Query 018521
Match_columns 354
No_of_seqs 216 out of 446
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 09:42:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018521.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018521hhsearch_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 4.2E-81 9.2E-86 585.7 33.3 345 3-354 7-354 (399)
2 KOG1498 26S proteasome regulat 100.0 4.4E-61 9.6E-66 461.3 26.7 293 56-354 91-390 (439)
3 COG5071 RPN5 26S proteasome re 100.0 3.4E-52 7.3E-57 388.8 25.5 316 33-354 67-390 (439)
4 KOG0687 26S proteasome regulat 100.0 2.7E-28 5.8E-33 230.6 22.4 276 48-354 63-354 (393)
5 KOG1464 COP9 signalosome, subu 99.9 8.6E-24 1.9E-28 196.8 12.7 266 74-354 125-401 (440)
6 COG5187 RPN7 26S proteasome re 99.9 3.4E-22 7.3E-27 187.1 17.8 277 53-354 79-368 (412)
7 KOG1463 26S proteasome regulat 99.8 1.4E-18 3E-23 165.7 20.7 314 24-354 54-382 (411)
8 KOG2581 26S proteasome regulat 99.7 1.7E-14 3.8E-19 140.5 24.2 245 90-353 163-414 (493)
9 PF10602 RPN7: 26S proteasome 99.6 1.8E-14 3.9E-19 129.0 11.8 148 89-246 29-176 (177)
10 COG5159 RPN6 26S proteasome re 99.5 2.5E-12 5.3E-17 121.2 18.0 307 30-354 57-380 (421)
11 PF01399 PCI: PCI domain; Int 99.4 3E-13 6.5E-18 109.2 8.4 92 258-354 1-97 (105)
12 KOG0686 COP9 signalosome, subu 99.4 2.6E-11 5.6E-16 118.7 17.0 239 95-353 149-401 (466)
13 smart00088 PINT motif in prote 99.1 2.7E-10 5.8E-15 90.0 7.1 59 296-354 3-61 (88)
14 smart00753 PAM PCI/PINT associ 99.1 2.7E-10 5.8E-15 90.0 7.1 59 296-354 3-61 (88)
15 KOG2908 26S proteasome regulat 98.8 2.9E-06 6.3E-11 82.0 22.6 238 102-354 81-331 (380)
16 KOG2582 COP9 signalosome, subu 98.5 8.6E-06 1.9E-10 79.5 16.8 198 141-352 144-353 (422)
17 KOG2753 Uncharacterized conser 97.6 0.017 3.7E-07 56.2 21.0 203 135-354 122-331 (378)
18 PF10255 Paf67: RNA polymerase 97.1 0.022 4.7E-07 57.5 15.6 189 141-340 126-344 (404)
19 KOG2688 Transcription-associat 96.9 0.01 2.2E-07 59.3 11.1 195 139-353 165-375 (394)
20 PF14938 SNAP: Soluble NSF att 96.9 0.046 1E-06 52.2 15.4 152 137-297 114-270 (282)
21 PF09976 TPR_21: Tetratricopep 96.8 0.011 2.3E-07 50.6 9.9 96 97-203 49-144 (145)
22 PF14938 SNAP: Soluble NSF att 96.5 0.092 2E-06 50.1 14.9 220 93-319 32-264 (282)
23 KOG1076 Translation initiation 95.9 0.014 3.1E-07 61.5 5.9 59 296-354 693-755 (843)
24 KOG2758 Translation initiation 95.6 0.65 1.4E-05 45.5 15.6 43 311-353 343-385 (432)
25 TIGR02795 tol_pal_ybgF tol-pal 95.6 0.13 2.8E-06 41.0 9.5 104 98-208 4-107 (119)
26 COG5600 Transcription-associat 95.6 0.18 4E-06 50.0 12.0 222 110-351 144-392 (413)
27 KOG1840 Kinesin light chain [C 95.2 0.61 1.3E-05 48.6 15.0 153 50-208 198-356 (508)
28 PF10075 PCI_Csn8: COP9 signal 95.1 0.04 8.6E-07 47.4 5.1 71 271-341 50-121 (143)
29 cd00189 TPR Tetratricopeptide 95.0 0.37 8E-06 34.8 9.7 94 99-205 3-96 (100)
30 KOG2072 Translation initiation 94.8 5.2 0.00011 43.6 20.7 253 95-353 179-484 (988)
31 PF09976 TPR_21: Tetratricopep 94.8 2.2 4.7E-05 36.2 15.3 132 18-163 12-144 (145)
32 PF09012 FeoC: FeoC like trans 94.5 0.059 1.3E-06 40.5 4.2 39 311-349 8-46 (69)
33 PF13424 TPR_12: Tetratricopep 94.3 0.3 6.4E-06 36.7 7.7 70 137-206 5-75 (78)
34 PLN03218 maturation of RBCL 1; 93.8 9.6 0.00021 43.4 21.5 100 98-206 544-643 (1060)
35 TIGR02521 type_IV_pilW type IV 93.7 4.2 9.1E-05 35.3 15.7 167 18-206 31-198 (234)
36 KOG2076 RNA polymerase III tra 93.5 6.7 0.00014 43.1 18.5 147 98-268 175-327 (895)
37 PF04348 LppC: LppC putative l 93.1 0.027 5.9E-07 59.0 0.0 107 93-206 21-127 (536)
38 PRK11788 tetratricopeptide rep 92.7 7.4 0.00016 37.9 16.7 104 95-206 106-209 (389)
39 TIGR02521 type_IV_pilW type IV 92.5 0.97 2.1E-05 39.4 9.3 100 94-206 29-128 (234)
40 PRK02603 photosystem I assembl 92.5 1.6 3.5E-05 38.1 10.6 72 94-169 33-104 (172)
41 TIGR02552 LcrH_SycD type III s 92.5 1.2 2.7E-05 36.5 9.3 99 96-207 17-115 (135)
42 KOG1585 Protein required for f 92.2 9.9 0.00022 36.2 15.6 106 98-206 53-179 (308)
43 PRK11788 tetratricopeptide rep 92.0 12 0.00026 36.4 17.2 172 18-205 69-242 (389)
44 KOG2003 TPR repeat-containing 91.7 3 6.5E-05 42.8 12.4 162 36-229 539-701 (840)
45 PF13424 TPR_12: Tetratricopep 91.6 0.59 1.3E-05 35.0 5.9 71 95-167 4-76 (78)
46 TIGR03302 OM_YfiO outer membra 91.4 4.3 9.4E-05 36.8 12.5 112 90-208 27-146 (235)
47 KOG1840 Kinesin light chain [C 91.1 3.9 8.3E-05 42.7 13.0 146 60-207 246-397 (508)
48 COG2956 Predicted N-acetylgluc 91.1 15 0.00033 36.3 16.1 102 97-206 142-243 (389)
49 PF08784 RPA_C: Replication pr 90.8 0.35 7.6E-06 39.0 4.1 37 317-353 65-101 (102)
50 PF13432 TPR_16: Tetratricopep 90.7 0.93 2E-05 32.6 6.0 61 101-168 2-62 (65)
51 CHL00033 ycf3 photosystem I as 90.5 5.4 0.00012 34.5 11.7 111 93-207 32-143 (168)
52 PF14559 TPR_19: Tetratricopep 90.4 0.9 1.9E-05 32.9 5.7 56 107-169 2-57 (68)
53 COG3107 LppC Putative lipoprot 90.3 3.2 7E-05 43.2 11.3 117 78-205 48-164 (604)
54 PF13414 TPR_11: TPR repeat; P 90.0 1.5 3.3E-05 31.8 6.7 65 136-206 2-67 (69)
55 PF09295 ChAPs: ChAPs (Chs5p-A 88.9 5.8 0.00013 40.1 11.9 129 50-201 164-292 (395)
56 PF12895 Apc3: Anaphase-promot 88.8 1.4 3E-05 33.7 5.9 83 108-202 1-83 (84)
57 PF13414 TPR_11: TPR repeat; P 88.4 0.85 1.9E-05 33.1 4.3 65 95-166 2-67 (69)
58 PRK14574 hmsH outer membrane p 88.2 19 0.00041 40.0 16.2 98 97-208 103-200 (822)
59 PRK10370 formate-dependent nit 87.8 6 0.00013 35.8 10.4 100 95-207 72-174 (198)
60 TIGR02917 PEP_TPR_lipo putativ 87.6 42 0.00091 35.6 18.4 102 92-206 121-222 (899)
61 PF13432 TPR_16: Tetratricopep 87.3 2.8 6.1E-05 30.0 6.5 60 142-207 2-61 (65)
62 PF04733 Coatomer_E: Coatomer 87.3 1.1 2.3E-05 43.4 5.4 94 98-207 104-197 (290)
63 PLN03218 maturation of RBCL 1; 87.0 56 0.0012 37.4 19.4 91 102-203 620-710 (1060)
64 PF12569 NARP1: NMDA receptor- 86.9 44 0.00095 35.1 19.0 87 134-237 191-277 (517)
65 TIGR00990 3a0801s09 mitochondr 86.6 4.7 0.0001 42.6 10.3 100 94-206 329-428 (615)
66 KOG2003 TPR repeat-containing 86.6 3.3 7.2E-05 42.5 8.4 90 106-208 534-623 (840)
67 PLN03081 pentatricopeptide (PP 86.5 17 0.00037 39.0 14.6 92 100-206 466-557 (697)
68 PF12895 Apc3: Anaphase-promot 86.4 2.4 5.2E-05 32.3 6.0 61 95-163 24-84 (84)
69 PF10345 Cohesin_load: Cohesin 86.4 31 0.00067 36.7 16.2 132 74-208 37-170 (608)
70 cd05804 StaR_like StaR_like; a 86.3 4.1 9E-05 39.2 8.9 100 97-205 115-214 (355)
71 TIGR03302 OM_YfiO outer membra 86.1 5.9 0.00013 35.9 9.4 107 98-208 72-197 (235)
72 COG3063 PilF Tfp pilus assembl 85.7 6.5 0.00014 37.0 9.3 139 93-253 32-171 (250)
73 TIGR00990 3a0801s09 mitochondr 85.0 32 0.0007 36.3 15.6 98 96-206 399-496 (615)
74 TIGR02917 PEP_TPR_lipo putativ 84.6 51 0.0011 35.0 17.0 168 17-206 21-188 (899)
75 PRK10049 pgaA outer membrane p 84.5 28 0.00062 38.0 15.3 102 94-208 357-458 (765)
76 PLN03077 Protein ECB2; Provisi 84.2 18 0.0004 39.8 13.8 94 98-206 627-720 (857)
77 KOG2076 RNA polymerase III tra 83.5 3.5 7.5E-05 45.2 7.4 100 92-204 410-510 (895)
78 PF12569 NARP1: NMDA receptor- 83.2 8.8 0.00019 40.2 10.2 66 136-207 3-68 (517)
79 TIGR00540 hemY_coli hemY prote 83.0 54 0.0012 32.8 16.0 98 95-201 262-359 (409)
80 KOG1861 Leucine permease trans 82.4 34 0.00073 35.4 13.4 94 110-205 321-415 (540)
81 PF13429 TPR_15: Tetratricopep 82.3 4.3 9.3E-05 38.1 6.9 96 100-208 82-177 (280)
82 KOG3081 Vesicle coat complex C 82.3 11 0.00024 36.3 9.4 129 98-252 110-238 (299)
83 PRK11189 lipoprotein NlpI; Pro 82.3 14 0.0003 35.4 10.5 102 93-207 61-162 (296)
84 COG2956 Predicted N-acetylgluc 82.1 56 0.0012 32.4 17.3 101 53-165 35-135 (389)
85 PF09756 DDRGK: DDRGK domain; 81.3 2.3 5.1E-05 38.6 4.5 41 313-353 109-149 (188)
86 PRK10803 tol-pal system protei 81.1 14 0.0003 35.2 9.9 94 107-208 154-248 (263)
87 PF13429 TPR_15: Tetratricopep 81.0 13 0.00028 34.9 9.7 62 102-168 116-177 (280)
88 PRK15431 ferrous iron transpor 80.6 3.4 7.5E-05 32.1 4.5 37 312-348 11-47 (78)
89 PRK11447 cellulose synthase su 80.6 15 0.00033 42.1 11.7 96 98-206 605-700 (1157)
90 smart00550 Zalpha Z-DNA-bindin 80.6 5.4 0.00012 29.8 5.6 45 305-349 8-54 (68)
91 PF03399 SAC3_GANP: SAC3/GANP/ 80.4 13 0.00029 33.1 9.2 31 299-329 173-204 (204)
92 PF13371 TPR_9: Tetratricopept 80.2 10 0.00023 27.5 7.1 56 145-206 3-58 (73)
93 PLN03088 SGT1, suppressor of 80.0 13 0.00027 36.9 9.6 94 101-207 7-100 (356)
94 PRK09782 bacteriophage N4 rece 80.0 11 0.00024 42.6 10.1 95 97-208 45-139 (987)
95 TIGR02795 tol_pal_ybgF tol-pal 79.8 4.5 9.8E-05 31.8 5.3 69 97-169 40-108 (119)
96 PF14559 TPR_19: Tetratricopep 79.7 5.7 0.00012 28.5 5.4 55 148-208 2-56 (68)
97 PF03704 BTAD: Bacterial trans 78.7 4.9 0.00011 33.8 5.5 76 87-169 53-128 (146)
98 PRK15359 type III secretion sy 78.6 28 0.0006 29.6 10.2 94 101-207 29-122 (144)
99 PF02259 FAT: FAT domain; Int 78.5 63 0.0014 30.8 16.4 73 90-165 140-212 (352)
100 PRK11447 cellulose synthase su 77.4 12 0.00026 43.0 9.6 103 96-205 637-739 (1157)
101 PF13412 HTH_24: Winged helix- 77.2 8.9 0.00019 26.1 5.5 32 316-347 16-47 (48)
102 PF09295 ChAPs: ChAPs (Chs5p-A 77.0 35 0.00075 34.6 11.8 96 95-206 168-263 (395)
103 cd00189 TPR Tetratricopeptide 77.0 15 0.00032 25.9 7.1 62 139-206 2-63 (100)
104 PF02082 Rrf2: Transcriptional 75.6 9.1 0.0002 29.5 5.8 33 318-350 26-58 (83)
105 TIGR01610 phage_O_Nterm phage 75.6 14 0.0003 29.5 6.9 35 314-348 44-78 (95)
106 PRK10747 putative protoheme IX 75.5 91 0.002 31.1 15.5 92 103-206 125-216 (398)
107 smart00419 HTH_CRP helix_turn_ 75.0 5.9 0.00013 26.5 4.1 32 317-348 8-39 (48)
108 PF13371 TPR_9: Tetratricopept 75.0 6.9 0.00015 28.5 4.8 61 102-169 1-61 (73)
109 PF10345 Cohesin_load: Cohesin 74.8 67 0.0014 34.2 13.9 132 112-253 37-170 (608)
110 TIGR03504 FimV_Cterm FimV C-te 74.3 2.8 6.1E-05 28.9 2.2 25 99-123 2-26 (44)
111 KOG1586 Protein required for f 74.0 83 0.0018 30.0 16.5 111 93-208 31-145 (288)
112 PF12802 MarR_2: MarR family; 74.0 11 0.00024 26.7 5.6 46 305-350 7-54 (62)
113 PF13176 TPR_7: Tetratricopept 73.6 3.7 8.1E-05 26.4 2.6 22 100-121 3-24 (36)
114 PF13525 YfiO: Outer membrane 73.0 71 0.0015 28.7 13.2 107 97-208 6-121 (203)
115 KOG1585 Protein required for f 72.8 79 0.0017 30.4 12.0 114 93-208 88-221 (308)
116 TIGR03879 near_KaiC_dom probab 72.8 4.9 0.00011 30.9 3.5 38 310-347 25-62 (73)
117 KOG2002 TPR-containing nuclear 72.7 21 0.00046 39.7 9.4 102 98-208 272-373 (1018)
118 COG3071 HemY Uncharacterized e 72.6 77 0.0017 32.0 12.6 160 18-205 229-389 (400)
119 KOG1129 TPR repeat-containing 72.6 26 0.00057 34.9 9.2 97 98-208 225-321 (478)
120 cd00092 HTH_CRP helix_turn_hel 72.6 6.6 0.00014 28.3 4.1 34 316-349 24-57 (67)
121 PRK14720 transcript cleavage f 72.0 27 0.00059 39.1 10.2 103 94-205 29-144 (906)
122 PF12688 TPR_5: Tetratrico pep 71.8 32 0.00069 28.8 8.5 102 97-205 2-103 (120)
123 PLN03081 pentatricopeptide (PP 71.2 1.5E+02 0.0033 31.8 18.8 58 140-206 363-420 (697)
124 PRK10049 pgaA outer membrane p 70.5 46 0.001 36.4 11.7 103 99-207 313-423 (765)
125 PF08220 HTH_DeoR: DeoR-like h 70.4 11 0.00024 27.1 4.8 36 312-347 9-44 (57)
126 PRK10866 outer membrane biogen 70.3 94 0.002 29.0 13.2 107 97-208 70-206 (243)
127 KOG1070 rRNA processing protei 69.7 59 0.0013 38.1 12.1 146 26-182 1449-1609(1710)
128 smart00344 HTH_ASNC helix_turn 69.5 12 0.00026 29.9 5.4 34 315-348 15-48 (108)
129 PF07064 RIC1: RIC1; InterPro 69.4 58 0.0013 31.0 10.8 130 35-168 116-251 (258)
130 PF00325 Crp: Bacterial regula 68.4 10 0.00022 24.4 3.7 30 318-347 3-32 (32)
131 PF13545 HTH_Crp_2: Crp-like h 68.0 9.5 0.00021 28.3 4.2 33 316-348 27-59 (76)
132 smart00420 HTH_DEOR helix_turn 67.6 14 0.0003 24.9 4.7 35 316-350 13-47 (53)
133 PF13525 YfiO: Outer membrane 67.1 95 0.0021 27.8 11.6 106 98-208 44-172 (203)
134 PF04545 Sigma70_r4: Sigma-70, 67.1 17 0.00038 24.9 5.1 30 314-343 17-46 (50)
135 PF13428 TPR_14: Tetratricopep 67.1 6.9 0.00015 26.2 2.9 25 98-122 3-27 (44)
136 PRK10803 tol-pal system protei 66.6 17 0.00036 34.6 6.5 70 97-170 181-250 (263)
137 PLN03077 Protein ECB2; Provisi 66.5 2.1E+02 0.0045 31.6 19.4 166 19-205 289-483 (857)
138 PF01047 MarR: MarR family; I 66.2 17 0.00037 25.6 5.0 48 305-352 5-52 (59)
139 PF04703 FaeA: FaeA-like prote 66.2 13 0.00027 27.6 4.4 34 315-348 13-46 (62)
140 KOG4414 COP9 signalosome, subu 66.0 11 0.00024 32.9 4.6 40 299-338 114-153 (197)
141 PLN03088 SGT1, suppressor of 66.0 26 0.00056 34.7 8.0 83 96-187 36-118 (356)
142 PF13174 TPR_6: Tetratricopept 65.9 6.5 0.00014 23.8 2.4 25 99-123 3-27 (33)
143 cd00090 HTH_ARSR Arsenical Res 65.8 14 0.0003 26.4 4.6 33 318-350 21-53 (78)
144 CHL00033 ycf3 photosystem I as 65.6 34 0.00073 29.5 7.8 88 111-206 14-101 (168)
145 KOG1586 Protein required for f 65.6 41 0.00089 32.0 8.5 103 100-204 58-161 (288)
146 PF13181 TPR_8: Tetratricopept 65.6 9.9 0.00022 23.3 3.3 26 96-121 1-26 (34)
147 COG2976 Uncharacterized protei 65.0 70 0.0015 29.5 9.7 97 99-206 92-188 (207)
148 PF13181 TPR_8: Tetratricopept 64.7 12 0.00025 23.0 3.5 30 138-167 2-31 (34)
149 PRK10747 putative protoheme IX 64.3 68 0.0015 32.0 10.7 93 103-207 91-183 (398)
150 TIGR00540 hemY_coli hemY prote 63.2 60 0.0013 32.4 10.1 91 103-205 125-215 (409)
151 PRK11179 DNA-binding transcrip 62.9 11 0.00025 32.5 4.3 33 316-348 22-54 (153)
152 cd05804 StaR_like StaR_like; a 62.7 26 0.00056 33.6 7.1 67 96-165 148-214 (355)
153 PF07721 TPR_4: Tetratricopept 62.6 11 0.00024 22.4 3.0 24 97-120 2-25 (26)
154 PF09986 DUF2225: Uncharacteri 62.2 29 0.00063 32.0 7.0 75 132-208 113-196 (214)
155 smart00345 HTH_GNTR helix_turn 61.8 19 0.00041 24.9 4.6 32 317-348 19-51 (60)
156 PF12755 Vac14_Fab1_bd: Vacuol 61.1 61 0.0013 26.0 7.9 52 156-207 21-73 (97)
157 cd07377 WHTH_GntR Winged helix 61.0 31 0.00067 24.3 5.7 30 319-348 27-56 (66)
158 PF04733 Coatomer_E: Coatomer 60.4 1.1E+02 0.0023 29.6 10.8 130 98-250 133-264 (290)
159 PF04967 HTH_10: HTH DNA bindi 60.3 29 0.00062 24.9 5.2 29 314-342 17-48 (53)
160 PRK15174 Vi polysaccharide exp 60.2 2.5E+02 0.0053 30.2 18.2 99 96-207 284-382 (656)
161 PRK11169 leucine-responsive tr 59.0 26 0.00056 30.7 5.8 44 306-349 17-60 (164)
162 TIGR02010 IscR iron-sulfur clu 57.7 27 0.00059 29.4 5.6 33 317-349 25-57 (135)
163 PF09339 HTH_IclR: IclR helix- 57.2 22 0.00047 24.8 4.1 38 311-348 12-49 (52)
164 KOG1155 Anaphase-promoting com 57.1 56 0.0012 33.9 8.4 97 95-199 431-529 (559)
165 TIGR02552 LcrH_SycD type III s 57.1 1E+02 0.0022 24.8 11.3 64 137-206 17-80 (135)
166 PF13428 TPR_14: Tetratricopep 57.1 28 0.00061 23.1 4.6 32 138-169 2-33 (44)
167 PF07719 TPR_2: Tetratricopept 57.0 19 0.00042 21.8 3.5 30 138-167 2-31 (34)
168 PF07719 TPR_2: Tetratricopept 56.9 19 0.00042 21.8 3.5 26 96-121 1-26 (34)
169 PRK02603 photosystem I assembl 56.7 55 0.0012 28.3 7.6 72 133-207 31-102 (172)
170 PF13404 HTH_AsnC-type: AsnC-t 56.5 16 0.00034 24.8 3.1 26 316-341 16-41 (42)
171 PF01325 Fe_dep_repress: Iron 56.5 36 0.00077 24.8 5.3 33 316-348 21-53 (60)
172 COG1959 Predicted transcriptio 56.3 29 0.00063 30.1 5.6 45 305-349 11-57 (150)
173 PF13174 TPR_6: Tetratricopept 55.9 15 0.00033 22.1 2.8 30 139-168 2-31 (33)
174 PRK09782 bacteriophage N4 rece 55.0 3.7E+02 0.008 30.7 16.0 161 97-287 79-273 (987)
175 PRK14574 hmsH outer membrane p 53.6 3.6E+02 0.0078 30.1 15.1 153 47-205 297-478 (822)
176 PRK15174 Vi polysaccharide exp 53.4 99 0.0022 33.2 10.3 98 96-206 246-347 (656)
177 COG3629 DnrI DNA-binding trans 52.9 69 0.0015 31.0 8.0 71 91-169 148-219 (280)
178 smart00418 HTH_ARSR helix_turn 52.8 36 0.00078 23.4 4.8 34 315-348 8-41 (66)
179 TIGR02337 HpaR homoprotocatech 52.6 41 0.00088 27.4 5.7 38 314-351 39-76 (118)
180 PRK12370 invasion protein regu 52.3 62 0.0014 33.9 8.4 98 95-205 337-434 (553)
181 PF13176 TPR_7: Tetratricopept 52.3 17 0.00036 23.2 2.7 27 140-166 2-28 (36)
182 PF01022 HTH_5: Bacterial regu 52.1 40 0.00087 22.9 4.7 33 316-348 14-46 (47)
183 TIGR02944 suf_reg_Xantho FeS a 51.9 23 0.0005 29.5 4.2 35 316-350 24-58 (130)
184 KOG2300 Uncharacterized conser 51.8 1.6E+02 0.0035 30.9 10.7 104 92-196 400-504 (629)
185 PF13374 TPR_10: Tetratricopep 51.2 23 0.00051 22.3 3.3 27 96-122 2-28 (42)
186 smart00299 CLH Clathrin heavy 50.6 58 0.0013 27.0 6.5 112 22-164 11-123 (140)
187 PF08279 HTH_11: HTH domain; 50.0 51 0.0011 22.8 5.2 28 318-345 16-43 (55)
188 PRK11920 rirA iron-responsive 49.9 42 0.00091 29.2 5.6 33 317-349 24-56 (153)
189 PF12854 PPR_1: PPR repeat 49.9 21 0.00044 22.7 2.8 23 100-122 11-33 (34)
190 PF02742 Fe_dep_repr_C: Iron d 49.6 26 0.00056 26.2 3.7 37 294-341 3-40 (71)
191 PF00515 TPR_1: Tetratricopept 49.0 34 0.00073 20.9 3.7 30 138-167 2-31 (34)
192 PRK10370 formate-dependent nit 48.4 1.5E+02 0.0033 26.5 9.3 65 137-207 73-140 (198)
193 PRK14720 transcript cleavage f 48.1 4.6E+02 0.0099 29.7 18.2 102 98-208 118-234 (906)
194 COG4700 Uncharacterized protei 47.4 1.9E+02 0.0042 26.8 9.4 120 98-241 91-210 (251)
195 PF10300 DUF3808: Protein of u 47.3 1.1E+02 0.0025 31.4 9.3 90 108-206 245-334 (468)
196 TIGR00738 rrf2_super rrf2 fami 46.7 51 0.0011 27.2 5.5 33 317-349 25-57 (132)
197 COG1522 Lrp Transcriptional re 46.7 30 0.00065 29.3 4.2 33 317-349 22-54 (154)
198 PRK12798 chemotaxis protein; R 45.6 2.1E+02 0.0045 29.3 10.4 74 130-205 250-323 (421)
199 PF11873 DUF3393: Domain of un 45.3 6 0.00013 36.4 -0.4 67 222-290 110-177 (204)
200 PF06163 DUF977: Bacterial pro 44.8 84 0.0018 26.7 6.3 39 310-348 19-57 (127)
201 COG4235 Cytochrome c biogenesi 44.4 2.3E+02 0.005 27.5 10.1 115 99-231 159-273 (287)
202 PF04492 Phage_rep_O: Bacterio 44.3 44 0.00096 27.1 4.5 35 313-347 50-84 (100)
203 PF13463 HTH_27: Winged helix 43.7 56 0.0012 23.4 4.7 35 313-347 14-48 (68)
204 KOG1155 Anaphase-promoting com 43.5 67 0.0014 33.4 6.5 67 97-166 467-536 (559)
205 KOG0543 FKBP-type peptidyl-pro 43.4 2.2E+02 0.0047 29.0 10.1 164 34-207 138-321 (397)
206 smart00347 HTH_MARR helix_turn 43.0 73 0.0016 24.2 5.6 37 316-352 23-59 (101)
207 PF01978 TrmB: Sugar-specific 42.6 43 0.00093 24.5 3.9 36 314-349 19-54 (68)
208 PRK15359 type III secretion sy 42.4 2.1E+02 0.0045 24.1 10.3 59 142-206 29-87 (144)
209 PF12840 HTH_20: Helix-turn-he 42.3 97 0.0021 22.1 5.7 37 313-349 20-56 (61)
210 KOG2047 mRNA splicing factor [ 41.5 1.2E+02 0.0026 32.8 8.2 91 71-166 364-454 (835)
211 PF13613 HTH_Tnp_4: Helix-turn 41.5 49 0.0011 23.2 3.9 40 304-343 6-45 (53)
212 PRK10857 DNA-binding transcrip 40.8 59 0.0013 28.7 5.2 34 316-349 24-57 (164)
213 COG5010 TadD Flp pilus assembl 40.6 2.4E+02 0.0052 27.0 9.4 96 100-208 70-165 (257)
214 PF13512 TPR_18: Tetratricopep 40.2 2.5E+02 0.0054 24.4 9.6 67 101-171 15-81 (142)
215 PF08672 APC2: Anaphase promot 39.5 32 0.0007 25.2 2.8 24 327-350 31-54 (60)
216 PF10602 RPN7: 26S proteasome 38.8 2.8E+02 0.006 24.5 13.2 75 130-207 29-103 (177)
217 PRK11512 DNA-binding transcrip 38.6 1.2E+02 0.0027 25.4 6.8 37 316-352 53-89 (144)
218 PF00392 GntR: Bacterial regul 38.4 61 0.0013 23.4 4.1 34 316-349 22-56 (64)
219 PF12793 SgrR_N: Sugar transpo 38.3 47 0.001 27.6 3.9 34 315-348 17-50 (115)
220 PF08679 DsrD: Dissimilatory s 38.2 50 0.0011 24.9 3.6 35 314-348 16-51 (67)
221 PF08281 Sigma70_r4_2: Sigma-7 37.6 64 0.0014 22.2 4.0 31 312-342 21-51 (54)
222 PRK04841 transcriptional regul 37.4 2E+02 0.0043 31.6 9.8 107 98-205 493-601 (903)
223 KOG2034 Vacuolar sorting prote 36.7 72 0.0016 35.4 5.9 56 143-207 364-419 (911)
224 PRK10046 dpiA two-component re 36.4 69 0.0015 28.9 5.1 45 308-352 168-212 (225)
225 KOG3054 Uncharacterized conser 36.1 44 0.00096 31.6 3.7 41 312-352 209-249 (299)
226 PF13730 HTH_36: Helix-turn-he 36.1 57 0.0012 22.6 3.6 29 319-347 27-55 (55)
227 PF01984 dsDNA_bind: Double-st 36.0 24 0.00052 29.1 1.8 22 331-352 61-82 (107)
228 PRK11014 transcriptional repre 36.0 89 0.0019 26.4 5.4 34 316-349 24-57 (141)
229 PF06971 Put_DNA-bind_N: Putat 35.8 44 0.00096 23.7 2.9 26 314-339 25-50 (50)
230 PF11207 DUF2989: Protein of u 34.3 2.8E+02 0.0061 25.5 8.6 76 33-116 122-198 (203)
231 smart00346 HTH_ICLR helix_turn 34.3 1E+02 0.0022 23.4 5.0 33 317-349 20-52 (91)
232 PRK14474 F0F1 ATP synthase sub 33.9 26 0.00057 33.1 1.9 93 38-131 130-230 (250)
233 PF13601 HTH_34: Winged helix 33.9 76 0.0017 24.4 4.2 36 315-350 12-47 (80)
234 PF09613 HrpB1_HrpK: Bacterial 33.7 2.5E+02 0.0053 24.9 7.8 65 54-125 6-73 (160)
235 KOG3785 Uncharacterized conser 33.1 5.4E+02 0.012 26.2 15.3 97 97-206 394-490 (557)
236 KOG2047 mRNA splicing factor [ 33.0 2.1E+02 0.0045 31.2 8.4 86 32-121 183-273 (835)
237 PF03704 BTAD: Bacterial trans 32.9 2.8E+02 0.0061 22.8 8.8 65 137-207 62-126 (146)
238 KOG2376 Signal recognition par 32.6 6.6E+02 0.014 27.1 15.3 108 98-207 378-488 (652)
239 PF05584 Sulfolobus_pRN: Sulfo 32.2 1.7E+02 0.0036 22.5 5.7 39 308-348 11-49 (72)
240 KOG1941 Acetylcholine receptor 31.7 4.9E+02 0.011 26.6 10.3 136 90-233 159-297 (518)
241 PF10078 DUF2316: Uncharacteri 31.4 52 0.0011 26.3 2.9 24 316-339 22-45 (89)
242 PF12324 HTH_15: Helix-turn-he 31.2 54 0.0012 25.5 2.9 28 315-342 36-63 (77)
243 cd06170 LuxR_C_like C-terminal 30.9 91 0.002 21.0 3.9 30 314-343 12-41 (57)
244 KOG1129 TPR repeat-containing 30.8 1.5E+02 0.0032 29.7 6.5 76 100-182 260-349 (478)
245 TIGR03697 NtcA_cyano global ni 30.6 71 0.0015 27.7 4.1 32 317-348 143-174 (193)
246 TIGR01889 Staph_reg_Sar staphy 29.9 1.9E+02 0.0042 23.1 6.3 33 316-348 42-74 (109)
247 smart00421 HTH_LUXR helix_turn 29.8 1.2E+02 0.0026 20.2 4.4 30 314-343 15-44 (58)
248 COG3413 Predicted DNA binding 29.7 60 0.0013 29.6 3.5 45 295-342 155-203 (215)
249 PF07848 PaaX: PaaX-like prote 29.7 61 0.0013 24.5 3.0 31 320-350 26-56 (70)
250 PF03081 Exo70: Exo70 exocyst 29.5 33 0.00072 33.7 1.9 63 278-341 304-371 (371)
251 PF01726 LexA_DNA_bind: LexA D 29.3 1E+02 0.0022 22.9 4.0 31 318-348 26-57 (65)
252 KOG4521 Nuclear pore complex, 29.3 6E+02 0.013 29.7 11.4 125 94-233 918-1065(1480)
253 COG4105 ComL DNA uptake lipopr 29.1 5.1E+02 0.011 24.7 11.2 102 103-208 41-198 (254)
254 PRK11753 DNA-binding transcrip 28.7 79 0.0017 27.9 4.1 32 317-348 168-199 (211)
255 COG1729 Uncharacterized protei 28.7 86 0.0019 30.0 4.4 102 99-208 144-246 (262)
256 PRK11189 lipoprotein NlpI; Pro 28.6 3.7E+02 0.0081 25.5 9.0 70 131-206 58-127 (296)
257 PF13431 TPR_17: Tetratricopep 28.1 75 0.0016 20.1 2.8 22 95-116 12-33 (34)
258 COG1729 Uncharacterized protei 27.9 5.5E+02 0.012 24.6 10.6 82 122-209 129-210 (262)
259 PF04760 IF2_N: Translation in 27.7 53 0.0012 23.0 2.2 23 316-338 2-24 (54)
260 PRK11050 manganese transport r 27.4 1.7E+02 0.0037 25.2 5.8 35 316-350 50-84 (152)
261 PF04539 Sigma70_r3: Sigma-70 27.3 67 0.0015 23.9 2.9 25 316-340 19-43 (78)
262 TIGR01764 excise DNA binding d 26.8 79 0.0017 20.7 2.9 28 318-349 2-29 (49)
263 PRK04778 septation ring format 26.5 6.8E+02 0.015 26.5 11.2 102 78-180 458-562 (569)
264 PRK12370 invasion protein regu 26.2 2.8E+02 0.006 29.1 8.2 87 108-207 316-402 (553)
265 KOG1538 Uncharacterized conser 26.2 1.6E+02 0.0035 32.0 6.2 55 143-206 779-833 (1081)
266 KOG2796 Uncharacterized conser 26.1 3.4E+02 0.0073 26.5 7.8 125 74-207 149-282 (366)
267 KOG3617 WD40 and TPR repeat-co 26.0 1.8E+02 0.0039 32.7 6.6 147 75-248 1122-1286(1416)
268 PF12728 HTH_17: Helix-turn-he 25.9 80 0.0017 21.5 2.9 27 318-348 2-28 (51)
269 COG4783 Putative Zn-dependent 25.9 3.9E+02 0.0085 27.9 8.8 110 98-228 308-417 (484)
270 KOG4626 O-linked N-acetylgluco 25.8 5.7E+02 0.012 28.0 10.0 180 102-305 292-515 (966)
271 PRK13777 transcriptional regul 25.7 1.7E+02 0.0037 26.3 5.7 58 280-349 34-91 (185)
272 PRK13918 CRP/FNR family transc 25.7 93 0.002 27.3 4.0 32 317-348 149-180 (202)
273 PF12862 Apc5: Anaphase-promot 25.6 2.6E+02 0.0056 21.7 6.1 68 107-175 9-79 (94)
274 PRK10870 transcriptional repre 25.4 4.7E+02 0.01 23.0 9.6 34 317-350 71-104 (176)
275 KOG2140 Uncharacterized conser 25.3 4.7E+02 0.01 27.9 9.2 125 181-325 508-640 (739)
276 COG3071 HemY Uncharacterized e 25.2 4E+02 0.0087 27.1 8.5 95 58-168 298-392 (400)
277 KOG0543 FKBP-type peptidyl-pro 24.9 4.2E+02 0.0091 27.0 8.7 98 96-206 257-355 (397)
278 KOG1128 Uncharacterized conser 24.9 3.3E+02 0.0071 30.0 8.2 147 95-247 397-561 (777)
279 PF02002 TFIIE_alpha: TFIIE al 24.8 97 0.0021 24.8 3.6 33 317-349 27-59 (105)
280 KOG1156 N-terminal acetyltrans 24.8 9.3E+02 0.02 26.2 11.8 104 98-208 373-513 (700)
281 TIGR01884 cas_HTH CRISPR locus 24.7 2E+02 0.0043 25.9 6.0 35 316-350 156-190 (203)
282 KOG2053 Mitochondrial inherita 24.7 1.1E+03 0.023 26.8 15.3 214 87-342 185-410 (932)
283 PF01535 PPR: PPR repeat; Int 24.6 66 0.0014 18.7 2.0 23 101-123 5-27 (31)
284 KOG1125 TPR repeat-containing 24.5 8.9E+02 0.019 25.9 11.3 153 74-252 411-568 (579)
285 KOG1156 N-terminal acetyltrans 24.2 9.5E+02 0.021 26.2 11.7 100 101-207 148-249 (700)
286 PRK10866 outer membrane biogen 24.2 5.8E+02 0.013 23.7 13.4 70 99-172 35-104 (243)
287 COG2118 DNA-binding protein [G 24.2 56 0.0012 27.3 2.0 22 331-352 69-90 (116)
288 PRK11161 fumarate/nitrate redu 24.1 1E+02 0.0022 27.9 4.0 32 317-348 184-215 (235)
289 PF05331 DUF742: Protein of un 24.1 1E+02 0.0023 25.6 3.6 34 317-350 55-88 (114)
290 KOG2908 26S proteasome regulat 24.1 7.4E+02 0.016 24.9 11.8 121 34-157 54-177 (380)
291 PF00440 TetR_N: Bacterial reg 24.0 1.3E+02 0.0028 20.3 3.6 23 312-334 11-33 (47)
292 COG4367 Uncharacterized protei 23.9 91 0.002 24.9 3.0 26 314-339 20-45 (97)
293 PF09743 DUF2042: Uncharacteri 23.8 87 0.0019 30.1 3.5 38 316-353 129-166 (272)
294 TIGR00373 conserved hypothetic 23.7 1.9E+02 0.0041 25.3 5.4 31 317-347 28-58 (158)
295 PF09613 HrpB1_HrpK: Bacterial 23.3 3.7E+02 0.0081 23.8 7.1 115 133-269 6-121 (160)
296 PF04049 APC8: Anaphase promot 23.2 3.8E+02 0.0083 22.9 7.2 46 141-195 78-123 (142)
297 KOG2471 TPR repeat-containing 23.0 2.1E+02 0.0046 30.2 6.2 105 102-208 246-366 (696)
298 PRK04239 hypothetical protein; 22.7 60 0.0013 26.9 1.9 37 316-352 48-87 (110)
299 PF09986 DUF2225: Uncharacteri 22.6 5.7E+02 0.012 23.4 8.6 78 94-171 116-199 (214)
300 PF05843 Suf: Suppressor of fo 22.2 5.5E+02 0.012 24.2 8.8 66 99-171 38-104 (280)
301 KOG3060 Uncharacterized conser 22.2 7.2E+02 0.016 24.0 12.7 122 97-232 87-235 (289)
302 PF13542 HTH_Tnp_ISL3: Helix-t 22.1 1.2E+02 0.0027 20.5 3.3 27 315-341 25-51 (52)
303 PRK03902 manganese transport t 22.1 1.9E+02 0.0041 24.3 5.0 33 316-348 21-53 (142)
304 COG2886 Uncharacterized small 22.0 2.1E+02 0.0045 22.8 4.8 35 305-341 31-65 (88)
305 PF14674 FANCI_S1-cap: FANCI s 22.0 68 0.0015 23.0 1.8 27 33-59 13-39 (53)
306 KOG1126 DNA-binding cell divis 21.7 9.8E+02 0.021 25.9 10.9 70 92-168 313-384 (638)
307 PF06711 DUF1198: Protein of u 21.5 70 0.0015 27.7 2.1 22 320-341 28-49 (148)
308 PRK15363 pathogenicity island 21.3 5.7E+02 0.012 22.5 9.1 94 100-206 39-132 (157)
309 COG2345 Predicted transcriptio 21.2 1.4E+02 0.003 27.8 4.2 40 311-350 19-58 (218)
310 PF09670 Cas_Cas02710: CRISPR- 20.7 7E+02 0.015 24.9 9.5 61 101-166 136-198 (379)
311 TIGR02561 HrpB1_HrpK type III 20.6 5E+02 0.011 22.9 7.2 62 54-123 6-71 (153)
312 COG1497 Predicted transcriptio 20.6 1.3E+02 0.0028 28.6 3.9 34 315-348 23-56 (260)
313 PRK06266 transcription initiat 20.5 1.6E+02 0.0035 26.3 4.4 33 317-349 36-68 (178)
314 smart00028 TPR Tetratricopepti 20.4 1.6E+02 0.0034 15.7 4.2 27 179-205 3-29 (34)
315 KOG0495 HAT repeat protein [RN 20.4 1.2E+03 0.025 25.9 11.1 131 98-247 721-876 (913)
316 TIGR02561 HrpB1_HrpK type III 20.3 3.5E+02 0.0076 23.8 6.2 66 135-206 8-73 (153)
317 smart00342 HTH_ARAC helix_turn 20.3 1.4E+02 0.0029 21.6 3.4 26 317-342 1-26 (84)
No 1
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=4.2e-81 Score=585.71 Aligned_cols=345 Identities=57% Similarity=0.882 Sum_probs=335.0
Q ss_pred HHHHhhhhccchhHhHHHHHHHHHHhhcCC--C-HHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHH
Q 018521 3 SALASASAITDQRQKIEQYKHILSSVISSN--D-IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANY 79 (354)
Q Consensus 3 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~ 79 (354)
..+.-+-+.+|||++.++|+.+|+..++++ + .+.++.||+++++++|++|+|||+++.|...|+.+|++.+|++.++
T Consensus 7 eev~~~~~~g~hk~~~~qyr~~l~~~lt~~~~el~e~~k~~id~~~~~~vslvvsrqllsl~~~~l~~l~~e~~Kei~~~ 86 (399)
T KOG1497|consen 7 EEVVLIFAEGDHKDQAEQYRQLLAKVLTNNGMELLEALKRFIDAIVNENVSLVVSRQLLSLFDVELSILEDELRKEISHF 86 (399)
T ss_pred HHHHHHHhcCchhhHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHhccCCHHHHHHHHHH
Confidence 345556777899999999999999999877 4 4899999999999999999999999999999999999999999999
Q ss_pred HHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHH
Q 018521 80 TLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAF 159 (354)
Q Consensus 80 ~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~ 159 (354)
||..|+||.||||+|++.+|.+||.+||++++|+.||.+|.+|+++||++..+.+.|+..|+++.|+||+++|.+.|+.|
T Consensus 87 ~l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~ 166 (399)
T KOG1497|consen 87 TLEKIQPRVISFEEQVASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAY 166 (399)
T ss_pred HHHhcccccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCc
Q 018521 160 INKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGP 239 (354)
Q Consensus 160 ~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~ 239 (354)
+||++.++.+..++++++.|+.|+||++|.+|+|+|||+|||+++.+. .+|+.+++++|+.|+.|++||.+||
T Consensus 167 inRaSil~a~~~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~k-------i~~e~~~~~aL~~a~~CtlLA~~gp 239 (399)
T KOG1497|consen 167 INRASILQAESSNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQRK-------IVDESERLEALKKALQCTLLASAGP 239 (399)
T ss_pred HHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hcchHHHHHHHHHhHhheeecCCCh
Confidence 999999998889999999999999999999999999999999999985 4799999999999999999999999
Q ss_pred chHHHHHhhhhccccccccchHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCCcHHHHHHHHHHHHHHHHhhcccccc
Q 018521 240 QRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNIS 319 (354)
Q Consensus 240 ~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~dg~~~L~~~viEHNi~~isk~Y~~It 319 (354)
+|||+|+.+++||||+++|.|..+.|||++++|+.+++++|+..|.|||++.++||.++|+|+|+||||+++|++|+|||
T Consensus 240 qrsr~Latlfkder~~~l~~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgssil~ra~~EhNlls~Skly~nis 319 (399)
T KOG1497|consen 240 QRSRMLATLFKDERCQKLPAYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSSILDRAVIEHNLLSASKLYNNIS 319 (399)
T ss_pred HHHHHHHHHhcCcccccccchHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcchhhhhHHHHHhHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 320 FEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 320 l~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
|+.||.+|++|++++|+++++||.+||++|.|||+
T Consensus 320 f~~Lg~ll~i~~ekaekiaa~MI~qeRmng~IDQ~ 354 (399)
T KOG1497|consen 320 FEELGALLKIDAEKAEKIAAQMITQERMNGSIDQI 354 (399)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhHHHhccchHhh
Confidence 99999999999999999999999999999999995
No 2
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.4e-61 Score=461.34 Aligned_cols=293 Identities=20% Similarity=0.268 Sum_probs=274.1
Q ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhH
Q 018521 56 QLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF 135 (354)
Q Consensus 56 ~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~e 135 (354)
.++.+.++++++.|+...+..++.||+++++|+||+|.||||+|..||+++|.+||+.+||++|+++|||||| +|+..+
T Consensus 91 ~Mvq~~~~y~~~~~d~~~k~~li~tLr~VtegkIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETyg-sm~~~e 169 (439)
T KOG1498|consen 91 SMVQQAMTYIDGTPDLETKIKLIETLRTVTEGKIYVEVERARLTKMLAKIKEEQGDIAEAADILCELQVETYG-SMEKSE 169 (439)
T ss_pred HHHHHHHHhccCCCCchhHHHHHHHHHHhhcCceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhh-hhHHHH
Confidence 4566777888999988899999999999999999999999999999999999999999999999999999999 999999
Q ss_pred HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCc
Q 018521 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDE 214 (354)
Q Consensus 136 Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~-~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~ 214 (354)
|+.|+|+|||||+..+||++|.++++||+.++|+.+ -+++|++||++|++++.|.+.|+++|++|++++.++.+
T Consensus 170 kV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~v----- 244 (439)
T KOG1498|consen 170 KVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNV----- 244 (439)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHHHHHHHHhcccccchhhHHHHHHHHhccccc-----
Confidence 999999999999999999999999999999999865 46899999999999999999999999999999999865
Q ss_pred CCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHHH-HhcChhhH-HHHHHhhchhhhcc-
Q 018521 215 TIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLE-RILRKPEI-DAFAEELKPHQKAL- 291 (354)
Q Consensus 215 ~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~-~li~~~~i-~~f~~~L~~h~~~~- 291 (354)
+.|+++|.+.|.++++|++|||++|+++++++++..|+.++++|.|+.+++.|.+ ++++|+.+ +.|+..|.....|.
T Consensus 245 k~d~~kw~~vL~~iv~f~~LAp~dneQsdll~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~ 324 (439)
T KOG1498|consen 245 KEDPEKWIEVLRSIVSFCVLAPHDNEQSDLLARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDG 324 (439)
T ss_pred ccChhhhhhhhhhheeEEeecCCCcHHHHHHHHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccc
Confidence 6799999999999999999999999999999999999999999999999999996 79999944 66888887663332
Q ss_pred CCCc---HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 292 LPDN---FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 292 ~~dg---~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
+.+| |++|+.||+|||++++++||++||+.|||++||+|++++|+++|.||.+|.++|||||.
T Consensus 325 ~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrp 390 (439)
T KOG1498|consen 325 GEEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRP 390 (439)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCC
Confidence 2233 99999999999999999999999999999999999999999999999999999999984
No 3
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.4e-52 Score=388.85 Aligned_cols=316 Identities=18% Similarity=0.265 Sum_probs=275.0
Q ss_pred CHHHHHHHHHHHhcCCCchhhh-HHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccC
Q 018521 33 DIVQAKKFIDHMLSDDVPLVVS-RQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQ 111 (354)
Q Consensus 33 ~~~~l~~~~~~~~~~~~~~v~s-r~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd 111 (354)
+-+||..-+..++-..-.+-.| .-++..+.+++...++=..+.-.+.||+++++|+||+|+||+++|..|.++||.+||
T Consensus 67 ~~~~Lneql~~L~kKhGQlk~sI~~MIq~vmEylKg~~dl~t~i~~ietlr~VtEgkIFvEvERariT~~L~~ikee~Gd 146 (439)
T COG5071 67 DFQGLNEQLVSLFKKHGQLKQSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTEGKIFVEVERARLTQLLSQIKEEQGD 146 (439)
T ss_pred chhhhhhHHHHHHHHcchHHHHHHHHHHHHHHhccCcccccchHhHHHHHHHHhcCceEEehhHHHHHHHHHHHHHHhcc
Confidence 4455555555444222211111 223344445555544334567778999999999999999999999999999999999
Q ss_pred HHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-hHHHHHHHHHHHHHHHHHH
Q 018521 112 WSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLK 190 (354)
Q Consensus 112 ~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~-~~~lkl~y~~~~~r~~~~~ 190 (354)
+++|+++++++|||||| +|+..+|+.|+|+|+|||+-.+||.+|.++.+||+.++|+.+ -+.+|++||++..+++.|+
T Consensus 147 i~sA~Dilcn~pVETyg-s~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~i~Lh~ 225 (439)
T COG5071 147 IKSAQDILCNEPVETYG-SFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHD 225 (439)
T ss_pred hhHHHHHHhcCchhhcc-chhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccHHHHHHHHHHHhheeeccc
Confidence 99999999999999999 999999999999999999999999999999999999999865 5689999999999999999
Q ss_pred HHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHH-H
Q 018521 191 RKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYL-E 269 (354)
Q Consensus 191 r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~-~ 269 (354)
|.|+++|+.|.++|.|..+ ..|+..|..+|+++++|++|+|+++++.++++++..|-.+..+|....+++.|. +
T Consensus 226 R~Yl~v~~y~~~vY~t~~~-----~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vN 300 (439)
T COG5071 226 RAYLDVCKYYRAVYDTAVV-----QEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVN 300 (439)
T ss_pred HHHHHHHHHHHHHHHHHHh-----ccCcccccchhhcceeeEEecccccHHHHHHHHhhhhhhhccchhhhhHHHHHHHH
Confidence 9999999999999999754 778889999999999999999999999999999999999999999999999999 6
Q ss_pred HhcChhhHHH-HHHhhchhhhccCC-Cc---HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhc
Q 018521 270 RILRKPEIDA-FAEELKPHQKALLP-DN---FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFE 344 (354)
Q Consensus 270 ~li~~~~i~~-f~~~L~~h~~~~~~-dg---~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~ 344 (354)
++++|+-+++ +++.|.....++.. -| |.+|++||+|||+|+|++||++|++.||+.+|++|++++|+.+|.||.+
T Consensus 301 elmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~ISdlVN~ 380 (439)
T COG5071 301 ELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFISDLVNK 380 (439)
T ss_pred HHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 8999998865 88888766444432 23 9999999999999999999999999999999999999999999999999
Q ss_pred CCeeEecCCC
Q 018521 345 DRMRGSIDQV 354 (354)
Q Consensus 345 grl~akIDqv 354 (354)
|-++|||+|.
T Consensus 381 G~~yaKiNrp 390 (439)
T COG5071 381 GHFYAKINRP 390 (439)
T ss_pred CcEEEEecCc
Confidence 9999999984
No 4
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=2.7e-28 Score=230.61 Aligned_cols=276 Identities=16% Similarity=0.117 Sum_probs=222.3
Q ss_pred CCchhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccC
Q 018521 48 DVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSG 127 (354)
Q Consensus 48 ~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~ 127 (354)
+..+.+-+.++.++++. ++...+-+...++..+... =|.+....-...|++|+..||.+.|.+.+. .|+
T Consensus 63 ~~~i~~D~~~l~~m~~~-----neeki~eld~~iedaeenl--GE~ev~ea~~~kaeYycqigDkena~~~~~----~t~ 131 (393)
T KOG0687|consen 63 SLVIKLDQDLLNSMKKA-----NEEKIKELDEKIEDAEENL--GESEVREAMLRKAEYYCQIGDKENALEALR----KTY 131 (393)
T ss_pred hcceeccHHHHHHHHHh-----hHHHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHHHHhccHHHHHHHHH----HHH
Confidence 55567777777765543 2222222233333333331 266778888999999999999999999998 899
Q ss_pred CccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 128 MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 128 ~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
+++++.+.|+++.+..+|+.+...|..-....+.||+.++.+++||+.+++||.|+|.+.++.|+|.+||..|.+...|+
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 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhcccc----ccccchHHHH--------HHHHHHhcCh-
Q 018521 208 KRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERC----SKLKIYPILQ--------KVYLERILRK- 274 (354)
Q Consensus 208 ~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~----~~lp~~~~L~--------k~f~~~li~~- 274 (354)
. ..|.+++-..+-|.++.+....+|.++.+++.+.|++ +++|....+. ..|+..+...
T Consensus 212 t---------S~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~ 282 (393)
T KOG0687|consen 212 T---------SYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVE 282 (393)
T ss_pred c---------ceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHH
Confidence 4 3344444443333444444567999999999998764 5677766665 3455444322
Q ss_pred hhHHHHHHhhchhhhccCCCcHHHHHHHHHHHHHHHHhh---ccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEec
Q 018521 275 PEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASK---LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 351 (354)
Q Consensus 275 ~~i~~f~~~L~~h~~~~~~dg~~~L~~~viEHNi~~isk---~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akI 351 (354)
...-+++.+|.||-.+ .|+|..+++++| +|+.+|++.||+.||+|++.++..++++|.+|||+|||
T Consensus 283 ~~~lk~D~~l~~h~~y-----------yvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckI 351 (393)
T KOG0687|consen 283 AKQLKDDRYLGPHYRY-----------YVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKI 351 (393)
T ss_pred HHhhccchhcchHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeee
Confidence 2223478889999877 899999999999 99999999999999999999999999999999999999
Q ss_pred CCC
Q 018521 352 DQV 354 (354)
Q Consensus 352 Dqv 354 (354)
|+|
T Consensus 352 DrV 354 (393)
T KOG0687|consen 352 DRV 354 (393)
T ss_pred ecc
Confidence 997
No 5
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.90 E-value=8.6e-24 Score=196.84 Aligned_cols=266 Identities=19% Similarity=0.257 Sum_probs=223.1
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHH-----HHHHHHHHHHhh
Q 018521 74 KEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR-----LSKCVQIARLYL 148 (354)
Q Consensus 74 ~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eK-----le~~l~i~rL~L 148 (354)
...-+-||+.+.+-|- |.-...-..+|+++|-..|++.+-.++|.+++...-...-.++.| +++|...+++|.
T Consensus 125 Q~FYeTTL~ALkdAKN--eRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT 202 (440)
T KOG1464|consen 125 QEFYETTLDALKDAKN--ERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYT 202 (440)
T ss_pred HHHHHHHHHHHHhhhc--ceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhh
Confidence 3444455555443322 111223456799999999999999999999876221111122333 999999999999
Q ss_pred ccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHH
Q 018521 149 EDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAA 228 (354)
Q Consensus 149 ~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~a 228 (354)
+.+|..+.+..+.++...-+..++|-+....++|+|++|+.++.|.+|...|+|.|..|. +.+...|.+||++.
T Consensus 203 ~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYD------EsGspRRttCLKYL 276 (440)
T KOG1464|consen 203 EQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYD------ESGSPRRTTCLKYL 276 (440)
T ss_pred hhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhccc------ccCCcchhHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999885 45667899999999
Q ss_pred HHHHHhcCCCcchHHH-HHhhhhccccccccchHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCCc-----HHHHHHH
Q 018521 229 VTCTILAAAGPQRSRV-LATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN-----FTVLDRA 302 (354)
Q Consensus 229 v~~~ILa~~~~~rs~l-L~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~dg-----~~~L~~~ 302 (354)
|+..+|...|-...+- .++.|+++ +++-.+..|+.+| ..+++.+|++.|+.|+..+++|+ ..+|.+.
T Consensus 277 VLANMLmkS~iNPFDsQEAKPyKNd--PEIlAMTnlv~aY-----Q~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~n 349 (440)
T KOG1464|consen 277 VLANMLMKSGINPFDSQEAKPYKND--PEILAMTNLVAAY-----QNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRN 349 (440)
T ss_pred HHHHHHHHcCCCCCcccccCCCCCC--HHHHHHHHHHHHH-----hcccHHHHHHHHHhhhccccccHHHHHHHHHHHHH
Confidence 9999998887554443 67888753 3677889999999 66788999999999999999987 6899999
Q ss_pred HHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 303 MIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 303 viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
|+...++...+||++|.+..+++.|++++.++|..+...|.+.+|.|+||++
T Consensus 350 iRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~ 401 (440)
T KOG1464|consen 350 IRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEV 401 (440)
T ss_pred HHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHh
Confidence 9999999999999999999999999999999999999999999999999985
No 6
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=3.4e-22 Score=187.13 Aligned_cols=277 Identities=16% Similarity=0.129 Sum_probs=206.1
Q ss_pred hhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCC
Q 018521 53 VSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID 132 (354)
Q Consensus 53 ~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~ 132 (354)
.-|..+.++++. ++..++-+...++..++-. =|.+.+.....+|++|...+|.+.+.+.+. ++..+.|+
T Consensus 79 fD~~~~n~l~kk-----neeki~Elde~i~~~eedn--gE~e~~ea~~n~aeyY~qi~D~~ng~~~~~----~~~~~a~s 147 (412)
T COG5187 79 FDRGRMNTLLKK-----NEEKIEELDERIREKEEDN--GETEGSEADRNIAEYYCQIMDIQNGFEWMR----RLMRDAMS 147 (412)
T ss_pred hhhHHHHHHHHh-----hHHHHHHHHHHHHHHhhcc--cchHHHHHHHHHHHHHHHHhhhhhHHHHHH----HHHHHHHh
Confidence 345555544421 2333333334444444443 377788899999999999999999999998 66667889
Q ss_pred hhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcC
Q 018521 133 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIG 212 (354)
Q Consensus 133 ~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~ 212 (354)
.+-|+++.+..+||.+..+|-.-.+..+.+++..+.+++||+.+++||.|+|.+.+..|+|.+||..+.++..|+.
T Consensus 148 tg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgDWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~---- 223 (412)
T COG5187 148 TGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFE---- 223 (412)
T ss_pred cccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhcccc----
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999984
Q ss_pred CcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhcccc-cccc---chHHHHHHHHH-Hh-----cChhhHHHHHH
Q 018521 213 DETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERC-SKLK---IYPILQKVYLE-RI-----LRKPEIDAFAE 282 (354)
Q Consensus 213 ~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~-~~lp---~~~~L~k~f~~-~l-----i~~~~i~~f~~ 282 (354)
+.+.-+- ..+..+|++|.++ ..+|.++.+++.+.|++ .-+| .+..|...-.. -. --+..+.-|..
T Consensus 224 S~El~sY--~~~vrYa~~~Gl~---~leR~diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n 298 (412)
T COG5187 224 SSELISY--SRAVRYAIFCGLL---RLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCN 298 (412)
T ss_pred ccccccH--HHHHHHHHHhhhh---eeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHh
Confidence 1222221 1234444444433 57999999999999864 2333 34433322211 00 01123344555
Q ss_pred hhchhhhccCCCcHHHHHHHHHHHHHHHHhh---ccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 283 ELKPHQKALLPDNFTVLDRAMIEHNLLSASK---LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 283 ~L~~h~~~~~~dg~~~L~~~viEHNi~~isk---~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
.|++.+-- ..-.+-.|+|...++++| .|.-.+++.||+.||+|++.++.-++.+|.+|+|+|.||||
T Consensus 299 ~L~~d~fl-----~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRv 368 (412)
T COG5187 299 SLQDDVFL-----GRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRV 368 (412)
T ss_pred hccchHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecc
Confidence 55432110 111233899999999999 89999999999999999999999999999999999999997
No 7
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=1.4e-18 Score=165.73 Aligned_cols=314 Identities=15% Similarity=0.254 Sum_probs=252.5
Q ss_pred HHHHhhcCCCHHHHHHHHHHH--hcCCCchhhhHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhhccccchHHHHHHHHH
Q 018521 24 ILSSVISSNDIVQAKKFIDHM--LSDDVPLVVSRQLLQTFAQELGRLEP--ETQKEIANYTLAQIQPRVVSFEEQVLIIR 99 (354)
Q Consensus 24 ~~~~~~~~~~~~~l~~~~~~~--~~~~~~~v~sr~~l~~~~~~l~~l~~--~~~~~~~~~~l~~i~~~~i~~E~e~a~l~ 99 (354)
+-+.+...++.++|..+|.++ +=++++=.=+-+++.++++++.++|+ +....+|..+++|.+..+-.|-.|. +.
T Consensus 54 l~~ll~~~~~~~~lr~li~~~Rpf~~~v~KakaaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFLRq~--Le 131 (411)
T KOG1463|consen 54 LGDLLAKEGDAEELRDLITSLRPFLSSVSKAKAAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFLRQS--LE 131 (411)
T ss_pred HHHHHHhccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHHHHH--HH
Confidence 333444556778888888876 23666666777899999999999875 5779999999999988877777766 66
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhH-HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC-chHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNL 177 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~e-Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~-~~~~lkl 177 (354)
-.|+..|-+.++|.+|....+.+--|- |.++|.. =+++.+..-..|..-++..+|+.-+.-|....... -+|.++.
T Consensus 132 arli~Ly~d~~~YteAlaL~~~L~rEl--KKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa 209 (411)
T KOG1463|consen 132 ARLIRLYNDTKRYTEALALINDLLREL--KKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQA 209 (411)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHH--HhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHH
Confidence 678999999999999999888764443 3455543 38899999999999999999998888776655443 2788999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhh----hhccc
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATL----YKDER 253 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l----~kd~r 253 (354)
......|.+|..+|+|.-|..+|+|.|..|. ...+..+....|++.++|-|+..-..+-..++..= |.+
T Consensus 210 ~lDLqSGIlha~ekDykTafSYFyEAfEgf~-----s~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~y~g-- 282 (411)
T KOG1463|consen 210 TLDLQSGILHAAEKDYKTAFSYFYEAFEGFD-----SLDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALKYAG-- 282 (411)
T ss_pred HHHHhccceeecccccchHHHHHHHHHcccc-----ccCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHhccC--
Confidence 9999999999999999999999999999885 23333567899999999999887644433332211 333
Q ss_pred cccccchHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCCc-----HHHHHHHHHHHHHHHHhhccccccHHHHHHHhC
Q 018521 254 CSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLG 328 (354)
Q Consensus 254 ~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~dg-----~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ 328 (354)
+.+..++.....| +...++.|+..|..|......|+ ..-|.+.+.|.||..+-.||++|.++.+|+++|
T Consensus 283 -~~i~AmkavAeA~-----~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IG 356 (411)
T KOG1463|consen 283 -RDIDAMKAVAEAF-----GNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIG 356 (411)
T ss_pred -cchHHHHHHHHHh-----cCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHC
Confidence 3566778888888 55567788888888877666665 788999999999999999999999999999999
Q ss_pred CChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 329 IAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 329 ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
++...+|+-+|+||.++.+.|.+||.
T Consensus 357 l~~~~VEkKLsqMILDKkf~G~LDQg 382 (411)
T KOG1463|consen 357 LDVPQVEKKLSQMILDKKFYGTLDQG 382 (411)
T ss_pred CCcHHHHHHHHHHHHHHHhhcccccC
Confidence 99999999999999999999999983
No 8
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=1.7e-14 Score=140.52 Aligned_cols=245 Identities=17% Similarity=0.207 Sum_probs=191.5
Q ss_pred hHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 90 ~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
.+..-.|.+..-++-.||.+|+...-...|.... -|..-.-+...+.-++-...|.||-.+-|.+|...+.|....-..
T Consensus 163 tlD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~l-rtAtLrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~pe~~ 241 (493)
T KOG2581|consen 163 TLDLIAAKLYFYLYLSYELEGRLADIRSFLHALL-RTATLRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVYPEAA 241 (493)
T ss_pred hHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH-HHhhhcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccCcccc
Confidence 5777788899999999999999777666665432 332212244556667778899999999999999999998755444
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCH-HHHHHHHHHHHHHHHhcCCCcchHHHHHhh
Q 018521 170 SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDE-EALEQALSAAVTCTILAAAGPQRSRVLATL 248 (354)
Q Consensus 170 ~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~-~e~~~~L~~av~~~ILa~~~~~rs~lL~~l 248 (354)
..+ ...+|--|.|++..-+.+|.+|.++|+...... |+... .-+.++-+.+++.-+|....|+|+-.-+..
T Consensus 242 snn--e~ARY~yY~GrIkaiqldYssA~~~~~qa~rka------pq~~alGf~q~v~k~~ivv~ll~geiPers~F~Qp~ 313 (493)
T KOG2581|consen 242 SNN--EWARYLYYLGRIKAIQLDYSSALEYFLQALRKA------PQHAALGFRQQVNKLMIVVELLLGEIPERSVFRQPG 313 (493)
T ss_pred ccH--HHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhC------cchhhhhHHHHHHHHHHHHHHHcCCCcchhhhcCcc
Confidence 333 356899999999999999999999999998753 33222 223456665666668888889998765544
Q ss_pred hhccccccccchHHHHHHHH-HHhcChhhHHHHHHhhchhhhccCCCc----HHHHHHHHHHHHHHHHhhccccccHHHH
Q 018521 249 YKDERCSKLKIYPILQKVYL-ERILRKPEIDAFAEELKPHQKALLPDN----FTVLDRAMIEHNLLSASKLYTNISFEEL 323 (354)
Q Consensus 249 ~kd~r~~~lp~~~~L~k~f~-~~li~~~~i~~f~~~L~~h~~~~~~dg----~~~L~~~viEHNi~~isk~Y~~Itl~~L 323 (354)
++ +.|.-.|. ++-++..++++|...+....-.+..|| .--|+.+||..-|+.||-.|++|++..+
T Consensus 314 ~~----------ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRISl~DI 383 (493)
T KOG2581|consen 314 MR----------KSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRISLQDI 383 (493)
T ss_pred HH----------HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeeccHHHH
Confidence 44 34555554 577799999999999987766667787 3559999999999999999999999999
Q ss_pred HHHhCCChH-HHHHHHHhhHhcCCeeEecCC
Q 018521 324 GTLLGIAPQ-KAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 324 a~LL~ls~~-eaE~~ls~MI~~grl~akIDq 353 (354)
|.-||++.+ ++|-++++.|.+|-|.|+||-
T Consensus 384 A~kL~l~Seed~EyiVakAIRDGvIea~Id~ 414 (493)
T KOG2581|consen 384 AKKLGLNSEEDAEYIVAKAIRDGVIEAKIDH 414 (493)
T ss_pred HHHhcCCCchhHHHHHHHHHHhccceeeecc
Confidence 999999654 599999999999999999983
No 9
>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=99.57 E-value=1.8e-14 Score=129.05 Aligned_cols=148 Identities=20% Similarity=0.135 Sum_probs=130.7
Q ss_pred chHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 89 VSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 89 i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
-..+++..+....+|+.|.+.||+.+|.+.+... .....+.+.|+++++.++|++++.+||..+..+++|+.....
T Consensus 29 n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~----~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~ 104 (177)
T PF10602_consen 29 NLGKESIRMALEDLADHYCKIGDLEEALKAYSRA----RDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIE 104 (177)
T ss_pred ccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH----hhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHh
Confidence 3577888888999999999999999999999953 334678999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHH
Q 018521 169 SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA 246 (354)
Q Consensus 169 ~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~ 246 (354)
+++||+.+++++.+.|.++++.|+|.+||+.|.++..++. .....+.++.-..++|++++|-++.+|+++..
T Consensus 105 ~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~------~~~~~el~s~~d~a~Y~~l~aLat~~R~eLk~ 176 (177)
T PF10602_consen 105 KGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFT------SLQYTELISYNDFAIYGGLCALATLDRSELKK 176 (177)
T ss_pred ccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCC------CCchhhhcCHHHHHHHHHHHHHHhCCHHHHcc
Confidence 9999999999999999999999999999999999998873 11235566666778999999999999998754
No 10
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=2.5e-12 Score=121.18 Aligned_cols=307 Identities=14% Similarity=0.192 Sum_probs=214.8
Q ss_pred cCCCHHHHHHHHHHHh--cCCCchhhhHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH
Q 018521 30 SSNDIVQAKKFIDHML--SDDVPLVVSRQLLQTFAQELGRLEP--ETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADL 105 (354)
Q Consensus 30 ~~~~~~~l~~~~~~~~--~~~~~~v~sr~~l~~~~~~l~~l~~--~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i 105 (354)
+.++..+|..||.+.- =+++.---+-+|+.++++.++.-|+ +.++.|+...++|...-+--|-. -.+.-+|+..
T Consensus 57 ~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr--~~Le~Kli~l 134 (421)
T COG5159 57 SKGDYCSLGDTITSSREAMEDFTKPKITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLR--LELECKLIYL 134 (421)
T ss_pred hcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence 3444556666666642 1233333345677777777776654 57789999999886433332322 3355677889
Q ss_pred HHHccCHHHHHHHhcccccccCCccCChh-HHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC-chHHHHHHHHHHH
Q 018521 106 YESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQYKVCY 183 (354)
Q Consensus 106 ~E~~gd~~eAa~iL~~i~vEt~~~~~~~~-eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~-~~~~lkl~y~~~~ 183 (354)
+.+.|.+.+|...+..+--|- +.+++. .-+++++..-..|-+-++..+++.-+.-|....... -.|.++.......
T Consensus 135 ~y~~~~YsdalalIn~ll~El--Kk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~lDL~s 212 (421)
T COG5159 135 LYKTGKYSDALALINPLLHEL--KKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQLDLLS 212 (421)
T ss_pred HHhcccHHHHHHHHHHHHHHH--HhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHHHHhc
Confidence 999999999999888654332 234442 236788888888888888888877777666555432 2688999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhcccc------ccc
Q 018521 184 ARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERC------SKL 257 (354)
Q Consensus 184 ~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~------~~l 257 (354)
|.++...++|.-|+..|+|.+..|.. --+..+.-..|++.++.-|+... |.+ .+.+...+.. ..+
T Consensus 213 GIlhcdd~dyktA~SYF~Ea~Egft~-----l~~d~kAc~sLkYmlLSkIMlN~---~~e-vk~vl~~K~t~~~y~~r~I 283 (421)
T COG5159 213 GILHCDDRDYKTASSYFIEALEGFTL-----LKMDVKACVSLKYMLLSKIMLNR---REE-VKAVLRNKNTLKHYDDRMI 283 (421)
T ss_pred cceeeccccchhHHHHHHHHHhcccc-----ccchHHHHHHHHHHHHHHHHHhh---HHH-HHHHHccchhHhhhhhhhH
Confidence 99999999999999999999998752 12234455778877777666543 222 2233332211 134
Q ss_pred cchHHHHHHHHHHhcChhhHHHHHHhhchhhhcc-----CCCcHHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChH
Q 018521 258 KIYPILQKVYLERILRKPEIDAFAEELKPHQKAL-----LPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQ 332 (354)
Q Consensus 258 p~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~-----~~dg~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~ 332 (354)
..+......|- ...+..|...|+...... ..+..+-|...+.|.|+..+-.||+.+.++.+|+++|++..
T Consensus 284 ~am~avaea~~-----NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~ 358 (421)
T COG5159 284 RAMLAVAEAFG-----NRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTN 358 (421)
T ss_pred HHHHHHHHHhC-----CCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHH
Confidence 44555556663 334455666555433322 33447889999999999999999999999999999999999
Q ss_pred HHHHHHHhhHhcCCeeEecCCC
Q 018521 333 KAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 333 eaE~~ls~MI~~grl~akIDqv 354 (354)
++|.-+++||.++-.+|..||.
T Consensus 359 qvEgKLsqMILDKifyG~LDqg 380 (421)
T COG5159 359 QVEGKLSQMILDKIFYGTLDQG 380 (421)
T ss_pred HHHHHHHHHHHHHHHHhhhccC
Confidence 9999999999999999999984
No 11
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=99.45 E-value=3e-13 Score=109.20 Aligned_cols=92 Identities=26% Similarity=0.392 Sum_probs=79.1
Q ss_pred cchHHHHHHHHHHhcChhhHHHHHHhhchh-hhccCCCc----HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChH
Q 018521 258 KIYPILQKVYLERILRKPEIDAFAEELKPH-QKALLPDN----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQ 332 (354)
Q Consensus 258 p~~~~L~k~f~~~li~~~~i~~f~~~L~~h-~~~~~~dg----~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~ 332 (354)
|.|..|.+.| ...++..|...+..| ......++ .+.|.+.+++|++..++++|++|+++++|+.|+++.+
T Consensus 1 ~~~~~l~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~ 75 (105)
T PF01399_consen 1 PPYSELLRAF-----RSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEE 75 (105)
T ss_dssp HHHHHHHHHH-----HCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHH
T ss_pred CHHHHHHHHH-----HhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchH
Confidence 6678888888 556688888888888 43333344 6789999999999999999999999999999999999
Q ss_pred HHHHHHHhhHhcCCeeEecCCC
Q 018521 333 KAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 333 eaE~~ls~MI~~grl~akIDqv 354 (354)
++|..+++||.+|.|+|+|||+
T Consensus 76 ~vE~~l~~~I~~~~i~~~ID~~ 97 (105)
T PF01399_consen 76 EVESILIDLISNGLIKAKIDQV 97 (105)
T ss_dssp HHHHHHHHHHHTTSSEEEEETT
T ss_pred HHHHHHHHHHHCCCEEEEEECC
Confidence 9999999999999999999985
No 12
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.36 E-value=2.6e-11 Score=118.68 Aligned_cols=239 Identities=17% Similarity=0.140 Sum_probs=181.3
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc--CCch
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS--SSQQ 172 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~--~~~~ 172 (354)
.-+.-+.|++.|.+.|++..|.+...-+. +-++ +-..-+.+|+.-|+..+..+||...-.|++||..... +.-.
T Consensus 149 iRra~~Dl~dhy~~cG~l~~Alr~YsR~R-dYCT---s~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~ 224 (466)
T KOG0686|consen 149 IRRALEDLGDHYLDCGQLDNALRCYSRAR-DYCT---SAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLA 224 (466)
T ss_pred HHHHHHHHHHHHHHhccHHHHHhhhhhhh-hhhc---chHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHH
Confidence 33455789999999999999999998532 2222 4567799999999999999999999999999977642 1224
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhcc
Q 018521 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDE 252 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~ 252 (354)
++.-.+.+..-|..+...++|..|+++|......-. .+...+++++. +++..+.|-++-.|.++...+.++.
T Consensus 225 q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~--d~~~ivtpsdv------~iYggLcALAtfdr~~Lk~~vi~n~ 296 (466)
T KOG0686|consen 225 QEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHC--DYPEIVTPSDV------AIYGGLCALATFDRQDLKLNVIKNE 296 (466)
T ss_pred HhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCcc--Cccceecchhh------HHHHhhHhhccCCHHHHHHHHHcch
Confidence 566667888889999999999999999998765321 01134455554 6777788888899999987777765
Q ss_pred cc----ccccchHHHHHHHHH-H---hcCh-hhHH---HHHHhhchhhhccCCCcHHHHHHHHHHHHHHHHhhccccccH
Q 018521 253 RC----SKLKIYPILQKVYLE-R---ILRK-PEID---AFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNISF 320 (354)
Q Consensus 253 r~----~~lp~~~~L~k~f~~-~---li~~-~~i~---~f~~~L~~h~~~~~~dg~~~L~~~viEHNi~~isk~Y~~Itl 320 (354)
.. +.-|....++..|.. + ++.. .+++ -.+.+|.|| .+.|-.-|++--++-+-.+|+++.+
T Consensus 297 ~Fk~flel~Pqlr~il~~fy~sky~~cl~~L~~~k~~llLD~yLaph--------Vd~Ly~~IR~r~llqy~~py~s~~m 368 (466)
T KOG0686|consen 297 SFKLFLELEPQLREILFKFYSSKYASCLELLREIKPRLLLDMYLAPH--------VDNLYSLIRNRALLQYLSPYSSADM 368 (466)
T ss_pred hhhhHHhcChHHHHHHHHHhhhhHHHHHHHHHHhccceeechhcchh--------HHHHHHHHHHhhHHHhcCccccchH
Confidence 42 456777777777753 1 2210 0111 145566666 4556667777777777779999999
Q ss_pred HHHHHHhCCChHHHHHHHHhhHhcCCeeEecCC
Q 018521 321 EELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 321 ~~La~LL~ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
.+||..||.|+.+.|..+-++|.+|.|+||||+
T Consensus 369 ~~mA~af~~sv~~le~~l~~LI~~~~i~~rIDs 401 (466)
T KOG0686|consen 369 SKMAEAFNTSVAILESELLELILEGKISGRIDS 401 (466)
T ss_pred HHHHHHhcccHHHHHHHHHHHHHccchheeecc
Confidence 999999999999999999999999999999996
No 13
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.09 E-value=2.7e-10 Score=90.00 Aligned_cols=59 Identities=36% Similarity=0.540 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 296 FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 296 ~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
+..|.+.+++||+..++++|++|++++|++.|++|.+++|..+++||.+|.++|+|||.
T Consensus 3 ~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~ 61 (88)
T smart00088 3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQV 61 (88)
T ss_pred HHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCc
Confidence 45688899999999999999999999999999999999999999999999999999985
No 14
>smart00753 PAM PCI/PINT associated module.
Probab=99.09 E-value=2.7e-10 Score=90.00 Aligned_cols=59 Identities=36% Similarity=0.540 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 296 FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 296 ~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
+..|.+.+++||+..++++|++|++++|++.|++|.+++|..+++||.+|.++|+|||.
T Consensus 3 ~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~ 61 (88)
T smart00753 3 VERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQV 61 (88)
T ss_pred HHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCc
Confidence 45688899999999999999999999999999999999999999999999999999985
No 15
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=2.9e-06 Score=82.03 Aligned_cols=238 Identities=17% Similarity=0.139 Sum_probs=152.8
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC-Cc-hHHHHHHH
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS-SQ-QEVLNLQY 179 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~-~~-~~~lkl~y 179 (354)
+-.+.+..+|..+|.+.|.++--..-. .=.+..-.-+...++|++|+.+|...++..+......... .+ ++.....|
T Consensus 81 ~l~~~~~~~D~~~al~~Le~i~~~~~~-~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~f 159 (380)
T KOG2908|consen 81 LLVVSEQISDKDEALEFLEKIIEKLKE-YKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSF 159 (380)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHHHHh-hccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhH
Confidence 334456667888999888876422111 1122455667788999999999999999999998876644 23 34478899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHH-hhhhcccccccc
Q 018521 180 KVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA-TLYKDERCSKLK 258 (354)
Q Consensus 180 ~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~-~l~kd~r~~~lp 258 (354)
|.....||-..++|-...++-.--..+.. ....+.+++.+.---...+++|+..--+--.+|+ -+++.=+-.+-.
T Consensus 160 Y~lssqYyk~~~d~a~yYr~~L~YL~~~d----~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~e 235 (380)
T KOG2908|consen 160 YSLSSQYYKKIGDFASYYRHALLYLGCSD----IDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNRE 235 (380)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHhcccc----ccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHH
Confidence 99999999999998776544333222211 1234555554433335677788774444444433 233321112334
Q ss_pred chHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCC---cHHHHHH-----HHHHHHHHHHhh--ccccccHHHHHHHhC
Q 018521 259 IYPILQKVYLERILRKPEIDAFAEELKPHQKALLPD---NFTVLDR-----AMIEHNLLSASK--LYTNISFEELGTLLG 328 (354)
Q Consensus 259 ~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~d---g~~~L~~-----~viEHNi~~isk--~Y~~Itl~~La~LL~ 328 (354)
....++.+| +..++..|++....|..- +| ....|.. +++|- +.++ -=+.|||+.+|+...
T Consensus 236 WL~dll~Af-----n~Gdl~~f~~l~~~~~~~--p~L~~~e~~L~qKI~LmaLiEi---~F~rpa~~R~lsf~~Ia~~tk 305 (380)
T KOG2908|consen 236 WLKDLLIAF-----NSGDLKRFESLKGVWGKQ--PDLASNEDFLLQKIRLLALIEI---TFSRPANERTLSFKEIAEATK 305 (380)
T ss_pred HHHHHHHHh-----ccCCHHHHHHHHHHhccC--chHHHHHHHHHHHHHHHHHHHH---HhcCcchhccccHHHHHHHhC
Confidence 456777777 555666666665544321 11 0111221 22332 3344 446799999999999
Q ss_pred CChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 329 IAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 329 ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
+|.+++|-.+.+..+-|-+.|+||||
T Consensus 306 ip~~eVE~LVMKAlslgLikG~Idqv 331 (380)
T KOG2908|consen 306 IPNKEVELLVMKALSLGLIKGSIDQV 331 (380)
T ss_pred CCHHHHHHHHHHHHhccceeeeeccc
Confidence 99999999999999999999999997
No 16
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.46 E-value=8.6e-06 Score=79.46 Aligned_cols=198 Identities=18% Similarity=0.217 Sum_probs=134.9
Q ss_pred HHHHHHhhccCCHHHHHHHHHHhhchh---cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCC
Q 018521 141 VQIARLYLEDDDAVNAEAFINKASFLV---SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETID 217 (354)
Q Consensus 141 l~i~rL~L~~~D~~~a~~~~~Ka~~~~---~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d 217 (354)
.....+||+.+||..+..+++-=..-+ ..-.++..-+.|.-|.|-++..-++|-.|---|..+..++. ..+.
T Consensus 144 ~~l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa-----~~vs 218 (422)
T KOG2582|consen 144 ADLLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPA-----MAVS 218 (422)
T ss_pred HHHHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcch-----hHHH
Confidence 344678889888876654433211111 11236788889999999999999999887766666665542 1222
Q ss_pred HHHHHHHHHHHHHHHHhcCCC---cc-hHHHHHhhhhccccccccchHHHHHHHHHHhcChhhHHHHHHhhchhhhccCC
Q 018521 218 EEALEQALSAAVTCTILAAAG---PQ-RSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLP 293 (354)
Q Consensus 218 ~~e~~~~L~~av~~~ILa~~~---~~-rs~lL~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~ 293 (354)
.--.-.+-+++.++.|+-.-- |. -|.--.+.+|. ..|.|..|.+.|+++-. .+.+.....|--.++.
T Consensus 219 ~~hlEaYkkylLvsLI~~GK~~ql~k~ts~~~~r~~K~----ms~pY~ef~~~Y~~~~~-----~eLr~lVk~~~~rF~k 289 (422)
T KOG2582|consen 219 HIHLEAYKKYLLVSLILTGKVFQLPKNTSQNAGRFFKP----MSNPYHEFLNVYLKDSS-----TELRTLVKKHSERFTK 289 (422)
T ss_pred HHHHHHHHHHHHHHhhhcCceeeccccchhhhHHhccc----CCchHHHHHHHHhcCCc-----HHHHHHHHHHHHHHhh
Confidence 222224556666777776532 11 12333444442 46789999999975322 1244555567666678
Q ss_pred CcHHHHHHHHH----HHHHHHHhhccccccHHHHHHHhCC-ChHHHHHHHHhhHhcCCeeEecC
Q 018521 294 DNFTVLDRAMI----EHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 294 dg~~~L~~~vi----EHNi~~isk~Y~~Itl~~La~LL~l-s~~eaE~~ls~MI~~grl~akID 352 (354)
||.+-|-+.++ .|||....|-|.+++++.+|++..+ +++++|+++-+||.+|++.+.||
T Consensus 290 Dnnt~l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN 353 (422)
T KOG2582|consen 290 DNNTGLAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN 353 (422)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec
Confidence 88666665554 4999999999999999999997777 68999999999999999999997
No 17
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=97.61 E-value=0.017 Score=56.20 Aligned_cols=203 Identities=14% Similarity=0.100 Sum_probs=116.3
Q ss_pred HHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcC
Q 018521 135 FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ--QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIG 212 (354)
Q Consensus 135 eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~--~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~ 212 (354)
-+..+|..-+.++-..+-......-++++..-+.+-+ -.+.+ .+.....+.....++--++++-+-++.-||.
T Consensus 122 aR~~Vy~~lv~la~~~~~~~~i~~~lk~~~~~lkew~~~vedqr-el~r~v~~al~~~k~~~~s~kvmt~lLgtyt---- 196 (378)
T KOG2753|consen 122 ARYQVYMSLVTLAASCKLIEYIVPNLKQLDDWLKEWNISVEDQR-ELLRAVHKALKDNKSVDESSKVMTELLGTYT---- 196 (378)
T ss_pred HHHHHHHHHHHHHhhcceeeeecccHHHHHHHHHhCCCCHHHHH-HHHHHHHHHHHhcchhhhHHHHHHHHHHHhc----
Confidence 4556777777777776655444444444444333211 11211 3333344444444446678888889988885
Q ss_pred CcCCCHHH-HHHHHHHHHHHHHhcCCCcchHHHHHhhhhcccccccc--chHHHHHHHHHHhcChhhHHHHHHhhchhhh
Q 018521 213 DETIDEEA-LEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLK--IYPILQKVYLERILRKPEIDAFAEELKPHQK 289 (354)
Q Consensus 213 ~~~~d~~e-~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp--~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~ 289 (354)
..|.++ +-.+.+ .|..++-+|..-.=..++ .=|.+.++. ....|++.|... -+..|-+.-..|..
T Consensus 197 --~dnas~AredA~r-cV~~av~dP~~F~fD~Ll----~L~pV~qLE~d~i~qLL~IF~s~-----~L~aYveF~~~N~~ 264 (378)
T KOG2753|consen 197 --EDNASEAREDAMR-CVVEAVKDPKIFLFDHLL----TLPPVKQLEGDLIHQLLKIFVSG-----KLDAYVEFVAANSG 264 (378)
T ss_pred --ccchhHHHHHHHH-HHHHHHcCCceeccchhc----cCchHHHhccchHHHHHHHHHhc-----chHHHHHHHHhChH
Confidence 233222 223333 444455555432211111 101111111 134666666532 23344444455555
Q ss_pred ccCCCc--HHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 290 ALLPDN--FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 290 ~~~~dg--~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
|...-| -...-+-++---+...+-.=+.|+++.|++-|.+..+++|..+.+.|..|-+.|||||.
T Consensus 265 Fvqs~gl~~E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~ 331 (378)
T KOG2753|consen 265 FVQSQGLVHEQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQM 331 (378)
T ss_pred HHHHhcccHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhh
Confidence 554444 23444445555555556688999999999999999999999999999999999999984
No 18
>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=97.06 E-value=0.022 Score=57.47 Aligned_cols=189 Identities=14% Similarity=0.140 Sum_probs=108.3
Q ss_pred HHHHHHhhccCCHHHHHHHHHHhhc----hhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc-----
Q 018521 141 VQIARLYLEDDDAVNAEAFINKASF----LVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQI----- 211 (354)
Q Consensus 141 l~i~rL~L~~~D~~~a~~~~~Ka~~----~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~----- 211 (354)
+-..|++...|||..|-..+.-+.. .+..+ +.-.+..+-+.|--|+.-|+|.||.+.|..+........
T Consensus 126 igLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V--~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~ 203 (404)
T PF10255_consen 126 IGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKV--PACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQ 203 (404)
T ss_pred HHHHHHHHhccCHHHHHHHhhccCcccchhhccC--cchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 4458999999999999887766632 22222 333344445678889999999999999999876543211
Q ss_pred CCcCCC----HHHHHHHHHHHHHHHHhcCCCcc---hHHHHHhhhhccc--cccccchHHHHHHHHH---HhcChh---h
Q 018521 212 GDETID----EEALEQALSAAVTCTILAAAGPQ---RSRVLATLYKDER--CSKLKIYPILQKVYLE---RILRKP---E 276 (354)
Q Consensus 212 ~~~~~d----~~e~~~~L~~av~~~ILa~~~~~---rs~lL~~l~kd~r--~~~lp~~~~L~k~f~~---~li~~~---~ 276 (354)
.+++-| ..|.+-+| ..+|..|+|.-.+ .+.+..+ |.|+- +.. .+...+...|.. ..|.|. .
T Consensus 204 ~~~q~d~i~K~~eqMyaL--lAic~~l~p~~lde~i~~~lkek-y~ek~~kmq~-gd~~~f~elF~~acPKFIsp~~pp~ 279 (404)
T PF10255_consen 204 RSYQYDQINKKNEQMYAL--LAICLSLCPQRLDESISSQLKEK-YGEKMEKMQR-GDEEAFEELFSFACPKFISPVSPPD 279 (404)
T ss_pred ccchhhHHHhHHHHHHHH--HHHHHHhCCCCCCHHHHHHHHHH-HHHHHHHHHc-cCHHHHHHHHHhhCCCccCCCCCCC
Confidence 122222 23444444 6788888885211 1222222 33321 111 123334444442 344432 1
Q ss_pred HHH------HHHhhchhhhccCCCcHHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHh
Q 018521 277 IDA------FAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASR 340 (354)
Q Consensus 277 i~~------f~~~L~~h~~~~~~dg~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~ 340 (354)
... -++.....+.| ....+....-.+|+.+-|.|++|+++-||.+++++++++-..+-.
T Consensus 280 ~~~~~~~~~~e~~~~Ql~~F-----l~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll~ 344 (404)
T PF10255_consen 280 YDGPSQNKNKEPYRRQLKLF-----LDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLLC 344 (404)
T ss_pred cccccchhhhhHHHHHHHHH-----HHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHHH
Confidence 000 01111111111 233444444558999999999999999999999999876655543
No 19
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=96.85 E-value=0.01 Score=59.35 Aligned_cols=195 Identities=15% Similarity=0.195 Sum_probs=128.0
Q ss_pred HHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCC
Q 018521 139 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETI 216 (354)
Q Consensus 139 ~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~--~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~ 216 (354)
+-..--++|+.-+...-++.+++-.........++ .-...|+-+.|++.++..+|.+|.....+.+..-+. .
T Consensus 165 i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~cp~------~ 238 (394)
T KOG2688|consen 165 IVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRLCPD------L 238 (394)
T ss_pred HHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHHHhCcH------H
Confidence 34445677777777777777776665553322222 235677788899999999999999999999985321 0
Q ss_pred CHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCCc-
Q 018521 217 DEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN- 295 (354)
Q Consensus 217 d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~dg- 295 (354)
--....-.|.+.+-+.++-...|.+. ++.+.- +..|..|. +.++..++..|+..|++|+.++..-|
T Consensus 239 ~~~n~~~iliylip~~~llg~~Pt~~-lL~~~~-------~~~~~~lv-----~aVr~Gnl~~f~~al~~~E~~f~~~gi 305 (394)
T KOG2688|consen 239 LLKNKRLILIYLIPTGLLLGRIPTKE-LLDFYT-------LDKYSPLV-----QAVRSGNLRLFDLALADNERFFIRSGI 305 (394)
T ss_pred HHhhhhhHHHHHhHHHHHhccCcchh-hHhHhh-------HHhHHHHH-----HHHHhccHHHHHHHHhhhHHHHHHhcc
Confidence 00011135566666666666655331 111111 11233333 34477788899999999998876666
Q ss_pred ---HHHHHHHHHHHH-HHHHhhcc---ccccHHHHHHHhCCC------hHHHHHHHHhhHhcCCeeEecCC
Q 018521 296 ---FTVLDRAMIEHN-LLSASKLY---TNISFEELGTLLGIA------PQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 296 ---~~~L~~~viEHN-i~~isk~Y---~~Itl~~La~LL~ls------~~eaE~~ls~MI~~grl~akIDq 353 (354)
... -+-|.=|| +..+.+.- +++.++++-..+..+ .+++|-.++.+|..|+|.|.|+.
T Consensus 306 ~l~l~~-l~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgYish 375 (394)
T KOG2688|consen 306 YLTLEK-LPLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGYISH 375 (394)
T ss_pred HHHhhh-hhHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccchhch
Confidence 222 33344455 44555666 888999988877654 69999999999999999999974
No 20
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.85 E-value=0.046 Score=52.19 Aligned_cols=152 Identities=16% Similarity=0.205 Sum_probs=91.2
Q ss_pred HHHHHHHHHHhhcc-CCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcC
Q 018521 137 LSKCVQIARLYLED-DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDET 215 (354)
Q Consensus 137 le~~l~i~rL~L~~-~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~ 215 (354)
...+.++.++|-.. +|+..|-.++.+|...+...+.+..-...+.-.|.++...++|.+|...|.++..... ...
T Consensus 114 A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l----~~~ 189 (282)
T PF14938_consen 114 AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCL----ENN 189 (282)
T ss_dssp HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCC----CHC
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhh----ccc
Confidence 45566678888888 8999999999999999987777777778888889999999999999999999877532 011
Q ss_pred CCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhh-hccccccccchHHH---HHHHHHHhcChhhHHHHHHhhchhhhcc
Q 018521 216 IDEEALEQALSAAVTCTILAAAGPQRSRVLATLY-KDERCSKLKIYPIL---QKVYLERILRKPEIDAFAEELKPHQKAL 291 (354)
Q Consensus 216 ~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~-kd~r~~~lp~~~~L---~k~f~~~li~~~~i~~f~~~L~~h~~~~ 291 (354)
...-.....+-.+++|.+..+-...=...+.+.. .||....-.+++.+ ++.| +..+.+.|...+.......
T Consensus 190 l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-----~~~D~e~f~~av~~~d~~~ 264 (282)
T PF14938_consen 190 LLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-----EEGDVEAFTEAVAEYDSIS 264 (282)
T ss_dssp TTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-----HTT-CCCHHHHCHHHTTSS
T ss_pred ccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-----HhCCHHHHHHHHHHHcccC
Confidence 1211233444446777766542222222344433 24444444344332 3333 4445667777777665555
Q ss_pred CCCcHH
Q 018521 292 LPDNFT 297 (354)
Q Consensus 292 ~~dg~~ 297 (354)
.=|+|.
T Consensus 265 ~ld~w~ 270 (282)
T PF14938_consen 265 RLDNWK 270 (282)
T ss_dssp ---HHH
T ss_pred ccHHHH
Confidence 556763
No 21
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.84 E-value=0.011 Score=50.62 Aligned_cols=96 Identities=16% Similarity=0.148 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
...+.+|+++...|++++|...|..+.-.+ -++.-+-...++.+++++..++|..|...++++. ++...
T Consensus 49 ~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~----~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-------~~~~~ 117 (145)
T PF09976_consen 49 LAALQLAKAAYEQGDYDEAKAALEKALANA----PDPELKPLARLRLARILLQQGQYDEALATLQQIP-------DEAFK 117 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC----CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc-------CcchH
Confidence 346779999999999999999999765322 2456666778899999999999999999997632 23345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDI 203 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~ 203 (354)
..+....|.++...+++-+|-..|...
T Consensus 118 ~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 118 ALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 568889999999999999999998753
No 22
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.52 E-value=0.092 Score=50.14 Aligned_cols=220 Identities=15% Similarity=0.100 Sum_probs=126.8
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCch
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~ 172 (354)
++.+.+-..-|+.|-..|+|.+|++.+...- +.+.+.-+...-...|..-..+| ...|+..|-.+++++...+...++
T Consensus 32 e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa-~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~A~~~y~~~G~ 109 (282)
T PF14938_consen 32 EEAADLYEKAANCFKLAKDWEKAAEAYEKAA-DCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEKAIEIYREAGR 109 (282)
T ss_dssp HHHHHHHHHHHHHHHHTT-CHHHHHHHHHHH-HHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHHHHHHHHHCT-
T ss_pred HHHHHHHHHHHHHHHHHhccchhHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHhcCc
Confidence 4567788889999999999999998887431 22221112334455666655555 444999999999999999988888
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhc
Q 018521 173 EVLNLQYKVCYARILDLK-RKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKD 251 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~-r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd 251 (354)
+..-.+...-.|.++... +++-+|...|.+....+.. ...+.....++..+..+.+...--.+=..+..++-+.
T Consensus 110 ~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~-----e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~ 184 (282)
T PF14938_consen 110 FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQ-----EGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK 184 (282)
T ss_dssp HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHH-----TT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-----CCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 988899999999999999 9999999999999998752 2244444555544444433333212223333333332
Q ss_pred cccccccch---HHHHHHHHHHhcChhhH---HHHHHhhchhhhccC-CCc--HHHHHHHHHHHHHHHHh---hcccccc
Q 018521 252 ERCSKLKIY---PILQKVYLERILRKPEI---DAFAEELKPHQKALL-PDN--FTVLDRAMIEHNLLSAS---KLYTNIS 319 (354)
Q Consensus 252 ~r~~~lp~~---~~L~k~f~~~li~~~~i---~~f~~~L~~h~~~~~-~dg--~~~L~~~viEHNi~~is---k~Y~~It 319 (354)
..-..+..| ..+++..+-.|...+-+ ..|+++......|.+ .++ ...|-.++-+++.-.+. +-|.+|+
T Consensus 185 ~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~ 264 (282)
T PF14938_consen 185 CLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS 264 (282)
T ss_dssp CCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred hhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence 211122222 12233333334432322 336666554333432 223 45566666666643333 3555554
No 23
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=95.88 E-value=0.014 Score=61.51 Aligned_cols=59 Identities=25% Similarity=0.491 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHH----HHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCCC
Q 018521 296 FTVLDRAMIEHNLL----SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 354 (354)
Q Consensus 296 ~~~L~~~viEHNi~----~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDqv 354 (354)
.+-|.++|.|--|+ .+|..|++||++.||++|+||...+-.++|+||.+.-|.|+.||+
T Consensus 693 ~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqp 755 (843)
T KOG1076|consen 693 LDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQP 755 (843)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCC
Confidence 45678888888765 568899999999999999999999999999999999999999985
No 24
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=95.62 E-value=0.65 Score=45.49 Aligned_cols=43 Identities=23% Similarity=0.399 Sum_probs=39.4
Q ss_pred HhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCC
Q 018521 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 311 isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
+.+.-..||++-||.-|+++++++|.-+.++|.+.||.||||.
T Consensus 343 fCRIHqcIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidS 385 (432)
T KOG2758|consen 343 FCRIHQCITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDS 385 (432)
T ss_pred HHHHHHheeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhcc
Confidence 3446678999999999999999999999999999999999994
No 25
>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=95.60 E-value=0.13 Score=40.98 Aligned_cols=104 Identities=10% Similarity=-0.043 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
....++..+.+.|++.+|.+.+..+.-... +.....+.++...+++...+++..|..+++++.....+... ..
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~ 76 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKYP----KSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPK---AP 76 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----CccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCc---cc
Confidence 457789999999999999999986632211 11223466777899999999999999999999877543221 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
......|.++...+++-+|.+.|.++...++
T Consensus 77 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 107 (119)
T TIGR02795 77 DALLKLGMSLQELGDKEKAKATLQQVIKRYP 107 (119)
T ss_pred HHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence 3355677888899999999999999988754
No 26
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=95.59 E-value=0.18 Score=50.00 Aligned_cols=222 Identities=18% Similarity=0.224 Sum_probs=129.3
Q ss_pred cCHHHHHHHhccc---ccccCCccCChhHHHHHH---HHHHHHhhccCCHHHHHHHHHHhhchh-cCCc--hHHHHHHHH
Q 018521 110 QQWSKAAQMLSGI---DLDSGMRVIDDTFRLSKC---VQIARLYLEDDDAVNAEAFINKASFLV-SSSQ--QEVLNLQYK 180 (354)
Q Consensus 110 gd~~eAa~iL~~i---~vEt~~~~~~~~eKle~~---l~i~rL~L~~~D~~~a~~~~~Ka~~~~-~~~~--~~~lkl~y~ 180 (354)
...+++.+.+... -++.-+....+..|.-.| -....+|+.-+....++.+++--...- .+.. ...-...|.
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 3556666666532 112222234555564422 234678888888888886665433311 1111 123345788
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhc-CCCcchHHHHHhhhhccccccccc
Q 018521 181 VCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILA-AAGPQRSRVLATLYKDERCSKLKI 259 (354)
Q Consensus 181 ~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa-~~~~~rs~lL~~l~kd~r~~~lp~ 259 (354)
-|.|+++.+.++|-+|.-++.+.|..-+. -+. -.+.-.+-..+..++|- ...|-+. +|.+-- + ...
T Consensus 224 YYLG~~~l~~en~heA~~~L~~aFl~c~~-----l~~-~n~~rIl~~~ipt~Llv~~~~Ptk~-~L~r~~---~---~s~ 290 (413)
T COG5600 224 YYLGIYYLLNENFHEAFLHLNEAFLQCPW-----LIT-RNRKRILPYYIPTSLLVNKFPPTKD-LLERFK---R---CSV 290 (413)
T ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHhChh-----hhh-cchheehhHHhhHHHHhCCCCCchH-HHHhcc---c---cch
Confidence 89999999999999999999999875421 011 01122344444444444 3445444 444322 1 335
Q ss_pred hHHHHHHHHHHhcChhhHHHHHHhhchhhhccCCCc--HHHHH--HHHHHHHHHHHhhcc------cc--ccHHHHHHHh
Q 018521 260 YPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN--FTVLD--RAMIEHNLLSASKLY------TN--ISFEELGTLL 327 (354)
Q Consensus 260 ~~~L~k~f~~~li~~~~i~~f~~~L~~h~~~~~~dg--~~~L~--~~viEHNi~~isk~Y------~~--Itl~~La~LL 327 (354)
|.-|.|.- +...++.|+..|+.|...+-.-| .+.+. .-|-=.|+.. |.| ++ .++-..+..+
T Consensus 291 ~~~Lvkav-----rsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~r--k~w~~~~~qsrlp~sil~~~~ql 363 (413)
T COG5600 291 YSPLVKAV-----RSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFR--KIWRLHGKQSRLPLSILLIVLQL 363 (413)
T ss_pred hHHHHHHH-----HcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHH--HHHhhccccccCcHHHHHHHHHc
Confidence 66666665 77788899999999987766666 23322 2233334332 433 22 2233334433
Q ss_pred CC-C----hHHHHHHHHhhHhcCCeeEec
Q 018521 328 GI-A----PQKAEKIASRMIFEDRMRGSI 351 (354)
Q Consensus 328 ~l-s----~~eaE~~ls~MI~~grl~akI 351 (354)
.. + .+++|-.++.||..|.|.|.|
T Consensus 364 s~~dn~~~~~~VEciL~tlI~~G~lrgYi 392 (413)
T COG5600 364 SAIDNFHSFKEVECILVTLIGLGLLRGYI 392 (413)
T ss_pred cCCCcccChHHHHHHHHHHHhhhhhhhee
Confidence 32 3 789999999999999999987
No 27
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=95.18 E-value=0.61 Score=48.60 Aligned_cols=153 Identities=18% Similarity=0.145 Sum_probs=111.2
Q ss_pred chhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhccc---cccc
Q 018521 50 PLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGI---DLDS 126 (354)
Q Consensus 50 ~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i---~vEt 126 (354)
.+.+++. |...+..-.++ +.-..++..+++.+..++..-..-++.....+|.+|-..+++.+|..++++. ..++
T Consensus 198 ~~~~~~~-La~~y~~~g~~--e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~ 274 (508)
T KOG1840|consen 198 RLRTLRN-LAEMYAVQGRL--EKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEV 274 (508)
T ss_pred HHHHHHH-HHHHHHHhccH--HHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence 3444444 33333333333 3446778888888777766445556777778999999999999999999853 3366
Q ss_pred CCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC---CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 127 GMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS---SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDI 203 (354)
Q Consensus 127 ~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~---~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~ 203 (354)
+|. +...-..++....-+|...+++..|+.++.+|..+... ..++++...+ ...+-++.+..+|-+|...|...
T Consensus 275 ~G~--~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l-~~~~~~~~~~~~~Eea~~l~q~a 351 (508)
T KOG1840|consen 275 FGE--DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQL-SELAAILQSMNEYEEAKKLLQKA 351 (508)
T ss_pred cCC--CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHH-HHHHHHHHHhcchhHHHHHHHHH
Confidence 662 33445678888899999999999999999999888866 3466666444 44566889999999999999887
Q ss_pred Hhhhh
Q 018521 204 SQIQK 208 (354)
Q Consensus 204 ~~t~~ 208 (354)
...+.
T Consensus 352 l~i~~ 356 (508)
T KOG1840|consen 352 LKIYL 356 (508)
T ss_pred HHHHH
Confidence 76543
No 28
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=95.06 E-value=0.04 Score=47.38 Aligned_cols=71 Identities=20% Similarity=0.268 Sum_probs=46.3
Q ss_pred hcChhhHHHHHHhhchhhhc-cCCCcHHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhh
Q 018521 271 ILRKPEIDAFAEELKPHQKA-LLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 271 li~~~~i~~f~~~L~~h~~~-~~~dg~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~M 341 (354)
.+...+..+|-..++.+.-. ........|...|++.-+..+++.|++|+++.++++||++++++++++.+-
T Consensus 50 ~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~ 121 (143)
T PF10075_consen 50 ALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSR 121 (143)
T ss_dssp HHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHc
Confidence 33444556666655543100 000013457889999999999999999999999999999999888887764
No 29
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=94.98 E-value=0.37 Score=34.77 Aligned_cols=94 Identities=16% Similarity=0.021 Sum_probs=70.3
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHH
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~ 178 (354)
...+|..+...|++.+|.+.+....-.. +... ..+.....++...+++..|..+++++...... ++ .
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 4568889999999999999998643211 1111 67788899999999999999999998776543 22 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.....|.++...+++.+|...|..+..
T Consensus 70 ~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 70 AYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 455677888888888888877766654
No 30
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=94.83 E-value=5.2 Score=43.58 Aligned_cols=253 Identities=18% Similarity=0.170 Sum_probs=146.4
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccc--------cCCccCChhHHHHHH----HHHHHHhhccCCHHHHHHHHHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLD--------SGMRVIDDTFRLSKC----VQIARLYLEDDDAVNAEAFINK 162 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vE--------t~~~~~~~~eKle~~----l~i~rL~L~~~D~~~a~~~~~K 162 (354)
.|+-.++.+.-|-...+|..-+++|-. +++ +.+-.+++.+-+..| +.|+-..++.+=|..|-..+.-
T Consensus 179 ia~~aFqFCLkYqRktEFRrLCe~LR~-HL~~i~k~~nq~~~v~Ln~~Etlql~LDtRf~QLdvAi~lELWQEAyrSiED 257 (988)
T KOG2072|consen 179 IARKAFQFCLKYQRKTEFRRLCELLRM-HLDNINKHQNQSTRVDLNDPETLQLYLDTRFQQLDVAIELELWQEAYRSIED 257 (988)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHH-HHHHHHHhhccCcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455556666667777777777776642 221 111134555544444 4455566666778888777777
Q ss_pred hhchhc---CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCc
Q 018521 163 ASFLVS---SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGP 239 (354)
Q Consensus 163 a~~~~~---~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~ 239 (354)
|..++. ..+-|.+...||.-.+.++--.++++=-|-.++..|.-+.. -.+..+.++....=..+++.++=-|-.+
T Consensus 258 IhgLm~lSKrtPkp~~laNYY~KL~~VF~~sgn~LfHAaAw~k~f~l~k~--~~K~~Tqde~q~~as~VlLaaLSIP~~~ 335 (988)
T KOG2072|consen 258 IHGLMKLSKRTPKPSTLANYYEKLAKVFWKSGNPLFHAAAWLKLFKLYKN--MNKNLTQDELQRMASRVLLAALSIPIPD 335 (988)
T ss_pred HHHHHHHhcCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH--hcccccHHHHHHHHHHHHHHHhcCCCCC
Confidence 766553 23567888899999999999999988766666666554310 0123455555333343444443333222
Q ss_pred ch----------------HHHHHhhhhccccccccchHHHHHHHHH-H-----------hcChhhH----HHHHHhhchh
Q 018521 240 QR----------------SRVLATLYKDERCSKLKIYPILQKVYLE-R-----------ILRKPEI----DAFAEELKPH 287 (354)
Q Consensus 240 ~r----------------s~lL~~l~kd~r~~~lp~~~~L~k~f~~-~-----------li~~~~i----~~f~~~L~~h 287 (354)
.+ ...|+.|.. ++.-|.=..|++--.. . |..|=++ -...+-++|-
T Consensus 336 ~~~~~~r~~e~e~~~~ek~~rla~LL~---L~~~PTR~~ll~e~v~~gV~~~v~qe~kdLY~iLEveF~PL~l~k~lq~l 412 (988)
T KOG2072|consen 336 ARSDSARLIEIEDIGKEKNLRLANLLG---LPAPPTRKGLLKEAVREGVLSKVDQEVKDLYNILEVEFHPLKLCKKLQPL 412 (988)
T ss_pred cccccccccccccchhhHHHHHHHHhC---CCCCccHHHHHHHHHHhccHhhhhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 22 222222222 1222332233222211 0 1111010 0011111111
Q ss_pred hhccC--CCc---HHHHHHHHHHHHHHHHhhccccccHHHHHHHhC-CChHHHHHHHHhhHhcCCeeEecCC
Q 018521 288 QKALL--PDN---FTVLDRAMIEHNLLSASKLYTNISFEELGTLLG-IAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 288 ~~~~~--~dg---~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~-ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
-..+. +|. ..-|+..++-.-+..+|+.|.+|++++|-+|.- +++-++|+.+.+.+..+-+..+||-
T Consensus 413 l~~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH 484 (988)
T KOG2072|consen 413 LDKLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDH 484 (988)
T ss_pred HHHHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEecc
Confidence 11111 121 466888888888999999999999999999866 4899999999999999999999995
No 31
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=94.82 E-value=2.2 Score=36.21 Aligned_cols=132 Identities=20% Similarity=0.221 Sum_probs=80.9
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHh-cCCChHHHHHHHHHHHHhhccccchHHHHHH
Q 018521 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQEL-GRLEPETQKEIANYTLAQIQPRVVSFEEQVL 96 (354)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l-~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a 96 (354)
...|..++..+ ..++...+...++.+..+.-+........-.+.... ..=+-+.-+..+..++..- +.. .-+.
T Consensus 12 ~~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~----~l~~ 85 (145)
T PF09976_consen 12 SALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDP----ELKP 85 (145)
T ss_pred HHHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCH----HHHH
Confidence 45687777766 355666666666666654443322222222222222 2212233344444444432 111 1134
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHh
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 163 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka 163 (354)
..+..||.++...|++++|...|..++- ...+-.++.....+|+..||+..|...+.++
T Consensus 86 ~a~l~LA~~~~~~~~~d~Al~~L~~~~~--------~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 86 LARLRLARILLQQGQYDEALATLQQIPD--------EAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhccC--------cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 4567899999999999999999976432 2334456777899999999999999998876
No 32
>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=94.48 E-value=0.059 Score=40.54 Aligned_cols=39 Identities=23% Similarity=0.373 Sum_probs=31.7
Q ss_pred HhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 311 isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
+-+--.++|+..||..|++|++.+|.++..||..|+|.-
T Consensus 8 ~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~ 46 (69)
T PF09012_consen 8 YLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRK 46 (69)
T ss_dssp HHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEE
T ss_pred HHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEE
Confidence 334456799999999999999999999999999999963
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=94.26 E-value=0.3 Score=36.66 Aligned_cols=70 Identities=16% Similarity=0.014 Sum_probs=58.1
Q ss_pred HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 137 le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~-~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
...+.....+|...++|.+|..+++|+.......+ +.......+..+|.++...++|-+|-+.|.+...-
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 45778889999999999999999999999854333 33345788899999999999999999999988764
No 34
>PLN03218 maturation of RBCL 1; Provisional
Probab=93.79 E-value=9.6 Score=43.44 Aligned_cols=100 Identities=10% Similarity=0.005 Sum_probs=68.9
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
..-.|...|.+.|++++|.+++.++.-+..+ +.++ ...|-..+..|...+++.+|..++++....-.. ++ .
T Consensus 544 TYnsLI~a~~k~G~~deA~~lf~eM~~~~~g--i~PD--~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~-p~----~ 614 (1060)
T PLN03218 544 VFNALISACGQSGAVDRAFDVLAEMKAETHP--IDPD--HITVGALMKACANAGQVDRAKEVYQMIHEYNIK-GT----P 614 (1060)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhcCC--CCCc--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CC----h
Confidence 3455677778888888888888876533222 1222 346777788888889999888888887655332 11 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
..+..++..|...+++.+|-..|.+....
T Consensus 615 ~tynsLI~ay~k~G~~deAl~lf~eM~~~ 643 (1060)
T PLN03218 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKK 643 (1060)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence 35667777788888888888888887663
No 35
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=93.74 E-value=4.2 Score=35.26 Aligned_cols=167 Identities=13% Similarity=0.072 Sum_probs=100.4
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCC-hHHHHHHHHHHHHhhccccchHHHHHH
Q 018521 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVL 96 (354)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~-~~~~~~~~~~~l~~i~~~~i~~E~e~a 96 (354)
...|..+-......++.+.-...++..+...-........+. ....... .+.-......+++. .+. ..
T Consensus 31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la---~~~~~~~~~~~A~~~~~~al~~-~~~-------~~ 99 (234)
T TIGR02521 31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALA---LYYQQLGELEKAEDSFRRALTL-NPN-------NG 99 (234)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHH---HHHHHcCCHHHHHHHHHHHHhh-CCC-------CH
Confidence 445666666666666765555555554432221122222222 2222221 22334444444442 222 12
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.....++.++...|++++|.+.+....- .. ........+......+...+++..|..++.++...... ++
T Consensus 100 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~-~~----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~--- 169 (234)
T TIGR02521 100 DVLNNYGTFLCQQGKYEQAMQQFEQAIE-DP----LYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ--RP--- 169 (234)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHHHHh-cc----ccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--Ch---
Confidence 3567789999999999999999886421 10 11223445666788999999999999999998876543 22
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
..+...|.++...++|.+|...|.+....
T Consensus 170 -~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 170 -ESLLELAELYYLRGQYKDARAYLERYQQT 198 (234)
T ss_pred -HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 23446788888999998888888777664
No 36
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=93.45 E-value=6.7 Score=43.10 Aligned_cols=147 Identities=16% Similarity=0.112 Sum_probs=99.1
Q ss_pred HHHHHHHHHHHccCHHHHHHHhc-ccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLS-GIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~-~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
--..||.+||..||.++|...-- .- .+.+..+ ++|.+-.-+..+.+.+.+|..++.||...... +|++
T Consensus 175 ay~tL~~IyEqrGd~eK~l~~~llAA-------HL~p~d~-e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~--n~~~- 243 (895)
T KOG2076|consen 175 AYYTLGEIYEQRGDIEKALNFWLLAA-------HLNPKDY-ELWKRLADLSEQLGNINQARYCYSRAIQANPS--NWEL- 243 (895)
T ss_pred hHHHHHHHHHHcccHHHHHHHHHHHH-------hcCCCCh-HHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc--chHH-
Confidence 45789999999999999875422 11 2344444 89999999999999999999999999887653 5543
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHH-HHHHHhcCCCcchHHHHHhhhhc----
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAA-VTCTILAAAGPQRSRVLATLYKD---- 251 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~a-v~~~ILa~~~~~rs~lL~~l~kd---- 251 (354)
+.-.+.+|.-.++...|+..|.+++..- |.+|- +|...+..- +-+=+-. .+|.+.++.+..-
T Consensus 244 ---~~ers~L~~~~G~~~~Am~~f~~l~~~~------p~~d~-er~~d~i~~~~~~~~~~---~~~e~a~~~le~~~s~~ 310 (895)
T KOG2076|consen 244 ---IYERSSLYQKTGDLKRAMETFLQLLQLD------PPVDI-ERIEDLIRRVAHYFITH---NERERAAKALEGALSKE 310 (895)
T ss_pred ---HHHHHHHHHHhChHHHHHHHHHHHHhhC------CchhH-HHHHHHHHHHHHHHHHh---hHHHHHHHHHHHHHhhc
Confidence 3334567788899999999999999963 32332 333333222 2222222 3455555555542
Q ss_pred cccccccchHHHHHHHH
Q 018521 252 ERCSKLKIYPILQKVYL 268 (354)
Q Consensus 252 ~r~~~lp~~~~L~k~f~ 268 (354)
......|++..+..+|+
T Consensus 311 ~~~~~~ed~ni~ael~l 327 (895)
T KOG2076|consen 311 KDEASLEDLNILAELFL 327 (895)
T ss_pred cccccccHHHHHHHHHH
Confidence 22346788887777775
No 37
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=93.05 E-value=0.027 Score=58.96 Aligned_cols=107 Identities=19% Similarity=0.186 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCch
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~ 172 (354)
+++..+...-|+.+-.+|++..|..+|..|... .++...+.++.+..+++.+..+++..|...++....... .
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 677888889999999999999999999987642 467788999999999999999999999999987444333 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+....+|+...|.++...+++++|++.+..+...
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 5667899999999999999999999999988764
No 38
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.72 E-value=7.4 Score=37.86 Aligned_cols=104 Identities=13% Similarity=0.067 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~ 174 (354)
.......|+..|...|++++|.+.+....-. .......+...+.+|...+++.+|...++++...... ..+.
T Consensus 106 ~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~ 177 (389)
T PRK11788 106 RLLALQELGQDYLKAGLLDRAEELFLQLVDE-------GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGD-SLRV 177 (389)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-------CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCC-cchH
Confidence 3455677788888888888888877754211 1122345666777888888888888887776554322 1122
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 175 lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
....++...|..+...+++-+|...|.+....
T Consensus 178 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~ 209 (389)
T PRK11788 178 EIAHFYCELAQQALARGDLDAARALLKKALAA 209 (389)
T ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH
Confidence 23345556677777777787777777777654
No 39
>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=92.52 E-value=0.97 Score=39.37 Aligned_cols=100 Identities=17% Similarity=0.091 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~ 173 (354)
..+.....++..+...|++++|...+....-.. ......+.....+|...+|+..|..+++++...... ++
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 346777889999999999999999988542111 122467778899999999999999999999876543 22
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 174 ~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
..+...|.++...++|.+|-..|......
T Consensus 100 ----~~~~~~~~~~~~~g~~~~A~~~~~~~~~~ 128 (234)
T TIGR02521 100 ----DVLNNYGTFLCQQGKYEQAMQQFEQAIED 128 (234)
T ss_pred ----HHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence 24455688888999999999999888764
No 40
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=92.47 E-value=1.6 Score=38.10 Aligned_cols=72 Identities=10% Similarity=0.019 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
..+.....++..+...|++++|...+...--.. -+..+....+.....+|...|++..|..++.++......
T Consensus 33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~----~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~ 104 (172)
T PRK02603 33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLE----EDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK 104 (172)
T ss_pred hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh----hccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence 345567889999999999999999998542110 112234678899999999999999999999999887543
No 41
>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=92.46 E-value=1.2 Score=36.53 Aligned_cols=99 Identities=12% Similarity=-0.094 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
......+|..+...|++.+|...++.+. +.. ..-.+++.....++...+++..|..+++++.....+ +++
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~------p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~--~~~- 86 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLA-AYD------PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD--DPR- 86 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHH-HhC------CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--ChH-
Confidence 3446778999999999999999997542 111 112467888899999999999999999998776433 333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
++...|.++...++|.+|.+.|.......
T Consensus 87 ---~~~~la~~~~~~g~~~~A~~~~~~al~~~ 115 (135)
T TIGR02552 87 ---PYFHAAECLLALGEPESALKALDLAIEIC 115 (135)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence 33456788889999999999998888864
No 42
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.19 E-value=9.9 Score=36.24 Aligned_cols=106 Identities=19% Similarity=0.123 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCC-hhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID-DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~-~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
+-++=++.||.+..|--||+...+.-.=. +.++ -.|-+++|-+-.-+|.+.|-..-|-..+.||.....++ +|+.-
T Consensus 53 cLlkA~~~yEnnrslfhAAKayEqaamLa--ke~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv-~Pd~A 129 (308)
T KOG1585|consen 53 CLLKASKGYENNRSLFHAAKAYEQAAMLA--KELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENV-KPDDA 129 (308)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHHHHH--HHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcC-CHHHH
Confidence 44445556666666655555544321100 0111 24556777777777777777777777777776665542 33333
Q ss_pred HHHH--------------------HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 177 LQYK--------------------VCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 177 l~y~--------------------~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+.+| --.+|++.--++|.||+..+.....-
T Consensus 130 lqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~ 179 (308)
T KOG1585|consen 130 LQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVA 179 (308)
T ss_pred HHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhH
Confidence 3333 33477888888999999888877654
No 43
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.00 E-value=12 Score=36.38 Aligned_cols=172 Identities=13% Similarity=0.082 Sum_probs=92.4
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCC-chhhhHHHHHHHHHHhcCCC-hHHHHHHHHHHHHhhccccchHHHHH
Q 018521 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSDDV-PLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQV 95 (354)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~v~sr~~l~~~~~~l~~l~-~~~~~~~~~~~l~~i~~~~i~~E~e~ 95 (354)
.+.|..+..-....++.+.-..+.+.++.... +-......+..+...+-... .+.-..+....++. .+ ..
T Consensus 69 ~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~-------~~ 140 (389)
T PRK11788 69 VELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-GD-------FA 140 (389)
T ss_pred HHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-Cc-------ch
Confidence 44566665555666666655556666654321 11111123334444433322 11222233333321 11 12
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
......|+.++...|+|++|.+.+..+.-. .. .........++...+++++..+++..|..+++++.....+ +.
T Consensus 141 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~--~~-- 214 (389)
T PRK11788 141 EGALQQLLEIYQQEKDWQKAIDVAERLEKL-GG-DSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ--CV-- 214 (389)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHHHHHHh-cC-CcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC--CH--
Confidence 334566778888888888888877765321 11 1111233445667777788888888888888887665322 11
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
..+...|.++...++|.+|-..|.++..
T Consensus 215 --~~~~~la~~~~~~g~~~~A~~~~~~~~~ 242 (389)
T PRK11788 215 --RASILLGDLALAQGDYAAAIEALERVEE 242 (389)
T ss_pred --HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 2334566777777777777777776664
No 44
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=91.67 E-value=3 Score=42.76 Aligned_cols=162 Identities=23% Similarity=0.199 Sum_probs=111.3
Q ss_pred HHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHH
Q 018521 36 QAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSK 114 (354)
Q Consensus 36 ~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~-~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~e 114 (354)
.|..-++.++.-..-+.-+-++|-.+.+....|. +.+-++.+-.+-+.|-.- -.+--+||++|-.+||...
T Consensus 539 ~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~d--------p~ilskl~dlydqegdksq 610 (840)
T KOG2003|consen 539 NLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPND--------PAILSKLADLYDQEGDKSQ 610 (840)
T ss_pred CHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCC--------HHHHHHHHHHhhcccchhh
Confidence 3344444444333344556677777776666664 334466655555544222 3356789999999999999
Q ss_pred HHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHH
Q 018521 115 AAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFL 194 (354)
Q Consensus 115 Aa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fl 194 (354)
|...-- |+|. - ..-.++.+-...-.|++..=|.++-.|+.|+.........|++. .+..+-..++|.
T Consensus 611 afq~~y----dsyr-y--fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlm------iasc~rrsgnyq 677 (840)
T KOG2003|consen 611 AFQCHY----DSYR-Y--FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLM------IASCFRRSGNYQ 677 (840)
T ss_pred hhhhhh----hccc-c--cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHH------HHHHHHhcccHH
Confidence 988776 6663 2 23456777788899999999999999999999998876666543 344456678999
Q ss_pred HHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHH
Q 018521 195 EAALRYYDISQIQKRQIGDETIDEEALEQALSAAV 229 (354)
Q Consensus 195 eAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av 229 (354)
.|...|.++-..++- | ..||+..|
T Consensus 678 ka~d~yk~~hrkfpe-------d----ldclkflv 701 (840)
T KOG2003|consen 678 KAFDLYKDIHRKFPE-------D----LDCLKFLV 701 (840)
T ss_pred HHHHHHHHHHHhCcc-------c----hHHHHHHH
Confidence 999999999887641 2 47888655
No 45
>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=91.60 E-value=0.59 Score=34.98 Aligned_cols=71 Identities=14% Similarity=0.086 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccc-c-ccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchh
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGID-L-DSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~-v-Et~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~ 167 (354)
.+.+...+|.+|...|+|++|.+.++..- + +..| . +....+..+..+.++|...+|+..|..+++|+..+.
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~-~-~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLG-D-DHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-T-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHC-C-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence 56777899999999999999999987532 1 2222 1 223458899999999999999999999999987653
No 46
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=91.36 E-value=4.3 Score=36.78 Aligned_cols=112 Identities=12% Similarity=-0.006 Sum_probs=79.8
Q ss_pred hHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 90 ~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
++.++.+.....++..+...|++++|...+..+.-... +...-.+.++.....+...+++..|...++++.....+
T Consensus 27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~ 102 (235)
T TIGR03302 27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYP----FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN 102 (235)
T ss_pred CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC
Confidence 56678888899999999999999999999986532111 11233456788899999999999999999999988765
Q ss_pred CchHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHhhhh
Q 018521 170 SQQEVLNLQYKVCYARILDLK--------RKFLEAALRYYDISQIQK 208 (354)
Q Consensus 170 ~~~~~lkl~y~~~~~r~~~~~--------r~fleAa~~y~e~~~t~~ 208 (354)
..... ...| ..|..+... +++-+|-..|..+...++
T Consensus 103 ~~~~~-~a~~--~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 146 (235)
T TIGR03302 103 HPDAD-YAYY--LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP 146 (235)
T ss_pred CCchH-HHHH--HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC
Confidence 33221 1122 223333333 778888888888877653
No 47
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=91.11 E-value=3.9 Score=42.74 Aligned_cols=146 Identities=14% Similarity=0.054 Sum_probs=105.5
Q ss_pred HHHHHhcCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccc-c--ccCCccCChhH
Q 018521 60 TFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGID-L--DSGMRVIDDTF 135 (354)
Q Consensus 60 ~~~~~l~~l~-~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~-v--Et~~~~~~~~e 135 (354)
.|...+..+. .+.-..+...+|........---..++..-..||..|.+.|++.||...+...- + ...+ -+..+
T Consensus 246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~--~~~~~ 323 (508)
T KOG1840|consen 246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLG--ASHPE 323 (508)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhc--cChHH
Confidence 4555555554 344566667777765555455556788888999999999999999876655320 0 1111 13344
Q ss_pred HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS--QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 136 Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~--~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
-...+...+-+|--.+++..|..++.++..+..+. .+.-...++|.-+|..+.+.++|.||-..|-++....
T Consensus 324 v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~ 397 (508)
T KOG1840|consen 324 VAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL 397 (508)
T ss_pred HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 45567778888888999999999999998888742 2333456889999999999999999999999888754
No 48
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=91.08 E-value=15 Score=36.31 Aligned_cols=102 Identities=15% Similarity=0.147 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.-...|..||....+|++|.++=..+..-+++ . -.-+-..||.+.+.-++..+|..+|...+.||..--.++-
T Consensus 142 ~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q-~-~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cv----- 214 (389)
T COG2956 142 GALQQLLNIYQATREWEKAIDVAERLVKLGGQ-T-YRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCV----- 214 (389)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCc-c-chhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccce-----
Confidence 35678999999999999998886655433332 1 2245678999999999999999999999999977654422
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+=-...|++.+.+++|-.|-..|-.+..-
T Consensus 215 -RAsi~lG~v~~~~g~y~~AV~~~e~v~eQ 243 (389)
T COG2956 215 -RASIILGRVELAKGDYQKAVEALERVLEQ 243 (389)
T ss_pred -ehhhhhhHHHHhccchHHHHHHHHHHHHh
Confidence 23345799999999999999999888764
No 49
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=90.76 E-value=0.35 Score=39.02 Aligned_cols=37 Identities=19% Similarity=0.365 Sum_probs=34.1
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCC
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
=|+++.|++-|+++.+++++.+-.|+.+|.|+..||-
T Consensus 65 Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 65 GVHVDEIAQQLGMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred cccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecccCC
Confidence 4899999999999999999999999999999999993
No 50
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=90.73 E-value=0.93 Score=32.63 Aligned_cols=61 Identities=13% Similarity=0.070 Sum_probs=46.3
Q ss_pred HHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
.+|..+...|++++|.+.+..+--.. ..-.+.+....+++...|++..|..++.++.....
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~-------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P 62 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQD-------PDNPEAWYLLGRILYQQGRYDEALAYYERALELDP 62 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCS-------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 57888899999999999998653211 23567888889999999999999998888866543
No 51
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=90.50 E-value=5.4 Score=34.50 Aligned_cols=111 Identities=10% Similarity=-0.143 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ- 171 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~- 171 (354)
...+.....++..+...|++++|...+...--.. . +.......+..+..+|...+++..|..++.++........
T Consensus 32 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~-~---~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~ 107 (168)
T CHL00033 32 EKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLE-I---DPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQ 107 (168)
T ss_pred hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc-c---cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHH
Confidence 3356777888999999999999999887542111 1 1123345788899999999999999999999987754322
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 172 ~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.+-.....+...|+.+...++|-+|-..|.+....+
T Consensus 108 ~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~ 143 (168)
T CHL00033 108 ALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYW 143 (168)
T ss_pred HHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHH
Confidence 233444555655666667777766666665555443
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=90.38 E-value=0.9 Score=32.86 Aligned_cols=56 Identities=13% Similarity=0.119 Sum_probs=43.6
Q ss_pred HHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 107 E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
-+.|+|++|.+.++.+--.. ..-.++++..+++|+..|++.+|..+++++.....+
T Consensus 2 l~~~~~~~A~~~~~~~l~~~-------p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRN-------PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHT-------TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 46899999999999653211 123567788999999999999999999999888664
No 53
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=90.28 E-value=3.2 Score=43.20 Aligned_cols=117 Identities=20% Similarity=0.091 Sum_probs=97.5
Q ss_pred HHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHH
Q 018521 78 NYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAE 157 (354)
Q Consensus 78 ~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~ 157 (354)
.+.|..+... =++|.......=++..-++|+...|..++.++++ .+++..|.+.-+.-++|.+..+++..|.
T Consensus 48 ~~yl~qa~qs---~~~~~~~~~llAa~al~~e~k~~qA~~Ll~ql~~-----~Ltd~Q~~~~~LL~ael~la~~q~~~Al 119 (604)
T COG3107 48 QFYLQQAQQS---SGEQQNDWLLLAARALVEEGKTAQAQALLNQLPQ-----ELTDAQRAEKSLLAAELALAQKQPAAAL 119 (604)
T ss_pred HHHHHHHhhc---CchhhhhHHHHHHHHHHHcCChHHHHHHHHhccc-----cCCHHHHHHHHHHHHHHHHhccChHHHH
Confidence 4444444333 2377788888889999999999999999998886 4789999999999999999999999999
Q ss_pred HHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 158 AFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 158 ~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.++.+...-.+. +--+.+|+...|.+.-.+++-+++++.......
T Consensus 120 ~~L~~~~~~~ls---~~Qq~Ry~q~~a~a~ea~~~~~~a~rari~~~~ 164 (604)
T COG3107 120 QQLAKLLPADLS---QNQQARYYQARADALEARGDSIDAARARIAQDP 164 (604)
T ss_pred HHHhhcchhhcC---HHHHHHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence 999998776653 224779999999999999999999998877765
No 54
>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=90.00 E-value=1.5 Score=31.76 Aligned_cols=65 Identities=12% Similarity=0.096 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhh
Q 018521 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKR-KFLEAALRYYDISQI 206 (354)
Q Consensus 136 Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r-~fleAa~~y~e~~~t 206 (354)
..+.|......++..+||..|..+++++...-.+ ++. .+..+|..+...+ +|.+|-+.|......
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~--~~~----~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN--NAE----AYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT--HHH----HHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--CHH----HHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 3578899999999999999999999999998543 333 5667788888888 899999998887663
No 55
>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=88.90 E-value=5.8 Score=40.11 Aligned_cols=129 Identities=19% Similarity=0.106 Sum_probs=90.6
Q ss_pred chhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCc
Q 018521 50 PLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMR 129 (354)
Q Consensus 50 ~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~ 129 (354)
+-.++.-++..++..+.... +-+.+..+++.+..... + ....||+++-..++-.+|.++|.+.--+...
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~---~~~~ai~lle~L~~~~p----e---v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~- 232 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQ---RYDEAIELLEKLRERDP----E---VAVLLARVYLLMNEEVEAIRLLNEALKENPQ- 232 (395)
T ss_pred CCCcchHHHHHHHHHHhhcc---cHHHHHHHHHHHHhcCC----c---HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-
Confidence 45667777887877775433 24455566666554442 1 2345888888888889999999864322211
Q ss_pred cCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYY 201 (354)
Q Consensus 130 ~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~ 201 (354)
+ .++...|++.++..+++..|..+.+++....... .+.....|++|...++|-+|-....
T Consensus 233 --d----~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~------f~~W~~La~~Yi~~~d~e~ALlaLN 292 (395)
T PF09295_consen 233 --D----SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE------FETWYQLAECYIQLGDFENALLALN 292 (395)
T ss_pred --C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh------HHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 1 7889999999999999999999999998887642 2334457888888888888865443
No 56
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=88.81 E-value=1.4 Score=33.66 Aligned_cols=83 Identities=14% Similarity=0.071 Sum_probs=57.2
Q ss_pred HccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHH
Q 018521 108 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 187 (354)
Q Consensus 108 ~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~ 187 (354)
..|+|++|...+..+.-.+ +....-.+++..++.|...++|.+|-.++++ ..... .+ .. .....|+.+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~-----~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~--~~--~~--~~~l~a~~~ 68 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELD-----PTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP--SN--PD--IHYLLARCL 68 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHH-----CGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH--CH--HH--HHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHC-----CCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC--CC--HH--HHHHHHHHH
Confidence 3689999999888654221 1112566888899999999999999999999 22211 12 22 333559999
Q ss_pred HHHHHHHHHHHHHHH
Q 018521 188 DLKRKFLEAALRYYD 202 (354)
Q Consensus 188 ~~~r~fleAa~~y~e 202 (354)
..-++|-+|-..|.+
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 999999999888754
No 57
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=88.38 E-value=0.85 Score=33.15 Aligned_cols=65 Identities=15% Similarity=0.104 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccC-CHHHHHHHHHHhhch
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD-DAVNAEAFINKASFL 166 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~-D~~~a~~~~~Ka~~~ 166 (354)
.|.....+|.++...|++++|...+...- .++ ..-...+......|...+ ++.+|..+.+++..+
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai------~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAI------ELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHH------HHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 46677889999999999999999987421 112 223569999999999999 799999999998654
No 58
>PRK14574 hmsH outer membrane protein; Provisional
Probab=88.19 E-value=19 Score=39.96 Aligned_cols=98 Identities=7% Similarity=-0.016 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.....+|.+|...|++.+|..++..+.-.. ++. .+++.-.+.+|.+.+.+..|...++++.....+
T Consensus 103 ~~llalA~ly~~~gdyd~Aiely~kaL~~d-----P~n--~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~------- 168 (822)
T PRK14574 103 RGLASAARAYRNEKRWDQALALWQSSLKKD-----PTN--PDLISGMIMTQADAGRGGVVLKQATELAERDPT------- 168 (822)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-----CCC--HHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcc-------
Confidence 455667899999999999999999764211 111 345556699999999999999999999887543
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+.++...+.++....++.+|...|.++....+
T Consensus 169 ~~~~l~layL~~~~~~~~~AL~~~ekll~~~P 200 (822)
T PRK14574 169 VQNYMTLSYLNRATDRNYDALQASSEAVRLAP 200 (822)
T ss_pred hHHHHHHHHHHHhcchHHHHHHHHHHHHHhCC
Confidence 23334445566557778789999999998743
No 59
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=87.82 E-value=6 Score=35.77 Aligned_cols=100 Identities=12% Similarity=0.082 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHH-HhhccCC--HHHHHHHHHHhhchhcCCc
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIAR-LYLEDDD--AVNAEAFINKASFLVSSSQ 171 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~r-L~L~~~D--~~~a~~~~~Ka~~~~~~~~ 171 (354)
.+.....|+.+|...|++++|...+...- .+. ....+++...+. +|...|+ +..|...++++...-.+
T Consensus 72 ~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al------~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-- 142 (198)
T PRK10370 72 NSEQWALLGEYYLWRNDYDNALLAYRQAL------QLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-- 142 (198)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHH------HhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC--
Confidence 34577889999999999999999997321 111 234677777777 4567676 59999999999888664
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 172 ~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
++ ..+...|..+...++|-+|-..|..+....
T Consensus 143 ~~----~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~ 174 (198)
T PRK10370 143 EV----TALMLLASDAFMQADYAQAIELWQKVLDLN 174 (198)
T ss_pred Ch----hHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 22 345677889999999999999999998864
No 60
>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=87.59 E-value=42 Score=35.61 Aligned_cols=102 Identities=14% Similarity=-0.011 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc
Q 018521 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (354)
Q Consensus 92 E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~ 171 (354)
....+.+...++..+...|++++|...+....- ... .-.+.++..+++++..+++..|..+++++......
T Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~-~~~------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-- 191 (899)
T TIGR02917 121 DEGAAELLALRGLAYLGLGQLELAQKSYEQALA-IDP------RSLYAKLGLAQLALAENRFDEARALIDEVLTADPG-- 191 (899)
T ss_pred chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-cCC------CChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--
Confidence 344566677788888888888888888875421 111 11346777788888888888888888887654322
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 172 ~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+. ..+...|.++...++|-+|...|......
T Consensus 192 ~~----~~~~~~~~~~~~~g~~~~A~~~~~~a~~~ 222 (899)
T TIGR02917 192 NV----DALLLKGDLLLSLGNIELALAAYRKAIAL 222 (899)
T ss_pred Ch----HHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence 22 24455677788888888888888877653
No 61
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=87.33 E-value=2.8 Score=30.04 Aligned_cols=60 Identities=20% Similarity=0.126 Sum_probs=49.1
Q ss_pred HHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 142 QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 142 ~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
..++.++..+|+..|...++++.....+ + .......|.++...++|-+|...|.++....
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~--~----~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~ 61 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDPD--N----PEAWYLLGRILYQQGRYDEALAYYERALELD 61 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCSTT--H----HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCCC--C----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 4678999999999999999999888753 3 3456677999999999999998888887653
No 62
>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=87.31 E-value=1.1 Score=43.36 Aligned_cols=94 Identities=13% Similarity=0.116 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
+....|.++..+|++++|.+++.+. ..+|...-.+++||..+.++.|+..+++.... ++..+..
T Consensus 104 ~~~~~A~i~~~~~~~~~AL~~l~~~------------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~----~eD~~l~ 167 (290)
T PF04733_consen 104 VQLLAATILFHEGDYEEALKLLHKG------------GSLELLALAVQILLKMNRPDLAEKELKNMQQI----DEDSILT 167 (290)
T ss_dssp HHHHHHHHHCCCCHHHHHHCCCTTT------------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC----SCCHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHcc------------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCcHHHH
Confidence 5566788999999999999888631 23678888999999999999999999887654 2334444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.+-.....+.....+|-+|...|.|++.++
T Consensus 168 qLa~awv~l~~g~e~~~~A~y~f~El~~~~ 197 (290)
T PF04733_consen 168 QLAEAWVNLATGGEKYQDAFYIFEELSDKF 197 (290)
T ss_dssp HHHHHHHHHHHTTTCCCHHHHHHHHHHCCS
T ss_pred HHHHHHHHHHhCchhHHHHHHHHHHHHhcc
Confidence 444444444444557999999999998875
No 63
>PLN03218 maturation of RBCL 1; Provisional
Probab=87.00 E-value=56 Score=37.41 Aligned_cols=91 Identities=10% Similarity=0.023 Sum_probs=39.1
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHH
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKV 181 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~ 181 (354)
|...|.+.|++++|.+++.++.-.. +.+. ...|...+..|...+++..|..++++....-.. .+ ..-+.
T Consensus 620 LI~ay~k~G~~deAl~lf~eM~~~G----v~PD--~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~-pd----~~tyn 688 (1060)
T PLN03218 620 AVNSCSQKGDWDFALSIYDDMKKKG----VKPD--EVFFSALVDVAGHAGDLDKAFEILQDARKQGIK-LG----TVSYS 688 (1060)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHcC----CCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CC----HHHHH
Confidence 4444555555555555555443211 1111 123444445555555555555555544332111 01 11233
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 018521 182 CYARILDLKRKFLEAALRYYDI 203 (354)
Q Consensus 182 ~~~r~~~~~r~fleAa~~y~e~ 203 (354)
..+..|...+++.+|.+.|.++
T Consensus 689 sLI~ay~k~G~~eeA~~lf~eM 710 (1060)
T PLN03218 689 SLMGACSNAKNWKKALELYEDI 710 (1060)
T ss_pred HHHHHHHhCCCHHHHHHHHHHH
Confidence 4444444455555555555444
No 64
>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=86.87 E-value=44 Score=35.09 Aligned_cols=87 Identities=21% Similarity=0.089 Sum_probs=66.4
Q ss_pred hHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC
Q 018521 134 TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGD 213 (354)
Q Consensus 134 ~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~ 213 (354)
...+=.+.-.++.|-..||+.+|-.++++|...... .+.++..-||++-|.++|.+|+..+-+.-.
T Consensus 191 ~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt------~~ely~~KarilKh~G~~~~Aa~~~~~Ar~-------- 256 (517)
T PF12569_consen 191 STLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT------LVELYMTKARILKHAGDLKEAAEAMDEARE-------- 256 (517)
T ss_pred hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--------
Confidence 334556677799999999999999999999887543 346899999999999999999998887766
Q ss_pred cCCCHHHHHHHHHHHHHHHHhcCC
Q 018521 214 ETIDEEALEQALSAAVTCTILAAA 237 (354)
Q Consensus 214 ~~~d~~e~~~~L~~av~~~ILa~~ 237 (354)
.|..|| -.-+.++.+.+=+.-
T Consensus 257 --LD~~DR-yiNsK~aKy~LRa~~ 277 (517)
T PF12569_consen 257 --LDLADR-YINSKCAKYLLRAGR 277 (517)
T ss_pred --CChhhH-HHHHHHHHHHHHCCC
Confidence 466666 334445555555543
No 65
>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=86.61 E-value=4.7 Score=42.63 Aligned_cols=100 Identities=20% Similarity=0.074 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~ 173 (354)
..+.....++.++...|++++|...+...- +. ++ .-...|+....++...+++..|..+++++..... .++
T Consensus 329 ~~a~a~~~lg~~~~~~g~~~eA~~~~~kal-~l-----~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p--~~~ 399 (615)
T TIGR00990 329 KEAIALNLRGTFKCLKGKHLEALADLSKSI-EL-----DP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS--EDP 399 (615)
T ss_pred hhHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hc-----CC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCH
Confidence 344566778999999999999999988532 11 11 1235778889999999999999999999966533 233
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 174 ~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+ .+...|.++...++|-+|...|......
T Consensus 400 ~----~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 400 D----IYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred H----HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 3 4556788899999999999999988775
No 66
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=86.56 E-value=3.3 Score=42.48 Aligned_cols=90 Identities=18% Similarity=0.100 Sum_probs=66.2
Q ss_pred HHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHH
Q 018521 106 YESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYAR 185 (354)
Q Consensus 106 ~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r 185 (354)
+|+.|+.++|.++.-.++-= -...+++...++-+|-...|..+|-.++..++.++.. ||.+.-+ .|.
T Consensus 534 ~e~~~~ldeald~f~klh~i-------l~nn~evl~qianiye~led~aqaie~~~q~~slip~--dp~ilsk----l~d 600 (840)
T KOG2003|consen 534 AEALGNLDEALDCFLKLHAI-------LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPN--DPAILSK----LAD 600 (840)
T ss_pred HHHhcCHHHHHHHHHHHHHH-------HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCC--CHHHHHH----HHH
Confidence 45555555555544433210 0123567778889999999999999999999999875 6665433 477
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 018521 186 ILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 186 ~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+||.+++=..|.+|||+.|..++
T Consensus 601 lydqegdksqafq~~ydsyryfp 623 (840)
T KOG2003|consen 601 LYDQEGDKSQAFQCHYDSYRYFP 623 (840)
T ss_pred HhhcccchhhhhhhhhhcccccC
Confidence 89999999999999999999875
No 67
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=86.51 E-value=17 Score=39.00 Aligned_cols=92 Identities=11% Similarity=0.023 Sum_probs=72.9
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y 179 (354)
-.+.+.|.+.|++++|.+++.+.+.... ..+|-..+..|-..+++..|+...++....-.+ ....
T Consensus 466 ~~li~~l~r~G~~~eA~~~~~~~~~~p~---------~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~------~~~~ 530 (697)
T PLN03081 466 ACMIELLGREGLLDEAYAMIRRAPFKPT---------VNMWAALLTACRIHKNLELGRLAAEKLYGMGPE------KLNN 530 (697)
T ss_pred HhHHHHHHhcCCHHHHHHHHHHCCCCCC---------HHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC------CCcc
Confidence 3477889999999999999987654321 246888899999999999999998887544322 1235
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 180 KVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 180 ~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
|.+++.+|...++|.+|.+-+.+.-..
T Consensus 531 y~~L~~~y~~~G~~~~A~~v~~~m~~~ 557 (697)
T PLN03081 531 YVVLLNLYNSSGRQAEAAKVVETLKRK 557 (697)
T ss_pred hHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 778899999999999999999988764
No 68
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=86.38 E-value=2.4 Score=32.29 Aligned_cols=61 Identities=20% Similarity=0.170 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHh
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 163 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka 163 (354)
.......||..|-..|++++|..+++... .++.. .+.....+|.|++.++|..|...+.|+
T Consensus 24 ~~~~~~~la~~~~~~~~y~~A~~~~~~~~-------~~~~~-~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 24 NSAYLYNLAQCYFQQGKYEEAIELLQKLK-------LDPSN-PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHHHHTTHHHHHHHHHHCHT-------HHHCH-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHCCCHHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 34466779999999999999999998621 12222 344444599999999999999998875
No 69
>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=86.35 E-value=31 Score=36.72 Aligned_cols=132 Identities=16% Similarity=0.118 Sum_probs=91.4
Q ss_pred HHHHHHHHHhhc-cccchHHHHHHHHHHHHHHHH-HHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccC
Q 018521 74 KEIANYTLAQIQ-PRVVSFEEQVLIIREKLADLY-ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD 151 (354)
Q Consensus 74 ~~~~~~~l~~i~-~~~i~~E~e~a~l~~~LA~i~-E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~ 151 (354)
+..++.+|+.+. ..+.+. ++.|+++..||.++ ++-.++++|-..|..-..-+. +.--.+.|.....-.+|++...+
T Consensus 37 I~~ai~CL~~~~~~~~l~p-~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~-~~~~~d~k~~~~~ll~~i~~~~~ 114 (608)
T PF10345_consen 37 IATAIKCLEAVLKQFKLSP-RQEARVRLRLASILLEETENLDLAETYLEKAILLCE-RHRLTDLKFRCQFLLARIYFKTN 114 (608)
T ss_pred HHHHHHHHHHHhccCCCCH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHHHhcC
Confidence 566788888876 666765 56689999999996 577899999988874321111 11123456555555599998888
Q ss_pred CHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 152 DAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 152 D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
-.. |..+++++......-+.....-.|+.+.+..+...+++-.|...+..+.....
T Consensus 115 ~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~ 170 (608)
T PF10345_consen 115 PKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLAN 170 (608)
T ss_pred HHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhh
Confidence 887 99999998777765333333334444555555444899999999999998753
No 70
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=86.26 E-value=4.1 Score=39.17 Aligned_cols=100 Identities=12% Similarity=-0.044 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.....++.++...|++++|...+... .. ..++. ...+.....+|.+.|++..|..++.++...... ++...
T Consensus 115 ~~~~~~a~~~~~~G~~~~A~~~~~~a----l~--~~p~~-~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~ 185 (355)
T cd05804 115 YLLGMLAFGLEEAGQYDRAEEAARRA----LE--LNPDD-AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLR 185 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH----Hh--hCCCC-cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--Ccchh
Confidence 34557888999999999999988743 11 11111 345666788999999999999999999876543 34555
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
...+...|+++...+++-+|-..|.+...
T Consensus 186 ~~~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 186 GHNWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 66777889999999999999999988754
No 71
>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=86.08 E-value=5.9 Score=35.91 Aligned_cols=107 Identities=10% Similarity=-0.068 Sum_probs=69.3
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhc--------cCCHHHHHHHHHHhhchhcC
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLE--------DDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~--------~~D~~~a~~~~~Ka~~~~~~ 169 (354)
....+|..|...|++++|...+..+--...+ . ..-...+......+.. .+++..|...++++.....+
T Consensus 72 a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~---~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~ 147 (235)
T TIGR03302 72 AQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-H---PDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN 147 (235)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-C---CchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC
Confidence 4577899999999999999999965321111 1 1111223333334433 37899999999999877665
Q ss_pred Cch-HHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 170 SQQ-EVLNL----------QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 170 ~~~-~~lkl----------~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
... ++... ......|.++...++|.+|-..|.+....++
T Consensus 148 ~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p 197 (235)
T TIGR03302 148 SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYP 197 (235)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCC
Confidence 432 11111 1223567788888889999988888887653
No 72
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.68 E-value=6.5 Score=36.98 Aligned_cols=139 Identities=17% Similarity=0.093 Sum_probs=99.7
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCch
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~ 172 (354)
.+.+..+..||-=|...||...|-+-|.+. ++ .+..--..|+-.+-+|-..|+.+.|...++||..+-++.+
T Consensus 32 ~~aa~arlqLal~YL~~gd~~~A~~nlekA-L~------~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~G- 103 (250)
T COG3063 32 NEAAKARLQLALGYLQQGDYAQAKKNLEKA-LE------HDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNG- 103 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-HH------hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCcc-
Confidence 456788999999999999999998877632 11 1222245677778889999999999999999999877633
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCC-cchHHHHHhhhhc
Q 018521 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYKD 251 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~-~~rs~lL~~l~kd 251 (354)
++.+.| |-.+...++|-+|-+.|......+. .. +.-..+.++.+|++=+.-. .-+..+...+..|
T Consensus 104 -dVLNNY----G~FLC~qg~~~eA~q~F~~Al~~P~-------Y~--~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d 169 (250)
T COG3063 104 -DVLNNY----GAFLCAQGRPEEAMQQFERALADPA-------YG--EPSDTLENLGLCALKAGQFDQAEEYLKRALELD 169 (250)
T ss_pred -chhhhh----hHHHHhCCChHHHHHHHHHHHhCCC-------CC--CcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC
Confidence 333333 5567777799999999999998542 12 1235788899999866643 3444555556666
Q ss_pred cc
Q 018521 252 ER 253 (354)
Q Consensus 252 ~r 253 (354)
+.
T Consensus 170 p~ 171 (250)
T COG3063 170 PQ 171 (250)
T ss_pred cC
Confidence 53
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=84.96 E-value=32 Score=36.33 Aligned_cols=98 Identities=13% Similarity=0.038 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
..+...++.++...|++++|...+...-- +.+ .-...+.....++...|++..|..+++++...... +++
T Consensus 399 ~~~~~~lg~~~~~~g~~~~A~~~~~kal~------l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~--~~~- 468 (615)
T TIGR00990 399 PDIYYHRAQLHFIKGEFAQAGKDYQKSID------LDP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPE--APD- 468 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------cCc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--ChH-
Confidence 44667788888888888888888874321 111 12345667788888888899888888888766543 232
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.+...|.++...++|-+|...|......
T Consensus 469 ---~~~~lg~~~~~~g~~~~A~~~~~~Al~l 496 (615)
T TIGR00990 469 ---VYNYYGELLLDQNKFDEAIEKFDTAIEL 496 (615)
T ss_pred ---HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 3445688888889999988888887764
No 74
>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=84.61 E-value=51 Score=34.98 Aligned_cols=168 Identities=17% Similarity=0.080 Sum_probs=101.9
Q ss_pred hHHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHH
Q 018521 17 KIEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVL 96 (354)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a 96 (354)
..+.+-..-...+..++.+.-...++..+...-.-.-.+-.+........+.+ .-......+++. .+. ..
T Consensus 21 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~-~~~-------~~ 90 (899)
T TIGR02917 21 SPESLIEAAKSYLQKNKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYA--AAEKELRKALSL-GYP-------KN 90 (899)
T ss_pred CHHHHHHHHHHHHHcCChHhHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHc-CCC-------hh
Confidence 34445555555666666644433334433322222333444443322222221 222222333321 111 13
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.....++.++...|++++|...+.+... .++....+.+......+...+++..|...++++...... +.+
T Consensus 91 ~~~~~~a~~~~~~g~~~~a~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~-- 160 (899)
T TIGR02917 91 QVLPLLARAYLLQGKFQQVLDELPGKTL------LDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPR--SLY-- 160 (899)
T ss_pred hhHHHHHHHHHHCCCHHHHHHhhccccc------CCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--Chh--
Confidence 4567789999999999999999875432 234556778888999999999999999999999766443 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.+...|..+...++|-+|-..+.++...
T Consensus 161 --~~~~la~~~~~~~~~~~A~~~~~~~~~~ 188 (899)
T TIGR02917 161 --AKLGLAQLALAENRFDEARALIDEVLTA 188 (899)
T ss_pred --hHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 3455678888888999888888777653
No 75
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=84.50 E-value=28 Score=38.02 Aligned_cols=102 Identities=12% Similarity=0.011 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~ 173 (354)
+.......+|.++...|++++|...+.++.-.. +.. .++++..+.++...+++.+|...++++.....+ +.
T Consensus 357 ~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-----P~n--~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd--~~ 427 (765)
T PRK10049 357 DWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-----PGN--QGLRIDYASVLQARGWPRAAENELKKAEVLEPR--NI 427 (765)
T ss_pred hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC--Ch
Confidence 445567789999999999999999999763221 112 468999999999999999999999999988653 33
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 174 ~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
. ++...|..++..++|-+|-..+.++....+
T Consensus 428 ~----l~~~~a~~al~~~~~~~A~~~~~~ll~~~P 458 (765)
T PRK10049 428 N----LEVEQAWTALDLQEWRQMDVLTDDVVAREP 458 (765)
T ss_pred H----HHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence 3 555777789999999999999999998653
No 76
>PLN03077 Protein ECB2; Provisional
Probab=84.21 E-value=18 Score=39.82 Aligned_cols=94 Identities=10% Similarity=0.017 Sum_probs=74.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
..-.+.+.+.+.|++++|.+++.+++++.. ..+|--.+.-|-..++...++...+++..+-.+ ..
T Consensus 627 ~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd---------~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~------~~ 691 (857)
T PLN03077 627 HYACVVDLLGRAGKLTEAYNFINKMPITPD---------PAVWGALLNACRIHRHVELGELAAQHIFELDPN------SV 691 (857)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHCCCCCC---------HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCC------Cc
Confidence 345678899999999999999998865321 356777778888889999998888887765332 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
-+|..++.+|...++|-+|++.....-..
T Consensus 692 ~~y~ll~n~ya~~g~~~~a~~vr~~M~~~ 720 (857)
T PLN03077 692 GYYILLCNLYADAGKWDEVARVRKTMREN 720 (857)
T ss_pred chHHHHHHHHHHCCChHHHHHHHHHHHHc
Confidence 57888899999999999999998888663
No 77
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=83.45 E-value=3.5 Score=45.19 Aligned_cols=100 Identities=18% Similarity=0.151 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHHHHHHccCHHHHHHHhccccc-ccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC
Q 018521 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDL-DSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (354)
Q Consensus 92 E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~v-Et~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~ 170 (354)
...+.-+-..+|+.|-..|.+.+|.+.+..|-- |+++ -..+|.+++|+|.+.+.+..|..+++|+....++.
T Consensus 410 ~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~-------~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~ 482 (895)
T KOG2076|consen 410 VSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ-------NAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDN 482 (895)
T ss_pred hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc-------chhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCc
Confidence 566788999999999999999999999987632 3333 27899999999999999999999999998887753
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 171 QQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 204 (354)
Q Consensus 171 ~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~ 204 (354)
-|. +++. +-++-..+++-+|-.....++
T Consensus 483 ~D~--Ri~L----asl~~~~g~~EkalEtL~~~~ 510 (895)
T KOG2076|consen 483 LDA--RITL----ASLYQQLGNHEKALETLEQII 510 (895)
T ss_pred hhh--hhhH----HHHHHhcCCHHHHHHHHhccc
Confidence 333 3333 334444444445544444443
No 78
>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=83.19 E-value=8.8 Score=40.21 Aligned_cols=66 Identities=15% Similarity=0.016 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 136 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 136 Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.=|++|-++.++.+.|++.+|-.++.+....+.+ ++.+.+..|+++..-+++-+|...|.++....
T Consensus 3 ~SE~lLY~~~il~e~g~~~~AL~~L~~~~~~I~D------k~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN 68 (517)
T PF12569_consen 3 HSELLLYKNSILEEAGDYEEALEHLEKNEKQILD------KLAVLEKRAELLLKLGRKEEAEKIYRELIDRN 68 (517)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHhhhhhCCC------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 4478999999999999999999999998888776 67888999999999999999999999999964
No 79
>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=83.03 E-value=54 Score=32.83 Aligned_cols=98 Identities=16% Similarity=0.126 Sum_probs=67.1
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~ 174 (354)
..++...+|..+...|+.++|.+.+.+..- ..++.....+.+-..-..+..+|...+...+.++.....+ +++
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~-----~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~--~~~ 334 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLK-----KLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD--KPK 334 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHh-----hCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC--Chh
Confidence 467888899999999999999999985432 1122222111111122224457888888888888766553 453
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 175 LNLQYKVCYARILDLKRKFLEAALRYY 201 (354)
Q Consensus 175 lkl~y~~~~~r~~~~~r~fleAa~~y~ 201 (354)
..+..++|+++...++|-+|-..|.
T Consensus 335 --~~ll~sLg~l~~~~~~~~~A~~~le 359 (409)
T TIGR00540 335 --CCINRALGQLLMKHGEFIEAADAFK 359 (409)
T ss_pred --HHHHHHHHHHHHHcccHHHHHHHHH
Confidence 4678899999999999988877555
No 80
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=82.43 E-value=34 Score=35.40 Aligned_cols=94 Identities=14% Similarity=0.160 Sum_probs=63.4
Q ss_pred cCHHHHHHHhcccccc-cCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHH
Q 018521 110 QQWSKAAQMLSGIDLD-SGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILD 188 (354)
Q Consensus 110 gd~~eAa~iL~~i~vE-t~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~ 188 (354)
.++.=+++-+..|.-+ |-+ .+-.+.=+++|-.-+|+.||.||...--..-.....++..+..-. .+.|-.|-+.|+.
T Consensus 321 ~~Y~y~CdQ~KSiRQDLTVQ-~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~-~~EF~AYriLY~i 398 (540)
T KOG1861|consen 321 ANYAYLCDQFKSIRQDLTVQ-RIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGA-YLEFTAYRILYYI 398 (540)
T ss_pred ccHHHHHHHHHHHhhhhhhh-eeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCc-hhhHHHHHHHHHH
Confidence 4565555555554332 223 455666788999999999999999888777777777775433222 6677777777777
Q ss_pred HHHHHHHHHHHHHHHHh
Q 018521 189 LKRKFLEAALRYYDISQ 205 (354)
Q Consensus 189 ~~r~fleAa~~y~e~~~ 205 (354)
...++.+.-....++..
T Consensus 399 ~tkN~~di~sll~~lt~ 415 (540)
T KOG1861|consen 399 FTKNYPDILSLLRDLTE 415 (540)
T ss_pred HhcCchHHHHHHHhccH
Confidence 77777765555544443
No 81
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=82.30 E-value=4.3 Score=38.13 Aligned_cols=96 Identities=17% Similarity=0.109 Sum_probs=45.4
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y 179 (354)
..|+.+ ...|++.+|.+++. ..+.+. ..-.++...+.++...+|+.++...++++...... .-...|
T Consensus 82 ~~l~~l-~~~~~~~~A~~~~~----~~~~~~----~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~ 148 (280)
T PF13429_consen 82 ERLIQL-LQDGDPEEALKLAE----KAYERD----GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAA----PDSARF 148 (280)
T ss_dssp ---------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-------T-HHH
T ss_pred cccccc-cccccccccccccc----cccccc----cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCC----CCCHHH
Confidence 446666 68899999999986 333321 22356667788899999999999999998743221 123457
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 180 KVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 180 ~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+...|.++...+++.+|-..|.......+
T Consensus 149 ~~~~a~~~~~~G~~~~A~~~~~~al~~~P 177 (280)
T PF13429_consen 149 WLALAEIYEQLGDPDKALRDYRKALELDP 177 (280)
T ss_dssp HHHHHHHHHHCCHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence 88889999999999999999999998753
No 82
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.30 E-value=11 Score=36.26 Aligned_cols=129 Identities=16% Similarity=0.060 Sum_probs=87.1
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
....=|.+|...|++++|.+.+.. .+-+|...-.+.+.+...-..-|+.-++|.... ++.....
T Consensus 110 ~~l~aa~i~~~~~~~deAl~~~~~------------~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i----ded~tLt 173 (299)
T KOG3081|consen 110 DLLLAAIIYMHDGDFDEALKALHL------------GENLEAAALNVQILLKMHRFDLAEKELKKMQQI----DEDATLT 173 (299)
T ss_pred HHHHhhHHhhcCCChHHHHHHHhc------------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc----chHHHHH
Confidence 344557889999999999999862 244677777788888888888887777776554 4445555
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhcc
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDE 252 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~ 252 (354)
+.-...+.......++.+|.-.|.|.+..++ + -++.....|+.|..+-.+..-.+-+...+.+|+
T Consensus 174 QLA~awv~la~ggek~qdAfyifeE~s~k~~---------~-T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~ 238 (299)
T KOG3081|consen 174 QLAQAWVKLATGGEKIQDAFYIFEELSEKTP---------P-TPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA 238 (299)
T ss_pred HHHHHHHHHhccchhhhhHHHHHHHHhcccC---------C-ChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence 6777777777778888888888888887321 1 134455556666555555444444555555554
No 83
>PRK11189 lipoprotein NlpI; Provisional
Probab=82.28 E-value=14 Score=35.44 Aligned_cols=102 Identities=11% Similarity=-0.074 Sum_probs=77.9
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCch
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~ 172 (354)
++++.....++.+|...|++++|...+...- + ..+ .-.+.|.....++...+|+..|...++++..+..+ +
T Consensus 61 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al-~-----l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~--~ 131 (296)
T PRK11189 61 EERAQLHYERGVLYDSLGLRALARNDFSQAL-A-----LRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT--Y 131 (296)
T ss_pred HhhHHHHHHHHHHHHHCCCHHHHHHHHHHHH-H-----cCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--C
Confidence 5678888899999999999999988776321 1 111 11468888999999999999999999999877543 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 173 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.. .+...|.++...++|-+|.+.|.......
T Consensus 132 ~~----a~~~lg~~l~~~g~~~eA~~~~~~al~~~ 162 (296)
T PRK11189 132 NY----AYLNRGIALYYGGRYELAQDDLLAFYQDD 162 (296)
T ss_pred HH----HHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 21 33456777788899999999998888753
No 84
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=82.11 E-value=56 Score=32.45 Aligned_cols=101 Identities=20% Similarity=0.199 Sum_probs=71.4
Q ss_pred hhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCC
Q 018521 53 VSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID 132 (354)
Q Consensus 53 ~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~ 132 (354)
+||..++.+---|++=|++... ..++.++..+-+||.+ ..|.++|-+.|+.+.|.++=|.+- ++. .++
T Consensus 35 lsr~Yv~GlNfLLs~Q~dKAvd----lF~e~l~~d~~t~e~~-----ltLGnLfRsRGEvDRAIRiHQ~L~-~sp--dlT 102 (389)
T COG2956 35 LSRDYVKGLNFLLSNQPDKAVD----LFLEMLQEDPETFEAH-----LTLGNLFRSRGEVDRAIRIHQTLL-ESP--DLT 102 (389)
T ss_pred ccHHHHhHHHHHhhcCcchHHH----HHHHHHhcCchhhHHH-----HHHHHHHHhcchHHHHHHHHHHHh-cCC--CCc
Confidence 3444444443334443443322 2234445666667765 469999999999999999999763 333 468
Q ss_pred hhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhc
Q 018521 133 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASF 165 (354)
Q Consensus 133 ~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~ 165 (354)
..+|+-...+..|-|+..|=++||+.+++-...
T Consensus 103 ~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~d 135 (389)
T COG2956 103 FEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVD 135 (389)
T ss_pred hHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhc
Confidence 899999999999999999999999998876543
No 85
>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=81.33 E-value=2.3 Score=38.55 Aligned_cols=41 Identities=24% Similarity=0.362 Sum_probs=32.0
Q ss_pred hccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCC
Q 018521 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 313 k~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
+-=+-+.++.||.-||++++++-.-+-.+..+|+|.|-||-
T Consensus 109 K~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~Dd 149 (188)
T PF09756_consen 109 KEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDD 149 (188)
T ss_dssp HH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-T
T ss_pred HHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcC
Confidence 34456889999999999999999999999999999999984
No 86
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=81.08 E-value=14 Score=35.23 Aligned_cols=94 Identities=11% Similarity=0.040 Sum_probs=69.1
Q ss_pred HHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-hHHHHHHHHHHHHH
Q 018521 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYAR 185 (354)
Q Consensus 107 E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~-~~~lkl~y~~~~~r 185 (354)
.+.|+|++|...++.+. ..+. +..+.-..+.....+|...+|+..|..++.++.....+.+ .++- ....|.
T Consensus 154 ~~~~~y~~Ai~af~~fl-~~yP---~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA----l~klg~ 225 (263)
T PRK10803 154 QDKSRQDDAIVAFQNFV-KKYP---DSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA----MFKVGV 225 (263)
T ss_pred HhcCCHHHHHHHHHHHH-HHCc---CCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH----HHHHHH
Confidence 44699999999987653 2221 1123345667779999999999999999999988876532 2332 223477
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 018521 186 ILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 186 ~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
++...+++-+|...|.++...++
T Consensus 226 ~~~~~g~~~~A~~~~~~vi~~yP 248 (263)
T PRK10803 226 IMQDKGDTAKAKAVYQQVIKKYP 248 (263)
T ss_pred HHHHcCCHHHHHHHHHHHHHHCc
Confidence 78888999999999999998875
No 87
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=81.03 E-value=13 Score=34.87 Aligned_cols=62 Identities=18% Similarity=0.105 Sum_probs=27.9
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
.+.++...|+|+++..++..+. ... ....-..+|...++++...|++.+|...++|+.....
T Consensus 116 ~l~~~~~~~~~~~~~~~l~~~~--~~~---~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P 177 (280)
T PF13429_consen 116 ALQLYYRLGDYDEAEELLEKLE--ELP---AAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDP 177 (280)
T ss_dssp --H-HHHTT-HHHHHHHHHHHH--H-T------T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHhHHHHHHHHHHHHH--hcc---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence 4445555556666555555432 000 1112244555555556666666666666666555544
No 88
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=80.60 E-value=3.4 Score=32.11 Aligned_cols=37 Identities=5% Similarity=0.032 Sum_probs=33.4
Q ss_pred hhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 312 sk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
-..+-+.+...||..|+.|++-+|.++.+++.-|++.
T Consensus 11 l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkve 47 (78)
T PRK15431 11 LALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAV 47 (78)
T ss_pred HHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeE
Confidence 3456789999999999999999999999999999985
No 89
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=80.60 E-value=15 Score=42.08 Aligned_cols=96 Identities=11% Similarity=0.008 Sum_probs=65.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
+...||.++++.|++++|...+..+.-... ...+.++..+++|...+++..|...++++.....+ ++.
T Consensus 605 ~~~~La~~~~~~g~~~~A~~~y~~al~~~P-------~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~--~~~--- 672 (1157)
T PRK11447 605 IDLTLADWAQQRGDYAAARAAYQRVLTREP-------GNADARLGLIEVDIAQGDLAAARAQLAKLPATAND--SLN--- 672 (1157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC--ChH---
Confidence 445677777777777777777765432111 12456777788888888888888888877654322 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.....|.++...+++-+|.+.|..+...
T Consensus 673 -~~~~la~~~~~~g~~~eA~~~~~~al~~ 700 (1157)
T PRK11447 673 -TQRRVALAWAALGDTAAAQRTFNRLIPQ 700 (1157)
T ss_pred -HHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence 2334677888888888888888887664
No 90
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=80.57 E-value=5.4 Score=29.83 Aligned_cols=45 Identities=11% Similarity=0.158 Sum_probs=35.6
Q ss_pred HHHHHHHhhcccc--ccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 305 EHNLLSASKLYTN--ISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 305 EHNi~~isk~Y~~--Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
+..|+.+-+--.. ++...||+.||++...+.+.+.+|..+|.+..
T Consensus 8 ~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 8 EEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 3344444343334 99999999999999999999999999998854
No 91
>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=80.44 E-value=13 Score=33.12 Aligned_cols=31 Identities=32% Similarity=0.367 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHhhcccc-ccHHHHHHHhCC
Q 018521 299 LDRAMIEHNLLSASKLYTN-ISFEELGTLLGI 329 (354)
Q Consensus 299 L~~~viEHNi~~isk~Y~~-Itl~~La~LL~l 329 (354)
+-..|+.+-+..+++.|.+ |+++.|+++||+
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 5568999999999999999 999999999984
No 92
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=80.19 E-value=10 Score=27.49 Aligned_cols=56 Identities=20% Similarity=0.179 Sum_probs=47.1
Q ss_pred HHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 145 RLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 145 rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
++|+..+||..|..++.++....++ ++ ..+...|.++...++|.+|...|......
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p~--~~----~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDPD--DP----ELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCcc--cc----hhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 5789999999999999999988654 22 34556799999999999999999998874
No 93
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=80.00 E-value=13 Score=36.89 Aligned_cols=94 Identities=12% Similarity=-0.086 Sum_probs=72.2
Q ss_pred HHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHH
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~ 180 (354)
..|.-....|++.+|...+...--.. + .-...+......|+..+++..|...++++..+... ++. .+
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 45777888999999999887542111 1 12467888899999999999999999999887543 222 34
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 181 VCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 181 ~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
...|.++...++|-+|...|.......
T Consensus 74 ~~lg~~~~~lg~~~eA~~~~~~al~l~ 100 (356)
T PLN03088 74 LRKGTACMKLEEYQTAKAALEKGASLA 100 (356)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence 456889999999999999999988753
No 94
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=79.99 E-value=11 Score=42.63 Aligned_cols=95 Identities=12% Similarity=-0.016 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.-....|..+..+||+.+|...+.... ..++.. .+.++..+++|+..|++.+|..+++|+...-. +|.
T Consensus 45 ~~~f~~a~~~~~~Gd~~~A~~~l~~Al------~~dP~n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP--~n~--- 112 (987)
T PRK09782 45 YPRLDKALKAQKNNDEATAIREFEYIH------QQVPDN-IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHP--GDA--- 112 (987)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHH------HhCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc--ccH---
Confidence 334555677788899999999998542 223344 77889999999999999999999999988854 233
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
.|+...+.+ ++|-+|+..|.++...++
T Consensus 113 -~~~~~La~i----~~~~kA~~~ye~l~~~~P 139 (987)
T PRK09782 113 -RLERSLAAI----PVEVKSVTTVEELLAQQK 139 (987)
T ss_pred -HHHHHHHHh----ccChhHHHHHHHHHHhCC
Confidence 344434555 999999999999998754
No 95
>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=79.82 E-value=4.5 Score=31.80 Aligned_cols=69 Identities=12% Similarity=0.046 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
.....++.++.+.|++.+|.+.+..+.-...+ .......+....+++...+++..|..+++++.....+
T Consensus 40 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~ 108 (119)
T TIGR02795 40 NAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK----SPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPG 108 (119)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC----CCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcC
Confidence 45677999999999999999999965422111 1233566788889999999999999999999888654
No 96
>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=79.71 E-value=5.7 Score=28.48 Aligned_cols=55 Identities=15% Similarity=0.051 Sum_probs=44.2
Q ss_pred hccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 148 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 148 L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+..|||..|..+++++.....+ +++. +..+|.++...++|-+|...+..+....+
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~--~~~~----~~~la~~~~~~g~~~~A~~~l~~~~~~~~ 56 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD--NPEA----RLLLAQCYLKQGQYDEAEELLERLLKQDP 56 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT--SHHH----HHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred hhccCHHHHHHHHHHHHHHCCC--CHHH----HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 5789999999999999888664 4443 33678999999999999999999988653
No 97
>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=78.67 E-value=4.9 Score=33.79 Aligned_cols=76 Identities=13% Similarity=0.104 Sum_probs=57.5
Q ss_pred ccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhch
Q 018521 87 RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (354)
Q Consensus 87 ~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~ 166 (354)
..-.++.....+...++..+...|++++|...+...-- . +..--+.|...||.|...|+...|..++++....
T Consensus 53 ~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~------~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~ 125 (146)
T PF03704_consen 53 ERERLRELYLDALERLAEALLEAGDYEEALRLLQRALA------L-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRR 125 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH------H-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHh------c-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 33456777777888899999999999999999885421 0 1122357888899999999999999999999887
Q ss_pred hcC
Q 018521 167 VSS 169 (354)
Q Consensus 167 ~~~ 169 (354)
+.+
T Consensus 126 l~~ 128 (146)
T PF03704_consen 126 LRE 128 (146)
T ss_dssp HHH
T ss_pred HHH
Confidence 764
No 98
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=78.56 E-value=28 Score=29.56 Aligned_cols=94 Identities=13% Similarity=0.032 Sum_probs=73.7
Q ss_pred HHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHH
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 180 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~ 180 (354)
.++..+...|++++|...+...--- +..-.+.+.....++...|++..|...++++...-.+ +++ .+
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~-------~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~--~~~----a~ 95 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMA-------QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS--HPE----PV 95 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHc-------CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CcH----HH
Confidence 4688889999999999998753211 1223578899999999999999999999999987543 333 34
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 181 VCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 181 ~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
...|..+...+++-+|...|.....-.
T Consensus 96 ~~lg~~l~~~g~~~eAi~~~~~Al~~~ 122 (144)
T PRK15359 96 YQTGVCLKMMGEPGLAREAFQTAIKMS 122 (144)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 456778888999999999999987753
No 99
>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=78.51 E-value=63 Score=30.79 Aligned_cols=73 Identities=12% Similarity=0.054 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhc
Q 018521 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF 165 (354)
Q Consensus 90 ~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~ 165 (354)
....+.+.....+|++.-+.|.+.-|...|..+.--.. ........+.++.+++.-..|+...|-..++....
T Consensus 140 ~~~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~---~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~ 212 (352)
T PF02259_consen 140 LLPEELAETWLKFAKLARKAGNFQLALSALNRLFQLNP---SSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK 212 (352)
T ss_pred cchhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCC---cccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45567888999999999999999999999986532110 01111567888899999999999888887776655
No 100
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=77.42 E-value=12 Score=42.97 Aligned_cols=103 Identities=15% Similarity=0.016 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
......|+.+|...|++++|...+..+. +... .-...+...++++...+++.+|..+++++.....+.+...-
T Consensus 637 ~~a~~~la~~~~~~g~~~eA~~~l~~ll-~~~p------~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~ 709 (1157)
T PRK11447 637 ADARLGLIEVDIAQGDLAAARAQLAKLP-ATAN------DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSME 709 (1157)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHh-ccCC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchh
Confidence 4567789999999999999999998553 1111 12345667788999999999999999999887654221111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
....+.-.|+++...+++-+|...|.....
T Consensus 710 ~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~ 739 (1157)
T PRK11447 710 SALVLRDAARFEAQTGQPQQALETYKDAMV 739 (1157)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 233444558999999999999999988864
No 101
>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=77.17 E-value=8.9 Score=26.13 Aligned_cols=32 Identities=19% Similarity=0.292 Sum_probs=28.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
..+|..+||+.+|+|..-+-..+.+|+.+|-+
T Consensus 16 ~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 16 PRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp TTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 45999999999999999999999999999976
No 102
>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=76.98 E-value=35 Score=34.60 Aligned_cols=96 Identities=19% Similarity=0.154 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~ 174 (354)
...|...|.+++...+.+++|.+++.++..... ++...++|+++..++-.+|-.+++++...... +
T Consensus 168 ~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~p----------ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~--d-- 233 (395)
T PF09295_consen 168 NNYLVDTLLKYLSLTQRYDEAIELLEKLRERDP----------EVAVLLARVYLLMNEEVEAIRLLNEALKENPQ--D-- 233 (395)
T ss_pred chHHHHHHHHHHhhcccHHHHHHHHHHHHhcCC----------cHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC--C--
Confidence 366888889999999999999999997653221 35666899999999999999999998854432 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 175 lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
......+|+.+..+++|..|..........
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 334457888899999988887777666654
No 103
>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=76.97 E-value=15 Score=25.91 Aligned_cols=62 Identities=19% Similarity=0.121 Sum_probs=49.0
Q ss_pred HHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 139 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 139 ~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.+..+...+...+++..|..++.++...... ++ ......|.++...++|-+|-..|......
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~~~~~~a~~~~~~~~~~ 63 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPD--NA----DAYYNLAAAYYKLGKYEEALEDYEKALEL 63 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCc--cH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4667788899999999999999998766543 22 34556788888999999999888887764
No 104
>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=75.59 E-value=9.1 Score=29.49 Aligned_cols=33 Identities=27% Similarity=0.391 Sum_probs=29.9
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
+|.++||+.+|+|+..+++++.++...|-+..+
T Consensus 26 ~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~ 58 (83)
T PF02082_consen 26 VSSKEIAERLGISPSYLRKILQKLKKAGLIESS 58 (83)
T ss_dssp BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEec
Confidence 999999999999999999999999999987653
No 105
>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=75.58 E-value=14 Score=29.48 Aligned_cols=35 Identities=6% Similarity=0.077 Sum_probs=32.7
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.-..+|-.+||+++|++.+-+-+.+.+|...|-|.
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~ 78 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF 78 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 56789999999999999999999999999999886
No 106
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=75.54 E-value=91 Score=31.11 Aligned_cols=92 Identities=11% Similarity=0.010 Sum_probs=64.9
Q ss_pred HHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHH
Q 018521 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 182 (354)
Q Consensus 103 A~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~ 182 (354)
|..-...|++++|...+.... ..+++..+-..+...++++..+|+..|..++++......+ ++. ....
T Consensus 125 A~aA~~~g~~~~A~~~l~~A~------~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~--~~~----al~l 192 (398)
T PRK10747 125 AEAAQQRGDEARANQHLERAA------ELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR--HPE----VLRL 192 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHH------hcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CHH----HHHH
Confidence 444488888888888887542 1233344455566788999999999999999988777654 332 3345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 183 YARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 183 ~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.+..+...++|-+|...+..+-..
T Consensus 193 l~~~~~~~gdw~~a~~~l~~l~k~ 216 (398)
T PRK10747 193 AEQAYIRTGAWSSLLDILPSMAKA 216 (398)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHc
Confidence 567778889998888888777764
No 107
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=75.00 E-value=5.9 Score=26.49 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=29.8
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.++...||+.+|++...+-+.+..|..+|-+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999885
No 108
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=74.97 E-value=6.9 Score=28.47 Aligned_cols=61 Identities=18% Similarity=0.106 Sum_probs=49.1
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
|+.+|...++|++|.+++..+-.- + ..-...+..-.+++...|++..|...+.++.....+
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~------~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~ 61 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALEL------D-PDDPELWLQRARCLFQLGRYEEALEDLERALELSPD 61 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHh------C-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence 568899999999999999854321 1 123567888899999999999999999999977664
No 109
>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=74.77 E-value=67 Score=34.17 Aligned_cols=132 Identities=15% Similarity=0.069 Sum_probs=83.1
Q ss_pred HHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhh-ccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHH
Q 018521 112 WSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYL-EDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLK 190 (354)
Q Consensus 112 ~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L-~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~ 190 (354)
+.-|.++|+-+-- +..++++....+.++.+++++ +.+++..|+.++.|+..+....+..++|..-....++++-..
T Consensus 37 I~~ai~CL~~~~~---~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~ 113 (608)
T PF10345_consen 37 IATAIKCLEAVLK---QFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKT 113 (608)
T ss_pred HHHHHHHHHHHhc---cCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhc
Confidence 4556666664432 236899999999999999999 899999999999999888776666777777777777777655
Q ss_pred HHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcc-hHHHHHhhhhccc
Q 018521 191 RKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQ-RSRVLATLYKDER 253 (354)
Q Consensus 191 r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~-rs~lL~~l~kd~r 253 (354)
+... |-+.-.+...... ......|.-+.+..-+...+...++. -.+.+..+...++
T Consensus 114 ~~~~-a~~~l~~~I~~~~------~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~ 170 (608)
T PF10345_consen 114 NPKA-ALKNLDKAIEDSE------TYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLAN 170 (608)
T ss_pred CHHH-HHHHHHHHHHHHh------ccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhh
Confidence 5444 4444444343321 11233465666654333333332222 2334555555443
No 110
>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=74.27 E-value=2.8 Score=28.89 Aligned_cols=25 Identities=20% Similarity=0.214 Sum_probs=23.0
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccc
Q 018521 99 REKLADLYESEQQWSKAAQMLSGID 123 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~ 123 (354)
+..||+.|-+.||.+.|.++|.++-
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl 26 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVI 26 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHH
Confidence 4679999999999999999999886
No 111
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.04 E-value=83 Score=29.97 Aligned_cols=111 Identities=19% Similarity=0.261 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcc---cccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSG---IDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~---i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
++.+.|...=|++|--..+|..|-..... +++-++ ++..-...|.+-. -|....|+.+|-..+.|+..++-+
T Consensus 31 eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~----skhDaat~YveA~-~cykk~~~~eAv~cL~~aieIyt~ 105 (288)
T KOG1586|consen 31 EEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAG----SKHDAATTYVEAA-NCYKKVDPEEAVNCLEKAIEIYTD 105 (288)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcC----CchhHHHHHHHHH-HHhhccChHHHHHHHHHHHHHHHh
Confidence 45667777778887777777776665542 233322 3444455566544 455566999999999999998887
Q ss_pred CchHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhh
Q 018521 170 SQQEVLNLQYKVCYARILDLK-RKFLEAALRYYDISQIQK 208 (354)
Q Consensus 170 ~~~~~lkl~y~~~~~r~~~~~-r~fleAa~~y~e~~~t~~ 208 (354)
.+.-..-.+|+...|.||-.+ .+|-.|-.+|-..-..|.
T Consensus 106 ~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk 145 (288)
T KOG1586|consen 106 MGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYK 145 (288)
T ss_pred hhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHc
Confidence 776667778888999999988 788888888888777775
No 112
>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=73.97 E-value=11 Score=26.72 Aligned_cols=46 Identities=20% Similarity=0.251 Sum_probs=36.7
Q ss_pred HHHHHHHhhcccc--ccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 305 EHNLLSASKLYTN--ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 305 EHNi~~isk~Y~~--Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
+..++.+-..+.. ++..+|++.+|+++.-+-..+.+|+..|-+.-.
T Consensus 7 q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 7 QFRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 4555555555555 999999999999999999999999999987544
No 113
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=73.59 E-value=3.7 Score=26.37 Aligned_cols=22 Identities=18% Similarity=0.433 Sum_probs=18.9
Q ss_pred HHHHHHHHHccCHHHHHHHhcc
Q 018521 100 EKLADLYESEQQWSKAAQMLSG 121 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~ 121 (354)
..||.+|.+.|+|++|.++.+.
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~ 24 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQ 24 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHH
Confidence 4699999999999999999874
No 114
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=72.98 E-value=71 Score=28.68 Aligned_cols=107 Identities=10% Similarity=0.014 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.-....|.-+...|+|.+|.+.+..+.- .+. ....--+..+.++..|...+||..|...+++-.......+.-+ .
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 EALYQKALEALQQGDYEEAIKLFEKLID-RYP---NSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-Y 80 (203)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHH-H-T---TSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-H
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH-HCC---CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-h
Confidence 3445678888899999999999998753 222 1122334556779999999999999999999888877654322 2
Q ss_pred HHHHHHHHHHHHH---------HHHHHHHHHHHHHHHhhhh
Q 018521 177 LQYKVCYARILDL---------KRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 177 l~y~~~~~r~~~~---------~r~fleAa~~y~e~~~t~~ 208 (354)
..|...++.+... .+...+|-..|.++...++
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 2333333322221 2233455555555555554
No 115
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.78 E-value=79 Score=30.35 Aligned_cols=114 Identities=19% Similarity=0.102 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC--
Q 018521 93 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-- 170 (354)
Q Consensus 93 ~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~-- 170 (354)
.|+..+-++=+.+|.+.|..+-|+-.|..----+ ....++.-+.+|-+-.-+..+.+....|-..+.|+++..-..
T Consensus 88 sEvvdl~eKAs~lY~E~GspdtAAmaleKAak~l--env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~k 165 (308)
T KOG1585|consen 88 SEVVDLYEKASELYVECGSPDTAAMALEKAAKAL--ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEK 165 (308)
T ss_pred HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHH
Confidence 3445566666777777776544443332110000 023445555666666666655555555666666555443221
Q ss_pred ------------------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 171 ------------------QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 171 ------------------~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
..---..+-++..+.+|.+.++|..|-++|.+.++.+.
T Consensus 166 f~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~ 221 (308)
T KOG1585|consen 166 FTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPA 221 (308)
T ss_pred hhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCcc
Confidence 11111223345556778889999999999999888653
No 116
>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=72.77 E-value=4.9 Score=30.87 Aligned_cols=38 Identities=11% Similarity=0.043 Sum_probs=34.0
Q ss_pred HHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 310 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 310 ~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
.+++++...|..++|+.||+|+.-+...+..+...|++
T Consensus 25 ~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 25 ALAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 34468899999999999999999999999999988876
No 117
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=72.74 E-value=21 Score=39.74 Aligned_cols=102 Identities=10% Similarity=0.073 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
+-..||..|...||+..+..+....-.- +.....+.+=|-...|.|-..|||.+|..|+-.+...-.+. -. -
T Consensus 272 ~l~~LAn~fyfK~dy~~v~~la~~ai~~----t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~--~~-l- 343 (1018)
T KOG2002|consen 272 ALNHLANHFYFKKDYERVWHLAEHAIKN----TENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN--FV-L- 343 (1018)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHHh----hhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC--cc-c-
Confidence 5677999999999999988877643222 23456677788889999999999999999999887765432 01 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
=+.-.|.++++++++-++..+|..++.+.+
T Consensus 344 -~~~GlgQm~i~~~dle~s~~~fEkv~k~~p 373 (1018)
T KOG2002|consen 344 -PLVGLGQMYIKRGDLEESKFCFEKVLKQLP 373 (1018)
T ss_pred -cccchhHHHHHhchHHHHHHHHHHHHHhCc
Confidence 112348999999999999999999999765
No 118
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=72.62 E-value=77 Score=32.05 Aligned_cols=160 Identities=16% Similarity=0.070 Sum_probs=99.7
Q ss_pred HHHHHHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChH-HHHHHHHHHHHhhccccchHHHHHH
Q 018521 18 IEQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPE-TQKEIANYTLAQIQPRVVSFEEQVL 96 (354)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~-~~~~~~~~~l~~i~~~~i~~E~e~a 96 (354)
-..|..+|++.-+.++.++|+.+-..+-.. +--+-.+...++..+-.+.++ .-.++.+++|..--+..
T Consensus 229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~---lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~-------- 297 (400)
T COG3071 229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRK---LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR-------- 297 (400)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHhccHH---hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--------
Confidence 457888999998888888888887766421 223344566677777777643 44777777777543322
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
++...... .-||.+.-.+.+..= + +..+++. ..+...-|||+..++|.+|+.+++++.....+..|+.
T Consensus 298 -L~~~~~~l--~~~d~~~l~k~~e~~-l----~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~-- 365 (400)
T COG3071 298 -LCRLIPRL--RPGDPEPLIKAAEKW-L----KQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYA-- 365 (400)
T ss_pred -HHHHHhhc--CCCCchHHHHHHHHH-H----HhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHH--
Confidence 21112111 112222211111100 0 0111111 6788889999999999999999999988877655554
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
..|..++..++--+|.+++.+...
T Consensus 366 -----~la~~~~~~g~~~~A~~~r~e~L~ 389 (400)
T COG3071 366 -----ELADALDQLGEPEEAEQVRREALL 389 (400)
T ss_pred -----HHHHHHHHcCChHHHHHHHHHHHH
Confidence 447778888888888888887764
No 119
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=72.61 E-value=26 Score=34.85 Aligned_cols=97 Identities=13% Similarity=0.129 Sum_probs=79.6
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
-..++++.|.+-|-..+|.+.|+. ++....-.+.++...+.|-..+.+.+|-..+..-...+.. .+
T Consensus 225 Wk~Q~gkCylrLgm~r~Aekqlqs--------sL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~------~V 290 (478)
T KOG1129|consen 225 WKQQMGKCYLRLGMPRRAEKQLQS--------SLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF------DV 290 (478)
T ss_pred HHHHHHHHHHHhcChhhhHHHHHH--------HhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc------hh
Confidence 456789999999999999999983 4444555788999999999999999998777766665543 35
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
.|..-+||++-.-.++-+|.+.|..+.+-.+
T Consensus 291 T~l~g~ARi~eam~~~~~a~~lYk~vlk~~~ 321 (478)
T KOG1129|consen 291 TYLLGQARIHEAMEQQEDALQLYKLVLKLHP 321 (478)
T ss_pred hhhhhhHHHHHHHHhHHHHHHHHHHHHhcCC
Confidence 6888899999999999999999999988544
No 120
>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=72.55 E-value=6.6 Score=28.28 Aligned_cols=34 Identities=12% Similarity=0.228 Sum_probs=31.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
..++...||+.+|++..-+.+.+.+|..+|-|..
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 3589999999999999999999999999998853
No 121
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=71.97 E-value=27 Score=39.08 Aligned_cols=103 Identities=12% Similarity=-0.035 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~ 173 (354)
-....+..|...|-..|++++|..++.+ .++... ..+++|.-..-+|+..+++..+-.. ++...+.+..+|
T Consensus 29 ~n~~a~~~Li~~~~~~~~~deai~i~~~-~l~~~P------~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~ 99 (906)
T PRK14720 29 SKFKELDDLIDAYKSENLTDEAKDICEE-HLKEHK------KSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKW 99 (906)
T ss_pred chHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHhCC------cceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccch
Confidence 3345678899999999999999999873 233222 3344555554499999998888777 777777777788
Q ss_pred HHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHh
Q 018521 174 VLNLQYKVCYARILDLK-------------RKFLEAALRYYDISQ 205 (354)
Q Consensus 174 ~lkl~y~~~~~r~~~~~-------------r~fleAa~~y~e~~~ 205 (354)
.+.-.|+.|++.++..+ +++.+|-..|-++..
T Consensus 100 ~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~ 144 (906)
T PRK14720 100 AIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVK 144 (906)
T ss_pred hHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh
Confidence 88889999999988888 555555555555444
No 122
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=71.78 E-value=32 Score=28.77 Aligned_cols=102 Identities=18% Similarity=0.004 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
++...+|..+-..|+.++|......- ++ .| ++.....+.++.-..-+...|++..|...+.+....+.+ .++.
T Consensus 2 ~~~~~~A~a~d~~G~~~~Ai~~Y~~A-l~-~g--L~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~---~~~~ 74 (120)
T PF12688_consen 2 RALYELAWAHDSLGREEEAIPLYRRA-LA-AG--LSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPD---DELN 74 (120)
T ss_pred chHHHHHHHHHhcCCHHHHHHHHHHH-HH-cC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC---cccc
Confidence 35567899999999999999999854 22 22 456667788999999999999999999999998766543 2334
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
...+...+..+...+++.+|-..+....-
T Consensus 75 ~~l~~f~Al~L~~~gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 75 AALRVFLALALYNLGRPKEALEWLLEALA 103 (120)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 45556667777888888888888877654
No 123
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=71.21 E-value=1.5e+02 Score=31.78 Aligned_cols=58 Identities=10% Similarity=-0.035 Sum_probs=34.7
Q ss_pred HHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 140 CVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 140 ~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+--.+..|...|++..|..++++.... ...-+..++..|...+++.+|-..|.+....
T Consensus 363 ~~~Li~~y~k~G~~~~A~~vf~~m~~~---------d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~ 420 (697)
T PLN03081 363 NTALVDLYSKWGRMEDARNVFDRMPRK---------NLISWNALIAGYGNHGRGTKAVEMFERMIAE 420 (697)
T ss_pred hHHHHHHHHHCCCHHHHHHHHHhCCCC---------CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 334455555666666666666554321 1123456677777777788888877777653
No 124
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=70.46 E-value=46 Score=36.37 Aligned_cols=103 Identities=12% Similarity=0.039 Sum_probs=78.9
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccC--------CccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSG--------MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~--------~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~ 170 (354)
...|+..+.+.|++++|...+..+.-... ....+...+.+.+...+.++...+|+..|...+.++.....+
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 45567778999999999999886643211 112334567888889999999999999999999999877654
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 171 QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 171 ~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
+++ .....|.++...+++-+|-+.|.++....
T Consensus 392 -n~~----l~~~lA~l~~~~g~~~~A~~~l~~al~l~ 423 (765)
T PRK10049 392 -NQG----LRIDYASVLQARGWPRAAENELKKAEVLE 423 (765)
T ss_pred -CHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence 343 45567888999999999999998888753
No 125
>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=70.44 E-value=11 Score=27.07 Aligned_cols=36 Identities=14% Similarity=0.177 Sum_probs=32.5
Q ss_pred hhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 312 sk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
-+--..++.++||+.||+|+.=+-.-+..|...|.+
T Consensus 9 l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i 44 (57)
T PF08220_consen 9 LKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLI 44 (57)
T ss_pred HHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 345578999999999999999999999999999976
No 126
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=70.34 E-value=94 Score=29.00 Aligned_cols=107 Identities=13% Similarity=0.063 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHh---h-------------ccCCHHHHH---
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY---L-------------EDDDAVNAE--- 157 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~---L-------------~~~D~~~a~--- 157 (354)
.....||..|-+.|++.+|...++..- . ..+...+++..+-..=++ + ...|...++
T Consensus 70 ~a~l~la~ayy~~~~y~~A~~~~e~fi-~----~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~ 144 (243)
T PRK10866 70 QVQLDLIYAYYKNADLPLAQAAIDRFI-R----LNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAF 144 (243)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHH-H----hCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHH
Confidence 346789999999999999999997542 2 233444555333222222 1 223555444
Q ss_pred HHHHHhhchhcCCc-hH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 158 AFINKASFLVSSSQ-QE----------VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 158 ~~~~Ka~~~~~~~~-~~----------~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
..+.+....+.+.+ -+ +...+.-..-|++|...++|..|..+|.++...++
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 55556666665543 11 12223334568899999999999999999999886
No 127
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=69.71 E-value=59 Score=38.06 Aligned_cols=146 Identities=15% Similarity=0.136 Sum_probs=94.7
Q ss_pred HHhhcCCC-HHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCC---hHHHHHHHHHHHHhh-ccc-----cchHHHHH
Q 018521 26 SSVISSND-IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLE---PETQKEIANYTLAQI-QPR-----VVSFEEQV 95 (354)
Q Consensus 26 ~~~~~~~~-~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~---~~~~~~~~~~~l~~i-~~~-----~i~~E~e~ 95 (354)
..+.++++ .=.|..|+.+.++-+ -+--.|.+-. .+|+.++ .+..-.++...|+.- .=| +=-||.-.
T Consensus 1449 rlvrssPNSSi~WI~YMaf~Lels-EiekAR~iae---rAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1449 RLVRSSPNSSILWIRYMAFHLELS-EIEKARKIAE---RALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred HHHhcCCCcchHHHHHHHHHhhhh-hhHHHHHHHH---HHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence 34455554 458899999987432 3566788877 4455552 233333433333321 001 00244432
Q ss_pred H-----HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC
Q 018521 96 L-----IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (354)
Q Consensus 96 a-----~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~ 170 (354)
. .+-.+|+.+|+.-+.+.+|.++|+.+- .-| ++...+|+.-+...+..++...|+..+++|.....+-
T Consensus 1525 qycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~-KKF------~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~ 1597 (1710)
T KOG1070|consen 1525 QYCDAYTVHLKLLGIYEKSEKNDEADELLRLML-KKF------GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQ 1597 (1710)
T ss_pred HhcchHHHHHHHHHHHHHhhcchhHHHHHHHHH-HHh------cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchh
Confidence 2 244789999999999999999998432 211 3568899999999999999999999999998888765
Q ss_pred chHHHHHHHHHH
Q 018521 171 QQEVLNLQYKVC 182 (354)
Q Consensus 171 ~~~~lkl~y~~~ 182 (354)
.+-+..-+|-.+
T Consensus 1598 eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1598 EHVEFISKFAQL 1609 (1710)
T ss_pred hhHHHHHHHHHH
Confidence 555555444333
No 128
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=69.50 E-value=12 Score=29.87 Aligned_cols=34 Identities=24% Similarity=0.388 Sum_probs=31.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
-.++++.+||+.+|+|+..+-+.+.+|..+|-+.
T Consensus 15 ~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 15 DARISLAELAKKVGLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred hCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 4689999999999999999999999999999775
No 129
>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=69.43 E-value=58 Score=30.96 Aligned_cols=130 Identities=14% Similarity=0.081 Sum_probs=85.4
Q ss_pred HHHHHHHHHHhcCCCch----hhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccc-hHHHHHHHHHHHHHHHHHHc
Q 018521 35 VQAKKFIDHMLSDDVPL----VVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVV-SFEEQVLIIREKLADLYESE 109 (354)
Q Consensus 35 ~~l~~~~~~~~~~~~~~----v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i-~~E~e~a~l~~~LA~i~E~~ 109 (354)
..|..++.++++++.+. ......|...++-++..| .--++.-.++|++..+-= .+-.-.-. =..|=+-+-+.
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 HALELLLHTVLEEEADSSEDSPIPDALLPRVISLLQEFP--EYLEIVVNCARKTEVRYWPYLFDYLGS-PRDLFEECLEN 192 (258)
T ss_pred HHHHHHHHHHHhhcccccccccchHHHHHHHHHHHHcCc--chHHHHHHHHHhhHHHHHHHHHHhcCC-HHHHHHHHHHc
Confidence 57778888888877765 667788888888887765 234555566665543221 11111111 12344455668
Q ss_pred cCHHHHHHHhcccc-cccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 110 QQWSKAAQMLSGID-LDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 110 gd~~eAa~iL~~i~-vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
|+.+.|+..|-=++ .|... .+.+++-.+..++.++..++.+||.-|...++=...+-.
T Consensus 193 ~~l~tAa~yLlVl~~~e~~~-~~~~~~~~~~al~LL~~a~~~~~w~Lc~eL~RFL~~ld~ 251 (258)
T PF07064_consen 193 GNLKTAASYLLVLQNLEGSS-VVKDEESRQCALRLLVMALESGDWDLCFELVRFLKALDP 251 (258)
T ss_pred CcHHHHHHHHHHHHhcCCcc-hhhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCc
Confidence 99999999886554 23222 333556688999999999999999999998876665543
No 130
>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=68.41 E-value=10 Score=24.36 Aligned_cols=30 Identities=10% Similarity=0.346 Sum_probs=24.5
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
+|-++||..+|++++-+=..++++-.+|-|
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 567889999999999999999999988854
No 131
>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=67.97 E-value=9.5 Score=28.33 Aligned_cols=33 Identities=21% Similarity=0.400 Sum_probs=30.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
-.+|-+.||.++|+|.+-+-+.+.+|..+|-|.
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~ 59 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIE 59 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 457899999999999999999999999999885
No 132
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=67.59 E-value=14 Score=24.91 Aligned_cols=35 Identities=20% Similarity=0.301 Sum_probs=31.4
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
..++..+|++.||+++.-+...+..|...|.+...
T Consensus 13 ~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 13 GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 34899999999999999999999999999988643
No 133
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=67.09 E-value=95 Score=27.82 Aligned_cols=106 Identities=10% Similarity=-0.002 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHH-HHHHHHH-----------hhccCCHHHHHHHHHHhhc
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSK-CVQIARL-----------YLEDDDAVNAEAFINKASF 165 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~-~l~i~rL-----------~L~~~D~~~a~~~~~Ka~~ 165 (354)
....+|..+...|++.+|...++... ..+. ...+++. +..+... ....+...+|...++....
T Consensus 44 A~l~la~a~y~~~~y~~A~~~~~~fi-~~yP----~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~ 118 (203)
T PF13525_consen 44 AQLMLAYAYYKQGDYEEAIAAYERFI-KLYP----NSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIK 118 (203)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH-HH-T----T-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH-HHCC----CCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHH
Confidence 45688999999999999999998653 2332 2222221 1111111 1222233456666666666
Q ss_pred hhcCCch-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 166 LVSSSQQ-----------EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 166 ~~~~~~~-----------~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
.+.+.+. .+.....-...|+.|.-.++|..|..+|..+...++
T Consensus 119 ~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp 172 (203)
T PF13525_consen 119 RYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYP 172 (203)
T ss_dssp H-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHST
T ss_pred HCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence 6665431 112222334458999999999999999999999886
No 134
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=67.09 E-value=17 Score=24.91 Aligned_cols=30 Identities=23% Similarity=0.496 Sum_probs=25.4
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHh
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIF 343 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~ 343 (354)
||..-|+.++|+.+|+|...+-....+.+.
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 699999999999999999998888776653
No 135
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=67.08 E-value=6.9 Score=26.16 Aligned_cols=25 Identities=24% Similarity=0.157 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHccCHHHHHHHhccc
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGI 122 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i 122 (354)
....||..|...|++++|.++++.+
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~ 27 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRA 27 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 5678999999999999999999864
No 136
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=66.58 E-value=17 Score=34.65 Aligned_cols=70 Identities=10% Similarity=0.041 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~ 170 (354)
.....|+..|...|++++|...+..+- ..+. +....-+.++.....|...||+..|..+++++...+.+.
T Consensus 181 ~A~y~LG~~y~~~g~~~~A~~~f~~vv-~~yP---~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s 250 (263)
T PRK10803 181 NANYWLGQLNYNKGKKDDAAYYFASVV-KNYP---KSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGT 250 (263)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHH-HHCC---CCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 456899999999999999999988653 2111 123446778888999999999999999999998887754
No 137
>PLN03077 Protein ECB2; Provisional
Probab=66.49 E-value=2.1e+02 Score=31.55 Aligned_cols=166 Identities=11% Similarity=0.049 Sum_probs=85.1
Q ss_pred HHHHHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHH
Q 018521 19 EQYKHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLII 98 (354)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l 98 (354)
..|..++......++++.-+.+...+..... .....+.+.++..+-+... .+.+..+++.+..+.+ ..
T Consensus 289 ~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~--~~d~~~~n~Li~~y~k~g~---~~~A~~vf~~m~~~d~-------~s 356 (857)
T PLN03077 289 MTITSVISACELLGDERLGREMHGYVVKTGF--AVDVSVCNSLIQMYLSLGS---WGEAEKVFSRMETKDA-------VS 356 (857)
T ss_pred hHHHHHHHHHHhcCChHHHHHHHHHHHHhCC--ccchHHHHHHHHHHHhcCC---HHHHHHHHhhCCCCCe-------ee
Confidence 3577777776666666555555555543322 2233344444444433211 1112222333332221 12
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCc----------------cCCh-------------hHHHHHHHHHHHHhhc
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMR----------------VIDD-------------TFRLSKCVQIARLYLE 149 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~----------------~~~~-------------~eKle~~l~i~rL~L~ 149 (354)
.-.+...|.+.|++++|.+++.++.-..... .++. ..-..++--.+..|..
T Consensus 357 ~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k 436 (857)
T PLN03077 357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK 436 (857)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence 3345556666677777776666553211000 0000 0012345556777888
Q ss_pred cCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 150 DDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 150 ~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.+++..|..++++.... | ..-+..++.-+...+++.+|-..|.+...
T Consensus 437 ~g~~~~A~~vf~~m~~~-----d----~vs~~~mi~~~~~~g~~~eA~~lf~~m~~ 483 (857)
T PLN03077 437 CKCIDKALEVFHNIPEK-----D----VISWTSIIAGLRLNNRCFEALIFFRQMLL 483 (857)
T ss_pred cCCHHHHHHHHHhCCCC-----C----eeeHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 88888888887775432 1 11234556666777788888888887754
No 138
>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=66.22 E-value=17 Score=25.62 Aligned_cols=48 Identities=21% Similarity=0.236 Sum_probs=38.0
Q ss_pred HHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecC
Q 018521 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 305 EHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akID 352 (354)
|..++.+-.-+..++..+||+.+++++.-+=..+.+|+..|-+.-..|
T Consensus 5 q~~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~ 52 (59)
T PF01047_consen 5 QFRILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERD 52 (59)
T ss_dssp HHHHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEE
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccC
Confidence 344444455567799999999999999999999999999998865443
No 139
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=66.16 E-value=13 Score=27.63 Aligned_cols=34 Identities=15% Similarity=0.217 Sum_probs=30.3
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
..-++-.++|+.+|+|.-.+-.++..+..+|++.
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 6778999999999999999999999999999985
No 140
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=66.05 E-value=11 Score=32.90 Aligned_cols=40 Identities=18% Similarity=0.280 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHH
Q 018521 299 LDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIA 338 (354)
Q Consensus 299 L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~l 338 (354)
|+.+-+..-..-.++.|++|+.+.+|..+|+|++++-+.+
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 4444455555667889999999999999999999987654
No 141
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=66.01 E-value=26 Score=34.68 Aligned_cols=83 Identities=12% Similarity=0.067 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
+.+...+|..|...|++++|...+...-- +.+ .-...++....+|...++|..|...++++..+... +++.
T Consensus 36 ~~a~~~~a~~~~~~g~~~eAl~~~~~Al~------l~P-~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~--~~~~ 106 (356)
T PLN03088 36 AELYADRAQANIKLGNFTEAVADANKAIE------LDP-SLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPG--DSRF 106 (356)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC--CHHH
Confidence 45667889999999999999998875421 111 12346788899999999999999999999987654 5666
Q ss_pred HHHHHHHHHHHH
Q 018521 176 NLQYKVCYARIL 187 (354)
Q Consensus 176 kl~y~~~~~r~~ 187 (354)
......|..++.
T Consensus 107 ~~~l~~~~~kl~ 118 (356)
T PLN03088 107 TKLIKECDEKIA 118 (356)
T ss_pred HHHHHHHHHHHH
Confidence 555566655553
No 142
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=65.93 E-value=6.5 Score=23.82 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=21.7
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccc
Q 018521 99 REKLADLYESEQQWSKAAQMLSGID 123 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~ 123 (354)
...+|.++...|++++|.+.++.+-
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~ 27 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLI 27 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHH
Confidence 4678999999999999999998653
No 143
>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=65.78 E-value=14 Score=26.43 Aligned_cols=33 Identities=12% Similarity=0.241 Sum_probs=30.9
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
++.+++++.+|++...+-..+.+|...|-+...
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~ 53 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESR 53 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEE
Confidence 999999999999999999999999999988754
No 144
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=65.64 E-value=34 Score=29.45 Aligned_cols=88 Identities=10% Similarity=-0.073 Sum_probs=64.6
Q ss_pred CHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHH
Q 018521 111 QWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLK 190 (354)
Q Consensus 111 d~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~ 190 (354)
++..+...|..+- +..+...+...+.....++...+++..|...++++.....+ +.....-+...|.++...
T Consensus 14 ~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~---~~~~~~~~~~lg~~~~~~ 85 (168)
T CHL00033 14 TFTIVADILLRIL-----PTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEID---PYDRSYILYNIGLIHTSN 85 (168)
T ss_pred ccccchhhhhHhc-----cCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcccc---chhhHHHHHHHHHHHHHc
Confidence 3445555554331 13345667899999999999999999999999999877532 211223456679999999
Q ss_pred HHHHHHHHHHHHHHhh
Q 018521 191 RKFLEAALRYYDISQI 206 (354)
Q Consensus 191 r~fleAa~~y~e~~~t 206 (354)
++|-+|-..|......
T Consensus 86 g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 86 GEHTKALEYYFQALER 101 (168)
T ss_pred CCHHHHHHHHHHHHHh
Confidence 9999999999888764
No 145
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.57 E-value=41 Score=31.97 Aligned_cols=103 Identities=13% Similarity=-0.022 Sum_probs=72.9
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC-chHHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQ 178 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~-~~~~lkl~ 178 (354)
.+.|+++.+.|+..+|+....+-- ..| |..++.+-++..-+-+.+|...|.+.+|-.+---+..++... .|-+--+.
T Consensus 58 lkaA~~h~k~~skhDaat~YveA~-~cy-kk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~ 135 (288)
T KOG1586|consen 58 LKAADLHLKAGSKHDAATTYVEAA-NCY-KKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIA 135 (288)
T ss_pred HHHHHHHHhcCCchhHHHHHHHHH-HHh-hccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHH
Confidence 467888889999888888887432 233 356888889999999999999999999988877777776643 34455566
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDIS 204 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~ 204 (354)
+|+.-|.+|-.+..--.|-+||..+-
T Consensus 136 ~YE~Aae~yk~ees~ssANKC~lKvA 161 (288)
T KOG1586|consen 136 HYEQAAEYYKGEESVSSANKCLLKVA 161 (288)
T ss_pred HHHHHHHHHcchhhhhhHHHHHHHHH
Confidence 66666666655555445555554443
No 146
>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=65.56 E-value=9.9 Score=23.34 Aligned_cols=26 Identities=15% Similarity=0.225 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcc
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSG 121 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~ 121 (354)
|++...+|.+|...|++++|.+.+..
T Consensus 1 a~~~~~lg~~y~~~~~~~~A~~~~~~ 26 (34)
T PF13181_consen 1 AEAYYNLGKIYEQLGDYEEALEYFEK 26 (34)
T ss_dssp -HHHHHHHHHHHHTTSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 45678899999999999999998873
No 147
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.02 E-value=70 Score=29.47 Aligned_cols=97 Identities=19% Similarity=0.115 Sum_probs=76.9
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHH
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~ 178 (354)
.+.+|+.+-+.|++++|...|+.. -+.+-+..-|.-.-+|.+|+-+..+.++.|-..++-+. ++....+
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 ALELAKAEVEANNLDKAEAQLKQA----LAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-------EESWAAI 160 (207)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHH----HccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-------cccHHHH
Confidence 578999999999999999999832 11244667778888999999999999999976665443 3333456
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+-+..|-++...++=.+|-..|-.....
T Consensus 161 ~~elrGDill~kg~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 161 VAELRGDILLAKGDKQEARAAYEKALES 188 (207)
T ss_pred HHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence 6777899999999999999999988885
No 148
>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=64.69 E-value=12 Score=23.02 Aligned_cols=30 Identities=20% Similarity=0.224 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhccCCHHHHHHHHHHhhchh
Q 018521 138 SKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (354)
Q Consensus 138 e~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~ 167 (354)
++|..+.++|...+|+..|..+++|+...-
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~ 31 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALELN 31 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 578888999999999999999999887653
No 149
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=64.28 E-value=68 Score=32.04 Aligned_cols=93 Identities=13% Similarity=0.118 Sum_probs=67.4
Q ss_pred HHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHH
Q 018521 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 182 (354)
Q Consensus 103 A~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~ 182 (354)
+-+...+|||.+|.+.+..-+-. + +...-.++--++.....||+..|..++.++.....+ .. +-....
T Consensus 91 gl~a~~eGd~~~A~k~l~~~~~~------~-~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~---~~--~~~~l~ 158 (398)
T PRK10747 91 ALLKLAEGDYQQVEKLMTRNADH------A-EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADN---DQ--LPVEIT 158 (398)
T ss_pred HHHHHhCCCHHHHHHHHHHHHhc------c-cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc---ch--HHHHHH
Confidence 44455689999999888742211 1 124556788889989999999999999999754332 21 122234
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 183 YARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 183 ~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.++++...++|-+|...+.......
T Consensus 159 ~a~l~l~~g~~~~Al~~l~~~~~~~ 183 (398)
T PRK10747 159 RVRIQLARNENHAARHGVDKLLEVA 183 (398)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhcC
Confidence 5889999999999999998888764
No 150
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=63.21 E-value=60 Score=32.44 Aligned_cols=91 Identities=9% Similarity=0.021 Sum_probs=42.9
Q ss_pred HHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHH
Q 018521 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 182 (354)
Q Consensus 103 A~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~ 182 (354)
|.+....|++++|...|.... + ..++..+.+-+..+++++..+|+..|...+.+......+ ++. -...
T Consensus 125 A~aa~~~g~~~~A~~~l~~a~-~-----~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~--~~~----~l~l 192 (409)
T TIGR00540 125 AEAAQQRGDEARANQHLEEAA-E-----LAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPR--HKE----VLKL 192 (409)
T ss_pred HHHHHHCCCHHHHHHHHHHHH-H-----hCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHH----HHHH
Confidence 444445555555555554321 0 112222333333455556666666665555555554332 222 1234
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 018521 183 YARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 183 ~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.+.++...++|-+|-..+..+..
T Consensus 193 l~~~~~~~~d~~~a~~~l~~l~k 215 (409)
T TIGR00540 193 AEEAYIRSGAWQALDDIIDNMAK 215 (409)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHH
Confidence 55566666666555555444444
No 151
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.86 E-value=11 Score=32.46 Aligned_cols=33 Identities=15% Similarity=0.305 Sum_probs=31.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.++++.+||+.+|+|+..+-.-+-+|..+|-|.
T Consensus 22 ~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 22 ARTPYAELAKQFGVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 789999999999999999999999999999986
No 152
>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=62.68 E-value=26 Score=33.63 Aligned_cols=67 Identities=16% Similarity=0.164 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhc
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF 165 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~ 165 (354)
......++.++...|++++|...+.... +... . +.......|...+++++..||+..|..+++++..
T Consensus 148 ~~~~~~la~i~~~~g~~~eA~~~l~~~l-~~~~-~-~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 148 AWAVHAVAHVLEMQGRFKEGIAFMESWR-DTWD-C-SSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred cHHHHHHHHHHHHcCCHHHHHHHHHhhh-hccC-C-CcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 3456788999999999999999998542 1111 1 2344466788899999999999999999999843
No 153
>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=62.60 E-value=11 Score=22.37 Aligned_cols=24 Identities=21% Similarity=0.145 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhc
Q 018521 97 IIREKLADLYESEQQWSKAAQMLS 120 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~ 120 (354)
+....||..+-..|++++|...+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 456789999999999999998875
No 154
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=62.23 E-value=29 Score=31.96 Aligned_cols=75 Identities=19% Similarity=0.246 Sum_probs=60.4
Q ss_pred ChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC---------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 132 DDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS---------QQEVLNLQYKVCYARILDLKRKFLEAALRYYD 202 (354)
Q Consensus 132 ~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~---------~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e 202 (354)
....+..++|+++-||-+.+|...-..++++|...+.+. +..+..+-| +.|-++.--++|.+|.+-|-.
T Consensus 113 ~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~Y--LigeL~rrlg~~~eA~~~fs~ 190 (214)
T PF09986_consen 113 KPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLY--LIGELNRRLGNYDEAKRWFSR 190 (214)
T ss_pred CHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHH--HHHHHHHHhCCHHHHHHHHHH
Confidence 456889999999999999999999999999997655331 233445444 778889999999999999999
Q ss_pred HHhhhh
Q 018521 203 ISQIQK 208 (354)
Q Consensus 203 ~~~t~~ 208 (354)
++....
T Consensus 191 vi~~~~ 196 (214)
T PF09986_consen 191 VIGSKK 196 (214)
T ss_pred HHcCCC
Confidence 998654
No 155
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=61.83 E-value=19 Score=24.93 Aligned_cols=32 Identities=25% Similarity=0.339 Sum_probs=29.5
Q ss_pred cc-cHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NI-SFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~I-tl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.+ |...||+.+|+|..-+.+.+.+|..+|-+.
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 45 899999999999999999999999999875
No 156
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=61.14 E-value=61 Score=25.99 Aligned_cols=52 Identities=13% Similarity=0.047 Sum_probs=37.1
Q ss_pred HHHHHHHhhchhcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 156 AEAFINKASFLVSSS-QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 156 a~~~~~Ka~~~~~~~-~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
...|++++.+....+ +|++-++||+.|.+.+...+--=-+.-.+|.++|..-
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L 73 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDAL 73 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777776666543 6888899999999988876554444555677777643
No 157
>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=60.96 E-value=31 Score=24.33 Aligned_cols=30 Identities=20% Similarity=0.214 Sum_probs=28.0
Q ss_pred cHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 319 SFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 319 tl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
+...||..+|+|..-+-+.+.+|...|-+.
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 158
>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=60.42 E-value=1.1e+02 Score=29.57 Aligned_cols=130 Identities=12% Similarity=0.031 Sum_probs=83.4
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhH-HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~e-Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
+.-....+|...|..+.|.+.+..++ .++++. -..+..-.+-++.-.+.+..|--++.-....+.. .+.
T Consensus 133 ~~al~Vqi~L~~~R~dlA~k~l~~~~------~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~--t~~-- 202 (290)
T PF04733_consen 133 LLALAVQILLKMNRPDLAEKELKNMQ------QIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGS--TPK-- 202 (290)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH------CCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHH--
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH------hcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCC--CHH--
Confidence 33456788999999999999998653 233332 2223333344444455688898888887776532 333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCC-cchHHHHHhhhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYK 250 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~-~~rs~lL~~l~k 250 (354)
....+|..+++.++|-+|-....+..... +.+ -.+|-+.++|..+..-. ..-.+.+..+..
T Consensus 203 --~lng~A~~~l~~~~~~eAe~~L~~al~~~----------~~~-~d~LaNliv~~~~~gk~~~~~~~~l~qL~~ 264 (290)
T PF04733_consen 203 --LLNGLAVCHLQLGHYEEAEELLEEALEKD----------PND-PDTLANLIVCSLHLGKPTEAAERYLSQLKQ 264 (290)
T ss_dssp --HHHHHHHHHHHCT-HHHHHHHHHHHCCC-----------CCH-HHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred --HHHHHHHHHHHhCCHHHHHHHHHHHHHhc----------cCC-HHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence 35688999999999999999888876532 222 24677777777666554 456678888775
No 159
>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=60.28 E-value=29 Score=24.90 Aligned_cols=29 Identities=28% Similarity=0.418 Sum_probs=24.8
Q ss_pred ccc---cccHHHHHHHhCCChHHHHHHHHhhH
Q 018521 314 LYT---NISFEELGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 314 ~Y~---~Itl~~La~LL~ls~~eaE~~ls~MI 342 (354)
||+ .+++++||+.||+|+.-+...+.+..
T Consensus 17 Yfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 17 YFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 675 89999999999999998888876654
No 160
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=60.19 E-value=2.5e+02 Score=30.23 Aligned_cols=99 Identities=17% Similarity=-0.019 Sum_probs=70.7
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
+.....++.++...|++++|...+...- +.. ++. ...+....+.+...+++..|...++++...... +.
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 VRIVTLYADALIRTGQNEKAIPLLQQSL-ATH----PDL--PYVRAMYARALRQVGQYTAASDEFVQLAREKGV--TS-- 352 (656)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHH-HhC----CCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc--ch--
Confidence 4567788999999999999998887542 111 111 234555688888999999999999888765432 11
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.+....|..+...+++-+|-..|.......
T Consensus 353 --~~~~~~a~al~~~G~~deA~~~l~~al~~~ 382 (656)
T PRK15174 353 --KWNRYAAAALLQAGKTSEAESVFEHYIQAR 382 (656)
T ss_pred --HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 233445777888889999999998887753
No 161
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=58.96 E-value=26 Score=30.65 Aligned_cols=44 Identities=23% Similarity=0.300 Sum_probs=37.0
Q ss_pred HHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 306 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 306 HNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
+-|+.+-+-=.++|+.+||+.+|+|+.-+-.-+.+|..+|.|.+
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEE
Confidence 33444445667999999999999999999999999999998864
No 162
>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=57.75 E-value=27 Score=29.43 Aligned_cols=33 Identities=9% Similarity=0.235 Sum_probs=30.6
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
-++.++||+.+++|+..+++++..|...|-+..
T Consensus 25 ~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s 57 (135)
T TIGR02010 25 PVTLADISERQGISLSYLEQLFAKLRKAGLVKS 57 (135)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEE
Confidence 499999999999999999999999999997753
No 163
>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=57.19 E-value=22 Score=24.77 Aligned_cols=38 Identities=11% Similarity=0.257 Sum_probs=31.2
Q ss_pred HhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 311 isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
++..=..+++.+|++.+|+|..-+-.++..|+..|-+.
T Consensus 12 l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 12 LAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp HHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 33444558999999999999999999999999999764
No 164
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=57.09 E-value=56 Score=33.93 Aligned_cols=97 Identities=21% Similarity=0.201 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc--h
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ--Q 172 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~--~ 172 (354)
..|+...|++.|++-+..++|.+.....-. .++.+ -..+.+.+.||=+.+|...|..++.|-......++ +
T Consensus 431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~------~~dte-~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~ 503 (559)
T KOG1155|consen 431 DSRLWVALGECYEKLNRLEEAIKCYKRAIL------LGDTE-GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID 503 (559)
T ss_pred chHHHHHHHHHHHHhccHHHHHHHHHHHHh------ccccc-hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence 467889999999999999999999985321 11121 24788999999999999999999999877653221 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 173 EVLNLQYKVCYARILDLKRKFLEAALR 199 (354)
Q Consensus 173 ~~lkl~y~~~~~r~~~~~r~fleAa~~ 199 (354)
++ ..+-....|.+.--.++|-+|+-.
T Consensus 504 ~~-t~ka~~fLA~~f~k~~~~~~As~Y 529 (559)
T KOG1155|consen 504 DE-TIKARLFLAEYFKKMKDFDEASYY 529 (559)
T ss_pred hH-HHHHHHHHHHHHHhhcchHHHHHH
Confidence 32 122233356666666666665543
No 165
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=57.07 E-value=1e+02 Score=24.82 Aligned_cols=64 Identities=13% Similarity=0.078 Sum_probs=50.6
Q ss_pred HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 137 le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.+.....+..++..+++..|...+.++...... ++ ..+...|..+...++|-+|...|......
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 567788899999999999999999998765432 33 34456788888889999999888887663
No 166
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=57.07 E-value=28 Score=23.07 Aligned_cols=32 Identities=22% Similarity=0.257 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 138 SKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 138 e~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
+.++...+.|...|++.+|...++++.....+
T Consensus 2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~ 33 (44)
T PF13428_consen 2 AAWLALARAYRRLGQPDEAERLLRRALALDPD 33 (44)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 35777899999999999999999999988764
No 167
>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=57.02 E-value=19 Score=21.81 Aligned_cols=30 Identities=17% Similarity=0.131 Sum_probs=20.6
Q ss_pred HHHHHHHHHhhccCCHHHHHHHHHHhhchh
Q 018521 138 SKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (354)
Q Consensus 138 e~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~ 167 (354)
+.+..+..+|...+++.+|..+++|+..+.
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 456667777777777777777777776553
No 168
>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=56.87 E-value=19 Score=21.79 Aligned_cols=26 Identities=12% Similarity=0.067 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcc
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSG 121 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~ 121 (354)
|.....+|.++...|++++|.+.+..
T Consensus 1 a~~~~~lg~~~~~~~~~~~A~~~~~~ 26 (34)
T PF07719_consen 1 AEAWYYLGQAYYQLGNYEEAIEYFEK 26 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 35667899999999999999988863
No 169
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=56.74 E-value=55 Score=28.30 Aligned_cols=72 Identities=10% Similarity=-0.084 Sum_probs=57.8
Q ss_pred hhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 133 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 133 ~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
...+...+......|...+|+..|..+++++.....+..+ ....+..+|.++...++|.+|...|.+.....
T Consensus 31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~ 102 (172)
T PRK02603 31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPND---RSYILYNMGIIYASNGEHDKALEYYHQALELN 102 (172)
T ss_pred HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccch---HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 4566778899999999999999999999999776433211 23466778999999999999999999888753
No 170
>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=56.54 E-value=16 Score=24.80 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=20.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhh
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~M 341 (354)
.+.++..||+.+|+|+..+-.=+.+|
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 78999999999999999887766655
No 171
>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=56.48 E-value=36 Score=24.79 Aligned_cols=33 Identities=12% Similarity=0.329 Sum_probs=29.7
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
..|+...||+.||+++.-+=+++.+|...|-+.
T Consensus 21 ~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 21 GPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp SSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 679999999999999999999999999999764
No 172
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=56.30 E-value=29 Score=30.12 Aligned_cols=45 Identities=27% Similarity=0.270 Sum_probs=37.7
Q ss_pred HHHHHHHhhccc--cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 305 EHNLLSASKLYT--NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 305 EHNi~~isk~Y~--~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
=|-+.-++.... -++.+.+|+..|+|+..++++++.|...|-+..
T Consensus 11 l~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S 57 (150)
T COG1959 11 LRALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKS 57 (150)
T ss_pred HHHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEe
Confidence 455566666554 588999999999999999999999999998764
No 173
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=55.90 E-value=15 Score=22.07 Aligned_cols=30 Identities=17% Similarity=0.141 Sum_probs=21.9
Q ss_pred HHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 139 KCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 139 ~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
.++.++++|...||+.+|..+++++.....
T Consensus 2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 2 ALYRLARCYYKLGDYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp HHHHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence 456677788888888888888777766544
No 174
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=55.05 E-value=3.7e+02 Score=30.69 Aligned_cols=161 Identities=11% Similarity=-0.014 Sum_probs=87.8
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.++..||.+|...|+.++|...+...-- .++ .-..+++....+ +++.+|-.++.+......+..+.-+.
T Consensus 79 ~~~~~LA~~yl~~g~~~~A~~~~~kAv~------ldP-~n~~~~~~La~i----~~~~kA~~~ye~l~~~~P~n~~~~~~ 147 (987)
T PRK09782 79 PLTLYLAEAYRHFGHDDRARLLLEDQLK------RHP-GDARLERSLAAI----PVEVKSVTTVEELLAQQKACDAVPTL 147 (987)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHh------cCc-ccHHHHHHHHHh----ccChhHHHHHHHHHHhCCCChhHHHH
Confidence 3458899999999999999888874311 111 112222222222 66667777777766655543222111
Q ss_pred H----------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHH
Q 018521 177 L----------------------------------QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALE 222 (354)
Q Consensus 177 l----------------------------------~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~ 222 (354)
+ ..+....++|...++|.+|-..|-++....+ .++.. .
T Consensus 148 la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p-------l~~~~-~ 219 (987)
T PRK09782 148 RCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT-------LSAAE-R 219 (987)
T ss_pred HHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC-------CCHHH-H
Confidence 1 1233447788888888888888888888642 24333 3
Q ss_pred HHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHHHHhcChhhHHHHHHhhchh
Q 018521 223 QALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPH 287 (354)
Q Consensus 223 ~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~i~~f~~~L~~h 287 (354)
..|.. +++..+.. +-+..+++ +.+. ....+.-.+.+.++...+.+.+.+.|...
T Consensus 220 ~~L~~-ay~q~l~~------~~a~al~~-~~lk---~d~~l~~ala~~yi~~G~~~~A~~~L~~~ 273 (987)
T PRK09782 220 RQWFD-VLLAGQLD------DRLLALQS-QGIF---TDPQSRITYATALAYRGEKARLQHYLIEN 273 (987)
T ss_pred HHHHH-HHHHhhCH------HHHHHHhc-hhcc---cCHHHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 44444 44432222 33344455 3222 33344445555556666666666666543
No 175
>PRK14574 hmsH outer membrane protein; Provisional
Probab=53.58 E-value=3.6e+02 Score=30.11 Aligned_cols=153 Identities=12% Similarity=0.063 Sum_probs=101.7
Q ss_pred CCCchhhhHHHHHHHHHHhcC-------CChHHHHHHHHHHHHhhccccc-hHHHHH-------------HHHHHHHHHH
Q 018521 47 DDVPLVVSRQLLQTFAQELGR-------LEPETQKEIANYTLAQIQPRVV-SFEEQV-------------LIIREKLADL 105 (354)
Q Consensus 47 ~~~~~v~sr~~l~~~~~~l~~-------l~~~~~~~~~~~~l~~i~~~~i-~~E~e~-------------a~l~~~LA~i 105 (354)
|.+.....|.-.+++++.... +|+-.+..++-.-|..-+|.+- .+-.+. ...+..|--.
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 444456666666666665433 4666666666655555555443 111111 1113567778
Q ss_pred HHHccCHHHHHHHhcccccccC------C--ccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 106 YESEQQWSKAAQMLSGIDLDSG------M--RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 106 ~E~~gd~~eAa~iL~~i~vEt~------~--~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
|.+.|++++|...++.+.-.+. | ...+...-.+...-.++.+.-.||...|+..+.+...... +|+.+.+
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 8999999999999998743221 1 1123344468888889999999999999999999955544 4776654
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.+|.++..++++-+|-+.|-....
T Consensus 455 ----~~A~v~~~Rg~p~~A~~~~k~a~~ 478 (822)
T PRK14574 455 ----ALASIYLARDLPRKAEQELKAVES 478 (822)
T ss_pred ----HHHHHHHhcCCHHHHHHHHHHHhh
Confidence 679999999999988888854443
No 176
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=53.39 E-value=99 Score=33.23 Aligned_cols=98 Identities=12% Similarity=0.141 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHccCHHH----HHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc
Q 018521 96 LIIREKLADLYESEQQWSK----AAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~e----Aa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~ 171 (354)
......|+..+...|++++ |...+...- + ..+. -...+.....++...+++..|..+++++.....+
T Consensus 246 ~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al-~-----l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-- 316 (656)
T PRK15174 246 AALRRSLGLAYYQSGRSREAKLQAAEHWRHAL-Q-----FNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-- 316 (656)
T ss_pred HHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH-h-----hCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--
Confidence 4455667888888888775 444444221 1 1111 2356777789999999999999999998876543
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 172 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 172 ~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
++.. ....|.++...++|-+|...|..+...
T Consensus 317 ~~~a----~~~La~~l~~~G~~~eA~~~l~~al~~ 347 (656)
T PRK15174 317 LPYV----RAMYARALRQVGQYTAASDEFVQLARE 347 (656)
T ss_pred CHHH----HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 3332 334688888899999999998887764
No 177
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=52.91 E-value=69 Score=30.95 Aligned_cols=71 Identities=15% Similarity=0.095 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHHccCHHHHHHHhcccc-cccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC
Q 018521 91 FEEQVLIIREKLADLYESEQQWSKAAQMLSGID-LDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 169 (354)
Q Consensus 91 ~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~-vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~ 169 (354)
|++.-...-.++++.+...|+++.+...++.+- .+++. -..|.+.|+.|+..|+...|...+++......+
T Consensus 148 l~e~~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~--------E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~e 219 (280)
T COG3629 148 LEELFIKALTKLAEALIACGRADAVIEHLERLIELDPYD--------EPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAE 219 (280)
T ss_pred HHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccc--------hHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhh
Confidence 334434444458999999999999999998763 33332 257889999999999999999999999987544
No 178
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=52.79 E-value=36 Score=23.42 Aligned_cols=34 Identities=12% Similarity=0.190 Sum_probs=31.0
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
-..+++.++++.+|+++..+-..+.+|...|-+.
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~ 41 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVE 41 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCee
Confidence 4568999999999999999999999999998775
No 179
>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=52.62 E-value=41 Score=27.38 Aligned_cols=38 Identities=13% Similarity=0.077 Sum_probs=33.7
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEec
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 351 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akI 351 (354)
-...++..+||+.+|++..-+=..+.+|...|-+...-
T Consensus 39 ~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~ 76 (118)
T TIGR02337 39 EQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLK 76 (118)
T ss_pred HcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEecc
Confidence 35679999999999999999999999999999887654
No 180
>PRK12370 invasion protein regulator; Provisional
Probab=52.31 E-value=62 Score=33.87 Aligned_cols=98 Identities=8% Similarity=-0.067 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 174 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~ 174 (354)
.+.....+|.++...|++++|...+...-- .++. -.+.+.....++...|++..|...+.++..+... ++.
T Consensus 337 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~------l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~~~ 407 (553)
T PRK12370 337 NPQALGLLGLINTIHSEYIVGSLLFKQANL------LSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--RAA 407 (553)
T ss_pred CHHHHHHHHHHHHHccCHHHHHHHHHHHHH------hCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--Chh
Confidence 344556789999999999999999874321 1111 1235566688999999999999999999888654 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 175 lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
. .+ ..+.++...++|-+|-..|.+...
T Consensus 408 ~--~~--~~~~~~~~~g~~eeA~~~~~~~l~ 434 (553)
T PRK12370 408 A--GI--TKLWITYYHTGIDDAIRLGDELRS 434 (553)
T ss_pred h--HH--HHHHHHHhccCHHHHHHHHHHHHH
Confidence 1 11 122234446778778777777654
No 181
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=52.29 E-value=17 Score=23.24 Aligned_cols=27 Identities=22% Similarity=0.322 Sum_probs=21.2
Q ss_pred HHHHHHHhhccCCHHHHHHHHHHhhch
Q 018521 140 CVQIARLYLEDDDAVNAEAFINKASFL 166 (354)
Q Consensus 140 ~l~i~rL~L~~~D~~~a~~~~~Ka~~~ 166 (354)
|..+.++|...+||.+|..++.++..+
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l 28 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQALAL 28 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 456788999999999999999886644
No 182
>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=52.07 E-value=40 Score=22.91 Aligned_cols=33 Identities=12% Similarity=0.195 Sum_probs=29.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
...++.+|++.+|++...+-..+..|...|-+.
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 183
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=51.86 E-value=23 Score=29.47 Aligned_cols=35 Identities=14% Similarity=0.211 Sum_probs=32.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
..++..+||+.+|+|+..+.+.+..|...|-+.+.
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~ 58 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSK 58 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 45899999999999999999999999999988653
No 184
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.76 E-value=1.6e+02 Score=30.87 Aligned_cols=104 Identities=12% Similarity=0.028 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHccCHHHHHHHhcccccc-cCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCC
Q 018521 92 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLD-SGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 170 (354)
Q Consensus 92 E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vE-t~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~ 170 (354)
++-.|.+...||-.|...|+-+.--++|..|.-+ |.. .-+...+..++.-..-+....+|+..|+.++.+........
T Consensus 400 ~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~nt~s-~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkmanae 478 (629)
T KOG2300|consen 400 IDLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLNTNS-LSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMANAE 478 (629)
T ss_pred HHHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCCCCc-chHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcchh
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 171 QQEVLNLQYKVCYARILDLKRKFLEA 196 (354)
Q Consensus 171 ~~~~lkl~y~~~~~r~~~~~r~fleA 196 (354)
+...+..-+.++.+.+.+.-++-.++
T Consensus 479 d~~rL~a~~LvLLs~v~lslgn~~es 504 (629)
T KOG2300|consen 479 DLNRLTACSLVLLSHVFLSLGNTVES 504 (629)
T ss_pred hHHHHHHHHHHHHHHHHHHhcchHHH
No 185
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=51.18 E-value=23 Score=22.32 Aligned_cols=27 Identities=19% Similarity=0.352 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhccc
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGI 122 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i 122 (354)
+.....||.+|...|++++|...+.+.
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~a 28 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEA 28 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHH
Confidence 456678999999999999999998753
No 186
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=50.57 E-value=58 Score=26.99 Aligned_cols=112 Identities=12% Similarity=0.200 Sum_probs=62.2
Q ss_pred HHHHHHhhcCCCHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHH
Q 018521 22 KHILSSVISSNDIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREK 101 (354)
Q Consensus 22 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~ 101 (354)
..++..+...+....+..|+++++..+ + ..+.+-+.++....+.++....+.+. . +... +.. ..
T Consensus 11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~--~~~~~~~~li~ly~~~~~~~ll~~l~---~--~~~~--yd~------~~ 74 (140)
T smart00299 11 SEVVELFEKRNLLEELIPYLESALKLN-S--ENPALQTKLIELYAKYDPQKEIERLD---N--KSNH--YDI------EK 74 (140)
T ss_pred HHHHHHHHhCCcHHHHHHHHHHHHccC-c--cchhHHHHHHHHHHHHCHHHHHHHHH---h--cccc--CCH------HH
Confidence 345666655567789999999998765 2 45556666666554443322222211 0 1121 222 22
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhcc-CCHHHHHHHHHHhh
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED-DDAVNAEAFINKAS 164 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~-~D~~~a~~~~~Ka~ 164 (354)
.++++++.|-|++|.-++... ..+-+.+++++.. +|+..|..+..+.+
T Consensus 75 ~~~~c~~~~l~~~~~~l~~k~---------------~~~~~Al~~~l~~~~d~~~a~~~~~~~~ 123 (140)
T smart00299 75 VGKLCEKAKLYEEAVELYKKD---------------GNFKDAIVTLIEHLGNYEKAIEYFVKQN 123 (140)
T ss_pred HHHHHHHcCcHHHHHHHHHhh---------------cCHHHHHHHHHHcccCHHHHHHHHHhCC
Confidence 455666677777766666421 1223334455555 78888888888754
No 187
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=50.02 E-value=51 Score=22.82 Aligned_cols=28 Identities=18% Similarity=0.188 Sum_probs=25.8
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcC
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFED 345 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~g 345 (354)
||.++||+.||+|..-+...+..+-..|
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 9999999999999999999999998887
No 188
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=49.94 E-value=42 Score=29.16 Aligned_cols=33 Identities=12% Similarity=0.077 Sum_probs=30.4
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
.++.+.||+..|+|+..+++++..|...|-+..
T Consensus 24 ~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S 56 (153)
T PRK11920 24 LSRIPEIARAYGVSELFLFKILQPLVEAGLVET 56 (153)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEe
Confidence 479999999999999999999999999997754
No 189
>PF12854 PPR_1: PPR repeat
Probab=49.86 E-value=21 Score=22.71 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=19.8
Q ss_pred HHHHHHHHHccCHHHHHHHhccc
Q 018521 100 EKLADLYESEQQWSKAAQMLSGI 122 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i 122 (354)
-.|-+-|++.|++++|.+++.++
T Consensus 11 ~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 11 NTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhC
Confidence 45778899999999999999865
No 190
>PF02742 Fe_dep_repr_C: Iron dependent repressor, metal binding and dimerisation domain; InterPro: IPR001367 The diphtheria toxin repressor protein (DTXR) is a member of this group []. In Corynebacterium diphtheriae where it has been studied in some detail this protein acts as an iron-binding repressor of dipheteria toxin gene expression and may serve as a global regulator of gene expression. The N terminus may be involved in iron binding and may associate with the Tox operator. Binding of DTXR to Tox operator requires a divalent metal ion such as cobalt, ferric, manganese and nickel whereas zinc shows weak activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005506 iron ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2X4H_D 2H09_A 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A 2F5D_A 3R61_A ....
Probab=49.60 E-value=26 Score=26.22 Aligned_cols=37 Identities=30% Similarity=0.539 Sum_probs=24.9
Q ss_pred CcHHHHHHHHHHHHHHHHhhccccccHHH-HHHHhCCChHHHHHHHHhh
Q 018521 294 DNFTVLDRAMIEHNLLSASKLYTNISFEE-LGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 294 dg~~~L~~~viEHNi~~isk~Y~~Itl~~-La~LL~ls~~eaE~~ls~M 341 (354)
.|...-.+-+.-|++ +++ |...||++++.|++.+++|
T Consensus 3 ~G~~~A~~i~~rH~~-----------le~fl~~~lgv~~~~a~~~A~~i 40 (71)
T PF02742_consen 3 EGREIAERILRRHRI-----------LEEFLVEVLGVDEEEAEEEACRI 40 (71)
T ss_dssp HHHHHHHHHHHHHHH-----------HHHHHHHTTT--HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHH-----------HHHHHHHHhCCCHHHHHHHHHHH
Confidence 455555666667776 233 4578999999999999887
No 191
>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=48.96 E-value=34 Score=20.93 Aligned_cols=30 Identities=17% Similarity=0.172 Sum_probs=22.8
Q ss_pred HHHHHHHHHhhccCCHHHHHHHHHHhhchh
Q 018521 138 SKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (354)
Q Consensus 138 e~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~ 167 (354)
+.|..+..+|...+++..|..+.+++..+-
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~ 31 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALELD 31 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence 567778888888888888888888876653
No 192
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=48.45 E-value=1.5e+02 Score=26.51 Aligned_cols=65 Identities=15% Similarity=0.042 Sum_probs=48.7
Q ss_pred HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHH-HHHHH--HHHHHHHHHHHHhhh
Q 018521 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL-DLKRK--FLEAALRYYDISQIQ 207 (354)
Q Consensus 137 le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~-~~~r~--fleAa~~y~e~~~t~ 207 (354)
.+.|....++|+..+|+..|...++++..+..+ +.+. +..+|.++ ...++ +-+|-..|.+.....
T Consensus 73 ~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~--~~~~----~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d 140 (198)
T PRK10370 73 SEQWALLGEYYLWRNDYDNALLAYRQALQLRGE--NAEL----YAALATVLYYQAGQHMTPQTREMIDKALALD 140 (198)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHH----HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC
Confidence 568999999999999999999999999988764 4443 33445543 44444 578888888887753
No 193
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=48.14 E-value=4.6e+02 Score=29.71 Aligned_cols=102 Identities=16% Similarity=0.097 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc------
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ------ 171 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~------ 171 (354)
.-..||.+|.+.|++++|-.++..+-.=+. ....-+..|. =.|-+. |..+|..+++||-..+.+..
T Consensus 118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~----~n~~aLNn~A---Y~~ae~-dL~KA~~m~~KAV~~~i~~kq~~~~~ 189 (906)
T PRK14720 118 ALRTLAEAYAKLNENKKLKGVWERLVKADR----DNPEIVKKLA---TSYEEE-DKEKAITYLKKAIYRFIKKKQYVGIE 189 (906)
T ss_pred HHHHHHHHHHHcCChHHHHHHHHHHHhcCc----ccHHHHHHHH---HHHHHh-hHHHHHHHHHHHHHHHHhhhcchHHH
Confidence 557899999999999999999986532111 1112122111 112222 88888888888866655321
Q ss_pred -hHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 172 -QEV--------LNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 172 -~~~--------lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
-|+ ----|....-++.-+. .|..++..+..++++|.
T Consensus 190 e~W~k~~~~~~~d~d~f~~i~~ki~~~~-~~~~~~~~~~~l~~~y~ 234 (906)
T PRK14720 190 EIWSKLVHYNSDDFDFFLRIERKVLGHR-EFTRLVGLLEDLYEPYK 234 (906)
T ss_pred HHHHHHHhcCcccchHHHHHHHHHHhhh-ccchhHHHHHHHHHHHh
Confidence 011 0112222233333333 38888888888888885
No 194
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=47.44 E-value=1.9e+02 Score=26.77 Aligned_cols=120 Identities=14% Similarity=0.107 Sum_probs=85.7
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
=+..||....+-|+..||..-.++ +-......+. .+.|-.++--++.+|+-.|...+.+.-........|+-.+
T Consensus 91 nr~rLa~al~elGr~~EA~~hy~q----alsG~fA~d~--a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L 164 (251)
T COG4700 91 NRYRLANALAELGRYHEAVPHYQQ----ALSGIFAHDA--AMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL 164 (251)
T ss_pred HHHHHHHHHHHhhhhhhhHHHHHH----HhccccCCCH--HHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence 456788888889999999888873 2211333333 4667777888899999999999999876655433333222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcch
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQR 241 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~r 241 (354)
..||.+...++|-+|-..|.-...+++ ++..+ +-|...|+..|-++
T Consensus 165 ----l~aR~laa~g~~a~Aesafe~a~~~yp--------g~~ar------~~Y~e~La~qgr~~ 210 (251)
T COG4700 165 ----LFARTLAAQGKYADAESAFEVAISYYP--------GPQAR------IYYAEMLAKQGRLR 210 (251)
T ss_pred ----HHHHHHHhcCCchhHHHHHHHHHHhCC--------CHHHH------HHHHHHHHHhcchh
Confidence 458999999999999999998888876 55544 45566788777443
No 195
>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=47.34 E-value=1.1e+02 Score=31.42 Aligned_cols=90 Identities=13% Similarity=-0.006 Sum_probs=64.1
Q ss_pred HccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHH
Q 018521 108 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 187 (354)
Q Consensus 108 ~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~ 187 (354)
..++...|-++|....- ..+.+ .=+.+...|++...+|...|-..++++..... .-+++..-.+-=.+-.+
T Consensus 245 ~~~~~~~a~~lL~~~~~-----~yP~s--~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~--~~~Ql~~l~~~El~w~~ 315 (468)
T PF10300_consen 245 EDVPLEEAEELLEEMLK-----RYPNS--ALFLFFEGRLERLKGNLEEAIESFERAIESQS--EWKQLHHLCYFELAWCH 315 (468)
T ss_pred cCCCHHHHHHHHHHHHH-----hCCCc--HHHHHHHHHHHHHhcCHHHHHHHHHHhccchh--hHHhHHHHHHHHHHHHH
Confidence 45677777777775432 12211 34677889999999999999999999874332 23344433333447789
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 018521 188 DLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 188 ~~~r~fleAa~~y~e~~~t 206 (354)
+...+|.+|+.+|..+.+.
T Consensus 316 ~~~~~w~~A~~~f~~L~~~ 334 (468)
T PF10300_consen 316 MFQHDWEEAAEYFLRLLKE 334 (468)
T ss_pred HHHchHHHHHHHHHHHHhc
Confidence 9999999999999999883
No 196
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=46.72 E-value=51 Score=27.24 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=30.8
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
.++.++||+.+|+|+..+.+.+..|...|-+..
T Consensus 25 ~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~ 57 (132)
T TIGR00738 25 PVSVKEIAERQGISRSYLEKILRTLRRAGLVES 57 (132)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEe
Confidence 689999999999999999999999999998754
No 197
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=46.67 E-value=30 Score=29.27 Aligned_cols=33 Identities=27% Similarity=0.412 Sum_probs=30.4
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
++++.+||+.+|+|+..+-.-+-+|..+|-+.+
T Consensus 22 r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 22 RISNAELAERVGLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCceee
Confidence 399999999999999999999999999997753
No 198
>PRK12798 chemotaxis protein; Reviewed
Probab=45.63 E-value=2.1e+02 Score=29.32 Aligned_cols=74 Identities=16% Similarity=0.039 Sum_probs=53.1
Q ss_pred cCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 130 ~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.|++..+.++||+++|-.+..|....|...++|+..+....+-+.-+.++|.-. .....-++.++......+..
T Consensus 250 ~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~A~~L~~~~~~~~~ra~LY~aa--a~v~s~~~~~al~~L~~I~~ 323 (421)
T PRK12798 250 FMDPERQRELYLRIARAALIDGKTELARFASERALKLADPDSADAARARLYRGA--ALVASDDAESALEELSQIDR 323 (421)
T ss_pred hcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHhccCCCcchHHHHHHHHH--HccCcccHHHHHHHHhcCCh
Confidence 578888999999999999999999999999999999985543333344444444 44444446666555544443
No 199
>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=45.34 E-value=6 Score=36.37 Aligned_cols=67 Identities=16% Similarity=0.092 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHHHHhcChhh-HHHHHHhhchhhhc
Q 018521 222 EQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPE-IDAFAEELKPHQKA 290 (354)
Q Consensus 222 ~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~~li~~~~-i~~f~~~L~~h~~~ 290 (354)
...|+.||+.++|.|.+|.-.|+... ++..+..-|.+.-.+...-..-|+|+= ...|+.+|-.|.+.
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 58999999999999999999887774 445566777655555444456777763 46799999877654
No 200
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=44.84 E-value=84 Score=26.74 Aligned_cols=39 Identities=8% Similarity=0.140 Sum_probs=35.0
Q ss_pred HHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 310 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 310 ~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.+.+-=-++|+..|...+|++-.-+...+.++|..|.|+
T Consensus 19 ElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 19 ELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeE
Confidence 344566899999999999999999999999999999985
No 201
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=44.40 E-value=2.3e+02 Score=27.53 Aligned_cols=115 Identities=12% Similarity=0.018 Sum_probs=74.5
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHH
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~ 178 (354)
...|+.+|...|++..|...+.. .....-+..+..--|-+..-..-...+..+++..++++..+-+ .+.+-.
T Consensus 159 W~~Lg~~ym~~~~~~~A~~AY~~----A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~----~~iral 230 (287)
T COG4235 159 WDLLGRAYMALGRASDALLAYRN----ALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP----ANIRAL 230 (287)
T ss_pred HHHHHHHHHHhcchhHHHHHHHH----HHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC----ccHHHH
Confidence 34578999999999999988873 2221112233333333333333355778889999999988744 344444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHH
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTC 231 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~ 231 (354)
| +.|.-+..+++|.+|...+..+...-+ . .+.|...++..+--
T Consensus 231 ~--lLA~~afe~g~~~~A~~~Wq~lL~~lp------~--~~~rr~~ie~~ia~ 273 (287)
T COG4235 231 S--LLAFAAFEQGDYAEAAAAWQMLLDLLP------A--DDPRRSLIERSIAR 273 (287)
T ss_pred H--HHHHHHHHcccHHHHHHHHHHHHhcCC------C--CCchHHHHHHHHHH
Confidence 4 567778999999999999999988643 2 22355666644433
No 202
>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=44.26 E-value=44 Score=27.12 Aligned_cols=35 Identities=17% Similarity=0.282 Sum_probs=33.0
Q ss_pred hccccccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 313 k~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
|....|+.+.++++-|+++..+.+.+..+|..|-|
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 57789999999999999999999999999999987
No 203
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=43.65 E-value=56 Score=23.40 Aligned_cols=35 Identities=14% Similarity=0.207 Sum_probs=28.6
Q ss_pred hccccccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 313 k~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
.....++...|++.+|++...+-..+.+|+..|-+
T Consensus 14 ~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv 48 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLV 48 (68)
T ss_dssp --TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSE
T ss_pred ccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 46788999999999999999999999999999987
No 204
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=43.47 E-value=67 Score=33.39 Aligned_cols=67 Identities=22% Similarity=0.176 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccc-c-ccCCccCCh-hHHHHHHHHHHHHhhccCCHHHHHHHHHHhhch
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGID-L-DSGMRVIDD-TFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~-v-Et~~~~~~~-~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~ 166 (354)
..-..||+.||+-+|..+||.....-- + +..| ..++ -.|...+ .++.+...+||.+|..|.++++.-
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 SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEG-EIDDETIKARLF--LAEYFKKMKDFDEASYYATLVLKG 536 (559)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhc-ccchHHHHHHHH--HHHHHHhhcchHHHHHHHHHHhcC
Confidence 345689999999999999998875421 1 2223 2333 4555555 588899999999999999988766
No 205
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=43.45 E-value=2.2e+02 Score=28.97 Aligned_cols=164 Identities=15% Similarity=0.151 Sum_probs=96.1
Q ss_pred HHHHHHHHHHHhcCCCchhhhHHHHHHHHHH---hcCCChHHHH----HHHHHHHHhhccccchHH--HHHHHHHHHHHH
Q 018521 34 IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQE---LGRLEPETQK----EIANYTLAQIQPRVVSFE--EQVLIIREKLAD 104 (354)
Q Consensus 34 ~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~---l~~l~~~~~~----~~~~~~l~~i~~~~i~~E--~e~a~l~~~LA~ 104 (354)
+++|..-+..+-...+.+|.-.+=.. |-+. ...+||.... ++.-+-...-.+.+..-| ...|.....-++
T Consensus 138 i~Gle~al~~M~~GE~a~v~i~~~Ya-yG~~~~~~p~IPPnA~l~yEVeL~~f~~~~~~s~~~~~~e~l~~A~~~ke~Gn 216 (397)
T KOG0543|consen 138 IEGLEIALRMMKVGEVALVTIDPKYA-YGEEGGEPPLIPPNATLLYEVELLDFELKEDESWKMFAEERLEAADRKKERGN 216 (397)
T ss_pred hHHHHHHHHhcCccceEEEEeCcccc-cCCCCCCCCCCCCCceEEEEEEEEeeecCcccccccchHHHHHHHHHHHHhhh
Confidence 37788888888777776666554111 1111 1234554431 111111010011111111 123444455577
Q ss_pred HHHHccCHHHHHHHhcc----cccccCCccCChhH-------HHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH
Q 018521 105 LYESEQQWSKAAQMLSG----IDLDSGMRVIDDTF-------RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE 173 (354)
Q Consensus 105 i~E~~gd~~eAa~iL~~----i~vEt~~~~~~~~e-------Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~ 173 (354)
.|-+.|+|..|...+.- +.-+. +.++++ |+-.++..+-.|+..++|..|-...+|+...-.. +
T Consensus 217 ~~fK~gk~~~A~~~Yerav~~l~~~~---~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~--N- 290 (397)
T KOG0543|consen 217 VLFKEGKFKLAKKRYERAVSFLEYRR---SFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN--N- 290 (397)
T ss_pred HHHhhchHHHHHHHHHHHHHHhhccc---cCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC--c-
Confidence 78888888888776443 22122 223322 4778899999999999999999999999877553 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 174 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 174 ~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
.|.-|+. |+.+....+|-.|=..|..+....
T Consensus 291 -~KALyRr--G~A~l~~~e~~~A~~df~ka~k~~ 321 (397)
T KOG0543|consen 291 -VKALYRR--GQALLALGEYDLARDDFQKALKLE 321 (397)
T ss_pred -hhHHHHH--HHHHHhhccHHHHHHHHHHHHHhC
Confidence 2444543 566778888888888888887754
No 206
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=43.05 E-value=73 Score=24.22 Aligned_cols=37 Identities=22% Similarity=0.359 Sum_probs=32.6
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecC
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akID 352 (354)
..++..+|++.+++++.-+-..+.+|+..|-+...-|
T Consensus 23 ~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~ 59 (101)
T smart00347 23 GPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPS 59 (101)
T ss_pred CCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCC
Confidence 3589999999999999999999999999998865433
No 207
>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=42.59 E-value=43 Score=24.47 Aligned_cols=36 Identities=14% Similarity=0.094 Sum_probs=32.0
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
-....|.++||+.+|+|...+-..+.+|...|-+.-
T Consensus 19 ~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~ 54 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVER 54 (68)
T ss_dssp HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEE
T ss_pred HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 345689999999999999999999999999998753
No 208
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=42.45 E-value=2.1e+02 Score=24.09 Aligned_cols=59 Identities=8% Similarity=-0.034 Sum_probs=48.8
Q ss_pred HHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 142 QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 142 ~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.-...+...|++..|..++.++...-+. + ..++...|.++...++|-+|...|......
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 4577888999999999999998766443 2 356677899999999999999999999874
No 209
>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=42.26 E-value=97 Score=22.10 Aligned_cols=37 Identities=14% Similarity=0.099 Sum_probs=32.3
Q ss_pred hccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 313 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 313 k~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
..-...|+.+|++.||+++.-+-..+..|...|-+..
T Consensus 20 ~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 20 ASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred hcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 3568889999999999999999999999999998764
No 210
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=41.48 E-value=1.2e+02 Score=32.84 Aligned_cols=91 Identities=12% Similarity=0.085 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhcc
Q 018521 71 ETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED 150 (354)
Q Consensus 71 ~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~ 150 (354)
..+..+-.+++.++.|++. -----.|.-.+|+.||..|+++.|..++..----.|+ ..++-..+|+.-+.+=|..
T Consensus 364 ~~~i~tyteAv~~vdP~ka--~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~---~v~dLa~vw~~waemElrh 438 (835)
T KOG2047|consen 364 AEQINTYTEAVKTVDPKKA--VGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK---TVEDLAEVWCAWAEMELRH 438 (835)
T ss_pred HHHHHHHHHHHHccCcccC--CCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc---chHHHHHHHHHHHHHHHhh
Confidence 3445666777888887765 1112457788999999999999999888643222232 2355578999999999999
Q ss_pred CCHHHHHHHHHHhhch
Q 018521 151 DDAVNAEAFINKASFL 166 (354)
Q Consensus 151 ~D~~~a~~~~~Ka~~~ 166 (354)
+++..|-.++.+|...
T Consensus 439 ~~~~~Al~lm~~A~~v 454 (835)
T KOG2047|consen 439 ENFEAALKLMRRATHV 454 (835)
T ss_pred hhHHHHHHHHHhhhcC
Confidence 9999999999998543
No 211
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=41.46 E-value=49 Score=23.20 Aligned_cols=40 Identities=25% Similarity=0.349 Sum_probs=32.8
Q ss_pred HHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHh
Q 018521 304 IEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIF 343 (354)
Q Consensus 304 iEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~ 343 (354)
.+.-+.+.-+.-.+.++..||..+|++..-+-++...++.
T Consensus 6 ~d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~~ 45 (53)
T PF13613_consen 6 EDQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWIP 45 (53)
T ss_pred HHHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHHH
Confidence 3555667777889999999999999999998888877653
No 212
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=40.78 E-value=59 Score=28.68 Aligned_cols=34 Identities=15% Similarity=0.217 Sum_probs=31.3
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
..++.++||+.+|+|+..+++++..|...|-+..
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s 57 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSS 57 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEe
Confidence 3599999999999999999999999999998764
No 213
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=40.56 E-value=2.4e+02 Score=26.95 Aligned_cols=96 Identities=16% Similarity=0.058 Sum_probs=76.3
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y 179 (354)
..+++-+-..|+=+.++.+++.+-..+.. +.+ +...+.+.-+..+||..|...++|+-.+-.. ||+ .
T Consensus 70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~----d~~---ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~--d~~----~ 136 (257)
T COG5010 70 AKLATALYLRGDADSSLAVLQKSAIAYPK----DRE---LLAAQGKNQIRNGNFGEAVSVLRKAARLAPT--DWE----A 136 (257)
T ss_pred HHHHHHHHhcccccchHHHHhhhhccCcc----cHH---HHHHHHHHHHHhcchHHHHHHHHHHhccCCC--Chh----h
Confidence 67888888889999999888865443322 222 2233889999999999999999999988663 665 5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 180 KVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 180 ~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+...|-.|+..++|-+|=..|.+...-+.
T Consensus 137 ~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~ 165 (257)
T COG5010 137 WNLLGAALDQLGRFDEARRAYRQALELAP 165 (257)
T ss_pred hhHHHHHHHHccChhHHHHHHHHHHHhcc
Confidence 67789999999999999999999998654
No 214
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=40.18 E-value=2.5e+02 Score=24.35 Aligned_cols=67 Identities=15% Similarity=0.093 Sum_probs=50.1
Q ss_pred HHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~ 171 (354)
.-|.-..+.|+|.+|.+.|..|.- .+ -.....-...|.++-.|...+||..|...+.+-..+....+
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~-ry---P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp 81 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDT-RY---PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP 81 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHh-cC---CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence 345556788999999999997742 11 11133345677889999999999999999999988876533
No 215
>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=39.52 E-value=32 Score=25.24 Aligned_cols=24 Identities=17% Similarity=0.339 Sum_probs=18.4
Q ss_pred hCCChHHHHHHHHhhHhcCCeeEe
Q 018521 327 LGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 327 L~ls~~eaE~~ls~MI~~grl~ak 350 (354)
.+.|.++.+.++.++|.+|+|.+.
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 567889999999999999999764
No 216
>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=38.80 E-value=2.8e+02 Score=24.54 Aligned_cols=75 Identities=8% Similarity=-0.055 Sum_probs=62.1
Q ss_pred cCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 130 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 130 ~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
...+.+.-.-+...+..|...||...|-..+.++...- ..+..++....+.+|+....++|..+......+-...
T Consensus 29 n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~---~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~ 103 (177)
T PF10602_consen 29 NLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYC---TSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLI 103 (177)
T ss_pred ccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc---CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 34556777788899999999999999999999977653 4567788888899999999999999888777777664
No 217
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=38.62 E-value=1.2e+02 Score=25.43 Aligned_cols=37 Identities=14% Similarity=0.197 Sum_probs=33.2
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecC
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akID 352 (354)
..+|..+||+.+|+++.-+=..+.+|+..|-+.=.-|
T Consensus 53 ~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~ 89 (144)
T PRK11512 53 ACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPN 89 (144)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccC
Confidence 5699999999999999999999999999998865444
No 218
>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=38.38 E-value=61 Score=23.40 Aligned_cols=34 Identities=18% Similarity=0.227 Sum_probs=29.4
Q ss_pred ccc-cHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 316 TNI-SFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 316 ~~I-tl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
+.+ +...||+.+|+|..-+-+.+..|..+|-+.-
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 9999999999999999999999999998753
No 219
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=38.31 E-value=47 Score=27.59 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=30.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
-..+|+++||+.|..|+--+-.++-+|..+|=|.
T Consensus 17 ~~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~ 50 (115)
T PF12793_consen 17 PVEVTLDELAELLFCSRRNARTLLKKMQEEGWIT 50 (115)
T ss_pred CcceeHHHHHHHhCCCHHHHHHHHHHHHHCCCee
Confidence 3468999999999999999999999999998763
No 220
>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=38.22 E-value=50 Score=24.90 Aligned_cols=35 Identities=14% Similarity=0.357 Sum_probs=27.2
Q ss_pred ccccccHHHHHH-HhCCChHHHHHHHHhhHhcCCee
Q 018521 314 LYTNISFEELGT-LLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 314 ~Y~~Itl~~La~-LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.=+...|..+.+ ..+..|-++-+++..||.+|++.
T Consensus 16 ~KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l~ 51 (67)
T PF08679_consen 16 KKSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKLE 51 (67)
T ss_dssp HSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeEE
Confidence 345566888888 77889999999999999999983
No 221
>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=37.64 E-value=64 Score=22.20 Aligned_cols=31 Identities=19% Similarity=0.461 Sum_probs=23.0
Q ss_pred hhccccccHHHHHHHhCCChHHHHHHHHhhH
Q 018521 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 312 sk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI 342 (354)
-.++...|..++|+.+|+|+.-+...+.+-.
T Consensus 21 l~~~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 21 LRYFQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp HHHTS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 3488999999999999999999998887643
No 222
>PRK04841 transcriptional regulator MalT; Provisional
Probab=37.35 E-value=2e+02 Score=31.61 Aligned_cols=107 Identities=13% Similarity=0.007 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH--HH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VL 175 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~--~l 175 (354)
....++..+...|++++|...+....- .....-+.............+++..||+..|..+..++.........+ ..
T Consensus 493 a~~~lg~~~~~~G~~~~A~~~~~~al~-~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~ 571 (903)
T PRK04841 493 ATSVLGEVHHCKGELARALAMMQQTEQ-MARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPM 571 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH-HHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccH
Confidence 345678888889999998888765421 111111223345566777889999999999999999987765432211 11
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 176 NLQYKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
........|.++...+++-+|...+.+...
T Consensus 572 ~~~~~~~la~~~~~~G~~~~A~~~~~~al~ 601 (903)
T PRK04841 572 HEFLLRIRAQLLWEWARLDEAEQCARKGLE 601 (903)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence 112234556667777777777666555433
No 223
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.68 E-value=72 Score=35.43 Aligned_cols=56 Identities=16% Similarity=0.094 Sum_probs=44.9
Q ss_pred HHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 143 IARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 143 i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
+-+.||..|+|.+|-.+-+ ..|+-.-.-+.-+|-.+.+.+.|..||..|-+.+..+
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 VWKTYLDKGEFDKALEIAR---------TRPDALETVLLKQADFLFQDKEYLRAAEIYAETLSSF 419 (911)
T ss_pred HHHHHHhcchHHHHHHhcc---------CCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhH
Confidence 4589999999999966533 3355555667788999999999999999999997754
No 224
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=36.41 E-value=69 Score=28.86 Aligned_cols=45 Identities=11% Similarity=-0.043 Sum_probs=38.1
Q ss_pred HHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecC
Q 018521 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 308 i~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akID 352 (354)
+..++.-+..-|.+++|+.||+|+.=++++++.+...|.+...++
T Consensus 168 l~~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~ 212 (225)
T PRK10046 168 RKLFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIV 212 (225)
T ss_pred HHHHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEee
Confidence 445556666788999999999999999999999999998877653
No 225
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.09 E-value=44 Score=31.63 Aligned_cols=41 Identities=20% Similarity=0.340 Sum_probs=37.5
Q ss_pred hhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecC
Q 018521 312 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 312 sk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akID 352 (354)
.|--+.+-++.||..||+-.+.+-.-+-.++.+|.|.|-||
T Consensus 209 Ik~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmD 249 (299)
T KOG3054|consen 209 IKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMD 249 (299)
T ss_pred HHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeec
Confidence 34557789999999999999999999999999999999998
No 226
>PF13730 HTH_36: Helix-turn-helix domain
Probab=36.05 E-value=57 Score=22.57 Aligned_cols=29 Identities=17% Similarity=0.236 Sum_probs=26.4
Q ss_pred cHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 319 SFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 319 tl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
|.+.||+.+|++..-+.+.+..++..|-|
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 78999999999999999999999988853
No 227
>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=36.00 E-value=24 Score=29.06 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=17.7
Q ss_pred hHHHHHHHHhhHhcCCeeEecC
Q 018521 331 PQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 331 ~~eaE~~ls~MI~~grl~akID 352 (354)
...+|..+.+|...|+|.++||
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 3467899999999999999997
No 228
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=35.95 E-value=89 Score=26.42 Aligned_cols=34 Identities=15% Similarity=0.216 Sum_probs=31.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
..++.+.||+.+|+|+..+++.+.++..+|-+..
T Consensus 24 ~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s 57 (141)
T PRK11014 24 RMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTA 57 (141)
T ss_pred CccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEE
Confidence 3689999999999999999999999999997754
No 229
>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=35.84 E-value=44 Score=23.66 Aligned_cols=26 Identities=35% Similarity=0.395 Sum_probs=19.6
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHH
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIAS 339 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls 339 (354)
-..+|+=.+||+.+|+++.++-+-+|
T Consensus 25 G~~~vSS~~La~~~gi~~~qVRKDlS 50 (50)
T PF06971_consen 25 GVERVSSQELAEALGITPAQVRKDLS 50 (50)
T ss_dssp T-SEE-HHHHHHHHTS-HHHHHHHHH
T ss_pred CCeeECHHHHHHHHCCCHHHhcccCC
Confidence 45789999999999999999877554
No 230
>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=34.26 E-value=2.8e+02 Score=25.55 Aligned_cols=76 Identities=18% Similarity=0.296 Sum_probs=60.7
Q ss_pred CHHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHHccC
Q 018521 33 DIVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPR-VVSFEEQVLIIREKLADLYESEQQ 111 (354)
Q Consensus 33 ~~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~-~i~~E~e~a~l~~~LA~i~E~~gd 111 (354)
|-+.++.|++ -++.|.+-+..+...+....-+-+++-.+.++..+|+..+++ .+- ..+-..||.+|-..|+
T Consensus 122 d~~A~~~fL~---~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n-----~eil~sLas~~~~~~~ 193 (203)
T PF11207_consen 122 DQEALRRFLQ---LEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFN-----PEILKSLASIYQKLKN 193 (203)
T ss_pred cHHHHHHHHH---HcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCC-----HHHHHHHHHHHHHhcc
Confidence 3455555554 377777888888888888888888888899999999999888 664 3466789999999999
Q ss_pred HHHHH
Q 018521 112 WSKAA 116 (354)
Q Consensus 112 ~~eAa 116 (354)
++.|-
T Consensus 194 ~e~AY 198 (203)
T PF11207_consen 194 YEQAY 198 (203)
T ss_pred hhhhh
Confidence 99873
No 231
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=34.25 E-value=1e+02 Score=23.43 Aligned_cols=33 Identities=15% Similarity=0.284 Sum_probs=30.6
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
.+++..||+.+|+|..-+-..+..|...|-+..
T Consensus 20 ~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 20 GLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred CcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 599999999999999999999999999998754
No 232
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=33.95 E-value=26 Score=33.09 Aligned_cols=93 Identities=19% Similarity=0.228 Sum_probs=64.7
Q ss_pred HHHHHHHhcCCCchhhhHHHHHHHHHHhcCCChHHHHHHHHH-----HHHhhccccchHHHHHHHHHHHHHH-HHHHc--
Q 018521 38 KKFIDHMLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANY-----TLAQIQPRVVSFEEQVLIIREKLAD-LYESE-- 109 (354)
Q Consensus 38 ~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~~~~~~~~~~~-----~l~~i~~~~i~~E~e~a~l~~~LA~-i~E~~-- 109 (354)
-.+...++++..+--.-++++..|++.++.||++.+-.++.. .+...++... -++|+.+++..|.+ .+-..
T Consensus 130 ~~~A~kiL~~~~d~~~~~~lid~~i~~l~~l~~~~r~~l~~~~~~~~~~~i~ta~~l-~~~~~~~~~~~l~~~~~~~~~~ 208 (250)
T PRK14474 130 VKIIRAALADLANATLEQQIVGIFIARLEHLSEAERQALANSNTTPEMLRIRTSFEL-SQDLRAQILESLHQTHLIPGTD 208 (250)
T ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHhcccCHHHHHHHHhhhcCCCCeEEEeCCCC-CHHHHHHHHHHHHHHhcCCCCc
Confidence 345555666666667778999999999999999888776533 0111233333 57889999999999 55222
Q ss_pred cCHHHHHHHhcccccccCCccC
Q 018521 110 QQWSKAAQMLSGIDLDSGMRVI 131 (354)
Q Consensus 110 gd~~eAa~iL~~i~vEt~~~~~ 131 (354)
=.|..--+.++||.+.++|..+
T Consensus 209 ~~f~~~p~li~Giel~~~~~~i 230 (250)
T PRK14474 209 IHFVTSPELICGIELKTEGYKI 230 (250)
T ss_pred eeeecCcccccCeEEecCCceE
Confidence 2566677789999998887543
No 233
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=33.87 E-value=76 Score=24.38 Aligned_cols=36 Identities=17% Similarity=0.178 Sum_probs=30.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
-..++|..|.+.||+|..-+-..+..+..+|-+..+
T Consensus 12 ~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~ 47 (80)
T PF13601_consen 12 NEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVE 47 (80)
T ss_dssp HSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEE
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEE
Confidence 367999999999999999999999999999988654
No 234
>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=33.73 E-value=2.5e+02 Score=24.90 Aligned_cols=65 Identities=15% Similarity=0.173 Sum_probs=43.3
Q ss_pred hHHHHHHHHHHhcC---CChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccc
Q 018521 54 SRQLLQTFAQELGR---LEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLD 125 (354)
Q Consensus 54 sr~~l~~~~~~l~~---l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vE 125 (354)
|..++..+++.+.. ..+..-.+.+...|+.+.|+..- +..--+-++-..|+|.+|..+|.++.-.
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e-------~~~~~~~l~i~r~~w~dA~rlLr~l~~~ 73 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPE-------LDLFDGWLHIVRGDWDDALRLLRELEER 73 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchH-------HHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence 44556666655432 22333355566788889998653 3445577788999999999999987433
No 235
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.11 E-value=5.4e+02 Score=26.20 Aligned_cols=97 Identities=13% Similarity=0.065 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHH
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 176 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lk 176 (354)
.....+|+.+..-|++.+|-+.+..|. .++.+.|.-+..-.+|.|+..+-+..|-...-|.++-- -.
T Consensus 394 ~Fn~N~AQAk~atgny~eaEelf~~is------~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~-------e~ 460 (557)
T KOG3785|consen 394 DFNLNLAQAKLATGNYVEAEELFIRIS------GPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPS-------ER 460 (557)
T ss_pred hhhhHHHHHHHHhcChHHHHHHHhhhc------ChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCch-------hH
Confidence 356789999999999999999997542 34556778888888999999999998876655544321 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 177 LQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 177 l~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
......-|.-+--...|-=||+.|.++=..
T Consensus 461 fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l 490 (557)
T KOG3785|consen 461 FSLLQLIANDCYKANEFYYAAKAFDELEIL 490 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence 222233344444567888899999888654
No 236
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=33.02 E-value=2.1e+02 Score=31.18 Aligned_cols=86 Identities=17% Similarity=0.208 Sum_probs=60.2
Q ss_pred CCHHHHHHHHHHHhcCCCc----hhhhHHHHHHHHHHhcCCChHHH-HHHHHHHHHhhccccchHHHHHHHHHHHHHHHH
Q 018521 32 NDIVQAKKFIDHMLSDDVP----LVVSRQLLQTFAQELGRLEPETQ-KEIANYTLAQIQPRVVSFEEQVLIIREKLADLY 106 (354)
Q Consensus 32 ~~~~~l~~~~~~~~~~~~~----~v~sr~~l~~~~~~l~~l~~~~~-~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~ 106 (354)
.+.+....-..+++++... .=.+-|+-.++|+.+.+.|+..+ ..| .. .|..|.--|=+|.-.|.-.||++|
T Consensus 183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnv-da---iiR~gi~rftDq~g~Lw~SLAdYY 258 (835)
T KOG2047|consen 183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNV-DA---IIRGGIRRFTDQLGFLWCSLADYY 258 (835)
T ss_pred cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCH-HH---HHHhhcccCcHHHHHHHHHHHHHH
Confidence 3445555556666665542 12345778888888888886644 222 11 234555568899999999999999
Q ss_pred HHccCHHHHHHHhcc
Q 018521 107 ESEQQWSKAAQMLSG 121 (354)
Q Consensus 107 E~~gd~~eAa~iL~~ 121 (354)
-..|.+++|.+++.+
T Consensus 259 Ir~g~~ekarDvyee 273 (835)
T KOG2047|consen 259 IRSGLFEKARDVYEE 273 (835)
T ss_pred HHhhhhHHHHHHHHH
Confidence 999999999999874
No 237
>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=32.86 E-value=2.8e+02 Score=22.83 Aligned_cols=65 Identities=22% Similarity=0.131 Sum_probs=47.4
Q ss_pred HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 137 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 137 le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
+....+.+..++..+++..|.....++...-+- ++ ..+....+.+...+++-+|-+.|.......
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 566777788899999999999999999877542 22 345566777888888888888887776654
No 238
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.60 E-value=6.6e+02 Score=27.06 Aligned_cols=108 Identities=17% Similarity=0.031 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCC-ccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC--CchHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGM-RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS--SQQEV 174 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~-~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~--~~~~~ 174 (354)
+-...|+++-.+|+|+.|+++|.... ++-- ...+...+=.+.--++-||..-+|...|...+..|..-.-. .+-..
T Consensus 378 v~L~~aQl~is~gn~~~A~~il~~~~-~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~ 456 (652)
T KOG2376|consen 378 VLLLRAQLKISQGNPEVALEILSLFL-ESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIA 456 (652)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHh-hhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchH
Confidence 55667888999999999999999544 2211 01223444556667788888888888888888888655432 12244
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 175 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 175 lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
++.-+...-+.-+-+ ++=.+|+..|.++..-.
T Consensus 457 l~~~~~~aa~f~lr~-G~~~ea~s~leel~k~n 488 (652)
T KOG2376|consen 457 LLSLMREAAEFKLRH-GNEEEASSLLEELVKFN 488 (652)
T ss_pred HHhHHHHHhHHHHhc-CchHHHHHHHHHHHHhC
Confidence 444444443333333 88899999999999854
No 239
>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=32.22 E-value=1.7e+02 Score=22.49 Aligned_cols=39 Identities=26% Similarity=0.219 Sum_probs=34.1
Q ss_pred HHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 308 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 308 i~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
+..+|+- ++|+++|-+-.|++...+-..+++|-.+|-|.
T Consensus 11 L~~ls~~--c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~ 49 (72)
T PF05584_consen 11 LIILSKR--CCTLEELEEKTGISKNTLLVYLSRLAKRGIIE 49 (72)
T ss_pred HHHHHhc--cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCee
Confidence 4444555 99999999999999999999999999999874
No 240
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=31.69 E-value=4.9e+02 Score=26.57 Aligned_cols=136 Identities=18% Similarity=0.125 Sum_probs=89.1
Q ss_pred hHHHHHHHHHHHHHHHHHHccCHHHHHHHhccc--ccccCC-ccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhch
Q 018521 90 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGI--DLDSGM-RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (354)
Q Consensus 90 ~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i--~vEt~~-~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~ 166 (354)
.+|-| +.-.|...|-.-.|+++|+-....- -|.++| +.++-.+..-...+.+=-+-..|....|+.+-+-+..+
T Consensus 159 ~LElq---vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~kl 235 (518)
T KOG1941|consen 159 MLELQ---VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKL 235 (518)
T ss_pred eeeee---hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence 34444 3456888888888888776544321 112222 12333444334444443444567888888999999888
Q ss_pred hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHH
Q 018521 167 VSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTI 233 (354)
Q Consensus 167 ~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~I 233 (354)
...-+|..+..+--.|+|-||-.+++--.|-.+|-+.+.+-. ...|--.-..+|..+.-|..
T Consensus 236 al~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~-----~~gdrmgqv~al~g~Akc~~ 297 (518)
T KOG1941|consen 236 ALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGTMA-----SLGDRMGQVEALDGAAKCLE 297 (518)
T ss_pred HHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHh-----hhhhhHHHHHHHHHHHHHHH
Confidence 887789999999999999999999999999999999988743 11121122366666666654
No 241
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=31.41 E-value=52 Score=26.28 Aligned_cols=24 Identities=25% Similarity=0.581 Sum_probs=21.7
Q ss_pred ccccHHHHHHHhCCChHHHHHHHH
Q 018521 316 TNISFEELGTLLGIAPQKAEKIAS 339 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls 339 (354)
+.+|.+.+|.-||+|++++|+++.
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHc
Confidence 578999999999999999999874
No 242
>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=31.19 E-value=54 Score=25.45 Aligned_cols=28 Identities=18% Similarity=0.234 Sum_probs=20.7
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhH
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI 342 (354)
=.-||...||..+|.|.+++...+..|-
T Consensus 36 G~PVt~~~LA~a~g~~~e~v~~~L~~~p 63 (77)
T PF12324_consen 36 GQPVTVEQLAAALGWPVEEVRAALAAMP 63 (77)
T ss_dssp TS-B-HHHHHHHHT--HHHHHHHHHH-T
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHhCC
Confidence 3558999999999999999999998875
No 243
>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=30.88 E-value=91 Score=20.97 Aligned_cols=30 Identities=17% Similarity=0.290 Sum_probs=25.2
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHh
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIF 343 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~ 343 (354)
++...+...+|+.+|+|+.-+...+.++..
T Consensus 12 ~~~~~s~~eia~~l~~s~~tv~~~~~~~~~ 41 (57)
T cd06170 12 LAEGKTNKEIADILGISEKTVKTHLRNIMR 41 (57)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 456789999999999999999998876543
No 244
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=30.76 E-value=1.5e+02 Score=29.74 Aligned_cols=76 Identities=18% Similarity=0.134 Sum_probs=57.3
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC----------
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS---------- 169 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~---------- 169 (354)
..|++.|-...+...|..++.+. +|++ .+-+.+.+.|+|++=+.+++..|-.+++.+...-..
T Consensus 260 llLskvY~ridQP~~AL~~~~~g-ld~f------P~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~ 332 (478)
T KOG1129|consen 260 LLLSKVYQRIDQPERALLVIGEG-LDSF------PFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAV 332 (478)
T ss_pred HHHHHHHHHhccHHHHHHHHhhh-hhcC------CchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeee
Confidence 46789999998898888888742 3433 355778999999999999999999999988554321
Q ss_pred ----CchHHHHHHHHHH
Q 018521 170 ----SQQEVLNLQYKVC 182 (354)
Q Consensus 170 ----~~~~~lkl~y~~~ 182 (354)
+++|++-++||.-
T Consensus 333 ~yfY~~~PE~AlryYRR 349 (478)
T KOG1129|consen 333 GYFYDNNPEMALRYYRR 349 (478)
T ss_pred ccccCCChHHHHHHHHH
Confidence 1477887777643
No 245
>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=30.59 E-value=71 Score=27.72 Aligned_cols=32 Identities=6% Similarity=0.181 Sum_probs=29.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.+|-+.||.++|++++-+=..+++|-.+|-|.
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~ 174 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLIS 174 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEE
Confidence 57889999999999999999999999999885
No 246
>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=29.89 E-value=1.9e+02 Score=23.14 Aligned_cols=33 Identities=12% Similarity=0.142 Sum_probs=30.7
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
..++..+||..+++++.-+=..+.+|+..|-+.
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~ 74 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLS 74 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEe
Confidence 459999999999999999999999999999775
No 247
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=29.85 E-value=1.2e+02 Score=20.20 Aligned_cols=30 Identities=20% Similarity=0.315 Sum_probs=25.3
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHHhhHh
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIASRMIF 343 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~ 343 (354)
++...+...+|+.+|+|+.-+...+.++..
T Consensus 15 ~~~g~s~~eia~~l~is~~tv~~~~~~~~~ 44 (58)
T smart00421 15 LAEGLTNKEIAERLGISEKTVKTHLSNIMR 44 (58)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 346779999999999999999999887643
No 248
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=29.74 E-value=60 Score=29.58 Aligned_cols=45 Identities=16% Similarity=0.231 Sum_probs=33.1
Q ss_pred cHHHHHHHHHHHHHHHHhh-cc---ccccHHHHHHHhCCChHHHHHHHHhhH
Q 018521 295 NFTVLDRAMIEHNLLSASK-LY---TNISFEELGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 295 g~~~L~~~viEHNi~~isk-~Y---~~Itl~~La~LL~ls~~eaE~~ls~MI 342 (354)
+.|+-++.++..- +.. || .++++..||+.||||+.-+.+.+.+..
T Consensus 155 ~LTdrQ~~vL~~A---~~~GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 155 DLTDRQLEVLRLA---YKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred cCCHHHHHHHHHH---HHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 3566666555433 233 55 789999999999999999888887754
No 249
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=29.65 E-value=61 Score=24.49 Aligned_cols=31 Identities=13% Similarity=0.235 Sum_probs=24.3
Q ss_pred HHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 320 FEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 320 l~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
+-++.+.||+++.-+-.-+++|..+|-|...
T Consensus 26 Li~ll~~~Gv~e~avR~alsRl~~~G~L~~~ 56 (70)
T PF07848_consen 26 LIRLLAAFGVSESAVRTALSRLVRRGWLESE 56 (70)
T ss_dssp HHHHHCCTT--HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHcCCChHHHHHHHHHHHHcCceeee
Confidence 3457778999999999999999999998643
No 250
>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=29.45 E-value=33 Score=33.70 Aligned_cols=63 Identities=21% Similarity=0.342 Sum_probs=44.6
Q ss_pred HHHHHhhchhhhccCCCc--HHHHHHHHHHHHHHHHhhcccc---ccHHHHHHHhCCChHHHHHHHHhh
Q 018521 278 DAFAEELKPHQKALLPDN--FTVLDRAMIEHNLLSASKLYTN---ISFEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 278 ~~f~~~L~~h~~~~~~dg--~~~L~~~viEHNi~~isk~Y~~---Itl~~La~LL~ls~~eaE~~ls~M 341 (354)
..|++..+.|+....+|+ -..|++.|.+.-+.++.++|.+ +.+ .-.+-+..+|+++|..+.+|
T Consensus 304 ~~fee~~~~q~~~~vpD~~LR~~Lr~~i~~~v~p~Y~~F~~~~~~~~~-~~~Kyikyt~~~le~~l~~L 371 (371)
T PF03081_consen 304 SAFEEIYKAQKTWKVPDPELREELRREIKEKVVPAYRRFYERYRNSQF-NPEKYIKYTPEDLENMLNEL 371 (371)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCSS-SHCCC-SS-HHHHHHHHHTC
T ss_pred HHHHHHHHcCcceecCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-CCCCCCccCHHHHHHHHHcC
Confidence 457778788877777887 6889999999999999997654 444 33456788999999988764
No 251
>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=29.28 E-value=1e+02 Score=22.88 Aligned_cols=31 Identities=13% Similarity=0.245 Sum_probs=27.0
Q ss_pred ccHHHHHHHhCCC-hHHHHHHHHhhHhcCCee
Q 018521 318 ISFEELGTLLGIA-PQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 318 Itl~~La~LL~ls-~~eaE~~ls~MI~~grl~ 348 (354)
-|+.+||+.||++ +.-+-..+..|...|.|.
T Consensus 26 Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 26 PTVREIAEALGLKSTSTVQRHLKALERKGYIR 57 (65)
T ss_dssp --HHHHHHHHTSSSHHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHhCCCChHHHHHHHHHHHHCcCcc
Confidence 5899999999996 999999999999999875
No 252
>KOG4521 consensus Nuclear pore complex, Nup160 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.25 E-value=6e+02 Score=29.73 Aligned_cols=125 Identities=16% Similarity=0.081 Sum_probs=81.5
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhccc----------------------ccccCCccCChhHH-HHHHHHHHHHhhcc
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGI----------------------DLDSGMRVIDDTFR-LSKCVQIARLYLED 150 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i----------------------~vEt~~~~~~~~eK-le~~l~i~rL~L~~ 150 (354)
+.-.+|.+++-.|...|+..+|.+..+.- .|+. |++.+..-+ +++|+.-||+.=+.
T Consensus 918 lk~v~rfmlg~~yl~tge~~kAl~cF~~a~Sg~ge~~aL~~lv~~~~p~~~sv~d-G~t~s~e~t~lhYYlkv~rlle~h 996 (1480)
T KOG4521|consen 918 LKPVIRFMLGIAYLGTGEPVKALNCFQSALSGFGEGNALRKLVYFLLPKRFSVAD-GKTPSEELTALHYYLKVVRLLEEH 996 (1480)
T ss_pred hHHHHHHhhheeeecCCchHHHHHHHHHHhhccccHHHHHHHHHHhcCCCCchhc-CCCCCchHHHHHHHHHHHHHHHHh
Confidence 34446778887788888888777766542 1122 335555555 99999999999888
Q ss_pred CCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHH
Q 018521 151 DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVT 230 (354)
Q Consensus 151 ~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~ 230 (354)
+-...+=.+.-+|..-..+ ++.-+--++.+.=..+..-+-|.+| |-.+.+++ |++.+..||+..|+
T Consensus 997 n~~E~vcQlA~~AIe~l~d--d~ps~a~~~t~vFnhhldlgh~~qA---y~ai~~np---------dserrrdcLRqlvi 1062 (1480)
T KOG4521|consen 997 NHAEEVCQLAVKAIENLPD--DNPSVALISTTVFNHHLDLGHWFQA---YKAILRNP---------DSERRRDCLRQLVI 1062 (1480)
T ss_pred ccHHHHHHHHHHHHHhCCC--cchhHHHHHHHHHHhhhchhhHHHH---HHHHHcCC---------cHHHHHHHHHHHHH
Confidence 8777777777777665543 3444445556555555555555544 55555543 57778899998876
Q ss_pred HHH
Q 018521 231 CTI 233 (354)
Q Consensus 231 ~~I 233 (354)
...
T Consensus 1063 vLf 1065 (1480)
T KOG4521|consen 1063 VLF 1065 (1480)
T ss_pred HHH
Confidence 543
No 253
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=29.10 E-value=5.1e+02 Score=24.69 Aligned_cols=102 Identities=12% Similarity=0.126 Sum_probs=64.1
Q ss_pred HHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-----------
Q 018521 103 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ----------- 171 (354)
Q Consensus 103 A~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~----------- 171 (354)
+.-....|+|++|.+-+..+.-+-.+..++ +| ..+..+--+-..+|++.|..++++=..+....+
T Consensus 41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~--~q--a~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgL 116 (254)
T COG4105 41 GLTELQKGNYEEAIKYFEALDSRHPFSPYS--EQ--AQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGL 116 (254)
T ss_pred HHHHHhcCCHHHHHHHHHHHHHcCCCCccc--HH--HHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHH
Confidence 333457889999999998775322221233 22 334445566677777777777766544333211
Q ss_pred -------------------------------------hHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 172 -------------------------------------QEVLNLQ--------YKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 172 -------------------------------------~~~lkl~--------y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
|.+.++. +-..-|++|..++.|..|+.++.++..+
T Consensus 117 s~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~ 196 (254)
T COG4105 117 SYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN 196 (254)
T ss_pred HHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 2222222 2233489999999999999999999998
Q ss_pred hh
Q 018521 207 QK 208 (354)
Q Consensus 207 ~~ 208 (354)
++
T Consensus 197 y~ 198 (254)
T COG4105 197 YP 198 (254)
T ss_pred cc
Confidence 75
No 254
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=28.71 E-value=79 Score=27.92 Aligned_cols=32 Identities=13% Similarity=0.293 Sum_probs=29.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
++|-+.||+.+|++++-+-+.+.+|-.+|-|.
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~ 199 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLIS 199 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 68889999999999999999999999999774
No 255
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.67 E-value=86 Score=30.03 Aligned_cols=102 Identities=12% Similarity=-0.045 Sum_probs=72.6
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-hHHHHH
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNL 177 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~-~~~lkl 177 (354)
-...|--+...||+.+|...++.- +..|- .-+..--..||| -..+...+||..|..++.++..-..+.+ -||-.+
T Consensus 144 ~Y~~A~~~~ksgdy~~A~~~F~~f-i~~YP-~s~~~~nA~yWL--Ge~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall 219 (262)
T COG1729 144 LYNAALDLYKSGDYAEAEQAFQAF-IKKYP-NSTYTPNAYYWL--GESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL 219 (262)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHH-HHcCC-CCcccchhHHHH--HHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence 456677778889999999888753 23232 112233466888 4567789999999999999988777653 567777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
+.=.|+++ .++--+||..|.++...|+
T Consensus 220 Klg~~~~~----l~~~d~A~atl~qv~k~YP 246 (262)
T COG1729 220 KLGVSLGR----LGNTDEACATLQQVIKRYP 246 (262)
T ss_pred HHHHHHHH----hcCHHHHHHHHHHHHHHCC
Confidence 77666554 5667789999999887665
No 256
>PRK11189 lipoprotein NlpI; Provisional
Probab=28.59 E-value=3.7e+02 Score=25.46 Aligned_cols=70 Identities=14% Similarity=0.001 Sum_probs=57.6
Q ss_pred CChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 131 IDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 131 ~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
.++....+.|.....+|...|++..|...++++.....+ ++ ..+...|.++...++|-+|...|......
T Consensus 58 ~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~--~~----~a~~~lg~~~~~~g~~~~A~~~~~~Al~l 127 (296)
T PRK11189 58 LTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD--MA----DAYNYLGIYLTQAGNFDAAYEAFDSVLEL 127 (296)
T ss_pred CCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC--CH----HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 355666778999999999999999999999999887553 33 34567889999999999999999998874
No 257
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=28.10 E-value=75 Score=20.07 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHccCHHHHH
Q 018521 95 VLIIREKLADLYESEQQWSKAA 116 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa 116 (354)
-+.....||.+|...|++++|.
T Consensus 12 n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 12 NAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred CHHHHHHHHHHHHHCcCHHhhc
Confidence 3567788999999999999985
No 258
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.91 E-value=5.5e+02 Score=24.62 Aligned_cols=82 Identities=13% Similarity=0.069 Sum_probs=51.6
Q ss_pred cccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 122 IDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYY 201 (354)
Q Consensus 122 i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~ 201 (354)
..+..-+-..++.+| .|=--..+ +..|||..|+.-..+=...+.++.-.. .-+|+ +|..+-.+++|.+|+..|.
T Consensus 129 ~~~~~~~~p~~~~~~--~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~-nA~yW--LGe~~y~qg~y~~Aa~~f~ 202 (262)
T COG1729 129 ASVDGDGAPVSPATK--LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTP-NAYYW--LGESLYAQGDYEDAAYIFA 202 (262)
T ss_pred CCCCCCCCCCCchhH--HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccc-hhHHH--HHHHHHhcccchHHHHHHH
Confidence 444444423444455 33323333 445669999988888877777643111 22443 4666778899999999999
Q ss_pred HHHhhhhh
Q 018521 202 DISQIQKR 209 (354)
Q Consensus 202 e~~~t~~~ 209 (354)
.....++.
T Consensus 203 ~~~k~~P~ 210 (262)
T COG1729 203 RVVKDYPK 210 (262)
T ss_pred HHHHhCCC
Confidence 99987753
No 259
>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=27.66 E-value=53 Score=23.02 Aligned_cols=23 Identities=26% Similarity=0.345 Sum_probs=19.0
Q ss_pred ccccHHHHHHHhCCChHHHHHHH
Q 018521 316 TNISFEELGTLLGIAPQKAEKIA 338 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~l 338 (354)
..+++.+||+.||+++.++-+.+
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l 24 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKL 24 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH
T ss_pred CceEHHHHHHHHCcCHHHHHHHH
Confidence 35789999999999999988777
No 260
>PRK11050 manganese transport regulator MntR; Provisional
Probab=27.37 E-value=1.7e+02 Score=25.21 Aligned_cols=35 Identities=11% Similarity=0.195 Sum_probs=31.6
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
..++...||+.||+++.-+=..+.+|...|-+.-+
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 56899999999999999999999999999987644
No 261
>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=27.29 E-value=67 Score=23.93 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=19.8
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHh
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASR 340 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~ 340 (354)
..-|.+++|+.||+|++++...+..
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 4678899999999999999998864
No 262
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=26.79 E-value=79 Score=20.68 Aligned_cols=28 Identities=25% Similarity=0.493 Sum_probs=21.7
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
+|+++.|++||+++.-+. +++.+|.+.+
T Consensus 2 lt~~e~a~~lgis~~ti~----~~~~~g~i~~ 29 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVY----RLIHEGELPA 29 (49)
T ss_pred CCHHHHHHHHCCCHHHHH----HHHHcCCCCe
Confidence 478999999999987655 4567787754
No 263
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=26.48 E-value=6.8e+02 Score=26.45 Aligned_cols=102 Identities=13% Similarity=0.108 Sum_probs=76.6
Q ss_pred HHHHHhhccccc---hHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHH
Q 018521 78 NYTLAQIQPRVV---SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAV 154 (354)
Q Consensus 78 ~~~l~~i~~~~i---~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~ 154 (354)
..+-..+..|.| .++.+...+...+..+.....|..+++..+..+--. +.|=.+....+.--+..+..++...||.
T Consensus 458 ~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy-~nRfr~~~~~V~~~f~~Ae~lF~~~~Y~ 536 (569)
T PRK04778 458 EALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQY-ANRYRSDNEEVAEALNEAERLFREYDYK 536 (569)
T ss_pred HHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhccCCCCHHHHHHHHHHHHHHHhCChH
Confidence 334444555776 566678888899999999999999999988855333 3333356677888888988888999999
Q ss_pred HHHHHHHHhhchhcCCchHHHHHHHH
Q 018521 155 NAEAFINKASFLVSSSQQEVLNLQYK 180 (354)
Q Consensus 155 ~a~~~~~Ka~~~~~~~~~~~lkl~y~ 180 (354)
+|-..+-.|...+..|....+.-.|+
T Consensus 537 ~al~~~~~alE~vePG~~~ri~~~y~ 562 (569)
T PRK04778 537 AALEIIATALEKVEPGVTKRIEDSYE 562 (569)
T ss_pred HHHHHHHHHHHhhCCcHHHHHHHHHH
Confidence 99999999988888776666554443
No 264
>PRK12370 invasion protein regulator; Provisional
Probab=26.23 E-value=2.8e+02 Score=29.06 Aligned_cols=87 Identities=11% Similarity=0.096 Sum_probs=62.5
Q ss_pred HccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHH
Q 018521 108 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 187 (354)
Q Consensus 108 ~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~ 187 (354)
..|++.+|...+...- + +++. -.+.+.....++...+++..|...++++..+..+ +++ .+...|.++
T Consensus 316 ~~~~~~~A~~~~~~Al-~-----ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~--~~~----a~~~lg~~l 382 (553)
T PRK12370 316 KQNAMIKAKEHAIKAT-E-----LDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI--SAD----IKYYYGWNL 382 (553)
T ss_pred cchHHHHHHHHHHHHH-h-----cCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--CHH----HHHHHHHHH
Confidence 4456788887776421 1 1111 1245566678888999999999999999888654 333 234568889
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 018521 188 DLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 188 ~~~r~fleAa~~y~e~~~t~ 207 (354)
...++|-+|...|.......
T Consensus 383 ~~~G~~~eAi~~~~~Al~l~ 402 (553)
T PRK12370 383 FMAGQLEEALQTINECLKLD 402 (553)
T ss_pred HHCCCHHHHHHHHHHHHhcC
Confidence 99999999999999988753
No 265
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=26.22 E-value=1.6e+02 Score=32.03 Aligned_cols=55 Identities=18% Similarity=0.176 Sum_probs=38.6
Q ss_pred HHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 143 IARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 143 i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+++|..+.++|+.|-.+.. ..|+++-..|.-+|+-+....+|.||-+.|+..-.+
T Consensus 779 iVqlHve~~~W~eAFalAe---------~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~ 833 (1081)
T KOG1538|consen 779 LVQLHVETQRWDEAFALAE---------KHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQ 833 (1081)
T ss_pred HhhheeecccchHhHhhhh---------hCccccccccchHHHHhhhhhhHHHHHHHHHHhcch
Confidence 3556666666666644432 245555555667799999999999999999987654
No 266
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.12 E-value=3.4e+02 Score=26.54 Aligned_cols=125 Identities=12% Similarity=0.087 Sum_probs=83.8
Q ss_pred HHHHHHHHHhhccccc---hHHHHHHHH---HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHh
Q 018521 74 KEIANYTLAQIQPRVV---SFEEQVLII---REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY 147 (354)
Q Consensus 74 ~~~~~~~l~~i~~~~i---~~E~e~a~l---~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~ 147 (354)
+++....++....|.- |++.=+.|+ ..-++..+..-|++.=..+++.++.- ..+.++-.+.-..+|+.
T Consensus 149 ~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~------~~~e~~p~L~s~Lgr~~ 222 (366)
T KOG2796|consen 149 KTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIK------YYPEQEPQLLSGLGRIS 222 (366)
T ss_pred HHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHH------hCCcccHHHHHHHHHHH
Confidence 3444444444443322 444443333 34567777778888877777775531 24466777888889999
Q ss_pred hccCCHHHHHHHHHHh---hchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 148 LEDDDAVNAEAFINKA---SFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 148 L~~~D~~~a~~~~~Ka---~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
+..||..-|++|..++ +.+..++.+ ++--..-++.+|...++|-+|.+.|-++..+.
T Consensus 223 MQ~GD~k~a~~yf~~vek~~~kL~~~q~---~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D 282 (366)
T KOG2796|consen 223 MQIGDIKTAEKYFQDVEKVTQKLDGLQG---KIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD 282 (366)
T ss_pred HhcccHHHHHHHHHHHHHHHhhhhccch---hHHHHhhhhhheecccchHHHHHHHhhccccC
Confidence 9999999999999854 444433222 23334466888999999999999999988764
No 267
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=26.03 E-value=1.8e+02 Score=32.70 Aligned_cols=147 Identities=16% Similarity=0.196 Sum_probs=84.4
Q ss_pred HHHHHHHHhhcccc--chHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCC
Q 018521 75 EIANYTLAQIQPRV--VSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDD 152 (354)
Q Consensus 75 ~~~~~~l~~i~~~~--i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D 152 (354)
.|.++.-+.+||-| ..=|.+|..+-+.+|+.+..+|++..|++-... . +.| |+-||-.|..||
T Consensus 1122 ~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQ----A-------GdK----l~AMraLLKSGd 1186 (1416)
T KOG3617|consen 1122 RVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQ----A-------GDK----LSAMRALLKSGD 1186 (1416)
T ss_pred chhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhh----h-------hhH----HHHHHHHHhcCC
Confidence 34556667788877 345666999999999999999999999976651 1 222 334666666666
Q ss_pred HHHH----------HHHHHHhhchhcC--CchHHH-H--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhhhhhcCCcCC
Q 018521 153 AVNA----------EAFINKASFLVSS--SQQEVL-N--LQYKVCYARILDLKRKFLEAAL-RYYDISQIQKRQIGDETI 216 (354)
Q Consensus 153 ~~~a----------~~~~~Ka~~~~~~--~~~~~l-k--l~y~~~~~r~~~~~r~fleAa~-~y~e~~~t~~~~~~~~~~ 216 (354)
..+. ++|+--||-+..- -++|+. | .-|| ..|+-+++-.+|.++|- -=.|-+.++
T Consensus 1187 t~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tFY-TKgqafd~LanFY~~cAqiEiee~q~y--------- 1256 (1416)
T KOG3617|consen 1187 TQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETFY-TKGQAFDHLANFYKSCAQIEIEELQTY--------- 1256 (1416)
T ss_pred cceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhhh-hcchhHHHHHHHHHHHHHhhHHHHhhh---------
Confidence 5543 2233333333321 023332 1 1222 23666777777766553 233344443
Q ss_pred CHHHHHHHHHHHHHHHHhcCCCcchHHHHHhh
Q 018521 217 DEEALEQALSAAVTCTILAAAGPQRSRVLATL 248 (354)
Q Consensus 217 d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l 248 (354)
++.+.+|..|..|+.=+..-+...--+..+
T Consensus 1257 --dKa~gAl~eA~kCl~ka~~k~~~~t~l~~L 1286 (1416)
T KOG3617|consen 1257 --DKAMGALEEAAKCLLKAEQKNMSTTGLDAL 1286 (1416)
T ss_pred --hHHhHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence 345677888888877666544333333333
No 268
>PF12728 HTH_17: Helix-turn-helix domain
Probab=25.91 E-value=80 Score=21.50 Aligned_cols=27 Identities=26% Similarity=0.439 Sum_probs=21.0
Q ss_pred ccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 318 ISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 318 Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.|.++.|++||+|+.-+. +|+.+|.+.
T Consensus 2 lt~~e~a~~l~is~~tv~----~~~~~g~i~ 28 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVY----RWIRQGKIP 28 (51)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHcCCCC
Confidence 478999999999887654 566777773
No 269
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=25.89 E-value=3.9e+02 Score=27.85 Aligned_cols=110 Identities=17% Similarity=0.003 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHH
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 177 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl 177 (354)
.+.-.|.-+...|++++|.+.|.++--+..+-.. ++.-...++++.+....|....+|+..+... ..
T Consensus 308 a~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~-------~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~------~~ 374 (484)
T COG4783 308 AQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPY-------YLELAGDILLEANKAKEAIERLKKALALDPN------SP 374 (484)
T ss_pred HHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHH-------HHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------cc
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHH
Q 018521 178 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAA 228 (354)
Q Consensus 178 ~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~a 228 (354)
-....+|..++.-+++.+|-+.........+. |+.-| ..|..+
T Consensus 375 ~l~~~~a~all~~g~~~eai~~L~~~~~~~p~-------dp~~w-~~LAqa 417 (484)
T COG4783 375 LLQLNLAQALLKGGKPQEAIRILNRYLFNDPE-------DPNGW-DLLAQA 417 (484)
T ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC-------CchHH-HHHHHH
No 270
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=25.84 E-value=5.7e+02 Score=28.02 Aligned_cols=180 Identities=19% Similarity=0.152 Sum_probs=0.0
Q ss_pred HHHHHHHccCHHHHHHHhcccccccCCccCChhHH-HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchH--HHHHH
Q 018521 102 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR-LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLNLQ 178 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eK-le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~--~lkl~ 178 (354)
||-+|.++|+++-|.+... |.++..-. .+-|-..+--.-+.|+.+.|+.++||+..+-..-.|. -|-+.
T Consensus 292 la~iYyeqG~ldlAI~~Yk--------ral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni 363 (966)
T KOG4626|consen 292 LACIYYEQGLLDLAIDTYK--------RALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI 363 (966)
T ss_pred eEEEEeccccHHHHHHHHH--------HHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Q ss_pred HHHHH--------------------------HHHHHHHHHHHHHHHHHHHHH--------------hhhhhhcCCcCCCH
Q 018521 179 YKVCY--------------------------ARILDLKRKFLEAALRYYDIS--------------QIQKRQIGDETIDE 218 (354)
Q Consensus 179 y~~~~--------------------------~r~~~~~r~fleAa~~y~e~~--------------~t~~~~~~~~~~d~ 218 (354)
|.+.. |.+|-.++++.+|-.+|.|.. +|++ .-
T Consensus 364 ~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~k--------e~ 435 (966)
T KOG4626|consen 364 YREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYK--------EM 435 (966)
T ss_pred HHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHH--------Hh
Q ss_pred HHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccchHHHHHHHHH-HhcChhhHHHHHHhhchhhhccCCCcHH
Q 018521 219 EALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLE-RILRKPEIDAFAEELKPHQKALLPDNFT 297 (354)
Q Consensus 219 ~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~~~~L~k~f~~-~li~~~~i~~f~~~L~~h~~~~~~dg~~ 297 (354)
.+...++++.--..-.-|.-.+-..=|+.+||| -.....-...|-+ =.++|+--+++-..+.-+|..-. |+
T Consensus 436 g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kD-----sGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcd---w~ 507 (966)
T KOG4626|consen 436 GDVSAAIQCYTRAIQINPTFAEAHSNLASIYKD-----SGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCD---WT 507 (966)
T ss_pred hhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhc-----cCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhc---cc
Q ss_pred HHHHHHHH
Q 018521 298 VLDRAMIE 305 (354)
Q Consensus 298 ~L~~~viE 305 (354)
+-++++.+
T Consensus 508 D~d~~~~k 515 (966)
T KOG4626|consen 508 DYDKRMKK 515 (966)
T ss_pred chHHHHHH
No 271
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=25.67 E-value=1.7e+02 Score=26.35 Aligned_cols=58 Identities=14% Similarity=0.129 Sum_probs=43.8
Q ss_pred HHHhhchhhhccCCCcHHHHHHHHHHHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 280 FAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 280 f~~~L~~h~~~~~~dg~~~L~~~viEHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
|...+++|.+. ..|+.++.+-.-...+|..+||+.++++..-+=..+.+|...|-|.=
T Consensus 34 ~~~~l~~~gLt------------~~q~~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R 91 (185)
T PRK13777 34 WQQWIKPYDLN------------INEHHILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTF 91 (185)
T ss_pred HHHHHHHCCCC------------HHHHHHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEe
Confidence 44566666443 23555555555556899999999999999999999999999997763
No 272
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=25.67 E-value=93 Score=27.27 Aligned_cols=32 Identities=19% Similarity=0.316 Sum_probs=29.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.+|-+.||..+|++++-+=..+.+|-.+|-|.
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~ 180 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYIR 180 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCEE
Confidence 57889999999999999999999999999885
No 273
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=25.57 E-value=2.6e+02 Score=21.71 Aligned_cols=68 Identities=13% Similarity=-0.012 Sum_probs=47.7
Q ss_pred HHccCHHHHHHHhcccccccCCccCChh---HHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 107 ESEQQWSKAAQMLSGIDLDSGMRVIDDT---FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 107 E~~gd~~eAa~iL~~i~vEt~~~~~~~~---eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
-..||+.+|.+-|...- |..+.+.... .-.--.+..++++...|++..|...++.+..+.-+.+|..-
T Consensus 9 ~~~~dy~~A~d~L~~~f-D~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~ 79 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYF-DYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRC 79 (94)
T ss_pred HHcCCHHHHHHHHHHHH-HHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHH
Confidence 35788999988887532 3332222222 22334677899999999999999999999998877666653
No 274
>PRK10870 transcriptional repressor MprA; Provisional
Probab=25.38 E-value=4.7e+02 Score=22.99 Aligned_cols=34 Identities=24% Similarity=0.269 Sum_probs=30.7
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
.++..+||+.+|++..-+=..+.+|+..|-+.-.
T Consensus 71 ~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~ 104 (176)
T PRK10870 71 SIQPSELSCALGSSRTNATRIADELEKRGWIERR 104 (176)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 5899999999999999999999999999987543
No 275
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=25.26 E-value=4.7e+02 Score=27.88 Aligned_cols=125 Identities=17% Similarity=0.141 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHhhhhccccccccc
Q 018521 181 VCYARILDLKRKFLEAAL-RYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKI 259 (354)
Q Consensus 181 ~~~~r~~~~~r~fleAa~-~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~l~kd~r~~~lp~ 259 (354)
.+..|+++..+.|.++.. +|.+-|.+-. ..+.+ .+..| |-.++=|-..+.-.++.|+-+.--+. ...|.
T Consensus 508 lL~eRfc~l~r~~q~~fe~~f~q~YstIh------r~Etn-kLRnl--akffahLlstd~lpw~vl~~ikLTEE-dTtss 577 (739)
T KOG2140|consen 508 LLGERFCMLHREWQEAFEKCFKQQYSTIH------RYETN-KLRNL--AKFFAHLLSTDALPWDVLACIKLTEE-DTTSS 577 (739)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHhHH-HHHHH--HHHHHHHhcccccchHHHHHhhcccc-cCCcc
Confidence 445678888888877653 3333333321 11222 22223 23445444455556777765543221 23445
Q ss_pred hHHHHHHHHHHhcChhhHHHHHHhhch-------hhhccCCCcHHHHHHHHHHHHHHHHhhccccccHHHHHH
Q 018521 260 YPILQKVYLERILRKPEIDAFAEELKP-------HQKALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGT 325 (354)
Q Consensus 260 ~~~L~k~f~~~li~~~~i~~f~~~L~~-------h~~~~~~dg~~~L~~~viEHNi~~isk~Y~~Itl~~La~ 325 (354)
-+++.|.++.+|+..-.+.+...-|.. |.+|...+ -.|++-...+|+.|.|..|.+
T Consensus 578 sRIfiKilFqELve~lGl~~L~~RL~dptl~~~l~glFP~dn----------p~n~RfsINfFTsIGLGgLTe 640 (739)
T KOG2140|consen 578 SRIFIKILFQELVEALGLDKLNERLNDPTLQPKLEGLFPRDN----------PRNTRFSINFFTSIGLGGLTE 640 (739)
T ss_pred ceehHHHHHHHHHHHhChHHHHHHhcCcchhhhhhccCcCCC----------cccceeeeehhhhhccccchH
Confidence 578888888777654334443333321 11221111 234555555888888765543
No 276
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=25.23 E-value=4e+02 Score=27.09 Aligned_cols=95 Identities=20% Similarity=0.186 Sum_probs=71.3
Q ss_pred HHHHHHHhcCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHH
Q 018521 58 LQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRL 137 (354)
Q Consensus 58 l~~~~~~l~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKl 137 (354)
|-.++..++--+++.....+++-+...-++. -+-..|...|.+++.|.+|...|. .+++..--.
T Consensus 298 L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--------~L~~tLG~L~~k~~~w~kA~~~le--------aAl~~~~s~ 361 (400)
T COG3071 298 LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--------LLLSTLGRLALKNKLWGKASEALE--------AALKLRPSA 361 (400)
T ss_pred HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--------hHHHHHHHHHHHhhHHHHHHHHHH--------HHHhcCCCh
Confidence 3344444555556777888888888765554 578899999999999999999997 233333445
Q ss_pred HHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 138 SKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 138 e~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
.-|..-...+-+.++...|+...+.+.....
T Consensus 362 ~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~ 392 (400)
T COG3071 362 SDYAELADALDQLGEPEEAEQVRREALLLTR 392 (400)
T ss_pred hhHHHHHHHHHHcCChHHHHHHHHHHHHHhc
Confidence 6778889999999999999999888875443
No 277
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=24.93 E-value=4.2e+02 Score=26.95 Aligned_cols=98 Identities=15% Similarity=0.083 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHH
Q 018521 96 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 175 (354)
Q Consensus 96 a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~l 175 (354)
..+-..||-.|.+.++|.+|... ++..++... ...| -..+-.+.|+..+||..|...++|+..+... |.+.
T Consensus 257 ~~~~lNlA~c~lKl~~~~~Ai~~-c~kvLe~~~----~N~K--ALyRrG~A~l~~~e~~~A~~df~ka~k~~P~--Nka~ 327 (397)
T KOG0543|consen 257 LACHLNLAACYLKLKEYKEAIES-CNKVLELDP----NNVK--ALYRRGQALLALGEYDLARDDFQKALKLEPS--NKAA 327 (397)
T ss_pred HHHhhHHHHHHHhhhhHHHHHHH-HHHHHhcCC----Cchh--HHHHHHHHHHhhccHHHHHHHHHHHHHhCCC--cHHH
Confidence 34556778888888899977643 333333322 2333 4567889999999999999999999998875 5666
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhh
Q 018521 176 NLQYKVCYARILDLKRKFLEA-ALRYYDISQI 206 (354)
Q Consensus 176 kl~y~~~~~r~~~~~r~fleA-a~~y~e~~~t 206 (354)
+..+..|.-++- .|.+. -+.|...|..
T Consensus 328 ~~el~~l~~k~~----~~~~kekk~y~~mF~k 355 (397)
T KOG0543|consen 328 RAELIKLKQKIR----EYEEKEKKMYANMFAK 355 (397)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHHHhhc
Confidence 666666665543 33333 3445555553
No 278
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=24.92 E-value=3.3e+02 Score=29.97 Aligned_cols=147 Identities=17% Similarity=0.158 Sum_probs=85.8
Q ss_pred HHHHHHHHHHHHHHccCHHHHHHHhccccc-----ccCCccCChhHHHHHHHHH-------HHHhhccCCHHHHHHHHHH
Q 018521 95 VLIIREKLADLYESEQQWSKAAQMLSGIDL-----DSGMRVIDDTFRLSKCVQI-------ARLYLEDDDAVNAEAFINK 162 (354)
Q Consensus 95 ~a~l~~~LA~i~E~~gd~~eAa~iL~~i~v-----Et~~~~~~~~eKle~~l~i-------~rL~L~~~D~~~a~~~~~K 162 (354)
+.++...||.++-+-|-..+|..+...+.. .-|- ..+...|++.++++ .|+|-..||...=..+..|
T Consensus 397 ~Wq~q~~laell~slGitksAl~I~Erlemw~~vi~CY~-~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEk 475 (777)
T KOG1128|consen 397 IWQLQRLLAELLLSLGITKSALVIFERLEMWDPVILCYL-LLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEK 475 (777)
T ss_pred cchHHHHHHHHHHHcchHHHHHHHHHhHHHHHHHHHHHH-HhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHH
Confidence 556777778877777777777766654421 2222 33455666666665 4677777777777777766
Q ss_pred hhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc--C---C-cCCCHHHHHHHHHHHHHHHHhcC
Q 018521 163 ASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQI--G---D-ETIDEEALEQALSAAVTCTILAA 236 (354)
Q Consensus 163 a~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~--~---~-~~~d~~e~~~~L~~av~~~ILa~ 236 (354)
+..+... ...+=+.+.|+....+.+|-++-+++...+.-.+... + + -..--.+...+.+..--|+-|.|
T Consensus 476 awElsn~-----~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~P 550 (777)
T KOG1128|consen 476 AWELSNY-----ISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEP 550 (777)
T ss_pred HHHHhhh-----hhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCC
Confidence 6655432 1222223344445557888888888877776443210 0 0 01112344567777778888988
Q ss_pred CCcchHHHHHh
Q 018521 237 AGPQRSRVLAT 247 (354)
Q Consensus 237 ~~~~rs~lL~~ 247 (354)
.+-+-+.=+.+
T Consensus 551 d~~eaWnNls~ 561 (777)
T KOG1128|consen 551 DNAEAWNNLST 561 (777)
T ss_pred CchhhhhhhhH
Confidence 76554443333
No 279
>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=24.78 E-value=97 Score=24.76 Aligned_cols=33 Identities=21% Similarity=0.368 Sum_probs=26.0
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
.++-+.||..+|+++.++-+++..|-.+|-+..
T Consensus 27 ~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~ 59 (105)
T PF02002_consen 27 ELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSY 59 (105)
T ss_dssp -B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EE
T ss_pred CcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEE
Confidence 578899999999999999999999999998754
No 280
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=24.77 E-value=9.3e+02 Score=26.25 Aligned_cols=104 Identities=13% Similarity=0.085 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcC--------
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS-------- 169 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~-------- 169 (354)
...-||+-|-..|+++.|..-+.. +.+ ....-+|.|+--+|++...||.+.|-.+...+..+-..
T Consensus 373 t~y~laqh~D~~g~~~~A~~yId~----AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKc 445 (700)
T KOG1156|consen 373 TLYFLAQHYDKLGDYEVALEYIDL----AID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKC 445 (700)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHH----Hhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHH
Confidence 445678888888888888877762 222 11345678888888888888888777766665432111
Q ss_pred ----------------------Cc-h-----HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 170 ----------------------SQ-Q-----EVL-NLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 170 ----------------------~~-~-----~~l-kl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
.+ + .+. =.=|..-.|.-|...++|-.|-++|+++...|.
T Consensus 446 AKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~ 513 (700)
T KOG1156|consen 446 AKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYK 513 (700)
T ss_pred HHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 00 0 011 112334448888889999999999999988765
No 281
>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=24.67 E-value=2e+02 Score=25.87 Aligned_cols=35 Identities=9% Similarity=0.068 Sum_probs=31.6
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
..++..++|+.+|+|+.-+-..+.+|...|-+.-.
T Consensus 156 g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~ 190 (203)
T TIGR01884 156 GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 190 (203)
T ss_pred CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 46899999999999999999999999999988543
No 282
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=24.65 E-value=1.1e+03 Score=26.82 Aligned_cols=214 Identities=10% Similarity=0.054 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhch
Q 018521 87 RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 166 (354)
Q Consensus 87 ~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~ 166 (354)
|++--|.|. .-.-.+.+..|+|.||+.++..=..+-.. ..-...-...+.++-..+.|.+.-.+..+.-.+
T Consensus 185 gk~~s~aE~----~Lyl~iL~~~~k~~eal~~l~~~la~~l~-----~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k 255 (932)
T KOG2053|consen 185 GKIESEAEI----ILYLLILELQGKYQEALEFLAITLAEKLT-----SANLYLENKKLDLLKLLNRWQELFELSSRLLEK 255 (932)
T ss_pred CccchHHHH----HHHHHHHHhcccHHHHHHHHHHHHHHhcc-----ccchHHHHHHHHHHHHhcChHHHHHHHHHHHHh
Q ss_pred hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHH
Q 018521 167 VSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA 246 (354)
Q Consensus 167 ~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~ 246 (354)
..+. |..+-..++++...-.. .|...+....--|...+-.+.=...+..|.=.|+
T Consensus 256 ~~Dd----------------------y~~~~~sv~klLe~~~~---~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA 310 (932)
T KOG2053|consen 256 GNDD----------------------YKIYTDSVFKLLELLNK---EPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLA 310 (932)
T ss_pred CCcc----------------------hHHHHHHHHHHHHhccc---ccchhhhhhhhhHHHHHHHHHHhhcccccCcHHH
Q ss_pred hhhhccccccccchHHHHHHHHHHhcCh----hhHHHHHHhhchhhhccC-------CCcHHHHHHHHHHHHHHHHhhcc
Q 018521 247 TLYKDERCSKLKIYPILQKVYLERILRK----PEIDAFAEELKPHQKALL-------PDNFTVLDRAMIEHNLLSASKLY 315 (354)
Q Consensus 247 ~l~kd~r~~~lp~~~~L~k~f~~~li~~----~~i~~f~~~L~~h~~~~~-------~dg~~~L~~~viEHNi~~isk~Y 315 (354)
++.-+.|...+|+.....-.|+...-.. .++..|-..|.+.|.... .|+.+ -+..+.-+.-
T Consensus 311 ~lel~kr~~~~gd~ee~~~~y~~kfg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s--------~~~k~l~~h~ 382 (932)
T KOG2053|consen 311 RLELDKRYKLIGDSEEMLSYYFKKFGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSS--------GDEKVLQQHL 382 (932)
T ss_pred HHHHHHHhcccCChHHHHHHHHHHhCCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcch--------hhHHHHHHHH
Q ss_pred ccccHHH-HHHHhCCChHHHHHHHHhhH
Q 018521 316 TNISFEE-LGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 316 ~~Itl~~-La~LL~ls~~eaE~~ls~MI 342 (354)
..+.+.| +|.-.++|.+..+....+++
T Consensus 383 c~l~~~rl~G~~~~l~ad~i~a~~~kl~ 410 (932)
T KOG2053|consen 383 CVLLLLRLLGLYEKLPADSILAYVRKLK 410 (932)
T ss_pred HHHHHHHHhhccccCChHHHHHHHHHHH
No 283
>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=24.57 E-value=66 Score=18.73 Aligned_cols=23 Identities=17% Similarity=0.254 Sum_probs=19.2
Q ss_pred HHHHHHHHccCHHHHHHHhcccc
Q 018521 101 KLADLYESEQQWSKAAQMLSGID 123 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~ 123 (354)
.+-+.|.+.|++++|.+++.+++
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M~ 27 (31)
T PF01535_consen 5 SLISGYCKMGQFEEALEVFDEMR 27 (31)
T ss_pred HHHHHHHccchHHHHHHHHHHHh
Confidence 45677889999999999998764
No 284
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=24.46 E-value=8.9e+02 Score=25.89 Aligned_cols=153 Identities=14% Similarity=0.167 Sum_probs=97.3
Q ss_pred HHHHHHHHHhhcc--ccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhccc-ccccCCccCChhHHHHHHHHHHHHhhcc
Q 018521 74 KEIANYTLAQIQP--RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGI-DLDSGMRVIDDTFRLSKCVQIARLYLED 150 (354)
Q Consensus 74 ~~~~~~~l~~i~~--~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i-~vEt~~~~~~~~eKle~~l~i~rL~L~~ 150 (354)
..+...-|+.... -++.-++|. -|.-+|--.|+|+.|.++++.. +|+.. ++ -+|-+.---.--.
T Consensus 411 ~~i~~~fLeaa~~~~~~~DpdvQ~-----~LGVLy~ls~efdraiDcf~~AL~v~Pn------d~--~lWNRLGAtLAN~ 477 (579)
T KOG1125|consen 411 AHIQELFLEAARQLPTKIDPDVQS-----GLGVLYNLSGEFDRAVDCFEAALQVKPN------DY--LLWNRLGATLANG 477 (579)
T ss_pred HHHHHHHHHHHHhCCCCCChhHHh-----hhHHHHhcchHHHHHHHHHHHHHhcCCc------hH--HHHHHhhHHhcCC
Confidence 3444444444432 235555554 5888999999999999999743 22211 22 3555555444555
Q ss_pred CCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCC--CHHHHHHHHHHH
Q 018521 151 DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETI--DEEALEQALSAA 228 (354)
Q Consensus 151 ~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~--d~~e~~~~L~~a 228 (354)
+.+..|-..++||..+... -.+.+| -+|.-++..+.|.||+++|.+...--.......+. ..+...++|+.+
T Consensus 478 ~~s~EAIsAY~rALqLqP~----yVR~Ry--NlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~a 551 (579)
T KOG1125|consen 478 NRSEEAISAYNRALQLQPG----YVRVRY--NLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLA 551 (579)
T ss_pred cccHHHHHHHHHHHhcCCC----eeeeeh--hhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHH
Confidence 6778888889999888653 223344 57888999999999999999998743320001111 134566999966
Q ss_pred HHHHHhcCCCcchHHHHHhhhhcc
Q 018521 229 VTCTILAAAGPQRSRVLATLYKDE 252 (354)
Q Consensus 229 v~~~ILa~~~~~rs~lL~~l~kd~ 252 (354)
++| ..|+|+|...+.+-
T Consensus 552 ls~-------~~~~D~l~~a~~~~ 568 (579)
T KOG1125|consen 552 LSA-------MNRSDLLQEAAPSR 568 (579)
T ss_pred HHH-------cCCchHHHHhcccc
Confidence 554 46788777766643
No 285
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=24.24 E-value=9.5e+02 Score=26.18 Aligned_cols=100 Identities=12% Similarity=0.083 Sum_probs=79.0
Q ss_pred HHHHHHHHccCHHHHHHHhccccc--ccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHH
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDL--DSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 178 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~v--Et~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~ 178 (354)
.+|-.+--.|++..|.+++++..- ++. -+-.+-+..+..+.+.+...+.+-...|.....+..+.+.+ ++.
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 GFAVAQHLLGEYKMALEILEEFEKTQNTS-PSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD------KLA 220 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccC-CCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH------HHH
Confidence 344455567889999999986521 111 12345677999999999999999999998888888777665 678
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDISQIQ 207 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~~t~ 207 (354)
|.+-.|.+++--.++.+|..-|.-+....
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 88899999999999999999999998764
No 286
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=24.22 E-value=5.8e+02 Score=23.65 Aligned_cols=70 Identities=16% Similarity=0.134 Sum_probs=52.5
Q ss_pred HHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCch
Q 018521 99 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 172 (354)
Q Consensus 99 ~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~ 172 (354)
....|.-+...|+|++|.+.+..+.- .+. ....-....+..+..|...+|+..|..+.++......+.++
T Consensus 35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~-~yP---~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~ 104 (243)
T PRK10866 35 IYATAQQKLQDGNWKQAITQLEALDN-RYP---FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN 104 (243)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH-hCC---CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCc
Confidence 45567778889999999999997642 221 11233334667799999999999999999999998876543
No 287
>COG2118 DNA-binding protein [General function prediction only]
Probab=24.18 E-value=56 Score=27.29 Aligned_cols=22 Identities=18% Similarity=0.252 Sum_probs=19.6
Q ss_pred hHHHHHHHHhhHhcCCeeEecC
Q 018521 331 PQKAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 331 ~~eaE~~ls~MI~~grl~akID 352 (354)
.+.+|..+-.|...|++..+||
T Consensus 69 AeavE~qLi~LaqtGri~~~I~ 90 (116)
T COG2118 69 AEAVENQLIQLAQTGRITHKID 90 (116)
T ss_pred HHHHHHHHHHHHHcCCCCCCCC
Confidence 4567889999999999999998
No 288
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=24.15 E-value=1e+02 Score=27.87 Aligned_cols=32 Identities=13% Similarity=0.346 Sum_probs=29.6
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
.+|-+.||..||++++-+=+.+.+|-.+|-|.
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 47888999999999999999999999999885
No 289
>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=24.14 E-value=1e+02 Score=25.65 Aligned_cols=34 Identities=18% Similarity=0.198 Sum_probs=31.5
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
-.|..++|..|++|..-+--.+++|+.+|.+...
T Consensus 55 ~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 55 PLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred CccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEe
Confidence 7899999999999999999999999999988653
No 290
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=24.12 E-value=7.4e+02 Score=24.88 Aligned_cols=121 Identities=11% Similarity=0.052 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHhcCCCchhhhHHHHHHHHHHhcCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCH
Q 018521 34 IVQAKKFIDHMLSDDVPLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQW 112 (354)
Q Consensus 34 ~~~l~~~~~~~~~~~~~~v~sr~~l~~~~~~l~~l~-~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~ 112 (354)
.+++..|.+.++++--+-|=-++++.-++...+++. .+...+.++.+.+.+..-+.- +.+..+--..|..+...||.
T Consensus 54 ~~~~l~lY~NFvsefe~kINplslvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~--~av~~~~t~~~r~~L~i~DL 131 (380)
T KOG2908|consen 54 GDLLLQLYLNFVSEFETKINPLSLVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEP--DAVIYILTEIARLKLEINDL 131 (380)
T ss_pred chHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccc--hhHHHHHHHHHHHHHhcccH
Confidence 356666777776665555666666666666666665 455577888888877544432 22333444445555577788
Q ss_pred HHHHHHhccccc--ccCCccCChhHHHHHHHHHHHHhhccCCHHHHH
Q 018521 113 SKAAQMLSGIDL--DSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAE 157 (354)
Q Consensus 113 ~eAa~iL~~i~v--Et~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~ 157 (354)
.++-+.|.+..- ++-. .++..--..||.--.++|-..+|+...-
T Consensus 132 k~~kk~ldd~~~~ld~~~-~v~~~Vh~~fY~lssqYyk~~~d~a~yY 177 (380)
T KOG2908|consen 132 KEIKKLLDDLKSMLDSLD-GVTSNVHSSFYSLSSQYYKKIGDFASYY 177 (380)
T ss_pred HHHHHHHHHHHHHHhccc-CCChhhhhhHHHHHHHHHHHHHhHHHHH
Confidence 887777775532 3333 4555555678888888888888876543
No 291
>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=24.05 E-value=1.3e+02 Score=20.26 Aligned_cols=23 Identities=17% Similarity=0.328 Sum_probs=19.7
Q ss_pred hhccccccHHHHHHHhCCChHHH
Q 018521 312 SKLYTNISFEELGTLLGIAPQKA 334 (354)
Q Consensus 312 sk~Y~~Itl~~La~LL~ls~~ea 334 (354)
.+-|..+|+.++++..|++..-.
T Consensus 11 ~~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 11 EKGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHHTTTSSHHHHHHHHTSCHHHH
T ss_pred HhCHHhCCHHHHHHHHccchhhH
Confidence 44899999999999999997643
No 292
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.90 E-value=91 Score=24.91 Aligned_cols=26 Identities=35% Similarity=0.272 Sum_probs=22.6
Q ss_pred ccccccHHHHHHHhCCChHHHHHHHH
Q 018521 314 LYTNISFEELGTLLGIAPQKAEKIAS 339 (354)
Q Consensus 314 ~Y~~Itl~~La~LL~ls~~eaE~~ls 339 (354)
--++.|.+.+|..||+|+.++|+++.
T Consensus 20 el~~LS~~~iA~~Ln~t~~~lekil~ 45 (97)
T COG4367 20 ELCPLSDEEIATALNWTEVKLEKILQ 45 (97)
T ss_pred hhccccHHHHHHHhCCCHHHHHHHHH
Confidence 34677999999999999999999883
No 293
>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=23.81 E-value=87 Score=30.08 Aligned_cols=38 Identities=13% Similarity=0.209 Sum_probs=32.5
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEecCC
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 353 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~akIDq 353 (354)
-.|++..||+-+++|.+.+-..+......+.++|++|.
T Consensus 129 G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~ 166 (272)
T PF09743_consen 129 GQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDG 166 (272)
T ss_pred CeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeC
Confidence 56899999999999999999666666888889999985
No 294
>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=23.68 E-value=1.9e+02 Score=25.29 Aligned_cols=31 Identities=19% Similarity=0.142 Sum_probs=28.9
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCe
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRM 347 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl 347 (354)
-+|-++||++||++..++-+.+..|...|-+
T Consensus 28 ~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv 58 (158)
T TIGR00373 28 EFTDEEISLELGIKLNEVRKALYALYDAGLA 58 (158)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCc
Confidence 3789999999999999999999999999876
No 295
>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=23.34 E-value=3.7e+02 Score=23.76 Aligned_cols=115 Identities=13% Similarity=0.067 Sum_probs=76.4
Q ss_pred hhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcC
Q 018521 133 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIG 212 (354)
Q Consensus 133 ~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~ 212 (354)
..+-+.-.++.+...+..+|...++..+.-...+-.+ .+ .+..+-|.+++.+++|.+|.+.+.++-...+
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~--~~----e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~---- 75 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPE--FP----ELDLFDGWLHIVRGDWDDALRLLRELEERAP---- 75 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCC--ch----HHHHHHHHHHHHhCCHHHHHHHHHHHhccCC----
Confidence 3455677889999999999999999999888877664 33 3556889999999999999999999876421
Q ss_pred CcCCCHHHHHHHHHHHHHHHHhcCCCcchHHHHHh-hhhccccccccchHHHHHHHHH
Q 018521 213 DETIDEEALEQALSAAVTCTILAAAGPQRSRVLAT-LYKDERCSKLKIYPILQKVYLE 269 (354)
Q Consensus 213 ~~~~d~~e~~~~L~~av~~~ILa~~~~~rs~lL~~-l~kd~r~~~lp~~~~L~k~f~~ 269 (354)
.. -+..+.+..+|...+..-++.-+. +..++ .-|.-..|.+.|+.
T Consensus 76 ---~~------p~~kALlA~CL~~~~D~~Wr~~A~evle~~---~d~~a~~Lv~~Ll~ 121 (160)
T PF09613_consen 76 ---GF------PYAKALLALCLYALGDPSWRRYADEVLESG---ADPDARALVRALLA 121 (160)
T ss_pred ---CC------hHHHHHHHHHHHHcCChHHHHHHHHHHhcC---CChHHHHHHHHHHH
Confidence 11 122244444454444433443222 32221 24455677777763
No 296
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=23.24 E-value=3.8e+02 Score=22.90 Aligned_cols=46 Identities=15% Similarity=0.203 Sum_probs=35.7
Q ss_pred HHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 018521 141 VQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLE 195 (354)
Q Consensus 141 l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fle 195 (354)
..-+|-|+..++|.||--+++.... + +..|-.++++|+..+++=.|
T Consensus 78 yllAksyFD~kEy~RaA~~L~~~~s-------~--~~~FL~lYs~YLa~EKr~~E 123 (142)
T PF04049_consen 78 YLLAKSYFDCKEYDRAAHVLKDCKS-------P--KALFLRLYSRYLAGEKRKEE 123 (142)
T ss_pred HHHHHHHhchhHHHHHHHHHccCCC-------c--hHHHHHHHHHHHHHHHHHhh
Confidence 3369999999999999988887661 2 45688888888888777544
No 297
>KOG2471 consensus TPR repeat-containing protein [General function prediction only]
Probab=22.99 E-value=2.1e+02 Score=30.18 Aligned_cols=105 Identities=12% Similarity=0.009 Sum_probs=60.7
Q ss_pred HHHHHHHccCHHHHHHHhccccc--ccCCccCChhH-HHHHHHHHHHHhhccCCHHHHHHHHHHhhc-----hh--cCC-
Q 018521 102 LADLYESEQQWSKAAQMLSGIDL--DSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAEAFINKASF-----LV--SSS- 170 (354)
Q Consensus 102 LA~i~E~~gd~~eAa~iL~~i~v--Et~~~~~~~~e-Kle~~l~i~rL~L~~~D~~~a~~~~~Ka~~-----~~--~~~- 170 (354)
-++.+...||+.+|++.|.-+.. +.+| +.++.- ..=||-..-=+.+..+-|.-+-.+..||.. +- +..
T Consensus 246 Ksq~eY~~gn~~kA~KlL~~sni~~~~g~-~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~ 324 (696)
T KOG2471|consen 246 KSQLEYAHGNHPKAMKLLLVSNIHKEAGG-TITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPA 324 (696)
T ss_pred HHHHHHHhcchHHHHHHHHhcccccccCc-cccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 47788899999999999987766 3332 333211 100111111122233444555556666653 00 010
Q ss_pred -----chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 018521 171 -----QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 208 (354)
Q Consensus 171 -----~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~ 208 (354)
.........|.| |..+.|.++-+.|++||.+....|.
T Consensus 325 ~~~tls~nks~eilYNc-G~~~Lh~grPl~AfqCf~~av~vfh 366 (696)
T KOG2471|consen 325 KTFTLSQNKSMEILYNC-GLLYLHSGRPLLAFQCFQKAVHVFH 366 (696)
T ss_pred cceehhcccchhhHHhh-hHHHHhcCCcHHHHHHHHHHHHHHh
Confidence 011223345666 5567899999999999999999886
No 298
>PRK04239 hypothetical protein; Provisional
Probab=22.67 E-value=60 Score=26.95 Aligned_cols=37 Identities=24% Similarity=0.368 Sum_probs=26.0
Q ss_pred ccccHHHHHHHhCCChH---HHHHHHHhhHhcCCeeEecC
Q 018521 316 TNISFEELGTLLGIAPQ---KAEKIASRMIFEDRMRGSID 352 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~---eaE~~ls~MI~~grl~akID 352 (354)
+.=--+||+.+==+-|+ .+|.++..|...|+|.+|||
T Consensus 48 t~eAreRL~rI~lvkPe~A~~VE~~liqlAq~G~i~~ki~ 87 (110)
T PRK04239 48 TPEARERLNRIKLVKPEFAEQVEQQLIQLAQSGRIQGPID 87 (110)
T ss_pred CHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHcCCCCCCcC
Confidence 33334455554445554 57888999999999999997
No 299
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=22.64 E-value=5.7e+02 Score=23.40 Aligned_cols=78 Identities=13% Similarity=0.014 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHccCHHHHHHHhccc------ccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchh
Q 018521 94 QVLIIREKLADLYESEQQWSKAAQMLSGI------DLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV 167 (354)
Q Consensus 94 e~a~l~~~LA~i~E~~gd~~eAa~iL~~i------~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~ 167 (354)
..|.+.+++|=+|...|+.++....|+.- ..++.+..........+..-+.-|+...|++..|..++.|+....
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 67889999999999999965544444321 112222122333445577778999999999999999999997765
Q ss_pred cCCc
Q 018521 168 SSSQ 171 (354)
Q Consensus 168 ~~~~ 171 (354)
....
T Consensus 196 ~~s~ 199 (214)
T PF09986_consen 196 KASK 199 (214)
T ss_pred CCCC
Confidence 5433
No 300
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=22.24 E-value=5.5e+02 Score=24.22 Aligned_cols=66 Identities=12% Similarity=0.057 Sum_probs=45.2
Q ss_pred HHHHHHHHHH-ccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc
Q 018521 99 REKLADLYES-EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 171 (354)
Q Consensus 99 ~~~LA~i~E~-~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~ 171 (354)
-...|.+-.. .+|.+-|.+++.. -+..+ ....++|+.=+...+..+|...|+.++.|+........
T Consensus 38 y~~~A~~E~~~~~d~~~A~~Ife~-glk~f------~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~ 104 (280)
T PF05843_consen 38 YVAYALMEYYCNKDPKRARKIFER-GLKKF------PSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEK 104 (280)
T ss_dssp HHHHHHHHHHTCS-HHHHHHHHHH-HHHHH------TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHH
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHH-HHHHC------CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchh
Confidence 4456777334 5676668888863 12222 23467888888999999999999999999988866533
No 301
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.20 E-value=7.2e+02 Score=24.04 Aligned_cols=122 Identities=15% Similarity=0.153 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHH---------------------------HHHHHHHHHHhhc
Q 018521 97 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR---------------------------LSKCVQIARLYLE 149 (354)
Q Consensus 97 ~l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eK---------------------------le~~l~i~rL~L~ 149 (354)
|+-..-|-.+|+.|.|.+|.+.+..+--|...-.....-| .|.|.+...+|+.
T Consensus 87 RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~ 166 (289)
T KOG3060|consen 87 RVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLS 166 (289)
T ss_pred hHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q ss_pred cCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHH
Q 018521 150 DDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAV 229 (354)
Q Consensus 150 ~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av 229 (354)
.+||.+|--.+.-..-..+- ++-.-.+| .-.+|...-..=++.++.||+-.- +.++ +...+|-.+-
T Consensus 167 ~~~f~kA~fClEE~ll~~P~--n~l~f~rl--ae~~Yt~gg~eN~~~arkyy~~al---------kl~~-~~~ral~GI~ 232 (289)
T KOG3060|consen 167 EGDFEKAAFCLEELLLIQPF--NPLYFQRL--AEVLYTQGGAENLELARKYYERAL---------KLNP-KNLRALFGIY 232 (289)
T ss_pred HhHHHHHHHHHHHHHHcCCC--cHHHHHHH--HHHHHHHhhHHHHHHHHHHHHHHH---------HhCh-HhHHHHHHHH
Q ss_pred HHH
Q 018521 230 TCT 232 (354)
Q Consensus 230 ~~~ 232 (354)
.|+
T Consensus 233 lc~ 235 (289)
T KOG3060|consen 233 LCG 235 (289)
T ss_pred HHH
No 302
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=22.14 E-value=1.2e+02 Score=20.50 Aligned_cols=27 Identities=22% Similarity=0.359 Sum_probs=22.1
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhh
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~M 341 (354)
-...|+..+|..+|+|..-+..++-+.
T Consensus 25 ~~~~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 25 RESRSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred hhcCCHHHHHHHHCCCHHHHHHHHHhh
Confidence 344799999999999999988876553
No 303
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=22.08 E-value=1.9e+02 Score=24.35 Aligned_cols=33 Identities=9% Similarity=0.249 Sum_probs=29.7
Q ss_pred ccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 316 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 316 ~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
..++.+.||+.||+++.-+=..+.+|...|-+.
T Consensus 21 ~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 21 GYARVSDIAEALSVHPSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred CCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEE
Confidence 456889999999999999999999999999775
No 304
>COG2886 Uncharacterized small protein [Function unknown]
Probab=22.04 E-value=2.1e+02 Score=22.81 Aligned_cols=35 Identities=14% Similarity=0.143 Sum_probs=27.8
Q ss_pred HHHHHHHhhccccccHHHHHHHhCCChHHHHHHHHhh
Q 018521 305 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 305 EHNi~~isk~Y~~Itl~~La~LL~ls~~eaE~~ls~M 341 (354)
+-+|--+-+ ..|||.+.|++.|+|..+.+..+.+=
T Consensus 31 ~iaI~L~qe--g~vSlg~Aaela~~sl~ef~~eL~~R 65 (88)
T COG2886 31 EIAIELFQE--GAVSLGRAAELAGMSLNEFEEELRKR 65 (88)
T ss_pred HHHHHHHHH--hhhHHHHHHHHhcCCHHHHHHHHHHh
Confidence 444444444 88999999999999999999988764
No 305
>PF14674 FANCI_S1-cap: FANCI solenoid 1 cap; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=21.98 E-value=68 Score=22.98 Aligned_cols=27 Identities=19% Similarity=0.393 Sum_probs=21.1
Q ss_pred CHHHHHHHHHHHhcCCCchhhhHHHHH
Q 018521 33 DIVQAKKFIDHMLSDDVPLVVSRQLLQ 59 (354)
Q Consensus 33 ~~~~l~~~~~~~~~~~~~~v~sr~~l~ 59 (354)
+.+.|+.|++++-.+...-++.++.|.
T Consensus 13 t~e~LQ~~Lq~L~edeLt~~lt~~AlK 39 (53)
T PF14674_consen 13 TTEELQKFLQTLKEDELTDLLTNQALK 39 (53)
T ss_dssp TTHHHHHHHHHH-S-SHHHHHHHHHH-
T ss_pred CHHHHHHHHHHcchhHHHHHHHHHhhc
Confidence 568999999999999998888888775
No 306
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=21.68 E-value=9.8e+02 Score=25.94 Aligned_cols=70 Identities=14% Similarity=0.128 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHHHHH--ccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhc
Q 018521 92 EEQVLIIREKLADLYES--EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 168 (354)
Q Consensus 92 E~e~a~l~~~LA~i~E~--~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~ 168 (354)
+..+-.+.+.+++.|.. .-++.+|...++.+|-.-++ + + =+.....|.|+|..||.+|+.+.+.+..+-.
T Consensus 313 ~~~l~~llr~~~~~~~~~s~y~~~~A~~~~~klp~h~~n-t---~---wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p 384 (638)
T KOG1126|consen 313 ASELMELLRGLGEGYRSLSQYNCREALNLFEKLPSHHYN-T---G---WVLSQLGRAYFELIEYDQAERIFSLVRRIEP 384 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhcCC-c---h---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 44566677778888754 45789999999987654333 1 1 3777889999999999999999999877653
No 307
>PF06711 DUF1198: Protein of unknown function (DUF1198); InterPro: IPR009587 This family consists of several bacterial proteins of around 150 residues in length which are specific to Escherichia coli, Salmonella species and Yersinia pestis. The function of this family is unknown.
Probab=21.45 E-value=70 Score=27.74 Aligned_cols=22 Identities=27% Similarity=0.401 Sum_probs=20.3
Q ss_pred HHHHHHHhCCChHHHHHHHHhh
Q 018521 320 FEELGTLLGIAPQKAEKIASRM 341 (354)
Q Consensus 320 l~~La~LL~ls~~eaE~~ls~M 341 (354)
.++||+.|+++|--+|.++.+|
T Consensus 28 ~~~Ls~rL~I~Pv~iESMl~qM 49 (148)
T PF06711_consen 28 IRRLSERLNIKPVYIESMLDQM 49 (148)
T ss_pred HHHHHHHhCCCceeHHHHHHHH
Confidence 4689999999999999999998
No 308
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=21.33 E-value=5.7e+02 Score=22.51 Aligned_cols=94 Identities=11% Similarity=0.005 Sum_probs=72.3
Q ss_pred HHHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHH
Q 018521 100 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 179 (354)
Q Consensus 100 ~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y 179 (354)
..+|-.+...|++++|.++.+-+- +=+.+-.++|.-..-.|-..++|..|-..+.++..+-.+ ||. -
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 YRYAMQLMEVKEFAGAARLFQLLT-------IYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID--APQ----A 105 (157)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHH-------HhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--Cch----H
Confidence 667888899999999999987432 223455678999999999999999999999999888764 443 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 180 KVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 180 ~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+...|..+..-++.-.|-+.|......
T Consensus 106 ~~~ag~c~L~lG~~~~A~~aF~~Ai~~ 132 (157)
T PRK15363 106 PWAAAECYLACDNVCYAIKALKAVVRI 132 (157)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 345566777777777787777776664
No 309
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=21.20 E-value=1.4e+02 Score=27.79 Aligned_cols=40 Identities=23% Similarity=0.209 Sum_probs=34.0
Q ss_pred HhhccccccHHHHHHHhCCChHHHHHHHHhhHhcCCeeEe
Q 018521 311 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 350 (354)
Q Consensus 311 isk~Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ak 350 (354)
.-+-=.-+|.+.||+.||||+..+-..+-+++.+|-+...
T Consensus 19 lL~~~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~ 58 (218)
T COG2345 19 LLKKSGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVE 58 (218)
T ss_pred HHhccCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee
Confidence 3344567899999999999999999999999999977654
No 310
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=20.74 E-value=7e+02 Score=24.90 Aligned_cols=61 Identities=16% Similarity=0.130 Sum_probs=44.2
Q ss_pred HHHHHHHHccCHHHHHHHhcccccccCCccCChhHHHHHHHHHHHHhhccC--CHHHHHHHHHHhhch
Q 018521 101 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD--DAVNAEAFINKASFL 166 (354)
Q Consensus 101 ~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eKle~~l~i~rL~L~~~--D~~~a~~~~~Ka~~~ 166 (354)
..+.-.-..++|..|++++.++.- + ++...+.+.+-...+.|..++ |+.+|..++++....
T Consensus 136 ~~a~~l~n~~~y~aA~~~l~~l~~----r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~~~ 198 (379)
T PF09670_consen 136 RRAKELFNRYDYGAAARILEELLR----R-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLLKR 198 (379)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHH----h-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 344555688999999999997652 2 455555778888888887775 677888888876543
No 311
>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=20.59 E-value=5e+02 Score=22.86 Aligned_cols=62 Identities=18% Similarity=0.183 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHh----cCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHccCHHHHHHHhcccc
Q 018521 54 SRQLLQTFAQEL----GRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGID 123 (354)
Q Consensus 54 sr~~l~~~~~~l----~~l~~~~~~~~~~~~l~~i~~~~i~~E~e~a~l~~~LA~i~E~~gd~~eAa~iL~~i~ 123 (354)
|..++..+++.+ ..-+.+. .+.+...|+.+.|+.. .+..--+-++-..|+|.+|..+|.++.
T Consensus 6 s~~iv~gLi~~~~~aL~~~d~~D-~e~lLdALrvLrP~~~-------e~d~~dg~l~i~rg~w~eA~rvlr~l~ 71 (153)
T TIGR02561 6 SNRLLGGLIEVLMYALRSADPYD-AQAMLDALRVLRPNLK-------ELDMFDGWLLIARGNYDEAARILRELL 71 (153)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHhCCCcc-------ccchhHHHHHHHcCCHHHHHHHHHhhh
Confidence 344555555443 3222223 3444577888888864 233445667889999999999999875
No 312
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=20.58 E-value=1.3e+02 Score=28.56 Aligned_cols=34 Identities=18% Similarity=0.262 Sum_probs=31.1
Q ss_pred cccccHHHHHHHhCCChHHHHHHHHhhHhcCCee
Q 018521 315 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 348 (354)
Q Consensus 315 Y~~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~ 348 (354)
--+++.+++|.-||+|++.+-.++-+||.+|-+.
T Consensus 23 qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~ 56 (260)
T COG1497 23 QPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIE 56 (260)
T ss_pred CCCCCHHHHHHHcCCCHHHHHHHHHHHHhcccee
Confidence 3678899999999999999999999999999774
No 313
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=20.51 E-value=1.6e+02 Score=26.32 Aligned_cols=33 Identities=18% Similarity=0.149 Sum_probs=30.1
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhHhcCCeeE
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 349 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI~~grl~a 349 (354)
-+|-+.||..||++..++-+.+..|-.+|-+..
T Consensus 36 ~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~ 68 (178)
T PRK06266 36 EVTDEEIAEQTGIKLNTVRKILYKLYDARLADY 68 (178)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 489999999999999999999999999997653
No 314
>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=20.40 E-value=1.6e+02 Score=15.73 Aligned_cols=27 Identities=11% Similarity=-0.123 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 018521 179 YKVCYARILDLKRKFLEAALRYYDISQ 205 (354)
Q Consensus 179 y~~~~~r~~~~~r~fleAa~~y~e~~~ 205 (354)
.+...|..+...++|-+|...|.....
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 345668888888899888888877765
No 315
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=20.36 E-value=1.2e+03 Score=25.85 Aligned_cols=131 Identities=17% Similarity=0.113 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHccCHHHHHHHhcccccccCCccCChhHH-HHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCc-----
Q 018521 98 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR-LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ----- 171 (354)
Q Consensus 98 l~~~LA~i~E~~gd~~eAa~iL~~i~vEt~~~~~~~~eK-le~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~----- 171 (354)
|...||++-|+.|....|..+|. |..=+.-| ..+||+-+|+=+..|+...|+..+.||.......+
T Consensus 721 LWllLakleEk~~~~~rAR~ild--------rarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaE 792 (913)
T KOG0495|consen 721 LWLLLAKLEEKDGQLVRARSILD--------RARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAE 792 (913)
T ss_pred HHHHHHHHHHHhcchhhHHHHHH--------HHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHH
Q ss_pred ------hHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcCCCHHHHHHHHHHHHHHH
Q 018521 172 ------QEVLNLQYKVCY-------------ARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCT 232 (354)
Q Consensus 172 ------~~~lkl~y~~~~-------------~r~~~~~r~fleAa~~y~e~~~t~~~~~~~~~~d~~e~~~~L~~av~~~ 232 (354)
.+..+.++-..+ |+++-.+++|..|-.-|.......+. .-+-|--.++ |-
T Consensus 793 aI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d-------~GD~wa~fyk----fe 861 (913)
T KOG0495|consen 793 AIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPD-------NGDAWAWFYK----FE 861 (913)
T ss_pred HHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCc-------cchHHHHHHH----HH
Q ss_pred HhcCCCcchHHHHHh
Q 018521 233 ILAAAGPQRSRVLAT 247 (354)
Q Consensus 233 ILa~~~~~rs~lL~~ 247 (354)
.......+|.+++++
T Consensus 862 l~hG~eed~kev~~~ 876 (913)
T KOG0495|consen 862 LRHGTEEDQKEVLKK 876 (913)
T ss_pred HHhCCHHHHHHHHHH
No 316
>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=20.34 E-value=3.5e+02 Score=23.81 Aligned_cols=66 Identities=15% Similarity=0.165 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHhhccCCHHHHHHHHHHhhchhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 018521 135 FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 206 (354)
Q Consensus 135 eKle~~l~i~rL~L~~~D~~~a~~~~~Ka~~~~~~~~~~~lkl~y~~~~~r~~~~~r~fleAa~~y~e~~~t 206 (354)
+-+--.++.+...+..+|...++..+.-...+..+.+ ....+-|.+++.+++|.||.+.+.++...
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 RLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLK------ELDMFDGWLLIARGNYDEAARILRELLSS 73 (153)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCcc------ccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence 4456678889999999999999999998888876533 24457899999999999999999999874
No 317
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=20.30 E-value=1.4e+02 Score=21.56 Aligned_cols=26 Identities=19% Similarity=0.548 Sum_probs=20.5
Q ss_pred cccHHHHHHHhCCChHHHHHHHHhhH
Q 018521 317 NISFEELGTLLGIAPQKAEKIASRMI 342 (354)
Q Consensus 317 ~Itl~~La~LL~ls~~eaE~~ls~MI 342 (354)
+++++.||+.+|+++........+..
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~~~ 26 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKKET 26 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHh
Confidence 46889999999999888877766543
Done!