYNLAAAYYKLGKYEEALEDYEKALEL 63 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCc--cH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4567788888999999999999998665433 33 45566888889999999999988887764
No 108
>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=79.87 E-value=6.9 Score=27.86 Aligned_cols=51 Identities=20% Similarity=0.205 Sum_probs=41.9
Q ss_pred HHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 306 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 306 hNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
..++.+..-+..++..+||+.++++..-+=..+.+|+..|-|.-..|..|+
T Consensus 6 ~~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 6 FRILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 344444445678999999999999999999999999999999988887665
No 109
>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=79.71 E-value=6.1 Score=31.48 Aligned_cols=69 Identities=12% Similarity=0.055 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
.....+|.++.+.|++.+|.+.+..+..... +.....+.+....+++...+++..|..+++++......
T Consensus 40 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~ 108 (119)
T TIGR02795 40 NAHYWLGEAYYAQGKYADAAKAFLAVVKKYP----KSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPG 108 (119)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHCC----CCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcC
Confidence 4557799999999999999999998764321 11133566788888999999999999999998776543
No 110
>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=79.34 E-value=18 Score=37.67 Aligned_cols=89 Identities=13% Similarity=-0.000 Sum_probs=67.9
Q ss_pred hhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHH
Q 015984 109 EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILD 188 (397)
Q Consensus 109 ~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~ 188 (397)
.++...|-++|...+.. .+.. .=+.+...|++...+|.+.|-..++++..... .-+++..-.+.-.|-.++
T Consensus 246 ~~~~~~a~~lL~~~~~~-----yP~s--~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~--~~~Ql~~l~~~El~w~~~ 316 (468)
T PF10300_consen 246 DVPLEEAEELLEEMLKR-----YPNS--ALFLFFEGRLERLKGNLEEAIESFERAIESQS--EWKQLHHLCYFELAWCHM 316 (468)
T ss_pred CCCHHHHHHHHHHHHHh-----CCCc--HHHHHHHHHHHHHhcCHHHHHHHHHHhccchh--hHHhHHHHHHHHHHHHHH
Confidence 55778888888886632 2221 23568889999999999999999999874332 245666666666788899
Q ss_pred HHHhHHHHHHHHHHHHHh
Q 015984 189 LKRKFLEAALRYYDISQI 206 (397)
Q Consensus 189 ~~r~f~~Aa~~y~e~~~~ 206 (397)
...+|.+|+.+|..+...
T Consensus 317 ~~~~w~~A~~~f~~L~~~ 334 (468)
T PF10300_consen 317 FQHDWEEAAEYFLRLLKE 334 (468)
T ss_pred HHchHHHHHHHHHHHHhc
Confidence 999999999999999873
No 111
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.09 E-value=45 Score=32.27 Aligned_cols=57 Identities=12% Similarity=0.031 Sum_probs=36.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCC-CcchHHHHhhhh
Q 015984 183 YARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYK 250 (397)
Q Consensus 183 ~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~-~~rs~ll~~l~~ 250 (397)
++..++..++|.+|-....+++... . ..++ +|-++++|+.+-+.+ +-..|.+..+..
T Consensus 213 ~Av~~l~~~~~eeAe~lL~eaL~kd------~--~dpe---tL~Nliv~a~~~Gkd~~~~~r~l~QLk~ 270 (299)
T KOG3081|consen 213 QAVCHLQLGRYEEAESLLEEALDKD------A--KDPE---TLANLIVLALHLGKDAEVTERNLSQLKL 270 (299)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHhcc------C--CCHH---HHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence 4556678888888877777777632 1 1223 677888888776554 335666666665
No 112
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=78.75 E-value=78 Score=31.99 Aligned_cols=90 Identities=10% Similarity=-0.024 Sum_probs=53.6
Q ss_pred HHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHH
Q 015984 104 DLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCY 183 (397)
Q Consensus 104 ~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~ 183 (397)
..-...|+++.|...+....-. +++..+-..+..+++++..+|+.+|..++++......+ ++. .....
T Consensus 126 ~aA~~~g~~~~A~~~l~~A~~~------~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~--~~~----al~ll 193 (398)
T PRK10747 126 EAAQQRGDEARANQHLERAAEL------ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR--HPE----VLRLA 193 (398)
T ss_pred HHHHHCCCHHHHHHHHHHHHhc------CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CHH----HHHHH
Confidence 3336677777777776664321 22333444455577777778888777777777655433 222 22333
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH
Q 015984 184 ARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 184 ~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
+..|...++|.+|-..+..+-.
T Consensus 194 ~~~~~~~gdw~~a~~~l~~l~k 215 (398)
T PRK10747 194 EQAYIRTGAWSSLLDILPSMAK 215 (398)
T ss_pred HHHHHHHHhHHHHHHHHHHHHH
Confidence 5556677788777766666665
No 113
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=78.30 E-value=6.8 Score=37.28 Aligned_cols=96 Identities=16% Similarity=0.094 Sum_probs=44.9
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
-..|+.+ ...+++.+|.+++...- .... .-..+...+.++...+++.++...++++..... ..-...
T Consensus 81 ~~~l~~l-~~~~~~~~A~~~~~~~~-----~~~~---~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~ 147 (280)
T PF13429_consen 81 YERLIQL-LQDGDPEEALKLAEKAY-----ERDG---DPRYLLSALQLYYRLGDYDEAEELLEKLEELPA----APDSAR 147 (280)
T ss_dssp ----------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-------T-HH
T ss_pred ccccccc-ccccccccccccccccc-----cccc---ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccC----CCCCHH
Confidence 3557777 68899999999876521 1111 124455567788899999999999999774321 123355
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
|+...|.++...|++.+|-..|..+....
T Consensus 148 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~ 176 (280)
T PF13429_consen 148 FWLALAEIYEQLGDPDKALRDYRKALELD 176 (280)
T ss_dssp HHHHHHHHHHHCCHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence 78889999999999999999999999863
No 114
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=78.26 E-value=16 Score=40.49 Aligned_cols=102 Identities=12% Similarity=0.034 Sum_probs=79.3
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccC--------CCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSG--------MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~--------~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~ 170 (397)
...|+..+.+.|++++|...+..+.-... ....++....+.+...+.++...+++.+|...+.++......
T Consensus 313 ~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~- 391 (765)
T PRK10049 313 LADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG- 391 (765)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-
Confidence 35677778999999999999888664321 112234457788889999999999999999999998776543
Q ss_pred chHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 171 QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 171 ~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
++. .....|.++...+++.+|-..|..+...
T Consensus 392 -n~~----l~~~lA~l~~~~g~~~~A~~~l~~al~l 422 (765)
T PRK10049 392 -NQG----LRIDYASVLQARGWPRAAENELKKAEVL 422 (765)
T ss_pred -CHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence 333 5566788999999999999999998885
No 115
>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=77.77 E-value=6.8 Score=26.31 Aligned_cols=47 Identities=17% Similarity=0.309 Sum_probs=34.3
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHH
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQ 372 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~ 372 (397)
+|++++|+.||++...+. +++.+|.|.+... .+...|.. +.+.+|-+
T Consensus 2 lt~~e~a~~lgis~~ti~----~~~~~g~i~~~~~--g~~~~~~~--~~l~~~~~ 48 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVY----RLIHEGELPAYRV--GRHYRIPR--EDVDEYLE 48 (49)
T ss_pred CCHHHHHHHHCCCHHHHH----HHHHcCCCCeEEe--CCeEEEeH--HHHHHHHh
Confidence 578999999999988655 5678999988654 45666654 55666743
No 116
>PRK14574 hmsH outer membrane protein; Provisional
Probab=77.73 E-value=1.3e+02 Score=33.92 Aligned_cols=95 Identities=8% Similarity=0.006 Sum_probs=70.5
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
...+|.+|...|+|.+|..++..+.... +.. .+++...+.+|...++..+|...++++...... +.
T Consensus 105 llalA~ly~~~gdyd~Aiely~kaL~~d------P~n-~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~-------~~ 170 (822)
T PRK14574 105 LASAARAYRNEKRWDQALALWQSSLKKD------PTN-PDLISGMIMTQADAGRGGVVLKQATELAERDPT-------VQ 170 (822)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhhC------CCC-HHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcc-------hH
Confidence 3556889999999999999999976422 111 345556699999999999999999998876432 33
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
++...+.++...+++.+|...|.+++...
T Consensus 171 ~~l~layL~~~~~~~~~AL~~~ekll~~~ 199 (822)
T PRK14574 171 NYMTLSYLNRATDRNYDALQASSEAVRLA 199 (822)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence 33444555555677777999999999863
No 117
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.18 E-value=22 Score=32.78 Aligned_cols=97 Identities=19% Similarity=0.093 Sum_probs=78.2
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
...+|+.+.+.|++++|...|....-. +-|...|.-.-++.+|+-+..+.++.|-..++-+.. +.....
T Consensus 92 aL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-------~~w~~~ 160 (207)
T COG2976 92 ALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAALKTLDTIKE-------ESWAAI 160 (207)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-------ccHHHH
Confidence 367999999999999999999874432 234455777779999999999999988877765543 344566
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+-...|-++...+|=.+|-..|-.+...
T Consensus 161 ~~elrGDill~kg~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 161 VAELRGDILLAKGDKQEARAAYEKALES 188 (207)
T ss_pred HHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence 7788899999999999999999998884
No 118
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=76.97 E-value=81 Score=32.84 Aligned_cols=87 Identities=14% Similarity=0.182 Sum_probs=55.4
Q ss_pred hhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHH
Q 015984 108 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 187 (397)
Q Consensus 108 ~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~ 187 (397)
+..+|.=+++-+..|+-+-.--.+-...-+++|-.-+|+.||.||...--..-+....+...+.... .+.|-.|...|+
T Consensus 319 ~~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~-~~EF~AYriLY~ 397 (540)
T KOG1861|consen 319 AKANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGA-YLEFTAYRILYY 397 (540)
T ss_pred hhccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCc-hhhHHHHHHHHH
Confidence 3467777777777777554212244455688888889999999998876666666655553321111 556666666666
Q ss_pred HHHHhHHH
Q 015984 188 DLKRKFLE 195 (397)
Q Consensus 188 ~~~r~f~~ 195 (397)
....|+.+
T Consensus 398 i~tkN~~d 405 (540)
T KOG1861|consen 398 IFTKNYPD 405 (540)
T ss_pred HHhcCchH
Confidence 66666654
No 119
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.77 E-value=74 Score=30.66 Aligned_cols=97 Identities=13% Similarity=0.035 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
|+-..-|-.+|..|.|.+|.+.+..+.-|....... .| +-+-+....|....|-.-+++=...+.. |++
T Consensus 87 RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~--~K-----RKlAilka~GK~l~aIk~ln~YL~~F~~--D~E-- 155 (289)
T KOG3060|consen 87 RVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVI--RK-----RKLAILKAQGKNLEAIKELNEYLDKFMN--DQE-- 155 (289)
T ss_pred hHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHH--HH-----HHHHHHHHcCCcHHHHHHHHHHHHHhcC--cHH--
Confidence 666677899999999999999999987553111111 22 3333334455555565556665555543 443
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
-....+.+|...++|..|+.||-|+.-+
T Consensus 156 --AW~eLaeiY~~~~~f~kA~fClEE~ll~ 183 (289)
T KOG3060|consen 156 --AWHELAEIYLSEGDFEKAAFCLEELLLI 183 (289)
T ss_pred --HHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence 2345678889999999999999999875
No 120
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=76.04 E-value=3 Score=26.87 Aligned_cols=23 Identities=17% Similarity=0.403 Sum_probs=19.7
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhc
Q 015984 100 EKLADLYESEQQWSKAAQMLSGI 122 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i 122 (397)
..||.+|...|+|++|.+++...
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~a 25 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQA 25 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHH
Confidence 46999999999999999999873
No 121
>PF12728 HTH_17: Helix-turn-helix domain
Probab=75.85 E-value=8.9 Score=26.57 Aligned_cols=47 Identities=19% Similarity=0.381 Sum_probs=35.2
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHH
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQ 372 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~ 372 (397)
+|.+++|+.||+|...+. +|+..|.|.+. ++.+.+.|.. +.+.+|-+
T Consensus 2 lt~~e~a~~l~is~~tv~----~~~~~g~i~~~--~~g~~~~~~~--~~l~~~~~ 48 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVY----RWIRQGKIPPF--KIGRKWRIPK--SDLDRWLE 48 (51)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHcCCCCeE--EeCCEEEEeH--HHHHHHHH
Confidence 578999999999988754 67789999777 4666677664 55666754
No 122
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=75.60 E-value=8.3 Score=31.16 Aligned_cols=35 Identities=23% Similarity=0.358 Sum_probs=32.4
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
...++++.+||+.+|+|+..+-+.+.+|..+|-+.
T Consensus 14 ~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 14 KDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 34689999999999999999999999999999876
No 123
>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=75.47 E-value=12 Score=27.98 Aligned_cols=43 Identities=21% Similarity=0.313 Sum_probs=35.4
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
-.++-+.||..+|++.+.+-+.+.+|..+|.|. -..|.|...+
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~----~~~~~i~I~d 69 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIE----VKRGKIIILD 69 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE----EETTEEEESS
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EcCCEEEECC
Confidence 457899999999999999999999999999887 2444555544
No 124
>PLN03077 Protein ECB2; Provisional
Probab=75.37 E-value=1e+02 Score=34.51 Aligned_cols=93 Identities=11% Similarity=0.043 Sum_probs=67.8
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~ 177 (397)
....+.+.|.+.|++++|.+++.+++.+. + ..+|-..+.-|...+|...++...+++...-.. ..
T Consensus 627 ~y~~lv~~l~r~G~~~eA~~~~~~m~~~p-----d----~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~------~~ 691 (857)
T PLN03077 627 HYACVVDLLGRAGKLTEAYNFINKMPITP-----D----PAVWGALLNACRIHRHVELGELAAQHIFELDPN------SV 691 (857)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHCCCCC-----C----HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCC------Cc
Confidence 34567888899999999999998886432 1 345555556666678888888777766544222 23
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+|...+.+|...++|.+|.+.....-.
T Consensus 692 ~~y~ll~n~ya~~g~~~~a~~vr~~M~~ 719 (857)
T PLN03077 692 GYYILLCNLYADAGKWDEVARVRKTMRE 719 (857)
T ss_pred chHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence 4788888899999999999998877765
No 125
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=75.33 E-value=43 Score=33.92 Aligned_cols=156 Identities=17% Similarity=0.071 Sum_probs=99.0
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcC---CcchhhhHHHHHHHHHHhCCCC-hHHHHHHHHHHHHhhccccchHHH
Q 015984 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSD---DVPLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEE 93 (397)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~sr~~~~~~~~~l~~l~-~~~~~~~~~~~l~~~~~~~~~~e~ 93 (397)
-..|..+|++.-..++.++|+.+-..+-.. +.. +...++..+-.+. ++...++.++.+..--...
T Consensus 229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~------l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----- 297 (400)
T COG3071 229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPE------LVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----- 297 (400)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChh------HHHHHHHHHHHcCChHHHHHHHHHHHHhccChh-----
Confidence 457888999998888888888888776533 233 3345666666663 5566777777776542222
Q ss_pred HHHHHHHHHHHHHH--hhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc
Q 015984 94 QVLIIREKLADLYE--SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (397)
Q Consensus 94 q~~~l~~~La~~~e--~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~ 171 (397)
|..++. .-+|...-.+.+..=. +..+++. .++..-=|||+..+.|.+|+.+++++.....+..
T Consensus 298 --------L~~~~~~l~~~d~~~l~k~~e~~l-----~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~ 362 (400)
T COG3071 298 --------LCRLIPRLRPGDPEPLIKAAEKWL-----KQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSAS 362 (400)
T ss_pred --------HHHHHhhcCCCCchHHHHHHHHHH-----HhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChh
Confidence 222222 1223332222222211 1111112 6777888999999999999999998877766544
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
|+ ..-|..++..++--+|..++.+..-.
T Consensus 363 ~~-------~~la~~~~~~g~~~~A~~~r~e~L~~ 390 (400)
T COG3071 363 DY-------AELADALDQLGEPEEAEQVRREALLL 390 (400)
T ss_pred hH-------HHHHHHHHHcCChHHHHHHHHHHHHH
Confidence 44 34677778888888888888887743
No 126
>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=75.19 E-value=11 Score=27.11 Aligned_cols=47 Identities=13% Similarity=0.136 Sum_probs=37.8
Q ss_pred HHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 311 is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
+.+--..+++++||+.||+|+.-+-.-+..+-..|. |.++-|-+.+.
T Consensus 8 ~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~----i~r~~GG~~~~ 54 (57)
T PF08220_consen 8 LLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGL----IKRTHGGAVLN 54 (57)
T ss_pred HHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCC----EEEEcCEEEeC
Confidence 334458999999999999999999999999999986 45565655543
No 127
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=75.06 E-value=65 Score=29.22 Aligned_cols=110 Identities=12% Similarity=-0.012 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHh------hcCChHH---HHHHHHHhcccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYL------EDDDAVN---AEAFINKASFLV 167 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L------~~~d~~~---A~~~l~ka~~~~ 167 (397)
.....+|..|...|+|.+|...+......- ...+...-+-+++-.+.+.. ...|... |...++......
T Consensus 43 ~A~l~la~a~y~~~~y~~A~~~~~~fi~~y--P~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~y 120 (203)
T PF13525_consen 43 QAQLMLAYAYYKQGDYEEAIAAYERFIKLY--PNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRY 120 (203)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHC
Confidence 345789999999999999999999965432 11111111211111111111 1344443 444444443333
Q ss_pred cCcc-----------hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 168 SSSQ-----------QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 168 ~~~~-----------~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
.+.+ -.+.....-...|++|...++|..|..+|..+...++
T Consensus 121 P~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp 172 (203)
T PF13525_consen 121 PNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYP 172 (203)
T ss_dssp TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHST
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence 3321 1133445556679999999999999999999999754
No 128
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=74.86 E-value=5.5 Score=30.60 Aligned_cols=38 Identities=11% Similarity=0.043 Sum_probs=33.2
Q ss_pred HHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 310 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 310 ~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
.+++++...|..+||+.+|+|+.-+...+..+...|.+
T Consensus 25 ~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 25 ALAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 34467899999999999999999999999988888765
No 129
>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=74.60 E-value=36 Score=34.56 Aligned_cols=94 Identities=15% Similarity=0.155 Sum_probs=53.7
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~ 180 (397)
.-|-+-..+|||..|.+.+....-.+ + .-.-.++..++.+...||+.+|..++.++...... +. +...
T Consensus 89 ~~glla~~~g~~~~A~~~l~~~~~~~-----~--~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~---~~--l~~~ 156 (409)
T TIGR00540 89 EEALLKLAEGDYAKAEKLIAKNADHA-----A--EPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGN---DN--ILVE 156 (409)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHhhcC-----C--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc---Cc--hHHH
Confidence 33455556777888777776533211 1 12345566677777777777777777776543221 11 1123
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...++++...++|..|-..+..+...
T Consensus 157 ~~~a~l~l~~~~~~~Al~~l~~l~~~ 182 (409)
T TIGR00540 157 IARTRILLAQNELHAARHGVDKLLEM 182 (409)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 33466666667766666666665554
No 130
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=74.51 E-value=18 Score=35.31 Aligned_cols=145 Identities=20% Similarity=0.199 Sum_probs=81.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccchH
Q 015984 182 CYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYP 261 (397)
Q Consensus 182 ~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~~ 261 (397)
+.|-=++..++|.+|-..|.++... +|.+..-..-.+..+.=|.-..+-..+-++.+.-||...+ .|.
T Consensus 86 ~eGN~~m~~~~Y~eAv~kY~~AI~l----------~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~ysk--ay~ 153 (304)
T KOG0553|consen 86 NEGNKLMKNKDYQEAVDKYTEAIEL----------DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSK--AYG 153 (304)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhc----------CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHH--HHH
Confidence 4566678999999999999999984 2222111111222233333333445555556655654322 456
Q ss_pred HHHHHHHHhhcChhhHHHHHHHhchhhhhhCCCchhhHHHHHHHHHHHHHHhh-------ccccCHHHHHHHhCCC----
Q 015984 262 ILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKL-------YTNISFEELGTLLGIA---- 330 (397)
Q Consensus 262 ~L~k~f~~~ii~~~~l~~F~~~L~~h~~~~~~d~~~~L~~~v~EhNl~~is~~-------Y~~Isl~~La~ll~ls---- 330 (397)
.|--+|+. +.+|++....+++++.=||... +...||..+.+- =..+.-.+++.++|-.
T Consensus 154 RLG~A~~~-------~gk~~~A~~aykKaLeldP~Ne----~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~ 222 (304)
T KOG0553|consen 154 RLGLAYLA-------LGKYEEAIEAYKKALELDPDNE----SYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDSR 222 (304)
T ss_pred HHHHHHHc-------cCcHHHHHHHHHhhhccCCCcH----HHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccch
Confidence 66666642 2245555555666665555322 334455444432 2456666777777763
Q ss_pred ---------hHHHHHHHHHhHhcCceEE
Q 015984 331 ---------PQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 331 ---------~~~~E~~ls~mI~~grl~g 349 (397)
...+-...+.|+.+|.++|
T Consensus 223 s~~~~~l~nnp~l~~~~~~m~~~~~~~~ 250 (304)
T KOG0553|consen 223 SMFNGDLMNNPQLMQLASQMMKDGALNG 250 (304)
T ss_pred hhhccccccCHHHHHHHHHHhhcccccC
Confidence 3355667788888766655
No 131
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=74.38 E-value=6.7 Score=26.36 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=30.0
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
.++..+||+.+|++...+-+.+.+|...|-+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999886
No 132
>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=74.37 E-value=23 Score=25.49 Aligned_cols=44 Identities=9% Similarity=0.164 Sum_probs=37.9
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
++.+++++.+|++...+-..+.+|...|-+...-+...+...+.
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~ 64 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLT 64 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeC
Confidence 99999999999999999999999999999988766644455554
No 133
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=74.36 E-value=76 Score=29.92 Aligned_cols=107 Identities=12% Similarity=0.033 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHH----------------hhcCChHHHHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY----------------LEDDDAVNAEAFI 160 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~----------------L~~~d~~~A~~~l 160 (397)
.....||..|...+++.+|...+...-.. .++..+++..+-..=++ ...+|...++..+
T Consensus 70 ~a~l~la~ayy~~~~y~~A~~~~e~fi~~-----~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~ 144 (243)
T PRK10866 70 QVQLDLIYAYYKNADLPLAQAAIDRFIRL-----NPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAF 144 (243)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHH
Confidence 34679999999999999999999885422 22233444322211111 1234666566444
Q ss_pred HH---hcccccCcc---h--------HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 161 NK---ASFLVSSSQ---Q--------EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 161 ~k---a~~~~~~~~---~--------~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
+. ......+.+ + .+...+.-..-|++|...++|..|..+|.++...++
T Consensus 145 ~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp 206 (243)
T PRK10866 145 RDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYP 206 (243)
T ss_pred HHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCC
Confidence 43 333333321 1 133455566788999999999999999999998754
No 134
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.31 E-value=11 Score=35.45 Aligned_cols=52 Identities=17% Similarity=0.241 Sum_probs=46.6
Q ss_pred HHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 311 is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
|.+--+.|.|+.||..|||-.+.+-.-+-.++.+|.|.|.||--...|+...
T Consensus 208 YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~ 259 (299)
T KOG3054|consen 208 YIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISM 259 (299)
T ss_pred HHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecH
Confidence 3445689999999999999999999999999999999999999888888765
No 135
>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=74.17 E-value=40 Score=27.64 Aligned_cols=50 Identities=12% Similarity=0.084 Sum_probs=41.8
Q ss_pred HHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 307 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 307 Nl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
.++.+..-...++..+||+.+|++..-+=..+.+|...|-|...-|..++
T Consensus 32 ~iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~ 81 (118)
T TIGR02337 32 RILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQ 81 (118)
T ss_pred HHHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCC
Confidence 33333333568999999999999999999999999999999999887776
No 136
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=74.09 E-value=39 Score=36.79 Aligned_cols=96 Identities=10% Similarity=-0.059 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|.++...|++++|...+.....-. + .-.+.+....+++...+++..|...+.++...... +++..
T Consensus 111 ~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~------P-~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~--~~~a~ 181 (656)
T PRK15174 111 EDVLLVASVLLKSKQYATVADLAEQAWLAF------S-GNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP--RGDMI 181 (656)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------C-CcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC--CHHHH
Confidence 345778999999999999999988854211 1 12456777889999999999999988876544332 33321
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.. +..+...++|.+|...|..+...
T Consensus 182 ---~~--~~~l~~~g~~~eA~~~~~~~l~~ 206 (656)
T PRK15174 182 ---AT--CLSFLNKSRLPEDHDLARALLPF 206 (656)
T ss_pred ---HH--HHHHHHcCCHHHHHHHHHHHHhc
Confidence 11 22367789999998888777653
No 137
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.06 E-value=86 Score=30.13 Aligned_cols=26 Identities=27% Similarity=0.208 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDIS 204 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~ 204 (397)
++--.++++..-++|.||+..|....
T Consensus 152 l~gk~sr~lVrl~kf~Eaa~a~lKe~ 177 (308)
T KOG1585|consen 152 LYGKCSRVLVRLEKFTEAATAFLKEG 177 (308)
T ss_pred HHHHhhhHhhhhHHhhHHHHHHHHhh
Confidence 33444566677777777777665443
No 138
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=73.62 E-value=40 Score=26.06 Aligned_cols=41 Identities=20% Similarity=0.324 Sum_probs=36.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
..++..+|++.++++...+-..+.+|...|-+.-.-|+.++
T Consensus 23 ~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~ 63 (101)
T smart00347 23 GPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDR 63 (101)
T ss_pred CCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCC
Confidence 46899999999999999999999999999999887776544
No 139
>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=72.77 E-value=7.9 Score=24.78 Aligned_cols=30 Identities=10% Similarity=0.346 Sum_probs=24.7
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
+|-.+||..+|++++-|-..+.++-.+|.|
T Consensus 3 mtr~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 3 MTRQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp --HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred cCHHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 566889999999999999999999988865
No 140
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=72.54 E-value=96 Score=30.00 Aligned_cols=112 Identities=14% Similarity=0.081 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcc-ccc--
Q 015984 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF-LVS-- 168 (397)
Q Consensus 92 e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~-~~~-- 168 (397)
..+.+..-.++|++.-+.|.++-|...|..+.... .........+.++.+++.-..|+...|-..++.... ...
T Consensus 142 ~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~---~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~ 218 (352)
T PF02259_consen 142 PEELAETWLKFAKLARKAGNFQLALSALNRLFQLN---PSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKN 218 (352)
T ss_pred hhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccC---CcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhc
Confidence 44667788899999999999999999998865321 111112567888999999999999888877766443 111
Q ss_pred -------------------------CcchHHHHHHHHHHHHHHHHHH------HhHHHHHHHHHHHHHh
Q 015984 169 -------------------------SSQQEVLNLQYKVCYARILDLK------RKFLEAALRYYDISQI 206 (397)
Q Consensus 169 -------------------------~~~~~~l~~~~~~~~~~~~~~~------r~f~~Aa~~y~e~~~~ 206 (397)
.....+.+.+.+...|+..+.. .++.++...|.++...
T Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~ 287 (352)
T PF02259_consen 219 IDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKL 287 (352)
T ss_pred cccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHh
Confidence 1124466777888888888777 7888888888777763
No 141
>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=72.36 E-value=7.1 Score=28.32 Aligned_cols=34 Identities=12% Similarity=0.228 Sum_probs=31.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
..++..+||+.+|++...+.+.+.+|..+|.|..
T Consensus 24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 24 LPLTRQEIADYLGLTRETVSRTLKELEEEGLISR 57 (67)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 4589999999999999999999999999998864
No 142
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.18 E-value=96 Score=29.83 Aligned_cols=103 Identities=16% Similarity=0.079 Sum_probs=69.0
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCch-hHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~-~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
++=++.||.+..|--||+.....-.=. +.++. .+-++++-+-..+|.+.|-+.-|-..+.||...+.+ .+|+.-++
T Consensus 55 lkA~~~yEnnrslfhAAKayEqaamLa--ke~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~len-v~Pd~Alq 131 (308)
T KOG1585|consen 55 LKASKGYENNRSLFHAAKAYEQAAMLA--KELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALEN-VKPDDALQ 131 (308)
T ss_pred HHHHHHHHhcccHHHHHHHHHHHHHHH--HHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhc-CCHHHHHH
Confidence 444567777666666666655433211 11122 267888899999999999999999999999988765 46666677
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
+|.-..-+.....+-.-|+..|-..+.
T Consensus 132 lYqralavve~~dr~~ma~el~gk~sr 158 (308)
T KOG1585|consen 132 LYQRALAVVEEDDRDQMAFELYGKCSR 158 (308)
T ss_pred HHHHHHHHHhccchHHHHHHHHHHhhh
Confidence 776666565555555556665555544
No 143
>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=71.74 E-value=75 Score=32.48 Aligned_cols=95 Identities=19% Similarity=0.167 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
..|...|.+++...+.++.|..++.++.... + ++....+|+++..++-.+|-..++++-..... +
T Consensus 169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~------p----ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~--d--- 233 (395)
T PF09295_consen 169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERD------P----EVAVLLARVYLLMNEEVEAIRLLNEALKENPQ--D--- 233 (395)
T ss_pred hHHHHHHHHHHhhcccHHHHHHHHHHHHhcC------C----cHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC--C---
Confidence 4677778889999999999999999977432 1 35666899999999999999999888743322 2
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...-..+|+++..+++|..|......+-..
T Consensus 234 -~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l 263 (395)
T PF09295_consen 234 -SELLNLQAEFLLSKKKYELALEIAKKAVEL 263 (395)
T ss_pred -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 445557888899999998888887777664
No 144
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=71.05 E-value=16 Score=35.00 Aligned_cols=69 Identities=10% Similarity=0.037 Sum_probs=54.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
.....||..|...|++.+|...+..+.-.- -+....-+.++....++...+|+.+|..+++++......
T Consensus 181 ~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y----P~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~ 249 (263)
T PRK10803 181 NANYWLGQLNYNKGKKDDAAYYFASVVKNY----PKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPG 249 (263)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC----CCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 456899999999999999999998865321 122345677788888999999999999999998776654
No 145
>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=70.94 E-value=12 Score=26.98 Aligned_cols=53 Identities=15% Similarity=0.045 Sum_probs=41.6
Q ss_pred hhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 148 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 148 L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+..||+..|...++++...... +++ .....|.++...++|.+|...+..+...
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~--~~~----~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD--NPE----ARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT--SHH----HHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hhccCHHHHHHHHHHHHHHCCC--CHH----HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5689999999999999776543 444 3445788889999999999999888875
No 146
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.60 E-value=94 Score=29.94 Aligned_cols=67 Identities=19% Similarity=0.096 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~ 167 (397)
..=..||++|...|+|..|+=++.++.+-+.+-.+=-.--.|+.-.+. ...|..-|..|+.++-...
T Consensus 155 EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~g----g~eN~~~arkyy~~alkl~ 221 (289)
T KOG3060|consen 155 EAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQG----GAENLELARKYYERALKLN 221 (289)
T ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHh----hHHHHHHHHHHHHHHHHhC
Confidence 445679999999999999999999988755222111111223322222 2456777778888776553
No 147
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=70.60 E-value=23 Score=34.38 Aligned_cols=80 Identities=11% Similarity=0.049 Sum_probs=64.3
Q ss_pred HhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHH
Q 015984 82 AQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFIN 161 (397)
Q Consensus 82 ~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ 161 (397)
+|+.+....|++.-...-.+|++.+...|+++.+...++++--.- . +--..|...|+.|+..++...|...++
T Consensus 139 ~WV~~~R~~l~e~~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d---p----~~E~~~~~lm~~y~~~g~~~~ai~~y~ 211 (280)
T COG3629 139 EWVLEQRRALEELFIKALTKLAEALIACGRADAVIEHLERLIELD---P----YDEPAYLRLMEAYLVNGRQSAAIRAYR 211 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC---c----cchHHHHHHHHHHHHcCCchHHHHHHH
Confidence 566666667777777777889999999999999999999965321 1 122578899999999999999999999
Q ss_pred Hhccccc
Q 015984 162 KASFLVS 168 (397)
Q Consensus 162 ka~~~~~ 168 (397)
+.+....
T Consensus 212 ~l~~~~~ 218 (280)
T COG3629 212 QLKKTLA 218 (280)
T ss_pred HHHHHhh
Confidence 9888654
No 148
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=70.51 E-value=4.4 Score=27.89 Aligned_cols=26 Identities=19% Similarity=0.170 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchh
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDL 124 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~ 124 (397)
+..||+.|.+.||.+.|.++|.++..
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~ 27 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIE 27 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHH
Confidence 46799999999999999999999873
No 149
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=70.02 E-value=1.1e+02 Score=29.87 Aligned_cols=123 Identities=14% Similarity=0.078 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH-H
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE-V 174 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~-~ 174 (397)
+.+..-||+.|.+.|+.++|..+|..+|.+- .++.-.. .-.++.+.....+.+.......++.. || +
T Consensus 168 ~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~-----~~~~~~~-l~a~i~ll~qaa~~~~~~~l~~~~aa------dPdd 235 (304)
T COG3118 168 SEAKLLLAECLLAAGDVEAAQAILAALPLQA-----QDKAAHG-LQAQIELLEQAAATPEIQDLQRRLAA------DPDD 235 (304)
T ss_pred chHHHHHHHHHHHcCChHHHHHHHHhCcccc-----hhhHHHH-HHHHHHHHHHHhcCCCHHHHHHHHHh------CCCC
Confidence 4677889999999999999999999999764 1222111 12224444444444444444444332 22 3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCc
Q 015984 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQ 240 (397)
Q Consensus 175 l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~ 240 (397)
...+|. .|..+...+++.+|...+..+..... ..-+..-|.+.+ =++..+.+..|-
T Consensus 236 ~~aa~~--lA~~~~~~g~~e~Ale~Ll~~l~~d~-----~~~d~~~Rk~ll---e~f~~~g~~Dp~ 291 (304)
T COG3118 236 VEAALA--LADQLHLVGRNEAALEHLLALLRRDR-----GFEDGEARKTLL---ELFEAFGPADPL 291 (304)
T ss_pred HHHHHH--HHHHHHHcCCHHHHHHHHHHHHHhcc-----cccCcHHHHHHH---HHHHhcCCCCHH
Confidence 444444 56778899999999999999998532 222334444443 355666665553
No 150
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=69.95 E-value=5.7 Score=24.17 Aligned_cols=27 Identities=15% Similarity=0.143 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhc
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLD 125 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~e 125 (397)
...+|.+|...|++++|.+.+..+..+
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 467899999999999999999987643
No 151
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=69.70 E-value=81 Score=37.20 Aligned_cols=148 Identities=15% Similarity=0.126 Sum_probs=94.8
Q ss_pred HHHhhcCCC-HHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHh--h--c--cccchHHHHHH-
Q 015984 25 LSSVISSND-IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQ--I--Q--PRVVSFEEQVL- 96 (397)
Q Consensus 25 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~--~--~--~~~~~~e~q~~- 96 (397)
...+.++++ .=.|..|+.+.++-+ -+--.|.+-..+...+.==..+-...++...++. . + +-+..||+...
T Consensus 1448 erlvrssPNSSi~WI~YMaf~Lels-EiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy 1526 (1710)
T KOG1070|consen 1448 ERLVRSSPNSSILWIRYMAFHLELS-EIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY 1526 (1710)
T ss_pred HHHHhcCCCcchHHHHHHHHHhhhh-hhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh
Confidence 334456665 357899999988433 3556776655544333111222222222222211 1 1 11224666544
Q ss_pred ----HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcch
Q 015984 97 ----IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (397)
Q Consensus 97 ----~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~ 172 (397)
.+-.+|+.+|+..+++.+|.++|..+..-. | +...+|+.-+...+..++-..|+..+++|.....+-.+
T Consensus 1527 cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF--~-----q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eH 1599 (1710)
T KOG1070|consen 1527 CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF--G-----QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEH 1599 (1710)
T ss_pred cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh--c-----chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhh
Confidence 455889999999999999999999977543 2 56789999999999999999999999999887765444
Q ss_pred HHHHHHHH
Q 015984 173 EVLNLQYK 180 (397)
Q Consensus 173 ~~l~~~~~ 180 (397)
-+..-+|-
T Consensus 1600 v~~IskfA 1607 (1710)
T KOG1070|consen 1600 VEFISKFA 1607 (1710)
T ss_pred HHHHHHHH
Confidence 45444443
No 152
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=69.56 E-value=17 Score=25.04 Aligned_cols=30 Identities=23% Similarity=0.496 Sum_probs=25.3
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhHh
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMIF 343 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~ 343 (397)
||...|++++|+.+|+|...|-....+.+.
T Consensus 17 y~~~~t~~eIa~~lg~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 17 YFEGLTLEEIAERLGISRSTVRRILKRALK 46 (50)
T ss_dssp HTST-SHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred hcCCCCHHHHHHHHCCcHHHHHHHHHHHHH
Confidence 689999999999999999998888776653
No 153
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=69.36 E-value=1.3e+02 Score=30.32 Aligned_cols=107 Identities=16% Similarity=0.160 Sum_probs=75.5
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH--------------------------------------HHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF--------------------------------------RLS 138 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~--------------------------------------kle 138 (397)
.....++.+|...|||++|.++|..+.... .+++.+ ..+
T Consensus 188 ~al~ll~~~~~~~gdw~~a~~~l~~l~k~~---~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~ 264 (398)
T PRK10747 188 EVLRLAEQAYIRTGAWSSLLDILPSMAKAH---VGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVA 264 (398)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHH
Confidence 455678899999999999998888766321 111111 234
Q ss_pred HHHHHHHHHhhcCChHHHHHHHHHhcccccCc-----------c--hHHHH------------HHHHHHHHHHHHHHHhH
Q 015984 139 KCVQIARLYLEDDDAVNAEAFINKASFLVSSS-----------Q--QEVLN------------LQYKVCYARILDLKRKF 193 (397)
Q Consensus 139 ~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-----------~--~~~l~------------~~~~~~~~~~~~~~r~f 193 (397)
.++.-++.++..|+..+|...+.++-...... + ++.++ ..+..+.|+++...++|
T Consensus 265 ~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~ 344 (398)
T PRK10747 265 LQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEW 344 (398)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCH
Confidence 55666899999999999999999875532211 1 11111 33678899999999999
Q ss_pred HHHHHHHHHHHHh
Q 015984 194 LEAALRYYDISQI 206 (397)
Q Consensus 194 ~~Aa~~y~e~~~~ 206 (397)
.+|-.+|..+...
T Consensus 345 ~~A~~~le~al~~ 357 (398)
T PRK10747 345 QEASLAFRAALKQ 357 (398)
T ss_pred HHHHHHHHHHHhc
Confidence 9988888877764
No 154
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=69.35 E-value=1.8e+02 Score=31.74 Aligned_cols=98 Identities=16% Similarity=-0.045 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
......||.++...|++++|...+.....- ++. -.+.+....+++...+++..|...+.++...-.. ++
T Consensus 284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~l------~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~--~~-- 352 (656)
T PRK15174 284 VRIVTLYADALIRTGQNEKAIPLLQQSLAT------HPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGV--TS-- 352 (656)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc--ch--
Confidence 466778899999999999999998885521 111 1234555688899999999999999887664322 22
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+....|..+...+++.+|-..|..+...
T Consensus 353 --~~~~~~a~al~~~G~~deA~~~l~~al~~ 381 (656)
T PRK15174 353 --KWNRYAAAALLQAGKTSEAESVFEHYIQA 381 (656)
T ss_pred --HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 23444577888899999999999988875
No 155
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.04 E-value=15 Score=32.00 Aligned_cols=38 Identities=16% Similarity=0.371 Sum_probs=34.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE---Eecc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG---SIDQ 353 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g---kIDQ 353 (397)
.++++.+||+.+|+|+..+-.-+-+|..+|-|.+ .+|.
T Consensus 22 ~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 22 ARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 8999999999999999999999999999999963 4563
No 156
>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=68.96 E-value=63 Score=26.44 Aligned_cols=64 Identities=13% Similarity=0.078 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+.....+..++..+++..|...+.++...-.. ++ ..+...|..+...++|.+|...|..+...
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~--~~----~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 80 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY--NS----RYWLGLAACCQMLKEYEEAIDAYALAAAL 80 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC--cH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 466788889999999999999999997664322 32 34456788888889999999999887763
No 157
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=68.66 E-value=14 Score=32.54 Aligned_cols=42 Identities=21% Similarity=0.279 Sum_probs=36.0
Q ss_pred HHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 308 l~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
|+.+-+--.++++.+||+.+|+|+.-+-.-+.+|..+|.|.|
T Consensus 19 IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 19 ILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEE
Confidence 333344458999999999999999999999999999999865
No 158
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=68.46 E-value=28 Score=34.87 Aligned_cols=83 Identities=12% Similarity=0.072 Sum_probs=62.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|..|...|++.+|...+.....- ++. -...++....+|+..+++..|...+.++...-.. ++++.
T Consensus 37 ~a~~~~a~~~~~~g~~~eAl~~~~~Al~l------~P~-~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~--~~~~~ 107 (356)
T PLN03088 37 ELYADRAQANIKLGNFTEAVADANKAIEL------DPS-LAKAYLRKGTACMKLEEYQTAKAALEKGASLAPG--DSRFT 107 (356)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh------CcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC--CHHHH
Confidence 56678899999999999999998875421 121 2346778889999999999999999999876543 66666
Q ss_pred HHHHHHHHHHHH
Q 015984 177 LQYKVCYARILD 188 (397)
Q Consensus 177 ~~~~~~~~~~~~ 188 (397)
.....|..++..
T Consensus 108 ~~l~~~~~kl~~ 119 (356)
T PLN03088 108 KLIKECDEKIAE 119 (356)
T ss_pred HHHHHHHHHHHh
Confidence 666666666533
No 159
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=68.12 E-value=26 Score=39.49 Aligned_cols=108 Identities=11% Similarity=-0.015 Sum_probs=77.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 90 ~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
.+..--...+.+|...|-..|++++|..++.+ .++. . ...+++++-..-+++..+++..+-.. ++...+..
T Consensus 25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~-~l~~-----~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~ 95 (906)
T PRK14720 25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEE-HLKE-----H-KKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQ 95 (906)
T ss_pred cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHh-----C-CcceehHHHHHHHHHhhcchhhhhhh--hhhhhccc
Confidence 34444446778899999999999999999885 3332 1 23344554444499998887777766 66666655
Q ss_pred cchHHHHHHHHHHHHHHHHHH-------------HhHHHHHHHHHHHHHh
Q 015984 170 SQQEVLNLQYKVCYARILDLK-------------RKFLEAALRYYDISQI 206 (397)
Q Consensus 170 ~~~~~l~~~~~~~~~~~~~~~-------------r~f~~Aa~~y~e~~~~ 206 (397)
..+|.+--.|+.|++.++..+ +++.+|...|-++...
T Consensus 96 ~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~ 145 (906)
T PRK14720 96 NLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKA 145 (906)
T ss_pred ccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Confidence 567777778887888777777 8888888888887763
No 160
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=67.70 E-value=7.3 Score=26.12 Aligned_cols=27 Identities=22% Similarity=0.081 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchh
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDL 124 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~ 124 (397)
....||..|...|++++|.+++..+.-
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 457899999999999999999999764
No 161
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=67.63 E-value=47 Score=34.53 Aligned_cols=102 Identities=21% Similarity=0.163 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC-c--c
Q 015984 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS-S--Q 171 (397)
Q Consensus 95 ~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~-~--~ 171 (397)
..|+=..|++.|++-+..++|.+...+.-.-+ |. -...+...+.+|=+.+|..+|..+..|.-..... + +
T Consensus 431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~------dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~ 503 (559)
T KOG1155|consen 431 DSRLWVALGECYEKLNRLEEAIKCYKRAILLG------DT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID 503 (559)
T ss_pred chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc------cc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence 34888999999999999999999998844321 11 2357889999999999999999999997654432 2 2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
+.-.+.... .+.++...+||.+|+-|-.....
T Consensus 504 ~~t~ka~~f--LA~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 504 DETIKARLF--LAEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred hHHHHHHHH--HHHHHHhhcchHHHHHHHHHHhc
Confidence 334444444 78889999999998776666665
No 162
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=67.48 E-value=32 Score=26.55 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=36.1
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 363 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~ 363 (397)
++.++||+.+++|+..+++.+.++...|-+..+=-+..|+.-..+|
T Consensus 26 ~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~ 71 (83)
T PF02082_consen 26 VSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRLARPP 71 (83)
T ss_dssp BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-C
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecCCH
Confidence 9999999999999999999999999999987764444445444444
No 163
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=67.47 E-value=38 Score=32.36 Aligned_cols=98 Identities=16% Similarity=0.073 Sum_probs=78.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.+ ..+++-+...|+=+.++.+++.+-... . ++.+ +...+.+..+..+|+..|...++|+...-.. ||+
T Consensus 68 ~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~--~--~d~~---ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~--d~~-- 135 (257)
T COG5010 68 SI-AKLATALYLRGDADSSLAVLQKSAIAY--P--KDRE---LLAAQGKNQIRNGNFGEAVSVLRKAARLAPT--DWE-- 135 (257)
T ss_pred HH-HHHHHHHHhcccccchHHHHhhhhccC--c--ccHH---HHHHHHHHHHHhcchHHHHHHHHHHhccCCC--Chh--
Confidence 45 778888888999998998888866554 1 2322 2223889999999999999999999887554 665
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
.+...|..|+..++|.+|-..|..++..+.
T Consensus 136 --~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~ 165 (257)
T COG5010 136 --AWNLLGAALDQLGRFDEARRAYRQALELAP 165 (257)
T ss_pred --hhhHHHHHHHHccChhHHHHHHHHHHHhcc
Confidence 567788899999999999999999998754
No 164
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=66.89 E-value=1e+02 Score=27.98 Aligned_cols=107 Identities=10% Similarity=-0.010 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.-....|.-+...|+|.+|.+.+..+...- .. ...--+..+.++..|...+|+..|...+++-.......+..+ .
T Consensus 6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~--P~--s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~ 80 (203)
T PF13525_consen 6 EALYQKALEALQQGDYEEAIKLFEKLIDRY--PN--SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-Y 80 (203)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHH---TT--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-H
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CC--ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-h
Confidence 334667888899999999999999976532 11 123445667889999999999999999999766554422111 2
Q ss_pred HHHHHHHHHHHH---------HHHhHHHHHHHHHHHHHhhh
Q 015984 177 LQYKVCYARILD---------LKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 177 ~~~~~~~~~~~~---------~~r~f~~Aa~~y~e~~~~~~ 208 (397)
+.|....+.+.. ..+...+|...|.++...++
T Consensus 81 A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP 121 (203)
T PF13525_consen 81 ALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYP 121 (203)
T ss_dssp HHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCc
Confidence 233333322222 22334566666666666653
No 165
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=66.36 E-value=14 Score=27.47 Aligned_cols=34 Identities=15% Similarity=0.217 Sum_probs=30.2
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
..-++-.++|+.+|++...+-.+|..+..+|++.
T Consensus 13 ~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 5778999999999999999999999999999985
No 166
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=66.05 E-value=20 Score=25.10 Aligned_cols=47 Identities=9% Similarity=0.126 Sum_probs=37.4
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
-..+++.+|++.+|++...+-+.+.+|...|-+.-.-+...+...+.
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~ 54 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLT 54 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEEc
Confidence 35689999999999999999999999999999985544333344443
No 167
>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=66.00 E-value=10 Score=23.38 Aligned_cols=26 Identities=15% Similarity=0.230 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGI 122 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i 122 (397)
++-..+|.+|...|++++|.+.+...
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 55678999999999999999988763
No 168
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=64.77 E-value=66 Score=28.00 Aligned_cols=64 Identities=16% Similarity=0.123 Sum_probs=47.3
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhccccc
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~ 168 (397)
.-|.-..+.|+|.+|.+.|..|.---.++. ..-...|.++-.|...++++.|...+.+=..+-.
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~----ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP 78 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDTRYPFGE----YAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHP 78 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHhcCCCCc----ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence 345556688999999999999653222222 3445678889999999999999999998655543
No 169
>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=64.20 E-value=2.1e+02 Score=30.78 Aligned_cols=128 Identities=10% Similarity=-0.024 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchh-HHHHHHHHHHHHHhhc
Q 015984 72 TQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLED 150 (397)
Q Consensus 72 ~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~-~kle~~L~i~Rl~L~~ 150 (397)
.........+..++. ..|.+.+.++..-|+++|++.+-.. |.+.+.+.--++ ...... -.--+-+..+.+++..
T Consensus 78 ~Ae~~L~k~~~l~~~--~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~--~~~~~~~w~~~frll~~~l~~~~ 152 (608)
T PF10345_consen 78 LAETYLEKAILLCER--HRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDS--ETYGHSAWYYAFRLLKIQLALQH 152 (608)
T ss_pred HHHHHHHHHHHhccc--cchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHH--hccCchhHHHHHHHHHHHHHHhc
Confidence 333333444444444 6788888899999999999998777 999888854433 221111 1222223345555556
Q ss_pred CChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 015984 151 DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 204 (397)
Q Consensus 151 ~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~ 204 (397)
+|+..|-..+.++.......+||...+.+....+.++...+...++-..-.++.
T Consensus 153 ~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~ 206 (608)
T PF10345_consen 153 KDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAI 206 (608)
T ss_pred ccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHH
Confidence 899999999999988776668999999999999999988887766666655553
No 170
>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=64.10 E-value=47 Score=32.29 Aligned_cols=65 Identities=15% Similarity=0.152 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKAS 164 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~ 164 (397)
.....+|.+|...|++++|...+....... .. +.......+...+++++..|++.+|...++++.
T Consensus 149 ~~~~~la~i~~~~g~~~eA~~~l~~~l~~~--~~-~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 149 WAVHAVAHVLEMQGRFKEGIAFMESWRDTW--DC-SSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhhhhcc--CC-CcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 456778999999999999999998854321 11 233456677889999999999999999999974
No 171
>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=63.65 E-value=34 Score=27.35 Aligned_cols=46 Identities=4% Similarity=0.083 Sum_probs=38.2
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
.-..++-.+||+++|++.+-+-+.+.++...|-|. .++..|.+-.+
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~--r~~~~~~~~~n 89 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF--RQGMMGIVGVN 89 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee--eecCCceeecC
Confidence 45789999999999999999999999999999996 33445665554
No 172
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=63.13 E-value=1.1e+02 Score=29.42 Aligned_cols=129 Identities=14% Similarity=0.062 Sum_probs=83.6
Q ss_pred HHHHHHHHHHhcCCcch----hhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccc-hHHHHHHHHHHHHHHHHHhh
Q 015984 35 VQAKKFIDHMLSDDVPL----VVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVV-SFEEQVLIIREKLADLYESE 109 (397)
Q Consensus 35 ~~~~~~~~~~~~~~~~~----~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~-~~e~q~~~l~~~La~~~e~~ 109 (397)
..|.-++.+++++..+. ......|..+++-++..|. .-++.-.|++++..+-- .+-.-...= ..|-+-..+.
T Consensus 116 ~~LE~LLh~vL~~e~~~~~~~~~~~~~L~~v~~ll~~f~~--~l~Ivv~C~RKtE~~~W~~LF~~lg~P-~dLf~~cl~~ 192 (258)
T PF07064_consen 116 HALELLLHTVLEEEADSSEDSPIPDALLPRVISLLQEFPE--YLEIVVNCARKTEVRYWPYLFDYLGSP-RDLFEECLEN 192 (258)
T ss_pred HHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHcCcc--hHHHHHHHHHhhHHHHHHHHHHhcCCH-HHHHHHHHHc
Confidence 67788888888887765 5678889999988887653 34444456655532211 111111111 2344445568
Q ss_pred hcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhccc
Q 015984 110 QQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (397)
Q Consensus 110 ~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~ 166 (397)
|+++.|+..|.=++-..+....++++-.+..++.++..++.++|.-|...++=....
T Consensus 193 ~~l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~Lc~eL~RFL~~l 249 (258)
T PF07064_consen 193 GNLKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDLCFELVRFLKAL 249 (258)
T ss_pred CcHHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence 999999988877663222222335556778899999999999999999887654443
No 173
>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=62.90 E-value=15 Score=22.62 Aligned_cols=28 Identities=18% Similarity=0.218 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhhcCChHHHHHHHHHhcc
Q 015984 138 SKCVQIARLYLEDDDAVNAEAFINKASF 165 (397)
Q Consensus 138 e~~L~i~Rl~L~~~d~~~A~~~l~ka~~ 165 (397)
++|..+.++|...+|+.+|..+++++..
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 3455556666666666666666665543
No 174
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=62.86 E-value=34 Score=23.06 Aligned_cols=34 Identities=21% Similarity=0.319 Sum_probs=30.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
..++..+|++.+|+++.-+...+..|...|.|.-
T Consensus 13 ~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 13 GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 4589999999999999999999999999988764
No 175
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=62.85 E-value=1.7e+02 Score=29.20 Aligned_cols=145 Identities=14% Similarity=0.174 Sum_probs=82.2
Q ss_pred HhHHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCcchh--hhHHHHHHHHH-HhC--CCChHHHHHHHHH-----------
Q 015984 16 QKIEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLV--VSRQLLQTFAQ-ELG--RLEPETQKEIANY----------- 79 (397)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~sr~~~~~~~~-~l~--~l~~~~~~~~~~~----------- 79 (397)
+..++-+.+++.+++++.+--...-+-+.+...++.. -.|+-+.+++= .+. .+..+.+.-.|..
T Consensus 39 el~e~~k~~id~~~~~~vslvvsrqllsl~~~~l~~l~~e~~Kei~~~~l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~ 118 (399)
T KOG1497|consen 39 ELLEALKRFIDAIVNENVSLVVSRQLLSLFDVELSILEDELRKEISHFTLEKIQPRVISFEEQVASIRLHLASIYEKEQN 118 (399)
T ss_pred HHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHhccCCHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHhhh
Confidence 7788999999999988865333333333333333321 12333333221 121 1222222222222
Q ss_pred ------HHHhhc-c--ccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhc
Q 015984 80 ------TLAQIQ-P--RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED 150 (397)
Q Consensus 80 ------~l~~~~-~--~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~ 150 (397)
+|.-+- . .+-.=+++...++.++|++|.+.+|..+|......-..--..+ -.+.-.+++-+..+|..=..
T Consensus 119 ~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~-~Ne~Lqie~kvc~ARvlD~k 197 (399)
T KOG1497|consen 119 WRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAES-SNEQLQIEYKVCYARVLDYK 197 (399)
T ss_pred HHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcc-cCHHHHHHHHHHHHHHHHHH
Confidence 222221 1 1224567788899999999999999999998876643321122 35556788888889987666
Q ss_pred CChHHHHHHHH
Q 015984 151 DDAVNAEAFIN 161 (397)
Q Consensus 151 ~d~~~A~~~l~ 161 (397)
+.+..|-.-+.
T Consensus 198 rkFlEAAqrYy 208 (399)
T KOG1497|consen 198 RKFLEAAQRYY 208 (399)
T ss_pred HHHHHHHHHHH
Confidence 66665544333
No 176
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=61.86 E-value=29 Score=32.26 Aligned_cols=73 Identities=15% Similarity=0.166 Sum_probs=58.5
Q ss_pred chhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC----c-----chHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 015984 132 DDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS----S-----QQEVLNLQYKVCYARILDLKRKFLEAALRYYD 202 (397)
Q Consensus 132 ~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~----~-----~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e 202 (397)
++..+..++|+++-+|-..+|....+.++++|...+.. . +..+.. ...+.|.++-.-++|.+|.+.|-.
T Consensus 113 ~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~--l~YLigeL~rrlg~~~eA~~~fs~ 190 (214)
T PF09986_consen 113 KPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEAT--LLYLIGELNRRLGNYDEAKRWFSR 190 (214)
T ss_pred CHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHH--HHHHHHHHHHHhCCHHHHHHHHHH
Confidence 45578999999999999999999999999998765532 1 122333 444789999999999999999999
Q ss_pred HHHh
Q 015984 203 ISQI 206 (397)
Q Consensus 203 ~~~~ 206 (397)
++..
T Consensus 191 vi~~ 194 (214)
T PF09986_consen 191 VIGS 194 (214)
T ss_pred HHcC
Confidence 9984
No 177
>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=61.54 E-value=15 Score=22.43 Aligned_cols=27 Identities=11% Similarity=0.020 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhch
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGID 123 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~ 123 (397)
..-..+|.+|...|+|++|.+.+....
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al 28 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 455789999999999999999887643
No 178
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=61.41 E-value=51 Score=33.50 Aligned_cols=104 Identities=14% Similarity=0.092 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCC-CCCchh-------HHHHHHHHHHHHHhhcCChHHHHHHHHHhccccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGM-RVIDDT-------FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~-~~~~~~-------~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~ 168 (397)
.....-+..|++.|+|..|...+...-..-.+ ++.+++ -|+-.+|..+-.|+..++|..|....+++...-.
T Consensus 209 ~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~ 288 (397)
T KOG0543|consen 209 DRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP 288 (397)
T ss_pred HHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence 33444577888888888888776553211111 222332 2577788999999999999999999999877643
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 169 SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 169 ~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
. -.++-|+ -|+.+...++|..|-..|..+...
T Consensus 289 ~----N~KALyR--rG~A~l~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 289 N----NVKALYR--RGQALLALGEYDLARDDFQKALKL 320 (397)
T ss_pred C----chhHHHH--HHHHHHhhccHHHHHHHHHHHHHh
Confidence 2 3355666 677888999999999999888875
No 179
>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=61.40 E-value=13 Score=21.99 Aligned_cols=24 Identities=21% Similarity=0.145 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHh
Q 015984 97 IIREKLADLYESEQQWSKAAQMLS 120 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~ 120 (397)
+....||..+...|++++|...+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 356789999999999999998875
No 180
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=61.03 E-value=21 Score=24.85 Aligned_cols=32 Identities=25% Similarity=0.339 Sum_probs=29.6
Q ss_pred cc-CHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 317 NI-SFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 317 ~I-sl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
.+ +..+||+.+|+|..-+.+.+.+|..+|.+.
T Consensus 19 ~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 19 KLPSERELAAQLGVSRTTVREALSRLEAEGLVQ 51 (60)
T ss_pred cCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 46 899999999999999999999999999875
No 181
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=60.95 E-value=1.6e+02 Score=31.38 Aligned_cols=157 Identities=15% Similarity=0.147 Sum_probs=98.0
Q ss_pred hHHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHH
Q 015984 70 PETQKEIANYTLAQIQPRV--VSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY 147 (397)
Q Consensus 70 ~~~~~~~~~~~l~~~~~~~--~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~ 147 (397)
+.....|.+..|+...... +.-+.| .-|+-+|.-.|+|+.|.++++.....- . .+ + .+|-+.---.
T Consensus 407 ~~~l~~i~~~fLeaa~~~~~~~DpdvQ-----~~LGVLy~ls~efdraiDcf~~AL~v~---P-nd-~--~lWNRLGAtL 474 (579)
T KOG1125|consen 407 SSHLAHIQELFLEAARQLPTKIDPDVQ-----SGLGVLYNLSGEFDRAVDCFEAALQVK---P-ND-Y--LLWNRLGATL 474 (579)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCChhHH-----hhhHHHHhcchHHHHHHHHHHHHHhcC---C-ch-H--HHHHHhhHHh
Confidence 3345666667777765444 666666 779999999999999999998755321 1 11 1 1333322222
Q ss_pred hhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCC--CHHHHHHHH
Q 015984 148 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETI--DEEALEQAL 225 (397)
Q Consensus 148 L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~--~~~~~~~~L 225 (397)
---+....|-..+++|..+... =++.+|- +|.-++-.+.|.+|+.+|.+++..-...-..... ..+..-+.|
T Consensus 475 AN~~~s~EAIsAY~rALqLqP~----yVR~RyN--lgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tL 548 (579)
T KOG1125|consen 475 ANGNRSEEAISAYNRALQLQPG----YVRVRYN--LGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTL 548 (579)
T ss_pred cCCcccHHHHHHHHHHHhcCCC----eeeeehh--hhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHH
Confidence 2334577788888888877643 2234444 7888999999999999999998754320000111 123455677
Q ss_pred HHHHHHHHhcCCCCcchHHHHhhhhc
Q 015984 226 SAAVTCTILAAAGPQRSRVLATLYKD 251 (397)
Q Consensus 226 ~~av~~~ILa~~~~~rs~ll~~l~~d 251 (397)
+.++. +..|++++...+..
T Consensus 549 R~als-------~~~~~D~l~~a~~~ 567 (579)
T KOG1125|consen 549 RLALS-------AMNRSDLLQEAAPS 567 (579)
T ss_pred HHHHH-------HcCCchHHHHhccc
Confidence 74433 24677766666553
No 182
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=60.75 E-value=45 Score=29.19 Aligned_cols=71 Identities=10% Similarity=-0.111 Sum_probs=56.4
Q ss_pred hhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 133 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 133 ~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.......+......+...+++..|..+++++.......+ -....+...|..+...++|.+|...|.++...
T Consensus 31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPN---DRSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccc---hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345677889999999999999999999999865432211 12346677899999999999999999988874
No 183
>PRK12370 invasion protein regulator; Provisional
Probab=60.65 E-value=63 Score=34.27 Aligned_cols=96 Identities=8% Similarity=-0.077 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|.++...|++++|...+.....- ++. -.+.+.....++...|++.+|...+.++...-.. ++..
T Consensus 339 ~a~~~lg~~~~~~g~~~~A~~~~~~Al~l------~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~~~~- 408 (553)
T PRK12370 339 QALGLLGLINTIHSEYIVGSLLFKQANLL------SPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--RAAA- 408 (553)
T ss_pred HHHHHHHHHHHHccCHHHHHHHHHHHHHh------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--Chhh-
Confidence 44567888999999999999998875421 111 1235566688889999999999999998776443 2221
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+ ..+..+...++|.+|...|.++..
T Consensus 409 -~~--~~~~~~~~~g~~eeA~~~~~~~l~ 434 (553)
T PRK12370 409 -GI--TKLWITYYHTGIDDAIRLGDELRS 434 (553)
T ss_pred -HH--HHHHHHHhccCHHHHHHHHHHHHH
Confidence 11 123334446789888888888765
No 184
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=60.47 E-value=24 Score=23.82 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=21.2
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHh
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRM 341 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~m 341 (397)
.+.++..||+.+|+|+..+-.-+.+|
T Consensus 16 ~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 16 GRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 89999999999999999988777665
No 185
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=59.65 E-value=68 Score=30.45 Aligned_cols=63 Identities=13% Similarity=0.129 Sum_probs=47.4
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc-EEEECCcchHHHHHHHHHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA-VIHFEDDTEELQQWDQQIVGLCQAL 381 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g-iV~f~~~~~~l~~w~~~I~~l~~~v 381 (397)
-++.-++||.-+|++++.+-..+-.||.+|-+.- ...| ++...+..+-+.+|-..++...+.+
T Consensus 24 p~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~---~gR~~Y~iTkkG~e~l~~~~~dlr~f~~ev 87 (260)
T COG1497 24 PRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK---EGRGEYEITKKGAEWLLEQLSDLRRFSEEV 87 (260)
T ss_pred CCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee---cCCeeEEEehhHHHHHHHHHHHHHHHHHHH
Confidence 5788999999999999999999999999997764 2222 3444444556666777776666666
No 186
>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=59.53 E-value=22 Score=30.21 Aligned_cols=45 Identities=7% Similarity=0.049 Sum_probs=37.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
.++.++||+.+++|+..+++++.++...|-+...=....|+.--.
T Consensus 25 ~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~ 69 (135)
T TIGR02010 25 PVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGR 69 (135)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccC
Confidence 589999999999999999999999999999976444445554333
No 187
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.17 E-value=21 Score=34.30 Aligned_cols=102 Identities=11% Similarity=-0.079 Sum_probs=61.9
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc-chHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNL 177 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~~l~~ 177 (397)
....|-=+...|||.+|...+..-.-- |-.-+.---.-+||-+. ++..+|+..|..+..++.....+. .-|+-.+
T Consensus 144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~--~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall 219 (262)
T COG1729 144 LYNAALDLYKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGES--LYAQGDYEDAAYIFARVVKDYPKSPKAPDALL 219 (262)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHH--HHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence 455666667778888888777663311 11111112345666554 567788888877777766555433 4566666
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
+.-.|+ ...++=.+|+..|-++...++
T Consensus 220 Klg~~~----~~l~~~d~A~atl~qv~k~YP 246 (262)
T COG1729 220 KLGVSL----GRLGNTDEACATLQQVIKRYP 246 (262)
T ss_pred HHHHHH----HHhcCHHHHHHHHHHHHHHCC
Confidence 666665 456677778888877766544
No 188
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=59.14 E-value=1e+02 Score=26.32 Aligned_cols=61 Identities=11% Similarity=0.192 Sum_probs=47.0
Q ss_pred HhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHHHHHHH
Q 015984 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGL 377 (397)
Q Consensus 312 s~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~~I~~l 377 (397)
.+-=-++|+..|...+|++-.-+...+.+++..|.|.- .+. .=.|.+ +.+..+|++.-.++
T Consensus 21 VRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~---~G~-~GvF~s-eqA~~dw~~~~~~~ 81 (127)
T PF06163_consen 21 VREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLYR---HGR-SGVFPS-EQARKDWDKARKKL 81 (127)
T ss_pred HHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEe---CCC-cccccc-HHHHHHHHHhHHhh
Confidence 34458999999999999999999999999999999864 222 124443 25677898877655
No 189
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=58.46 E-value=20 Score=31.31 Aligned_cols=40 Identities=18% Similarity=0.280 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHH
Q 015984 299 LDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIA 338 (397)
Q Consensus 299 L~~~v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~l 338 (397)
|+++-+..-..-+++.|++|..+.+|..+|+|++++-+.+
T Consensus 114 f~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~i 153 (197)
T KOG4414|consen 114 FRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGI 153 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 3333333444456778999999999999999999876543
No 190
>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=58.37 E-value=17 Score=30.56 Aligned_cols=41 Identities=12% Similarity=0.132 Sum_probs=34.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
..++..+||+.+|+|+..+.+.+..+...|-+.+.-....|
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~gg 64 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGG 64 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCC
Confidence 46899999999999999999999999999999775333334
No 191
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.56 E-value=61 Score=36.18 Aligned_cols=56 Identities=16% Similarity=0.095 Sum_probs=45.1
Q ss_pred HHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 143 IARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 143 i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
+-|+||..|+|.+|..+-+- .|+-.-.-+.-+|-++..+++|..||.+|-+.+..|
T Consensus 364 vWk~yLd~g~y~kAL~~ar~---------~p~~le~Vl~~qAdf~f~~k~y~~AA~~yA~t~~~F 419 (911)
T KOG2034|consen 364 VWKTYLDKGEFDKALEIART---------RPDALETVLLKQADFLFQDKEYLRAAEIYAETLSSF 419 (911)
T ss_pred HHHHHHhcchHHHHHHhccC---------CHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhH
Confidence 46899999999988765432 366666677788999999999999999998887654
No 192
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=57.29 E-value=17 Score=23.11 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhch
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGID 123 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~ 123 (397)
+.....||.+|...|+|++|..++.+..
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 3556789999999999999999988854
No 193
>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=57.14 E-value=21 Score=21.67 Aligned_cols=29 Identities=7% Similarity=-0.040 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 178 ~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+....|.++...++|.+|-.+|..+...
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l 30 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 35667888889999999998888888775
No 194
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=56.69 E-value=28 Score=23.15 Aligned_cols=32 Identities=22% Similarity=0.257 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 138 SKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 138 e~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
+.++..++.|...|++.+|...++++.....+
T Consensus 2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~ 33 (44)
T PF13428_consen 2 AAWLALARAYRRLGQPDEAERLLRRALALDPD 33 (44)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 35677899999999999999999998876544
No 195
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=56.35 E-value=1.3e+02 Score=27.29 Aligned_cols=53 Identities=13% Similarity=0.074 Sum_probs=43.6
Q ss_pred HHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 305 EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
++.++.+..-...++..+||+.++++..-+=..+.+|...|-|.=..|..++-
T Consensus 47 q~~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR 99 (185)
T PRK13777 47 EHHILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKR 99 (185)
T ss_pred HHHHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCC
Confidence 44444444445789999999999999999999999999999999888877774
No 196
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=56.07 E-value=66 Score=36.95 Aligned_cols=26 Identities=4% Similarity=-0.245 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 181 VCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 181 ~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
...|..+...++|.+|-.+|..+...
T Consensus 681 ~nLA~al~~lGd~~eA~~~l~~Al~l 706 (987)
T PRK09782 681 RQLAYVNQRLDDMAATQHYARLVIDD 706 (987)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence 34455555555555555555555543
No 197
>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=56.05 E-value=21 Score=29.87 Aligned_cols=42 Identities=17% Similarity=0.101 Sum_probs=35.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVI 358 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV 358 (397)
.++.++||+.+|+|+..+.+.+..|...|-+...-....|+.
T Consensus 25 ~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~ 66 (132)
T TIGR00738 25 PVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYR 66 (132)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCcc
Confidence 689999999999999999999999999999876433334543
No 198
>PRK04841 transcriptional regulator MalT; Provisional
Probab=56.04 E-value=84 Score=35.11 Aligned_cols=107 Identities=13% Similarity=0.016 Sum_probs=70.8
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH--HHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLN 176 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~--~l~ 176 (397)
...++..+...|++.+|...+....... ...-+....+..+.....+++..||+..|..++.++.......+.+ ...
T Consensus 494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~-~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~ 572 (903)
T PRK04841 494 TSVLGEVHHCKGELARALAMMQQTEQMA-RQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH 572 (903)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHH-hhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence 3567788888999999988887754332 1111222345566777889999999999999999876654322111 112
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.......|.++...+++.+|...+.+....
T Consensus 573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~ 602 (903)
T PRK04841 573 EFLLRIRAQLLWEWARLDEAEQCARKGLEV 602 (903)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHhHHh
Confidence 222445677788888888888777776553
No 199
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=56.03 E-value=22 Score=24.78 Aligned_cols=34 Identities=12% Similarity=0.297 Sum_probs=29.6
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
=..+++.+||+.+|+|..-+-.++..|...|-+.
T Consensus 16 ~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 16 GGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp BSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 3558999999999999999999999999998764
No 200
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=55.44 E-value=29 Score=29.74 Aligned_cols=38 Identities=24% Similarity=0.365 Sum_probs=33.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceE---EEecc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR---GSIDQ 353 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~---gkIDQ 353 (397)
.++++.+||+.+|+|+..+=.-+-++..+|-|. +.+|.
T Consensus 21 ~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 21 ARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 569999999999999999999999999999874 45664
No 201
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=54.86 E-value=1e+02 Score=26.15 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=39.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
-..++..+||+.+++++.-+=..+.+|...|-|.=.-|..|+-
T Consensus 52 ~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR 94 (144)
T PRK11512 52 AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKR 94 (144)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCC
Confidence 3579999999999999999999999999999999999988884
No 202
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.59 E-value=79 Score=29.17 Aligned_cols=63 Identities=22% Similarity=0.155 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~ 167 (397)
-+..+||.+....|.+++|.+.|..+.-++ +..+-..-+.| +++..||...|+..+.++....
T Consensus 127 l~~lRLArvq~q~~k~D~AL~~L~t~~~~~-w~~~~~elrGD-------ill~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 127 LAALRLARVQLQQKKADAALKTLDTIKEES-WAAIVAELRGD-------ILLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHhcccccc-HHHHHHHHhhh-------HHHHcCchHHHHHHHHHHHHcc
Confidence 456889999999999999999999866443 22211222333 5677899999999999998876
No 203
>PRK12370 invasion protein regulator; Provisional
Probab=54.39 E-value=79 Score=33.54 Aligned_cols=97 Identities=14% Similarity=-0.072 Sum_probs=65.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.....+|.+|...|++++|...+....-- ++..- ..+...+.+++..+++..|...+.++..... .+++.
T Consensus 373 ~a~~~lg~~l~~~G~~~eAi~~~~~Al~l------~P~~~-~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~-p~~~~-- 442 (553)
T PRK12370 373 DIKYYYGWNLFMAGQLEEALQTINECLKL------DPTRA-AAGITKLWITYYHTGIDDAIRLGDELRSQHL-QDNPI-- 442 (553)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhc------CCCCh-hhHHHHHHHHHhccCHHHHHHHHHHHHHhcc-ccCHH--
Confidence 45577899999999999999999885422 11111 1122233345667899999999988754321 11232
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
++...|.++...+++.+|...|..+..
T Consensus 443 --~~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 443 --LLSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred --HHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 456678888899999999999877655
No 204
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=54.05 E-value=1.8e+02 Score=29.59 Aligned_cols=111 Identities=16% Similarity=0.157 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhch--hcc-CCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGID--LDS-GMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~--~et-~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~ 173 (397)
++...|+.+|-.-.|+++|+-....-- +.+ +-+.+.-++..-.....+=-+-..|....|+.+-+.+..+...-+|.
T Consensus 163 qvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdr 242 (518)
T KOG1941|consen 163 QVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDR 242 (518)
T ss_pred ehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCh
Confidence 356778999999999988876554421 111 01223334433333333333335677778888888888777666899
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
.+..+--.++|.||-..+|-..|..+|-++..+-
T Consensus 243 a~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m 276 (518)
T KOG1941|consen 243 ALQARCLLCFADIYRSRGDLERAFRRYEQAMGTM 276 (518)
T ss_pred HHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHH
Confidence 9999999999999999999999999999998864
No 205
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=53.87 E-value=94 Score=26.16 Aligned_cols=103 Identities=14% Similarity=0.136 Sum_probs=63.4
Q ss_pred HHHHHHHHHHhhcCCC-HHHHHHHHHHHhcCCc---chhhhHHHHHHHHHHhCCCC----hHHHHHHHHHHHHhhccccc
Q 015984 18 IEQYKHILSSVISSND-IVQAKKFIDHMLSDDV---PLVVSRQLLQTFAQELGRLE----PETQKEIANYTLAQIQPRVV 89 (397)
Q Consensus 18 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~---~~~~sr~~~~~~~~~l~~l~----~~~~~~~~~~~l~~~~~~~~ 89 (397)
-..|..-+.+..+..| ++.|-.||..+.+.-- .---=+++|...+..+...+ +.--..++....+.+.+..-
T Consensus 5 r~~~e~~i~~~~~~dDPL~~w~~yI~w~~~~~p~~~~~~~L~~lLer~~~~f~~~~~Y~nD~RylkiWi~ya~~~~~~~~ 84 (126)
T PF08311_consen 5 RQEFEEQIRSYEEGDDPLDPWLRYIKWIEENYPSGGKQSGLLELLERCIRKFKDDERYKNDERYLKIWIKYADLSSDPRE 84 (126)
T ss_dssp HHHHHHHHHCCGGSS-CHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHTTSGGGTT-HHHHHHHHHHHTTBSHHHH
T ss_pred HHHHHHHHHHccCCCCChHHHHHHHHHHHHHCCCCCchhHHHHHHHHHHHHHhhhHhhcCCHHHHHHHHHHHHHccCHHH
Confidence 3567777777774555 4778788877763311 11222568888888886653 33346666555554432111
Q ss_pred hHH--------HHHHHHHHHHHHHHHhhhcHHHHHHHHh
Q 015984 90 SFE--------EQVLIIREKLADLYESEQQWSKAAQMLS 120 (397)
Q Consensus 90 ~~e--------~q~~~l~~~La~~~e~~~d~~~Aa~~L~ 120 (397)
.|. .+.|.+...-|.++|..|++.+|.++++
T Consensus 85 if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~ 123 (126)
T PF08311_consen 85 IFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQ 123 (126)
T ss_dssp HHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 111 3345778888999999999999999886
No 206
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=53.86 E-value=52 Score=23.97 Aligned_cols=34 Identities=12% Similarity=0.280 Sum_probs=30.1
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
=..|+...||+.||+++.-|=..+.++-..|-+.
T Consensus 20 ~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 20 GGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp TSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 3789999999999999999999999999999774
No 207
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=53.45 E-value=3.3e+02 Score=29.65 Aligned_cols=100 Identities=11% Similarity=0.048 Sum_probs=78.6
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchhccCCCCCchh--HHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT--FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~--~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
.+|--+--.|++..|..++++..--. ....+.. +..+..|.+.++..+.+-...|...+.+..+.+.+ ++.
T Consensus 148 ~~Avs~~L~g~y~~A~~il~ef~~t~-~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D------kla 220 (700)
T KOG1156|consen 148 GFAVAQHLLGEYKMALEILEEFEKTQ-NTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD------KLA 220 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH------HHH
Confidence 34455556889999999998844211 1223333 57899999999999999999999999888877765 677
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
|....|.+++..+++.+|...|.-+..-.
T Consensus 221 ~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn 249 (700)
T KOG1156|consen 221 FEETKADLLMKLGQLEEAVKVYRRLLERN 249 (700)
T ss_pred HhhhHHHHHHHHhhHHhHHHHHHHHHhhC
Confidence 88889999999999999999999988753
No 208
>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=52.81 E-value=35 Score=23.24 Aligned_cols=33 Identities=12% Similarity=0.195 Sum_probs=29.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
...++.+|++.+|++...+-..+..|...|-+.
T Consensus 14 ~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 14 GPLTVSELAEELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCchhhHHHhccccchHHHHHHHHHHHCcCee
Confidence 667899999999999999999999999999764
No 209
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=52.79 E-value=1.2e+02 Score=25.64 Aligned_cols=42 Identities=10% Similarity=0.049 Sum_probs=38.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
..++..+||+.+|+++.-+=..+.+|...|-+.=.-|..++-
T Consensus 45 ~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR 86 (144)
T PRK03573 45 PEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRR 86 (144)
T ss_pred CCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcC
Confidence 357889999999999999999999999999999999888874
No 210
>PRK09954 putative kinase; Provisional
Probab=52.42 E-value=51 Score=32.71 Aligned_cols=54 Identities=15% Similarity=0.257 Sum_probs=41.4
Q ss_pred HHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE---EeccCCcEEEEC
Q 015984 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG---SIDQVEAVIHFE 361 (397)
Q Consensus 308 l~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g---kIDQv~giV~f~ 361 (397)
|+.+-+--.++|..+||+.||++...+-+.+.+|..+|.+.| .+|+..+++.+.
T Consensus 8 il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG 64 (362)
T PRK09954 8 ILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVG 64 (362)
T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEE
Confidence 333333346899999999999999999999999999998843 456666665443
No 211
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=52.25 E-value=1e+02 Score=27.46 Aligned_cols=65 Identities=17% Similarity=0.192 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHhC---CCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhc
Q 015984 54 SRQLLQTFAQELG---RLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLD 125 (397)
Q Consensus 54 sr~~~~~~~~~l~---~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~e 125 (397)
|..++..+++.+. ...+..-.+..-..+..++|+.. .+..--+-++-..|+|.+|..+|.++.-.
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~-------e~~~~~~~l~i~r~~w~dA~rlLr~l~~~ 73 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFP-------ELDLFDGWLHIVRGDWDDALRLLRELEER 73 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCch-------HHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence 4556666776653 22233334555567788888876 45566788899999999999999996543
No 212
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=51.56 E-value=49 Score=36.14 Aligned_cols=202 Identities=15% Similarity=0.127 Sum_probs=117.8
Q ss_pred HHHHHHHHHHhcCC---cchhhhHHHHHHHHHHh--CCCChH-HHHHHHHHHHHhhcc----ccch----HHHHHHHHHH
Q 015984 35 VQAKKFIDHMLSDD---VPLVVSRQLLQTFAQEL--GRLEPE-TQKEIANYTLAQIQP----RVVS----FEEQVLIIRE 100 (397)
Q Consensus 35 ~~~~~~~~~~~~~~---~~~~~sr~~~~~~~~~l--~~l~~~-~~~~~~~~~l~~~~~----~~~~----~e~q~~~l~~ 100 (397)
+++..+++.++... -.+-.|-=+++...+.= +++... .+.+.+...++...+ |-.+ -...+..++.
T Consensus 323 E~l~p~~~~iL~q~~~~w~i~~salllr~~~E~~~~RtveR~~~q~q~lv~~iq~~e~~v~nRlsy~ya~~lpp~Wq~q~ 402 (777)
T KOG1128|consen 323 EELEPLTSTLLSQTEKYWSIQASALLLRFLLESTRSRTVERALSQMQFLVKAIQMKEYSVLNRLSYIYAPHLPPIWQLQR 402 (777)
T ss_pred HHHHHHHHHHhhccCCceeeehHHHHHHHHHHhcCccchhhHHHHHHHHHHHHhhccHhHHhcccccccCCCCCcchHHH
Confidence 67888888888554 33444555555555553 233322 234444444433222 1110 1223457778
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchh-----ccCCCCCchhHHHHHHHHH-------HHHHhhcCChHHHHHHHHHhccccc
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDL-----DSGMRVIDDTFRLSKCVQI-------ARLYLEDDDAVNAEAFINKASFLVS 168 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~-----et~~~~~~~~~kle~~L~i-------~Rl~L~~~d~~~A~~~l~ka~~~~~ 168 (397)
.||+++.+.|-..+|..+...+.. ++ +..+.+..|++.++++ .|+|-..||...=..+..||.....
T Consensus 403 ~laell~slGitksAl~I~Erlemw~~vi~C-Y~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn 481 (777)
T KOG1128|consen 403 LLAELLLSLGITKSALVIFERLEMWDPVILC-YLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSN 481 (777)
T ss_pred HHHHHHHHcchHHHHHHHHHhHHHHHHHHHH-HHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhh
Confidence 899999999999999988887653 22 4445556677777665 6777777777766666666655432
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhh--cCC----CCCCHHHHHHHHHHHHHHHHhcCCCCcch
Q 015984 169 SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQ--IGD----ETIDEEALEQALSAAVTCTILAAAGPQRS 242 (397)
Q Consensus 169 ~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~--~~~----~~~~~~~~~~~L~~av~~~ILa~~~~~rs 242 (397)
+...+=+.+.|.....+++|.+|-++|...+...+.. .++ -..--.+...++++.-.|.-|.|.+.+-.
T Consensus 482 -----~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaW 556 (777)
T KOG1128|consen 482 -----YISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAW 556 (777)
T ss_pred -----hhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhh
Confidence 1222233334455566899999999988777653310 000 00112344567777788888887654433
No 213
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=51.49 E-value=46 Score=23.60 Aligned_cols=30 Identities=20% Similarity=0.214 Sum_probs=27.9
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
+...||+.+|+|...+-+.+.+|...|-|.
T Consensus 27 ~~~~la~~~~is~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 27 SERELAEELGVSRTTVREALRELEAEGLVE 56 (66)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 488999999999999999999999999875
No 214
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=51.38 E-value=29 Score=30.85 Aligned_cols=46 Identities=11% Similarity=0.080 Sum_probs=38.4
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 361 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~ 361 (397)
..++.++||+.+|+|+..+++++..+-..|-+...=....|+.--.
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar 69 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGK 69 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccC
Confidence 4599999999999999999999999999999987555555654333
No 215
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=51.21 E-value=70 Score=33.34 Aligned_cols=68 Identities=21% Similarity=0.123 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchh-ccCCCCCchh-HHHHHHHHHHHHHhhcCChHHHHHHHHHhccc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDL-DSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~-et~~~~~~~~-~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~ 166 (397)
..-.+||++||+-+|..+|+..+..-.. ....+..+++ .|..++ .++.+...+|+.+|..|.+++..-
T Consensus 467 ~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~f--LA~~f~k~~~~~~As~Ya~~~~~~ 536 (559)
T KOG1155|consen 467 SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLF--LAEYFKKMKDFDEASYYATLVLKG 536 (559)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHH--HHHHHHhhcchHHHHHHHHHHhcC
Confidence 5668899999999999999988765322 1112344553 355555 677888999999999999998765
No 216
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=49.38 E-value=57 Score=26.28 Aligned_cols=53 Identities=13% Similarity=0.010 Sum_probs=38.5
Q ss_pred HHHHHHHhccccc-CcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 015984 156 AEAFINKASFLVS-SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (397)
Q Consensus 156 A~~~l~ka~~~~~-~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~ 208 (397)
...+++++-+.+. +.+|++.+.+|+.|.+.+...+--=.+.-.+|.++|..-.
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L~ 74 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDALC 74 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777777665554 3478999999999999998775544555567788887543
No 217
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=49.31 E-value=1.3e+02 Score=26.03 Aligned_cols=101 Identities=12% Similarity=0.165 Sum_probs=64.9
Q ss_pred HHHHHHHHhhcCCCHHHHHHHHHHHh---cCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHH
Q 015984 20 QYKHILSSVISSNDIVQAKKFIDHML---SDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVL 96 (397)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~ 96 (397)
.|..-+.=.+..+-|-.+-..+..++ .+.-++ .-. .+-+.+++++.+....+..++-+|-+..+.+..-|.
T Consensus 12 ~y~~Al~LAl~L~~P~~ll~i~~~~~~~~~~~~~~--g~~---~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~- 85 (141)
T PF08625_consen 12 DYKEALRLALKLDHPFRLLKILKDLLETEEDEDSI--GSE---ELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQR- 85 (141)
T ss_pred hHHHHHHHHHhcCCcHHHHHHHHHHHhcccccccc--hHH---HHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHH-
Confidence 47777777777777777777888877 333322 222 333456677888889999999999999998888882
Q ss_pred HHHHHHHHHHH-hhhcHHHHHHHHhhchhcc
Q 015984 97 IIREKLADLYE-SEQQWSKAAQMLSGIDLDS 126 (397)
Q Consensus 97 ~l~~~La~~~e-~~~d~~~Aa~~L~~i~~et 126 (397)
-+...|..+-- +--++.+..+++.++...|
T Consensus 86 vL~~il~~~~~~~L~~~~~~~~~le~lipYt 116 (141)
T PF08625_consen 86 VLNAILKSHPPEELLKIPGLKEILEALIPYT 116 (141)
T ss_pred HHHHHHHhCCHHHHHccccHHHHHHHHhhhH
Confidence 12222222211 1134556777777777665
No 218
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=49.09 E-value=30 Score=24.79 Aligned_cols=27 Identities=30% Similarity=0.384 Sum_probs=23.1
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
+.+++++||+.||+|+.-+...+.+..
T Consensus 22 R~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 22 RRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 589999999999999988887776654
No 219
>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=49.03 E-value=2.4e+02 Score=26.81 Aligned_cols=124 Identities=11% Similarity=0.047 Sum_probs=73.8
Q ss_pred HHHH-HHHHHHhcCCcchhhhHHHHHHHHHHhCCCChH--HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhc
Q 015984 35 VQAK-KFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPE--TQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQ 111 (397)
Q Consensus 35 ~~~~-~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~--~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d 111 (397)
.+|. -+|+.+....++. +-.-+..+++.+..+|++ .++.++..++.|.+.+...+-.- .|...+|..|.++|+
T Consensus 30 ~DL~~lliev~~~~~~~~--~~~~~~rl~~l~~~~~~~~p~r~~fi~~ai~WS~~~~~~~Gdp--~LH~~~a~~~~~e~~ 105 (260)
T PF04190_consen 30 ADLALLLIEVYEKSEDPV--DEESIARLIELISLFPPEEPERKKFIKAAIKWSKFGSYKFGDP--ELHHLLAEKLWKEGN 105 (260)
T ss_dssp HHHHHHHHHHHHHTT-----SHHHHHHHHHHHHHS-TT-TTHHHHHHHHHHHHHTSS-TT--H--HHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHccCCCCCCCH--HHHHHHHHHHHhhcc
Confidence 4554 4465555544433 344455666666555422 48999999999995555555555 899999999999999
Q ss_pred HHHHHHHHhhchhcc----------CCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHH
Q 015984 112 WSKAAQMLSGIDLDS----------GMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINK 162 (397)
Q Consensus 112 ~~~Aa~~L~~i~~et----------~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~k 162 (397)
+.+|..-+.--.-+. ....-.+.+.--++.+-+=.||..+|..-|...+..
T Consensus 106 ~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~dlfi~RaVL~yL~l~n~~~A~~~~~~ 166 (260)
T PF04190_consen 106 YYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEADLFIARAVLQYLCLGNLRDANELFDT 166 (260)
T ss_dssp HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--HHHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred HHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 999987653321111 011222334444556667788899999988864443
No 220
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=48.97 E-value=1.7e+02 Score=24.90 Aligned_cols=59 Identities=8% Similarity=-0.034 Sum_probs=47.9
Q ss_pred HHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 142 QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 142 ~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.-...+...+++..|..++.++...-.. + ..++...|..+...++|.+|...|..+...
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~--~----~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l 87 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMAQPW--S----WRAHIALAGTWMMLKEYTTAINFYGHALML 87 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHcCCC--c----HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 4477788999999999999997655332 2 346677899999999999999999999884
No 221
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=48.41 E-value=62 Score=23.26 Aligned_cols=36 Identities=14% Similarity=0.105 Sum_probs=32.3
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
.-...++.+||+.+|+|+.-+-..+..|...|-|..
T Consensus 21 ~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 21 SNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred cCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 468899999999999999999999999999998865
No 222
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=48.02 E-value=1e+02 Score=32.86 Aligned_cols=101 Identities=10% Similarity=0.091 Sum_probs=72.8
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHH--HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR--LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~k--le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
+...++-+....+.|.+|.+.++... +. -+....+.. .-++...--.|-..+-+..|-.+.+++..+... +|
T Consensus 416 v~~Elgvvay~~~~y~~A~~~f~~~l-~~-ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k--~~-- 489 (611)
T KOG1173|consen 416 VLHELGVVAYTYEEYPEALKYFQKAL-EV-IKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK--DA-- 489 (611)
T ss_pred hhhhhhheeehHhhhHHHHHHHHHHH-HH-hhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC--ch--
Confidence 44557888888899999999988854 21 122222211 122345556666778888899999998776554 44
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.++..-|-+|...+++..|..+|+.++..
T Consensus 490 --~~~asig~iy~llgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 490 --STHASIGYIYHLLGNLDKAIDHFHKALAL 518 (611)
T ss_pred --hHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 47788899999999999999999999985
No 223
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=47.24 E-value=60 Score=28.34 Aligned_cols=44 Identities=20% Similarity=0.168 Sum_probs=38.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHF 360 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f 360 (397)
-++.+.||+..|+|+..++++++.+-..|.+...==...|+.--
T Consensus 25 ~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~La 68 (150)
T COG1959 25 PVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLA 68 (150)
T ss_pred cccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCC
Confidence 68899999999999999999999999999998876656665433
No 224
>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=47.14 E-value=53 Score=24.09 Aligned_cols=38 Identities=13% Similarity=0.087 Sum_probs=33.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEec
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkID 352 (397)
....|.++||+.+|+|...+-..+.+|...|.+.-.-.
T Consensus 20 ~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~~ 57 (68)
T PF01978_consen 20 NGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREEG 57 (68)
T ss_dssp HCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEEE
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcC
Confidence 47789999999999999999999999999999865543
No 225
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=47.03 E-value=4.1e+02 Score=28.87 Aligned_cols=54 Identities=11% Similarity=-0.008 Sum_probs=30.9
Q ss_pred HHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 143 IARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 143 i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+..|...|++..|....++.... ...-+..++..|...+++.+|...|.+...
T Consensus 366 Li~~y~k~G~~~~A~~vf~~m~~~---------d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~ 419 (697)
T PLN03081 366 LVDLYSKWGRMEDARNVFDRMPRK---------NLISWNALIAGYGNHGRGTKAVEMFERMIA 419 (697)
T ss_pred HHHHHHHCCCHHHHHHHHHhCCCC---------CeeeHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344444455555555555443221 122355666677777888888888877665
No 226
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=46.77 E-value=60 Score=31.36 Aligned_cols=39 Identities=13% Similarity=0.179 Sum_probs=35.0
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv 354 (397)
-.|++.++|+.+++|.+.+-..+......+.|+|++|..
T Consensus 129 G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~~ 167 (272)
T PF09743_consen 129 GQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDGD 167 (272)
T ss_pred CeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeCC
Confidence 679999999999999999996666668889999999988
No 227
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=46.60 E-value=1.5e+02 Score=26.25 Aligned_cols=94 Identities=10% Similarity=0.000 Sum_probs=74.0
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~ 179 (397)
..+|-.+...|++++|.++.+-+-.- |..-.++|+--.-.|-..+++.+|-..+.++..+-.+ ||. -
T Consensus 39 Y~~A~~ly~~G~l~~A~~~f~~L~~~-------Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d--dp~----~ 105 (157)
T PRK15363 39 YRYAMQLMEVKEFAGAARLFQLLTIY-------DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID--APQ----A 105 (157)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh-------CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--Cch----H
Confidence 67888888999999999998875432 2244578888888888999999999999998877643 443 3
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 180 KVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 180 ~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+...|..+..-++...|-+.|..+...
T Consensus 106 ~~~ag~c~L~lG~~~~A~~aF~~Ai~~ 132 (157)
T PRK15363 106 PWAAAECYLACDNVCYAIKALKAVVRI 132 (157)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 455777778899999999999888774
No 228
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=46.50 E-value=1.6e+02 Score=29.74 Aligned_cols=61 Identities=16% Similarity=0.139 Sum_probs=44.8
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcC--ChHHHHHHHHHhc
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD--DAVNAEAFINKAS 164 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~--d~~~A~~~l~ka~ 164 (397)
....+.-....++|..|++++.++.- + +++..+.+.+-..++.|..++ |+.+|..++++..
T Consensus 134 ~~~~a~~l~n~~~y~aA~~~l~~l~~----r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~ 196 (379)
T PF09670_consen 134 EWRRAKELFNRYDYGAAARILEELLR----R-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLL 196 (379)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH----h-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence 35566777799999999999999763 3 555555777777777777554 6778888777654
No 229
>PRK11189 lipoprotein NlpI; Provisional
Probab=46.41 E-value=1.2e+02 Score=29.18 Aligned_cols=71 Identities=14% Similarity=-0.013 Sum_probs=58.5
Q ss_pred CCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 130 ~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..++....+.+.....+|...+++..|...++++...... ++ ..+...|.++...++|.+|...|..+...
T Consensus 57 ~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~--~~----~a~~~lg~~~~~~g~~~~A~~~~~~Al~l 127 (296)
T PRK11189 57 DLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD--MA----DAYNYLGIYLTQAGNFDAAYEAFDSVLEL 127 (296)
T ss_pred cCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC--CH----HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 3566677788999999999999999999999998776433 33 35567889999999999999999998875
No 230
>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=46.30 E-value=68 Score=23.11 Aligned_cols=43 Identities=14% Similarity=0.179 Sum_probs=33.4
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
....++...|++.++++...+-..+.+|+..|-+.=.=|..++
T Consensus 15 ~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~ 57 (68)
T PF13463_consen 15 SDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDK 57 (68)
T ss_dssp -TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCT
T ss_pred cCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcC
Confidence 5688999999999999999999999999999999555454443
No 231
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=46.25 E-value=2.7e+02 Score=26.50 Aligned_cols=172 Identities=17% Similarity=0.153 Sum_probs=110.0
Q ss_pred chhhHhHHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchH
Q 015984 12 TDQRQKIEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSF 91 (397)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~ 91 (397)
+++......+-.+--.-+..+|...-+.=++..+..+-+---+--++..+-+.+...+.. -+--+.++. +.|+.
T Consensus 29 ~~~~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A--~e~YrkAls-l~p~~--- 102 (250)
T COG3063 29 TDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLA--DESYRKALS-LAPNN--- 102 (250)
T ss_pred ccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhH--HHHHHHHHh-cCCCc---
Confidence 444455556666777777888876666666666655444455566667777777654311 111111111 23333
Q ss_pred HHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc
Q 015984 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (397)
Q Consensus 92 e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~ 171 (397)
..+--..+.++++.|.+++|-..+..-..+..++..++ .+....-..+..|+..+|+.+++++...-...+
T Consensus 103 ----GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~-----t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~ 173 (250)
T COG3063 103 ----GDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSD-----TLENLGLCALKAGQFDQAEEYLKRALELDPQFP 173 (250)
T ss_pred ----cchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcch-----hhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCC
Confidence 36667789999999999999988877555543444333 333444455678999999999999987654422
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.. ..-+++.+...|+|-.| +.|++.+.
T Consensus 174 ~~------~l~~a~~~~~~~~y~~A-r~~~~~~~ 200 (250)
T COG3063 174 PA------LLELARLHYKAGDYAPA-RLYLERYQ 200 (250)
T ss_pred hH------HHHHHHHHHhcccchHH-HHHHHHHH
Confidence 22 23467888999999995 66666666
No 232
>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=44.72 E-value=1e+02 Score=21.30 Aligned_cols=28 Identities=18% Similarity=0.188 Sum_probs=26.0
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcC
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFED 345 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~g 345 (397)
||.++||+.||+|..-+.+.+..+-..|
T Consensus 16 it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 16 ITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp BEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred cCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 9999999999999999999999998888
No 233
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=44.02 E-value=91 Score=26.58 Aligned_cols=48 Identities=10% Similarity=0.081 Sum_probs=40.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 363 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~ 363 (397)
..++.++||+.+|+|...+++.+.++-..|-+..+=-...|+.....|
T Consensus 24 ~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~ 71 (141)
T PRK11014 24 RMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPA 71 (141)
T ss_pred CccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCH
Confidence 468999999999999999999999999999998877666777555543
No 234
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=43.51 E-value=3e+02 Score=30.12 Aligned_cols=102 Identities=17% Similarity=0.079 Sum_probs=57.5
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHH--HHHHHHHHHHhhcCChH---HHHHHHHHhcccccCcchH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRL--SKCVQIARLYLEDDDAV---NAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kl--e~~L~i~Rl~L~~~d~~---~A~~~l~ka~~~~~~~~~~ 173 (397)
++..-.++...++|.+||+.|..+.-.- .-++.+-|- ..|++-.-|--..-|.. ..+.+++.-... -+
T Consensus 172 ~eeyie~L~~~d~~~eaa~~la~vln~d--~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r-----ft 244 (835)
T KOG2047|consen 172 REEYIEYLAKSDRLDEAAQRLATVLNQD--EFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR-----FT 244 (835)
T ss_pred HHHHHHHHHhccchHHHHHHHHHhcCch--hhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc-----Cc
Confidence 4445567778899999999999876432 223333222 22222222211111111 111222221111 23
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
+--+.+..+.|.||...+.|..|-..|.|+..+.
T Consensus 245 Dq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v 278 (835)
T KOG2047|consen 245 DQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV 278 (835)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence 4456677888899999999999999998888753
No 235
>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=43.11 E-value=50 Score=20.17 Aligned_cols=26 Identities=12% Similarity=-0.082 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 180 KVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 180 ~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
+...|..+...++|.+|-.+|..+..
T Consensus 4 ~~~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 4 YYNLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence 44456666666666666666666555
No 236
>PLN03077 Protein ECB2; Provisional
Probab=43.00 E-value=5.2e+02 Score=28.88 Aligned_cols=55 Identities=15% Similarity=0.199 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHH
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINK 162 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~k 162 (397)
+...|...|.+.|++++|.+++.++.... +..|-..+.-|...+++.+|..++++
T Consensus 325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d----------~~s~n~li~~~~~~g~~~~A~~lf~~ 379 (857)
T PLN03077 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKD----------AVSWTAMISGYEKNGLPDKALETYAL 379 (857)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHhhCCCCC----------eeeHHHHHHHHHhCCCHHHHHHHHHH
Confidence 44556667777777777777777654211 11234444444455555555544443
No 237
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.96 E-value=1.5e+02 Score=28.85 Aligned_cols=104 Identities=10% Similarity=0.032 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
++..-++.++...|+|.-...++.++.- .++.++--..-..+|+....||...|++|..++......-+.-.-+
T Consensus 178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~------~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~ 251 (366)
T KOG2796|consen 178 RVMYSMANCLLGMKEYVLSVDAYHSVIK------YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGK 251 (366)
T ss_pred HHHHHHHHHHhcchhhhhhHHHHHHHHH------hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchh
Confidence 4455667777788888888888887552 2445566666777999999999999999998654322111111222
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+.-..-++.+|...+||-+|...|-++..+
T Consensus 252 ~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~ 281 (366)
T KOG2796|consen 252 IMVLMNSAFLHLGQNNFAEAHRFFTEILRM 281 (366)
T ss_pred HHHHhhhhhheecccchHHHHHHHhhcccc
Confidence 334455788899999999999999888876
No 238
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=42.47 E-value=1e+02 Score=26.97 Aligned_cols=43 Identities=12% Similarity=0.035 Sum_probs=36.4
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVI 358 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV 358 (397)
..++.++||+..++|+..+++++..+...|-+...==...|+.
T Consensus 23 ~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~ 65 (153)
T PRK11920 23 KLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVR 65 (153)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCee
Confidence 3479999999999999999999999999999877665545543
No 239
>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=42.31 E-value=64 Score=21.14 Aligned_cols=39 Identities=21% Similarity=0.379 Sum_probs=27.4
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
++.++|+.+|+++.-+- +++.+|.+.+.- ..+|...|..
T Consensus 2 s~~e~a~~lgvs~~tl~----~~~~~g~~~~~~-~~~~~~~~~~ 40 (49)
T cd04762 2 TTKEAAELLGVSPSTLR----RWVKEGKLKAIR-TPGGHRRFPE 40 (49)
T ss_pred CHHHHHHHHCcCHHHHH----HHHHcCCCCcee-CCCCceecCH
Confidence 67899999999987655 566678886643 2346666654
No 240
>PF03081 Exo70: Exo70 exocyst complex subunit; InterPro: IPR004140 The Exo70 protein forms one subunit of the exocyst complex. First discovered in Saccharomyces cerevisiae [], Exo70 and other exocyst proteins have been observed in several other eukaryotes, including humans. In S. cerevisiae, the exocyst complex is involved in the late stages of exocytosis, and is localized at the tip of the bud, the major site of exocytosis in yeast []. Exo70 interacts with the Rho3 GTPase []. This interaction mediates one of the three known functions of Rho3 in cell polarity: vesicle docking and fusion with the plasma membrane (the other two functions are regulation of actin polarity and transport of exocytic vesicles from the mother cell to the bud) []. In humans, the functions of Exo70 and the exocyst complex are less well characterised: Exo70 is expressed in several tissues and is thought to also be involved in exocytosis [].; GO: 0006887 exocytosis, 0000145 exocyst; PDB: 2PFV_A 2B7M_B 2B1E_A 2PFT_A.
Probab=42.16 E-value=41 Score=33.55 Aligned_cols=62 Identities=23% Similarity=0.359 Sum_probs=44.1
Q ss_pred HHHHHhchhhhhhCCCch--hhHHHHHHHHHHHHHHhh---ccccCHHHHHHHhCCChHHHHHHHHHh
Q 015984 279 AFAEELKPHQKALLPDNF--TVLDRAMIEHNLLSASKL---YTNISFEELGTLLGIAPQKAEKIASRM 341 (397)
Q Consensus 279 ~F~~~L~~h~~~~~~d~~--~~L~~~v~EhNl~~is~~---Y~~Isl~~La~ll~ls~~~~E~~ls~m 341 (397)
+|++..+.|+.....|+. ..|++.|.+.-+-+|.++ |.++.+ +-.+-+..+|+++|..|.++
T Consensus 305 ~fee~~~~q~~~~vpD~~LR~~Lr~~i~~~v~p~Y~~F~~~~~~~~~-~~~Kyikyt~~~le~~l~~L 371 (371)
T PF03081_consen 305 AFEEIYKAQKTWKVPDPELREELRREIKEKVVPAYRRFYERYRNSQF-NPEKYIKYTPEDLENMLNEL 371 (371)
T ss_dssp HHHHHHHHHTT---S-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCSS-SHCCC-SS-HHHHHHHHHTC
T ss_pred HHHHHHHcCcceecCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-CCCCCCccCHHHHHHHHHcC
Confidence 577777778777777874 678888999889999998 566777 55567888999999988764
No 241
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=42.15 E-value=1e+02 Score=23.62 Aligned_cols=41 Identities=24% Similarity=0.178 Sum_probs=35.0
Q ss_pred HHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 307 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 307 Nl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
-+..+++- ++|+++|-+.+|++...+--.+++|-..|.|.=
T Consensus 10 IL~~ls~~--c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 10 ILIILSKR--CCTLEELEEKTGISKNTLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHHhc--cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeee
Confidence 34444554 999999999999999999999999999998853
No 242
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.15 E-value=3.6e+02 Score=29.06 Aligned_cols=108 Identities=18% Similarity=0.166 Sum_probs=73.5
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCch-------------------------hHHHHHHHHHHHHHhhcCC
Q 015984 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-------------------------TFRLSKCVQIARLYLEDDD 152 (397)
Q Consensus 98 l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~-------------------------~~kle~~L~i~Rl~L~~~d 152 (397)
+-+--|.+++..|+|++|.++++.+...+ ....+. ..--+.+...+-.+++.++
T Consensus 112 ll~L~AQvlYrl~~ydealdiY~~L~kn~-~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gk 190 (652)
T KOG2376|consen 112 LLELRAQVLYRLERYDEALDIYQHLAKNN-SDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGK 190 (652)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhccc
Confidence 33444778888899999999999874221 000000 0112455666788899999
Q ss_pred hHHHHHHHHHh----cccccCc--chHHH---HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 153 AVNAEAFINKA----SFLVSSS--QQEVL---NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 153 ~~~A~~~l~ka----~~~~~~~--~~~~l---~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
|.+|...+.++ ...+..+ ++.++ ....++..+-++...|+-.+|.+.|-.....
T Consensus 191 y~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~ 253 (652)
T KOG2376|consen 191 YNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR 253 (652)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh
Confidence 99999999999 2222221 22333 3566777888889999999999999888874
No 243
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=41.91 E-value=57 Score=22.60 Aligned_cols=29 Identities=21% Similarity=0.486 Sum_probs=22.1
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
++...+..++|+.+|+|+..+...+.+..
T Consensus 23 ~~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 23 YFQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp HTS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 68999999999999999999998887643
No 244
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=41.51 E-value=4.6e+02 Score=27.84 Aligned_cols=130 Identities=12% Similarity=0.058 Sum_probs=79.6
Q ss_pred HHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHH
Q 015984 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 182 (397)
Q Consensus 103 a~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~ 182 (397)
+.-++..|||.+|.+-+.+.-. +. ++. ...|-.-+-.|+..+++..|-.-.+++..+- .+-.++ |..
T Consensus 365 Gne~Fk~gdy~~Av~~YteAIk----r~-P~D--a~lYsNRAac~~kL~~~~~aL~Da~~~ieL~----p~~~kg--y~R 431 (539)
T KOG0548|consen 365 GNEAFKKGDYPEAVKHYTEAIK----RD-PED--ARLYSNRAACYLKLGEYPEALKDAKKCIELD----PNFIKA--YLR 431 (539)
T ss_pred HHHHHhccCHHHHHHHHHHHHh----cC-Cch--hHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC----chHHHH--HHH
Confidence 7778889999999999888331 11 111 2355556667777788887777766666551 122233 444
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhcc
Q 015984 183 YARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSK 256 (397)
Q Consensus 183 ~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~ 256 (397)
.|..+-+-++|..|...|.+.... |++ ...++...--|.-.........++..+...||.+..
T Consensus 432 Kg~al~~mk~ydkAleay~eale~----------dp~-~~e~~~~~~rc~~a~~~~~~~ee~~~r~~~dpev~~ 494 (539)
T KOG0548|consen 432 KGAALRAMKEYDKALEAYQEALEL----------DPS-NAEAIDGYRRCVEAQRGDETPEETKRRAMADPEVQA 494 (539)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc----------Cch-hHHHHHHHHHHHHHhhcCCCHHHHHHhhccCHHHHH
Confidence 688899999999999999999984 221 122332233333322223344455566666776544
No 245
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=40.94 E-value=1.6e+02 Score=22.43 Aligned_cols=34 Identities=15% Similarity=0.265 Sum_probs=31.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
..+++.+||+.+|+|..-+-..+..|...|-+..
T Consensus 19 ~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 19 GGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 3599999999999999999999999999999865
No 246
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=40.57 E-value=1.2e+02 Score=23.74 Aligned_cols=67 Identities=13% Similarity=0.002 Sum_probs=46.5
Q ss_pred hhhcHHHHHHHHhhchhccCCCCCchh---HHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 108 SEQQWSKAAQMLSGIDLDSGMRVIDDT---FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 108 ~~~d~~~Aa~~L~~i~~et~~~~~~~~---~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
..|||.+|.+.|...- |......... ...-..+..++++...|++..|...++.+-...-+.+|...
T Consensus 10 ~~~dy~~A~d~L~~~f-D~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~ 79 (94)
T PF12862_consen 10 RSGDYSEALDALHRYF-DYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRC 79 (94)
T ss_pred HcCCHHHHHHHHHHHH-HHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHH
Confidence 5789999998888754 3211222222 22334577899999999999999999998887766555543
No 247
>PF07328 VirD1: T-DNA border endonuclease VirD1; InterPro: IPR009933 This family consists of several T-DNA border endonuclease VirD1 proteins, which appear to be found exclusively in Agrobacterium species. Agrobacterium, a plant pathogen, is capable to stably transform the plant cell with a segment of its own DNA called T-DNA (transferred DNA). This process depends, among others, on the specialised bacterial virulence proteins VirD1 and VirD2 that excise the T-DNA from its adjacent sequences. VirD1 is thought to interact with VirD2 in this process [].; GO: 0004519 endonuclease activity
Probab=40.56 E-value=78 Score=27.10 Aligned_cols=65 Identities=25% Similarity=0.382 Sum_probs=51.6
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC-cchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED-DTEELQQWDQQIVGLCQALNDILDSMAKKGLPI 395 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~-~~~~l~~w~~~I~~l~~~v~~v~~~i~~~~~~~ 395 (397)
+|++.+.++|++..-+-.++.+-| .|.++.+. +.+.|+....+|..+..+++.+...-...+-|+
T Consensus 39 sfs~q~~~lGl~~n~alRVavrri------------~GFLEiDa~tr~~l~~il~sIg~la~Nin~i~~Aa~~~~~pd 104 (147)
T PF07328_consen 39 SFSAQARELGLSDNMALRVAVRRI------------GGFLEIDAETRQKLEDILRSIGGLATNINQILKAANRTPRPD 104 (147)
T ss_pred HHHHHHHHhCCchhhHHHHHHHHH------------cchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 588899999999998888887744 46777765 346788888999999999999888777766664
No 248
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=40.13 E-value=2.7e+02 Score=24.75 Aligned_cols=67 Identities=10% Similarity=0.102 Sum_probs=55.6
Q ss_pred hHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 134 TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 134 ~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..-+.-.++.+.+.+..++...++..+....-.-.. .+ .+..+-|.+|+.+++|.+|.+.+.++-..
T Consensus 7 ~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~--~~----e~~~~~~~l~i~r~~w~dA~rlLr~l~~~ 73 (160)
T PF09613_consen 7 DEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPE--FP----ELDLFDGWLHIVRGDWDDALRLLRELEER 73 (160)
T ss_pred HHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCC--ch----HHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence 456777889999999999999999999887665544 22 36788999999999999999999998763
No 249
>PF12854 PPR_1: PPR repeat
Probab=40.09 E-value=31 Score=21.87 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=20.3
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhch
Q 015984 100 EKLADLYESEQQWSKAAQMLSGID 123 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~ 123 (397)
..|-+-|.+.|++++|.+++.+++
T Consensus 11 ~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 11 NTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhCc
Confidence 457788999999999999998753
No 250
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=40.07 E-value=69 Score=30.37 Aligned_cols=43 Identities=19% Similarity=0.239 Sum_probs=36.2
Q ss_pred HHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 307 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 307 Nl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
.|+.+-+-...++.++|++.||+|..-+.+.+..|-..|.+.-
T Consensus 9 ~Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~r 51 (251)
T PRK13509 9 ILLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLKK 51 (251)
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 3444445578999999999999999999999999999888843
No 251
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=39.94 E-value=4.7e+02 Score=29.07 Aligned_cols=112 Identities=17% Similarity=0.131 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCC
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETI 216 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~ 216 (397)
..+|+..+-+++..++...|...+-.++....- -..-+...|+.+..++++.||-..|..+... .|.-
T Consensus 650 ~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l------~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l------dP~h 717 (799)
T KOG4162|consen 650 QKLWLLAADLFLLSGNDDEARSCLLEASKIDPL------SASVYYLRGLLLEVKGQLEEAKEAFLVALAL------DPDH 717 (799)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHhcchh------hHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc------CCCC
Confidence 677889999999999999999888888776532 2334556789999999999999999999985 2221
Q ss_pred CHHHHHHHHHHHHHHHHhcCCCCcchHH-----HHhhhhchhhccccchHHHHHHHHH
Q 015984 217 DEEALEQALSAAVTCTILAAAGPQRSRV-----LATLYKDERCSKLKIYPILQKVYLE 269 (397)
Q Consensus 217 ~~~~~~~~L~~av~~~ILa~~~~~rs~l-----l~~l~~d~~~~~l~~~~~L~k~f~~ 269 (397)
+.....++.+|.-.|..|-.- ...+--||.+.+ ++..|-++|..
T Consensus 718 -------v~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~e--aW~~LG~v~k~ 766 (799)
T KOG4162|consen 718 -------VPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHE--AWYYLGEVFKK 766 (799)
T ss_pred -------cHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHH--HHHHHHHHHHH
Confidence 112344456665555433322 222333555443 55678888853
No 252
>PRK04217 hypothetical protein; Provisional
Probab=39.87 E-value=1e+02 Score=25.57 Aligned_cols=44 Identities=27% Similarity=0.347 Sum_probs=35.5
Q ss_pred hccccCHHHHHHHhCCChH-------HHHHHHHHhHhcCceEEEeccCCcE
Q 015984 314 LYTNISFEELGTLLGIAPQ-------KAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~-------~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
+|..+|+++||+.+|+|.. .+.+.|.+++..+...+.+-+.+.+
T Consensus 55 ~~eGlS~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~~~~~~~~~~~~~~ 105 (110)
T PRK04217 55 DYEGLTQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEGRELIILPQGNEV 105 (110)
T ss_pred HHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhccceeEecCCccc
Confidence 4688999999999999966 4555667788888888888877654
No 253
>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=39.80 E-value=3.4e+02 Score=25.86 Aligned_cols=127 Identities=16% Similarity=0.117 Sum_probs=72.7
Q ss_pred HHHHHHHHHhhcccc----chHHHHHHHHHHHHHHHHHhhh-cHHHHHHHHhhchh------ccCCCCCchh-HHHHHHH
Q 015984 74 KEIANYTLAQIQPRV----VSFEEQVLIIREKLADLYESEQ-QWSKAAQMLSGIDL------DSGMRVIDDT-FRLSKCV 141 (397)
Q Consensus 74 ~~~~~~~l~~~~~~~----~~~e~q~~~l~~~La~~~e~~~-d~~~Aa~~L~~i~~------et~~~~~~~~-~kle~~L 141 (397)
.+++.+.+.++.... ...-+..+++....+.-..+.+ ++++|.+.|+.-.- ++.....+.. -+..++.
T Consensus 9 ~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~ 88 (278)
T PF08631_consen 9 LDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILR 88 (278)
T ss_pred HHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHH
Confidence 455556665554322 2445566777777777777778 99888888776431 1111222332 3788888
Q ss_pred HHHHHHhhcCChHHHHHHHHHhcccccCc-chHHHH-HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 142 QIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLN-LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 142 ~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~-~~~~l~-~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
..++.|+..+++.......+-.+....+. +.|.+- ++++.+.. ..+..++......+..
T Consensus 89 ~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~-----~~~~~~~~~~L~~mi~ 149 (278)
T PF08631_consen 89 LLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLK-----SFDEEEYEEILMRMIR 149 (278)
T ss_pred HHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhc-----cCChhHHHHHHHHHHH
Confidence 88999999988776665444443333222 234443 55555554 4444444444444443
No 254
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=39.79 E-value=70 Score=30.12 Aligned_cols=42 Identities=10% Similarity=0.145 Sum_probs=35.3
Q ss_pred HHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 307 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 307 Nl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
.|+.+-+-...++.++||+.||+|+.-+.+.+..|-..|.+.
T Consensus 8 ~Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~ 49 (240)
T PRK10411 8 AIVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKIL 49 (240)
T ss_pred HHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 344444456899999999999999999999999999988775
No 255
>PRK04841 transcriptional regulator MalT; Provisional
Probab=39.69 E-value=5.8e+02 Score=28.45 Aligned_cols=109 Identities=9% Similarity=-0.071 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHH
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l 175 (397)
..+...++.++...|++.+|...+....-.. ..-+.....-........+...+++..|..++.++.......+++..
T Consensus 452 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~ 529 (903)
T PRK04841 452 AEFNALRAQVAINDGDPEEAERLAELALAEL--PLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHY 529 (903)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHH
Confidence 3455567888899999999999887743211 11122223334455666788999999999999998766554444444
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
........|.++...+++.+|...+.+....
T Consensus 530 ~~~~~~~la~~~~~~G~~~~A~~~~~~al~~ 560 (903)
T PRK04841 530 ALWSLLQQSEILFAQGFLQAAYETQEKAFQL 560 (903)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 4445566788899999999998888776664
No 256
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=39.53 E-value=1.9e+02 Score=25.50 Aligned_cols=66 Identities=15% Similarity=0.166 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 135 FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 135 ~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.-+.-.++.+...+...|...++..+....-+-.+ .+ ....+-|.+|+..|+|.+|.+.|.++...
T Consensus 8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~--~~----e~d~~dg~l~i~rg~w~eA~rvlr~l~~~ 73 (153)
T TIGR02561 8 RLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPN--LK----ELDMFDGWLLIARGNYDEAARILRELLSS 73 (153)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--cc----ccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence 45666788889999999999999999887666544 22 25678999999999999999999999884
No 257
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=39.15 E-value=1.1e+02 Score=31.15 Aligned_cols=104 Identities=13% Similarity=0.028 Sum_probs=74.9
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
..||+-+|.-.+|.++...=.. .++- +.+..++ -.-..+.+.+-++-..-+.++-.+..+|-+..+..+|+-+.++
T Consensus 87 lnlar~~e~l~~f~kt~~y~k~-~l~l--pgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq 163 (518)
T KOG1941|consen 87 LNLARSNEKLCEFHKTISYCKT-CLGL--PGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ 163 (518)
T ss_pred HHHHHHHHHHHHhhhHHHHHHH-HhcC--CCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence 4567777766666665543221 1111 1222221 2234566788888999999999999999999888899999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.++..|.++..-+||..|.-+--.++..
T Consensus 164 vcv~Lgslf~~l~D~~Kal~f~~kA~~l 191 (518)
T KOG1941|consen 164 VCVSLGSLFAQLKDYEKALFFPCKAAEL 191 (518)
T ss_pred hhhhHHHHHHHHHhhhHHhhhhHhHHHH
Confidence 9999999999999999988777655554
No 258
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=38.90 E-value=2.5e+02 Score=23.96 Aligned_cols=67 Identities=10% Similarity=0.291 Sum_probs=44.5
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceE-EEec-cCCcE-EEECC-c-c-------hHHHHHHHHHHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR-GSID-QVEAV-IHFED-D-T-------EELQQWDQQIVGLCQALN 382 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~-gkID-Qv~gi-V~f~~-~-~-------~~l~~w~~~I~~l~~~v~ 382 (397)
.-.|.++||+.++.+..-|.+-+-+++.-|.+. =+.. ...|. -.+.+ + + +.++.|-.++.+.++...
T Consensus 41 ~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~~~~i~~~~ 119 (126)
T COG3355 41 GPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKMKQLIEEFE 119 (126)
T ss_pred CCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567889999999999999999999999999883 2222 23333 33322 2 1 345566666655555443
No 259
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=38.67 E-value=2.8e+02 Score=25.09 Aligned_cols=36 Identities=17% Similarity=0.160 Sum_probs=33.3
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gk 350 (397)
...+|..+||+.+|+++.-+=..+.+|...|.|.-.
T Consensus 13 ~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 13 QGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 467999999999999999999999999999999765
No 260
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=38.64 E-value=1.3e+02 Score=24.99 Aligned_cols=44 Identities=7% Similarity=0.119 Sum_probs=29.9
Q ss_pred HHHHHHhhcCCCHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCC
Q 015984 22 KHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRL 68 (397)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l 68 (397)
..+++.+...+.+..+..|+++++..+ + ....+-+.++....+.
T Consensus 11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~--~~~~~~~~li~ly~~~ 54 (140)
T smart00299 11 SEVVELFEKRNLLEELIPYLESALKLN-S--ENPALQTKLIELYAKY 54 (140)
T ss_pred HHHHHHHHhCCcHHHHHHHHHHHHccC-c--cchhHHHHHHHHHHHH
Confidence 345666655667889999999988764 2 4566666666666444
No 261
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=38.08 E-value=70 Score=22.45 Aligned_cols=38 Identities=26% Similarity=0.424 Sum_probs=31.0
Q ss_pred HHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 305 EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
++-+....+.=.+.++..||..||++..-|-+....++
T Consensus 7 d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 7 DQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 45566666677899999999999999998888777665
No 262
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=37.81 E-value=1.2e+02 Score=23.04 Aligned_cols=52 Identities=8% Similarity=0.008 Sum_probs=36.0
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEEC-CcchHHHHH
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE-DDTEELQQW 370 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~-~~~~~l~~w 370 (397)
....++.+|+...|++...+.+.+..++..|-+.. .++....+ .+.+.++.|
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~----~~~~Y~lTekG~~~l~~l 69 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKK----KDGKYRLTEKGKEFLEEL 69 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEE----ETTEEEE-HHHHHHHHHH
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeC----CCCEEEECccHHHHHHHH
Confidence 68888999999999999999999999999999943 44544433 344555444
No 263
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=37.80 E-value=50 Score=27.54 Aligned_cols=47 Identities=17% Similarity=0.218 Sum_probs=37.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEec--cCCc-EEEECC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID--QVEA-VIHFED 362 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkID--Qv~g-iV~f~~ 362 (397)
..||+++||+.|..|+-.+-.++-+|...|-|.=.== +++. .++|..
T Consensus 18 ~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~ 67 (115)
T PF12793_consen 18 VEVTLDELAELLFCSRRNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLK 67 (115)
T ss_pred cceeHHHHHHHhCCCHHHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEee
Confidence 5789999999999999999999999999998843333 3333 477765
No 264
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=37.64 E-value=3.5e+02 Score=25.36 Aligned_cols=67 Identities=16% Similarity=0.156 Sum_probs=52.0
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
....|.-+...|+|++|.+.+..+.-.- . ....-....+..+..|...+|+..|....++.......
T Consensus 35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P--~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~ 101 (243)
T PRK10866 35 IYATAQQKLQDGNWKQAITQLEALDNRY--P--FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT 101 (243)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhC--C--CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcC
Confidence 4567788888999999999999975432 1 12334445778899999999999999999998777654
No 265
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=37.62 E-value=3.1e+02 Score=24.79 Aligned_cols=85 Identities=14% Similarity=-0.008 Sum_probs=57.9
Q ss_pred hhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHH-H
Q 015984 109 EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARI-L 187 (397)
Q Consensus 109 ~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~-~ 187 (397)
.++.+++...+....... ..-.+.|....++|+..+++..|...++++.....+ ++++ +...|.. +
T Consensus 52 ~~~~~~~i~~l~~~L~~~-------P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~--~~~~----~~~lA~aL~ 118 (198)
T PRK10370 52 QQTPEAQLQALQDKIRAN-------PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE--NAEL----YAALATVLY 118 (198)
T ss_pred chhHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHH----HHHHHHHHH
Confidence 455566665555533221 122568899999999999999999999999887654 4443 3334543 3
Q ss_pred HHHHh--HHHHHHHHHHHHHh
Q 015984 188 DLKRK--FLEAALRYYDISQI 206 (397)
Q Consensus 188 ~~~r~--f~~Aa~~y~e~~~~ 206 (397)
...++ +.+|-..|.++...
T Consensus 119 ~~~g~~~~~~A~~~l~~al~~ 139 (198)
T PRK10370 119 YQAGQHMTPQTREMIDKALAL 139 (198)
T ss_pred HhcCCCCcHHHHHHHHHHHHh
Confidence 44455 58999999988885
No 266
>PF12964 DUF3853: Protein of unknown function (DUF3853); InterPro: IPR024363 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=37.40 E-value=24 Score=28.50 Aligned_cols=40 Identities=20% Similarity=0.326 Sum_probs=34.9
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
.+..||++||.|..- ++++-.+|.|+.-|=|+.+.|+|+.
T Consensus 47 G~~GlAklfgcSv~T----a~RiK~sG~id~AI~Q~Gr~IivD~ 86 (96)
T PF12964_consen 47 GLKGLAKLFGCSVPT----ANRIKKSGKIDPAITQIGRKIIVDA 86 (96)
T ss_pred hHHHHHHHhCCCchh----HHHHHhcCCccHHHHHcCCEEEEeH
Confidence 578899999999875 5677888999999999999999986
No 267
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.88 E-value=2e+02 Score=28.00 Aligned_cols=106 Identities=14% Similarity=0.060 Sum_probs=78.8
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhH-HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcc
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~-kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~ 171 (397)
+|.-.|...|+.+-.+.||.+.|-...+++..++ +.++... ++-+.-.-+-+|+-.+|+..|-...+++-..-..
T Consensus 209 e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~--~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~-- 284 (366)
T KOG2796|consen 209 EQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVT--QKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPR-- 284 (366)
T ss_pred cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH--hhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCC--
Confidence 4445778889999999999999999999877666 4556554 7778788888999999999999988887554222
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 172 ~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+ ..+-.-.|.+.++-|+-.+|-+..-.+.+.
T Consensus 285 ~----~~a~NnKALcllYlg~l~DAiK~~e~~~~~ 315 (366)
T KOG2796|consen 285 N----AVANNNKALCLLYLGKLKDALKQLEAMVQQ 315 (366)
T ss_pred c----hhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 2 223344566667888888888777666653
No 268
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=36.57 E-value=2.2e+02 Score=30.88 Aligned_cols=64 Identities=20% Similarity=0.078 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 136 kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
++-.+...++=|-..+|+..|..+++.|-..... ...++...|||+.|.|+..+|+.-+-++-.
T Consensus 370 llWt~y~laqh~D~~g~~~~A~~yId~AIdHTPT------liEly~~KaRI~kH~G~l~eAa~~l~ea~e 433 (700)
T KOG1156|consen 370 LLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPT------LIELYLVKARIFKHAGLLDEAAAWLDEAQE 433 (700)
T ss_pred HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCch------HHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Confidence 4556677788888999999999999998654332 456888999999999999998877766654
No 269
>PHA02943 hypothetical protein; Provisional
Probab=36.32 E-value=3.1e+02 Score=24.31 Aligned_cols=66 Identities=12% Similarity=0.151 Sum_probs=47.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHHHHHHHHHHHHHHHH
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDIL 385 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~~~I~~l~~~v~~v~ 385 (397)
.-.-|.++||+.+|+|-.+|+..|--+=.+|.+.- +-++.-.+++-.+ +.+.+.+.+....+...+
T Consensus 22 ~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~----day~~~v~~~~Relwrlv 87 (165)
T PHA02943 22 DGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDE----DAYTNLVFEIKRELWRLV 87 (165)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEECh----HHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999999999999999965 5566666666554 224444555555554443
No 270
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=36.22 E-value=76 Score=30.18 Aligned_cols=42 Identities=14% Similarity=0.073 Sum_probs=35.7
Q ss_pred HHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 306 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 306 hNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
.-|+.+-+-...+++++||+.||+|+.-+-+-|..|-.+|.+
T Consensus 8 ~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l 49 (256)
T PRK10434 8 AAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTV 49 (256)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCE
Confidence 344455556789999999999999999999999999999965
No 271
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=36.18 E-value=42 Score=26.83 Aligned_cols=24 Identities=25% Similarity=0.581 Sum_probs=22.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIAS 339 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls 339 (397)
+.+|.+.+|.-||+|++++|+.+.
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHc
Confidence 789999999999999999998874
No 272
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.18 E-value=4e+02 Score=26.00 Aligned_cols=104 Identities=14% Similarity=0.057 Sum_probs=71.4
Q ss_pred hHHHHHHHHHHH-------------HHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHH--HHHHh-hcCCh
Q 015984 90 SFEEQVLIIREK-------------LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQI--ARLYL-EDDDA 153 (397)
Q Consensus 90 ~~e~q~~~l~~~-------------La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i--~Rl~L-~~~d~ 153 (397)
+.+...++++.+ |+.+|...|++..|...+..-.- --+ .+.++++-. +.+|- ...+.
T Consensus 137 ~~~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r-----L~g--~n~~~~~g~aeaL~~~a~~~~t 209 (287)
T COG4235 137 EMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALR-----LAG--DNPEILLGLAEALYYQAGQQMT 209 (287)
T ss_pred cHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHH-----hCC--CCHHHHHHHHHHHHHhcCCccc
Confidence 466777777765 57899999999999988876331 111 223333333 22332 45678
Q ss_pred HHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 154 VNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 154 ~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+++..++++...-+ .+++..|+ .|.-+..+++|.+|...+--+...
T Consensus 210 a~a~~ll~~al~~D~----~~iral~l--LA~~afe~g~~~~A~~~Wq~lL~~ 256 (287)
T COG4235 210 AKARALLRQALALDP----ANIRALSL--LAFAAFEQGDYAEAAAAWQMLLDL 256 (287)
T ss_pred HHHHHHHHHHHhcCC----ccHHHHHH--HHHHHHHcccHHHHHHHHHHHHhc
Confidence 889999999877643 35555555 566678999999999999888875
No 273
>PF13730 HTH_36: Helix-turn-helix domain
Probab=36.15 E-value=58 Score=22.64 Aligned_cols=29 Identities=17% Similarity=0.236 Sum_probs=26.3
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
|.+.||+.+|++..-|.+.+..++..|-|
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 78999999999999999999999888754
No 274
>PRK15331 chaperone protein SicA; Provisional
Probab=36.12 E-value=2.2e+02 Score=25.47 Aligned_cols=94 Identities=11% Similarity=-0.003 Sum_probs=71.6
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHH
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~ 179 (397)
...|--+...|++++|.++.+-+-... ... -++++-..-.|...++|.+|-....-+...-.+.+.|
T Consensus 41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d---~~n----~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p------ 107 (165)
T PRK15331 41 YAHAYEFYNQGRLDEAETFFRFLCIYD---FYN----PDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRP------ 107 (165)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhC---cCc----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCc------
Confidence 556667778999999999998876532 222 3578888889999999999999888887655442322
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 180 KVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 180 ~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..+.|.-+..-++-..|-.+|..+...
T Consensus 108 ~f~agqC~l~l~~~~~A~~~f~~a~~~ 134 (165)
T PRK15331 108 VFFTGQCQLLMRKAAKARQCFELVNER 134 (165)
T ss_pred cchHHHHHHHhCCHHHHHHHHHHHHhC
Confidence 445777788999999999999888873
No 275
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=36.05 E-value=54 Score=26.68 Aligned_cols=35 Identities=17% Similarity=0.282 Sum_probs=33.0
Q ss_pred hhccccCHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
|....|+.+.++++.|+++..+.+.+..+|..|.|
T Consensus 50 Kk~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 50 KKMDRISNSQIAEMTGLSRDHVSKALNELIRRGVI 84 (100)
T ss_pred CccceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 45689999999999999999999999999999998
No 276
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=35.91 E-value=2.6e+02 Score=26.26 Aligned_cols=79 Identities=13% Similarity=0.006 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHH-HHHHhhcC
Q 015984 73 QKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQI-ARLYLEDD 151 (397)
Q Consensus 73 ~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i-~Rl~L~~~ 151 (397)
.+++...+.+..+..+. .+-...|...+|+-|...|+|++|.+.|..+... +++-.=-..+.-++.. .+.+...+
T Consensus 157 iI~lL~~A~~~f~~~~~--~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~--yr~egW~~l~~~~l~~l~~Ca~~~~ 232 (247)
T PF11817_consen 157 IIELLEKAYEQFKKYGQ--NRMASYLSLEMAEEYFRLGDYDKALKLLEPAASS--YRREGWWSLLTEVLWRLLECAKRLG 232 (247)
T ss_pred HHHHHHHHHHHHHHhcc--chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--HHhCCcHHHHHHHHHHHHHHHHHhC
Confidence 35555555555544443 4555678889999999999999999999998332 3432222333333333 33334555
Q ss_pred ChHH
Q 015984 152 DAVN 155 (397)
Q Consensus 152 d~~~ 155 (397)
|...
T Consensus 233 ~~~~ 236 (247)
T PF11817_consen 233 DVED 236 (247)
T ss_pred CHHH
Confidence 5443
No 277
>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=35.55 E-value=79 Score=17.29 Aligned_cols=27 Identities=11% Similarity=-0.123 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+...|..+...++|.+|...|..+..
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 345678888999999999999887765
No 278
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=35.47 E-value=6.4e+02 Score=27.74 Aligned_cols=116 Identities=14% Similarity=0.064 Sum_probs=59.8
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCCh
Q 015984 74 KEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDA 153 (397)
Q Consensus 74 ~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~ 153 (397)
++++..+-+.+-+....|++.-.. ||..+-+.|+..||-..+..-..-+ -... +-.-...-+|-+.+.+
T Consensus 302 ldlAI~~Ykral~~~P~F~~Ay~N----lanALkd~G~V~ea~~cYnkaL~l~--p~ha-----dam~NLgni~~E~~~~ 370 (966)
T KOG4626|consen 302 LDLAIDTYKRALELQPNFPDAYNN----LANALKDKGSVTEAVDCYNKALRLC--PNHA-----DAMNNLGNIYREQGKI 370 (966)
T ss_pred HHHHHHHHHHHHhcCCCchHHHhH----HHHHHHhccchHHHHHHHHHHHHhC--CccH-----HHHHHHHHHHHHhccc
Confidence 444444444444444445554322 3444444455555555554432211 1111 1112223345556666
Q ss_pred HHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 154 VNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 154 ~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..|-.++.|+-...... -.. ..-.|.+|..++++.+|-.+|.|+...
T Consensus 371 e~A~~ly~~al~v~p~~-----aaa-~nNLa~i~kqqgnl~~Ai~~YkealrI 417 (966)
T KOG4626|consen 371 EEATRLYLKALEVFPEF-----AAA-HNNLASIYKQQGNLDDAIMCYKEALRI 417 (966)
T ss_pred hHHHHHHHHHHhhChhh-----hhh-hhhHHHHHHhcccHHHHHHHHHHHHhc
Confidence 66666666665443321 111 122567888999999999999998863
No 279
>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=35.13 E-value=73 Score=23.07 Aligned_cols=34 Identities=18% Similarity=0.227 Sum_probs=29.6
Q ss_pred ccc-CHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 316 TNI-SFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 316 ~~I-sl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
+.+ +...||+.+|+|..-+-+-+..+..+|.+.-
T Consensus 22 ~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 22 DRLPSERELAERYGVSRTTVREALRRLEAEGLIER 56 (64)
T ss_dssp SBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEE
Confidence 688 9999999999999999999999999998864
No 280
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=35.12 E-value=46 Score=25.82 Aligned_cols=27 Identities=19% Similarity=0.292 Sum_probs=20.5
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
.-||.+.||..+|.|.+++...+..|=
T Consensus 37 ~PVt~~~LA~a~g~~~e~v~~~L~~~p 63 (77)
T PF12324_consen 37 QPVTVEQLAAALGWPVEEVRAALAAMP 63 (77)
T ss_dssp S-B-HHHHHHHHT--HHHHHHHHHH-T
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHhCC
Confidence 668999999999999999999999874
No 281
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=35.04 E-value=7.4e+02 Score=28.39 Aligned_cols=109 Identities=19% Similarity=0.098 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHhhch--hccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCc
Q 015984 93 EQVLIIREKLADLYESEQQWSKAAQMLSGID--LDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~--~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~ 170 (397)
.+.++.-..||.+||...-|.. ...+.... +++-.+. -=.++.--+.-+++..|++.+|.....+|.......
T Consensus 411 ~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~----ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~ 485 (1018)
T KOG2002|consen 411 PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQ----IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEV 485 (1018)
T ss_pred cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCC----CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhh
Confidence 4455677889999998876665 66655543 2220111 235677888999999999999999999998774322
Q ss_pred c--hH--HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 171 Q--QE--VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 171 ~--~~--~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
. |. .+.+..+.-.|+.+-.-++|..|...|-++...
T Consensus 486 ~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke 525 (1018)
T KOG2002|consen 486 ANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE 525 (1018)
T ss_pred cCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence 1 21 234545555788889999999999999998874
No 282
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=34.19 E-value=78 Score=21.48 Aligned_cols=29 Identities=17% Similarity=0.337 Sum_probs=25.0
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
++...+..++|+.+|+|+.-+...+.++.
T Consensus 12 ~~~~~s~~eia~~l~~s~~tv~~~~~~~~ 40 (57)
T cd06170 12 LAEGKTNKEIADILGISEKTVKTHLRNIM 40 (57)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35778999999999999999999887664
No 283
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=34.12 E-value=2.8e+02 Score=23.13 Aligned_cols=65 Identities=22% Similarity=0.131 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
++.....+..++..+++..|...+.++...-.- +. ..+....+.|...|++.+|-..|...-...
T Consensus 62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~--~E----~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l 126 (146)
T PF03704_consen 62 LDALERLAEALLEAGDYEEALRLLQRALALDPY--DE----EAYRLLMRALAAQGRRAEALRVYERYRRRL 126 (146)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT---H----HHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCC--CH----HHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 555566677888999999999999997665332 22 245556667778888888888887665544
No 284
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=33.92 E-value=1.2e+02 Score=20.42 Aligned_cols=29 Identities=21% Similarity=0.362 Sum_probs=25.2
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
++...+..++|+.+|+|...+...+.+..
T Consensus 15 ~~~g~s~~eia~~l~is~~tv~~~~~~~~ 43 (58)
T smart00421 15 LAEGLTNKEIAERLGISEKTVKTHLSNIM 43 (58)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35778999999999999999999888764
No 285
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=33.90 E-value=2e+02 Score=31.40 Aligned_cols=91 Identities=12% Similarity=0.105 Sum_probs=68.7
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhh
Q 015984 70 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLE 149 (397)
Q Consensus 70 ~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~ 149 (397)
+.-++.+-.+++..+.|++..=-. .+|=..+|++|+..|+.+.|..++..- +...++. ..+...+|+.=+.+-|.
T Consensus 363 ~~~~i~tyteAv~~vdP~ka~Gs~--~~Lw~~faklYe~~~~l~~aRvifeka-~~V~y~~--v~dLa~vw~~waemElr 437 (835)
T KOG2047|consen 363 AAEQINTYTEAVKTVDPKKAVGSP--GTLWVEFAKLYENNGDLDDARVIFEKA-TKVPYKT--VEDLAEVWCAWAEMELR 437 (835)
T ss_pred hHHHHHHHHHHHHccCcccCCCCh--hhHHHHHHHHHHhcCcHHHHHHHHHHh-hcCCccc--hHHHHHHHHHHHHHHHh
Confidence 445677777888888887762222 266677999999999999999888763 2222444 34577899999999999
Q ss_pred cCChHHHHHHHHHhcc
Q 015984 150 DDDAVNAEAFINKASF 165 (397)
Q Consensus 150 ~~d~~~A~~~l~ka~~ 165 (397)
.+++..|-..+.+|..
T Consensus 438 h~~~~~Al~lm~~A~~ 453 (835)
T KOG2047|consen 438 HENFEAALKLMRRATH 453 (835)
T ss_pred hhhHHHHHHHHHhhhc
Confidence 9999999999999754
No 286
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=33.21 E-value=5.4e+02 Score=26.27 Aligned_cols=94 Identities=20% Similarity=0.166 Sum_probs=70.5
Q ss_pred HHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHH
Q 015984 58 LQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRL 137 (397)
Q Consensus 58 ~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kl 137 (397)
|-.++..++--+++.++..+++-+.+.-... -+-..|+.+|.+++.|.+|.+.|..-. +.+.-.
T Consensus 298 L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--------~L~~tLG~L~~k~~~w~kA~~~leaAl--------~~~~s~ 361 (400)
T COG3071 298 LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--------LLLSTLGRLALKNKLWGKASEALEAAL--------KLRPSA 361 (400)
T ss_pred HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--------hHHHHHHHHHHHhhHHHHHHHHHHHHH--------hcCCCh
Confidence 4456666666667788888888888875555 567889999999999999999987422 222234
Q ss_pred HHHHHHHHHHhhcCChHHHHHHHHHhcccc
Q 015984 138 SKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (397)
Q Consensus 138 e~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~ 167 (397)
.-|..-+..+-..++...|+...+.+-...
T Consensus 362 ~~~~~la~~~~~~g~~~~A~~~r~e~L~~~ 391 (400)
T COG3071 362 SDYAELADALDQLGEPEEAEQVRREALLLT 391 (400)
T ss_pred hhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence 567778889999999999998888766433
No 287
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=32.93 E-value=1.4e+02 Score=23.48 Aligned_cols=30 Identities=20% Similarity=0.121 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhcc
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDS 126 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et 126 (397)
..+..||..+...|++++|.+.|-++....
T Consensus 23 ~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~d 52 (90)
T PF14561_consen 23 DARYALADALLAAGDYEEALDQLLELVRRD 52 (90)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 677899999999999999999999977543
No 288
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=32.76 E-value=1.2e+02 Score=26.83 Aligned_cols=50 Identities=18% Similarity=0.234 Sum_probs=37.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQW 370 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w 370 (397)
-.+|-++||..+|++++.+=..+.+|-.+|.|. ...|.|...++ +.|.++
T Consensus 148 ~~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~----~~~~~i~I~d~-~~L~~~ 197 (202)
T PRK13918 148 IYATHDELAAAVGSVRETVTKVIGELSREGYIR----SGYGKIQLLDL-KGLEEL 197 (202)
T ss_pred ecCCHHHHHHHhCccHHHHHHHHHHHHHCCCEE----cCCCEEEEECH-HHHHHH
Confidence 357889999999999999999999999999885 23344444432 445444
No 289
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=32.62 E-value=1.3e+02 Score=31.79 Aligned_cols=61 Identities=23% Similarity=0.055 Sum_probs=49.2
Q ss_pred HHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 139 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 139 ~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+.-..-+++..+++..|..++++|..+.. + ...+.+.|+++...|++.+|...|..++..
T Consensus 422 ~~~ala~~~~~~g~~~~A~~~l~rAl~L~p---s----~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L 482 (517)
T PRK10153 422 IYEILAVQALVKGKTDEAYQAINKAIDLEM---S----WLNYVLLGKVYELKGDNRLAADAYSTAFNL 482 (517)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 343334556667999999999999887652 2 347889999999999999999999999985
No 290
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=32.40 E-value=96 Score=28.26 Aligned_cols=44 Identities=11% Similarity=-0.003 Sum_probs=37.0
Q ss_pred HHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEecc
Q 015984 310 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (397)
Q Consensus 310 ~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQ 353 (397)
.+.+-+...|.++||+.+|+|+.-|+..++.+...|.+...++=
T Consensus 170 ~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~~ 213 (225)
T PRK10046 170 LFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIVH 213 (225)
T ss_pred HHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEeec
Confidence 33444556789999999999999999999999999999877653
No 291
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=32.25 E-value=1.4e+02 Score=24.01 Aligned_cols=35 Identities=20% Similarity=0.335 Sum_probs=27.2
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gk 350 (397)
..++-+.||+.+|+++.++-+.+..+-.+|-+..+
T Consensus 26 ~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~~ 60 (105)
T PF02002_consen 26 GELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSYR 60 (105)
T ss_dssp --B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EEE
T ss_pred CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEE
Confidence 56889999999999999999999999999999555
No 292
>PF01984 dsDNA_bind: Double-stranded DNA-binding domain; InterPro: IPR002836 This protein family is found in archaea and eukaryota. The human TFAR19 (TF-1 cell apoptosis-related protein 19) encodes a protein which shares significant homology to the corresponding proteins of species ranging from yeast to mice. TFAR19 exhibits a ubiquitous expression pattern and its expression is up-regulated in the tumour cells undergoing apoptosis. TFAR19 may play a general role in the apoptotic process []. Also included in this family is a DNA-binding protein from the archaea, Methanobacterium thermoautotrophicum.; GO: 0003677 DNA binding; PDB: 1EIJ_A 2K6B_A 2CRU_A 1YYB_A 2JXN_A 2FH0_A.
Probab=32.21 E-value=25 Score=29.09 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=18.3
Q ss_pred hHHHHHHHHHhHhcCceEEEec
Q 015984 331 PQKAEKIASRMIFEDRMRGSID 352 (397)
Q Consensus 331 ~~~~E~~ls~mI~~grl~gkID 352 (397)
...||..|.+|...|+|.++||
T Consensus 61 A~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 61 ARQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HHHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHHHHcCCCCCCcC
Confidence 3589999999999999999986
No 293
>PRK11050 manganese transport regulator MntR; Provisional
Probab=31.65 E-value=3.4e+02 Score=23.45 Aligned_cols=35 Identities=11% Similarity=0.195 Sum_probs=31.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gk 350 (397)
..++..+||+.++++..-+-..+.+|...|.|.-+
T Consensus 50 ~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~ 84 (152)
T PRK11050 50 GEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMR 84 (152)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 56899999999999999999999999999987654
No 294
>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=31.54 E-value=92 Score=23.12 Aligned_cols=32 Identities=13% Similarity=0.228 Sum_probs=26.7
Q ss_pred ccCHHHHHHHhCCC-hHHHHHHHHHhHhcCceE
Q 015984 317 NISFEELGTLLGIA-PQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 317 ~Isl~~La~ll~ls-~~~~E~~ls~mI~~grl~ 348 (397)
.-|+.+||+.||++ +.-|-..|..+...|.|.
T Consensus 25 ~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 25 PPTVREIAEALGLKSTSTVQRHLKALERKGYIR 57 (65)
T ss_dssp ---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEE
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCcCcc
Confidence 36899999999995 999999999999998775
No 295
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=31.51 E-value=3.9e+02 Score=24.02 Aligned_cols=47 Identities=15% Similarity=0.084 Sum_probs=37.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEe--ccCCcEEEECC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI--DQVEAVIHFED 362 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkI--DQv~giV~f~~ 362 (397)
.-+|-++||..+|++...+-+.+.++-.+|.+..+- |...|...+-|
T Consensus 35 g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w 83 (178)
T PRK06266 35 GEVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTW 83 (178)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEE
Confidence 458999999999999999999999999999997544 22355555544
No 296
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=31.39 E-value=5.3e+02 Score=28.47 Aligned_cols=110 Identities=15% Similarity=0.092 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHh-hch--------------hccCCCCC------------chhHHHHHHHHHHHHHhh
Q 015984 97 IIREKLADLYESEQQWSKAAQMLS-GID--------------LDSGMRVI------------DDTFRLSKCVQIARLYLE 149 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~-~i~--------------~et~~~~~------------~~~~kle~~L~i~Rl~L~ 149 (397)
.+-.+|++++|+.++.+.|...+. ++. +|--.+.+ -...-..+||+-+|+-+.
T Consensus 686 Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR 765 (913)
T KOG0495|consen 686 KLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELR 765 (913)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHH
Confidence 677788888888888888876543 222 11100000 000115789999999999
Q ss_pred cCChHHHHHHHHHhcccccCcc-----------hHHH-------------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 150 DDDAVNAEAFINKASFLVSSSQ-----------QEVL-------------NLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 150 ~~d~~~A~~~l~ka~~~~~~~~-----------~~~l-------------~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.|+...|+..+.||.......+ .+.. ..+.-..-|+++-.+++|..|-.-|..+..
T Consensus 766 ~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk 845 (913)
T KOG0495|consen 766 AGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK 845 (913)
T ss_pred cCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999876544321 1111 123345567888999999998888888776
Q ss_pred h
Q 015984 206 I 206 (397)
Q Consensus 206 ~ 206 (397)
.
T Consensus 846 ~ 846 (913)
T KOG0495|consen 846 K 846 (913)
T ss_pred c
Confidence 4
No 297
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=31.21 E-value=3.6e+02 Score=23.62 Aligned_cols=47 Identities=15% Similarity=0.047 Sum_probs=36.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEe--ccCCcEEEECC
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI--DQVEAVIHFED 362 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkI--DQv~giV~f~~ 362 (397)
.-+|-++||.++|++...+-+.+.++-.+|.+.-+= |-.+|...+-|
T Consensus 27 ~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w 75 (158)
T TIGR00373 27 GEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTW 75 (158)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEE
Confidence 458999999999999999999999999999984322 33445555444
No 298
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=31.20 E-value=3.3e+02 Score=30.10 Aligned_cols=98 Identities=13% Similarity=-0.009 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchH
Q 015984 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (397)
Q Consensus 94 q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~ 173 (397)
+.+.....||.+....|.+++|...+..+.-...... .....-++.....+.++.|...++++-..-.+
T Consensus 84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~-------~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~---- 152 (694)
T PRK15179 84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSS-------EAFILMLRGVKRQQGIEAGRAEIELYFSGGSS---- 152 (694)
T ss_pred ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcH-------HHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC----
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDIS 204 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~ 204 (397)
...+....|..+...++|.+|-..|..+.
T Consensus 153 --~~~~~~~~a~~l~~~g~~~~A~~~y~~~~ 181 (694)
T PRK15179 153 --SAREILLEAKSWDEIGQSEQADACFERLS 181 (694)
T ss_pred --CHHHHHHHHHHHHHhcchHHHHHHHHHHH
No 299
>KOG4521 consensus Nuclear pore complex, Nup160 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=31.05 E-value=5.3e+02 Score=30.30 Aligned_cols=147 Identities=14% Similarity=0.116 Sum_probs=89.8
Q ss_pred HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHH-Hhh
Q 015984 71 ETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARL-YLE 149 (397)
Q Consensus 71 ~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl-~L~ 149 (397)
|...+++-.+|+.+.+.. .+.+.++..+-+.+.+-|-|.+|.+.|...+.+ +.-..+|++.=+ .++
T Consensus 1000 E~vcQlA~~AIe~l~dd~----ps~a~~~t~vFnhhldlgh~~qAy~ai~~npds---------errrdcLRqlvivLfe 1066 (1480)
T KOG4521|consen 1000 EEVCQLAVKAIENLPDDN----PSVALISTTVFNHHLDLGHWFQAYKAILRNPDS---------ERRRDCLRQLVIVLFE 1066 (1480)
T ss_pred HHHHHHHHHHHHhCCCcc----hhHHHHHHHHHHhhhchhhHHHHHHHHHcCCcH---------HHHHHHHHHHHHHHHh
Confidence 444555556666665554 666788888999999999999999998886643 333455665333 334
Q ss_pred cCChHHHH------------H-HHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCC
Q 015984 150 DDDAVNAE------------A-FINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETI 216 (397)
Q Consensus 150 ~~d~~~A~------------~-~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~ 216 (397)
.+.++-.- . +..++.. .++-.+..||...=-+|+.++||-.|+.+.||-.-....+......
T Consensus 1067 cg~l~~L~~fpfigl~~eve~~l~esaaR-----s~~~mk~nyYelLYAfh~~RhN~RkaatvMYEyamrl~se~~~~~~ 1141 (1480)
T KOG4521|consen 1067 CGELEALATFPFIGLEQEVEDFLRESAAR-----SSPSMKKNYYELLYAFHVARHNFRKAATVMYEYAMRLESETCMTPE 1141 (1480)
T ss_pred ccchHHHhhCCccchHHHHHHHHHHHHhh-----cCccccccHHHHHHHHHHhhcchhHHHHHHHHHHHHhcccccCCHH
Confidence 45443222 2 1222221 2344455566666668899999999999999876544321011111
Q ss_pred CHHHHHHHHHHHHHHHHhc
Q 015984 217 DEEALEQALSAAVTCTILA 235 (397)
Q Consensus 217 ~~~~~~~~L~~av~~~ILa 235 (397)
.-++|..+|..++-|.=|-
T Consensus 1142 ~Lekr~ncllaaLNcl~Lv 1160 (1480)
T KOG4521|consen 1142 LLEKRRNCLLAALNCLSLV 1160 (1480)
T ss_pred HHHHhhhHHHHHHHHHHhc
Confidence 1246677887776665553
No 300
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=31.03 E-value=45 Score=23.46 Aligned_cols=25 Identities=24% Similarity=0.316 Sum_probs=19.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASR 340 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~ 340 (397)
..+++.+||+.+|+++.++-..+.+
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l~~ 26 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKLFK 26 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH-H
T ss_pred CceEHHHHHHHHCcCHHHHHHHHHH
Confidence 3578999999999999998877733
No 301
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=30.08 E-value=90 Score=32.85 Aligned_cols=144 Identities=12% Similarity=-0.001 Sum_probs=0.0
Q ss_pred HHHHHhhhcHHHHHHHHhhchhccCCCCCchhH--HHHHHHHHHHHHhhcCChHHHHHHHHHhcc-------------cc
Q 015984 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF--RLSKCVQIARLYLEDDDAVNAEAFINKASF-------------LV 167 (397)
Q Consensus 103 a~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~--kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~-------------~~ 167 (397)
+.+++..|++..|.+.|..+..+...+-+-..+ ..-++-..--+++..+-+.-+-.+..||.. ..
T Consensus 247 sq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~ 326 (696)
T KOG2471|consen 247 SQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKT 326 (696)
T ss_pred HHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcc
Q ss_pred cCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHHHHHHHHHHHHHHhcCC---------C
Q 015984 168 SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAA---------G 238 (397)
Q Consensus 168 ~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~~~~L~~av~~~ILa~~---------~ 238 (397)
..-...+.....|.| |..|.+.|+-+.|++||.+....|- ..|--|+ .+.-|+|++.. +
T Consensus 327 ~tls~nks~eilYNc-G~~~Lh~grPl~AfqCf~~av~vfh-------~nPrlWL----RlAEcCima~~~~l~ee~~~s 394 (696)
T KOG2471|consen 327 FTLSQNKSMEILYNC-GLLYLHSGRPLLAFQCFQKAVHVFH-------RNPRLWL----RLAECCIMALQKGLLEEGNSS 394 (696)
T ss_pred eehhcccchhhHHhh-hHHHHhcCCcHHHHHHHHHHHHHHh-------cCcHHHH----HHHHHHHHHhhhhhhhhccCC
Q ss_pred CcchHHHH----------------hhhhchhhcccc
Q 015984 239 PQRSRVLA----------------TLYKDERCSKLK 258 (397)
Q Consensus 239 ~~rs~ll~----------------~l~~d~~~~~l~ 258 (397)
+.|+.+-. +.+.++....+|
T Consensus 395 ~s~~~i~~~vig~g~rr~~m~~~nt~~~~~qS~~~p 430 (696)
T KOG2471|consen 395 LSRSEIRVHVIGKGNRRQLMIEENTYVELAQSNQLP 430 (696)
T ss_pred cccccceeeeecccchhheeecccceeccccccCCC
No 302
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=29.93 E-value=2.8e+02 Score=25.91 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=41.7
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
...||..+||+.+++++.-+=+.+.+|...|-|.-..|.-+..|....
T Consensus 19 ~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTe 66 (217)
T PRK14165 19 TVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITE 66 (217)
T ss_pred CCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECH
Confidence 357899999999999999999999999999999999987555566654
No 303
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.81 E-value=65 Score=25.63 Aligned_cols=25 Identities=36% Similarity=0.320 Sum_probs=22.7
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHH
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIAS 339 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls 339 (397)
-+++|.+.+|..|++++.++|+++.
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil~ 45 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKILQ 45 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHHH
Confidence 4788999999999999999998874
No 304
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=29.80 E-value=6.6e+02 Score=26.83 Aligned_cols=100 Identities=13% Similarity=0.117 Sum_probs=74.2
Q ss_pred HHHhhccccc---hHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHH
Q 015984 80 TLAQIQPRVV---SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNA 156 (397)
Q Consensus 80 ~l~~~~~~~~---~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A 156 (397)
+-..+..+.+ ..+.+...+..++..+.....|..+++..+..+--+. .|=.+.-..+.--+..+..++...||.+|
T Consensus 460 l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy~-nRfr~~~~~V~~~f~~Ae~lF~~~~Y~~a 538 (569)
T PRK04778 460 LAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQYA-NRYRSDNEEVAEALNEAERLFREYDYKAA 538 (569)
T ss_pred HHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hccCCCCHHHHHHHHHHHHHHHhCChHHH
Confidence 3344445555 3555777889999999999999999999998765553 33345667888889999998899999999
Q ss_pred HHHHHHhcccccCcchHHHHHHHH
Q 015984 157 EAFINKASFLVSSSQQEVLNLQYK 180 (397)
Q Consensus 157 ~~~l~ka~~~~~~~~~~~l~~~~~ 180 (397)
-..+-.|-..+..|.-..+.-.|+
T Consensus 539 l~~~~~alE~vePG~~~ri~~~y~ 562 (569)
T PRK04778 539 LEIIATALEKVEPGVTKRIEDSYE 562 (569)
T ss_pred HHHHHHHHHhhCCcHHHHHHHHHH
Confidence 988888877776655555544444
No 305
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=29.47 E-value=79 Score=23.78 Aligned_cols=34 Identities=15% Similarity=0.388 Sum_probs=26.4
Q ss_pred ccccCHHHHHH-HhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGT-LLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~-ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
=+...|.++.+ ..+..+.++-+.+..||.+|++.
T Consensus 17 KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l~ 51 (67)
T PF08679_consen 17 KSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKLE 51 (67)
T ss_dssp SS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeEE
Confidence 35666888888 56678999999999999999873
No 306
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=29.23 E-value=6.1e+02 Score=26.34 Aligned_cols=228 Identities=14% Similarity=0.181 Sum_probs=105.9
Q ss_pred CCCchhHHHHHH--HHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 129 RVIDDTFRLSKC--VQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 129 ~~~~~~~kle~~--L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+..+...++.+. +-.+|++...||+...-.++.--...++. .-|..+..|+ -|-.|+.-|+|-+|-+.|..++..
T Consensus 225 g~s~~y~~LgyfsL~GLlR~H~lLgDhQat~q~idi~pk~iy~-t~p~c~VTY~--VGFayLmmrryadai~~F~niLly 301 (525)
T KOG3677|consen 225 GASQPYANLGYFSLLGLLRMHILLGDHQATSQILDIMPKEIYG-TEPMCRVTYQ--VGFAYLMMRRYADAIRVFLNILLY 301 (525)
T ss_pred ccccHHHhhhHHHHHHHHHHHHHhhhhHhhhhhhhcCchhhcC-cccceeEeee--hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444455554 55699999999955433333333333332 3455555555 566778889999999999876642
Q ss_pred hhh--------hcCCCCCCHHHHHHHHHHHHHHHHhcCCCCcc--hHHHHhhhhchhhcc-ccchHHHHHHHH--HhhcC
Q 015984 207 QKR--------QIGDETIDEEALEQALSAAVTCTILAAAGPQR--SRVLATLYKDERCSK-LKIYPILQKVYL--ERILR 273 (397)
Q Consensus 207 ~~~--------~~~~~~~~~~~~~~~L~~av~~~ILa~~~~~r--s~ll~~l~~d~~~~~-l~~~~~L~k~f~--~~ii~ 273 (397)
--. .-....++ .++.+.-....+|..+-|.--+- ...++..+.|+.++. --.-..+..+|. ....-
T Consensus 302 Iqrtks~~~~~~y~~d~in-Kq~eqm~~llai~l~~yPq~iDESi~s~l~Ek~~d~ml~mqng~~q~~ks~f~y~cpkfl 380 (525)
T KOG3677|consen 302 IQRTKSMFSRTTYQYDMIN-KQNEQMHHLLAICLSMYPQMIDESIHSQLAEKYGDKMLPMQNGDPQVFKSLFSYLCPKFL 380 (525)
T ss_pred HHHHHhhhcchhhhHhhhh-hhHHHHHHHHHHHHHhCchhhhHHHHHHHHHHhcchhhhhhcCChHHHHHHHHHcCcccc
Confidence 110 00011121 12222222244555554421111 111222233332211 001112222221 11111
Q ss_pred hhhHHHHHHHhch-hhhhhCCCchhhHHHHHHHH----HHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHh-----
Q 015984 274 KPEIDAFAEELKP-HQKALLPDNFTVLDRAMIEH----NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIF----- 343 (397)
Q Consensus 274 ~~~l~~F~~~L~~-h~~~~~~d~~~~L~~~v~Eh----Nl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~----- 343 (397)
|+-+-.++..+.. |...+.+ ...++..-|.++ -++.+-++|+.....-+|..++++.++=.+.+.+++.
T Consensus 381 sp~~~~~dgv~~~y~kePl~~-qlq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~~dk~li~Ll~~khkm 459 (525)
T KOG3677|consen 381 SPVVPNYDGVLPNYHKEPLLQ-QLQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQERDKFLIQLLVFKHKM 459 (525)
T ss_pred CCCCcccccccccccccHHHH-HHHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCchhhhhhhHHHHHHHHHHH
Confidence 1111111111111 0000000 001222222222 4667778899999999999999999887777776653
Q ss_pred ------cCceEEEec-cCCcEEEEC
Q 015984 344 ------EDRMRGSID-QVEAVIHFE 361 (397)
Q Consensus 344 ------~grl~gkID-Qv~giV~f~ 361 (397)
.|.....++ ++...|-|-
T Consensus 460 ~nlv~~sg~s~~d~~f~~~s~idfy 484 (525)
T KOG3677|consen 460 KNLVWTSGPSDLDDAFFSRSEIDFY 484 (525)
T ss_pred HHHHHhcCCccccccccCcceeeEE
Confidence 444444544 444456553
No 307
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=29.15 E-value=93 Score=21.26 Aligned_cols=27 Identities=22% Similarity=0.359 Sum_probs=22.4
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHh
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRM 341 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~m 341 (397)
-...|+..+|+.+|++..-|..++-+.
T Consensus 25 ~~~~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 25 RESRSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred hhcCCHHHHHHHHCCCHHHHHHHHHhh
Confidence 345799999999999999998876553
No 308
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=29.05 E-value=3.6e+02 Score=25.92 Aligned_cols=92 Identities=10% Similarity=-0.081 Sum_probs=68.4
Q ss_pred HHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHH
Q 015984 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKV 181 (397)
Q Consensus 102 La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~ 181 (397)
+++.....|+|.+|...+.+...= .-++. +.|.-..=.|...++.+.|+.-++++..+... +|. +..
T Consensus 106 ~gk~~~~~g~~~~A~~~~rkA~~l----~p~d~---~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~--~p~----~~n 172 (257)
T COG5010 106 QGKNQIRNGNFGEAVSVLRKAARL----APTDW---EAWNLLGAALDQLGRFDEARRAYRQALELAPN--EPS----IAN 172 (257)
T ss_pred HHHHHHHhcchHHHHHHHHHHhcc----CCCCh---hhhhHHHHHHHHccChhHHHHHHHHHHHhccC--Cch----hhh
Confidence 788889999999999999986521 11222 23444444577889999999999999887754 333 334
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 182 CYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 182 ~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
-.|-.++.++|+.+|..++...+..
T Consensus 173 Nlgms~~L~gd~~~A~~lll~a~l~ 197 (257)
T COG5010 173 NLGMSLLLRGDLEDAETLLLPAYLS 197 (257)
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHhC
Confidence 4566778999999999999998874
No 309
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=28.84 E-value=69 Score=22.62 Aligned_cols=25 Identities=36% Similarity=0.469 Sum_probs=19.6
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHH
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIAS 339 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls 339 (397)
...|+=.+||+.+|+++.++-+-+|
T Consensus 26 ~~~vSS~~La~~~gi~~~qVRKDlS 50 (50)
T PF06971_consen 26 VERVSSQELAEALGITPAQVRKDLS 50 (50)
T ss_dssp -SEE-HHHHHHHHTS-HHHHHHHHH
T ss_pred CeeECHHHHHHHHCCCHHHhcccCC
Confidence 4889999999999999999987664
No 310
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=28.83 E-value=2.1e+02 Score=31.39 Aligned_cols=28 Identities=25% Similarity=0.398 Sum_probs=17.3
Q ss_pred HHHHHhhc--cccCHHHHHHHhCCChHHHH
Q 015984 308 LLSASKLY--TNISFEELGTLLGIAPQKAE 335 (397)
Q Consensus 308 l~~is~~Y--~~Isl~~La~ll~ls~~~~E 335 (397)
|+-..++| .-||+++--+++..++...|
T Consensus 961 ILPLveFy~E~DISd~EA~~Li~~e~~~~~ 990 (1081)
T KOG1538|consen 961 ILPLVEFYLEEDISDEEAISLIDLEVLRPK 990 (1081)
T ss_pred eeeeEEEeeccCCCHHHHHHHhcCCCCCcc
Confidence 44555555 56777777777777644333
No 311
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=28.69 E-value=4.6e+02 Score=27.52 Aligned_cols=103 Identities=17% Similarity=-0.006 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHH
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~ 178 (397)
+.-.|.-+...|++++|.+.|.++..+...-. =++.....++++.|...+|...++|+...... ..-
T Consensus 309 ~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~-------~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~------~~~ 375 (484)
T COG4783 309 QYGRALQTYLAGQYDEALKLLQPLIAAQPDNP-------YYLELAGDILLEANKAKEAIERLKKALALDPN------SPL 375 (484)
T ss_pred HHHHHHHHHHhcccchHHHHHHHHHHhCCCCH-------HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------ccH
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCCCCCHHHH
Q 015984 179 YKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEAL 221 (397)
Q Consensus 179 ~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~~~~~~~~~~~~~~~ 221 (397)
....+|..++.-+++.+|-+....... ....++.-|
T Consensus 376 l~~~~a~all~~g~~~eai~~L~~~~~-------~~p~dp~~w 411 (484)
T COG4783 376 LQLNLAQALLKGGKPQEAIRILNRYLF-------NDPEDPNGW 411 (484)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHHHhh-------cCCCCchHH
No 312
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=28.56 E-value=4.7e+02 Score=24.11 Aligned_cols=76 Identities=12% Similarity=-0.018 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHhhhcHHHHHHHHhhch------hccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccc
Q 015984 94 QVLIIREKLADLYESEQQWSKAAQMLSGID------LDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (397)
Q Consensus 94 q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~------~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~ 167 (397)
..|.+..++|=+|...|+-++....|..-. .++............+...+.-|+...|++..|..++.++-...
T Consensus 116 ~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~ 195 (214)
T PF09986_consen 116 KKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSK 195 (214)
T ss_pred HHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence 567889999999998888554444443321 22211222333455677788999999999999999999986655
Q ss_pred cC
Q 015984 168 SS 169 (397)
Q Consensus 168 ~~ 169 (397)
..
T Consensus 196 ~~ 197 (214)
T PF09986_consen 196 KA 197 (214)
T ss_pred CC
Confidence 43
No 313
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=28.54 E-value=1.9e+02 Score=26.20 Aligned_cols=37 Identities=8% Similarity=0.021 Sum_probs=33.2
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEec
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkID 352 (397)
..++..+||+.+|+++.-+-+.+.+|...|-+.-.-+
T Consensus 156 g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~ 192 (203)
T TIGR01884 156 GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGR 192 (203)
T ss_pred CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcC
Confidence 5699999999999999999999999999999876543
No 314
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=28.42 E-value=83 Score=28.40 Aligned_cols=43 Identities=16% Similarity=0.071 Sum_probs=35.6
Q ss_pred HHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCce
Q 015984 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (397)
Q Consensus 305 EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl 347 (397)
++.|+.+.+-...++.++|++.||+|..-+-+-+..+-.+|.+
T Consensus 9 ~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 9 QKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 3445555556789999999999999999999999988888876
No 315
>PF13518 HTH_28: Helix-turn-helix domain
Probab=28.20 E-value=1e+02 Score=20.86 Aligned_cols=38 Identities=16% Similarity=0.164 Sum_probs=29.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEecc
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQ 353 (397)
-...|...+|..+|++...+..-+.+.=..| +.|-.++
T Consensus 10 ~~g~s~~~~a~~~gis~~tv~~w~~~y~~~G-~~~l~~~ 47 (52)
T PF13518_consen 10 LEGESVREIAREFGISRSTVYRWIKRYREGG-IEGLKPK 47 (52)
T ss_pred HcCCCHHHHHHHHCCCHhHHHHHHHHHHhcC-HHHhccC
Confidence 3566999999999999999988888877766 4555444
No 316
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=27.96 E-value=65 Score=23.63 Aligned_cols=24 Identities=17% Similarity=0.339 Sum_probs=18.3
Q ss_pred hCCChHHHHHHHHHhHhcCceEEE
Q 015984 327 LGIAPQKAEKIASRMIFEDRMRGS 350 (397)
Q Consensus 327 l~ls~~~~E~~ls~mI~~grl~gk 350 (397)
.+.+.++++..+.+++.+|+|.+.
T Consensus 31 ~~~s~~eL~~fL~~lv~e~~L~~~ 54 (60)
T PF08672_consen 31 YDISLEELQEFLDRLVEEGKLECS 54 (60)
T ss_dssp TT--HHHHHHHHHHHHHTTSEE--
T ss_pred CCCCHHHHHHHHHHHHHCCcEEec
Confidence 456789999999999999999874
No 317
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=27.89 E-value=87 Score=27.49 Aligned_cols=33 Identities=6% Similarity=0.130 Sum_probs=30.5
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
.+|-++||..+|++.+-+=+.+.+|-.+|.|.-
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLISI 175 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEe
Confidence 578899999999999999999999999998865
No 318
>PRK10870 transcriptional repressor MprA; Provisional
Probab=27.40 E-value=4.4e+02 Score=23.35 Aligned_cols=42 Identities=19% Similarity=0.189 Sum_probs=38.5
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
..++..+||+.++++..-+=..+.+|...|-+.=.-|..++-
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR 111 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRR 111 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCC
Confidence 358999999999999999999999999999999999888863
No 319
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=27.35 E-value=60 Score=20.51 Aligned_cols=21 Identities=24% Similarity=0.357 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHhhhcHHHHH
Q 015984 96 LIIREKLADLYESEQQWSKAA 116 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa 116 (397)
+.....||.+|...|++++|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 356688999999999999985
No 320
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=27.13 E-value=74 Score=29.27 Aligned_cols=27 Identities=22% Similarity=0.327 Sum_probs=22.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
+++++.+||+.||+++.-+.+.|.+..
T Consensus 177 R~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 177 RRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred ccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 799999999999999887777776643
No 321
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=26.81 E-value=79 Score=23.69 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=19.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASR 340 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~ 340 (397)
..-|.++||+.+|+|++++...+..
T Consensus 19 r~Pt~eEiA~~lgis~~~v~~~l~~ 43 (78)
T PF04539_consen 19 REPTDEEIAEELGISVEEVRELLQA 43 (78)
T ss_dssp S--BHHHHHHHHTS-HHHHHHHHHH
T ss_pred CCCCHHHHHHHHcccHHHHHHHHHh
Confidence 6678999999999999999988764
No 322
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=26.72 E-value=4.5e+02 Score=23.21 Aligned_cols=64 Identities=17% Similarity=0.169 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHh----CCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhhchhc
Q 015984 54 SRQLLQTFAQEL----GRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLD 125 (397)
Q Consensus 54 sr~~~~~~~~~l----~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~i~~e 125 (397)
|..++..+++.+ ..-+.+. .+..-..+..++|+.. .+..--+-++-..|+|.+|..+|.++.-.
T Consensus 6 s~~iv~gLi~~~~~aL~~~d~~D-~e~lLdALrvLrP~~~-------e~d~~dg~l~i~rg~w~eA~rvlr~l~~~ 73 (153)
T TIGR02561 6 SNRLLGGLIEVLMYALRSADPYD-AQAMLDALRVLRPNLK-------ELDMFDGWLLIARGNYDEAARILRELLSS 73 (153)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHhCCCcc-------ccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence 455666666554 2222222 3333466777888775 45556778889999999999999996543
No 323
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=26.52 E-value=1.2e+02 Score=26.31 Aligned_cols=33 Identities=15% Similarity=0.144 Sum_probs=26.7
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEecc
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQ 353 (397)
.-|+.++++.+|+|++.+ -++|.+|||.-+-+.
T Consensus 46 ~ati~eV~e~tgVs~~~I----~~~IreGRL~~~~~~ 78 (137)
T TIGR03826 46 QATVSEIVEETGVSEKLI----LKFIREGRLQLKHFP 78 (137)
T ss_pred CCCHHHHHHHHCcCHHHH----HHHHHcCCeeccCCC
Confidence 389999999999998765 578999999765433
No 324
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=26.36 E-value=95 Score=27.75 Aligned_cols=32 Identities=13% Similarity=0.293 Sum_probs=29.9
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
.+|-.+||+.+|++++.+-+.+.+|-.+|.|.
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~ 199 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLIS 199 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 68889999999999999999999999999885
No 325
>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=26.21 E-value=67 Score=18.74 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=20.0
Q ss_pred HHHHHHHhhhcHHHHHHHHhhchh
Q 015984 101 KLADLYESEQQWSKAAQMLSGIDL 124 (397)
Q Consensus 101 ~La~~~e~~~d~~~Aa~~L~~i~~ 124 (397)
.|-+.|.+.|++++|.+++.+++-
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 5 SLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHccchHHHHHHHHHHHhH
Confidence 356778899999999999998763
No 326
>PF13934 ELYS: Nuclear pore complex assembly
Probab=25.81 E-value=5.4e+02 Score=23.89 Aligned_cols=115 Identities=17% Similarity=0.107 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHH
Q 015984 34 IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWS 113 (397)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~ 113 (397)
.++|+++++.++..+++......++=-+.--+....+ ...+..+.-... -...-+...-|=++.+.++|+
T Consensus 26 ~~~L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~--~~~~~~Fa~~f~--------ip~~~~~~~~g~W~LD~~~~~ 95 (226)
T PF13934_consen 26 DNDLRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRP--SELAESFARAFG--------IPPKYIKFIQGFWLLDHGDFE 95 (226)
T ss_pred HHHHHHHHHHHhcCCcCHHHhHHHHHHHHHhcCcccc--ccHHHHHHHHhC--------CCHHHHHHHHHHHHhChHhHH
Confidence 4679999999998888777555444444444433221 111111221111 111244455677888999999
Q ss_pred HHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC
Q 015984 114 KAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (397)
Q Consensus 114 ~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~ 169 (397)
+|...|.+..+ . -++.-+|++..+..++...|-.|++-+.+....
T Consensus 96 ~A~~~L~~ps~-------~----~~~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s 140 (226)
T PF13934_consen 96 EALELLSHPSL-------I----PWFPDKILQALLRRGDPKLALRYLRAVGPPLSS 140 (226)
T ss_pred HHHHHhCCCCC-------C----cccHHHHHHHHHHCCChhHHHHHHHhcCCCCCC
Confidence 99999977422 1 122334777777789999999999998887665
No 327
>COG5481 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=25.53 E-value=1.1e+02 Score=22.41 Aligned_cols=26 Identities=23% Similarity=0.261 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhh
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSG 121 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~ 121 (397)
+.+|..||.+.++..||+.|.+.+.+
T Consensus 7 aeirl~~arLrqeH~D~DaaInAmi~ 32 (67)
T COG5481 7 AEIRLTLARLRQEHADFDAAINAMIA 32 (67)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 67999999999999999999988876
No 328
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=25.51 E-value=3.4e+02 Score=21.49 Aligned_cols=45 Identities=11% Similarity=0.011 Sum_probs=38.5
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHF 360 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f 360 (397)
|+-||...+++.+++...-+-..|..+-..|.|.-. .+..+...|
T Consensus 39 ~K~ITps~lserlkI~~SlAr~~Lr~L~~kG~Ik~V-~~~~~q~IY 83 (86)
T PRK09334 39 EKIVTPYTLASKYGIKISVAKKVLRELEKRGVLVLY-SKNRRTPIY 83 (86)
T ss_pred CcEEcHHHHHHHhcchHHHHHHHHHHHHHCCCEEEE-ecCCCeEEe
Confidence 999999999999999999999999999999999765 455554433
No 329
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.44 E-value=4.2e+02 Score=28.58 Aligned_cols=108 Identities=16% Similarity=0.028 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCC-CCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC--cchH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGM-RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS--SQQE 173 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~-~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~--~~~~ 173 (397)
.+-...|.+...+|+|+.|+++|.... ++-- ...+..++=.+.-.+.-+|...+|...|...+..|..-.-. .+-.
T Consensus 377 ~v~L~~aQl~is~gn~~~A~~il~~~~-~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~ 455 (652)
T KOG2376|consen 377 VVLLLRAQLKISQGNPEVALEILSLFL-ESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSI 455 (652)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHh-hhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccch
Confidence 355667888999999999999999655 3310 11233345566677778888888888888888887654321 1223
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 174 ~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.+...+...-+ +....|+=.+|.+.+-++...
T Consensus 456 ~l~~~~~~aa~-f~lr~G~~~ea~s~leel~k~ 487 (652)
T KOG2376|consen 456 ALLSLMREAAE-FKLRHGNEEEASSLLEELVKF 487 (652)
T ss_pred HHHhHHHHHhH-HHHhcCchHHHHHHHHHHHHh
Confidence 44443333333 233338889999999999985
No 330
>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=25.35 E-value=1.5e+02 Score=23.23 Aligned_cols=49 Identities=14% Similarity=0.173 Sum_probs=38.0
Q ss_pred hhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE-EEEC
Q 015984 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV-IHFE 361 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi-V~f~ 361 (397)
+.|.=|.++-|.+..|++..+++..+.+++..|.+.-+.-.-+|. ++|.
T Consensus 20 k~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~~kLv~~~~~~Y~GYrLT~~ 69 (82)
T PF09202_consen 20 KNHEWVPLELIEKISGLSEGEVEKRLKRLVKLKLVSRRNKPYDGYRLTFL 69 (82)
T ss_dssp TT-SSEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE-SSS-EEEE-HH
T ss_pred cCCccCCHHHHHHHhCcCHHHHHHHHHHHHhcCCccccCCCcceEEEeec
Confidence 458999999999999999999999999999999998866666786 6664
No 331
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=25.32 E-value=3.4e+02 Score=26.58 Aligned_cols=61 Identities=18% Similarity=0.123 Sum_probs=48.2
Q ss_pred HHHHHhhhcHHHHHHHHhh-chhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhccccc
Q 015984 103 ADLYESEQQWSKAAQMLSG-IDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (397)
Q Consensus 103 a~~~e~~~d~~~Aa~~L~~-i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~ 168 (397)
|.-..+.|..++|...|++ ++ +.-+.+.+.-..|..+|+|...|-+.-|...+......+.
T Consensus 220 A~~l~~~~gl~~Al~~L~~~~~-----~~~s~R~rf~~rL~~A~l~~~~g~~~lA~~ll~~L~~~~~ 281 (301)
T TIGR03362 220 ARALAAEGGLEAALQRLQQRLA-----QAREPRERFHWRLLLARLLEQAGKAELAQQLYAALDQQIQ 281 (301)
T ss_pred HHHHHHcCCHHHHHHHHHhhcc-----cCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 4455678899999999997 34 2346778888889999999999999999988888655553
No 332
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=25.30 E-value=2e+02 Score=30.41 Aligned_cols=64 Identities=16% Similarity=0.121 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhc
Q 015984 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKAS 164 (397)
Q Consensus 96 ~~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~ 164 (397)
..++.+||...-+.|..+||.+++.++..|- . ..+. +-+.-..+..+|+.+.+..++..+.|=.
T Consensus 259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~--p-~~~~--l~IrenLie~LLelq~Yad~q~lL~kYd 322 (539)
T PF04184_consen 259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEF--P-NLDN--LNIRENLIEALLELQAYADVQALLAKYD 322 (539)
T ss_pred hhhHHHHHHHHHHhCChHHHHHHHHHHHhhC--C-ccch--hhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence 4678889999999999999999999998774 1 2222 2233334556788899999988888843
No 333
>KOG3470 consensus Beta-tubulin folding cofactor A [Posttranslational modification, protein turnover, chaperones]
Probab=25.18 E-value=1.3e+02 Score=24.72 Aligned_cols=52 Identities=17% Similarity=0.153 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHhhccccchHHHHHHHHHHHHHH--HHHhhhcHHHHHHHHhhch
Q 015984 72 TQKEIANYTLAQIQPRVVSFEEQVLIIREKLAD--LYESEQQWSKAAQMLSGID 123 (397)
Q Consensus 72 ~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~--~~e~~~d~~~Aa~~L~~i~ 123 (397)
.|.+|..++...+-....-++.....|+..|++ .+|...++..|...|..+.
T Consensus 51 kQeeVl~et~~mlPD~~~RL~~a~~DLe~~l~~~~~~ee~~e~~~A~~~l~~~k 104 (107)
T KOG3470|consen 51 KQEEVLKETRMMLPDSQRRLRKAYEDLESILADEQYLEETPELKSANTYLDSAK 104 (107)
T ss_pred HHHHHHHHHHHHChHHHHHHHHHHHHHHHHHhcccchhccHHHHHHHHHHHHHH
Confidence 478888888888877777788888889999998 8888889999998887754
No 334
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=25.14 E-value=1.4e+02 Score=28.26 Aligned_cols=42 Identities=19% Similarity=0.225 Sum_probs=35.5
Q ss_pred HHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 308 l~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
|+.+-+--..|++++|+++||+|+.-+-+-|..+=.+|.+..
T Consensus 10 Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~R 51 (253)
T COG1349 10 ILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLLR 51 (253)
T ss_pred HHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEEE
Confidence 333444468999999999999999999999999999998854
No 335
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.97 E-value=1.2e+02 Score=20.21 Aligned_cols=39 Identities=15% Similarity=0.200 Sum_probs=27.7
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
+++++|+++|+++..+.. .+..|.+.+.-+. +|.-.|+.
T Consensus 2 ~~~e~a~~~gv~~~tlr~----~~~~g~l~~~~~~-~~~~~y~~ 40 (49)
T cd04761 2 TIGELAKLTGVSPSTLRY----YERIGLLSPARTE-GGYRLYSD 40 (49)
T ss_pred cHHHHHHHHCcCHHHHHH----HHHCCCCCCCcCC-CCCEEeCH
Confidence 678999999999987664 4778887754333 35566654
No 336
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=24.89 E-value=1.1e+03 Score=27.10 Aligned_cols=94 Identities=20% Similarity=0.190 Sum_probs=63.8
Q ss_pred HHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHH
Q 015984 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKV 181 (397)
Q Consensus 102 La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~ 181 (397)
|=..|-..|+|+.|..+..+++|- ....++-...+|.|..-+..|.+++.....|++......+..+ .|+.
T Consensus 713 LL~sy~~~g~~erA~glwnK~QV~------k~~~~l~~LAsIlr~~n~evdvPe~q~e~ekas~~~~~f~ttt---~~~~ 783 (1088)
T KOG4318|consen 713 LLQSYLEEGRIERASGLWNKDQVS------KSPMKLFHLASILRRMNEEVDVPEIQAETEKASELRTLFPTTT---CYYE 783 (1088)
T ss_pred HHHHHHhhhHHHHHHhHHhhCcCC------cchHHHHHHHHHHHhhchhccchhHHHHHHHHHhcccccccch---Hhhh
Confidence 667888999999999999998842 3346788889999999999999999999988876554321111 1222
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 182 CYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 182 ~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
-+| ...-+.++++||..-++-..
T Consensus 784 ~~a-~~a~q~~qkkaAkk~f~r~e 806 (1088)
T KOG4318|consen 784 GYA-FFATQTEQKKAAKKCFERLE 806 (1088)
T ss_pred hhH-HHHhhHHHHHHHHHHHHHHH
Confidence 222 22455667765554444333
No 337
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=24.76 E-value=97 Score=25.13 Aligned_cols=44 Identities=14% Similarity=0.310 Sum_probs=38.1
Q ss_pred HHHHHhhcCC-CHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHhC
Q 015984 23 HILSSVISSN-DIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELG 66 (397)
Q Consensus 23 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~ 66 (397)
.++++++... ..++|..=|+++-.+++-+-.-.|+|..+|+.|-
T Consensus 60 RlItQVLELQnTLdDLSqRVdsVKEEnLKLrSENQVLGQYIeNLM 104 (120)
T KOG3650|consen 60 RLITQVLELQNTLDDLSQRVDSVKEENLKLRSENQVLGQYIENLM 104 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHH
Confidence 4778887755 4799999999999999999999999999999873
No 338
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=24.45 E-value=1.6e+02 Score=27.86 Aligned_cols=41 Identities=17% Similarity=0.245 Sum_probs=34.7
Q ss_pred HHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 308 l~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
|+.+-+-...++..+|++.|++|.+-+-+.+..+-.+|.+.
T Consensus 10 Il~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~ 50 (252)
T PRK10906 10 IIELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKIL 50 (252)
T ss_pred HHHHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 33344456889999999999999999999999999999873
No 339
>PF14493 HTH_40: Helix-turn-helix domain
Probab=23.71 E-value=1.1e+02 Score=23.95 Aligned_cols=31 Identities=16% Similarity=0.255 Sum_probs=29.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCc
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDR 346 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~gr 346 (397)
...|+++||+.-|+++.-++..+++++..|.
T Consensus 12 ~G~si~eIA~~R~L~~sTI~~HL~~~~~~g~ 42 (91)
T PF14493_consen 12 KGLSIEEIAKIRGLKESTIYGHLAELIESGE 42 (91)
T ss_pred cCCCHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence 5789999999999999999999999999997
No 340
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=23.50 E-value=1.2e+02 Score=33.71 Aligned_cols=83 Identities=16% Similarity=0.289 Sum_probs=62.7
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHH--HHH-HHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhc
Q 015984 74 KEIANYTLAQIQPRVVSFEEQVLIIR--EKL-ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED 150 (397)
Q Consensus 74 ~~~~~~~l~~~~~~~~~~e~q~~~l~--~~L-a~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~ 150 (397)
+.+-.+.+.|||.-..-|+-|--|.- -.+ ..++-..+||..|.++-.. + ......+++.-|+|=.++.
T Consensus 1022 iklntynitwcqavpsrfd~e~ir~gnkpe~av~mfi~dndwa~aervae~-h--------~~~~l~dv~tgqar~aiee 1092 (1636)
T KOG3616|consen 1022 IKLNTYNITWCQAVPSRFDAEFIRAGNKPEEAVEMFIHDNDWAAAERVAEA-H--------CEDLLADVLTGQARGAIEE 1092 (1636)
T ss_pred hhcccccchhhhcccchhhHHHHHcCCChHHHHHHhhhcccHHHHHHHHHh-h--------ChhhhHHHHhhhhhccccc
Confidence 44556678999988888998855543 123 3667788999988876333 2 3446778999999999999
Q ss_pred CChHHHHHHHHHhcc
Q 015984 151 DDAVNAEAFINKASF 165 (397)
Q Consensus 151 ~d~~~A~~~l~ka~~ 165 (397)
+|+.+|+.++-+++.
T Consensus 1093 ~d~~kae~fllrank 1107 (1636)
T KOG3616|consen 1093 GDFLKAEGFLLRANK 1107 (1636)
T ss_pred cchhhhhhheeecCC
Confidence 999999999988764
No 341
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=23.50 E-value=2.8e+02 Score=21.80 Aligned_cols=37 Identities=16% Similarity=0.213 Sum_probs=35.3
Q ss_pred HHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 321 EELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 321 ~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
..||+.+++++.-+-..+-+|...|-+.=..|..++-
T Consensus 40 ~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~DrR 76 (126)
T COG1846 40 KELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDRR 76 (126)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCccccc
Confidence 9999999999999999999999999999999999873
No 342
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=23.36 E-value=1.1e+02 Score=27.98 Aligned_cols=32 Identities=13% Similarity=0.346 Sum_probs=29.3
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 317 ~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
.+|-++||+.+|++.+-+=+.+.+|-.+|.|.
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~ 215 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLA 215 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEE
Confidence 47788999999999999999999999999876
No 343
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=23.34 E-value=2.1e+02 Score=28.75 Aligned_cols=59 Identities=19% Similarity=0.122 Sum_probs=43.6
Q ss_pred HHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcc
Q 015984 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF 165 (397)
Q Consensus 100 ~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~ 165 (397)
..|++.|....+...|..++.+- +|+ -..-+.+.+.++|++-+.++...|-.+++.+..
T Consensus 260 llLskvY~ridQP~~AL~~~~~g-ld~------fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk 318 (478)
T KOG1129|consen 260 LLLSKVYQRIDQPERALLVIGEG-LDS------FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLK 318 (478)
T ss_pred HHHHHHHHHhccHHHHHHHHhhh-hhc------CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHh
Confidence 45677777777777777766552 232 124577889999999999999999999988644
No 344
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=23.21 E-value=4e+02 Score=21.41 Aligned_cols=42 Identities=10% Similarity=0.086 Sum_probs=38.1
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 357 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~gi 357 (397)
..++..+||..+++++.-+=..+.+|...|-|.=.-|..|+-
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R 83 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDER 83 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCC
Confidence 459999999999999999999999999999998777777763
No 345
>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=23.14 E-value=6e+02 Score=23.48 Aligned_cols=74 Identities=18% Similarity=0.293 Sum_probs=55.8
Q ss_pred HHHHHHHHHHhcCCcchhhhHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHhhhcHH
Q 015984 35 VQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPR-VVSFEEQVLIIREKLADLYESEQQWS 113 (397)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~-~~~~e~q~~~l~~~La~~~e~~~d~~ 113 (397)
+.++.|+.. +.-|.+-+-.+...+.....+-+++..+.+...+|+...++ .+. ..+-..||.+|...|+++
T Consensus 124 ~A~~~fL~~---E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n-----~eil~sLas~~~~~~~~e 195 (203)
T PF11207_consen 124 EALRRFLQL---EGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFN-----PEILKSLASIYQKLKNYE 195 (203)
T ss_pred HHHHHHHHH---cCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCC-----HHHHHHHHHHHHHhcchh
Confidence 445555543 56666667777777777777788888899999999998888 554 245588999999999999
Q ss_pred HHH
Q 015984 114 KAA 116 (397)
Q Consensus 114 ~Aa 116 (397)
.|-
T Consensus 196 ~AY 198 (203)
T PF11207_consen 196 QAY 198 (203)
T ss_pred hhh
Confidence 874
No 346
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=23.12 E-value=7.7e+02 Score=26.85 Aligned_cols=106 Identities=13% Similarity=0.097 Sum_probs=74.0
Q ss_pred HHHHHHHHHHHHHHh--hhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccC-c
Q 015984 94 QVLIIREKLADLYES--EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS-S 170 (397)
Q Consensus 94 q~~~l~~~La~~~e~--~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~-~ 170 (397)
.+-.+...+|+.|.. .-++.+|...++.++-.- .... =+.....|.|++..||.+|+.+.+.+..+-.. .
T Consensus 315 ~l~~llr~~~~~~~~~s~y~~~~A~~~~~klp~h~----~nt~---wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv 387 (638)
T KOG1126|consen 315 ELMELLRGLGEGYRSLSQYNCREALNLFEKLPSHH----YNTG---WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRV 387 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhc----CCch---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 344677778888774 557899999999966432 1222 35577789999999999999998887665421 1
Q ss_pred --------chHHHHHH-------------------HHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 171 --------QQEVLNLQ-------------------YKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 171 --------~~~~l~~~-------------------~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
.-|-++=. =..+.|-.|-.+|++..|-++|..+...
T Consensus 388 ~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl 450 (638)
T KOG1126|consen 388 KGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL 450 (638)
T ss_pred cchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc
Confidence 12322211 2356678888999999999999887753
No 347
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=23.11 E-value=1.7e+02 Score=22.47 Aligned_cols=32 Identities=19% Similarity=0.175 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 015984 176 NLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (397)
Q Consensus 176 ~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~~ 207 (397)
+..-..-.|.-.|..++|.+|..+|.+..+.+
T Consensus 5 ~Ai~~a~~Ave~D~~g~y~eA~~~Y~~aie~l 36 (76)
T cd02681 5 DAVQFARLAVQRDQEGRYSEAVFYYKEAAQLL 36 (76)
T ss_pred HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence 44555667788899999999999999998854
No 348
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=23.06 E-value=3.5e+02 Score=20.72 Aligned_cols=42 Identities=14% Similarity=0.111 Sum_probs=35.1
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCc
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 356 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~g 356 (397)
-..++|.+|.+.+|++..-+-..+..+...|-+..+-.-.++
T Consensus 12 ~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~ 53 (80)
T PF13601_consen 12 NEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGR 53 (80)
T ss_dssp HSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCC
Confidence 378999999999999999999999999999999887765555
No 349
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=22.99 E-value=1.5e+02 Score=27.97 Aligned_cols=41 Identities=17% Similarity=0.161 Sum_probs=31.9
Q ss_pred HHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcC
Q 015984 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFED 345 (397)
Q Consensus 305 EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~g 345 (397)
..-|+.+-+-...|+..+||+.||+|++-+-+-|..+=..+
T Consensus 9 ~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le~~~ 49 (252)
T PRK10681 9 IGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHSAPV 49 (252)
T ss_pred HHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhhcCe
Confidence 34455555668999999999999999998888888754333
No 350
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=22.77 E-value=8.4e+02 Score=24.99 Aligned_cols=97 Identities=15% Similarity=0.079 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHH
Q 015984 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (397)
Q Consensus 97 ~l~~~La~~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~ 176 (397)
.+-..||-.|.+.++|.+|...-.. .++. +.. -+.-..+.-+-|+..+++..|...+.|+...... +.+.+
T Consensus 258 ~~~lNlA~c~lKl~~~~~Ai~~c~k-vLe~-----~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~--Nka~~ 328 (397)
T KOG0543|consen 258 ACHLNLAACYLKLKEYKEAIESCNK-VLEL-----DPN-NVKALYRRGQALLALGEYDLARDDFQKALKLEPS--NKAAR 328 (397)
T ss_pred HHhhHHHHHHHhhhhHHHHHHHHHH-HHhc-----CCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC--cHHHH
Confidence 4456678888899999988776555 3343 111 1234568889999999999999999999887655 67777
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 177 ~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
..+..|.-++..+..+= ...|...|.
T Consensus 329 ~el~~l~~k~~~~~~ke---kk~y~~mF~ 354 (397)
T KOG0543|consen 329 AELIKLKQKIREYEEKE---KKMYANMFA 354 (397)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHhh
Confidence 77777775543333221 334455554
No 351
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=22.76 E-value=9.7e+02 Score=25.72 Aligned_cols=101 Identities=18% Similarity=0.261 Sum_probs=53.9
Q ss_pred HHHHHHHHhhcCCC---HHHHHHHHHHHhcCCcchhhhHHHHHHHHH--------HhCC-----CC---hHHHHHHHHHH
Q 015984 20 QYKHILSSVISSND---IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQ--------ELGR-----LE---PETQKEIANYT 80 (397)
Q Consensus 20 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~sr~~~~~~~~--------~l~~-----l~---~~~~~~~~~~~ 80 (397)
+|.++++....+.+ +.-|...|+.-++|. |+.|++..-+=. .+++ +| ....+++-+.+
T Consensus 101 al~el~q~y~en~n~~l~~lWer~ve~dfnDv---v~~ReLa~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL 177 (711)
T COG1747 101 ALLELLQCYKENGNEQLYSLWERLVEYDFNDV---VIGRELADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKL 177 (711)
T ss_pred HHHHHHHHHHhcCchhhHHHHHHHHHhcchhH---HHHHHHHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHH
Confidence 46667766666544 355777777777664 467755433221 1111 12 12234455555
Q ss_pred HHhhccccchHHHHHHHHHHHH------------HHHHHhhhcHHHHHHHHhhch
Q 015984 81 LAQIQPRVVSFEEQVLIIREKL------------ADLYESEQQWSKAAQMLSGID 123 (397)
Q Consensus 81 l~~~~~~~~~~e~q~~~l~~~L------------a~~~e~~~d~~~Aa~~L~~i~ 123 (397)
.+.+-..+=+|....-.+...+ -+.|....+|.+|.+++..|.
T Consensus 178 ~~~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~il 232 (711)
T COG1747 178 PELIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRILKHIL 232 (711)
T ss_pred HHhccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHHHHHHh
Confidence 5555445545554444444333 245556677777777777665
No 352
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=22.62 E-value=3.6e+02 Score=20.71 Aligned_cols=33 Identities=9% Similarity=0.149 Sum_probs=28.4
Q ss_pred HHHHHHHhCCChHHHHHHHHHhHhcCceEEEec
Q 015984 320 FEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (397)
Q Consensus 320 l~~La~ll~ls~~~~E~~ls~mI~~grl~gkID 352 (397)
+.+||+.+|+++.-+=..+.+|...|-|.-+-|
T Consensus 2 ~~ela~~l~is~stvs~~l~~L~~~glI~r~~~ 34 (96)
T smart00529 2 TSEIAERLNVSPPTVTQMLKKLEKDGLVEYEPY 34 (96)
T ss_pred HHHHHHHhCCChHHHHHHHHHHHHCCCEEEcCC
Confidence 568999999999999999999999987766443
No 353
>PHA02591 hypothetical protein; Provisional
Probab=22.57 E-value=95 Score=24.17 Aligned_cols=25 Identities=20% Similarity=0.477 Sum_probs=20.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASR 340 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~ 340 (397)
.-.|.+++|++||++.+.|-+++..
T Consensus 58 qGlSqeqIA~~LGVsqetVrKYL~~ 82 (83)
T PHA02591 58 KGFTVEKIASLLGVSVRKVRRYLES 82 (83)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHhc
Confidence 4568899999999999998887754
No 354
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=22.49 E-value=1.4e+02 Score=33.07 Aligned_cols=66 Identities=23% Similarity=0.213 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHhccccc------Ccc-------------hHHHHHHHHHHHHHHHHHHHhHHHHH
Q 015984 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVS------SSQ-------------QEVLNLQYKVCYARILDLKRKFLEAA 197 (397)
Q Consensus 137 le~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~------~~~-------------~~~l~~~~~~~~~~~~~~~r~f~~Aa 197 (397)
-.+|-+++.-|-..+|+..|+....++...-. +.+ -|+-....|...+.=++..++|-+|-
T Consensus 765 s~yy~~iadhyan~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eae 844 (1636)
T KOG3616|consen 765 SGYYGEIADHYANKGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAE 844 (1636)
T ss_pred cccchHHHHHhccchhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhh
Confidence 34667778888888888888888777543211 111 23444566777888888899999988
Q ss_pred HHHHH
Q 015984 198 LRYYD 202 (397)
Q Consensus 198 ~~y~e 202 (397)
+.|.-
T Consensus 845 qlyit 849 (1636)
T KOG3616|consen 845 QLYIT 849 (1636)
T ss_pred heeEE
Confidence 88743
No 355
>PF11873 DUF3393: Domain of unknown function (DUF3393); InterPro: IPR024570 Membrane-bound lytic murein transglycosylase C (also known as murein hydrolase C), is a murein-degrading enzyme that may play a role in the recycling of muropeptides during cell elongation and/or cell division. This entry represents the N-terminal domain, whose function is currently not known.
Probab=22.24 E-value=44 Score=30.90 Aligned_cols=67 Identities=16% Similarity=0.092 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHhcCCCCcchHHHHhhhhchhhccccchHHHHHHHHHhhcChhh-HHHHHHHhchhhhh
Q 015984 222 EQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPE-IDAFAEELKPHQKA 290 (397)
Q Consensus 222 ~~~L~~av~~~ILa~~~~~rs~ll~~l~~d~~~~~l~~~~~L~k~f~~~ii~~~~-l~~F~~~L~~h~~~ 290 (397)
...|+.||+.++|.|..|.-.++.+. ++.....-|.+.-...-...+-|+|+= ...|+.+|-.|...
T Consensus 110 ~~~Lk~AIv~TLL~~~Dp~~vDl~Sd--~~i~l~g~PFLygqVlD~~g~~I~~~wRA~ryAdYLi~n~Lq 177 (204)
T PF11873_consen 110 KAHLKQAIVTTLLTPDDPSSVDLFSD--KDIPLSGEPFLYGQVLDQDGQPIRWEWRANRYADYLIQNKLQ 177 (204)
T ss_pred HHHHHHHHHHHhcCCCCCccccCccC--CCCccCCCceehheeecCCCCeEeeHhHHHHHHHHHHHhhhh
Confidence 56899999999999999988887764 334444556554444444445566643 33788888776543
No 356
>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=21.99 E-value=5.6e+02 Score=22.72 Aligned_cols=73 Identities=8% Similarity=-0.038 Sum_probs=60.2
Q ss_pred CchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 015984 131 IDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 131 ~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
..+.+.-+.+...+..|...||...|-..+.++... +..+..++......+++....+||..+..+...+-..
T Consensus 30 ~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~---~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~ 102 (177)
T PF10602_consen 30 LGKESIRMALEDLADHYCKIGDLEEALKAYSRARDY---CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL 102 (177)
T ss_pred cchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhh---cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 345566677888999999999999999999997664 3467778888889999999999999988887777665
No 357
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=21.92 E-value=1.1e+03 Score=26.09 Aligned_cols=133 Identities=17% Similarity=0.181 Sum_probs=78.0
Q ss_pred hHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhhhcHHHHHHHHhh-----chhccCC
Q 015984 54 SRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSG-----IDLDSGM 128 (397)
Q Consensus 54 sr~~~~~~~~~l~~l~~~~~~~~~~~~l~~~~~~~~~~e~q~~~l~~~La~~~e~~~d~~~Aa~~L~~-----i~~et~~ 128 (397)
--.+.+..-+.+.+-+++..+.+...--+|...-+ +- ..-|+++-..|+..+|+.+..+ +..|-+
T Consensus 670 DlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~k----eP-----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~- 739 (1081)
T KOG1538|consen 670 DLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIK----EP-----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIA- 739 (1081)
T ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcC----Cc-----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHH-
Confidence 33444444455666667777888777778874332 11 2245667777777777766543 112221
Q ss_pred CCCchhH-----HHHHHH--------------------HHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHH
Q 015984 129 RVIDDTF-----RLSKCV--------------------QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCY 183 (397)
Q Consensus 129 ~~~~~~~-----kle~~L--------------------~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~ 183 (397)
+++|..+ ++..|+ .+++|+.+.++|+.|-....+ .|++.---|.-+
T Consensus 740 rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W~eAFalAe~---------hPe~~~dVy~py 810 (1081)
T KOG1538|consen 740 RKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRWDEAFALAEK---------HPEFKDDVYMPY 810 (1081)
T ss_pred hhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccchHhHhhhhh---------CccccccccchH
Confidence 2222221 121121 235555566666655544333 455555567788
Q ss_pred HHHHHHHHhHHHHHHHHHHHHH
Q 015984 184 ARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 184 ~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
|+.+....+|.||.+.|+.+-.
T Consensus 811 aqwLAE~DrFeEAqkAfhkAGr 832 (1081)
T KOG1538|consen 811 AQWLAENDRFEEAQKAFHKAGR 832 (1081)
T ss_pred HHHhhhhhhHHHHHHHHHHhcc
Confidence 9999999999999999987665
No 358
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=21.79 E-value=1.3e+02 Score=25.10 Aligned_cols=36 Identities=17% Similarity=0.178 Sum_probs=32.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEe
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 351 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkI 351 (397)
.-.|..++|..+++|..-+--++++|+..|.+...-
T Consensus 54 ~~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~~ 89 (114)
T PF05331_consen 54 RPLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVRA 89 (114)
T ss_pred CCccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEeC
Confidence 388999999999999999999999999999987654
No 359
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=21.70 E-value=1.3e+02 Score=26.50 Aligned_cols=38 Identities=29% Similarity=0.456 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhc
Q 015984 303 MIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFE 344 (397)
Q Consensus 303 v~EhNl~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~ 344 (397)
++|--|.+..+| |+.+.|++.++ ++++++..+.++..+
T Consensus 2 ~iEAlLF~s~~p---vs~~~La~~l~-~~~~v~~~l~~L~~~ 39 (159)
T PF04079_consen 2 IIEALLFASGEP---VSIEELAEILG-SEDEVEEALEELQEE 39 (159)
T ss_dssp HHHHHHHH-SS----B-HHHHHHHCT--HHHHHHHHHHHHHH
T ss_pred hhHhhHHHcCCC---CCHHHHHHHhC-CHHHHHHHHHHHHHH
Confidence 445555454455 99999999999 999999988888764
No 360
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=21.54 E-value=2.2e+02 Score=19.15 Aligned_cols=22 Identities=18% Similarity=0.339 Sum_probs=18.9
Q ss_pred hhccccCHHHHHHHhCCChHHH
Q 015984 313 KLYTNISFEELGTLLGIAPQKA 334 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~ 334 (397)
+.|..+|+..+|+..|++..-+
T Consensus 12 ~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 12 KGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHTTTSSHHHHHHHHTSCHHHH
T ss_pred hCHHhCCHHHHHHHHccchhhH
Confidence 3599999999999999997644
No 361
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=21.52 E-value=1.6e+02 Score=25.07 Aligned_cols=29 Identities=17% Similarity=0.120 Sum_probs=25.8
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
+|...|.++||+.+|+|+.-|...+.+..
T Consensus 119 ~~~g~s~~EIA~~lgis~~tV~~~l~Rar 147 (160)
T PRK09642 119 YLEEKSYQEIALQEKIEVKTVEMKLYRAR 147 (160)
T ss_pred HHhCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 68999999999999999999988887653
No 362
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=21.38 E-value=9.7e+02 Score=25.24 Aligned_cols=66 Identities=9% Similarity=0.009 Sum_probs=48.3
Q ss_pred chhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 015984 132 DDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (397)
Q Consensus 132 ~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y~e~~~ 205 (397)
.+.+ +.-+|.-+......||+.++..|..=....... ..-+...|..++..++|.+|..++.++..
T Consensus 458 ~e~e-ian~LaDAEyLysqgey~kc~~ys~WL~~iaPS-------~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~ 523 (549)
T PF07079_consen 458 SEEE-IANFLADAEYLYSQGEYHKCYLYSSWLTKIAPS-------PQAYRLLGLCLMENKRYQEAWEYLQKLPP 523 (549)
T ss_pred cHHH-HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCc-------HHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence 3444 677799999999999999998765443332221 12345678888999999999999988776
No 363
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=21.37 E-value=1.9e+02 Score=20.79 Aligned_cols=39 Identities=15% Similarity=0.253 Sum_probs=27.4
Q ss_pred CHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 319 sl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
|+.++|+++|+|+..+-.. ...|.+...- ..+|.-.|+.
T Consensus 2 ti~eva~~~gvs~~tlr~y----~~~gll~~~~-~~~g~r~y~~ 40 (69)
T PF13411_consen 2 TIKEVAKLLGVSPSTLRYY----EREGLLPPPR-DENGYRYYSE 40 (69)
T ss_dssp EHHHHHHHTTTTHHHHHHH----HHTTSSTTBE-STTSSEEE-H
T ss_pred cHHHHHHHHCcCHHHHHHH----HHhcCccccc-ccCceeeccH
Confidence 6789999999999877655 4556665555 4566677765
No 364
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=21.34 E-value=3.8e+02 Score=23.14 Aligned_cols=34 Identities=18% Similarity=0.106 Sum_probs=29.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhHhcCceEE
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~g 349 (397)
.--|+.++|++.|=.+..+-..++.|+.-|.|.=
T Consensus 77 ~P~Si~ElAe~vgRdv~nvhr~Ls~l~~~GlI~f 110 (144)
T COG4190 77 EPASINELAELVGRDVKNVHRTLSTLADLGLIFF 110 (144)
T ss_pred CcccHHHHHHHhCcchHHHHHHHHHHHhcCeEEE
Confidence 4567899999999999999999999999887743
No 365
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=21.21 E-value=1.6e+02 Score=21.51 Aligned_cols=34 Identities=15% Similarity=0.313 Sum_probs=28.1
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
+-+.|+.+|.+..++|+.++-+-++-||.-|-+.
T Consensus 25 ~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 25 RGRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp C-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEE
T ss_pred cCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCee
Confidence 6889999999999999999999999999887654
No 366
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=21.12 E-value=8.9e+02 Score=24.67 Aligned_cols=66 Identities=11% Similarity=0.041 Sum_probs=40.2
Q ss_pred HHHHHHHHHhhhcHHHHHHHHhhchh-ccC----CCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhc
Q 015984 99 REKLADLYESEQQWSKAAQMLSGIDL-DSG----MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKAS 164 (397)
Q Consensus 99 ~~~La~~~e~~~d~~~Aa~~L~~i~~-et~----~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~ 164 (397)
-.+.+++++..||.+++.+.+.+-.. +.. +..+-.-.|+.-.|+-|.=..+.++|..+-..-.+.-
T Consensus 226 ~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vl 296 (504)
T KOG0624|consen 226 HYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVL 296 (504)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence 35667777777777777766655321 100 1111111256666777888889999988877666643
No 367
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=21.08 E-value=3.9e+02 Score=20.71 Aligned_cols=46 Identities=15% Similarity=0.223 Sum_probs=38.2
Q ss_pred cccCHHHHHHHh-CCChHHHHHHHHHhHhcCceEEEeccCCc-EEEEC
Q 015984 316 TNISFEELGTLL-GIAPQKAEKIASRMIFEDRMRGSIDQVEA-VIHFE 361 (397)
Q Consensus 316 ~~Isl~~La~ll-~ls~~~~E~~ls~mI~~grl~gkIDQv~g-iV~f~ 361 (397)
...+|.+|.+.+ |+|+.-+-.-|..|...|-+.-.++.... -+.|.
T Consensus 17 g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~ 64 (90)
T PF01638_consen 17 GPMRFSELQRRLPGISPKVLSQRLKELEEAGLVERRVYPEVPPRVEYS 64 (90)
T ss_dssp SSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEE
T ss_pred CCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhcccccCCCCCCccC
Confidence 688999999999 99999999999999999999888775544 36664
No 368
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=20.99 E-value=3e+02 Score=25.07 Aligned_cols=49 Identities=8% Similarity=0.149 Sum_probs=36.1
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECCcchHHHHHH
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWD 371 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~~~~~l~~w~ 371 (397)
.+-..||+.+|++++-+=+.+.+|-.+|.|.- ..+.|+.-+. +.|..+.
T Consensus 170 ~t~~~lA~~lG~sretvsR~L~~L~~~G~I~~----~~~~i~I~d~-~~L~~~~ 218 (226)
T PRK10402 170 EKHTQAAEYLGVSYRHLLYVLAQFIQDGYLKK----SKRGYLIKNR-KQLSGLA 218 (226)
T ss_pred chHHHHHHHHCCcHHHHHHHHHHHHHCCCEEe----eCCEEEEeCH-HHHHHHH
Confidence 47799999999999999999999999998854 2334444332 4554443
No 369
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=20.96 E-value=1.7e+02 Score=27.36 Aligned_cols=37 Identities=22% Similarity=0.224 Sum_probs=34.3
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEe
Q 015984 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 351 (397)
Q Consensus 315 Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkI 351 (397)
=.-+|..+||+.||+|+..|-..+-.++.+|.+....
T Consensus 23 ~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~~ 59 (218)
T COG2345 23 SGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVER 59 (218)
T ss_pred cCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeeee
Confidence 4778999999999999999999999999999998883
No 370
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=20.95 E-value=5.4e+02 Score=25.30 Aligned_cols=89 Identities=12% Similarity=-0.046 Sum_probs=59.4
Q ss_pred HHHhhhcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHH
Q 015984 105 LYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYA 184 (397)
Q Consensus 105 ~~e~~~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~ 184 (397)
=..+.++|.+|...+..--. +++.. .-+|.--+..|...+.+..|-.-..+|...- |. --+-|.-+|
T Consensus 90 ~~m~~~~Y~eAv~kY~~AI~------l~P~n-AVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-----p~-yskay~RLG 156 (304)
T KOG0553|consen 90 KLMKNKDYQEAVDKYTEAIE------LDPTN-AVYYCNRAAAYSKLGEYEDAVKDCESALSID-----PH-YSKAYGRLG 156 (304)
T ss_pred HHHHhhhHHHHHHHHHHHHh------cCCCc-chHHHHHHHHHHHhcchHHHHHHHHHHHhcC-----hH-HHHHHHHHH
Confidence 34456677777766654221 12222 1255666788888998888877777765442 21 123456678
Q ss_pred HHHHHHHhHHHHHHHHHHHHHh
Q 015984 185 RILDLKRKFLEAALRYYDISQI 206 (397)
Q Consensus 185 ~~~~~~r~f~~Aa~~y~e~~~~ 206 (397)
+.|...++|.+|...|-.++..
T Consensus 157 ~A~~~~gk~~~A~~aykKaLel 178 (304)
T KOG0553|consen 157 LAYLALGKYEEAIEAYKKALEL 178 (304)
T ss_pred HHHHccCcHHHHHHHHHhhhcc
Confidence 8899999999999999888885
No 371
>smart00777 Mad3_BUB1_I Mad3/BUB1 hoMad3/BUB1 homology region 1. Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of the binding of BUB1 and MAD3 to CDC20p.
Probab=20.90 E-value=5.2e+02 Score=21.86 Aligned_cols=101 Identities=16% Similarity=0.178 Sum_probs=60.3
Q ss_pred HHHHHHHHHhhcCCCH-HHHHHHHHHHhcCCcch----hhhHHHHHHHHHHhCCCC---hH-HHHHHHHHHHHhhcc-cc
Q 015984 19 EQYKHILSSVISSNDI-VQAKKFIDHMLSDDVPL----VVSRQLLQTFAQELGRLE---PE-TQKEIANYTLAQIQP-RV 88 (397)
Q Consensus 19 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~----~~sr~~~~~~~~~l~~l~---~~-~~~~~~~~~l~~~~~-~~ 88 (397)
..|..-|.++=++.|| +.+-.+|.-+.+. -|. --=.++|...+..+...+ .| --..++...++.+.+ +.
T Consensus 6 ~~~e~~i~~~~~~dDPL~~w~~yI~W~~~~-~p~g~~~s~L~~lLerc~~~f~~~~~YknD~RyLkiWi~ya~~~~dp~~ 84 (125)
T smart00777 6 QAFEQELQDLYEGDDPLDLWLRYIKWTEEN-YPQGGKESGLLTLLERCIRYFEDDERYKNDPRYLKIWLKYADNCDEPRE 84 (125)
T ss_pred HHHHHHHHhcccCCCChHHHHHHHHHHHHh-CCCCCchhhHHHHHHHHHHHhhhhhhhcCCHHHHHHHHHHHHhcCCHHH
Confidence 4566656544445554 7777777776532 221 111345555666665543 33 346777777776643 22
Q ss_pred ch-H------HHHHHHHHHHHHHHHHhhhcHHHHHHHHh
Q 015984 89 VS-F------EEQVLIIREKLADLYESEQQWSKAAQMLS 120 (397)
Q Consensus 89 ~~-~------e~q~~~l~~~La~~~e~~~d~~~Aa~~L~ 120 (397)
++ | -.+.|-+....|.++|..|+|.+|.++++
T Consensus 85 if~~L~~~~IG~~~AlfYe~~A~~lE~~g~~~~A~~iy~ 123 (125)
T smart00777 85 LFQFLYSKGIGTKLALFYEEWAQLLEAAGRYKKADEVYQ 123 (125)
T ss_pred HHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 21 1 24556777778888889999999999875
No 372
>PRK12798 chemotaxis protein; Reviewed
Probab=20.87 E-value=1.9e+02 Score=29.74 Aligned_cols=69 Identities=16% Similarity=0.018 Sum_probs=50.1
Q ss_pred CCchhHHHHHHHHHHHHHhhcCChHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 015984 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRY 200 (397)
Q Consensus 130 ~~~~~~kle~~L~i~Rl~L~~~d~~~A~~~l~ka~~~~~~~~~~~l~~~~~~~~~~~~~~~r~f~~Aa~~y 200 (397)
.|++..+.++||+++|-.+..|....|.....|+..+....+...-+..+|... .....-++.+|....
T Consensus 250 ~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~A~~L~~~~~~~~~ra~LY~aa--a~v~s~~~~~al~~L 318 (421)
T PRK12798 250 FMDPERQRELYLRIARAALIDGKTELARFASERALKLADPDSADAARARLYRGA--ALVASDDAESALEEL 318 (421)
T ss_pred hcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHhccCCCcchHHHHHHHHH--HccCcccHHHHHHHH
Confidence 568888899999999999999999999999999998875544344445555444 334444565554443
No 373
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=20.85 E-value=4.8e+02 Score=27.92 Aligned_cols=105 Identities=17% Similarity=0.052 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHHHHHhh-hcHHHHHHHHhhchhccCCCCCchhHHHHHHHHHH-HHHhhcCChHHHHHHHHHhcccccCc
Q 015984 93 EQVLIIREKLADLYESE-QQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIA-RLYLEDDDAVNAEAFINKASFLVSSS 170 (397)
Q Consensus 93 ~q~~~l~~~La~~~e~~-~d~~~Aa~~L~~i~~et~~~~~~~~~kle~~L~i~-Rl~L~~~d~~~A~~~l~ka~~~~~~~ 170 (397)
+|-+.+++--+++=+-. .|.+.-..++..|+...|+ -+.++..+.+ .-|-+..||..|-.++.-+...-.+
T Consensus 165 ~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~------~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~k- 237 (711)
T COG1747 165 RQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGE------GRGSVLMQDVYKKYSENENWTEAIRILKHILEHDEK- 237 (711)
T ss_pred hhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhcc------chHHHHHHHHHHHhccccCHHHHHHHHHHHhhhcch-
Confidence 57777777777776633 3788788888887654432 3566777777 6677888899888888765543322
Q ss_pred chHHHHHHHHHHHHH---------------HHHHHHhHHHHHHHHHHHH
Q 015984 171 QQEVLNLQYKVCYAR---------------ILDLKRKFLEAALRYYDIS 204 (397)
Q Consensus 171 ~~~~l~~~~~~~~~~---------------~~~~~r~f~~Aa~~y~e~~ 204 (397)
+.|..+......--+ +-...|+|.+|...|--..
T Consensus 238 ~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~~~l~dFek~m 286 (711)
T COG1747 238 DVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFFEALNDFEKLM 286 (711)
T ss_pred hhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHHHHHHHHHHHh
Confidence 344444333333332 2233678888888775544
No 374
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=20.70 E-value=1.5e+02 Score=27.36 Aligned_cols=29 Identities=10% Similarity=0.252 Sum_probs=25.8
Q ss_pred hhccccCHHHHHHHhCCChHHHHHHHHHh
Q 015984 313 KLYTNISFEELGTLLGIAPQKAEKIASRM 341 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~E~~ls~m 341 (397)
.+|...+.++||+.||+|+.-|...+++.
T Consensus 146 ~y~eg~s~~EIAe~LgiS~~tVk~~L~RA 174 (216)
T PRK12533 146 RELEDMSYREIAAIADVPVGTVMSRLARA 174 (216)
T ss_pred HHhcCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 36899999999999999999999888754
No 375
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=20.64 E-value=1.6e+02 Score=24.83 Aligned_cols=29 Identities=7% Similarity=0.122 Sum_probs=26.3
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
+|...|.++||+.+|+|+.-|...+.+..
T Consensus 119 ~~~~~s~~EIA~~l~is~~tV~~~~~ra~ 147 (154)
T PRK06759 119 FFVGKTMGEIALETEMTYYQVRWIYRQAL 147 (154)
T ss_pred HhcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 68999999999999999999999888754
No 376
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.64 E-value=3.3e+02 Score=21.05 Aligned_cols=39 Identities=23% Similarity=0.324 Sum_probs=30.4
Q ss_pred cCHHHHHHHhCCChHHHHHHHHHhHhcCceEEEeccCCcEEEECC
Q 015984 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 362 (397)
Q Consensus 318 Isl~~La~ll~ls~~~~E~~ls~mI~~grl~gkIDQv~giV~f~~ 362 (397)
||+++++...|++++.+. .++..|-+....+. +.-.|..
T Consensus 1 is~~e~~~~~~i~~~~l~----~lve~Gli~p~~~~--~~~~f~~ 39 (84)
T PF13591_consen 1 ISLEEFCEACGIEPEFLR----ELVEEGLIEPEGEE--EEWYFSE 39 (84)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCeeecCCC--CeeeECH
Confidence 789999999999998654 78889999887666 3334765
No 377
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=20.61 E-value=1.8e+02 Score=25.60 Aligned_cols=30 Identities=17% Similarity=0.180 Sum_probs=26.7
Q ss_pred hhccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 313 KLYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
.+|...+.++||+.+|+|+.-|...+.+..
T Consensus 145 ~~~~~~s~~eIA~~lgis~~tV~~~l~ra~ 174 (182)
T PRK12537 145 AYVDGCSHAEIAQRLGAPLGTVKAWIKRSL 174 (182)
T ss_pred HHHcCCCHHHHHHHHCCChhhHHHHHHHHH
Confidence 368999999999999999999999888765
No 378
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=20.50 E-value=2.2e+02 Score=27.29 Aligned_cols=40 Identities=8% Similarity=0.101 Sum_probs=33.9
Q ss_pred HHHHhhccccCHHHHHHHhCCChHHHHHHHHHhHhcCceE
Q 015984 309 LSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (397)
Q Consensus 309 ~~is~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI~~grl~ 348 (397)
+.+-+-...++..+||+.||+|..-+-+-+..|=.+|.+.
T Consensus 23 l~~L~~~~~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~ 62 (269)
T PRK09802 23 IQRLRQQGSVQVNDLSALYGVSTVTIRNDLAFLEKQGIAV 62 (269)
T ss_pred HHHHHHcCCEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeE
Confidence 3333445679999999999999999999999999998885
No 379
>PF08847 DUF1817: Domain of unknown function (DUF1817); InterPro: IPR014946 Members of this entry are functionally uncharacterised.
Probab=20.48 E-value=1.1e+02 Score=26.77 Aligned_cols=56 Identities=18% Similarity=0.360 Sum_probs=34.3
Q ss_pred hhHHHHHHHhchhhhhhCCCch----hhHHHHHHHHHHHHHHh------hccccCHHHHHHHhCCChH
Q 015984 275 PEIDAFAEELKPHQKALLPDNF----TVLDRAMIEHNLLSASK------LYTNISFEELGTLLGIAPQ 332 (397)
Q Consensus 275 ~~l~~F~~~L~~h~~~~~~d~~----~~L~~~v~EhNl~~is~------~Y~~Isl~~La~ll~ls~~ 332 (397)
+++..+...|-||| +-..+|. ..|. -.+-|++..+.. ..++=.+..||+.||...+
T Consensus 78 GeL~Ry~AMLVPHq-fs~~eGi~fnPEALE-ifvm~klf~L~~wl~~~~i~~~~~l~~MA~~lGyeld 143 (150)
T PF08847_consen 78 GELARYVAMLVPHQ-FSRKEGIQFNPEALE-IFVMHKLFVLDDWLKQQGIPSRSRLKSMAQMLGYELD 143 (150)
T ss_pred CcHHHHHHHhCccc-cccccCceeCHHHHH-HHHHHHHHHHHHHHHHcCCCchhhHHHHHHHhCCCcC
Confidence 78889999999997 4444542 1221 112233333222 3566689999999997543
No 380
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=20.33 E-value=2e+02 Score=25.26 Aligned_cols=29 Identities=14% Similarity=0.187 Sum_probs=25.9
Q ss_pred hccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 314 LYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 314 ~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
+|...|.++||+.+|+|+.-|...+.+.+
T Consensus 140 ~~~g~s~~EIA~~lgis~~tVk~~l~rAl 168 (178)
T PRK12529 140 TLDGMKQKDIAQALDIALPTVKKYIHQAY 168 (178)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 68999999999999999999998887654
No 381
>PRK04239 hypothetical protein; Provisional
Probab=20.29 E-value=61 Score=26.96 Aligned_cols=22 Identities=23% Similarity=0.447 Sum_probs=19.6
Q ss_pred hHHHHHHHHHhHhcCceEEEec
Q 015984 331 PQKAEKIASRMIFEDRMRGSID 352 (397)
Q Consensus 331 ~~~~E~~ls~mI~~grl~gkID 352 (397)
...||..|.+|...|+|.|+||
T Consensus 66 A~~VE~~liqlAq~G~i~~ki~ 87 (110)
T PRK04239 66 AEQVEQQLIQLAQSGRIQGPID 87 (110)
T ss_pred HHHHHHHHHHHHHcCCCCCCcC
Confidence 3588999999999999999985
No 382
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=20.28 E-value=2.2e+02 Score=18.44 Aligned_cols=27 Identities=26% Similarity=0.540 Sum_probs=23.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 316 TNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 316 ~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
...+...+|+.+|+|...+-..+.+..
T Consensus 25 ~~~~~~~ia~~~~~s~~~i~~~~~~~~ 51 (55)
T cd06171 25 EGLSYEEIAEILGISRSTVRQRLHRAL 51 (55)
T ss_pred cCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 889999999999999999888777654
No 383
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=20.27 E-value=1.8e+02 Score=25.88 Aligned_cols=30 Identities=13% Similarity=0.119 Sum_probs=26.6
Q ss_pred hhccccCHHHHHHHhCCChHHHHHHHHHhH
Q 015984 313 KLYTNISFEELGTLLGIAPQKAEKIASRMI 342 (397)
Q Consensus 313 ~~Y~~Isl~~La~ll~ls~~~~E~~ls~mI 342 (397)
.+|...++++||+.+|+|+.-+...+++..
T Consensus 143 ~~~~g~s~~EIA~~lgis~~tvk~rl~Rar 172 (188)
T TIGR02943 143 REVLGFESDEICQELEISTSNCHVLLYRAR 172 (188)
T ss_pred HHHhCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 368999999999999999999998887763
No 384
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=20.24 E-value=5.7e+02 Score=22.68 Aligned_cols=31 Identities=10% Similarity=-0.004 Sum_probs=29.1
Q ss_pred CHHHHHHHh--CCChHHHHHHHHHhHhcCceEE
Q 015984 319 SFEELGTLL--GIAPQKAEKIASRMIFEDRMRG 349 (397)
Q Consensus 319 sl~~La~ll--~ls~~~~E~~ls~mI~~grl~g 349 (397)
....||+.+ ++|+++|++-|..|..-|.|.=
T Consensus 41 d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k 73 (171)
T PF14394_consen 41 DPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKK 73 (171)
T ss_pred CHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEE
Confidence 888999999 9999999999999999999854
Done!