Query 019008
Match_columns 347
No_of_seqs 161 out of 397
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 05:55:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2582 COP9 signalosome, subu 100.0 5.9E-72 1.3E-76 527.2 25.8 339 4-344 5-349 (422)
2 KOG2581 26S proteasome regulat 100.0 3.9E-46 8.4E-51 356.1 22.2 327 6-343 71-408 (493)
3 KOG1464 COP9 signalosome, subu 99.6 2.8E-14 6E-19 132.3 19.6 215 121-341 167-392 (440)
4 PF01399 PCI: PCI domain; Int 99.3 4.1E-12 8.8E-17 102.0 8.7 90 254-344 1-91 (105)
5 KOG2688 Transcription-associat 99.0 1.4E-09 3E-14 106.5 11.5 194 142-346 165-372 (394)
6 COG5600 Transcription-associat 99.0 8.2E-09 1.8E-13 99.6 13.8 194 142-346 179-391 (413)
7 KOG1463 26S proteasome regulat 98.7 4.6E-06 9.9E-11 80.0 21.9 215 121-341 150-373 (411)
8 KOG2908 26S proteasome regulat 98.3 0.00013 2.8E-09 70.2 20.3 246 75-343 54-324 (380)
9 COG5159 RPN6 26S proteasome re 98.3 8.1E-05 1.8E-09 70.3 18.3 218 118-341 144-371 (421)
10 smart00088 PINT motif in prote 98.1 7E-06 1.5E-10 64.1 6.5 53 290-343 2-54 (88)
11 smart00753 PAM PCI/PINT associ 98.1 7E-06 1.5E-10 64.1 6.5 53 290-343 2-54 (88)
12 PF10255 Paf67: RNA polymerase 97.7 0.0024 5.2E-08 63.7 16.8 183 145-336 127-344 (404)
13 KOG1498 26S proteasome regulat 97.6 0.0012 2.6E-08 64.7 12.9 193 144-343 175-383 (439)
14 KOG1497 COP9 signalosome, subu 97.5 0.069 1.5E-06 51.5 22.7 191 140-343 144-347 (399)
15 PF10075 PCI_Csn8: COP9 signal 96.9 0.0024 5.3E-08 54.5 6.2 79 255-337 43-121 (143)
16 TIGR02795 tol_pal_ybgF tol-pal 96.5 0.025 5.4E-07 45.0 9.4 104 114-221 14-118 (119)
17 PF09976 TPR_21: Tetratricopep 96.4 0.017 3.6E-07 49.1 8.3 114 80-204 32-145 (145)
18 PF13432 TPR_16: Tetratricopep 96.1 0.014 3.1E-07 42.2 5.3 61 146-209 3-64 (65)
19 PF12895 Apc3: Anaphase-promot 96.0 0.017 3.8E-07 44.2 5.5 78 120-203 7-84 (84)
20 TIGR02552 LcrH_SycD type III s 96.0 0.049 1.1E-06 44.9 8.6 89 114-209 29-118 (135)
21 PRK12370 invasion protein regu 96.0 0.25 5.4E-06 51.4 15.8 207 118-343 320-538 (553)
22 PF13371 TPR_9: Tetratricopept 95.6 0.023 4.9E-07 41.9 4.8 60 147-209 2-62 (73)
23 PF07719 TPR_2: Tetratricopept 95.6 0.025 5.4E-07 35.2 4.3 31 178-208 2-33 (34)
24 PF14938 SNAP: Soluble NSF att 95.6 0.6 1.3E-05 44.2 15.7 248 26-287 5-269 (282)
25 COG5187 RPN7 26S proteasome re 95.2 3 6.5E-05 40.1 18.4 236 97-343 114-361 (412)
26 PF13414 TPR_11: TPR repeat; P 95.2 0.042 9E-07 40.0 5.0 63 142-207 5-69 (69)
27 cd00189 TPR Tetratricopeptide 95.2 0.15 3.3E-06 36.8 8.1 86 115-207 13-99 (100)
28 PRK15359 type III secretion sy 95.1 0.24 5.3E-06 42.1 10.1 90 113-209 35-125 (144)
29 PRK10803 tol-pal system protei 94.8 0.38 8.3E-06 45.5 11.3 94 116-210 157-251 (263)
30 PF00515 TPR_1: Tetratricopept 94.6 0.076 1.6E-06 33.2 4.2 31 178-208 2-33 (34)
31 PLN03088 SGT1, suppressor of 94.5 0.33 7.2E-06 47.8 10.8 90 114-210 14-104 (356)
32 TIGR03302 OM_YfiO outer membra 94.1 0.74 1.6E-05 41.7 11.4 94 115-209 46-148 (235)
33 KOG0687 26S proteasome regulat 94.0 6.5 0.00014 38.4 19.0 216 120-343 122-347 (393)
34 PF13174 TPR_6: Tetratricopept 94.0 0.091 2E-06 32.3 3.7 29 180-208 3-32 (33)
35 COG5071 RPN5 26S proteasome re 94.0 1.2 2.5E-05 43.0 12.5 181 144-343 175-383 (439)
36 KOG0686 COP9 signalosome, subu 93.2 5.8 0.00013 39.8 16.3 203 130-343 177-395 (466)
37 PF09295 ChAPs: ChAPs (Chs5p-A 93.2 0.52 1.1E-05 47.2 9.2 83 114-203 212-294 (395)
38 PF13424 TPR_12: Tetratricopep 93.1 0.15 3.3E-06 38.0 4.2 65 141-205 6-74 (78)
39 TIGR02521 type_IV_pilW type IV 92.9 4.3 9.4E-05 35.1 13.9 88 114-208 43-130 (234)
40 PRK11788 tetratricopeptide rep 92.7 3.6 7.8E-05 39.9 14.5 92 114-208 81-173 (389)
41 KOG2753 Uncharacterized conser 92.6 11 0.00024 36.8 23.3 252 75-343 63-324 (378)
42 PRK10747 putative protoheme IX 92.5 1.2 2.7E-05 44.3 11.0 70 140-209 263-361 (398)
43 PF13181 TPR_8: Tetratricopept 92.4 0.21 4.5E-06 31.1 3.5 30 178-207 2-32 (34)
44 PF13429 TPR_15: Tetratricopep 91.8 0.44 9.5E-06 44.7 6.5 95 108-209 152-247 (280)
45 PF09012 FeoC: FeoC like trans 91.6 0.32 7E-06 36.2 4.3 41 302-343 4-44 (69)
46 PLN03081 pentatricopeptide (PP 91.5 6.5 0.00014 42.0 15.7 60 140-205 158-217 (697)
47 PLN03218 maturation of RBCL 1; 91.3 11 0.00023 42.8 17.6 85 254-342 685-785 (1060)
48 TIGR02917 PEP_TPR_lipo putativ 91.3 7.6 0.00016 41.1 15.9 91 112-209 135-226 (899)
49 PRK10370 formate-dependent nit 91.3 1.9 4.1E-05 38.8 9.8 98 113-217 84-185 (198)
50 PLN03218 maturation of RBCL 1; 91.2 9.3 0.0002 43.2 17.0 18 325-342 733-750 (1060)
51 cd05804 StaR_like StaR_like; a 90.9 6.4 0.00014 37.7 13.8 116 112-234 124-242 (355)
52 cd00189 TPR Tetratricopeptide 90.8 0.89 1.9E-05 32.6 6.0 63 144-209 4-67 (100)
53 KOG2072 Translation initiation 90.6 22 0.00047 38.7 17.9 59 286-344 421-479 (988)
54 PRK11788 tetratricopeptide rep 90.2 18 0.0004 34.9 19.2 90 115-208 120-212 (389)
55 TIGR00540 hemY_coli hemY prote 89.8 13 0.00027 37.1 15.2 91 110-206 126-216 (409)
56 KOG1076 Translation initiation 89.5 10 0.00022 40.5 14.2 83 260-343 661-748 (843)
57 PF13176 TPR_7: Tetratricopept 89.5 0.52 1.1E-05 30.2 3.3 24 181-204 3-26 (36)
58 PF14559 TPR_19: Tetratricopep 89.4 0.32 6.9E-06 35.1 2.5 55 151-208 2-57 (68)
59 TIGR02552 LcrH_SycD type III s 89.3 1.4 3.1E-05 35.9 6.7 72 131-208 11-83 (135)
60 TIGR00990 3a0801s09 mitochondr 89.2 5 0.00011 42.2 12.4 85 117-208 414-499 (615)
61 TIGR00540 hemY_coli hemY prote 89.0 23 0.00049 35.3 16.4 95 110-208 271-369 (409)
62 PF12688 TPR_5: Tetratrico pep 88.8 2.6 5.7E-05 35.0 7.9 94 111-205 10-103 (120)
63 TIGR03302 OM_YfiO outer membra 88.8 1.3 2.9E-05 39.9 6.8 71 140-210 33-104 (235)
64 PRK15359 type III secretion sy 88.8 1.8 3.9E-05 36.7 7.2 72 129-209 19-91 (144)
65 smart00028 TPR Tetratricopepti 88.6 1.1 2.3E-05 25.6 4.2 29 179-207 3-32 (34)
66 CHL00033 ycf3 photosystem I as 88.5 3.7 7.9E-05 35.4 9.0 70 139-208 34-104 (168)
67 TIGR02521 type_IV_pilW type IV 88.4 2.8 6.1E-05 36.3 8.4 92 112-208 75-167 (234)
68 CHL00033 ycf3 photosystem I as 88.3 4 8.6E-05 35.1 9.2 90 114-204 47-140 (168)
69 PLN03077 Protein ECB2; Provisi 88.2 5.3 0.00011 43.8 12.1 56 142-205 224-281 (857)
70 PRK15174 Vi polysaccharide exp 87.7 2.9 6.3E-05 44.6 9.4 92 112-210 294-386 (656)
71 PRK10049 pgaA outer membrane p 87.3 4.6 0.0001 43.8 10.8 171 112-296 282-471 (765)
72 TIGR02917 PEP_TPR_lipo putativ 87.3 16 0.00035 38.6 14.8 91 113-209 67-158 (899)
73 PF12569 NARP1: NMDA receptor- 87.0 12 0.00026 38.9 13.1 63 142-207 196-258 (517)
74 TIGR02795 tol_pal_ybgF tol-pal 86.8 1.5 3.2E-05 34.5 5.1 65 145-209 7-72 (119)
75 PRK02603 photosystem I assembl 86.7 1.9 4.2E-05 37.4 6.3 68 142-209 37-105 (172)
76 PF14853 Fis1_TPR_C: Fis1 C-te 86.5 2.8 6E-05 29.8 5.8 32 178-209 2-34 (53)
77 PRK10803 tol-pal system protei 86.5 1.7 3.7E-05 41.1 6.2 76 147-225 150-226 (263)
78 PF13429 TPR_15: Tetratricopep 86.4 0.82 1.8E-05 42.8 4.0 90 114-209 89-179 (280)
79 PRK11189 lipoprotein NlpI; Pro 86.4 3.6 7.9E-05 39.2 8.5 89 114-209 76-165 (296)
80 PF13412 HTH_24: Winged helix- 85.3 2.6 5.7E-05 28.6 5.1 42 301-343 6-47 (48)
81 PRK10049 pgaA outer membrane p 85.3 5.8 0.00012 43.1 10.3 94 110-210 367-461 (765)
82 PF13424 TPR_12: Tetratricopep 84.9 1.6 3.4E-05 32.4 4.2 32 175-206 3-34 (78)
83 TIGR00990 3a0801s09 mitochondr 84.8 6.8 0.00015 41.2 10.4 89 114-209 343-432 (615)
84 PRK14574 hmsH outer membrane p 84.8 17 0.00038 40.0 13.6 157 114-287 339-519 (822)
85 PF10602 RPN7: 26S proteasome 84.7 11 0.00023 33.4 10.1 124 75-206 16-142 (177)
86 PRK02603 photosystem I assembl 84.5 9.4 0.0002 33.0 9.5 92 114-209 47-153 (172)
87 PRK15174 Vi polysaccharide exp 84.1 16 0.00036 38.9 12.9 59 143-204 113-171 (656)
88 PRK15179 Vi polysaccharide bio 84.0 7.5 0.00016 41.9 10.3 131 71-208 44-186 (694)
89 PF13428 TPR_14: Tetratricopep 83.9 1.7 3.6E-05 29.0 3.5 30 180-209 4-34 (44)
90 PRK10747 putative protoheme IX 83.7 38 0.00083 33.6 14.7 89 112-206 128-216 (398)
91 PRK09782 bacteriophage N4 rece 83.7 4.5 9.8E-05 45.3 8.7 89 114-209 621-710 (987)
92 PRK11189 lipoprotein NlpI; Pro 82.7 5 0.00011 38.2 7.7 85 122-209 46-131 (296)
93 PF12895 Apc3: Anaphase-promot 82.4 1.4 3E-05 33.4 3.0 49 153-202 2-50 (84)
94 PF13414 TPR_11: TPR repeat; P 82.3 2.3 4.9E-05 30.6 4.0 33 177-209 3-36 (69)
95 PF13512 TPR_18: Tetratricopep 82.3 9.8 0.00021 32.7 8.4 95 114-209 22-132 (142)
96 PLN03077 Protein ECB2; Provisi 82.2 50 0.0011 36.2 16.1 119 144-278 528-651 (857)
97 PF09976 TPR_21: Tetratricopep 81.8 20 0.00044 30.0 10.3 60 143-202 51-110 (145)
98 PF14938 SNAP: Soluble NSF att 81.6 10 0.00022 35.8 9.3 132 74-212 92-232 (282)
99 PRK15331 chaperone protein Sic 81.1 2.8 6E-05 37.0 4.7 62 144-209 75-137 (165)
100 PF13525 YfiO: Outer membrane 81.0 16 0.00034 32.7 9.8 108 114-225 17-136 (203)
101 smart00550 Zalpha Z-DNA-bindin 80.4 4.3 9.4E-05 30.1 5.0 43 301-344 9-53 (68)
102 KOG0543 FKBP-type peptidyl-pro 80.2 5.4 0.00012 39.8 6.9 70 137-209 254-324 (397)
103 PF09986 DUF2225: Uncharacteri 79.2 14 0.0003 33.9 8.9 39 173-211 161-199 (214)
104 COG3071 HemY Uncharacterized e 79.1 15 0.00032 36.7 9.5 79 120-208 281-360 (400)
105 PF03399 SAC3_GANP: SAC3/GANP/ 78.3 4 8.7E-05 36.3 5.1 62 258-323 140-203 (204)
106 PRK12370 invasion protein regu 77.7 13 0.00028 38.7 9.4 85 114-205 350-434 (553)
107 PF13374 TPR_10: Tetratricopep 77.6 4.3 9.4E-05 25.7 3.8 28 178-205 3-30 (42)
108 cd05804 StaR_like StaR_like; a 77.4 39 0.00084 32.2 12.0 63 142-207 116-179 (355)
109 PRK14574 hmsH outer membrane p 77.0 4.7 0.0001 44.3 6.0 90 110-208 76-168 (822)
110 PRK10866 outer membrane biogen 77.0 23 0.00049 32.9 9.9 109 116-228 46-173 (243)
111 PRK11906 transcriptional regul 76.6 19 0.0004 36.8 9.6 82 121-209 323-405 (458)
112 KOG1840 Kinesin light chain [C 76.6 1E+02 0.0022 32.1 18.3 104 102-205 241-353 (508)
113 KOG2758 Translation initiation 76.3 16 0.00034 35.8 8.5 87 255-342 290-378 (432)
114 PRK15179 Vi polysaccharide bio 76.1 40 0.00087 36.4 12.6 91 108-205 126-216 (694)
115 KOG2076 RNA polymerase III tra 75.9 16 0.00034 40.0 9.2 67 141-209 415-482 (895)
116 PRK09782 bacteriophage N4 rece 75.7 14 0.0003 41.6 9.2 83 116-209 58-141 (987)
117 PLN03088 SGT1, suppressor of 75.3 6 0.00013 38.9 5.8 60 147-209 9-69 (356)
118 COG4105 ComL DNA uptake lipopr 74.6 36 0.00077 32.1 10.3 166 120-322 52-226 (254)
119 PLN03098 LPA1 LOW PSII ACCUMUL 74.5 9.4 0.0002 38.9 6.9 68 139-206 74-141 (453)
120 COG3063 PilF Tfp pilus assembl 74.0 12 0.00026 34.9 6.8 108 115-234 48-156 (250)
121 PRK15363 pathogenicity island 73.2 10 0.00022 33.1 6.0 88 136-234 32-120 (157)
122 PRK10866 outer membrane biogen 72.9 6.6 0.00014 36.5 5.1 65 145-209 37-102 (243)
123 PF08784 RPA_C: Replication pr 72.0 4.4 9.6E-05 32.2 3.3 31 312-343 65-95 (102)
124 KOG4162 Predicted calmodulin-b 71.8 37 0.0008 36.7 10.7 125 77-208 651-786 (799)
125 PRK10370 formate-dependent nit 71.0 19 0.00041 32.2 7.5 83 121-209 58-143 (198)
126 PRK11179 DNA-binding transcrip 70.8 7.6 0.00017 33.3 4.7 35 311-346 22-56 (153)
127 PF04733 Coatomer_E: Coatomer 70.3 50 0.0011 31.6 10.6 150 108-279 137-290 (290)
128 PF13432 TPR_16: Tetratricopep 70.2 6.1 0.00013 28.0 3.4 28 181-208 1-29 (65)
129 KOG1126 DNA-binding cell divis 69.9 25 0.00055 37.2 8.9 105 95-210 418-523 (638)
130 PF13525 YfiO: Outer membrane 69.6 8 0.00017 34.7 4.8 63 147-209 12-75 (203)
131 cd00092 HTH_CRP helix_turn_hel 69.3 14 0.00031 26.3 5.2 33 312-345 25-57 (67)
132 PF14559 TPR_19: Tetratricopep 69.1 13 0.00029 26.3 5.0 52 114-169 3-54 (68)
133 KOG2047 mRNA splicing factor [ 68.6 37 0.0008 36.3 9.7 114 115-228 360-483 (835)
134 KOG4414 COP9 signalosome, subu 68.3 12 0.00027 32.3 5.3 45 290-334 110-154 (197)
135 PF12569 NARP1: NMDA receptor- 67.0 1.7E+02 0.0036 30.6 16.6 138 115-261 241-390 (517)
136 smart00419 HTH_CRP helix_turn_ 66.6 9.6 0.00021 25.2 3.6 32 312-344 8-39 (48)
137 PRK15363 pathogenicity island 66.6 15 0.00033 32.0 5.7 73 127-205 59-131 (157)
138 COG1729 Uncharacterized protei 66.5 7.2 0.00016 36.9 3.8 104 151-274 152-256 (262)
139 PF01726 LexA_DNA_bind: LexA D 66.3 8.8 0.00019 28.3 3.5 32 313-344 26-57 (65)
140 PRK11447 cellulose synthase su 65.8 19 0.00042 41.0 7.8 61 142-205 639-699 (1157)
141 TIGR03879 near_KaiC_dom probab 65.8 11 0.00024 28.7 4.0 43 301-344 21-63 (73)
142 COG1522 Lrp Transcriptional re 65.7 11 0.00024 31.8 4.7 45 301-346 11-55 (154)
143 COG3071 HemY Uncharacterized e 65.6 30 0.00065 34.6 8.1 84 114-205 306-389 (400)
144 PF12840 HTH_20: Helix-turn-he 65.4 18 0.00039 25.8 5.1 52 293-345 5-56 (61)
145 COG2976 Uncharacterized protei 64.0 45 0.00098 30.4 8.2 88 115-208 102-191 (207)
146 smart00344 HTH_ASNC helix_turn 63.7 16 0.00035 28.9 5.0 35 309-344 14-48 (108)
147 PRK11169 leucine-responsive tr 63.4 10 0.00022 33.0 4.1 45 301-346 17-61 (164)
148 PF03704 BTAD: Bacterial trans 62.4 28 0.00061 28.9 6.5 63 99-165 59-121 (146)
149 PRK10153 DNA-binding transcrip 62.3 14 0.00031 38.3 5.6 64 141-208 421-485 (517)
150 PRK11447 cellulose synthase su 62.3 2.9E+02 0.0062 31.7 23.2 56 112-168 72-140 (1157)
151 KOG3060 Uncharacterized conser 62.2 1.5E+02 0.0032 28.3 11.6 30 180-209 157-187 (289)
152 PF05331 DUF742: Protein of un 60.8 14 0.00029 30.6 4.0 44 300-346 45-88 (114)
153 PF10037 MRP-S27: Mitochondria 59.6 14 0.0003 37.5 4.7 63 138-204 101-165 (429)
154 PF09339 HTH_IclR: IclR helix- 58.9 13 0.00028 25.7 3.2 37 306-343 12-48 (52)
155 PF13404 HTH_AsnC-type: AsnC-t 58.8 27 0.00058 23.3 4.6 32 305-337 10-41 (42)
156 COG1729 Uncharacterized protei 57.9 65 0.0014 30.6 8.5 99 121-220 160-259 (262)
157 PF13512 TPR_18: Tetratricopep 57.8 55 0.0012 28.1 7.4 61 147-209 17-80 (142)
158 PF10300 DUF3808: Protein of u 57.6 2.2E+02 0.0048 29.1 13.2 103 122-233 253-356 (468)
159 PF01047 MarR: MarR family; I 57.4 28 0.0006 24.3 4.8 43 301-344 6-48 (59)
160 PF09295 ChAPs: ChAPs (Chs5p-A 57.4 61 0.0013 32.6 8.8 64 143-209 203-267 (395)
161 PF08679 DsrD: Dissimilatory s 56.6 15 0.00032 27.4 3.2 38 309-346 16-53 (67)
162 KOG0553 TPR repeat-containing 56.3 2E+02 0.0043 27.9 12.2 147 177-342 81-247 (304)
163 PLN03081 pentatricopeptide (PP 56.2 2.8E+02 0.006 29.6 24.7 58 142-205 261-318 (697)
164 KOG0547 Translocase of outer m 55.5 1.1E+02 0.0023 31.9 10.0 63 143-208 431-494 (606)
165 PRK15431 ferrous iron transpor 54.3 31 0.00067 26.6 4.7 41 302-343 6-46 (78)
166 PF07721 TPR_4: Tetratricopept 53.8 17 0.00037 21.3 2.6 23 179-201 3-25 (26)
167 PF12802 MarR_2: MarR family; 53.6 33 0.00071 24.0 4.7 31 313-344 22-52 (62)
168 PF01325 Fe_dep_repress: Iron 53.2 32 0.0007 24.8 4.6 42 302-344 12-53 (60)
169 COG4783 Putative Zn-dependent 52.6 64 0.0014 33.1 8.0 123 149-289 315-442 (484)
170 COG4783 Putative Zn-dependent 52.2 85 0.0018 32.3 8.8 85 108-199 346-430 (484)
171 PF10345 Cohesin_load: Cohesin 50.6 3.3E+02 0.0071 28.8 15.6 178 48-232 52-240 (608)
172 PF08631 SPO22: Meiosis protei 50.5 1E+02 0.0022 29.0 8.8 58 149-206 2-65 (278)
173 COG2956 Predicted N-acetylgluc 50.1 29 0.00063 34.1 5.0 89 130-221 168-261 (389)
174 KOG1129 TPR repeat-containing 49.5 1.3E+02 0.0027 29.9 9.1 93 107-209 228-323 (478)
175 PF10300 DUF3808: Protein of u 48.8 61 0.0013 33.2 7.5 50 153-205 246-295 (468)
176 PF08220 HTH_DeoR: DeoR-like h 48.1 39 0.00084 23.9 4.3 43 301-344 3-45 (57)
177 KOG2316 Predicted ATPase (PP-l 47.9 18 0.00039 33.5 3.0 41 303-343 113-158 (277)
178 smart00420 HTH_DEOR helix_turn 47.9 47 0.001 22.0 4.6 33 311-344 13-45 (53)
179 KOG2076 RNA polymerase III tra 46.9 2E+02 0.0044 31.8 11.1 124 99-224 277-477 (895)
180 KOG1156 N-terminal acetyltrans 46.5 1.1E+02 0.0024 32.7 8.8 147 150-305 17-196 (700)
181 smart00345 HTH_GNTR helix_turn 46.0 33 0.00071 23.4 3.6 32 312-344 19-51 (60)
182 KOG3151 26S proteasome regulat 45.9 1.3E+02 0.0028 28.2 8.2 77 255-336 139-216 (260)
183 PF02082 Rrf2: Transcriptional 45.9 27 0.00058 26.6 3.4 31 313-344 26-56 (83)
184 PLN02789 farnesyltranstransfer 45.2 1.6E+02 0.0034 28.6 9.4 50 157-209 125-175 (320)
185 cd07377 WHTH_GntR Winged helix 45.0 46 0.00099 23.2 4.3 30 314-344 27-56 (66)
186 KOG1173 Anaphase-promoting com 44.6 1.3E+02 0.0029 31.6 9.0 106 121-232 433-542 (611)
187 KOG0495 HAT repeat protein [RN 44.4 1.7E+02 0.0036 31.7 9.7 91 115-209 732-850 (913)
188 PF06552 TOM20_plant: Plant sp 43.9 40 0.00088 30.2 4.5 46 178-223 70-127 (186)
189 PF13463 HTH_27: Winged helix 43.8 59 0.0013 23.1 4.8 40 303-343 9-48 (68)
190 KOG2002 TPR-containing nuclear 43.5 58 0.0013 36.2 6.5 66 144-209 274-340 (1018)
191 KOG1129 TPR repeat-containing 43.3 39 0.00085 33.4 4.7 108 116-234 338-446 (478)
192 PF01022 HTH_5: Bacterial regu 43.1 63 0.0014 21.7 4.5 38 303-343 8-45 (47)
193 PF00325 Crp: Bacterial regula 42.7 44 0.00096 21.2 3.4 30 312-342 2-31 (32)
194 KOG1585 Protein required for f 42.4 52 0.0011 31.3 5.2 145 122-276 91-251 (308)
195 COG4455 ImpE Protein of avirul 42.3 1.4E+02 0.0031 27.9 7.9 90 147-243 8-103 (273)
196 smart00418 HTH_ARSR helix_turn 41.5 41 0.00088 22.9 3.6 33 311-344 9-41 (66)
197 KOG1840 Kinesin light chain [C 41.2 4.4E+02 0.0095 27.5 16.6 129 74-206 343-479 (508)
198 PF13545 HTH_Crp_2: Crp-like h 41.1 42 0.00091 24.5 3.7 33 312-345 28-60 (76)
199 PRK13916 plasmid segregation p 41.0 69 0.0015 25.0 4.8 48 185-240 9-56 (97)
200 PF09613 HrpB1_HrpK: Bacterial 40.4 54 0.0012 28.7 4.8 32 177-208 44-76 (160)
201 KOG4507 Uncharacterized conser 40.3 60 0.0013 34.4 5.7 89 114-208 619-708 (886)
202 PF04703 FaeA: FaeA-like prote 39.7 53 0.0012 24.0 3.9 34 310-344 13-46 (62)
203 TIGR02561 HrpB1_HrpK type III 39.0 54 0.0012 28.5 4.4 30 178-207 45-74 (153)
204 PHA02695 hypothetical protein; 38.7 88 0.0019 33.6 6.7 120 216-336 19-160 (725)
205 KOG2796 Uncharacterized conser 38.7 3.7E+02 0.0081 26.0 12.3 108 99-209 174-285 (366)
206 KOG2062 26S proteasome regulat 38.1 5E+02 0.011 28.6 12.1 101 236-342 125-241 (929)
207 PF13812 PPR_3: Pentatricopept 37.4 29 0.00063 20.7 2.0 24 142-165 3-26 (34)
208 PHA02992 hypothetical protein; 37.4 1.1E+02 0.0024 32.9 7.2 122 215-336 19-162 (728)
209 PF13371 TPR_9: Tetratricopept 36.4 37 0.00081 24.2 2.8 25 184-208 2-27 (73)
210 KOG0547 Translocase of outer m 36.1 50 0.0011 34.2 4.3 109 178-299 395-514 (606)
211 PF07720 TPR_3: Tetratricopept 35.9 69 0.0015 20.6 3.6 24 178-201 2-25 (36)
212 cd00090 HTH_ARSR Arsenical Res 35.9 1E+02 0.0023 21.4 5.1 31 313-344 21-51 (78)
213 KOG1174 Anaphase-promoting com 35.1 1.6E+02 0.0035 30.1 7.6 67 140-210 438-505 (564)
214 KOG3364 Membrane protein invol 35.0 97 0.0021 26.7 5.3 37 173-209 67-104 (149)
215 COG4235 Cytochrome c biogenesi 35.0 4.2E+02 0.0091 25.5 10.7 105 100-212 158-263 (287)
216 COG2956 Predicted N-acetylgluc 34.0 4.5E+02 0.0098 26.1 10.2 166 115-295 82-292 (389)
217 PF14493 HTH_40: Helix-turn-he 33.6 57 0.0012 25.3 3.5 31 312-343 13-43 (91)
218 PF04190 DUF410: Protein of un 33.4 4.1E+02 0.0088 24.9 10.5 36 259-294 198-234 (260)
219 KOG1126 DNA-binding cell divis 33.4 1.2E+02 0.0025 32.4 6.6 54 149-205 498-551 (638)
220 KOG4162 Predicted calmodulin-b 33.0 1.4E+02 0.003 32.5 7.2 83 177-269 684-771 (799)
221 TIGR01764 excise DNA binding d 33.0 59 0.0013 21.1 3.1 26 313-343 2-27 (49)
222 cd03562 CID CID (CTD-Interacti 32.8 2.5E+02 0.0055 22.3 9.6 68 1-69 1-68 (114)
223 PF08221 HTH_9: RNA polymerase 32.5 1.9E+02 0.0042 20.8 6.0 36 308-344 23-58 (62)
224 PF07389 DUF1500: Protein of u 32.2 1.3E+02 0.0027 23.8 5.0 45 296-342 32-76 (100)
225 KOG0548 Molecular co-chaperone 32.2 5.1E+02 0.011 27.2 10.8 100 115-224 371-471 (539)
226 KOG4626 O-linked N-acetylgluco 32.1 4E+02 0.0087 28.9 10.1 51 175-225 250-315 (966)
227 COG3063 PilF Tfp pilus assembl 32.0 71 0.0015 29.9 4.3 63 144-209 39-102 (250)
228 TIGR02944 suf_reg_Xantho FeS a 32.0 56 0.0012 26.9 3.5 33 312-345 25-57 (130)
229 KOG0686 COP9 signalosome, subu 31.8 3.2E+02 0.007 27.8 9.1 60 173-243 153-212 (466)
230 TIGR00498 lexA SOS regulatory 31.8 57 0.0012 29.0 3.7 32 313-344 26-57 (199)
231 PF01978 TrmB: Sugar-specific 31.4 1.6E+02 0.0035 21.1 5.5 35 309-344 19-53 (68)
232 KOG0542 Predicted exonuclease 31.4 1.1E+02 0.0024 29.0 5.4 67 278-344 153-245 (280)
233 PF00392 GntR: Bacterial regul 31.4 91 0.002 22.2 4.1 34 311-345 22-56 (64)
234 PF04545 Sigma70_r4: Sigma-70, 31.2 73 0.0016 21.5 3.4 29 310-339 18-46 (50)
235 PF04492 Phage_rep_O: Bacterio 31.1 1.1E+02 0.0023 24.7 4.7 36 308-344 50-85 (100)
236 PF02969 TAF: TATA box binding 31.0 55 0.0012 24.3 2.8 32 310-341 4-44 (66)
237 PRK06266 transcription initiat 30.6 1.7E+02 0.0038 25.9 6.5 33 311-344 35-67 (178)
238 PF06163 DUF977: Bacterial pro 30.5 1.3E+02 0.0027 25.4 5.2 46 299-345 13-58 (127)
239 PLN03098 LPA1 LOW PSII ACCUMUL 30.5 1.1E+02 0.0024 31.3 5.8 36 174-209 72-108 (453)
240 TIGR01610 phage_O_Nterm phage 30.3 1.2E+02 0.0026 23.7 4.9 35 309-344 44-78 (95)
241 KOG3783 Uncharacterized conser 30.2 6.7E+02 0.014 26.4 14.2 166 125-298 256-457 (546)
242 KOG3081 Vesicle coat complex C 30.2 1.2E+02 0.0025 29.2 5.5 125 137-279 170-296 (299)
243 COG4700 Uncharacterized protei 30.1 3E+02 0.0064 25.3 7.8 59 145-208 129-192 (251)
244 PF12833 HTH_18: Helix-turn-he 29.8 2.2E+02 0.0049 20.8 6.5 26 310-335 43-68 (81)
245 TIGR03826 YvyF flagellar opero 29.5 94 0.002 26.5 4.4 30 313-347 47-76 (137)
246 smart00346 HTH_ICLR helix_turn 29.2 1.2E+02 0.0026 22.8 4.7 32 312-344 20-51 (91)
247 COG1321 TroR Mn-dependent tran 28.6 1.1E+02 0.0024 26.5 4.8 44 300-344 12-55 (154)
248 PF06969 HemN_C: HemN C-termin 28.6 1.8E+02 0.004 20.6 5.4 47 298-345 7-53 (66)
249 PF13431 TPR_17: Tetratricopep 28.5 43 0.00093 21.0 1.7 21 177-197 13-33 (34)
250 KOG1125 TPR repeat-containing 28.4 84 0.0018 33.0 4.6 104 116-223 333-491 (579)
251 PF04967 HTH_10: HTH DNA bindi 28.4 94 0.002 22.0 3.5 26 312-338 23-48 (53)
252 KOG2003 TPR repeat-containing 28.0 3.6E+02 0.0078 28.0 8.7 88 114-208 570-658 (840)
253 PRK03902 manganese transport t 28.0 1.2E+02 0.0027 25.3 5.0 42 302-344 12-53 (142)
254 smart00342 HTH_ARAC helix_turn 27.6 1.7E+02 0.0037 20.8 5.2 24 312-335 50-73 (84)
255 TIGR02337 HpaR homoprotocatech 27.1 1.3E+02 0.0028 24.1 4.8 35 309-344 39-73 (118)
256 PF04539 Sigma70_r3: Sigma-70 26.5 1.6E+02 0.0035 21.6 4.9 37 299-336 6-43 (78)
257 cd04762 HTH_MerR-trunc Helix-T 26.2 90 0.0019 20.0 3.1 26 313-343 1-26 (49)
258 PF10579 Rapsyn_N: Rapsyn N-te 26.2 1.2E+02 0.0027 23.4 4.1 52 147-199 14-65 (80)
259 KOG1128 Uncharacterized conser 26.2 87 0.0019 33.9 4.3 33 177-209 519-552 (777)
260 PF12728 HTH_17: Helix-turn-he 25.9 89 0.0019 21.1 3.1 26 313-343 2-27 (51)
261 cd06171 Sigma70_r4 Sigma70, re 25.7 1.9E+02 0.0041 18.5 5.3 45 292-337 5-50 (55)
262 smart00347 HTH_MARR helix_turn 25.6 1.7E+02 0.0036 22.0 5.0 34 312-346 24-57 (101)
263 PRK04841 transcriptional regul 25.3 5E+02 0.011 28.3 10.3 173 142-339 693-879 (903)
264 PF00440 TetR_N: Bacterial reg 24.6 63 0.0014 21.6 2.1 19 307-325 11-29 (47)
265 PF05843 Suf: Suppressor of fo 24.6 5.9E+02 0.013 23.9 9.5 107 101-223 4-114 (280)
266 smart00671 SEL1 Sel1-like repe 24.5 60 0.0013 19.6 1.8 18 188-205 16-33 (36)
267 PF00637 Clathrin: Region in C 24.5 91 0.002 25.6 3.5 81 115-198 20-104 (143)
268 TIGR00738 rrf2_super rrf2 fami 24.5 94 0.002 25.4 3.5 32 312-344 25-56 (132)
269 TIGR02937 sigma70-ECF RNA poly 24.4 1.1E+02 0.0024 24.5 3.9 52 286-338 99-151 (158)
270 PF11887 DUF3407: Protein of u 24.2 3.5E+02 0.0077 25.4 7.8 112 22-134 20-140 (267)
271 KOG3677 RNA polymerase I-assoc 24.1 45 0.00098 33.8 1.7 174 146-328 241-444 (525)
272 KOG2002 TPR-containing nuclear 23.6 1.4E+02 0.0031 33.3 5.4 28 182-209 721-749 (1018)
273 KOG1333 Uncharacterized conser 23.6 2E+02 0.0043 26.4 5.5 78 74-169 41-118 (241)
274 TIGR01884 cas_HTH CRISPR locus 23.5 1.6E+02 0.0035 26.2 5.2 33 311-344 156-188 (203)
275 PF13041 PPR_2: PPR repeat fam 23.5 1.1E+02 0.0024 20.3 3.2 17 188-204 14-30 (50)
276 PF12793 SgrR_N: Sugar transpo 23.5 99 0.0021 25.4 3.4 32 311-343 18-49 (115)
277 PRK10941 hypothetical protein; 23.4 2.5E+02 0.0054 26.6 6.5 70 137-209 178-248 (269)
278 PF11827 DUF3347: Protein of u 23.4 1.6E+02 0.0034 26.0 4.9 52 243-294 40-91 (174)
279 PF13994 PgaD: PgaD-like prote 23.2 1.4E+02 0.0031 25.1 4.4 43 300-347 88-130 (138)
280 smart00299 CLH Clathrin heavy 23.2 3.3E+02 0.0071 22.1 6.7 43 117-164 22-64 (140)
281 PF08564 CDC37_C: Cdc37 C term 23.1 71 0.0015 25.7 2.4 39 307-345 29-67 (99)
282 TIGR02010 IscR iron-sulfur clu 23.1 1E+02 0.0022 25.7 3.5 32 312-344 25-56 (135)
283 PF12688 TPR_5: Tetratrico pep 22.9 4E+02 0.0088 21.9 7.0 61 149-209 10-71 (120)
284 PRK09802 DNA-binding transcrip 22.8 1.4E+02 0.0031 28.0 4.8 47 298-345 17-63 (269)
285 COG4367 Uncharacterized protei 22.7 93 0.002 24.6 2.8 25 309-334 20-44 (97)
286 PF05327 RRN3: RNA polymerase 22.2 9.2E+02 0.02 25.3 12.3 136 17-160 27-198 (563)
287 PF10602 RPN7: 26S proteasome 22.2 5.3E+02 0.011 22.5 8.1 73 137-209 33-105 (177)
288 PLN02789 farnesyltranstransfer 22.2 2E+02 0.0044 27.9 5.8 120 94-226 30-154 (320)
289 TIGR00756 PPR pentatricopeptid 22.2 71 0.0015 18.7 1.8 21 144-164 4-24 (35)
290 PF08238 Sel1: Sel1 repeat; I 22.1 47 0.001 20.6 1.0 26 179-205 11-36 (39)
291 PRK02955 small acid-soluble sp 21.9 1.1E+02 0.0025 22.8 3.0 22 321-342 12-33 (68)
292 PF08281 Sigma70_r4_2: Sigma-7 21.6 2.5E+02 0.0053 18.9 4.7 30 309-339 23-52 (54)
293 PHA02943 hypothetical protein; 21.6 2.1E+02 0.0046 25.0 5.1 40 302-343 15-54 (165)
294 PF00165 HTH_AraC: Bacterial r 21.5 1.1E+02 0.0024 19.8 2.7 21 311-332 7-27 (42)
295 PF12739 TRAPPC-Trs85: ER-Golg 21.4 2.3E+02 0.005 28.4 6.3 52 183-234 214-265 (414)
296 PF10078 DUF2316: Uncharacteri 21.4 97 0.0021 24.5 2.7 22 311-333 22-43 (89)
297 PF08311 Mad3_BUB1_I: Mad3/BUB 21.3 4.7E+02 0.01 21.5 7.5 75 123-204 47-126 (126)
298 PRK14720 transcript cleavage f 21.2 5.3E+02 0.011 29.0 9.3 109 96-209 26-149 (906)
299 COG1959 Predicted transcriptio 21.1 1.7E+02 0.0037 25.1 4.5 42 302-344 13-56 (150)
300 PF14098 SSPI: Small, acid-sol 20.8 1.2E+02 0.0027 22.4 3.0 23 320-342 9-31 (65)
301 PRK14720 transcript cleavage f 20.8 3.3E+02 0.0072 30.5 7.6 72 126-205 20-91 (906)
302 PF12854 PPR_1: PPR repeat 20.6 1.1E+02 0.0024 19.0 2.4 24 142-165 9-32 (34)
303 PF08672 APC2: Anaphase promot 20.4 98 0.0021 22.4 2.4 35 311-345 10-53 (60)
304 TIGR03504 FimV_Cterm FimV C-te 20.4 2.8E+02 0.0061 18.7 4.6 25 183-207 5-29 (44)
305 TIGR03092 SASP_sspI small, aci 20.3 1.3E+02 0.0028 22.3 3.0 22 321-342 9-30 (65)
306 KOG2376 Signal recognition par 20.3 2.8E+02 0.0061 29.5 6.5 62 144-205 114-203 (652)
307 PRK09639 RNA polymerase sigma 20.2 1.4E+02 0.003 25.1 3.8 50 286-336 101-150 (166)
308 PF13730 HTH_36: Helix-turn-he 20.0 1.6E+02 0.0035 20.0 3.5 29 313-342 26-54 (55)
309 KOG4626 O-linked N-acetylgluco 20.0 8.3E+02 0.018 26.6 9.8 88 114-208 332-420 (966)
No 1
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=5.9e-72 Score=527.20 Aligned_cols=339 Identities=42% Similarity=0.656 Sum_probs=329.9
Q ss_pred HHHHHHHHhhcCCChhcHHHHHHHHHHhHHHHhhhhhhhhhhhhhcCchhhHHHHHHHHHHhhhcccchhhhhhHHHHHH
Q 019008 4 IENLVTQIQGLSSNASDITALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSITKERANTLVPIIA 83 (347)
Q Consensus 4 l~~~~~~i~~~~~s~~~~~~L~~~L~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~L~vL~~~~~~~~~~~~~~~~~~~~~ 83 (347)
+++.+++++++++++ ++++|.+.+.++.+.|++++++++++|.+|||+.||+||+|++.+++..+....+++.+++++.
T Consensus 5 l~a~i~~~~~~~~~~-~~~eL~~~i~~~~ell~k~~~~~~~~L~~ld~~~hSlgml~~l~~~f~~~~~~~~~~~li~~~~ 83 (422)
T KOG2582|consen 5 LEAAINELCSLSHSS-NVGELAELIVKSKELLAKNSSDLDAVLLHLDPQVHSLGMLAVLKVKFHTPSANPDPETLIELLN 83 (422)
T ss_pred HHHHHHHHHhhhcCC-cHHHHHHHHHhhHHHHHhCcchHHHHHHhcCccccchhhhhhhhccccCcccCCCHHHHHHHHH
Confidence 789999999999999 9999999999999999999999999999999999999999999999987764457889999999
Q ss_pred HHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhh
Q 019008 84 RFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVL 163 (347)
Q Consensus 84 ~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l 163 (347)
+|+.++|.+|+|+++..|..+|+.+++.+.+.++|.+|+.++.+|+.++.++..++|++|.+++++|+++|+|..++|++
T Consensus 84 ~FV~~~n~eqlr~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~l 163 (422)
T KOG2582|consen 84 DFVDENNGEQLRLASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSIHADLLQLCLEAKDYASVLPYL 163 (422)
T ss_pred HHHHhcChHHHhhHHHHHHHHHHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhhHHHHHHHHHHhhcccccCCcc
Confidence 99999999999999999999999999999999999999999999999999999899999999999999999999999999
Q ss_pred ccccccc------CCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCCCCC
Q 019008 164 EDDIYEI------NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTL 237 (347)
Q Consensus 164 ~~~i~~i------~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~l 237 (347)
|.+|.++ .+++.++.|+||||||++++|+|++|..||++|+++|+.++++|+.||||||+||+||+.||+. .+
T Consensus 164 d~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa~~vs~~hlEaYkkylLvsLI~~GK~~-ql 242 (422)
T KOG2582|consen 164 DDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPAMAVSHIHLEAYKKYLLVSLILTGKVF-QL 242 (422)
T ss_pred chhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhcCcee-ec
Confidence 9999988 4589999999999999999999999999999999999999999999999999999999999999 99
Q ss_pred CcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHH
Q 019008 238 PKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQD 317 (347)
Q Consensus 238 p~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~d 317 (347)
|++|++.+.|.+|...-||.+|+++|.++...+++.++.+|++.|.+|||+|||++++.+++|++|+||+|+|++|||+|
T Consensus 243 ~k~ts~~~~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~l~k~av~sl~k~nI~rltktF~sLsL~d 322 (422)
T KOG2582|consen 243 PKNTSQNAGRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTGLAKQAVSSLYKKNIQRLTKTFLSLSLSD 322 (422)
T ss_pred cccchhhhHHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 318 IANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 318 Ia~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
||++++|.+++|||..|.+||+||++.
T Consensus 323 IA~~vQLa~~qevek~Ilqmie~~~i~ 349 (422)
T KOG2582|consen 323 IASRVQLASAQEVEKYILQMIEDGEIF 349 (422)
T ss_pred HHHHHHhcchHHHHHHHHHHhccCceE
Confidence 999999999999999999999999864
No 2
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.9e-46 Score=356.11 Aligned_cols=327 Identities=20% Similarity=0.258 Sum_probs=256.5
Q ss_pred HHHHHHhhcCCCh-hcHHHHHHHHHHhHH---HHhhhhhhhhhhh--hhcCchhhHHHHHHHHHHhhhcccchhhhhhHH
Q 019008 6 NLVTQIQGLSSNA-SDITALKDYLKAAED---LLRSESTRLLSFL--DQLDPSKHSLGYLYFLEPCMYCSITKERANTLV 79 (347)
Q Consensus 6 ~~~~~i~~~~~s~-~~~~~L~~~L~~~~~---~l~~~~~~~~~~L--~~ldp~~~sl~~L~vL~~~~~~~~~~~~~~~~~ 79 (347)
.+++-++.+.+++ +....+..++...++ .+...+....+.+ ..+-|+...+.||.++..+++++..+ ++..+.
T Consensus 71 vL~~~v~~~~~~~se~~~~~l~fv~~~~~~~~p~~~~s~~t~~a~~~k~~~~Ei~aY~~lLv~Lfl~d~K~~k-ea~~~~ 149 (493)
T KOG2581|consen 71 VLYKLVSSLLSSGSEAMDRLLRFVPAFDKNIKPLDTDSPNTQSALKRKPLPAEIEAYLYLLVLLFLIDQKEYK-EADKIS 149 (493)
T ss_pred HHHHHHHHHcCCchHHHHHHHhhcccccccCCcccccccccccccccCCchHHHHHHHHHHHHHHHHhhHHHH-HHHHHH
Confidence 3556666666666 344444444433221 1111112222222 23455677777777777777666543 667777
Q ss_pred HHHHHHHhcCChhhhhchhHHHHHHHHHHHHh---HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCc
Q 019008 80 PIIARFITSCSAEQIRYVPEKFINVCKRYKDQ---VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCY 156 (347)
Q Consensus 80 ~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~---~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y 156 (347)
+....=+..+|+|.+++++.+.+++.....+. +...+.- -...|++|.+|+|..++ ..+.++|+|+++..+.|
T Consensus 150 ~~~l~~i~~~nrRtlD~i~ak~~fy~~l~~E~~~~l~~~rs~--l~~~lrtAtLrhd~e~q--avLiN~LLr~yL~n~ly 225 (493)
T KOG2581|consen 150 DALLASISIQNRRTLDLIAAKLYFYLYLSYELEGRLADIRSF--LHALLRTATLRHDEEGQ--AVLINLLLRNYLHNKLY 225 (493)
T ss_pred HHHHHHHHhcchhhHHHHHHHHHHHHHHHHHhhcchHHHHHH--HHHHHHHhhhcCcchhH--HHHHHHHHHHHhhhHHH
Confidence 77777799999999998887633333222222 2222211 24579999999998765 77889999999999999
Q ss_pred hhhhhhhcccccccC-CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCC
Q 019008 157 KAGLSVLEDDIYEIN-LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFS 234 (347)
Q Consensus 157 ~~Al~~l~~~i~~i~-~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~ 234 (347)
++|..++.|..++-. ++++++||+||.|+|.+.+++|+.|.++|.+|++ +|+.++-||...+.|..++|+|+ .|++|
T Consensus 226 dqa~~lvsK~~~pe~~snne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll-~geiP 304 (493)
T KOG2581|consen 226 DQADKLVSKSVYPEAASNNEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELL-LGEIP 304 (493)
T ss_pred HHHHHHhhcccCccccccHHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHH-cCCCc
Confidence 999999999887654 4789999999999999999999999999999998 99988889988887766777755 69999
Q ss_pred CCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHHHHHHHHHHHhhhhccc
Q 019008 235 STLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLS 314 (347)
Q Consensus 235 ~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~Is 314 (347)
++.-|+. ..+++.+.||+.|++|++.||++.|..+++++.+.|+.|||+.|+.|+++|++|++||+|+.+|||||
T Consensus 305 -ers~F~Q----p~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRIS 379 (493)
T KOG2581|consen 305 -ERSVFRQ----PGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRIS 379 (493)
T ss_pred -chhhhcC----ccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeecc
Confidence 8655554 44555678999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 315 LQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 315 L~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+.|||++++++|+++||++|+++|+||+.
T Consensus 380 l~DIA~kL~l~Seed~EyiVakAIRDGvI 408 (493)
T KOG2581|consen 380 LQDIAKKLGLNSEEDAEYIVAKAIRDGVI 408 (493)
T ss_pred HHHHHHHhcCCCchhHHHHHHHHHHhccc
Confidence 99999999999999999999999999975
No 3
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.63 E-value=2.8e-14 Score=132.34 Aligned_cols=215 Identities=14% Similarity=0.193 Sum_probs=184.2
Q ss_pred chHHHHHHHHhhCCC-----CCchhhHHHHHHHHHHhcCCchhhhhhhccccc---ccCCchhhHHHHHHHHHHHHhhhc
Q 019008 121 GVGPMLTAIRKIQSS-----TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIY---EINLPRDFFLYCYYGGMIFIGQKR 192 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~-----~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~---~i~~~~~~l~Y~yy~G~i~~~~k~ 192 (347)
-+.-|+..|+.-|.+ |.+|-.+.++-++.|...++.+.-..+.++.+. .||.|.-+.-.--+||.+++..++
T Consensus 167 IlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~ 246 (440)
T KOG1464|consen 167 ILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGE 246 (440)
T ss_pred HHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccch
Confidence 345677777776643 678888999999999999997776666666543 456688888889999999999999
Q ss_pred HHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcc--hhHHHHHHHHhcCChHH
Q 019008 193 FRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFS--QPYMELVNTYNTGKIVE 270 (347)
Q Consensus 193 y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~--~pY~~la~a~~~g~~~~ 270 (347)
|++|..-|.-|..--..+.|+....|.|.+||..+|....+. |++. ..++.||+.. ....++++||..+|+.+
T Consensus 247 fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iN-PFDs----QEAKPyKNdPEIlAMTnlv~aYQ~NdI~e 321 (440)
T KOG1464|consen 247 FEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGIN-PFDS----QEAKPYKNDPEILAMTNLVAAYQNNDIIE 321 (440)
T ss_pred HHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCC-CCcc----cccCCCCCCHHHHHHHHHHHHHhcccHHH
Confidence 999995555566544457899999999999999999999999 8865 5667788755 47889999999999999
Q ss_pred HHHHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcc
Q 019008 271 LETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFE 341 (347)
Q Consensus 271 ~~~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G 341 (347)
|++++..+++....|... .-+..++.+++-..+.+|.+.|..|.++-|++.++++ +.|+|.++.++|-|.
T Consensus 322 FE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~-~~dV~~LLV~~ILD~ 392 (440)
T KOG1464|consen 322 FERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVP-EADVESLLVSCILDD 392 (440)
T ss_pred HHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCC-HHHHHHHHHHHHhcc
Confidence 999999999999999986 7889999999999999999999999999999999998 899999999999874
No 4
>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=99.34 E-value=4.1e-12 Score=101.99 Aligned_cols=90 Identities=23% Similarity=0.502 Sum_probs=83.7
Q ss_pred hhHHHHHHHHhcCChHHHHHHHHhc-cccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHH
Q 019008 254 QPYMELVNTYNTGKIVELETYVQTN-REKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (347)
Q Consensus 254 ~pY~~la~a~~~g~~~~~~~~~~~~-~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~ 332 (347)
.||.+|.++|.+||...|.+.++++ ...|.++++..++.++...++++.++++.+.|++||+++||+.++++ .+++|.
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~-~~~vE~ 79 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLS-EEEVES 79 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCC-HHHHHH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccc-hHHHHH
Confidence 3899999999999999999999999 88888888899999999999999999999999999999999999999 699999
Q ss_pred HHHHHhhccccc
Q 019008 333 HVLQMVTFEVNL 344 (347)
Q Consensus 333 ~v~~mI~~G~~~ 344 (347)
+|.+||.+|.+-
T Consensus 80 ~l~~~I~~~~i~ 91 (105)
T PF01399_consen 80 ILIDLISNGLIK 91 (105)
T ss_dssp HHHHHHHTTSSE
T ss_pred HHHHHHHCCCEE
Confidence 999999999863
No 5
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=99.04 E-value=1.4e-09 Score=106.50 Aligned_cols=194 Identities=14% Similarity=0.164 Sum_probs=157.4
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccC-----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHH
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEIN-----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIA 215 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~-----~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~ 215 (347)
+-+.|.+.+.+-+++.-+.+++....-.++ +-.++..|+||.|+..+-..+|..|...|..|.+ +|...... +
T Consensus 165 i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n-~ 243 (394)
T KOG2688|consen 165 IVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRLCPDLLLKN-K 243 (394)
T ss_pred HHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHHHhCcHHHHhh-h
Confidence 347789999999999999988876443322 2568899999999999999999999999999997 99743331 1
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHH
Q 019008 216 VEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVV 295 (347)
Q Consensus 216 vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~ 295 (347)
.-..+.||=+.++ .|++| +.+.+.+. . +.-|..++++++.||+..|+..+++++..|.+=|-+..+..+.
T Consensus 244 ~~iliylip~~~l-lg~~P------t~~lL~~~-~--~~~~~~lv~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~ 313 (394)
T KOG2688|consen 244 RLILIYLIPTGLL-LGRIP------TKELLDFY-T--LDKYSPLVQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLP 313 (394)
T ss_pred hhHHHHHhHHHHH-hccCc------chhhHhHh-h--HHhHHHHHHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhh
Confidence 1123445555544 58888 44555543 2 6789999999999999999999999999999999999998899
Q ss_pred HHHHHHHHHHHHhhh---hcccHHHHHHHcCCCC-----hhhHHHHHHHHhhccccccc
Q 019008 296 SSMYKRNIQRLTQTY---LTLSLQDIANTVQLNS-----SKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 296 ~~~~r~~I~~L~~~Y---s~IsL~dIa~~l~l~s-----~~eaE~~v~~mI~~G~~~~~ 346 (347)
--+.|+-++|.-+.- +++|++.+...++..+ .+|+|.+++.+|.+|-+--|
T Consensus 314 lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgY 372 (394)
T KOG2688|consen 314 LVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGY 372 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccch
Confidence 999999999999888 9999999999987765 89999999999999976433
No 6
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=98.98 E-value=8.2e-09 Score=99.57 Aligned_cols=194 Identities=19% Similarity=0.275 Sum_probs=139.3
Q ss_pred HHHHHHHHHHhcCCchhhhhhhccc-ccccC-----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc-chhH
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDD-IYEIN-----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS-SINA 213 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~-i~~i~-----~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~-~~s~ 213 (347)
+-++++++|++=++.+-+..++..- +...+ +-.++..|+||.|++|+-+.++.+|...|..|.. +|-- .-..
T Consensus 179 iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~~~~~sq~v~f~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~ 258 (413)
T COG5600 179 IANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVFHYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNR 258 (413)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeehhhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcch
Confidence 4478999999999999998777542 11111 2468899999999999999999999988888885 8861 1111
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccc-cHHH
Q 019008 214 IAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNL-GLVK 292 (347)
Q Consensus 214 i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~-gLV~ 292 (347)
---.-.||-.+||.+|..| +-+...| ++. +..|.-|+.++++||++.|...+++++..|.+-|-+ .|..
T Consensus 259 --~rIl~~~ipt~Llv~~~~P------tk~~L~r-~~~-~s~~~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~ 328 (413)
T COG5600 259 --KRILPYYIPTSLLVNKFPP------TKDLLER-FKR-CSVYSPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLA 328 (413)
T ss_pred --heehhHHhhHHHHhCCCCC------chHHHHh-ccc-cchhHHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHh
Confidence 1112368888999877776 3334444 555 889999999999999999999999999777776665 4444
Q ss_pred H----HHHHHHHHHHHHHHhhhhccc--HHHHHHHcCCCC----hhhHHHHHHHHhhccccccc
Q 019008 293 Q----VVSSMYKRNIQRLTQTYLTLS--LQDIANTVQLNS----SKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 293 ~----~~~~~~r~~I~~L~~~Ys~Is--L~dIa~~l~l~s----~~eaE~~v~~mI~~G~~~~~ 346 (347)
. +..++.| .+..+..-=+++| +-.++.++...+ .+++|.+++.||..|-+--|
T Consensus 329 ~~~~V~~RNL~r-k~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~tlI~~G~lrgY 391 (413)
T COG5600 329 HYPLVCFRNLFR-KIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILVTLIGLGLLRGY 391 (413)
T ss_pred hccHHHHHHHHH-HHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHHHHHhhhhhhhe
Confidence 3 3445555 3444444446644 445555554443 78999999999999977543
No 7
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=4.6e-06 Score=80.02 Aligned_cols=215 Identities=13% Similarity=0.195 Sum_probs=151.0
Q ss_pred chHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcc------cccccCCchhhHHHHHHHHHHHHhhhcHH
Q 019008 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED------DIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~------~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~ 194 (347)
-+.+|..-+.|+|.- ..|..+|.+--+.+..-++...|..-|-. .|+ .+|+....-..-.|++++..++|.
T Consensus 150 L~~~L~rElKKlDDK-~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiY--cpPqlQa~lDLqSGIlha~ekDyk 226 (411)
T KOG1463|consen 150 LINDLLRELKKLDDK-ILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIY--CPPQLQATLDLQSGILHAAEKDYK 226 (411)
T ss_pred HHHHHHHHHHhcccc-cceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccc--cCHHHHHHHHHhccceeecccccc
Confidence 345566666777753 45677777777777777776666544432 222 236677888889999999999999
Q ss_pred HHHHHHHHhhcCCccchh-HHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh-cchhHHHHHHHHhcCChHHHH
Q 019008 195 KALELLHNVVTAPMSSIN-AIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN-FSQPYMELVNTYNTGKIVELE 272 (347)
Q Consensus 195 ~A~~~l~~ai~~P~~~~s-~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~-~~~pY~~la~a~~~g~~~~~~ 272 (347)
-|+.+|--|.---.+.-. .-+..+.|..+|...+++ ... ..-...+.-....|.. .......+++||.+.+++.|+
T Consensus 227 TafSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMln-~~d-dv~~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~ 304 (411)
T KOG1463|consen 227 TAFSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIMLN-LPD-DVAALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFE 304 (411)
T ss_pred hHHHHHHHHHccccccCCcHHHHHHHHHHHHHHHHhc-CHH-HHHHHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHH
Confidence 999888888852221111 234556888888776653 322 2211111111111332 335778899999999999999
Q ss_pred HHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcc
Q 019008 273 TYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFE 341 (347)
Q Consensus 273 ~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G 341 (347)
..+..|......|.-. .=..-+-.++--.+|-|+..+||++-++.||+-+|++ ...+|.=+.+||-|.
T Consensus 305 ~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~-~~~VEkKLsqMILDK 373 (411)
T KOG1463|consen 305 KALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLD-VPQVEKKLSQMILDK 373 (411)
T ss_pred HHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCC-cHHHHHHHHHHHHHH
Confidence 9999999999999653 3333445556667999999999999999999999999 789999999999763
No 8
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=0.00013 Score=70.23 Aligned_cols=246 Identities=14% Similarity=0.173 Sum_probs=156.4
Q ss_pred hhhHHHHHHHHHhcCC----hhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCC--chhhHHHHHHH
Q 019008 75 ANTLVPIIARFITSCS----AEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTE--HLTTLHPEFLQ 148 (347)
Q Consensus 75 ~~~~~~~~~~fl~~~~----~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~--~lT~~H~~ll~ 148 (347)
++.+.+...+|+..|- |.++- +-+.....+.+.+.++++.|..-+.+++.... .+--+|....+
T Consensus 54 ~~~~l~lY~NFvsefe~kINplslv----------ei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r 123 (380)
T KOG2908|consen 54 GDLLLQLYLNFVSEFETKINPLSLV----------EILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIAR 123 (380)
T ss_pred chHHHHHHHHHHHHHhhccChHHHH----------HHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence 3455667777776654 33332 22222222444566678888888777776544 66678889999
Q ss_pred HHHhcCCchhhhhhhcccccccC-----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCC-cc--chhHHHHHHHH
Q 019008 149 LCLLAKCYKAGLSVLEDDIYEIN-----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAP-MS--SINAIAVEAYK 220 (347)
Q Consensus 149 l~l~~~~y~~Al~~l~~~i~~i~-----~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P-~~--~~s~i~vea~K 220 (347)
+.|..+.-+.+.+.++..--.++ +++-...||-.+..-|=.-++++.++...-.-+.+- .+ +.|.-+..|+
T Consensus 124 ~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~YL~~~d~~~l~~se~~~lA~- 202 (380)
T KOG2908|consen 124 LKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHALLYLGCSDIDDLSESEKQDLAF- 202 (380)
T ss_pred HHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHhccccccccCHHHHHHHHH-
Confidence 99999999999999986432222 155778888888888888899888876544444433 22 3444444443
Q ss_pred HHHHHHHHhcCC-CCCCCCcccCHHHhhhhhh-cchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHH
Q 019008 221 KYILVSLIHHGQ-FSSTLPKYTSSAAQRNLKN-FSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSM 298 (347)
Q Consensus 221 k~iLv~LL~~G~-i~~~lp~~~s~~~~r~~k~-~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~ 298 (347)
-+.+..|| |+ +. .+-...+...-+.+++ .-.--.++..||..||+..|+.....+.+ .. -|+.+ ...
T Consensus 203 ~L~~aALL--Ge~iy-NfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~~--~p----~L~~~--e~~ 271 (380)
T KOG2908|consen 203 DLSLAALL--GENIY-NFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVWGK--QP----DLASN--EDF 271 (380)
T ss_pred HHHHHHHh--ccccc-cHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhcc--Cc----hHHHH--HHH
Confidence 34444544 44 44 3322222222233333 22567789999999999999998877666 11 13332 223
Q ss_pred HHHHHHHH---Hhhhhc------ccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 299 YKRNIQRL---TQTYLT------LSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 299 ~r~~I~~L---~~~Ys~------IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
-+..|+-+ ..+|++ ||+++||++++++ .+|||.+|++++.-|-+
T Consensus 272 L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip-~~eVE~LVMKAlslgLi 324 (380)
T KOG2908|consen 272 LLQKIRLLALIEITFSRPANERTLSFKEIAEATKIP-NKEVELLVMKALSLGLI 324 (380)
T ss_pred HHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCCC-HHHHHHHHHHHHhccce
Confidence 33333333 346766 9999999999999 79999999999987654
No 9
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=8.1e-05 Score=70.34 Aligned_cols=218 Identities=10% Similarity=0.229 Sum_probs=154.8
Q ss_pred cccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhh------hhhcccccccCCchhhHHHHHHHHHHHHhhh
Q 019008 118 PIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGL------SVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 118 ~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al------~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
++.-|.||..-+.|+|.-.+ |+.+|.+--+.+.+-++...+. +.+...++. +|.-..+-....|+..+--+
T Consensus 144 alalIn~ll~ElKk~DDK~~-Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YC--Ppqlqa~lDL~sGIlhcdd~ 220 (421)
T COG5159 144 ALALINPLLHELKKYDDKIN-LITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYC--PPQLQAQLDLLSGILHCDDR 220 (421)
T ss_pred HHHHHHHHHHHHHhhcCccc-eeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCC--CHHHHHHHHHhccceeeccc
Confidence 34457788888999997554 7788988777777766665544 333344432 35566778889999999999
Q ss_pred cHHHHHHHHHHhhcCCcc-chhHHHHHHHHHHHHHHHHhcCCCCCCCC-cccCHHHhhhhhh-cchhHHHHHHHHhcCCh
Q 019008 192 RFRKALELLHNVVTAPMS-SINAIAVEAYKKYILVSLIHHGQFSSTLP-KYTSSAAQRNLKN-FSQPYMELVNTYNTGKI 268 (347)
Q Consensus 192 ~y~~A~~~l~~ai~~P~~-~~s~i~vea~Kk~iLv~LL~~G~i~~~lp-~~~s~~~~r~~k~-~~~pY~~la~a~~~g~~ 268 (347)
+|.-|..+|--+.---+. ....-+....|..+|-.++++ .+. ... -.+.....+.|.. .......+++||.+.++
T Consensus 221 dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN-~~~-evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL 298 (421)
T COG5159 221 DYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLN-RRE-EVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSL 298 (421)
T ss_pred cchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHh-hHH-HHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcH
Confidence 999999988888852221 112222334555555554443 222 110 0012222333432 33578899999999999
Q ss_pred HHHHHHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcc
Q 019008 269 VELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFE 341 (347)
Q Consensus 269 ~~~~~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G 341 (347)
..|...+.++......|... .=..-+...+--.++.|+..+|+++-++.||+-+|++ ...+|.=+.+||-|.
T Consensus 299 ~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGld-t~qvEgKLsqMILDK 371 (421)
T COG5159 299 KDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLD-TNQVEGKLSQMILDK 371 (421)
T ss_pred hhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhccc-HHHHHHHHHHHHHHH
Confidence 99999999999999999765 4555667777888999999999999999999999999 788999999998763
No 10
>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=98.12 E-value=7e-06 Score=64.13 Aligned_cols=53 Identities=25% Similarity=0.325 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 290 LV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
++.++.+.++++.+..+.++|++|++++|++.++++ .+++|..|.+||.+|.+
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l 54 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEI 54 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCe
Confidence 577899999999999999999999999999999999 56899999999999975
No 11
>smart00753 PAM PCI/PINT associated module.
Probab=98.12 E-value=7e-06 Score=64.13 Aligned_cols=53 Identities=25% Similarity=0.325 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 290 LV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
++.++.+.++++.+..+.++|++|++++|++.++++ .+++|..|.+||.+|.+
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l 54 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEI 54 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCe
Confidence 577899999999999999999999999999999999 56899999999999975
No 12
>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=97.66 E-value=0.0024 Score=63.70 Aligned_cols=183 Identities=19% Similarity=0.269 Sum_probs=120.4
Q ss_pred HHHHHHHhcCCchhhhhhhcccccccC-----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccc---------
Q 019008 145 EFLQLCLLAKCYKAGLSVLEDDIYEIN-----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSS--------- 210 (347)
Q Consensus 145 ~ll~l~l~~~~y~~Al~~l~~~i~~i~-----~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~--------- 210 (347)
-|+|+-..-+.|..|+++++.--..-. .+......+||.|-.|+.+++|.+|...|..++..=..+
T Consensus 127 gLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~~~~ 206 (404)
T PF10255_consen 127 GLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQRSY 206 (404)
T ss_pred HHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccc
Confidence 478999999999999999986321111 167788999999999999999999999999988522211
Q ss_pred -hhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccc---
Q 019008 211 -INAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDN--- 286 (347)
Q Consensus 211 -~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~--- 286 (347)
-..|.-..=|.+.|+-+-+ ---|..+|.. +...+|. -|.+=-....+||.+.|++.....-..|..=.
T Consensus 207 q~d~i~K~~eqMyaLlAic~-~l~p~~lde~----i~~~lke---ky~ek~~kmq~gd~~~f~elF~~acPKFIsp~~pp 278 (404)
T PF10255_consen 207 QYDQINKKNEQMYALLAICL-SLCPQRLDES----ISSQLKE---KYGEKMEKMQRGDEEAFEELFSFACPKFISPVSPP 278 (404)
T ss_pred hhhHHHhHHHHHHHHHHHHH-HhCCCCCCHH----HHHHHHH---HHHHHHHHHHccCHHHHHHHHHhhCCCccCCCCCC
Confidence 1233333334444433221 1113124443 3333333 36666666788999999999998777776521
Q ss_pred -------cc---c-------HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHH
Q 019008 287 -------NL---G-------LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQ 336 (347)
Q Consensus 287 -------n~---g-------LV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~ 336 (347)
|. . ...++.+...-..||..-|-|++|+++-+|.-++++ +++....+.-
T Consensus 279 ~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd-~~~lr~~Ll~ 344 (404)
T PF10255_consen 279 DYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVD-EEELRSQLLC 344 (404)
T ss_pred CcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCC-HHHHHHHHHH
Confidence 11 1 122333333444899999999999999999999986 5655554443
No 13
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=97.57 E-value=0.0012 Score=64.72 Aligned_cols=193 Identities=16% Similarity=0.195 Sum_probs=135.6
Q ss_pred HHHHHHHHhcCCchhhhhhhccccc--ccC-CchhhHHHHHHHHHHHH--hhhcHHHHHHHHHHhhcCCccchhHHHHHH
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIY--EIN-LPRDFFLYCYYGGMIFI--GQKRFRKALELLHNVVTAPMSSINAIAVEA 218 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~--~i~-~~~~~l~Y~yy~G~i~~--~~k~y~~A~~~l~~ai~~P~~~~s~i~vea 218 (347)
..=+|+|+..+.|-.|- ++.+.|. .++ +..+.+---||--||.. ..+.|=.+-..+.-...+|...... +
T Consensus 175 LEQmrKOG~~~D~vra~-i~skKI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~----~ 249 (439)
T KOG1498|consen 175 LEQMRLCLLRLDYVRAQ-IISKKINKKFFEKPDVQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDP----E 249 (439)
T ss_pred HHHHHHHHHhhhHHHHH-HHHHHhhHHhcCCccHHHHHHHHHHHHHHhcccccchhhHHHHHHHHhcccccccCh----h
Confidence 44579999999999984 4444332 122 23344555555556666 4677888888887777777643321 0
Q ss_pred HHHHHHHHHHhcCCCCCCCCcccCHHHhhhh--hh--cchhHHHHHHHHhcCChHHHHHHHHhccccccccccc------
Q 019008 219 YKKYILVSLIHHGQFSSTLPKYTSSAAQRNL--KN--FSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNL------ 288 (347)
Q Consensus 219 ~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~--k~--~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~------ 288 (347)
-=+.+|.+....-... |...--+..+.+.- |. -...|.++...|-++.+..|..+.+.+...+.+++++
T Consensus 250 kw~~vL~~iv~f~~LA-p~dneQsdll~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~g 328 (439)
T KOG1498|consen 250 KWIEVLRSIVSFCVLA-PHDNEQSDLLARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEG 328 (439)
T ss_pred hhhhhhhhheeEEeec-CCCcHHHHHHHHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchh
Confidence 0122344443333334 44443344444321 11 1247999999999999999998888888888887332
Q ss_pred -cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 289 -GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 289 -gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+-..++..+++.++||-+++-|++|++..++..++++ ++++|.++..|+..|-.
T Consensus 329 ek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~-~ee~E~~LS~lv~t~ti 383 (439)
T KOG1498|consen 329 EKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLP-VEEMEKFLSDLVVTGTI 383 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCC-HHHHHHHHHHHHhccce
Confidence 5678899999999999999999999999999999999 89999999999998864
No 14
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.46 E-value=0.069 Score=51.52 Aligned_cols=191 Identities=16% Similarity=0.167 Sum_probs=138.2
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhccccccc-CCchh--hHHHHHHHHHHHHhhhcHHHHH-HHHHHhhcCCccchhHHH
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEI-NLPRD--FFLYCYYGGMIFIGQKRFRKAL-ELLHNVVTAPMSSINAIA 215 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i-~~~~~--~l~Y~yy~G~i~~~~k~y~~A~-~~l~~ai~~P~~~~s~i~ 215 (347)
-.+---+.|+||..+.-..|..+++++-+.. ..+++ .+.|--+-+++.=..++|=+|. .+++..-+-- .--...
T Consensus 144 l~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~ki--~~e~~~ 221 (399)
T KOG1497|consen 144 LLLCIRIARLYLEDDDKVEAEAYINRASILQAESSNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQRKI--VDESER 221 (399)
T ss_pred HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cchHHH
Confidence 3444557789999999999999999864433 22333 3567667777777777777765 4444333311 334678
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh----cchhHHHHHHHH-----hcCChHHHHHHHHhccccccccc
Q 019008 216 VEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN----FSQPYMELVNTY-----NTGKIVELETYVQTNREKFESDN 286 (347)
Q Consensus 216 vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~----~~~pY~~la~a~-----~~g~~~~~~~~~~~~~~~f~~D~ 286 (347)
.+|.||-+-+.+|. + |=|- ++.+.+-.||. .+..|.-+..-| ++.+.++|...+.-|+..=..||
T Consensus 222 ~~aL~~a~~CtlLA-~----~gpq-rsr~Latlfkder~~~l~~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dg 295 (399)
T KOG1497|consen 222 LEALKKALQCTLLA-S----AGPQ-RSRMLATLFKDERCQKLPAYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDG 295 (399)
T ss_pred HHHHHHhHhheeec-C----CChH-HHHHHHHHhcCcccccccchHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCc
Confidence 89999988777664 2 2222 56677777764 234555555444 66789999999999998887887
Q ss_pred cccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 287 NLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 287 n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
-.-| -..++.++|.-+++-|.-||.+.+++-++++ ++.||.++++||-.|.+
T Consensus 296 ssil----~ra~~EhNlls~Skly~nisf~~Lg~ll~i~-~ekaekiaa~MI~qeRm 347 (399)
T KOG1497|consen 296 SSIL----DRAVIEHNLLSASKLYNNISFEELGALLKID-AEKAEKIAAQMITQERM 347 (399)
T ss_pred chhh----hhHHHHHhHHHHHHHHHhccHHHHHHHhCCC-HHHHHHHHHHHHhHHHh
Confidence 6533 3678889999999999999999999999999 89999999999987754
No 15
>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=96.88 E-value=0.0024 Score=54.54 Aligned_cols=79 Identities=16% Similarity=0.244 Sum_probs=59.2
Q ss_pred hHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHH
Q 019008 255 PYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHV 334 (347)
Q Consensus 255 pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v 334 (347)
.=..+.++..+|+..+|-+.++.+ .|. |.-..+|..+..+++.+...-++++|++||++++++.+|++ ++|++.++
T Consensus 43 ~i~~l~~~L~~~~~~~~~~~~~~~--~~~-~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~-~~el~~~~ 118 (143)
T PF10075_consen 43 AIWSLGQALWEGDYSKFWQALRSN--PWS-PDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLS-EEELEKFI 118 (143)
T ss_dssp HHHHHHHHHHTT-HHHHHHHS-TT-------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS--HHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhc--cch-HHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCC-HHHHHHHH
Confidence 344788888999988888766643 342 34457788889999999999999999999999999999999 89999888
Q ss_pred HHH
Q 019008 335 LQM 337 (347)
Q Consensus 335 ~~m 337 (347)
.+-
T Consensus 119 ~~~ 121 (143)
T PF10075_consen 119 KSR 121 (143)
T ss_dssp HHH
T ss_pred HHc
Confidence 765
No 16
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=96.51 E-value=0.025 Score=44.97 Aligned_cols=104 Identities=15% Similarity=-0.001 Sum_probs=76.6
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++...++..+..++.....++ .....+-.+.+.+...+.|+.|...+++-+...|........++..|.++..++++
T Consensus 14 ~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 92 (119)
T TIGR02795 14 KAGDYADAIQAFQAFLKKYPKST-YAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDK 92 (119)
T ss_pred HcCCHHHHHHHHHHHHHHCCCcc-ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCCh
Confidence 34555667888888887654322 23446677889999999999999999986654443344566788999999999999
Q ss_pred HHHHHHHHHhhc-CCccchhHHHHHHHHH
Q 019008 194 RKALELLHNVVT-APMSSINAIAVEAYKK 221 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~~~s~i~vea~Kk 221 (347)
++|..+|+.++. .|.+ ....+|.++
T Consensus 93 ~~A~~~~~~~~~~~p~~---~~~~~~~~~ 118 (119)
T TIGR02795 93 EKAKATLQQVIKRYPGS---SAAKLAQKR 118 (119)
T ss_pred HHHHHHHHHHHHHCcCC---hhHHHHHhc
Confidence 999999999997 7764 334555443
No 17
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.42 E-value=0.017 Score=49.10 Aligned_cols=114 Identities=11% Similarity=0.083 Sum_probs=77.6
Q ss_pred HHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhh
Q 019008 80 PIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAG 159 (347)
Q Consensus 80 ~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~A 159 (347)
..+..|...+.... |+......+++. ....+..-.++..|+.++..- +++..-...+..+.++++..+.|+.|
T Consensus 32 ~~~~~l~~~~~~s~--ya~~A~l~lA~~----~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~LA~~~~~~~~~d~A 104 (145)
T PF09976_consen 32 AAAEQLAKDYPSSP--YAALAALQLAKA----AYEQGDYDEAKAALEKALANA-PDPELKPLARLRLARILLQQGQYDEA 104 (145)
T ss_pred HHHHHHHHHCCCCh--HHHHHHHHHHHH----HHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence 34555555544432 333333333333 334566667888888888865 44432233455688999999999999
Q ss_pred hhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhh
Q 019008 160 LSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (347)
Q Consensus 160 l~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai 204 (347)
+..|+.. +.+..-..+....|.|+...++|++|...|+.|+
T Consensus 105 l~~L~~~----~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al 145 (145)
T PF09976_consen 105 LATLQQI----PDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL 145 (145)
T ss_pred HHHHHhc----cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence 9999762 2233345688899999999999999999999875
No 18
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=96.10 E-value=0.014 Score=42.18 Aligned_cols=61 Identities=18% Similarity=0.226 Sum_probs=50.6
Q ss_pred HHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 146 FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 146 ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+.+.++..+.|+.|.+.++.-+-.-| +....+|..|.++..+++|++|..+|+.++. .|.+
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~l~~~P---~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~ 64 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQALKQDP---DNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN 64 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHCCST---THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 45678899999999999998665433 4788999999999999999999999999996 7753
No 19
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=95.98 E-value=0.017 Score=44.16 Aligned_cols=78 Identities=8% Similarity=0.120 Sum_probs=52.1
Q ss_pred cchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHH
Q 019008 120 RGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALEL 199 (347)
Q Consensus 120 ~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~ 199 (347)
.|+.....++.. +|+.. -....-.+.+++...+.|+.|.+++++ ...+ .......|..|+++..+++|++|...
T Consensus 7 ~Ai~~~~k~~~~-~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~--~~~~--~~~~~~~~l~a~~~~~l~~y~eAi~~ 80 (84)
T PF12895_consen 7 NAIKYYEKLLEL-DPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK--LKLD--PSNPDIHYLLARCLLKLGKYEEAIKA 80 (84)
T ss_dssp HHHHHHHHHHHH-HCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC--HTHH--HCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHHHHH-CCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH--hCCC--CCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence 345555554444 33211 112222368999999999999999999 2222 23456666679999999999999999
Q ss_pred HHHh
Q 019008 200 LHNV 203 (347)
Q Consensus 200 l~~a 203 (347)
|+.+
T Consensus 81 l~~~ 84 (84)
T PF12895_consen 81 LEKA 84 (84)
T ss_dssp HHHH
T ss_pred HhcC
Confidence 9864
No 20
>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=95.97 E-value=0.049 Score=44.87 Aligned_cols=89 Identities=8% Similarity=-0.043 Sum_probs=66.6
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++...++..++.++.. +|.. ...+..+...+...++|+.|.+.+++.+-.-| +....+|+.|.++...++|
T Consensus 29 ~~~~~~~A~~~~~~~~~~-~p~~---~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~~la~~~~~~g~~ 101 (135)
T TIGR02552 29 QQGRYDEALKLFQLLAAY-DPYN---SRYWLGLAACCQMLKEYEEAIDAYALAAALDP---DDPRPYFHAAECLLALGEP 101 (135)
T ss_pred HcccHHHHHHHHHHHHHh-CCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHHcCCH
Confidence 344455566666665554 4432 55677888899999999999999987654222 2466678899999999999
Q ss_pred HHHHHHHHHhhc-CCcc
Q 019008 194 RKALELLHNVVT-APMS 209 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~ 209 (347)
++|..+|+.++. .|..
T Consensus 102 ~~A~~~~~~al~~~p~~ 118 (135)
T TIGR02552 102 ESALKALDLAIEICGEN 118 (135)
T ss_pred HHHHHHHHHHHHhcccc
Confidence 999999999997 7764
No 21
>PRK12370 invasion protein regulator; Provisional
Probab=95.96 E-value=0.25 Score=51.45 Aligned_cols=207 Identities=10% Similarity=-0.017 Sum_probs=117.7
Q ss_pred cccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHH
Q 019008 118 PIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 118 ~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
...|+..++.|+.. +|+. ...|..+-..+...+.++.|...+++.+---| +....+|+.|.++..+++|++|.
T Consensus 320 ~~~A~~~~~~Al~l-dP~~---~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P---~~~~a~~~lg~~l~~~G~~~eAi 392 (553)
T PRK12370 320 MIKAKEHAIKATEL-DHNN---PQALGLLGLINTIHSEYIVGSLLFKQANLLSP---ISADIKYYYGWNLFMAGQLEEAL 392 (553)
T ss_pred HHHHHHHHHHHHhc-CCCC---HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCHHHHH
Confidence 34567777777654 6654 45678888889999999999999998654222 22345677799999999999999
Q ss_pred HHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh----cchhHHHHHHHH-hcCChHHH
Q 019008 198 ELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN----FSQPYMELVNTY-NTGKIVEL 271 (347)
Q Consensus 198 ~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~----~~~pY~~la~a~-~~g~~~~~ 271 (347)
.+|+.++. .|....... .+ +..+...|+.. . .-....+..+. ....|..++.++ ..|+.++-
T Consensus 393 ~~~~~Al~l~P~~~~~~~-----~~--~~~~~~~g~~e-e----A~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA 460 (553)
T PRK12370 393 QTINECLKLDPTRAAAGI-----TK--LWITYYHTGID-D----AIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELA 460 (553)
T ss_pred HHHHHHHhcCCCChhhHH-----HH--HHHHHhccCHH-H----HHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHH
Confidence 99999998 786422111 11 11123345532 1 11112222211 122466677776 56888877
Q ss_pred HHHHHhcccccccccc-ccHHHHHHH---HHHHHHHHHHHhhhhccc--HHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 272 ETYVQTNREKFESDNN-LGLVKQVVS---SMYKRNIQRLTQTYLTLS--LQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 272 ~~~~~~~~~~f~~D~n-~gLV~~~~~---~~~r~~I~~L~~~Ys~Is--L~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
.+.+.+.......+-+ .+++..+.. .--+..|+++-+.+.+-+ ..+.+.-..+-++.+.+.+..+++++|-.
T Consensus 461 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 538 (553)
T PRK12370 461 RKLTKEISTQEITGLIAVNLLYAEYCQNSERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMWNKFKNEDNI 538 (553)
T ss_pred HHHHHHhhhccchhHHHHHHHHHHHhccHHHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHHHHhhccchH
Confidence 7776664444333211 111111100 111122333333332222 33344433444577888888999988754
No 22
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=95.65 E-value=0.023 Score=41.89 Aligned_cols=60 Identities=23% Similarity=0.206 Sum_probs=50.0
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
-+.++..+.|+.|+.++++-+.--| +....++..|.++..+++|++|.+.|+.++. .|..
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p---~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~ 62 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDP---DDPELWLQRARCLFQLGRYEEALEDLERALELSPDD 62 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCc---ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence 4678999999999999999765423 2456677789999999999999999999997 8864
No 23
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=95.64 E-value=0.025 Score=35.24 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
.++|+-|.++..+++|++|.++|+.++. .|.
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~ 33 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPN 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence 5789999999999999999999999997 774
No 24
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.64 E-value=0.6 Score=44.24 Aligned_cols=248 Identities=17% Similarity=0.167 Sum_probs=133.1
Q ss_pred HHHHHhHHHHhhhhhhhhhhhhhcCchhhHHHHHHHHHHhh-hcccchhhhhhHHHHHHHHHhcCChhhhhchhHHHHHH
Q 019008 26 DYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCM-YCSITKERANTLVPIIARFITSCSAEQIRYVPEKFINV 104 (347)
Q Consensus 26 ~~L~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~L~vL~~~~-~~~~~~~~~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l 104 (347)
+++++.+..+.+..+-. +++..=.|+-..-+-+|--.+.. .....-..+...+.+..+.-...+.. ..++..|...
T Consensus 5 ~l~~~Aek~lk~~~~~~-~~f~~~~~~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~--~~Aa~~~~~A 81 (282)
T PF14938_consen 5 ELIKEAEKKLKKSSGFF-SFFGSKKPDYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDK--FEAAKAYEEA 81 (282)
T ss_dssp HHHHHHHHHCS---TCC-CHH--SCHHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-H--HHHHHHHHHH
T ss_pred HHHHHHHHHhccccchh-hhcCCCCCCHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCH--HHHHHHHHHH
Confidence 44555555443322222 33322245555555566544332 11111123444444444433322211 1233444443
Q ss_pred HHHHHHhHhhhcccccchHHHHHHHHhhCCCCC--chhhHHHHHHHHHHhc-CCchhhhhhhccccc--cc-CCchhhHH
Q 019008 105 CKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTE--HLTTLHPEFLQLCLLA-KCYKAGLSVLEDDIY--EI-NLPRDFFL 178 (347)
Q Consensus 105 ~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~--~lT~~H~~ll~l~l~~-~~y~~Al~~l~~~i~--~i-~~~~~~l~ 178 (347)
+..+. .. +|..++..+..|+.-+...+. .-.-.+..+.+.+-.. +.++.|...+.+..- .- +.+.....
T Consensus 82 a~~~k----~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~ 156 (282)
T PF14938_consen 82 ANCYK----KG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAE 156 (282)
T ss_dssp HHHHH----HT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred HHHHH----hh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHH
Confidence 33332 22 566789999999988876553 3344666677777777 899999999988543 22 23556677
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhcCCc-cchhHH-HHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhh------hh
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVTAPM-SSINAI-AVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRN------LK 250 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~-~~~s~i-~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~------~k 250 (347)
.+--.|.+++.+++|++|.+.|+.+...+. +..... .-+.+=+-+|+.|. .|+.. .. ...+.+. |.
T Consensus 157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~-~~D~v-~A----~~~~~~~~~~~~~F~ 230 (282)
T PF14938_consen 157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLA-MGDYV-AA----RKALERYCSQDPSFA 230 (282)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHH-TT-HH-HH----HHHHHHHGTTSTTST
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHH-cCCHH-HH----HHHHHHHHhhCCCCC
Confidence 777889999999999999999999997553 222222 12223344555544 56543 11 1111111 00
Q ss_pred h--cchhHHHHHHHHhcCChHHHHHHHHhcccccccccc
Q 019008 251 N--FSQPYMELVNTYNTGKIVELETYVQTNREKFESDNN 287 (347)
Q Consensus 251 ~--~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n 287 (347)
+ -+.-=.+|.+||+.||.+.|.+.+..+..+=.-|+-
T Consensus 231 ~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w 269 (282)
T PF14938_consen 231 SSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW 269 (282)
T ss_dssp TSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred CcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence 0 112344788999999999999999999887776653
No 25
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.23 E-value=3 Score=40.15 Aligned_cols=236 Identities=19% Similarity=0.167 Sum_probs=145.6
Q ss_pred hhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcc--cccccCCch
Q 019008 97 VPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED--DIYEINLPR 174 (347)
Q Consensus 97 ~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~--~i~~i~~~~ 174 (347)
..+.+..+++.+++.+... .|.+.++....+--.+|--+- +..+-+|+.+-.++-....+.++. ++.+ ...
T Consensus 114 ~~ea~~n~aeyY~qi~D~~----ng~~~~~~~~~~a~stg~KiD-v~l~kiRlg~~y~d~~vV~e~lE~~~~~iE--kGg 186 (412)
T COG5187 114 GSEADRNIAEYYCQIMDIQ----NGFEWMRRLMRDAMSTGLKID-VFLCKIRLGLIYGDRKVVEESLEVADDIIE--KGG 186 (412)
T ss_pred HHHHHHHHHHHHHHHhhhh----hHHHHHHHHHHHHHhcccchh-hHHHHHHHHHhhccHHHHHHHHHHHHHHHH--hCC
Confidence 4466778888777765433 366666665555322232222 234556777777775555555443 2221 133
Q ss_pred hh---HHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCc-c-chhHHHHHHHHHHHHHHHHhcCCCCCCCCcc-cCHHHhhh
Q 019008 175 DF---FLYCYYGGMIFIGQKRFRKALELLHNVVTAPM-S-SINAIAVEAYKKYILVSLIHHGQFSSTLPKY-TSSAAQRN 248 (347)
Q Consensus 175 ~~---l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~-~-~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~-~s~~~~r~ 248 (347)
|+ -+|--|-|+-.+..+++++|-..|.-++..-. + -.|- -.+...-+..+++...+.. --.|. -+|-+...
T Consensus 187 DWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY--~~~vrYa~~~Gl~~leR~d-iktki~dspevl~v 263 (412)
T COG5187 187 DWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISY--SRAVRYAIFCGLLRLERRD-IKTKILDSPEVLDV 263 (412)
T ss_pred CHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccH--HHHHHHHHHhhhheeehhh-hhhhhcCCHHHHHh
Confidence 33 48999999999999999999999999985332 2 1221 1233455666766332211 00000 13322222
Q ss_pred hhh--cchhHHHHHH-HHhcCChHHHHHHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCC
Q 019008 249 LKN--FSQPYMELVN-TYNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQL 324 (347)
Q Consensus 249 ~k~--~~~pY~~la~-a~~~g~~~~~~~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l 324 (347)
+-+ ....-.+++. .|..+=..-|...+.-+-+..+.|... .-+.--+...+|+.--.+-.+|.++||..+|+..|+
T Consensus 264 i~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgV 343 (412)
T COG5187 264 IGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGV 343 (412)
T ss_pred ccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCc
Confidence 211 1122334443 334333347888888888889999876 355666677888888899999999999999999998
Q ss_pred CChhhHHHHHHHHhhcccc
Q 019008 325 NSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 325 ~s~~eaE~~v~~mI~~G~~ 343 (347)
+ .+=++.=+.+-|-+|.|
T Consensus 344 S-V~yvdrDLg~FIp~~~L 361 (412)
T COG5187 344 S-VEYVDRDLGEFIPEGRL 361 (412)
T ss_pred c-HHHHhhhHHhhCCCCce
Confidence 7 77777778888887765
No 26
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=95.23 E-value=0.042 Score=40.04 Aligned_cols=63 Identities=14% Similarity=0.217 Sum_probs=51.4
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh-cHHHHHHHHHHhhc-CC
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK-RFRKALELLHNVVT-AP 207 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k-~y~~A~~~l~~ai~-~P 207 (347)
.+..+-..+...+.|+.|+..+++.+-- + .+....+|..|.++..++ +|++|...|+.|+. .|
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~-~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIEL-D--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHH-S--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHc-C--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 4556677888999999999999987653 2 234668899999999999 89999999999986 55
No 27
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=95.21 E-value=0.15 Score=36.79 Aligned_cols=86 Identities=13% Similarity=0.059 Sum_probs=59.3
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHH
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~ 194 (347)
.+....++..++.++... |.. ...+..+...+...+.++.|...+.+.+-..+.. ...++..|.++...++|+
T Consensus 13 ~~~~~~A~~~~~~~~~~~-~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~ 85 (100)
T cd00189 13 LGDYDEALEYYEKALELD-PDN---ADAYYNLAAAYYKLGKYEEALEDYEKALELDPDN---AKAYYNLGLAYYKLGKYE 85 (100)
T ss_pred HhcHHHHHHHHHHHHhcC-Ccc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc---hhHHHHHHHHHHHHHhHH
Confidence 344555667777666543 322 1456777788888899999998887754322211 156777888899999999
Q ss_pred HHHHHHHHhhc-CC
Q 019008 195 KALELLHNVVT-AP 207 (347)
Q Consensus 195 ~A~~~l~~ai~-~P 207 (347)
+|...|+.++. .|
T Consensus 86 ~a~~~~~~~~~~~~ 99 (100)
T cd00189 86 EALEAYEKALELDP 99 (100)
T ss_pred HHHHHHHHHHccCC
Confidence 99999988886 44
No 28
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=95.09 E-value=0.24 Score=42.10 Aligned_cols=90 Identities=11% Similarity=-0.003 Sum_probs=72.5
Q ss_pred hhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhc
Q 019008 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (347)
Q Consensus 113 ~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~ 192 (347)
...+....++..++.++ +.+|.. ...|..+-..|...+.|+.|...+++.+-- ..+....++..|.++..+++
T Consensus 35 ~~~g~~~~A~~~~~~al-~~~P~~---~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l---~p~~~~a~~~lg~~l~~~g~ 107 (144)
T PRK15359 35 WQEGDYSRAVIDFSWLV-MAQPWS---WRAHIALAGTWMMLKEYTTAINFYGHALML---DASHPEPVYQTGVCLKMMGE 107 (144)
T ss_pred HHcCCHHHHHHHHHHHH-HcCCCc---HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCcHHHHHHHHHHHHcCC
Confidence 34555666778887775 446643 567788999999999999999999997652 22457788999999999999
Q ss_pred HHHHHHHHHHhhc-CCcc
Q 019008 193 FRKALELLHNVVT-APMS 209 (347)
Q Consensus 193 y~~A~~~l~~ai~-~P~~ 209 (347)
+++|...|+.++. .|..
T Consensus 108 ~~eAi~~~~~Al~~~p~~ 125 (144)
T PRK15359 108 PGLAREAFQTAIKMSYAD 125 (144)
T ss_pred HHHHHHHHHHHHHhCCCC
Confidence 9999999999998 7865
No 29
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=94.76 E-value=0.38 Score=45.50 Aligned_cols=94 Identities=11% Similarity=-0.009 Sum_probs=75.8
Q ss_pred cccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHH
Q 019008 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRK 195 (347)
Q Consensus 116 ~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~ 195 (347)
+....++..++..+.++..+ ..-...|-.+-..++..+.|+.|...+.+-+-..|.+...-.-.|..|.++..++++++
T Consensus 157 ~~y~~Ai~af~~fl~~yP~s-~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~ 235 (263)
T PRK10803 157 SRQDDAIVAFQNFVKKYPDS-TYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAK 235 (263)
T ss_pred CCHHHHHHHHHHHHHHCcCC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHH
Confidence 44556788888888887653 33345678888999999999999999988776666555666777888999999999999
Q ss_pred HHHHHHHhhc-CCccc
Q 019008 196 ALELLHNVVT-APMSS 210 (347)
Q Consensus 196 A~~~l~~ai~-~P~~~ 210 (347)
|...|+.++. .|.+.
T Consensus 236 A~~~~~~vi~~yP~s~ 251 (263)
T PRK10803 236 AKAVYQQVIKKYPGTD 251 (263)
T ss_pred HHHHHHHHHHHCcCCH
Confidence 9999999997 99854
No 30
>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=94.56 E-value=0.076 Score=33.24 Aligned_cols=31 Identities=19% Similarity=0.286 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
.-+|..|.++..+++|++|.++|++|+. -|.
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence 4578899999999999999999999997 664
No 31
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=94.55 E-value=0.33 Score=47.76 Aligned_cols=90 Identities=13% Similarity=0.075 Sum_probs=70.7
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+....|+..++.|+.. +|+. ...+..+...++..+.|+.|+..+++.+-- + .+....++..|.++..+++|
T Consensus 14 ~~~~~~~Ai~~~~~Al~~-~P~~---~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l-~--P~~~~a~~~lg~~~~~lg~~ 86 (356)
T PLN03088 14 VDDDFALAVDLYTQAIDL-DPNN---AELYADRAQANIKLGNFTEAVADANKAIEL-D--PSLAKAYLRKGTACMKLEEY 86 (356)
T ss_pred HcCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C--cCCHHHHHHHHHHHHHhCCH
Confidence 345555688888888764 6543 457788889999999999999999987542 2 13455677889999999999
Q ss_pred HHHHHHHHHhhc-CCccc
Q 019008 194 RKALELLHNVVT-APMSS 210 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~~ 210 (347)
++|...|+.++. .|.+.
T Consensus 87 ~eA~~~~~~al~l~P~~~ 104 (356)
T PLN03088 87 QTAKAALEKGASLAPGDS 104 (356)
T ss_pred HHHHHHHHHHHHhCCCCH
Confidence 999999999997 88754
No 32
>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=94.11 E-value=0.74 Score=41.68 Aligned_cols=94 Identities=12% Similarity=0.040 Sum_probs=69.5
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhh----
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ---- 190 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~---- 190 (347)
.++...++..+..++... |++......+..+...+...+.|+.|...+++-+-..|.+...-.-+|..|.++...
T Consensus 46 ~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~ 124 (235)
T TIGR03302 46 SGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRV 124 (235)
T ss_pred cCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccc
Confidence 455556777777766554 433323346677888999999999999999987654454444444578889998876
Q ss_pred ----hcHHHHHHHHHHhhc-CCcc
Q 019008 191 ----KRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 191 ----k~y~~A~~~l~~ai~-~P~~ 209 (347)
+++++|.+.|+.++. .|.+
T Consensus 125 ~~~~~~~~~A~~~~~~~~~~~p~~ 148 (235)
T TIGR03302 125 DRDQTAAREAFEAFQELIRRYPNS 148 (235)
T ss_pred cCCHHHHHHHHHHHHHHHHHCCCC
Confidence 899999999999997 8875
No 33
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=94.03 E-value=6.5 Score=38.42 Aligned_cols=216 Identities=14% Similarity=0.156 Sum_probs=129.8
Q ss_pred cchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhccc--ccccCCchhh---HHHHHHHHHHHHhhhcHH
Q 019008 120 RGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD--IYEINLPRDF---FLYCYYGGMIFIGQKRFR 194 (347)
Q Consensus 120 ~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~--i~~i~~~~~~---l~Y~yy~G~i~~~~k~y~ 194 (347)
.|+..++....+--..|.-+- +--..+|+.+-..+.+-..+.+++. +++ ...|| =||--|-|+-.++.++++
T Consensus 122 na~~~~~~t~~ktvs~g~kiD-Vvf~~iRlglfy~D~~lV~~~iekak~liE--~GgDWeRrNRlKvY~Gly~msvR~Fk 198 (393)
T KOG0687|consen 122 NALEALRKTYEKTVSLGHKID-VVFYKIRLGLFYLDHDLVTESIEKAKSLIE--EGGDWERRNRLKVYQGLYCMSVRNFK 198 (393)
T ss_pred HHHHHHHHHHHHHhhcccchh-hHHHHHHHHHhhccHHHHHHHHHHHHHHHH--hCCChhhhhhHHHHHHHHHHHHHhHH
Confidence 366666554444222232222 2244567777766666665555542 222 23333 378889999999999999
Q ss_pred HHHHHHHHhhcCCcc--chhHHHHHHHHHHHHHHHHhcCCCCCCCCcc-cCHHHhhhhhhcchhHHHHHHHHhcCChHHH
Q 019008 195 KALELLHNVVTAPMS--SINAIAVEAYKKYILVSLIHHGQFSSTLPKY-TSSAAQRNLKNFSQPYMELVNTYNTGKIVEL 271 (347)
Q Consensus 195 ~A~~~l~~ai~~P~~--~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~-~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~ 271 (347)
+|-.+|--++++-++ -.+- -..--.-|++++|..-+.. =..|- .+|-+.-...+ ..+-.+++...=..+...|
T Consensus 199 ~Aa~Lfld~vsTFtS~El~~Y--~~~v~Ytv~~g~i~leR~d-lktKVi~~~Evl~vl~~-l~~~~q~l~SLY~C~Y~~F 274 (393)
T KOG0687|consen 199 EAADLFLDSVSTFTSYELMSY--ETFVRYTVITGLIALERVD-LKTKVIKCPEVLEVLHK-LPSVSQLLNSLYECDYSDF 274 (393)
T ss_pred HHHHHHHHHcccccceecccH--HHHHHHHHHHhhheeccch-HHhhhcCcHHHHHHhhc-CchHHHHHHHHHhccHHHH
Confidence 999999999864432 1110 0011244566666432111 00000 12233332222 2244455544444455555
Q ss_pred HHHH-Hhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 272 ETYV-QTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 272 ~~~~-~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
-.-+ .-....++.|.-. .-..--...++++.--.+-.+|.+++|..+|+..|++ .+=+++=+.+-|.+|.|
T Consensus 275 f~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVS-VefiDreL~rFI~~grL 347 (393)
T KOG0687|consen 275 FNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVS-VEFIDRELGRFIAAGRL 347 (393)
T ss_pred HHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCch-HHHHHhHHHHhhccCce
Confidence 5555 4447778888765 4455556677777888889999999999999999987 77778888888988876
No 34
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=94.03 E-value=0.091 Score=32.27 Aligned_cols=29 Identities=14% Similarity=0.275 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 180 CYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 180 ~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
.|..|+++..+++|++|...|+.++. .|.
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence 57889999999999999999999997 886
No 35
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=94.00 E-value=1.2 Score=43.03 Aligned_cols=181 Identities=13% Similarity=0.190 Sum_probs=104.8
Q ss_pred HHHHHHHHhcCCchhhhhhhc---ccccccCC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc------CCcc---c
Q 019008 144 PEFLQLCLLAKCYKAGLSVLE---DDIYEINL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT------APMS---S 210 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~---~~i~~i~~-~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~------~P~~---~ 210 (347)
..=+|+|+....|-.|--... |..|+-+. ...-+.||-..-.|....++|=+|..+++.+-- -|++ .
T Consensus 175 LEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~t~~~~~d~Akwk~V 254 (439)
T COG5071 175 LEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDTAVVQEDPAKWKEV 254 (439)
T ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHhccccHHHHHHHHHHHhheeecccHHHHHHHHHHHHHHHHHHhccCcccccch
Confidence 445799999999999964433 23444333 334477888888888889999999866554432 2221 1
Q ss_pred hhHHHH-------HHHHHHHHHHHH-hcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHH-------
Q 019008 211 INAIAV-------EAYKKYILVSLI-HHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYV------- 275 (347)
Q Consensus 211 ~s~i~v-------ea~Kk~iLv~LL-~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~------- 275 (347)
.|.+.- +.-.-= |++-+ .+-+.. ++|+.. +++..|-.+.+-.+--+-
T Consensus 255 LS~~v~F~iLtpy~neq~d-lvhKi~~d~kl~-sl~~~~----------------~lVk~f~vNelmrwp~V~~~y~~~l 316 (439)
T COG5071 255 LSNVVCFALLTPYDNEQAD-LLHKINADHKLN-SLPLLQ----------------QLVKCFIVNELMRWPKVAEIYGSAL 316 (439)
T ss_pred hhcceeeEEecccccHHHH-HHHHhhhhhhhc-cchhhh----------------hHHHHHHHHHHHhhhHHHHHhHHHH
Confidence 111000 000000 01111 112222 333311 122222221111111111
Q ss_pred HhccccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 276 QTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 276 ~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
....=.|-.|.+----..++.+++.+++|-++.-||||++..+..-+.++ ++++|..+..|+..|-.
T Consensus 317 ~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~-~s~te~~ISdlVN~G~~ 383 (439)
T COG5071 317 RSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMS-PSETEQFISDLVNKGHF 383 (439)
T ss_pred HhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCC-HHHHHHHHHHHHhcCcE
Confidence 11122344455544556788999999999999999999999999988887 89999999999999853
No 36
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=93.21 E-value=5.8 Score=39.77 Aligned_cols=203 Identities=13% Similarity=0.130 Sum_probs=128.6
Q ss_pred HhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccC----C-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhh
Q 019008 130 RKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN----L-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (347)
Q Consensus 130 ~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~----~-~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai 204 (347)
+-+..+..+.--+--.+++..+-.++|.+-+.+.++..-..+ . ..-...-.-+.|.....+|+|+.|..+|-.+.
T Consensus 177 RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~ 256 (466)
T KOG0686|consen 177 RDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAE 256 (466)
T ss_pred hhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 334433333322333467888888999998888888655321 1 11123456678999999999999998887766
Q ss_pred c----CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCH-HHh--hhhhh--cchh-HHHHHHHHhcCChHHHHHH
Q 019008 205 T----APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSS-AAQ--RNLKN--FSQP-YMELVNTYNTGKIVELETY 274 (347)
Q Consensus 205 ~----~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~-~~~--r~~k~--~~~p-Y~~la~a~~~g~~~~~~~~ 274 (347)
. .|. -+++.=+..| ...+-|. ++++..-. .+. -.||. .+.| --++...|-++.....-+.
T Consensus 257 ~~~~d~~~-ivtpsdv~iY---ggLcALA------tfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~ 326 (466)
T KOG0686|consen 257 FDHCDYPE-IVTPSDVAIY---GGLCALA------TFDRQDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLEL 326 (466)
T ss_pred CCccCccc-eecchhhHHH---HhhHhhc------cCCHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHH
Confidence 3 122 1222222222 2222221 22211000 000 01111 1123 2346666767777788888
Q ss_pred HHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 275 VQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 275 ~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+.+.+....=|--. .=|..+..-++.+.+.+-...|+++.++.+|..++.+ ..+.|.=|.+.|.+|.+
T Consensus 327 L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~s-v~~le~~l~~LI~~~~i 395 (466)
T KOG0686|consen 327 LREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTS-VAILESELLELILEGKI 395 (466)
T ss_pred HHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhccc-HHHHHHHHHHHHHccch
Confidence 88877777777554 5677788888899999999999999999999999976 78899999999999865
No 37
>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=93.16 E-value=0.52 Score=47.25 Aligned_cols=83 Identities=17% Similarity=0.191 Sum_probs=63.4
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+....+|..+..++... |.. ..+-..-.+.|+..+.|+.|+++..+.+.--| +-.+..|+.+.+|+.+++|
T Consensus 212 ~~~~E~~AI~ll~~aL~~~-p~d---~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP---~~f~~W~~La~~Yi~~~d~ 284 (395)
T PF09295_consen 212 LMNEEVEAIRLLNEALKEN-PQD---SELLNLQAEFLLSKKKYELALEIAKKAVELSP---SEFETWYQLAECYIQLGDF 284 (395)
T ss_pred hcCcHHHHHHHHHHHHHhC-CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc---hhHHHHHHHHHHHHhcCCH
Confidence 4566778999999999663 333 44445677889999999999999999765322 3355666799999999999
Q ss_pred HHHHHHHHHh
Q 019008 194 RKALELLHNV 203 (347)
Q Consensus 194 ~~A~~~l~~a 203 (347)
++|+-.+..|
T Consensus 285 e~ALlaLNs~ 294 (395)
T PF09295_consen 285 ENALLALNSC 294 (395)
T ss_pred HHHHHHHhcC
Confidence 9999766633
No 38
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=93.12 E-value=0.15 Score=38.03 Aligned_cols=65 Identities=12% Similarity=0.068 Sum_probs=52.9
Q ss_pred hHHHHHHHHHHhcCCchhhhhhhcccccc---cCC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYE---INL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 141 ~~H~~ll~l~l~~~~y~~Al~~l~~~i~~---i~~-~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
..+..+-..+...+.|+.|++.+++.+-- .+. ..+.+.-++--|.++-.++++++|.++|+.|+.
T Consensus 6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 45577888999999999999999986532 222 446788999999999999999999999999985
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=92.86 E-value=4.3 Score=35.05 Aligned_cols=88 Identities=6% Similarity=-0.065 Sum_probs=65.1
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++...++..+..++.. +|+. ...+..+...+...+.++.|...+.+.+-.-+. ....++..|.++..+++|
T Consensus 43 ~~~~~~~A~~~~~~~l~~-~p~~---~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~---~~~~~~~~~~~~~~~g~~ 115 (234)
T TIGR02521 43 EQGDLEVAKENLDKALEH-DPDD---YLAYLALALYYQQLGELEKAEDSFRRALTLNPN---NGDVLNNYGTFLCQQGKY 115 (234)
T ss_pred HCCCHHHHHHHHHHHHHh-Cccc---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC---CHHHHHHHHHHHHHcccH
Confidence 345555677777777654 4432 356778889999999999999999886543222 234566678999999999
Q ss_pred HHHHHHHHHhhcCCc
Q 019008 194 RKALELLHNVVTAPM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~~P~ 208 (347)
++|..+|+.++..|.
T Consensus 116 ~~A~~~~~~~~~~~~ 130 (234)
T TIGR02521 116 EQAMQQFEQAIEDPL 130 (234)
T ss_pred HHHHHHHHHHHhccc
Confidence 999999999998653
No 40
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.71 E-value=3.6 Score=39.88 Aligned_cols=92 Identities=12% Similarity=-0.060 Sum_probs=58.4
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++...++..+..++..-+..+......+..+...+...+.|+.|+.++++-+-. + +. ....+..-|.++..+++|
T Consensus 81 ~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~-~~-~~~~~~~la~~~~~~g~~ 157 (389)
T PRK11788 81 RRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-G-DF-AEGALQQLLEIYQQEKDW 157 (389)
T ss_pred HcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-C-cc-hHHHHHHHHHHHHHhchH
Confidence 44555566777766654311111112345677788888889999998888875432 1 11 223344567788888999
Q ss_pred HHHHHHHHHhhc-CCc
Q 019008 194 RKALELLHNVVT-APM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~ 208 (347)
++|.+.|+.++. .|.
T Consensus 158 ~~A~~~~~~~~~~~~~ 173 (389)
T PRK11788 158 QKAIDVAERLEKLGGD 173 (389)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 999988888886 454
No 41
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=92.55 E-value=11 Score=36.82 Aligned_cols=252 Identities=14% Similarity=0.187 Sum_probs=144.9
Q ss_pred hhhHHHHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCC-CCchhhHHHHHHHHHHhc
Q 019008 75 ANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSS-TEHLTTLHPEFLQLCLLA 153 (347)
Q Consensus 75 ~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~-~~~lT~~H~~ll~l~l~~ 153 (347)
-+-....++..+..-.|++.- ..+.++|+.+++.-.... |...+..|-+.-.-.|.. +..+ .+..-++.+|...
T Consensus 63 le~vlnsi~sLi~~~~~e~~e---~~v~a~~ekva~q~n~~~-~~l~L~vLsnLfn~~d~~~~aR~-~Vy~~lv~la~~~ 137 (378)
T KOG2753|consen 63 LECVLNSIVSLIKNAPPEKVE---EMVKAICEKVAKQPNDKT-ASLRLQVLSNLFNGVDKPTPARY-QVYMSLVTLAASC 137 (378)
T ss_pred HHHHHHHHHHHHHhCCHHHhH---HHHHHHHHHHhcCccCCC-cccHHHHHHHHHhccCCCchHHH-HHHHHHHHHHhhc
Confidence 344556666666665555432 456666666665422111 323455665555555532 2223 3456788888888
Q ss_pred CCchhhhhhhcc---cccccC-CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCc-cchhHHHHHHHHHHHHHHHH
Q 019008 154 KCYKAGLSVLED---DIYEIN-LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPM-SSINAIAVEAYKKYILVSLI 228 (347)
Q Consensus 154 ~~y~~Al~~l~~---~i~~i~-~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~-~~~s~i~vea~Kk~iLv~LL 228 (347)
+....-.+=+++ -+-+-+ +..+.-..+-......-..+.-++|..++..-+.+-+ .-+|.-..+|. +.|. .-+
T Consensus 138 ~~~~~i~~~lk~~~~~lkew~~~vedqrel~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dnas~AredA~-rcV~-~av 215 (378)
T KOG2753|consen 138 KLIEYIVPNLKQLDDWLKEWNISVEDQRELLRAVHKALKDNKSVDESSKVMTELLGTYTEDNASEAREDAM-RCVV-EAV 215 (378)
T ss_pred ceeeeecccHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccchhHHHHHHH-HHHH-HHH
Confidence 887665554443 111111 1344444444434444444444556666555554333 23444444443 3332 223
Q ss_pred hcCCCCCCCCc-ccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHHHHH---HHH
Q 019008 229 HHGQFSSTLPK-YTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKR---NIQ 304 (347)
Q Consensus 229 ~~G~i~~~lp~-~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~---~I~ 304 (347)
..-++. .++. -+-|.+ +.++. .+-+++...|-+|.++...+..+++.+-.+. +||+.. +++.|- .+-
T Consensus 216 ~dP~~F-~fD~Ll~L~pV-~qLE~--d~i~qLL~IF~s~~L~aYveF~~~N~~Fvqs---~gl~~E--~~~~KMRLLTlm 286 (378)
T KOG2753|consen 216 KDPKIF-LFDHLLTLPPV-KQLEG--DLIHQLLKIFVSGKLDAYVEFVAANSGFVQS---QGLVHE--QNMAKMRLLTLM 286 (378)
T ss_pred cCCcee-ccchhccCchH-HHhcc--chHHHHHHHHHhcchHHHHHHHHhChHHHHH---hcccHH--HHHHHHHHHHHH
Confidence 333333 3331 122223 33444 3578999999999999999888887765543 678776 455554 444
Q ss_pred HHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 305 RLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 305 ~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
.|+..=..||..+|++.++++ ++|+|..|.++|+.|.+
T Consensus 287 ~LA~es~eisy~~l~k~LqI~-edeVE~fVIdaI~aklV 324 (378)
T KOG2753|consen 287 SLAEESNEISYDTLAKELQIN-EDEVELFVIDAIRAKLV 324 (378)
T ss_pred HHhccCCCCCHHHHHHHhccC-HHHHHHHHHHHHHHHHH
Confidence 556667789999999999999 78899999999998754
No 42
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=92.53 E-value=1.2 Score=44.30 Aligned_cols=70 Identities=10% Similarity=0.078 Sum_probs=54.4
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhcccccccCC----------------------------chhhHHHHHHHHHHHHhhh
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----------------------------PRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~----------------------------~~~~l~Y~yy~G~i~~~~k 191 (347)
.++|..+.+..+..+.++.|..++.+..-.-+. ..+....++.-|.+++..+
T Consensus 263 ~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~ 342 (398)
T PRK10747 263 VALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHG 342 (398)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCC
Confidence 567788888888888888888888765432110 2244567889999999999
Q ss_pred cHHHHHHHHHHhhc-CCcc
Q 019008 192 RFRKALELLHNVVT-APMS 209 (347)
Q Consensus 192 ~y~~A~~~l~~ai~-~P~~ 209 (347)
+|.+|.+.|+.++. .|..
T Consensus 343 ~~~~A~~~le~al~~~P~~ 361 (398)
T PRK10747 343 EWQEASLAFRAALKQRPDA 361 (398)
T ss_pred CHHHHHHHHHHHHhcCCCH
Confidence 99999999999998 6864
No 43
>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=92.39 E-value=0.21 Score=31.08 Aligned_cols=30 Identities=23% Similarity=0.369 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CC
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P 207 (347)
+.++.-|.+|..++++++|.++|+.|+. .|
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALELNP 32 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 5688899999999999999999999996 55
No 44
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=91.84 E-value=0.44 Score=44.66 Aligned_cols=95 Identities=14% Similarity=0.118 Sum_probs=66.6
Q ss_pred HHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHH
Q 019008 108 YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (347)
Q Consensus 108 ~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~ 187 (347)
.+....+.+++..|+..++.|+.. +|+. ..+...++...+..+.++.+.+++..-.-..+.+.. +...-|.++
T Consensus 152 ~a~~~~~~G~~~~A~~~~~~al~~-~P~~---~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~---~~~~la~~~ 224 (280)
T PF13429_consen 152 LAEIYEQLGDPDKALRDYRKALEL-DPDD---PDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPD---LWDALAAAY 224 (280)
T ss_dssp HHHHHHHCCHHHHHHHHHHHHHHH--TT----HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCC---HCHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHc-CCCC---HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHH---HHHHHHHHh
Confidence 334445678888899999999777 5543 345677888999999999977777653322222222 334459999
Q ss_pred HhhhcHHHHHHHHHHhhc-CCcc
Q 019008 188 IGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..++++++|.++|+.+.. .|.+
T Consensus 225 ~~lg~~~~Al~~~~~~~~~~p~d 247 (280)
T PF13429_consen 225 LQLGRYEEALEYLEKALKLNPDD 247 (280)
T ss_dssp HHHT-HHHHHHHHHHHHHHSTT-
T ss_pred ccccccccccccccccccccccc
Confidence 999999999999999997 7754
No 45
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=91.56 E-value=0.32 Score=36.16 Aligned_cols=41 Identities=15% Similarity=0.174 Sum_probs=34.1
Q ss_pred HHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 302 ~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
.|++.-+---++|++|||..++++ ++.+|.++..+|+.|.+
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~s-~~~ve~mL~~l~~kG~I 44 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGIS-PEAVEAMLEQLIRKGYI 44 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT---HHHHHHHHHHHHCCTSC
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCcE
Confidence 567777777889999999999998 89999999999999976
No 46
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=91.49 E-value=6.5 Score=42.01 Aligned_cols=60 Identities=8% Similarity=0.056 Sum_probs=42.3
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
..+.+.++..|.+.+.++.|..+++.-.- .+...| ......|+..+++++|.+.|+....
T Consensus 158 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~~~~t~-n~li~~~~~~g~~~~A~~lf~~M~~ 217 (697)
T PLN03081 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPE-----RNLASW-GTIIGGLVDAGNYREAFALFREMWE 217 (697)
T ss_pred hHHHHHHHHHHhcCCCHHHHHHHHhcCCC-----CCeeeH-HHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 34557888999999999999999887421 122222 2223456677999999999998875
No 47
>PLN03218 maturation of RBCL 1; Provisional
Probab=91.34 E-value=11 Score=42.80 Aligned_cols=85 Identities=18% Similarity=0.126 Sum_probs=44.6
Q ss_pred hhHHHHHHHH-hcCChHHHHHHHHhccc-ccc--------------ccccccHHHHHHHHHHHHHHHHHHhhhhcccHHH
Q 019008 254 QPYMELVNTY-NTGKIVELETYVQTNRE-KFE--------------SDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQD 317 (347)
Q Consensus 254 ~pY~~la~a~-~~g~~~~~~~~~~~~~~-~f~--------------~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~d 317 (347)
..|..|..+| +.|+.++-.++.+.-.+ -+. +-|.+.-+.++...+.+.++.-=..+|..+ + +
T Consensus 685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sL-L-~ 762 (1060)
T PLN03218 685 VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL-L-V 762 (1060)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH-H-H
Confidence 4677777777 44666665555554321 122 222333333344444444444344455544 1 2
Q ss_pred HHHHcCCCChhhHHHHHHHHhhccc
Q 019008 318 IANTVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 318 Ia~~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
.. ......++++.+...|++.|.
T Consensus 763 a~--~k~G~le~A~~l~~~M~k~Gi 785 (1060)
T PLN03218 763 AS--ERKDDADVGLDLLSQAKEDGI 785 (1060)
T ss_pred HH--HHCCCHHHHHHHHHHHHHcCC
Confidence 22 233457788888888888875
No 48
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=91.28 E-value=7.6 Score=41.11 Aligned_cols=91 Identities=11% Similarity=0.070 Sum_probs=68.2
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
....+.+..++..+..++.. +|.. ...+..+.+.+...+.|+.|..++++.+-.-| .....+++.|.++...+
T Consensus 135 ~~~~~~~~~A~~~~~~a~~~-~~~~---~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~~~~~~~~g 207 (899)
T TIGR02917 135 YLGLGQLELAQKSYEQALAI-DPRS---LYAKLGLAQLALAENRFDEARALIDEVLTADP---GNVDALLLKGDLLLSLG 207 (899)
T ss_pred HHHcCCHHHHHHHHHHHHhc-CCCC---hhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHhcC
Confidence 34456667788888887754 5533 23456778899999999999999988543222 23456777899999999
Q ss_pred cHHHHHHHHHHhhc-CCcc
Q 019008 192 RFRKALELLHNVVT-APMS 209 (347)
Q Consensus 192 ~y~~A~~~l~~ai~-~P~~ 209 (347)
+|++|..+|+.++. .|..
T Consensus 208 ~~~~A~~~~~~a~~~~p~~ 226 (899)
T TIGR02917 208 NIELALAAYRKAIALRPNN 226 (899)
T ss_pred CHHHHHHHHHHHHhhCCCC
Confidence 99999999999997 7764
No 49
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=91.28 E-value=1.9 Score=38.77 Aligned_cols=98 Identities=11% Similarity=0.004 Sum_probs=67.8
Q ss_pred hhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHH-HHhcCC--chhhhhhhcccccccCCchhhHHHHHHHHHHHHh
Q 019008 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQL-CLLAKC--YKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIG 189 (347)
Q Consensus 113 ~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l-~l~~~~--y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~ 189 (347)
...+....|+..++.|+.. +|+. ..++..+... +...+. ++.|..++++.+-.-| +....++..|.++..
T Consensus 84 ~~~g~~~~A~~a~~~Al~l-~P~~---~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP---~~~~al~~LA~~~~~ 156 (198)
T PRK10370 84 LWRNDYDNALLAYRQALQL-RGEN---AELYAALATVLYYQAGQHMTPQTREMIDKALALDA---NEVTALMLLASDAFM 156 (198)
T ss_pred HHCCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC---CChhHHHHHHHHHHH
Confidence 3456666788888877665 5543 3355666663 466666 5889999988765322 235677888999999
Q ss_pred hhcHHHHHHHHHHhhc-CCccchhHHHHH
Q 019008 190 QKRFRKALELLHNVVT-APMSSINAIAVE 217 (347)
Q Consensus 190 ~k~y~~A~~~l~~ai~-~P~~~~s~i~ve 217 (347)
+++|++|..+++.++. .|...-..-+++
T Consensus 157 ~g~~~~Ai~~~~~aL~l~~~~~~r~~~i~ 185 (198)
T PRK10370 157 QADYAQAIELWQKVLDLNSPRVNRTQLVE 185 (198)
T ss_pred cCCHHHHHHHHHHHHhhCCCCccHHHHHH
Confidence 9999999999999996 666433333334
No 50
>PLN03218 maturation of RBCL 1; Provisional
Probab=91.20 E-value=9.3 Score=43.25 Aligned_cols=18 Identities=17% Similarity=0.093 Sum_probs=12.7
Q ss_pred CChhhHHHHHHHHhhccc
Q 019008 325 NSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 325 ~s~~eaE~~v~~mI~~G~ 342 (347)
...++|..++.+|.+.|.
T Consensus 733 G~~eeAlelf~eM~~~Gi 750 (1060)
T PLN03218 733 NQLPKALEVLSEMKRLGL 750 (1060)
T ss_pred CCHHHHHHHHHHHHHcCC
Confidence 346777777777777764
No 51
>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=90.93 E-value=6.4 Score=37.65 Aligned_cols=116 Identities=9% Similarity=0.048 Sum_probs=80.0
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCC-chhhHHHHHHHHHHHHhh
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQ 190 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~-~~~~l~Y~yy~G~i~~~~ 190 (347)
....+....++..++.++.+ +|.. ...|..+...+...+.++.|...+++.+-..+. +......++.-|.++..+
T Consensus 124 ~~~~G~~~~A~~~~~~al~~-~p~~---~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~ 199 (355)
T cd05804 124 LEEAGQYDRAEEAARRALEL-NPDD---AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLER 199 (355)
T ss_pred HHHcCCHHHHHHHHHHHHhh-CCCC---cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHC
Confidence 34556666788888888876 4433 345677889999999999999999986643332 222344566788999999
Q ss_pred hcHHHHHHHHHHhhc-CCccchhHHHHHHHHH-HHHHHHHhcCCCC
Q 019008 191 KRFRKALELLHNVVT-APMSSINAIAVEAYKK-YILVSLIHHGQFS 234 (347)
Q Consensus 191 k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk-~iLv~LL~~G~i~ 234 (347)
+++++|...|+.++. .|. +..+.+.+.. +.+-.+...|...
T Consensus 200 G~~~~A~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~g~~~ 242 (355)
T cd05804 200 GDYEAALAIYDTHIAPSAE---SDPALDLLDAASLLWRLELAGHVD 242 (355)
T ss_pred CCHHHHHHHHHHHhccccC---CChHHHHhhHHHHHHHHHhcCCCC
Confidence 999999999999975 342 1222333344 5566666667544
No 52
>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=90.76 E-value=0.89 Score=32.55 Aligned_cols=63 Identities=14% Similarity=0.068 Sum_probs=48.2
Q ss_pred HHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..+...+...+.++.|.+.+.+.+-.-+.. ...++..|.++...++|++|..+|+.++. .|..
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 67 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALELDPDN---ADAYYNLAAAYYKLGKYEEALEDYEKALELDPDN 67 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHhcCCcc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 345566777899999999988754322221 26678899999999999999999999997 6654
No 53
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=90.62 E-value=22 Score=38.74 Aligned_cols=59 Identities=14% Similarity=0.178 Sum_probs=53.5
Q ss_pred ccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 286 NNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 286 ~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
++...|..+....+.+.++.++++|.+||++.+.+-+..-|+-++|.+++++.+.|.+-
T Consensus 421 ~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~ 479 (988)
T KOG2072|consen 421 DKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVS 479 (988)
T ss_pred CccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhcccee
Confidence 34789999999999999999999999999999999988889999999999998877653
No 54
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=90.24 E-value=18 Score=34.90 Aligned_cols=90 Identities=11% Similarity=0.028 Sum_probs=50.6
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCc--hhhHHHHHHHHHHHHhhhc
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLP--RDFFLYCYYGGMIFIGQKR 192 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~--~~~l~Y~yy~G~i~~~~k~ 192 (347)
.+....++..+..++.. +|. -...+..+...+...+.|+.|...+++-+..-+.+ .....|++-.|.++..+++
T Consensus 120 ~g~~~~A~~~~~~~l~~-~~~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~ 195 (389)
T PRK11788 120 AGLLDRAEELFLQLVDE-GDF---AEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD 195 (389)
T ss_pred CCCHHHHHHHHHHHHcC-Ccc---hHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence 34444556666655543 221 13455666777777777777777766543321211 1233344455666677777
Q ss_pred HHHHHHHHHHhhc-CCc
Q 019008 193 FRKALELLHNVVT-APM 208 (347)
Q Consensus 193 y~~A~~~l~~ai~-~P~ 208 (347)
+++|...|+.++. .|.
T Consensus 196 ~~~A~~~~~~al~~~p~ 212 (389)
T PRK11788 196 LDAARALLKKALAADPQ 212 (389)
T ss_pred HHHHHHHHHHHHhHCcC
Confidence 7777777777775 454
No 55
>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=89.81 E-value=13 Score=37.15 Aligned_cols=91 Identities=8% Similarity=0.003 Sum_probs=66.1
Q ss_pred HhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHh
Q 019008 110 DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIG 189 (347)
Q Consensus 110 ~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~ 189 (347)
+.+...+++..+...+..+..+. |+.. ..+.....++.+..+.|+.|+..++.-.-.-|.+. .-.+..|.+++.
T Consensus 126 ~aa~~~g~~~~A~~~l~~a~~~~-p~~~--l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~---~~l~ll~~~~~~ 199 (409)
T TIGR00540 126 EAAQQRGDEARANQHLEEAAELA-GNDN--ILVEIARTRILLAQNELHAARHGVDKLLEMAPRHK---EVLKLAEEAYIR 199 (409)
T ss_pred HHHHHCCCHHHHHHHHHHHHHhC-CcCc--hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH---HHHHHHHHHHHH
Confidence 33445677777888888887665 4432 12334568999999999999999877443323232 335688999999
Q ss_pred hhcHHHHHHHHHHhhcC
Q 019008 190 QKRFRKALELLHNVVTA 206 (347)
Q Consensus 190 ~k~y~~A~~~l~~ai~~ 206 (347)
+++|++|.+.++.....
T Consensus 200 ~~d~~~a~~~l~~l~k~ 216 (409)
T TIGR00540 200 SGAWQALDDIIDNMAKA 216 (409)
T ss_pred HhhHHHHHHHHHHHHHc
Confidence 99999999999999964
No 56
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=89.48 E-value=10 Score=40.54 Aligned_cols=83 Identities=13% Similarity=0.179 Sum_probs=65.3
Q ss_pred HHHHhcCChHHHHHHHHhccccccccccc-----cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHH
Q 019008 260 VNTYNTGKIVELETYVQTNREKFESDNNL-----GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHV 334 (347)
Q Consensus 260 a~a~~~g~~~~~~~~~~~~~~~f~~D~n~-----gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v 334 (347)
+.|...||+..-...+-.+..+|.-=.|. -|+.++..---|+-+-..+..|.++|++.+|....|+ ...|-.+|
T Consensus 661 sKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp-~~~VhsIi 739 (843)
T KOG1076|consen 661 SKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLP-EPKVHSII 739 (843)
T ss_pred HHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCC-chhHHHHH
Confidence 46778999999888666666666544443 4555666666677788889999999999999999999 67888899
Q ss_pred HHHhhcccc
Q 019008 335 LQMVTFEVN 343 (347)
Q Consensus 335 ~~mI~~G~~ 343 (347)
.+||-..++
T Consensus 740 SkmiineEl 748 (843)
T KOG1076|consen 740 SKMIINEEL 748 (843)
T ss_pred HHHHHHHHh
Confidence 999987664
No 57
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=89.47 E-value=0.52 Score=30.20 Aligned_cols=24 Identities=25% Similarity=0.351 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhcHHHHHHHHHHhh
Q 019008 181 YYGGMIFIGQKRFRKALELLHNVV 204 (347)
Q Consensus 181 yy~G~i~~~~k~y~~A~~~l~~ai 204 (347)
..-|.+|..+++|++|.++|++++
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH
Confidence 457999999999999999999966
No 58
>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=89.38 E-value=0.32 Score=35.07 Aligned_cols=55 Identities=20% Similarity=0.226 Sum_probs=41.2
Q ss_pred HhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 151 LLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 151 l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
+..+.|+.|...+.+-+-..| +.....+.-|.+++.+++|++|...|+.++. .|.
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p---~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNP---DNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTT---TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 567888888888888654333 2455566788999999999999999999886 776
No 59
>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=89.27 E-value=1.4 Score=35.94 Aligned_cols=72 Identities=10% Similarity=-0.040 Sum_probs=55.1
Q ss_pred hhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 131 KIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 131 r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
+.+|+. ......+...++..++|+.|...+.+.+- .+ .+....++..|.++..+++|++|..+|+.++. .|.
T Consensus 11 ~~~p~~---~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~ 83 (135)
T TIGR02552 11 GLDSEQ---LEQIYALAYNLYQQGRYDEALKLFQLLAA-YD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD 83 (135)
T ss_pred cCChhh---HHHHHHHHHHHHHcccHHHHHHHHHHHHH-hC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 345543 34567788899999999999999877543 12 12456777889999999999999999999997 554
No 60
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=89.22 E-value=5 Score=42.16 Aligned_cols=85 Identities=9% Similarity=0.051 Sum_probs=47.8
Q ss_pred ccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHH
Q 019008 117 APIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKA 196 (347)
Q Consensus 117 ~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A 196 (347)
+...++..+..|+.. +|+. ...|..+...+...+.|+.|+..+++.+-..| +....+++.|.++..+++|++|
T Consensus 414 ~~~~A~~~~~kal~l-~P~~---~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P---~~~~~~~~lg~~~~~~g~~~~A 486 (615)
T TIGR00990 414 EFAQAGKDYQKSIDL-DPDF---IFSHIQLGVTQYKEGSIASSMATFRRCKKNFP---EAPDVYNYYGELLLDQNKFDEA 486 (615)
T ss_pred CHHHHHHHHHHHHHc-CccC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CChHHHHHHHHHHHHccCHHHH
Confidence 333445555544433 3321 12344555556666666666666665433222 1233455567888888888888
Q ss_pred HHHHHHhhc-CCc
Q 019008 197 LELLHNVVT-APM 208 (347)
Q Consensus 197 ~~~l~~ai~-~P~ 208 (347)
...|+.++. .|.
T Consensus 487 ~~~~~~Al~l~p~ 499 (615)
T TIGR00990 487 IEKFDTAIELEKE 499 (615)
T ss_pred HHHHHHHHhcCCc
Confidence 888888886 564
No 61
>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=89.05 E-value=23 Score=35.30 Aligned_cols=95 Identities=8% Similarity=0.083 Sum_probs=62.6
Q ss_pred HhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHH-HHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHH
Q 019008 110 DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQ-LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFI 188 (347)
Q Consensus 110 ~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~-l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~ 188 (347)
..+...+.+..++..+..++.+..++.. .. +..+.+ ..+..++.+.++..+++..-.-|.+.+ +.+...-|.++.
T Consensus 271 ~~l~~~g~~~~A~~~l~~~l~~~pd~~~-~~--~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~-~~ll~sLg~l~~ 346 (409)
T TIGR00540 271 EHLIDCDDHDSAQEIIFDGLKKLGDDRA-IS--LPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPK-CCINRALGQLLM 346 (409)
T ss_pred HHHHHCCChHHHHHHHHHHHhhCCCccc-ch--hHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChh-HHHHHHHHHHHH
Confidence 3445667777888889988888654432 11 222222 223456677777777765433232222 578888899999
Q ss_pred hhhcHHHHHHHHH--Hhhc-CCc
Q 019008 189 GQKRFRKALELLH--NVVT-APM 208 (347)
Q Consensus 189 ~~k~y~~A~~~l~--~ai~-~P~ 208 (347)
.+++|++|.++|+ .++. .|.
T Consensus 347 ~~~~~~~A~~~le~a~a~~~~p~ 369 (409)
T TIGR00540 347 KHGEFIEAADAFKNVAACKEQLD 369 (409)
T ss_pred HcccHHHHHHHHHHhHHhhcCCC
Confidence 9999999999999 5766 565
No 62
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=88.81 E-value=2.6 Score=35.02 Aligned_cols=94 Identities=14% Similarity=0.024 Sum_probs=66.6
Q ss_pred hHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhh
Q 019008 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (347)
Q Consensus 111 ~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~ 190 (347)
.....+.+..+|...+.|+.. ..++....-.---+-..+-.-+.++.|+.++++.+-..|.......-.++.++....+
T Consensus 10 a~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~ 88 (120)
T PF12688_consen 10 AHDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL 88 (120)
T ss_pred HHHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence 344678888899999999874 4444433333334556667788999999999988766553222233334467999999
Q ss_pred hcHHHHHHHHHHhhc
Q 019008 191 KRFRKALELLHNVVT 205 (347)
Q Consensus 191 k~y~~A~~~l~~ai~ 205 (347)
+++++|.+++..++.
T Consensus 89 gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 89 GRPKEALEWLLEALA 103 (120)
T ss_pred CCHHHHHHHHHHHHH
Confidence 999999999988874
No 63
>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=88.77 E-value=1.3 Score=39.94 Aligned_cols=71 Identities=8% Similarity=-0.042 Sum_probs=57.0
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccc
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~ 210 (347)
...+-.+.+.++..+.|+.|...+++-+-..|.+.....-+|..|.++..+++|++|...|+.++. .|.+.
T Consensus 33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~ 104 (235)
T TIGR03302 33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHP 104 (235)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCC
Confidence 556677788999999999999999886544343333445678889999999999999999999997 88653
No 64
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=88.75 E-value=1.8 Score=36.69 Aligned_cols=72 Identities=6% Similarity=-0.081 Sum_probs=56.3
Q ss_pred HHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CC
Q 019008 129 IRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (347)
Q Consensus 129 i~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P 207 (347)
.++++|+. +..+-..+...+.|+.|...+.+.+.. ..+...+++.-|.++..+++|++|.++|+.++. .|
T Consensus 19 al~~~p~~------~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p 89 (144)
T PRK15359 19 LLSVDPET------VYASGYASWQEGDYSRAVIDFSWLVMA---QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA 89 (144)
T ss_pred HHHcCHHH------HHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence 34556642 334567888999999999998886532 223578889999999999999999999999997 77
Q ss_pred cc
Q 019008 208 MS 209 (347)
Q Consensus 208 ~~ 209 (347)
..
T Consensus 90 ~~ 91 (144)
T PRK15359 90 SH 91 (144)
T ss_pred CC
Confidence 64
No 65
>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=88.56 E-value=1.1 Score=25.55 Aligned_cols=29 Identities=21% Similarity=0.369 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhc-CC
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P 207 (347)
.++-.|.++..+++|++|..+|+.++. .|
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence 467789999999999999999999996 44
No 66
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=88.46 E-value=3.7 Score=35.35 Aligned_cols=70 Identities=17% Similarity=0.048 Sum_probs=54.5
Q ss_pred hhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 139 LTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 139 lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
-...+..+...+...+.|+.|+..+.+.+-..+.+.+...-++.-|.++...+++++|..+++.++. .|.
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~ 104 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF 104 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence 3556677778888999999999999987543333334445567789999999999999999999997 444
No 67
>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=88.38 E-value=2.8 Score=36.26 Aligned_cols=92 Identities=12% Similarity=0.058 Sum_probs=67.3
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
....+....++..++.++...+.+ ...+..+...+...+.|+.|...+.+.+...+ ........+..|.++...+
T Consensus 75 ~~~~~~~~~A~~~~~~al~~~~~~----~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g 149 (234)
T TIGR02521 75 YQQLGELEKAEDSFRRALTLNPNN----GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL-YPQPARSLENAGLCALKAG 149 (234)
T ss_pred HHHcCCHHHHHHHHHHHHhhCCCC----HHHHHHHHHHHHHcccHHHHHHHHHHHHhccc-cccchHHHHHHHHHHHHcC
Confidence 334566667888888887764332 23556778889999999999999988764211 1223344566799999999
Q ss_pred cHHHHHHHHHHhhc-CCc
Q 019008 192 RFRKALELLHNVVT-APM 208 (347)
Q Consensus 192 ~y~~A~~~l~~ai~-~P~ 208 (347)
++++|..+|+.++. .|.
T Consensus 150 ~~~~A~~~~~~~~~~~~~ 167 (234)
T TIGR02521 150 DFDKAEKYLTRALQIDPQ 167 (234)
T ss_pred CHHHHHHHHHHHHHhCcC
Confidence 99999999999997 554
No 68
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=88.27 E-value=4 Score=35.13 Aligned_cols=90 Identities=10% Similarity=-0.024 Sum_probs=58.8
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCC----chhhHHHHHHHHHHHHh
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----PRDFFLYCYYGGMIFIG 189 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~----~~~~l~Y~yy~G~i~~~ 189 (347)
..+....++..++.|+.-. +++......|..+-.++...+.++.|...+.+.+..-+. .......++..|..+..
T Consensus 47 ~~g~~~~A~~~~~~al~l~-~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~ 125 (168)
T CHL00033 47 SEGEYAEALQNYYEAMRLE-IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIE 125 (168)
T ss_pred HcCCHHHHHHHHHHHHhcc-ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHH
Confidence 4455666788888877553 333333457888899999999999999999886542221 22334455555666668
Q ss_pred hhcHHHHHHHHHHhh
Q 019008 190 QKRFRKALELLHNVV 204 (347)
Q Consensus 190 ~k~y~~A~~~l~~ai 204 (347)
+++|++|...+..++
T Consensus 126 ~g~~~~A~~~~~~a~ 140 (168)
T CHL00033 126 QGDSEIAEAWFDQAA 140 (168)
T ss_pred cccHHHHHHHHHHHH
Confidence 888876655555443
No 69
>PLN03077 Protein ECB2; Provisional
Probab=88.17 E-value=5.3 Score=43.76 Aligned_cols=56 Identities=14% Similarity=0.211 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHH--HHhhhcHHHHHHHHHHhhc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMI--FIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i--~~~~k~y~~A~~~l~~ai~ 205 (347)
+.+.++..|.+.+.++.|..+++.-.. .+...| ..+| |+..+++++|.+.|+....
T Consensus 224 ~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~d~~s~---n~li~~~~~~g~~~eAl~lf~~M~~ 281 (857)
T PLN03077 224 VVNALITMYVKCGDVVSARLVFDRMPR-----RDCISW---NAMISGYFENGECLEGLELFFTMRE 281 (857)
T ss_pred hHhHHHHHHhcCCCHHHHHHHHhcCCC-----CCcchh---HHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 446788889999999999999887321 122222 3333 5577899999999998875
No 70
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=87.74 E-value=2.9 Score=44.62 Aligned_cols=92 Identities=5% Similarity=0.022 Sum_probs=62.0
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
+...+....++..++.++.. +|+. ...|..+.+.+...+.|+.|...+++-+-.- + +...++++.|.++...+
T Consensus 294 l~~~g~~~eA~~~l~~al~l-~P~~---~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P-~~~~~~~~~a~al~~~G 366 (656)
T PRK15174 294 LIRTGQNEKAIPLLQQSLAT-HPDL---PYVRAMYARALRQVGQYTAASDEFVQLAREK--G-VTSKWNRYAAAALLQAG 366 (656)
T ss_pred HHHCCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--c-cchHHHHHHHHHHHHCC
Confidence 33445555677777776654 5543 3356667778888888888888776644321 2 22345666688889999
Q ss_pred cHHHHHHHHHHhhc-CCccc
Q 019008 192 RFRKALELLHNVVT-APMSS 210 (347)
Q Consensus 192 ~y~~A~~~l~~ai~-~P~~~ 210 (347)
++++|...|+.++. .|...
T Consensus 367 ~~deA~~~l~~al~~~P~~~ 386 (656)
T PRK15174 367 KTSEAESVFEHYIQARASHL 386 (656)
T ss_pred CHHHHHHHHHHHHHhChhhc
Confidence 99999999999996 67643
No 71
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=87.31 E-value=4.6 Score=43.83 Aligned_cols=171 Identities=10% Similarity=0.052 Sum_probs=98.1
Q ss_pred HhhhcccccchHHHHHHHHhhCCCC-CchhhHHHHHHHHHHhcCCchhhhhhhcccccccC-----------Cch-hhHH
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSST-EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN-----------LPR-DFFL 178 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~-~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~-----------~~~-~~l~ 178 (347)
....++|..|+..++.++ ..+|.. ..--..+..+...++..+.++.|...+++-.-..| .++ +...
T Consensus 282 yl~~g~~e~A~~~l~~~l-~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~ 360 (765)
T PRK10049 282 YLKLHQPEKAQSILTELF-YHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQ 360 (765)
T ss_pred HHhcCCcHHHHHHHHHHh-hcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHH
Confidence 345677777888888765 345432 11123456666677899999999998775332111 123 5577
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHH-hcCCCCCCCCcccCHHHhhhhhh---cc
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLI-HHGQFSSTLPKYTSSAAQRNLKN---FS 253 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL-~~G~i~~~lp~~~s~~~~r~~k~---~~ 253 (347)
..+.-|.++...+++++|.+.|+.++. .|.+. .. + +-+..+. ..|+.. . .-....+..+. ..
T Consensus 361 a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~-~l-----~--~~lA~l~~~~g~~~-~----A~~~l~~al~l~Pd~~ 427 (765)
T PRK10049 361 GQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQ-GL-----R--IDYASVLQARGWPR-A----AENELKKAEVLEPRNI 427 (765)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH-HH-----H--HHHHHHHHhcCCHH-H----HHHHHHHHHhhCCCCh
Confidence 888899999999999999999999997 89862 11 1 1122222 234422 1 11111111111 11
Q ss_pred hhHHHHH-HHHhcCChHHHHHHHHhccccccccccccHHHHHHH
Q 019008 254 QPYMELV-NTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVS 296 (347)
Q Consensus 254 ~pY~~la-~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~ 296 (347)
.-+...+ .+...|+..+-.+.+++-.+.+.+|...--.++.+.
T Consensus 428 ~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~~~~ 471 (765)
T PRK10049 428 NLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLARARD 471 (765)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 1222333 344667777777777766666666654443333333
No 72
>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=87.25 E-value=16 Score=38.64 Aligned_cols=91 Identities=14% Similarity=0.109 Sum_probs=64.2
Q ss_pred hhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhc
Q 019008 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (347)
Q Consensus 113 ~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~ 192 (347)
...++...++..++.++....+ + ...+..+.+.+...+.|+.|...+.+... .........++..|.++...++
T Consensus 67 ~~~g~~~~A~~~~~~~~~~~~~-~---~~~~~~~a~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 140 (899)
T TIGR02917 67 LALGDYAAAEKELRKALSLGYP-K---NQVLPLLARAYLLQGKFQQVLDELPGKTL--LDDEGAAELLALRGLAYLGLGQ 140 (899)
T ss_pred HHcCCHHHHHHHHHHHHHcCCC-h---hhhHHHHHHHHHHCCCHHHHHHhhccccc--CCchhhHHHHHHHHHHHHHcCC
Confidence 3456666678888877665333 2 23456778889999999999888865321 1133456677888888888889
Q ss_pred HHHHHHHHHHhhc-CCcc
Q 019008 193 FRKALELLHNVVT-APMS 209 (347)
Q Consensus 193 y~~A~~~l~~ai~-~P~~ 209 (347)
|++|..+|+.++. .|..
T Consensus 141 ~~~A~~~~~~a~~~~~~~ 158 (899)
T TIGR02917 141 LELAQKSYEQALAIDPRS 158 (899)
T ss_pred HHHHHHHHHHHHhcCCCC
Confidence 9999999988886 6653
No 73
>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=86.99 E-value=12 Score=38.94 Aligned_cols=63 Identities=11% Similarity=0.026 Sum_probs=55.0
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCC
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAP 207 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P 207 (347)
++-.+.+.+-..++|+.|+.++++.|-+-| ....+|+.-|+|+-..|++.+|.++++.|-..-
T Consensus 196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htP---t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD 258 (517)
T PF12569_consen 196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTP---TLVELYMTKARILKHAGDLKEAAEAMDEARELD 258 (517)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCC---CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence 556678889999999999999999887644 357899999999999999999999999999743
No 74
>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=86.75 E-value=1.5 Score=34.52 Aligned_cols=65 Identities=18% Similarity=0.175 Sum_probs=48.2
Q ss_pred HHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 145 EFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 145 ~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.+....+..+.|+.|...+.+-+-.-|.......-.|.-|.++...++|++|...|+.++. .|.+
T Consensus 7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~ 72 (119)
T TIGR02795 7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS 72 (119)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC
Confidence 3456678889999999998876543232222234467789999999999999999999997 7764
No 75
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=86.74 E-value=1.9 Score=37.37 Aligned_cols=68 Identities=21% Similarity=0.191 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.+..+...+...+.|+.|...+.+.+---+.+.+...+++.-|.++...++|++|..+++.++. .|..
T Consensus 37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~ 105 (172)
T PRK02603 37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQ 105 (172)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc
Confidence 4456667888899999999999876532222334567888999999999999999999999998 6754
No 76
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=86.51 E-value=2.8 Score=29.77 Aligned_cols=32 Identities=16% Similarity=0.173 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.|.||.+.-+..+++|++|..+.+.++. -|.+
T Consensus 2 d~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N 34 (53)
T PF14853_consen 2 DCLYYLAIGHYKLGEYEKARRYCDALLEIEPDN 34 (53)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-
T ss_pred hhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCc
Confidence 4789999999999999999999999997 8875
No 77
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=86.47 E-value=1.7 Score=41.06 Aligned_cols=76 Identities=14% Similarity=0.057 Sum_probs=56.3
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHH
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILV 225 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv 225 (347)
+.+.+..+.|+.|...+.+-+-..|.+...-.-+|+.|.+|...++|++|...|+.++. .|.+ ...-+|+-|...+
T Consensus 150 ~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s---~~~~dAl~klg~~ 226 (263)
T PRK10803 150 IALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKS---PKAADAMFKVGVI 226 (263)
T ss_pred HHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC---cchhHHHHHHHHH
Confidence 34445678999999998886665565444445678999999999999999999999997 8874 3334555554443
No 78
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=86.44 E-value=0.82 Score=42.78 Aligned_cols=90 Identities=18% Similarity=0.059 Sum_probs=46.1
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+.|..++..+..+..+. +++..+ ...+..+...+.++.+..++++-. ..+...+-..|++..|.++...|++
T Consensus 89 ~~~~~~~A~~~~~~~~~~~-~~~~~l----~~~l~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~a~~~~~~G~~ 162 (280)
T PF13429_consen 89 QDGDPEEALKLAEKAYERD-GDPRYL----LSALQLYYRLGDYDEAEELLEKLE-ELPAAPDSARFWLALAEIYEQLGDP 162 (280)
T ss_dssp ----------------------------------H-HHHTT-HHHHHHHHHHHH-H-T---T-HHHHHHHHHHHHHCCHH
T ss_pred ccccccccccccccccccc-cccchh----hHHHHHHHHHhHHHHHHHHHHHHH-hccCCCCCHHHHHHHHHHHHHcCCH
Confidence 4566777888877777664 444433 346678899999999999998833 2222345678889999999999999
Q ss_pred HHHHHHHHHhhc-CCcc
Q 019008 194 RKALELLHNVVT-APMS 209 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~ 209 (347)
++|.++|+.++. .|.+
T Consensus 163 ~~A~~~~~~al~~~P~~ 179 (280)
T PF13429_consen 163 DKALRDYRKALELDPDD 179 (280)
T ss_dssp HHHHHHHHHHHHH-TT-
T ss_pred HHHHHHHHHHHHcCCCC
Confidence 999999999997 8974
No 79
>PRK11189 lipoprotein NlpI; Provisional
Probab=86.42 E-value=3.6 Score=39.16 Aligned_cols=89 Identities=10% Similarity=0.042 Sum_probs=68.1
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+....++..+..|+.. +|+. ...|..+-..+...+.|+.|...+++.+- +++ +....++..|.++...++|
T Consensus 76 ~~g~~~~A~~~~~~Al~l-~P~~---~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-l~P--~~~~a~~~lg~~l~~~g~~ 148 (296)
T PRK11189 76 SLGLRALARNDFSQALAL-RPDM---ADAYNYLGIYLTQAGNFDAAYEAFDSVLE-LDP--TYNYAYLNRGIALYYGGRY 148 (296)
T ss_pred HCCCHHHHHHHHHHHHHc-CCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hCC--CCHHHHHHHHHHHHHCCCH
Confidence 345555677778777765 5543 45778888999999999999999988763 332 2344567789999999999
Q ss_pred HHHHHHHHHhhc-CCcc
Q 019008 194 RKALELLHNVVT-APMS 209 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~ 209 (347)
++|.+.|+.++. .|..
T Consensus 149 ~eA~~~~~~al~~~P~~ 165 (296)
T PRK11189 149 ELAQDDLLAFYQDDPND 165 (296)
T ss_pred HHHHHHHHHHHHhCCCC
Confidence 999999999997 7865
No 80
>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=85.32 E-value=2.6 Score=28.58 Aligned_cols=42 Identities=7% Similarity=0.128 Sum_probs=32.1
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+.|...-.-=-.+|..+||++++++ ..-+-.++.+|+++|.+
T Consensus 6 ~~Il~~l~~~~~~t~~ela~~~~is-~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 6 RKILNYLRENPRITQKELAEKLGIS-RSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHCTTS-HHHHHHHHTS--HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHcCCCCHHHHHHHhCCC-HHHHHHHHHHHHHCcCc
Confidence 3444444445679999999999998 78899999999999975
No 81
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=85.27 E-value=5.8 Score=43.11 Aligned_cols=94 Identities=9% Similarity=-0.039 Sum_probs=73.3
Q ss_pred HhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHh
Q 019008 110 DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIG 189 (347)
Q Consensus 110 ~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~ 189 (347)
..+...+....|+..++.++.. .|.. ..++..+..++...+.++.|+..+++.+-.-| +...+.|..|++++.
T Consensus 367 ~~l~~~g~~~eA~~~l~~al~~-~P~n---~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P---d~~~l~~~~a~~al~ 439 (765)
T PRK10049 367 QVAKYSNDLPQAEMRARELAYN-APGN---QGLRIDYASVLQARGWPRAAENELKKAEVLEP---RNINLEVEQAWTALD 439 (765)
T ss_pred HHHHHcCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC---CChHHHHHHHHHHHH
Confidence 3444556666788888888655 4433 45778899999999999999999998665323 345588899999999
Q ss_pred hhcHHHHHHHHHHhhc-CCccc
Q 019008 190 QKRFRKALELLHNVVT-APMSS 210 (347)
Q Consensus 190 ~k~y~~A~~~l~~ai~-~P~~~ 210 (347)
+++|++|...++.++. .|.+.
T Consensus 440 ~~~~~~A~~~~~~ll~~~Pd~~ 461 (765)
T PRK10049 440 LQEWRQMDVLTDDVVAREPQDP 461 (765)
T ss_pred hCCHHHHHHHHHHHHHhCCCCH
Confidence 9999999999999996 88754
No 82
>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=84.95 E-value=1.6 Score=32.37 Aligned_cols=32 Identities=13% Similarity=0.112 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcC
Q 019008 175 DFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (347)
Q Consensus 175 ~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~ 206 (347)
+.+..+..-|.+|-.+++|++|.++|+.|+..
T Consensus 3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~ 34 (78)
T PF13424_consen 3 DTANAYNNLARVYRELGRYDEALDYYEKALDI 34 (78)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 56778899999999999999999999999965
No 83
>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=84.83 E-value=6.8 Score=41.20 Aligned_cols=89 Identities=10% Similarity=0.011 Sum_probs=67.5
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+.+..++..+..|+.. +|. ....+..+...+...+.|+.|...+++.+-. + + +....+|..|.++..+++|
T Consensus 343 ~~g~~~eA~~~~~kal~l-~P~---~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~-p-~~~~~~~~lg~~~~~~g~~ 415 (615)
T TIGR00990 343 LKGKHLEALADLSKSIEL-DPR---VTQSYIKRASMNLELGDPDKAEEDFDKALKL-N-S-EDPDIYYHRAQLHFIKGEF 415 (615)
T ss_pred HcCCHHHHHHHHHHHHHc-CCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-C-CCHHHHHHHHHHHHHcCCH
Confidence 456666678888887655 553 2446677788888999999999999886432 2 1 2345678889999999999
Q ss_pred HHHHHHHHHhhc-CCcc
Q 019008 194 RKALELLHNVVT-APMS 209 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~ 209 (347)
++|..+|+.++. .|.+
T Consensus 416 ~~A~~~~~kal~l~P~~ 432 (615)
T TIGR00990 416 AQAGKDYQKSIDLDPDF 432 (615)
T ss_pred HHHHHHHHHHHHcCccC
Confidence 999999999997 7764
No 84
>PRK14574 hmsH outer membrane protein; Provisional
Probab=84.80 E-value=17 Score=39.97 Aligned_cols=157 Identities=11% Similarity=0.025 Sum_probs=99.7
Q ss_pred hhcccccchHHHHHHHHhhCCC---CCchhhHHHHHHHHHHhcCCchhhhhhhcccccccC------------CchhhHH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSS---TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN------------LPRDFFL 178 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~---~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~------------~~~~~l~ 178 (347)
..++|.+|...+++++..-.+. +..+. .+..|.-.++.+..|+.|..++++-.-..| ++.++.+
T Consensus 339 ~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~-~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~ 417 (822)
T PRK14574 339 DRRLPEKAAPILSSLYYSDGKTFRNSDDLL-DADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIE 417 (822)
T ss_pred hcCCcHHHHHHHHHHhhccccccCCCcchH-HHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHH
Confidence 4677888888888776543211 11121 146788999999999999999987543222 2668899
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh------
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN------ 251 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~------ 251 (347)
+....+++++..++..+|.+.++.... +|.+. .+++ .+..+...- ..|. .....+|.
T Consensus 418 ~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~--~l~~------~~A~v~~~R----g~p~----~A~~~~k~a~~l~P 481 (822)
T PRK14574 418 GQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQ--NLRI------ALASIYLAR----DLPR----KAEQELKAVESLAP 481 (822)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH--HHHH------HHHHHHHhc----CCHH----HHHHHHHHHhhhCC
Confidence 999999999999999999999999996 99862 1111 111111111 1111 00011111
Q ss_pred -cchhHHHHHHHH-hcCChHHHHHHHHhcccccccccc
Q 019008 252 -FSQPYMELVNTY-NTGKIVELETYVQTNREKFESDNN 287 (347)
Q Consensus 252 -~~~pY~~la~a~-~~g~~~~~~~~~~~~~~~f~~D~n 287 (347)
....+...+.+. ..|+..+.++.+++-.+.+.+|..
T Consensus 482 ~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~ 519 (822)
T PRK14574 482 RSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIP 519 (822)
T ss_pred ccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchh
Confidence 112333333333 447777777888888999999973
No 85
>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=84.74 E-value=11 Score=33.38 Aligned_cols=124 Identities=14% Similarity=0.141 Sum_probs=81.8
Q ss_pred hhhHHHHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcC
Q 019008 75 ANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAK 154 (347)
Q Consensus 75 ~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~ 154 (347)
.+.+=..+.+.-++..-+.+|-+ +..+++.+.+. +.-..|+..+.. ++.+..++++.-.+...++|.++..+
T Consensus 16 ~~~Le~elk~~~~n~~kesir~~---~~~l~~~~~~~----Gd~~~A~k~y~~-~~~~~~~~~~~id~~l~~irv~i~~~ 87 (177)
T PF10602_consen 16 LEKLEAELKDAKSNLGKESIRMA---LEDLADHYCKI----GDLEEALKAYSR-ARDYCTSPGHKIDMCLNVIRVAIFFG 87 (177)
T ss_pred HHHHHHHHHHHHhccchHHHHHH---HHHHHHHHHHh----hhHHHHHHHHHH-HhhhcCCHHHHHHHHHHHHHHHHHhC
Confidence 34444555555566666667633 33333333332 222235555554 34445556666667788999999999
Q ss_pred CchhhhhhhcccccccCC---chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcC
Q 019008 155 CYKAGLSVLEDDIYEINL---PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (347)
Q Consensus 155 ~y~~Al~~l~~~i~~i~~---~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~ 206 (347)
+++.+...+++.--.+.. ..---+..-|.|+.++.+++|.+|-..|-.+.+.
T Consensus 88 d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t 142 (177)
T PF10602_consen 88 DWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLST 142 (177)
T ss_pred CHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcC
Confidence 999999999885333322 2233467889999999999999999999888863
No 86
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=84.50 E-value=9.4 Score=32.99 Aligned_cols=92 Identities=10% Similarity=-0.036 Sum_probs=61.0
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhc-
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR- 192 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~- 192 (347)
..+....|+..++.|+... |++......+..+...+...+.|+.|...+.+.+-.-|. ....++..|.++..+++
T Consensus 47 ~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~lg~~~~~~g~~ 122 (172)
T PRK02603 47 ADGEYAEALENYEEALKLE-EDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK---QPSALNNIAVIYHKRGEK 122 (172)
T ss_pred HcCCHHHHHHHHHHHHHHh-hccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc---cHHHHHHHHHHHHHcCCh
Confidence 3455556788888877653 332223457788889999999999999999886643221 23444455777766655
Q ss_pred -------------HHHHHHHHHHhhc-CCcc
Q 019008 193 -------------FRKALELLHNVVT-APMS 209 (347)
Q Consensus 193 -------------y~~A~~~l~~ai~-~P~~ 209 (347)
|++|.++++.++. .|.+
T Consensus 123 ~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~ 153 (172)
T PRK02603 123 AEEAGDQDEAEALFDKAAEYWKQAIRLAPNN 153 (172)
T ss_pred HhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence 5667777777775 6654
No 87
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=84.10 E-value=16 Score=38.91 Aligned_cols=59 Identities=10% Similarity=-0.043 Sum_probs=24.7
Q ss_pred HHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhh
Q 019008 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (347)
Q Consensus 143 H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai 204 (347)
|..+...+...+.++.|...+++.+---| +....++..|.++..++++++|...++.++
T Consensus 113 ~~~la~~l~~~g~~~~Ai~~l~~Al~l~P---~~~~a~~~la~~l~~~g~~~eA~~~~~~~~ 171 (656)
T PRK15174 113 VLLVASVLLKSKQYATVADLAEQAWLAFS---GNSQIFALHLRTLVLMDKELQAISLARTQA 171 (656)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence 33444444444444444444444322101 122333334444444444444444444443
No 88
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=84.02 E-value=7.5 Score=41.90 Aligned_cols=131 Identities=10% Similarity=0.034 Sum_probs=85.1
Q ss_pred chhhhhhHHHHHHHHHhcCChhhhhchh-HHHHHHHHHHH----------HhHhhhcccccchHHHHHHHHhhCCCCCch
Q 019008 71 TKERANTLVPIIARFITSCSAEQIRYVP-EKFINVCKRYK----------DQVLLLEAPIRGVGPMLTAIRKIQSSTEHL 139 (347)
Q Consensus 71 ~~~~~~~~~~~~~~fl~~~~~~Qlr~~~-~~~~~l~~~~~----------~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~l 139 (347)
+++.+.++..+...-++..-..|+-.+. .+...+++.+. ....+.+...-+...+++ ++.++|+.
T Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~-~~~~~Pd~--- 119 (694)
T PRK15179 44 SEEAGRELLQQARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRG-IHQRFPDS--- 119 (694)
T ss_pred chhHHHHHHHHHHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHH-HHhhCCCc---
Confidence 3345567888888888877777764222 22333333222 222334434334454444 44456643
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
...+..+.+.+.+-+.++.|+...++-.-. ..+....++--|+....+++|++|.+.|+.++. .|.
T Consensus 120 ~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~ 186 (694)
T PRK15179 120 SEAFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPE 186 (694)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCC
Confidence 456778888888888899888887775432 335678888899999999999999999999996 443
No 89
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=83.91 E-value=1.7 Score=28.99 Aligned_cols=30 Identities=13% Similarity=0.049 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 180 ~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
++.-|..|..++++++|..+|+.++. .|.+
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~ 34 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDD 34 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 35568999999999999999999997 9976
No 90
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=83.75 E-value=38 Score=33.60 Aligned_cols=89 Identities=10% Similarity=0.034 Sum_probs=63.9
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
+...+++..+...+..|.. .+|+.. +. ......+.++..++|+.|+..+++-.-.-|.+ .......+.+|+..+
T Consensus 128 A~~~g~~~~A~~~l~~A~~-~~~~~~-~~-~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~---~~al~ll~~~~~~~g 201 (398)
T PRK10747 128 AQQRGDEARANQHLERAAE-LADNDQ-LP-VEITRVRIQLARNENHAARHGVDKLLEVAPRH---PEVLRLAEQAYIRTG 201 (398)
T ss_pred HHHCCCHHHHHHHHHHHHh-cCCcch-HH-HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHHH
Confidence 3567777778888888864 455432 22 22234789999999999999998854333322 345566689999999
Q ss_pred cHHHHHHHHHHhhcC
Q 019008 192 RFRKALELLHNVVTA 206 (347)
Q Consensus 192 ~y~~A~~~l~~ai~~ 206 (347)
+|++|.+.+......
T Consensus 202 dw~~a~~~l~~l~k~ 216 (398)
T PRK10747 202 AWSSLLDILPSMAKA 216 (398)
T ss_pred hHHHHHHHHHHHHHc
Confidence 999999998888863
No 91
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=83.72 E-value=4.5 Score=45.34 Aligned_cols=89 Identities=7% Similarity=-0.087 Sum_probs=51.4
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
+.+.+..++..++.|+.. +|+. ...|..+-..+...+.++.|+..+.+.+-.-| +....++..|+++..++++
T Consensus 621 ~lG~~deA~~~l~~AL~l-~Pd~---~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P---~~~~a~~nLA~al~~lGd~ 693 (987)
T PRK09782 621 QRHNVPAAVSDLRAALEL-EPNN---SNYQAALGYALWDSGDIAQSREMLERAHKGLP---DDPALIRQLAYVNQRLDDM 693 (987)
T ss_pred HCCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCCH
Confidence 344444455555554443 3332 13445555555555666666666555433211 3356677778888888888
Q ss_pred HHHHHHHHHhhc-CCcc
Q 019008 194 RKALELLHNVVT-APMS 209 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~~ 209 (347)
++|..+|+.++. .|..
T Consensus 694 ~eA~~~l~~Al~l~P~~ 710 (987)
T PRK09782 694 AATQHYARLVIDDIDNQ 710 (987)
T ss_pred HHHHHHHHHHHhcCCCC
Confidence 888888888875 6654
No 92
>PRK11189 lipoprotein NlpI; Provisional
Probab=82.74 E-value=5 Score=38.19 Aligned_cols=85 Identities=15% Similarity=0.079 Sum_probs=61.7
Q ss_pred hHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHH
Q 019008 122 VGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLH 201 (347)
Q Consensus 122 i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~ 201 (347)
|.-+..++.+.+.++......|...-..+...+.++.|...+++.+-.-| +....++..|.++..+++|++|.+.|+
T Consensus 46 i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P---~~~~a~~~lg~~~~~~g~~~~A~~~~~ 122 (296)
T PRK11189 46 LARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP---DMADAYNYLGIYLTQAGNFDAAYEAFD 122 (296)
T ss_pred HHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC---CCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence 34444445443333344455677777788889999999988877654222 235677889999999999999999999
Q ss_pred Hhhc-CCcc
Q 019008 202 NVVT-APMS 209 (347)
Q Consensus 202 ~ai~-~P~~ 209 (347)
.++. .|..
T Consensus 123 ~Al~l~P~~ 131 (296)
T PRK11189 123 SVLELDPTY 131 (296)
T ss_pred HHHHhCCCC
Confidence 9998 7764
No 93
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=82.40 E-value=1.4 Score=33.42 Aligned_cols=49 Identities=18% Similarity=0.219 Sum_probs=38.8
Q ss_pred cCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHH
Q 019008 153 AKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHN 202 (347)
Q Consensus 153 ~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ 202 (347)
.+.|+.|+.++++-+-..|... .-.|.|.-|.++...++|++|.++++.
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred CccHHHHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 4789999999988665434222 556888899999999999999999998
No 94
>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=82.28 E-value=2.3 Score=30.60 Aligned_cols=33 Identities=21% Similarity=0.380 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
...++.-|.++..+++|++|..+|+.++. .|.+
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~ 36 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNN 36 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Confidence 45678899999999999999999999997 7764
No 95
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=82.25 E-value=9.8 Score=32.70 Aligned_cols=95 Identities=12% Similarity=0.063 Sum_probs=68.0
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhc-
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR- 192 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~- 192 (347)
+.++-..|+..+...-.|++.+ ..-...-..+...+...+.|+.|...+++=|---|.+..+--=+|..|+++..+.+
T Consensus 22 ~~~~Y~~A~~~le~L~~ryP~g-~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~ 100 (142)
T PF13512_consen 22 QKGNYEEAIKQLEALDTRYPFG-EYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEG 100 (142)
T ss_pred HhCCHHHHHHHHHHHHhcCCCC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhh
Confidence 3444555777777777777654 33344556788999999999999998887443223222222236778999999988
Q ss_pred --------------HHHHHHHHHHhhc-CCcc
Q 019008 193 --------------FRKALELLHNVVT-APMS 209 (347)
Q Consensus 193 --------------y~~A~~~l~~ai~-~P~~ 209 (347)
-.+|+.-|+..|+ .|.+
T Consensus 101 ~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S 132 (142)
T PF13512_consen 101 SLQSFFRSDRDPTPARQAFRDFEQLVRRYPNS 132 (142)
T ss_pred HHhhhcccccCcHHHHHHHHHHHHHHHHCcCC
Confidence 8999999999997 9974
No 96
>PLN03077 Protein ECB2; Provisional
Probab=82.17 E-value=50 Score=36.17 Aligned_cols=119 Identities=14% Similarity=0.187 Sum_probs=63.4
Q ss_pred HHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc---CCccchhHHHHHHHH
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT---APMSSINAIAVEAYK 220 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~---~P~~~~s~i~vea~K 220 (347)
+.++..|.+.+.++.|..+++.. ..+...|.-. ...|+..+++++|.+.|+.... .|....-...+.++-
T Consensus 528 naLi~~y~k~G~~~~A~~~f~~~------~~d~~s~n~l-I~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~ 600 (857)
T PLN03077 528 NALLDLYVRCGRMNYAWNQFNSH------EKDVVSWNIL-LTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600 (857)
T ss_pred hHHHHHHHHcCCHHHHHHHHHhc------CCChhhHHHH-HHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence 35667777777888887777664 1122222221 2246678899999999998775 454322222333332
Q ss_pred HHHHHHHHhcCCCCCCCCcccCHHH-hhhhhhcchhHHHHHHHH-hcCChHHHHHHHHhc
Q 019008 221 KYILVSLIHHGQFSSTLPKYTSSAA-QRNLKNFSQPYMELVNTY-NTGKIVELETYVQTN 278 (347)
Q Consensus 221 k~iLv~LL~~G~i~~~lp~~~s~~~-~r~~k~~~~pY~~la~a~-~~g~~~~~~~~~~~~ 278 (347)
+ .|.+. .-=++-.... ....++...-|.-+++++ +.|++++-.+.+++-
T Consensus 601 ~--------~g~v~-ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m 651 (857)
T PLN03077 601 R--------SGMVT-QGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651 (857)
T ss_pred h--------cChHH-HHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence 2 12211 0000000000 001112235688888888 568888888887764
No 97
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=81.82 E-value=20 Score=29.95 Aligned_cols=60 Identities=17% Similarity=0.121 Sum_probs=45.4
Q ss_pred HHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHH
Q 019008 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHN 202 (347)
Q Consensus 143 H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ 202 (347)
.-.+.+.+...+.|+.|...+..-+-.-+.+.-.-.-.+..|.+++.+++|++|...|+.
T Consensus 51 ~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 51 ALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 344669999999999999999886654332222223355678999999999999999977
No 98
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=81.65 E-value=10 Score=35.78 Aligned_cols=132 Identities=8% Similarity=-0.015 Sum_probs=85.9
Q ss_pred hhhhHHHHHHHHH-hcCChhhhhchhHHHHHHHHHHHHhHhhh-cccccchHHHHHHHHhhCCCCCc--hhhHHHHHHHH
Q 019008 74 RANTLVPIIARFI-TSCSAEQIRYVPEKFINVCKRYKDQVLLL-EAPIRGVGPMLTAIRKIQSSTEH--LTTLHPEFLQL 149 (347)
Q Consensus 74 ~~~~~~~~~~~fl-~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~-~~~~~~i~~L~~Ai~r~~~~~~~--lT~~H~~ll~l 149 (347)
++.+.+.+..+.. ..-++.+. +..... +++..... +.+-.++...+.|+.-+..++.. ......-+..+
T Consensus 92 ~Ai~~~~~A~~~y~~~G~~~~a---A~~~~~----lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l 164 (282)
T PF14938_consen 92 EAIECYEKAIEIYREAGRFSQA---AKCLKE----LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADL 164 (282)
T ss_dssp HHHHHHHHHHHHHHHCT-HHHH---HHHHHH----HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCcHHHH---HHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHH
Confidence 4445555555543 33333332 333333 33334444 67888999999999998866532 24444557789
Q ss_pred HHhcCCchhhhhhhccccccc-C--Cch-hhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchh
Q 019008 150 CLLAKCYKAGLSVLEDDIYEI-N--LPR-DFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSIN 212 (347)
Q Consensus 150 ~l~~~~y~~Al~~l~~~i~~i-~--~~~-~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s 212 (347)
+...+.|+.|..++++-+... . ..+ ..-.|+.-.+++++..+|+-.|...|+.... .|+-.-|
T Consensus 165 ~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s 232 (282)
T PF14938_consen 165 YARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASS 232 (282)
T ss_dssp HHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTS
T ss_pred HHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCc
Confidence 999999999999998865432 1 112 3557888999999999999999999999986 6864333
No 99
>PRK15331 chaperone protein SicA; Provisional
Probab=81.11 E-value=2.8 Score=36.96 Aligned_cols=62 Identities=13% Similarity=0.090 Sum_probs=45.9
Q ss_pred HHHHHHHHhcCCchhhhhhhccccc-ccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCcc
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIY-EINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMS 209 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~-~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~ 209 (347)
--|.-.|-..+.|+.|+....-... ..+.| +-+||.|-.|..+++-+.|..+|+.|+.-|..
T Consensus 75 ~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp----~p~f~agqC~l~l~~~~~A~~~f~~a~~~~~~ 137 (165)
T PRK15331 75 MGLAAVCQLKKQFQKACDLYAVAFTLLKNDY----RPVFFTGQCQLLMRKAAKARQCFELVNERTED 137 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcccCCC----CccchHHHHHHHhCCHHHHHHHHHHHHhCcch
Confidence 3445566677888888877765432 12212 22799999999999999999999999998874
No 100
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=80.96 E-value=16 Score=32.75 Aligned_cols=108 Identities=17% Similarity=0.075 Sum_probs=71.3
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh--
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK-- 191 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k-- 191 (347)
+.++...|+..+...+.++..+ .......-.+...+...+.|+.|...++.=+-..|.+...-.=+|..|+.+..+.
T Consensus 17 ~~g~y~~Ai~~f~~l~~~~P~s-~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~ 95 (203)
T PF13525_consen 17 QQGDYEEAIKLFEKLIDRYPNS-PYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPG 95 (203)
T ss_dssp HCT-HHHHHHHHHHHHHH-TTS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHH
T ss_pred HCCCHHHHHHHHHHHHHHCCCC-hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCcc
Confidence 4566677888888888886654 3445555677899999999999999998876666654444444677888766543
Q ss_pred ---------cHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHH
Q 019008 192 ---------RFRKALELLHNVVT-APMSSINAIAVEAYKKYILV 225 (347)
Q Consensus 192 ---------~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv 225 (347)
...+|...|+..+. .|.+ ...-+|-++..-+
T Consensus 96 ~~~~~~D~~~~~~A~~~~~~li~~yP~S---~y~~~A~~~l~~l 136 (203)
T PF13525_consen 96 ILRSDRDQTSTRKAIEEFEELIKRYPNS---EYAEEAKKRLAEL 136 (203)
T ss_dssp HH-TT---HHHHHHHHHHHHHHHH-TTS---TTHHHHHHHHHHH
T ss_pred chhcccChHHHHHHHHHHHHHHHHCcCc---hHHHHHHHHHHHH
Confidence 34588888998886 8874 3445555555433
No 101
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=80.42 E-value=4.3 Score=30.06 Aligned_cols=43 Identities=12% Similarity=0.050 Sum_probs=33.5
Q ss_pred HHHHHHHhhhhc--ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 301 RNIQRLTQTYLT--LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 301 ~~I~~L~~~Ys~--IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..|..+-+.--. ++..|||+.+|++ ...+..++.+|.++|.+.
T Consensus 9 ~~IL~~L~~~g~~~~ta~eLa~~lgl~-~~~v~r~L~~L~~~G~V~ 53 (68)
T smart00550 9 EKILEFLENSGDETSTALQLAKNLGLP-KKEVNRVLYSLEKKGKVC 53 (68)
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 344444444444 9999999999999 468999999999999864
No 102
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=80.21 E-value=5.4 Score=39.79 Aligned_cols=70 Identities=13% Similarity=0.156 Sum_probs=57.3
Q ss_pred CchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 137 ~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
....+.|..+.-++++-+.|+.|+.--++... .++++ .-=+|=.|++++.+++|+.|...|+.|+. .|.+
T Consensus 254 ~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe-~~~~N--~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~N 324 (397)
T KOG0543|consen 254 ALKLACHLNLAACYLKLKEYKEAIESCNKVLE-LDPNN--VKALYRRGQALLALGEYDLARDDFQKALKLEPSN 324 (397)
T ss_pred HHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHh-cCCCc--hhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCc
Confidence 44578899999999999999999987777543 23333 33456799999999999999999999998 9987
No 103
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.18 E-value=14 Score=33.87 Aligned_cols=39 Identities=15% Similarity=0.071 Sum_probs=33.9
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccch
Q 019008 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSI 211 (347)
Q Consensus 173 ~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~~ 211 (347)
.-+-....|..|-+....|++++|..||..++..|..+.
T Consensus 161 ~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~ 199 (214)
T PF09986_consen 161 GMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASK 199 (214)
T ss_pred CchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence 345577889999999999999999999999999997544
No 104
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=79.10 E-value=15 Score=36.67 Aligned_cols=79 Identities=15% Similarity=0.013 Sum_probs=52.1
Q ss_pred cchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHH
Q 019008 120 RGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALEL 199 (347)
Q Consensus 120 ~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~ 199 (347)
-|.+.+..++.+.-. +. .+-+--|+.-+.+.+=.+.+++-+...|... .-+++.|+.+...+.|.+|.++
T Consensus 281 ~A~~~i~~~Lk~~~D-~~------L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p---~L~~tLG~L~~k~~~w~kA~~~ 350 (400)
T COG3071 281 EAQEIIEDALKRQWD-PR------LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP---LLLSTLGRLALKNKLWGKASEA 350 (400)
T ss_pred HHHHHHHHHHHhccC-hh------HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh---hHHHHHHHHHHHhhHHHHHHHH
Confidence 355556666555321 11 2223356666777776777766554333211 5678899999999999999999
Q ss_pred HHHhhc-CCc
Q 019008 200 LHNVVT-APM 208 (347)
Q Consensus 200 l~~ai~-~P~ 208 (347)
|+.++. -|+
T Consensus 351 leaAl~~~~s 360 (400)
T COG3071 351 LEAALKLRPS 360 (400)
T ss_pred HHHHHhcCCC
Confidence 999997 664
No 105
>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=78.29 E-value=4 Score=36.30 Aligned_cols=62 Identities=16% Similarity=0.284 Sum_probs=44.4
Q ss_pred HHHHHHhcCChHHHHHHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhc-ccHHHHHHHcC
Q 019008 258 ELVNTYNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLT-LSLQDIANTVQ 323 (347)
Q Consensus 258 ~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~-IsL~dIa~~l~ 323 (347)
++..|+..||...|-+.+++.. .+.-. -++......++.+.++.++++|.. ++++.+++-++
T Consensus 140 ~l~~a~~~gny~~ff~l~~~~~----~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~ 203 (204)
T PF03399_consen 140 ELCRALMEGNYVRFFRLYRSKS----APYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLG 203 (204)
T ss_dssp HHHHHH--TTHHHHHHHHT-TT----S-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT
T ss_pred HHHHHHHcCCHHHHHHHHhccC----CChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcC
Confidence 4558899999999888873321 11112 455558889999999999999999 99999998876
No 106
>PRK12370 invasion protein regulator; Provisional
Probab=77.69 E-value=13 Score=38.68 Aligned_cols=85 Identities=9% Similarity=-0.077 Sum_probs=60.7
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++...|+..++.|+.. +|+. ...|..+...+...+.++.|...+++.+---|. + ..++++.+.++...++|
T Consensus 350 ~~g~~~~A~~~~~~Al~l-~P~~---~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~-~~~~~~~~~~~~~~g~~ 422 (553)
T PRK12370 350 IHSEYIVGSLLFKQANLL-SPIS---ADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--R-AAAGITKLWITYYHTGI 422 (553)
T ss_pred HccCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--C-hhhHHHHHHHHHhccCH
Confidence 345566688888887654 6654 346788889999999999999999986542221 1 12233344456668899
Q ss_pred HHHHHHHHHhhc
Q 019008 194 RKALELLHNVVT 205 (347)
Q Consensus 194 ~~A~~~l~~ai~ 205 (347)
++|..+++.++.
T Consensus 423 eeA~~~~~~~l~ 434 (553)
T PRK12370 423 DDAIRLGDELRS 434 (553)
T ss_pred HHHHHHHHHHHH
Confidence 999999999986
No 107
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=77.64 E-value=4.3 Score=25.72 Aligned_cols=28 Identities=25% Similarity=0.261 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
.-+.--|.+|..+++|++|..+++.++.
T Consensus 3 ~~~~~la~~~~~~g~~~~A~~~~~~al~ 30 (42)
T PF13374_consen 3 SALNNLANAYRAQGRYEEALELLEEALE 30 (42)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence 3445678999999999999999999985
No 108
>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=77.40 E-value=39 Score=32.19 Aligned_cols=63 Identities=11% Similarity=-0.054 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CC
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P 207 (347)
.+..+...+...+.++.|...+.+.+---| .+ ...++.-|.++..+++|++|..+++.++. .|
T Consensus 116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~p--~~-~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~ 179 (355)
T cd05804 116 LLGMLAFGLEEAGQYDRAEEAARRALELNP--DD-AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWD 179 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--CC-cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccC
Confidence 334445566677777777777766543212 11 23344457777777777777777777775 44
No 109
>PRK14574 hmsH outer membrane protein; Provisional
Probab=77.01 E-value=4.7 Score=44.28 Aligned_cols=90 Identities=9% Similarity=-0.079 Sum_probs=51.6
Q ss_pred HhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHH--HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHH
Q 019008 110 DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEF--LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (347)
Q Consensus 110 ~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~l--l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~ 187 (347)
..+...++...++..+..++ +|++ .+.+..+ .+.+...+.|+.|.+++.+-+-.-|.+.+.+ +..++++
T Consensus 76 ~l~~~~G~~~~A~~~~eka~---~p~n---~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l---~gLa~~y 146 (822)
T PRK14574 76 QIAGWAGRDQEVIDVYERYQ---SSMN---ISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLI---SGMIMTQ 146 (822)
T ss_pred HHHHHcCCcHHHHHHHHHhc---cCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHH---HHHHHHH
Confidence 33344555556666666666 4332 1122333 5567777777777777777654333332222 2336777
Q ss_pred HhhhcHHHHHHHHHHhhc-CCc
Q 019008 188 IGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
...+++++|++.++.++. -|.
T Consensus 147 ~~~~q~~eAl~~l~~l~~~dp~ 168 (822)
T PRK14574 147 ADAGRGGVVLKQATELAERDPT 168 (822)
T ss_pred hhcCCHHHHHHHHHHhcccCcc
Confidence 777777777777777775 554
No 110
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=76.97 E-value=23 Score=32.91 Aligned_cols=109 Identities=8% Similarity=0.031 Sum_probs=73.5
Q ss_pred cccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhh-----
Q 019008 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ----- 190 (347)
Q Consensus 116 ~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~----- 190 (347)
++-..++..+...+.++. .+.......-.+...+...+.|+.|...+++-+-..|.+...-.=+|-.|+++..+
T Consensus 46 g~y~~Ai~~f~~l~~~yP-~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~ 124 (243)
T PRK10866 46 GNWKQAITQLEALDNRYP-FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSAL 124 (243)
T ss_pred CCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhh
Confidence 444457777777766644 44444445567889999999999999999887665554434433366677765333
Q ss_pred ----------hcH---HHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHH
Q 019008 191 ----------KRF---RKALELLHNVVT-APMSSINAIAVEAYKKYILVSLI 228 (347)
Q Consensus 191 ----------k~y---~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL 228 (347)
++. .+|+..|+..|. .|. |...-+|-++...+.-.
T Consensus 125 ~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~---S~ya~~A~~rl~~l~~~ 173 (243)
T PRK10866 125 QGFFGVDRSDRDPQHARAAFRDFSKLVRGYPN---SQYTTDATKRLVFLKDR 173 (243)
T ss_pred hhccCCCccccCHHHHHHHHHHHHHHHHHCcC---ChhHHHHHHHHHHHHHH
Confidence 222 467799999997 997 45567888887776533
No 111
>PRK11906 transcriptional regulator; Provisional
Probab=76.61 E-value=19 Score=36.84 Aligned_cols=82 Identities=11% Similarity=0.124 Sum_probs=58.7
Q ss_pred chHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHH
Q 019008 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELL 200 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l 200 (347)
|+...+.|+. +|+... -.|..+-......+.++.|...+++...- +.+...=+||+|.+....++.++|.+++
T Consensus 323 a~~~A~rAve-ld~~Da---~a~~~~g~~~~~~~~~~~a~~~f~rA~~L---~Pn~A~~~~~~~~~~~~~G~~~~a~~~i 395 (458)
T PRK11906 323 ALELLDYVSD-ITTVDG---KILAIMGLITGLSGQAKVSHILFEQAKIH---STDIASLYYYRALVHFHNEKIEEARICI 395 (458)
T ss_pred HHHHHHHHHh-cCCCCH---HHHHHHHHHHHhhcchhhHHHHHHHHhhc---CCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 3344444443 466542 24455555555666699999999997542 2345777899999999999999999999
Q ss_pred HHhhc-CCcc
Q 019008 201 HNVVT-APMS 209 (347)
Q Consensus 201 ~~ai~-~P~~ 209 (347)
+.|++ .|-.
T Consensus 396 ~~alrLsP~~ 405 (458)
T PRK11906 396 DKSLQLEPRR 405 (458)
T ss_pred HHHhccCchh
Confidence 99998 8864
No 112
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=76.60 E-value=1e+02 Score=32.14 Aligned_cols=104 Identities=12% Similarity=0.015 Sum_probs=79.7
Q ss_pred HHHHHHHHHhHhhhcccccchHHHHHHHHhhC----CCCCchhhHHHHHHHHHHhcCCchhhhhhhccc--cccc---CC
Q 019008 102 INVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQ----SSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD--IYEI---NL 172 (347)
Q Consensus 102 ~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~----~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~--i~~i---~~ 172 (347)
...++.++......++...++..+..|+.-.. ++......+|..|..++...+.|+.|.+..++. |+.- ..
T Consensus 241 a~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~ 320 (508)
T KOG1840|consen 241 ASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGAS 320 (508)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccC
Confidence 33344455555566777778888888887766 455667778888999999999999998888764 3321 34
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 173 ~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
+.++...+-..|.++..++++++|...+..++.
T Consensus 321 ~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~ 353 (508)
T KOG1840|consen 321 HPEVAAQLSELAAILQSMNEYEEAKKLLQKALK 353 (508)
T ss_pred hHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 778888899999999999999999998888875
No 113
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=76.26 E-value=16 Score=35.82 Aligned_cols=87 Identities=13% Similarity=0.224 Sum_probs=66.2
Q ss_pred hHHHHHHH-HhcCChHHHHHHHHhccccccccccc-cHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHH
Q 019008 255 PYMELVNT-YNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (347)
Q Consensus 255 pY~~la~a-~~~g~~~~~~~~~~~~~~~f~~D~n~-gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~ 332 (347)
|-.+|..+ |-+-|.+.-+..+.+-+++..+|-.. .+...-+++.+.----...++=+.|++.=+|.|++++ ++|||.
T Consensus 290 PiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~-~eeaEr 368 (432)
T KOG2758|consen 290 PITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMD-PEEAER 368 (432)
T ss_pred cHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCC-HHHHHH
Confidence 66676654 45668888888888889999999654 4445555555555555555666678999999999998 899999
Q ss_pred HHHHHhhccc
Q 019008 333 HVLQMVTFEV 342 (347)
Q Consensus 333 ~v~~mI~~G~ 342 (347)
-+.+.|++..
T Consensus 369 wivnlIr~~r 378 (432)
T KOG2758|consen 369 WIVNLIRTAR 378 (432)
T ss_pred HHHHHHHHhh
Confidence 9999998754
No 114
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=76.06 E-value=40 Score=36.44 Aligned_cols=91 Identities=9% Similarity=-0.146 Sum_probs=66.4
Q ss_pred HHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHH
Q 019008 108 YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (347)
Q Consensus 108 ~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~ 187 (347)
+...+.+.+....|+...+.++.+ +|+. ...|..+...+.+.+.|+.|...+++-+-.-| +.-.=.+--|..+
T Consensus 126 ~a~~L~~~~~~eeA~~~~~~~l~~-~p~~---~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p---~~~~~~~~~a~~l 198 (694)
T PRK15179 126 MLRGVKRQQGIEAGRAEIELYFSG-GSSS---AREILLEAKSWDEIGQSEQADACFERLSRQHP---EFENGYVGWAQSL 198 (694)
T ss_pred HHHHHHHhccHHHHHHHHHHHhhc-CCCC---HHHHHHHHHHHHHhcchHHHHHHHHHHHhcCC---CcHHHHHHHHHHH
Confidence 444555566666666666665544 5543 34678888999999999999999999775222 3334445568899
Q ss_pred HhhhcHHHHHHHHHHhhc
Q 019008 188 IGQKRFRKALELLHNVVT 205 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai~ 205 (347)
+..++.++|...|+.|+.
T Consensus 199 ~~~G~~~~A~~~~~~a~~ 216 (694)
T PRK15179 199 TRRGALWRARDVLQAGLD 216 (694)
T ss_pred HHcCCHHHHHHHHHHHHH
Confidence 999999999999999996
No 115
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=75.87 E-value=16 Score=40.03 Aligned_cols=67 Identities=16% Similarity=0.168 Sum_probs=54.5
Q ss_pred hHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 141 ~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
-+...+.+.+...+.|+.|+++++.-+.... .+..-++|=-|.+|+.+++|++|.++|+.++- .|.+
T Consensus 415 dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~--~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~ 482 (895)
T KOG2076|consen 415 DLYLDLADALTNIGKYKEALRLLSPITNREG--YQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDN 482 (895)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHhcCcc--ccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCc
Confidence 3556678899999999999999986544322 12266788899999999999999999999995 9985
No 116
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=75.68 E-value=14 Score=41.59 Aligned_cols=83 Identities=7% Similarity=-0.090 Sum_probs=63.3
Q ss_pred cccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHH
Q 019008 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRK 195 (347)
Q Consensus 116 ~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~ 195 (347)
++...++..++.|+. .+|+. ..+|..+.+.++..+.++.|+..+.+.+-.-| +...|+-..|.| ++|.+
T Consensus 58 Gd~~~A~~~l~~Al~-~dP~n---~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP---~n~~~~~~La~i----~~~~k 126 (987)
T PRK09782 58 NDEATAIREFEYIHQ-QVPDN---IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHP---GDARLERSLAAI----PVEVK 126 (987)
T ss_pred CCHHHHHHHHHHHHH-hCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc---ccHHHHHHHHHh----ccChh
Confidence 555568888888755 47754 66789999999999999999999998765322 333343333555 99999
Q ss_pred HHHHHHHhhc-CCcc
Q 019008 196 ALELLHNVVT-APMS 209 (347)
Q Consensus 196 A~~~l~~ai~-~P~~ 209 (347)
|...++..+. .|.+
T Consensus 127 A~~~ye~l~~~~P~n 141 (987)
T PRK09782 127 SVTTVEELLAQQKAC 141 (987)
T ss_pred HHHHHHHHHHhCCCC
Confidence 9999999997 9985
No 117
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=75.30 E-value=6 Score=38.89 Aligned_cols=60 Identities=8% Similarity=0.006 Sum_probs=50.1
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.+.++..+.|+.|+..+++.+-.-| +...+++..|.++..+++|++|...++.++. .|..
T Consensus 9 a~~a~~~~~~~~Ai~~~~~Al~~~P---~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~ 69 (356)
T PLN03088 9 AKEAFVDDDFALAVDLYTQAIDLDP---NNAELYADRAQANIKLGNFTEAVADANKAIELDPSL 69 (356)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence 4678889999999999998875322 2356788999999999999999999999997 7764
No 118
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=74.61 E-value=36 Score=32.13 Aligned_cols=166 Identities=16% Similarity=0.126 Sum_probs=103.2
Q ss_pred cchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhh--------
Q 019008 120 RGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK-------- 191 (347)
Q Consensus 120 ~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k-------- 191 (347)
.|+.-+.....|+.-++- ---.-.++.....+.+.|+.|+..+|+=|--.|++.+.--=+|..|.++-..-
T Consensus 52 ~A~~~fe~l~~~~p~s~~-~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~~rDq~ 130 (254)
T COG4105 52 EAIKYFEALDSRHPFSPY-SEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDVTRDQS 130 (254)
T ss_pred HHHHHHHHHHHcCCCCcc-cHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCccccCHH
Confidence 345555544445544332 23344678899999999999999999866655643333333455677655322
Q ss_pred cHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHH
Q 019008 192 RFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVE 270 (347)
Q Consensus 192 ~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~ 270 (347)
--.+|+..|...|. .|. |.....|-+|.+.+..-+.|.=. .+.|.|.+.-.|. +- .+.
T Consensus 131 ~~~~A~~~f~~~i~ryPn---S~Ya~dA~~~i~~~~d~LA~~Em---------~IaryY~kr~~~~-AA--------~nR 189 (254)
T COG4105 131 AARAAFAAFKELVQRYPN---SRYAPDAKARIVKLNDALAGHEM---------AIARYYLKRGAYV-AA--------INR 189 (254)
T ss_pred HHHHHHHHHHHHHHHCCC---CcchhhHHHHHHHHHHHHHHHHH---------HHHHHHHHhcChH-HH--------HHH
Confidence 22456677778885 886 35556677777766655544422 4445554433322 21 346
Q ss_pred HHHHHHhccccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHc
Q 019008 271 LETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTV 322 (347)
Q Consensus 271 ~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l 322 (347)
++++++.+.+ .+..+..+-.|...|-++.+.|-|++.
T Consensus 190 ~~~v~e~y~~---------------t~~~~eaL~~l~eaY~~lgl~~~a~~~ 226 (254)
T COG4105 190 FEEVLENYPD---------------TSAVREALARLEEAYYALGLTDEAKKT 226 (254)
T ss_pred HHHHHhcccc---------------ccchHHHHHHHHHHHHHhCChHHHHHH
Confidence 7777776544 345677788888999999998888875
No 119
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=74.50 E-value=9.4 Score=38.88 Aligned_cols=68 Identities=12% Similarity=-0.014 Sum_probs=54.5
Q ss_pred hhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcC
Q 019008 139 LTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (347)
Q Consensus 139 lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~ 206 (347)
....|..+--.+...+.|+.|+..+++.+---|...+.---+|..|++|+.+++.++|.++|+.|+..
T Consensus 74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 46688888999999999999999999976422211111134799999999999999999999999974
No 120
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=74.00 E-value=12 Score=34.95 Aligned_cols=108 Identities=13% Similarity=0.091 Sum_probs=76.6
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHH
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~ 194 (347)
.+++..+-..|..|+. +||+. --.|..+...|-.-+..+.|.+-..+.+--=|.+.+++.= | |--.+++|+|+
T Consensus 48 ~gd~~~A~~nlekAL~-~DPs~---~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNN--Y-G~FLC~qg~~~ 120 (250)
T COG3063 48 QGDYAQAKKNLEKALE-HDPSY---YLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNN--Y-GAFLCAQGRPE 120 (250)
T ss_pred CCCHHHHHHHHHHHHH-hCccc---HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhh--h-hHHHHhCCChH
Confidence 4556667778888765 58864 2367888889999999999998888876544445566532 3 33457888999
Q ss_pred HHHHHHHHhhcCCcc-chhHHHHHHHHHHHHHHHHhcCCCC
Q 019008 195 KALELLHNVVTAPMS-SINAIAVEAYKKYILVSLIHHGQFS 234 (347)
Q Consensus 195 ~A~~~l~~ai~~P~~-~~s~i~vea~Kk~iLv~LL~~G~i~ 234 (347)
+|..+|+.|+-.|.- ..+ .++--..+++ +..|+.-
T Consensus 121 eA~q~F~~Al~~P~Y~~~s----~t~eN~G~Ca-l~~gq~~ 156 (250)
T COG3063 121 EAMQQFERALADPAYGEPS----DTLENLGLCA-LKAGQFD 156 (250)
T ss_pred HHHHHHHHHHhCCCCCCcc----hhhhhhHHHH-hhcCCch
Confidence 999999999998873 223 2456667777 4467655
No 121
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=73.15 E-value=10 Score=33.13 Aligned_cols=88 Identities=13% Similarity=0.033 Sum_probs=58.3
Q ss_pred CCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHH
Q 019008 136 TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAI 214 (347)
Q Consensus 136 ~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i 214 (347)
++++..++. +.-.....+.|+.|..+..--.. + .-.+.+|+|=.|+++=.+|+|++|.++|..|+. .|......
T Consensus 32 ~~~l~~lY~-~A~~ly~~G~l~~A~~~f~~L~~-~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~- 106 (157)
T PRK15363 32 TQPLNTLYR-YAMQLMEVKEFAGAARLFQLLTI-Y--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAP- 106 (157)
T ss_pred HHHHHHHHH-HHHHHHHCCCHHHHHHHHHHHHH-h--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHH-
Confidence 344554433 34456678888888887765321 1 224688999999999999999999999999997 66542221
Q ss_pred HHHHHHHHHHHHHHhcCCCC
Q 019008 215 AVEAYKKYILVSLIHHGQFS 234 (347)
Q Consensus 215 ~vea~Kk~iLv~LL~~G~i~ 234 (347)
-..=++++..|+++
T Consensus 107 ------~~ag~c~L~lG~~~ 120 (157)
T PRK15363 107 ------WAAAECYLACDNVC 120 (157)
T ss_pred ------HHHHHHHHHcCCHH
Confidence 12224556667766
No 122
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=72.92 E-value=6.6 Score=36.53 Aligned_cols=65 Identities=11% Similarity=-0.050 Sum_probs=50.9
Q ss_pred HHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 145 EFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 145 ~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.-...++..++|+.|...+++-+-..|.+...-.=.|..|.++..+++|++|...|+..+. .|.+
T Consensus 37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~ 102 (243)
T PRK10866 37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTH 102 (243)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCC
Confidence 4567788999999999999885554443322222367889999999999999999999997 8985
No 123
>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=71.99 E-value=4.4 Score=32.24 Aligned_cols=31 Identities=10% Similarity=0.093 Sum_probs=28.0
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
=+++.+|+++++++ .++++..|..++.+|.+
T Consensus 65 Gv~v~~I~~~l~~~-~~~v~~al~~L~~eG~I 95 (102)
T PF08784_consen 65 GVHVDEIAQQLGMS-ENEVRKALDFLSNEGHI 95 (102)
T ss_dssp TEEHHHHHHHSTS--HHHHHHHHHHHHHTTSE
T ss_pred cccHHHHHHHhCcC-HHHHHHHHHHHHhCCeE
Confidence 59999999999887 89999999999999975
No 124
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=71.85 E-value=37 Score=36.74 Aligned_cols=125 Identities=13% Similarity=0.114 Sum_probs=72.2
Q ss_pred hHHHHH-HHHHhcCChhhhhchhHHHHHHH---HHHH----HhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHH
Q 019008 77 TLVPII-ARFITSCSAEQIRYVPEKFINVC---KRYK----DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQ 148 (347)
Q Consensus 77 ~~~~~~-~~fl~~~~~~Qlr~~~~~~~~l~---~~~~----~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~ 148 (347)
.+|... .-|...-++.+.+.+-.+-+..+ ..+. ..+...++-.-|...+..|+. +||+. .-++ ..+..
T Consensus 651 ~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~-ldP~h--v~s~-~Ala~ 726 (799)
T KOG4162|consen 651 KLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA-LDPDH--VPSM-TALAE 726 (799)
T ss_pred HHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh-cCCCC--cHHH-HHHHH
Confidence 344443 34667777777774443322222 1111 111122222224444444433 46643 3333 45677
Q ss_pred HHHhcCCchhhhh--hhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 149 LCLLAKCYKAGLS--VLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 149 l~l~~~~y~~Al~--~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
+.+.-++-.-|.. ++.... .++ .......||.|+++..+|+.++|.+||..|+. .++
T Consensus 727 ~lle~G~~~la~~~~~L~dal-r~d--p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S 786 (799)
T KOG4162|consen 727 LLLELGSPRLAEKRSLLSDAL-RLD--PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEES 786 (799)
T ss_pred HHHHhCCcchHHHHHHHHHHH-hhC--CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence 7777787666665 555432 333 23567889999999999999999999999995 444
No 125
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=71.01 E-value=19 Score=32.24 Aligned_cols=83 Identities=10% Similarity=0.139 Sum_probs=59.3
Q ss_pred chHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhc--HHHHHH
Q 019008 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR--FRKALE 198 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~--y~~A~~ 198 (347)
.+..+++++.. +|+. ...+..+-+.++..+.|+.|...+++.+--- +.+.-.|+.|+...+...++ +++|..
T Consensus 58 ~i~~l~~~L~~-~P~~---~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~ 131 (198)
T PRK10370 58 QLQALQDKIRA-NPQN---SEQWALLGEYYLWRNDYDNALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTRE 131 (198)
T ss_pred HHHHHHHHHHH-CCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence 45556655544 5543 4578889999999999999999999876432 33344445555555566676 599999
Q ss_pred HHHHhhc-CCcc
Q 019008 199 LLHNVVT-APMS 209 (347)
Q Consensus 199 ~l~~ai~-~P~~ 209 (347)
.|+.++. -|.+
T Consensus 132 ~l~~al~~dP~~ 143 (198)
T PRK10370 132 MIDKALALDANE 143 (198)
T ss_pred HHHHHHHhCCCC
Confidence 9999997 7765
No 126
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=70.75 E-value=7.6 Score=33.31 Aligned_cols=35 Identities=9% Similarity=0.034 Sum_probs=32.0
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
.|+|.++||+++|++ +..+..-+.+|.++|.+..|
T Consensus 22 ~R~s~~eiA~~lglS-~~tV~~Ri~rL~~~GvI~~~ 56 (153)
T PRK11179 22 ARTPYAELAKQFGVS-PGTIHVRVEKMKQAGIITGT 56 (153)
T ss_pred CCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeeeE
Confidence 899999999999998 78899999999999998644
No 127
>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=70.31 E-value=50 Score=31.58 Aligned_cols=150 Identities=16% Similarity=0.193 Sum_probs=0.0
Q ss_pred HHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHH
Q 019008 108 YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (347)
Q Consensus 108 ~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~ 187 (347)
.++.+..++.+-.|-..+++ ..+.++ .+++|-+-...+.+..-...|..|..+++. +..-..+...+ ..-.+.++
T Consensus 137 ~Vqi~L~~~R~dlA~k~l~~-~~~~~e-D~~l~qLa~awv~l~~g~e~~~~A~y~f~E-l~~~~~~t~~~--lng~A~~~ 211 (290)
T PF04733_consen 137 AVQILLKMNRPDLAEKELKN-MQQIDE-DSILTQLAEAWVNLATGGEKYQDAFYIFEE-LSDKFGSTPKL--LNGLAVCH 211 (290)
T ss_dssp HHHHHHHTT-HHHHHHHHHH-HHCCSC-CHHHHHHHHHHHHHHHTTTCCCHHHHHHHH-HHCCS--SHHH--HHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHH-HHhcCC-cHHHHHHHHHHHHHHhCchhHHHHHHHHHH-HHhccCCCHHH--HHHHHHHH
Q ss_pred HhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcch---hHHHHHHHH
Q 019008 188 IGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQ---PYMELVNTY 263 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~---pY~~la~a~ 263 (347)
+.+++|++|.+.++.++. -|.. .++.=-.+.++.++ |+.+ ....-+.+.++ |-+.++..+
T Consensus 212 l~~~~~~eAe~~L~~al~~~~~~------~d~LaNliv~~~~~-gk~~---------~~~~~~l~qL~~~~p~h~~~~~~ 275 (290)
T PF04733_consen 212 LQLGHYEEAEELLEEALEKDPND------PDTLANLIVCSLHL-GKPT---------EAAERYLSQLKQSNPNHPLVKDL 275 (290)
T ss_dssp HHCT-HHHHHHHHHHHCCC-CCH------HHHHHHHHHHHHHT-T-TC---------HHHHHHHHHCHHHTTTSHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHHhccCC------HHHHHHHHHHHHHh-CCCh---------hHHHHHHHHHHHhCCCChHHHHH
Q ss_pred hcCChHHHHHHHHhcc
Q 019008 264 NTGKIVELETYVQTNR 279 (347)
Q Consensus 264 ~~g~~~~~~~~~~~~~ 279 (347)
..-+ ..|.+++.++.
T Consensus 276 ~~~~-~~FD~~~~ky~ 290 (290)
T PF04733_consen 276 AEKE-AEFDRAVAKYA 290 (290)
T ss_dssp HHHH-HHHHHHHHCCS
T ss_pred HHHH-HHHHHHHHhcC
No 128
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=70.19 E-value=6.1 Score=28.00 Aligned_cols=28 Identities=14% Similarity=0.242 Sum_probs=25.0
Q ss_pred HHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 181 YYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 181 yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
|--|+.+...++|++|...|+.++. .|.
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P~ 29 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDPD 29 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCSTT
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence 4468999999999999999999997 776
No 129
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=69.90 E-value=25 Score=37.19 Aligned_cols=105 Identities=10% Similarity=0.116 Sum_probs=67.3
Q ss_pred hchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCch
Q 019008 95 RYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPR 174 (347)
Q Consensus 95 r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~ 174 (347)
+..|..|..+...+.- .+.--.||...+.||+. ||. ++=.|+++=........||.|.+-..+.+-- ..
T Consensus 418 ~~sPesWca~GNcfSL----Qkdh~~Aik~f~RAiQl-dp~---faYayTLlGhE~~~~ee~d~a~~~fr~Al~~---~~ 486 (638)
T KOG1126|consen 418 PNSPESWCALGNCFSL----QKDHDTAIKCFKRAIQL-DPR---FAYAYTLLGHESIATEEFDKAMKSFRKALGV---DP 486 (638)
T ss_pred CCCcHHHHHhcchhhh----hhHHHHHHHHHHHhhcc-CCc---cchhhhhcCChhhhhHHHHhHHHHHHhhhcC---Cc
Confidence 4445555554443332 12233456666666654 442 3445566666666667777777666665542 22
Q ss_pred hhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccc
Q 019008 175 DFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (347)
Q Consensus 175 ~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~ 210 (347)
+.-+=+|=.||||..+.+++.|..+|+.|+. -|.+.
T Consensus 487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~ns 523 (638)
T KOG1126|consen 487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNS 523 (638)
T ss_pred hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccch
Confidence 4455578889999999999999999999997 88763
No 130
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=69.60 E-value=8 Score=34.68 Aligned_cols=63 Identities=13% Similarity=0.056 Sum_probs=46.9
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
...++..++|+.|...+++-+-..|.+...-.=.+..|..+-..++|++|...|+..+. .|.+
T Consensus 12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~ 75 (203)
T PF13525_consen 12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNS 75 (203)
T ss_dssp HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence 46788999999999999986665564444444456778899999999999999999997 9985
No 131
>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=69.33 E-value=14 Score=26.25 Aligned_cols=33 Identities=15% Similarity=0.125 Sum_probs=29.4
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.++.+|||+.++++ ...+..++.+|.++|.+..
T Consensus 25 ~~s~~ela~~~g~s-~~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 25 PLTRQEIADYLGLT-RETVSRTLKELEEEGLISR 57 (67)
T ss_pred CcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEe
Confidence 58999999999997 7889999999999998753
No 132
>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=69.06 E-value=13 Score=26.27 Aligned_cols=52 Identities=12% Similarity=0.057 Sum_probs=39.1
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccc
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYE 169 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~ 169 (347)
..++...|+..++.++.+ +|+. ..+...+.++++..+.++.|..++++-+..
T Consensus 3 ~~~~~~~A~~~~~~~l~~-~p~~---~~~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQR-NPDN---PEARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HTTHHHHHHHHHHHHHHH-TTTS---HHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hccCHHHHHHHHHHHHHH-CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 345566688889888877 4432 445678999999999999999999986654
No 133
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=68.60 E-value=37 Score=36.26 Aligned_cols=114 Identities=12% Similarity=0.130 Sum_probs=84.7
Q ss_pred hcccccchHHHHHHHHhhCCCC--CchhhHHHHHHHHHHhcCCchhhhhhhcccc-cccCCchhhHHHHHHHHHHHHhhh
Q 019008 115 LEAPIRGVGPMLTAIRKIQSST--EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDI-YEINLPRDFFLYCYYGGMIFIGQK 191 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~--~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i-~~i~~~~~~l~Y~yy~G~i~~~~k 191 (347)
.++|...+.+...||++.||.. +.++.+-..|.++|=.++..+.|..++++.. .+++.-.+...-.---|-+-+..+
T Consensus 360 e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~ 439 (835)
T KOG2047|consen 360 EGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHE 439 (835)
T ss_pred cCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhh
Confidence 3446677899999999999973 4456666778899999999999999999953 344555566555444557788999
Q ss_pred cHHHHHHHHHHhhcCCccch-------hHHHHHHHHHHHHHHHH
Q 019008 192 RFRKALELLHNVVTAPMSSI-------NAIAVEAYKKYILVSLI 228 (347)
Q Consensus 192 ~y~~A~~~l~~ai~~P~~~~-------s~i~vea~Kk~iLv~LL 228 (347)
+++.|+..++.|...|+... -+.+...+|-+.+-+..
T Consensus 440 ~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y 483 (835)
T KOG2047|consen 440 NFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY 483 (835)
T ss_pred hHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence 99999999999999997521 23444456666655544
No 134
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=68.29 E-value=12 Score=32.30 Aligned_cols=45 Identities=18% Similarity=0.223 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHH
Q 019008 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHV 334 (347)
Q Consensus 290 LV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v 334 (347)
.+.-.+...+|+.-.-+.+.|++|-..|.|.-+|++-++.+..++
T Consensus 110 imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~il 154 (197)
T KOG4414|consen 110 IMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGIL 154 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 445556788899999999999999999999999999444444443
No 135
>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=66.97 E-value=1.7e+02 Score=30.59 Aligned_cols=138 Identities=12% Similarity=0.082 Sum_probs=85.6
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhccc-ccccCC-----chhhHHHHHHHHHHHH
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD-IYEINL-----PRDFFLYCYYGGMIFI 188 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~-i~~i~~-----~~~~l~Y~yy~G~i~~ 188 (347)
.|....|...+ ...+.+|...-.+ -+-.++-+|+++.++.|...+..= --+.++ .-+++=|..-.|..|.
T Consensus 241 ~G~~~~Aa~~~-~~Ar~LD~~DRyi---NsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~ 316 (517)
T PF12569_consen 241 AGDLKEAAEAM-DEARELDLADRYI---NSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYL 316 (517)
T ss_pred CCCHHHHHHHH-HHHHhCChhhHHH---HHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHH
Confidence 33333344443 3446678765433 345678999999999999887652 112122 3366777888999999
Q ss_pred hhhcHHHHHHHHHHhhcCCc---cchhHHHHHHHHHHHH---HHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHH
Q 019008 189 GQKRFRKALELLHNVVTAPM---SSINAIAVEAYKKYIL---VSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVN 261 (347)
Q Consensus 189 ~~k~y~~A~~~l~~ai~~P~---~~~s~i~vea~Kk~iL---v~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~ 261 (347)
.+++|..|+..|..+...-. ..-..|.--|..|.-+ |.+|-.++-- +.+|...|..+....-|..+-+
T Consensus 317 r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l-----~~~~~y~raa~~ai~iYl~l~d 390 (517)
T PF12569_consen 317 RQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKL-----RSHPFYRRAAKGAIRIYLELHD 390 (517)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHh-----hcCHHHHHHHHHHHHHHHHHhc
Confidence 99999999999988887543 2333444445555533 4444333222 2455566666666667776654
No 136
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=66.61 E-value=9.6 Score=25.19 Aligned_cols=32 Identities=16% Similarity=0.145 Sum_probs=28.5
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.++..|||++++++ ...+...+.+|.+.|.+.
T Consensus 8 ~~s~~~la~~l~~s-~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLT-RETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 47889999999997 788999999999999875
No 137
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=66.56 E-value=15 Score=32.05 Aligned_cols=73 Identities=10% Similarity=0.035 Sum_probs=54.6
Q ss_pred HHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 127 TAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 127 ~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
..+.++||.. ..-+--|--.|-..+.|..|.....+.+.- + .+.-+-++|.|-++...++-+.|...|+.||.
T Consensus 59 ~~L~~~Dp~~---~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L-~--~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~ 131 (157)
T PRK15363 59 QLLTIYDAWS---FDYWFRLGECCQAQKHWGEAIYAYGRAAQI-K--IDAPQAPWAAAECYLACDNVCYAIKALKAVVR 131 (157)
T ss_pred HHHHHhCccc---HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-C--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3445667753 233344555677788999999999886542 1 24567788999999999999999999999996
No 138
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.46 E-value=7.2 Score=36.93 Aligned_cols=104 Identities=14% Similarity=0.093 Sum_probs=67.1
Q ss_pred HhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHh
Q 019008 151 LLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIH 229 (347)
Q Consensus 151 l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~ 229 (347)
++++.|+.|..-+.+-|-..|.+.-.-+=+|+.|-.+.++++|++|...|..+++ .|.+.-. -|++=|+-.+. --
T Consensus 152 ~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KA---pdallKlg~~~-~~ 227 (262)
T COG1729 152 YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKA---PDALLKLGVSL-GR 227 (262)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCC---hHHHHHHHHHH-HH
Confidence 4455588887777776666665555556678889999999999999999999997 8875222 23333443322 22
Q ss_pred cCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHH
Q 019008 230 HGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETY 274 (347)
Q Consensus 230 ~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~ 274 (347)
.|+.- ..|.-|.++..-|...+.....++
T Consensus 228 l~~~d----------------~A~atl~qv~k~YP~t~aA~~Ak~ 256 (262)
T COG1729 228 LGNTD----------------EACATLQQVIKRYPGTDAAKLAKV 256 (262)
T ss_pred hcCHH----------------HHHHHHHHHHHHCCCCHHHHHHHH
Confidence 23322 234567777777776655554443
No 139
>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=66.25 E-value=8.8 Score=28.32 Aligned_cols=32 Identities=16% Similarity=0.195 Sum_probs=28.1
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
-|+.|||+.+|+.|..-|-.+|..+.+.|.+.
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 48899999999999999999999999999764
No 140
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=65.78 E-value=19 Score=41.01 Aligned_cols=61 Identities=7% Similarity=-0.045 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
.+..+.+.+...+.++.|+..+++-+- .+ .+........|.++..++++++|.+.|+.++.
T Consensus 639 a~~~la~~~~~~g~~~eA~~~l~~ll~-~~--p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~ 699 (1157)
T PRK11447 639 ARLGLIEVDIAQGDLAAARAQLAKLPA-TA--NDSLNTQRRVALAWAALGDTAAAQRTFNRLIP 699 (1157)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHhc-cC--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence 344445555555555555555553221 11 11122233345555555555555555555554
No 141
>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=65.76 E-value=11 Score=28.66 Aligned_cols=43 Identities=9% Similarity=0.018 Sum_probs=35.7
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
+.+..|++-+.-.|.++||+.++++ ..-+...+.++.+.|.++
T Consensus 21 r~af~L~R~~eGlS~kEIAe~LGIS-~~TVk~~l~~~~~~~~~~ 63 (73)
T TIGR03879 21 EAAAALAREEAGKTASEIAEELGRT-EQTVRNHLKGETKAGGLV 63 (73)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcC-HHHHHHHHhcCcccchHH
Confidence 4556667777999999999999998 788888888888888764
No 142
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=65.68 E-value=11 Score=31.78 Aligned_cols=45 Identities=24% Similarity=0.209 Sum_probs=36.7
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
+.|.++-+-=.++|+++||+++|++ +..+-..|.++.++|.+.-|
T Consensus 11 ~~IL~~L~~d~r~~~~eia~~lglS-~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 11 RRILRLLQEDARISNAELAERVGLS-PSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCceeeE
Confidence 3455555555679999999999998 78899999999999987655
No 143
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=65.65 E-value=30 Score=34.57 Aligned_cols=84 Identities=10% Similarity=-0.081 Sum_probs=65.4
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..+.|..-+..+..++.++..++ -++..|=++|++.|.|..|...++..+-.=++ ..=+-+.|..+..+++-
T Consensus 306 ~~~d~~~l~k~~e~~l~~h~~~p----~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s----~~~~~~la~~~~~~g~~ 377 (400)
T COG3071 306 RPGDPEPLIKAAEKWLKQHPEDP----LLLSTLGRLALKNKLWGKASEALEAALKLRPS----ASDYAELADALDQLGEP 377 (400)
T ss_pred CCCCchHHHHHHHHHHHhCCCCh----hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC----hhhHHHHHHHHHHcCCh
Confidence 35556556778888888887766 36778889999999999999999977653332 22344678999999999
Q ss_pred HHHHHHHHHhhc
Q 019008 194 RKALELLHNVVT 205 (347)
Q Consensus 194 ~~A~~~l~~ai~ 205 (347)
.+|.+.++.++.
T Consensus 378 ~~A~~~r~e~L~ 389 (400)
T COG3071 378 EEAEQVRREALL 389 (400)
T ss_pred HHHHHHHHHHHH
Confidence 999999998884
No 144
>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=65.43 E-value=18 Score=25.76 Aligned_cols=52 Identities=12% Similarity=0.199 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 293 QVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 293 ~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
+++.+=.|..|.+.-..-...+..+||+.++++ ...+-+.+..|.+-|.+..
T Consensus 5 ~aL~~p~R~~Il~~L~~~~~~t~~ela~~l~~~-~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 5 KALSDPTRLRILRLLASNGPMTVSELAEELGIS-QSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHHTSHHHHHHHHHHHHCSTBEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEE
T ss_pred HHhCCHHHHHHHHHHhcCCCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCeEE
Confidence 445555677777777888999999999999998 6779999999999998753
No 145
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.04 E-value=45 Score=30.37 Aligned_cols=88 Identities=15% Similarity=0.096 Sum_probs=66.9
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHH-HHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPE-FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~-ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
.++-..++.-|+.++- .+..+.|.++-.. |.|.-+..+.++.|+..|+.+-- .....++.-..|-|++..++=
T Consensus 102 ~~~~d~A~aqL~~~l~--~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~----~~w~~~~~elrGDill~kg~k 175 (207)
T COG2976 102 ANNLDKAEAQLKQALA--QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKE----ESWAAIVAELRGDILLAKGDK 175 (207)
T ss_pred hccHHHHHHHHHHHHc--cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc----ccHHHHHHHHhhhHHHHcCch
Confidence 3444445566665542 2334667776555 77999999999999999998643 445678999999999999999
Q ss_pred HHHHHHHHHhhcC-Cc
Q 019008 194 RKALELLHNVVTA-PM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~~-P~ 208 (347)
++|...|+.++-. |+
T Consensus 176 ~~Ar~ay~kAl~~~~s 191 (207)
T COG2976 176 QEARAAYEKALESDAS 191 (207)
T ss_pred HHHHHHHHHHHHccCC
Confidence 9999999999964 44
No 146
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=63.69 E-value=16 Score=28.93 Aligned_cols=35 Identities=20% Similarity=0.169 Sum_probs=31.0
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.-.++|.++||+.+|++ +..+...+.+|.++|.+.
T Consensus 14 ~~~~~~~~~la~~l~~s-~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 14 KDARISLAELAKKVGLS-PSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HhCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCee
Confidence 34689999999999998 788999999999999875
No 147
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=63.39 E-value=10 Score=32.95 Aligned_cols=45 Identities=20% Similarity=0.098 Sum_probs=37.3
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
+.|.++-+-=.|+|.++||+++|++ +..+-.-+.+|.++|.+.-|
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS-~~tv~~Ri~rL~~~GvI~~~ 61 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLS-PTPCLERVRRLERQGFIQGY 61 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeEEE
Confidence 4555566677899999999999998 67888899999999987543
No 148
>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=62.43 E-value=28 Score=28.86 Aligned_cols=63 Identities=11% Similarity=0.079 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcc
Q 019008 99 EKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED 165 (347)
Q Consensus 99 ~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~ 165 (347)
..|...++.........+.+..++..++.++.. ||.. -.+|..+++.+...+.+..|+.+..+
T Consensus 59 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~-dP~~---E~~~~~lm~~~~~~g~~~~A~~~Y~~ 121 (146)
T PF03704_consen 59 ELYLDALERLAEALLEAGDYEEALRLLQRALAL-DPYD---EEAYRLLMRALAAQGRRAEALRVYER 121 (146)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-STT----HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc-CCCC---HHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 445555555666555666666666666665554 5543 45677788888888887777776654
No 149
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=62.29 E-value=14 Score=38.31 Aligned_cols=64 Identities=11% Similarity=0.098 Sum_probs=52.3
Q ss_pred hHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 141 ~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
-.|..+.-.++..++++.|...+++.+- .++ ....|.+.|+++...|+.++|.++++.|+. .|.
T Consensus 421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~-L~p---s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~ 485 (517)
T PRK10153 421 RIYEILAVQALVKGKTDEAYQAINKAID-LEM---SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG 485 (517)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence 3566666667778999999999999764 222 245888899999999999999999999997 776
No 150
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=62.26 E-value=2.9e+02 Score=31.67 Aligned_cols=56 Identities=5% Similarity=-0.088 Sum_probs=31.0
Q ss_pred HhhhcccccchHHHHHHHHhhCCCCCchhh-------------HHHHHHHHHHhcCCchhhhhhhccccc
Q 019008 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTT-------------LHPEFLQLCLLAKCYKAGLSVLEDDIY 168 (347)
Q Consensus 112 ~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~-------------~H~~ll~l~l~~~~y~~Al~~l~~~i~ 168 (347)
+...+++..+...++.++... |+....-. ......+++...+.|+.|++.+++-+-
T Consensus 72 ~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~ 140 (1157)
T PRK11447 72 LLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFN 140 (1157)
T ss_pred HHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHcc
Confidence 345566656666666655543 33221100 012334567788888888888877543
No 151
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.17 E-value=1.5e+02 Score=28.32 Aligned_cols=30 Identities=20% Similarity=0.276 Sum_probs=25.9
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 180 ~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..+.+-||...++|++|..|+|.++. .|.+
T Consensus 157 W~eLaeiY~~~~~f~kA~fClEE~ll~~P~n 187 (289)
T KOG3060|consen 157 WHELAEIYLSEGDFEKAAFCLEELLLIQPFN 187 (289)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHcCCCc
Confidence 34567899999999999999999996 8875
No 152
>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=60.82 E-value=14 Score=30.63 Aligned_cols=44 Identities=20% Similarity=0.210 Sum_probs=37.0
Q ss_pred HHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 300 r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
.+.|..+... .+|+++||..++++ ..-+.-++.+|+++|-+.+.
T Consensus 45 ~~~Il~lC~~--~~SVAEiAA~L~lP-lgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 45 HRAILELCRR--PLSVAEIAARLGLP-LGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred HHHHHHHHCC--CccHHHHHHhhCCC-chhhhhhHHHHHhCCCEEEe
Confidence 4566777777 89999999999999 67788899999999988763
No 153
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=59.65 E-value=14 Score=37.54 Aligned_cols=63 Identities=17% Similarity=0.293 Sum_probs=42.3
Q ss_pred chhhHHHHHHHHHHhcCCchhhhhhhcccccc-c-CCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhh
Q 019008 138 HLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYE-I-NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (347)
Q Consensus 138 ~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~-i-~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai 204 (347)
.+.+.|..++|.|+..+.++.++.++.+++-. | + |...|++.- -.++..++|+.|.......+
T Consensus 101 ~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~---D~~s~n~Lm-d~fl~~~~~~~A~~V~~~~~ 165 (429)
T PF10037_consen 101 LLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFP---DNFSFNLLM-DHFLKKGNYKSAAKVATEMM 165 (429)
T ss_pred ccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCC---ChhhHHHHH-HHHhhcccHHHHHHHHHHHH
Confidence 45666679999999999999999999987541 1 1 111222111 12567899999986555444
No 154
>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=58.92 E-value=13 Score=25.69 Aligned_cols=37 Identities=19% Similarity=0.168 Sum_probs=29.6
Q ss_pred HHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 306 LTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 306 L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+...=..++++|||++++++ ...+-.++..+.+.|.+
T Consensus 12 l~~~~~~~t~~eia~~~gl~-~stv~r~L~tL~~~g~v 48 (52)
T PF09339_consen 12 LAESGGPLTLSEIARALGLP-KSTVHRLLQTLVEEGYV 48 (52)
T ss_dssp HHCTBSCEEHHHHHHHHTS--HHHHHHHHHHHHHTTSE
T ss_pred HHcCCCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCcCe
Confidence 34444558999999999999 67888999999999876
No 155
>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=58.81 E-value=27 Score=23.34 Aligned_cols=32 Identities=19% Similarity=0.227 Sum_probs=20.6
Q ss_pred HHHhhhhcccHHHHHHHcCCCChhhHHHHHHHH
Q 019008 305 RLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQM 337 (347)
Q Consensus 305 ~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~m 337 (347)
++-+.=.+.|.++||+++|++ +..+-.-+.+|
T Consensus 10 ~~Lq~d~r~s~~~la~~lglS-~~~v~~Ri~rL 41 (42)
T PF13404_consen 10 RLLQEDGRRSYAELAEELGLS-ESTVRRRIRRL 41 (42)
T ss_dssp HHHHH-TTS-HHHHHHHHTS--HHHHHHHHHHH
T ss_pred HHHHHcCCccHHHHHHHHCcC-HHHHHHHHHHh
Confidence 333334999999999999998 56665555544
No 156
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.90 E-value=65 Score=30.58 Aligned_cols=99 Identities=12% Similarity=-0.021 Sum_probs=73.6
Q ss_pred chHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHH
Q 019008 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELL 200 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l 200 (347)
|....+.-+.+++.+ ...--.|=.|-+..+.-+.|+.|..++.+-+-..|.+.--=.=++=.|++...+++-++|...|
T Consensus 160 A~~~F~~fi~~YP~s-~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl 238 (262)
T COG1729 160 AEQAFQAFIKKYPNS-TYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATL 238 (262)
T ss_pred HHHHHHHHHHcCCCC-cccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHH
Confidence 556666777777653 3334456677899999999999999998877777653333344567899999999999999999
Q ss_pred HHhhc-CCccchhHHHHHHHH
Q 019008 201 HNVVT-APMSSINAIAVEAYK 220 (347)
Q Consensus 201 ~~ai~-~P~~~~s~i~vea~K 220 (347)
++++. .|.+.......++.|
T Consensus 239 ~qv~k~YP~t~aA~~Ak~~~~ 259 (262)
T COG1729 239 QQVIKRYPGTDAAKLAKVALK 259 (262)
T ss_pred HHHHHHCCCCHHHHHHHHHHh
Confidence 99996 998765555555443
No 157
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=57.80 E-value=55 Score=28.12 Aligned_cols=61 Identities=13% Similarity=0.071 Sum_probs=43.1
Q ss_pred HHHHHhcCCchhhhhhhcccccccC--CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEIN--LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~--~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.+..+..++|+.|.+.++.=....| ......+ +-.|-.|-..++|++|...++..|+ .|++
T Consensus 17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAq--L~l~yayy~~~~y~~A~a~~~rFirLhP~h 80 (142)
T PF13512_consen 17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQ--LDLAYAYYKQGDYEEAIAAYDRFIRLHPTH 80 (142)
T ss_pred HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHH--HHHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence 4678899999999998886433333 2222111 2234445578999999999999998 9986
No 158
>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=57.55 E-value=2.2e+02 Score=29.11 Aligned_cols=103 Identities=12% Similarity=0.056 Sum_probs=69.6
Q ss_pred hHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCC-chhhHHHHHHHHHHHHhhhcHHHHHHHH
Q 019008 122 VGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKRFRKALELL 200 (347)
Q Consensus 122 i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~-~~~~l~Y~yy~G~i~~~~k~y~~A~~~l 200 (347)
-..|.....|++ ++. + ..-.--|.+...++.+.|...+++.+..-+. ..-....+|-.|..++.+.+|++|.++|
T Consensus 253 ~~lL~~~~~~yP-~s~-l--fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f 328 (468)
T PF10300_consen 253 EELLEEMLKRYP-NSA-L--FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYF 328 (468)
T ss_pred HHHHHHHHHhCC-CcH-H--HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHH
Confidence 344555555544 332 2 2223338999999999999999987742222 2223455777899999999999999999
Q ss_pred HHhhcCCccchhHHHHHHHHHHHHHHHHhcCCC
Q 019008 201 HNVVTAPMSSINAIAVEAYKKYILVSLIHHGQF 233 (347)
Q Consensus 201 ~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i 233 (347)
......- .-| ..-|....=++++..|+.
T Consensus 329 ~~L~~~s--~WS---ka~Y~Y~~a~c~~~l~~~ 356 (468)
T PF10300_consen 329 LRLLKES--KWS---KAFYAYLAAACLLMLGRE 356 (468)
T ss_pred HHHHhcc--ccH---HHHHHHHHHHHHHhhccc
Confidence 9999733 234 234666777777777776
No 159
>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=57.41 E-value=28 Score=24.25 Aligned_cols=43 Identities=7% Similarity=0.040 Sum_probs=33.5
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
+.+...-..+-.++..+||++++++ ...+-.++.+|++.|.+.
T Consensus 6 ~~iL~~l~~~~~~~~~~la~~~~~~-~~~~t~~i~~L~~~g~I~ 48 (59)
T PF01047_consen 6 FRILRILYENGGITQSELAEKLGIS-RSTVTRIIKRLEKKGLIE 48 (59)
T ss_dssp HHHHHHHHHHSSEEHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCCC-hhHHHHHHHHHHHCCCEE
Confidence 4444455567779999999999998 677888999999999764
No 160
>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=57.39 E-value=61 Score=32.57 Aligned_cols=64 Identities=16% Similarity=0.207 Sum_probs=49.6
Q ss_pred HHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 143 H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
...+++.++..+.-..|.+++.+.+..-|.. ..-.-..+..++..++|+.|....+.++. +|..
T Consensus 203 ~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d---~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~ 267 (395)
T PF09295_consen 203 AVLLARVYLLMNEEVEAIRLLNEALKENPQD---SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE 267 (395)
T ss_pred HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh
Confidence 3567888888888888999988887544433 22233667888999999999999999997 8874
No 161
>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=56.61 E-value=15 Score=27.39 Aligned_cols=38 Identities=11% Similarity=0.049 Sum_probs=29.5
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
.=++..+.|+++.+.=..+.++..++-+||.+|.+.-|
T Consensus 16 ~KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l~yW 53 (67)
T PF08679_consen 16 KKSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKLEYW 53 (67)
T ss_dssp HSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CCCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeEEEE
Confidence 34667789999876555789999999999999998766
No 162
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=56.27 E-value=2e+02 Score=27.90 Aligned_cols=147 Identities=13% Similarity=0.156 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhh-----
Q 019008 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLK----- 250 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k----- 250 (347)
.+=.=--|-=.|..++|++|.+.+..||- .|.+++--=. +--++.+| |+.- + .+ +..+
T Consensus 81 AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycN----RAAAy~~L---g~~~-~-------AV-kDce~Al~i 144 (304)
T KOG0553|consen 81 AESLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCN----RAAAYSKL---GEYE-D-------AV-KDCESALSI 144 (304)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHH----HHHHHHHh---cchH-H-------HH-HHHHHHHhc
Confidence 33344456667778888888888888886 7776554211 11122221 3222 1 00 1111
Q ss_pred --hcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCC----
Q 019008 251 --NFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQL---- 324 (347)
Q Consensus 251 --~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l---- 324 (347)
...+.|..|.-||-..+ ++...++.++...+=|.+..-.+.-+..... .++.-..+=.++.-.|++..++.
T Consensus 145 Dp~yskay~RLG~A~~~~g--k~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~-~l~e~~~~~~~~~~~d~~~~ig~~Pd~ 221 (304)
T KOG0553|consen 145 DPHYSKAYGRLGLAYLALG--KYEEAIEAYKKALELDPDNESYKSNLKIAEQ-KLNEPKSSAQASGSFDMAGLIGAFPDS 221 (304)
T ss_pred ChHHHHHHHHHHHHHHccC--cHHHHHHHHHhhhccCCCcHHHHHHHHHHHH-HhcCCCcccccccchhhhhhccCCccc
Confidence 12357778888887644 6666777777778888877644333322211 11111122355666777766665
Q ss_pred --------CChhhHHHHHHHHhhccc
Q 019008 325 --------NSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 325 --------~s~~eaE~~v~~mI~~G~ 342 (347)
.+..-+-..-..||.+|.
T Consensus 222 ~s~~~~~l~nnp~l~~~~~~m~~~~~ 247 (304)
T KOG0553|consen 222 RSMFNGDLMNNPQLMQLASQMMKDGA 247 (304)
T ss_pred hhhhccccccCHHHHHHHHHHhhccc
Confidence 123334445556666543
No 163
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=56.25 E-value=2.8e+02 Score=29.60 Aligned_cols=58 Identities=7% Similarity=-0.063 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
+.+.++..|.+.+.++.|..+++.-. .++...|. --...|+..+++++|.+.|+....
T Consensus 261 ~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~~~vt~n-~li~~y~~~g~~~eA~~lf~~M~~ 318 (697)
T PLN03081 261 VSCALIDMYSKCGDIEDARCVFDGMP-----EKTTVAWN-SMLAGYALHGYSEEALCLYYEMRD 318 (697)
T ss_pred eHHHHHHHHHHCCCHHHHHHHHHhCC-----CCChhHHH-HHHHHHHhCCCHHHHHHHHHHHHH
Confidence 44677888899999999998887531 12233322 233446788999999999988763
No 164
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.45 E-value=1.1e+02 Score=31.94 Aligned_cols=63 Identities=13% Similarity=0.135 Sum_probs=45.7
Q ss_pred HHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 143 H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
|..++...++.+.++.+...++..+-.+|....+ |-| -|-|.+-+.+|++|.+.|..||. .|.
T Consensus 431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Ev--y~~-fAeiLtDqqqFd~A~k~YD~ai~LE~~ 494 (606)
T KOG0547|consen 431 YIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEV--YNL-FAEILTDQQQFDKAVKQYDKAIELEPR 494 (606)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchH--HHH-HHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence 3445555556667777888888777666643222 333 36899999999999999999997 886
No 165
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=54.30 E-value=31 Score=26.57 Aligned_cols=41 Identities=10% Similarity=0.089 Sum_probs=35.6
Q ss_pred HHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 302 ~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
.||..-.-.-+.++.+|+..++.+ ++-+|.++...++-|.+
T Consensus 6 qlRd~l~~~gr~s~~~Ls~~~~~p-~~~VeaMLe~l~~kGkv 46 (78)
T PRK15431 6 QVRDLLALRGRMEAAQISQTLNTP-QPMINAMLQQLESMGKA 46 (78)
T ss_pred HHHHHHHHcCcccHHHHHHHHCcC-HHHHHHHHHHHHHCCCe
Confidence 466666778899999999999988 88899999999998875
No 166
>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=53.80 E-value=17 Score=21.31 Aligned_cols=23 Identities=17% Similarity=-0.008 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHH
Q 019008 179 YCYYGGMIFIGQKRFRKALELLH 201 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~ 201 (347)
..+..|.++..++++++|...++
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 35677888999999999988775
No 167
>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=53.64 E-value=33 Score=23.98 Aligned_cols=31 Identities=10% Similarity=0.112 Sum_probs=27.2
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
++..|||+.++++ ..-+-.+|.+|++.|.+.
T Consensus 22 ~t~~~la~~l~~~-~~~vs~~v~~L~~~Glv~ 52 (62)
T PF12802_consen 22 LTQSELAERLGIS-KSTVSRIVKRLEKKGLVE 52 (62)
T ss_dssp EEHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred cCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 8999999999998 678889999999999764
No 168
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=53.22 E-value=32 Score=24.77 Aligned_cols=42 Identities=12% Similarity=0.093 Sum_probs=33.2
Q ss_pred HHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 302 ~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.|-.+..-=..++..|||++++++ +.-|-..+.++-++|.+.
T Consensus 12 ~Iy~l~~~~~~v~~~~iA~~L~vs-~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 12 AIYELSEEGGPVRTKDIAERLGVS-PPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp HHHHHHHCTSSBBHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHcCCCCccHHHHHHHHCCC-hHHHHHHHHHHHHCCCEE
Confidence 455566566789999999999998 677778999999998764
No 169
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=52.59 E-value=64 Score=33.15 Aligned_cols=123 Identities=20% Similarity=0.246 Sum_probs=75.2
Q ss_pred HHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHH
Q 019008 149 LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSL 227 (347)
Q Consensus 149 l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~L 227 (347)
..+..+.++.|++.++.=|-..| +..-|.-+.|-|++..++.++|.+.|+.++. -|...+- ++.+...
T Consensus 315 ~~~~~~~~d~A~~~l~~L~~~~P---~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l--------~~~~a~a 383 (484)
T COG4783 315 QTYLAGQYDEALKLLQPLIAAQP---DNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLL--------QLNLAQA 383 (484)
T ss_pred HHHHhcccchHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHH--------HHHHHHH
Confidence 45667778888887776433333 4456778899999999999999999999997 8875333 3345555
Q ss_pred HhcCCCCCCCCcccCHHHhhhh---hhcchhHHHHHHHHhc-CChHHHHHHHHhcccccccccccc
Q 019008 228 IHHGQFSSTLPKYTSSAAQRNL---KNFSQPYMELVNTYNT-GKIVELETYVQTNREKFESDNNLG 289 (347)
Q Consensus 228 L~~G~i~~~lp~~~s~~~~r~~---k~~~~pY~~la~a~~~-g~~~~~~~~~~~~~~~f~~D~n~g 289 (347)
++.|.-| . + .-....+.. +....-|.-|+++|.. ||..+ ......+...-+|+++
T Consensus 384 ll~~g~~-~--e-ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~---a~~A~AE~~~~~G~~~ 442 (484)
T COG4783 384 LLKGGKP-Q--E-AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAE---ALLARAEGYALAGRLE 442 (484)
T ss_pred HHhcCCh-H--H-HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHH---HHHHHHHHHHhCCCHH
Confidence 6566555 2 1 111222222 2234567888988853 55332 2233334444455553
No 170
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=52.16 E-value=85 Score=32.29 Aligned_cols=85 Identities=11% Similarity=-0.022 Sum_probs=58.6
Q ss_pred HHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHH
Q 019008 108 YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (347)
Q Consensus 108 ~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~ 187 (347)
.++.....|++..+++.++.|+.. +|+... +--.+-+.+++.+.+..|.+.|+.-.+..|. .-..++|.+..|
T Consensus 346 ~~~i~~~~nk~~~A~e~~~kal~l-~P~~~~---l~~~~a~all~~g~~~eai~~L~~~~~~~p~---dp~~w~~LAqay 418 (484)
T COG4783 346 AGDILLEANKAKEAIERLKKALAL-DPNSPL---LQLNLAQALLKGGKPQEAIRILNRYLFNDPE---DPNGWDLLAQAY 418 (484)
T ss_pred HHHHHHHcCChHHHHHHHHHHHhc-CCCccH---HHHHHHHHHHhcCChHHHHHHHHHHhhcCCC---CchHHHHHHHHH
Confidence 445566788888899999888766 555432 3356778999999999999999988776542 233445556666
Q ss_pred HhhhcHHHHHHH
Q 019008 188 IGQKRFRKALEL 199 (347)
Q Consensus 188 ~~~k~y~~A~~~ 199 (347)
..+++-.+|...
T Consensus 419 ~~~g~~~~a~~A 430 (484)
T COG4783 419 AELGNRAEALLA 430 (484)
T ss_pred HHhCchHHHHHH
Confidence 666555555543
No 171
>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=50.64 E-value=3.3e+02 Score=28.76 Aligned_cols=178 Identities=15% Similarity=0.134 Sum_probs=104.9
Q ss_pred hcCchhhHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHH
Q 019008 48 QLDPSKHSLGYLYFLEPCMYCSITKERANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLT 127 (347)
Q Consensus 48 ~ldp~~~sl~~L~vL~~~~~~~~~~~~~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~ 127 (347)
.+.|......++=+-..++....+.+.+++.+++...-+++.+-.-+++..+- -+ .+...+.+ |..++..++.
T Consensus 52 ~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~--ll----~~i~~~~~-~~~a~~~l~~ 124 (608)
T PF10345_consen 52 KLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQF--LL----ARIYFKTN-PKAALKNLDK 124 (608)
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHH--HH----HHHHHhcC-HHHHHHHHHH
Confidence 46788888887777666665555545666667766666655222223332222 11 22223334 3338888999
Q ss_pred HHHhhCCCCCchhhHHHHHHH--HHHhcCCchhhhhhhccccccc---CCchhhHHHHHHHHHHHHhhhcHHHHHHHHHH
Q 019008 128 AIRKIQSSTEHLTTLHPEFLQ--LCLLAKCYKAGLSVLEDDIYEI---NLPRDFFLYCYYGGMIFIGQKRFRKALELLHN 202 (347)
Q Consensus 128 Ai~r~~~~~~~lT~~H~~ll~--l~l~~~~y~~Al~~l~~~i~~i---~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ 202 (347)
+|...+..+..--..+-.|++ +++..+.+..|+..+..-+--- ..+.-.+...++.|++....+..+++.+.+..
T Consensus 125 ~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~ 204 (608)
T PF10345_consen 125 AIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQR 204 (608)
T ss_pred HHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHH
Confidence 999888755433333444444 4444678999999987743321 12555677888899999988888888888888
Q ss_pred hhc---CCccc--hhHHHHHHHHHHH-HHHHHhcCC
Q 019008 203 VVT---APMSS--INAIAVEAYKKYI-LVSLIHHGQ 232 (347)
Q Consensus 203 ai~---~P~~~--~s~i~vea~Kk~i-Lv~LL~~G~ 232 (347)
|+. .++.. ...-++.+++-.+ |+..|..|+
T Consensus 205 ~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~ 240 (608)
T PF10345_consen 205 AIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGD 240 (608)
T ss_pred HHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCC
Confidence 743 33211 2333444444333 334455555
No 172
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=50.50 E-value=1e+02 Score=29.04 Aligned_cols=58 Identities=12% Similarity=0.211 Sum_probs=45.0
Q ss_pred HHHhcCCchhhhhhhccc-ccc--cCC--chhhHHHHHHHHHHHHhhh-cHHHHHHHHHHhhcC
Q 019008 149 LCLLAKCYKAGLSVLEDD-IYE--INL--PRDFFLYCYYGGMIFIGQK-RFRKALELLHNVVTA 206 (347)
Q Consensus 149 l~l~~~~y~~Al~~l~~~-i~~--i~~--~~~~l~Y~yy~G~i~~~~k-~y~~A~~~l~~ai~~ 206 (347)
++.+.++.+.|..+++|. ... .++ .....+=+|--|.-....+ ++++|..||++|...
T Consensus 2 ~A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~ 65 (278)
T PF08631_consen 2 LAWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDI 65 (278)
T ss_pred cchhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 466778888888888773 221 122 4567788999999999999 999999999999964
No 173
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=50.13 E-value=29 Score=34.07 Aligned_cols=89 Identities=17% Similarity=0.229 Sum_probs=63.9
Q ss_pred HhhCCC--CCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-C
Q 019008 130 RKIQSS--TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-A 206 (347)
Q Consensus 130 ~r~~~~--~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~ 206 (347)
.++++. .-.+.-..+.|.+.++.+++.+.|...+.|..-. +..+.|=---.|.|.+..++|+.|.+.++.+.. -
T Consensus 168 ~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa---~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn 244 (389)
T COG2956 168 VKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA---DKKCVRASIILGRVELAKGDYQKAVEALERVLEQN 244 (389)
T ss_pred HHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh---CccceehhhhhhHHHHhccchHHHHHHHHHHHHhC
Confidence 445543 3446677788999999999999999999987543 223445555679999999999999999999997 6
Q ss_pred Cc--cchhHHHHHHHHH
Q 019008 207 PM--SSINAIAVEAYKK 221 (347)
Q Consensus 207 P~--~~~s~i~vea~Kk 221 (347)
|. ..+-....+||..
T Consensus 245 ~~yl~evl~~L~~~Y~~ 261 (389)
T COG2956 245 PEYLSEVLEMLYECYAQ 261 (389)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 64 2333444555544
No 174
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=49.50 E-value=1.3e+02 Score=29.95 Aligned_cols=93 Identities=14% Similarity=0.180 Sum_probs=70.3
Q ss_pred HHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhccc--ccccCCchhhHHHHHHHH
Q 019008 107 RYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD--IYEINLPRDFFLYCYYGG 184 (347)
Q Consensus 107 ~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~--i~~i~~~~~~l~Y~yy~G 184 (347)
++..+....+-|-++-.-|++++..+. .+. ...+|-|.|-.-++...|+.++..- .|+.+ ..|..--+
T Consensus 228 Q~gkCylrLgm~r~AekqlqssL~q~~-~~d----TfllLskvY~ridQP~~AL~~~~~gld~fP~~-----VT~l~g~A 297 (478)
T KOG1129|consen 228 QMGKCYLRLGMPRRAEKQLQSSLTQFP-HPD----TFLLLSKVYQRIDQPERALLVIGEGLDSFPFD-----VTYLLGQA 297 (478)
T ss_pred HHHHHHHHhcChhhhHHHHHHHhhcCC-chh----HHHHHHHHHHHhccHHHHHHHHhhhhhcCCch-----hhhhhhhH
Confidence 455666666777777777888777643 333 2367889999999999999998763 34332 56777778
Q ss_pred HHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 185 MIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 185 ~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+|+-+++++++|.+++..++. .|.+
T Consensus 298 Ri~eam~~~~~a~~lYk~vlk~~~~n 323 (478)
T KOG1129|consen 298 RIHEAMEQQEDALQLYKLVLKLHPIN 323 (478)
T ss_pred HHHHHHHhHHHHHHHHHHHHhcCCcc
Confidence 899999999999999999997 6654
No 175
>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=48.80 E-value=61 Score=33.20 Aligned_cols=50 Identities=12% Similarity=0.205 Sum_probs=38.3
Q ss_pred cCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 153 AKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 153 ~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
....+.|.++|+.-.-..| +-..|.++.|+++...++-++|.+.|+.|+.
T Consensus 246 ~~~~~~a~~lL~~~~~~yP---~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~ 295 (468)
T PF10300_consen 246 DVPLEEAEELLEEMLKRYP---NSALFLFFEGRLERLKGNLEEAIESFERAIE 295 (468)
T ss_pred CCCHHHHHHHHHHHHHhCC---CcHHHHHHHHHHHHHhcCHHHHHHHHHHhcc
Confidence 4556667777776544444 3477889999999999999999999998885
No 176
>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=48.12 E-value=39 Score=23.92 Aligned_cols=43 Identities=9% Similarity=0.098 Sum_probs=35.6
Q ss_pred HHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 301 ~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..|.++-+.-..++++|+|+.++++ ..-+..-+..+-+.|.+.
T Consensus 3 ~~Il~~l~~~~~~s~~ela~~~~VS-~~TiRRDl~~L~~~g~i~ 45 (57)
T PF08220_consen 3 QQILELLKEKGKVSVKELAEEFGVS-EMTIRRDLNKLEKQGLIK 45 (57)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 4566666777899999999999987 788888899998888764
No 177
>KOG2316 consensus Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=47.88 E-value=18 Score=33.52 Aligned_cols=41 Identities=12% Similarity=0.294 Sum_probs=33.7
Q ss_pred HHHHHhhhhcccHHHHHHHcCCCC-----hhhHHHHHHHHhhcccc
Q 019008 303 IQRLTQTYLTLSLQDIANTVQLNS-----SKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 303 I~~L~~~Ys~IsL~dIa~~l~l~s-----~~eaE~~v~~mI~~G~~ 343 (347)
.-.|-..|.|+...+|++|++|.+ ..|-|.++.+||.+|+-
T Consensus 113 ~GAIlS~YQr~RVEnVC~RL~L~~Ls~LW~rdQ~~LL~eMi~~g~~ 158 (277)
T KOG2316|consen 113 VGAILSDYQRTRVENVCSRLGLVSLSYLWQRDQEELLQEMILSGLD 158 (277)
T ss_pred hhhhHhHHHHHHHHHHHhhhCceeehHHHhccHHHHHHHHHHcCCC
Confidence 345667899999999999999875 35778899999999964
No 178
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=47.87 E-value=47 Score=21.97 Aligned_cols=33 Identities=6% Similarity=0.067 Sum_probs=28.8
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..++..+|++.++++ ...+...+..|.+.|.+.
T Consensus 13 ~~~s~~~l~~~l~~s-~~tv~~~l~~L~~~g~i~ 45 (53)
T smart00420 13 GKVSVEELAELLGVS-EMTIRRDLNKLEEQGLLT 45 (53)
T ss_pred CCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 458999999999995 888999999999998764
No 179
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=46.94 E-value=2e+02 Score=31.80 Aligned_cols=124 Identities=17% Similarity=0.172 Sum_probs=87.6
Q ss_pred HHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhccc------------
Q 019008 99 EKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD------------ 166 (347)
Q Consensus 99 ~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~------------ 166 (347)
.+|-.+.+.+.+.-...+.-.+++..|..|+......-+ -+-|+.+..++++.+.|+.|+..+-..
T Consensus 277 er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~--~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~ 354 (895)
T KOG2076|consen 277 ERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEAS--LEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEW 354 (895)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcccccc--ccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhh
Confidence 667777777666555555557788999999885443222 467789999999999999998766321
Q ss_pred ------------ccccCC-------------------------------------chhhHHHHHHHHHHHHhhhcHHHHH
Q 019008 167 ------------IYEINL-------------------------------------PRDFFLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 167 ------------i~~i~~-------------------------------------~~~~l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
+++++. +.+....++=.+..++-.++|.+|.
T Consensus 355 ~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al 434 (895)
T KOG2076|consen 355 DTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEAL 434 (895)
T ss_pred hhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHH
Confidence 111111 3456667778888999999999999
Q ss_pred HHHHHhhcCCcc-c--h-------------hHHHHHHHHHHHH
Q 019008 198 ELLHNVVTAPMS-S--I-------------NAIAVEAYKKYIL 224 (347)
Q Consensus 198 ~~l~~ai~~P~~-~--~-------------s~i~vea~Kk~iL 224 (347)
.+|...++.|.. . + ..-++++|+|.+.
T Consensus 435 ~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~ 477 (895)
T KOG2076|consen 435 RLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLI 477 (895)
T ss_pred HHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence 999999998863 1 1 2445677777654
No 180
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=46.46 E-value=1.1e+02 Score=32.71 Aligned_cols=147 Identities=12% Similarity=0.134 Sum_probs=0.0
Q ss_pred HHhcCCchhhhhhhcccccccCC--------------------------------chhhHHHHHHHHHHHHhhhcHHHHH
Q 019008 150 CLLAKCYKAGLSVLEDDIYEINL--------------------------------PRDFFLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 150 ~l~~~~y~~Al~~l~~~i~~i~~--------------------------------~~~~l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
|...|+|+.++++++.-....|. .+....||-| |+++=.-|+|.+|.
T Consensus 17 ~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~-gl~~R~dK~Y~eai 95 (700)
T KOG1156|consen 17 CYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVL-GLLQRSDKKYDEAI 95 (700)
T ss_pred HHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHH-HHHHhhhhhHHHHH
Q ss_pred HHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHH
Q 019008 198 ELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQ 276 (347)
Q Consensus 198 ~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~ 276 (347)
.||.+|+. -|.+ .+-++=+-|++ +.+|+.- ++-..+....+-.-.....--.--+.++..|+...-..+++
T Consensus 96 Kcy~nAl~~~~dN------~qilrDlslLQ-~QmRd~~-~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ 167 (700)
T KOG1156|consen 96 KCYRNALKIEKDN------LQILRDLSLLQ-IQMRDYE-GYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILE 167 (700)
T ss_pred HHHHHHHhcCCCc------HHHHHHHHHHH-HHHHhhh-hHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hccccccccccccHHHHHHHHHHHHHHHH
Q 019008 277 TNREKFESDNNLGLVKQVVSSMYKRNIQR 305 (347)
Q Consensus 277 ~~~~~f~~D~n~gLV~~~~~~~~r~~I~~ 305 (347)
.+..+-..-----.+.+...-+++..|..
T Consensus 168 ef~~t~~~~~s~~~~e~se~~Ly~n~i~~ 196 (700)
T KOG1156|consen 168 EFEKTQNTSPSKEDYEHSELLLYQNQILI 196 (700)
T ss_pred HHHHhhccCCCHHHHHHHHHHHHHHHHHH
No 181
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=46.00 E-value=33 Score=23.43 Aligned_cols=32 Identities=9% Similarity=0.102 Sum_probs=28.2
Q ss_pred cc-cHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 312 TL-SLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 312 ~I-sL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.+ |..++|+.++++ ...+...+..+.++|.+.
T Consensus 19 ~l~s~~~la~~~~vs-~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 19 KLPSERELAAQLGVS-RTTVREALSRLEAEGLVQ 51 (60)
T ss_pred cCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 46 899999999995 789999999999999864
No 182
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=45.88 E-value=1.3e+02 Score=28.25 Aligned_cols=77 Identities=13% Similarity=0.165 Sum_probs=49.0
Q ss_pred hHHHHHHHHhcCChHHHHHHHHhcccccccccccc-HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHH
Q 019008 255 PYMELVNTYNTGKIVELETYVQTNREKFESDNNLG-LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMH 333 (347)
Q Consensus 255 pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~g-LV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~ 333 (347)
|=..|-+-+..|..+++-...+..- +..|. .+.-+...++..--..+-|+|..|+++|.++++.++++++.+.+
T Consensus 139 ~~v~LEq~~MEGaYnKv~~a~~s~p-----~~~y~~FmdIl~~tiRdEIA~c~EKsYd~l~~s~a~~~L~f~~~~e~~~~ 213 (260)
T KOG3151|consen 139 HPVSLEQSLMEGAYNKVLSAKQSIP-----SEEYTYFMDILLDTIRDEIAGCIEKSYDKLSASDATQMLLFNNDKELKKF 213 (260)
T ss_pred hHHHHHHHHHhhHHHHHHHHHhcCC-----cHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHhcCChHHHHHH
Confidence 3345566666665444333322211 44443 33444444555555678899999999999999999998888776
Q ss_pred HHH
Q 019008 334 VLQ 336 (347)
Q Consensus 334 v~~ 336 (347)
..+
T Consensus 214 ~~~ 216 (260)
T KOG3151|consen 214 ATE 216 (260)
T ss_pred HHh
Confidence 653
No 183
>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=45.87 E-value=27 Score=26.59 Aligned_cols=31 Identities=10% Similarity=0.079 Sum_probs=27.6
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
++..+||++++++ +..++.++.++.+.|.+.
T Consensus 26 ~s~~eiA~~~~i~-~~~l~kil~~L~~~Gli~ 56 (83)
T PF02082_consen 26 VSSKEIAERLGIS-PSYLRKILQKLKKAGLIE 56 (83)
T ss_dssp BEHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHHCcC-HHHHHHHHHHHhhCCeeE
Confidence 8999999999998 899999999999999753
No 184
>PLN02789 farnesyltranstransferase
Probab=45.23 E-value=1.6e+02 Score=28.59 Aligned_cols=50 Identities=8% Similarity=0.096 Sum_probs=33.9
Q ss_pred hhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 157 KAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 157 ~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+.+++++++.+ .++ + ....-.+|.|.+...+++|++|+++++.+|. -|.+
T Consensus 125 ~~el~~~~kal-~~d-p-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N 175 (320)
T PLN02789 125 NKELEFTRKIL-SLD-A-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRN 175 (320)
T ss_pred HHHHHHHHHHH-HhC-c-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCc
Confidence 44555555543 222 1 2234466788888899999999999999997 6664
No 185
>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=44.98 E-value=46 Score=23.20 Aligned_cols=30 Identities=7% Similarity=0.063 Sum_probs=26.6
Q ss_pred cHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 314 SLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 314 sL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
+..|||+.++++ ...+...+.+|.+.|.+.
T Consensus 27 ~~~~la~~~~is-~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 27 SERELAEELGVS-RTTVREALRELEAEGLVE 56 (66)
T ss_pred CHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 499999999995 888999999999999864
No 186
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=44.58 E-value=1.3e+02 Score=31.57 Aligned_cols=106 Identities=14% Similarity=0.055 Sum_probs=75.7
Q ss_pred chHHHHHHHHhhCCCC---CchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHH
Q 019008 121 GVGPMLTAIRKIQSST---EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 121 ~i~~L~~Ai~r~~~~~---~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
|+..+++++.+...-. ..--|+-+.|=..|-+-+.|+.|+....+.+.-.| ...+++=-.|.||..+|+.+.|.
T Consensus 433 A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~---k~~~~~asig~iy~llgnld~Ai 509 (611)
T KOG1173|consen 433 ALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP---KDASTHASIGYIYHLLGNLDKAI 509 (611)
T ss_pred HHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC---CchhHHHHHHHHHHHhcChHHHH
Confidence 4555667765543222 22345556667889999999999999988776433 34778888999999999999999
Q ss_pred HHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCC
Q 019008 198 ELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQ 232 (347)
Q Consensus 198 ~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~ 232 (347)
++|..++- .|.+ -+..+..|+.|=-+-...|-
T Consensus 510 d~fhKaL~l~p~n---~~~~~lL~~aie~~~~~~~~ 542 (611)
T KOG1173|consen 510 DHFHKALALKPDN---IFISELLKLAIEDSECKSGV 542 (611)
T ss_pred HHHHHHHhcCCcc---HHHHHHHHHHHHhhhhhccc
Confidence 99999997 8875 23356667776654444444
No 187
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=44.39 E-value=1.7e+02 Score=31.73 Aligned_cols=91 Identities=18% Similarity=0.109 Sum_probs=66.2
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCC--------------------ch
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL--------------------PR 174 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~--------------------~~ 174 (347)
.+++.+|=..|..|-+| +|... -+-...+|.=+++++.++|..++.+..-+.|. +.
T Consensus 732 ~~~~~rAR~ildrarlk-NPk~~---~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~ 807 (913)
T KOG0495|consen 732 DGQLVRARSILDRARLK-NPKNA---LLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSI 807 (913)
T ss_pred hcchhhHHHHHHHHHhc-CCCcc---hhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHH
Confidence 44566666677777777 45332 24567789999999999999999886554442 11
Q ss_pred hhH-------HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 175 DFF-------LYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 175 ~~l-------~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
|-+ .-..-.|..+-..+++++|.+||+.++. .|..
T Consensus 808 DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~ 850 (913)
T KOG0495|consen 808 DALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDN 850 (913)
T ss_pred HHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCcc
Confidence 222 3455678889999999999999999998 7764
No 188
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=43.92 E-value=40 Score=30.24 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhh-----------cHHHHHHHHHHhhc-CCccchhHHHHHHHHHHH
Q 019008 178 LYCYYGGMIFIGQK-----------RFRKALELLHNVVT-APMSSINAIAVEAYKKYI 223 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k-----------~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~i 223 (347)
.=+|+.|..|+.+. -|++|.++|+.|+. -|.+..-...+|..+|-.
T Consensus 70 dAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~kap 127 (186)
T PF06552_consen 70 DALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMAAKAP 127 (186)
T ss_dssp HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHTHH
T ss_pred HHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhH
Confidence 33455566665544 49999999999997 898877776677666654
No 189
>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=43.77 E-value=59 Score=23.07 Aligned_cols=40 Identities=8% Similarity=0.145 Sum_probs=29.0
Q ss_pred HHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 303 I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+..+....-.++++||++.++++ ...+-..|.+|++.|-+
T Consensus 9 L~~l~~~~~~~t~~~l~~~~~~~-~~~vs~~i~~L~~~glv 48 (68)
T PF13463_consen 9 LRALAHSDGPMTQSDLAERLGIS-KSTVSRIIKKLEEKGLV 48 (68)
T ss_dssp HHHHT--TS-BEHHHHHHHTT---HHHHHHHHHHHHHTTSE
T ss_pred HHHHHccCCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCE
Confidence 33444467889999999999998 67788999999999976
No 190
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=43.46 E-value=58 Score=36.20 Aligned_cols=66 Identities=15% Similarity=0.081 Sum_probs=47.1
Q ss_pred HHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+.|...+...++|.-+..+....|..-.......+=||..|+.|=++++|++|..+|..++. .|.+
T Consensus 274 ~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~ 340 (1018)
T KOG2002|consen 274 NHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN 340 (1018)
T ss_pred HHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC
Confidence 45666777778888777777766553222234456788888999999999999888888885 6654
No 191
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=43.31 E-value=39 Score=33.35 Aligned_cols=108 Identities=16% Similarity=0.148 Sum_probs=74.8
Q ss_pred cccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHH
Q 019008 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRK 195 (347)
Q Consensus 116 ~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~ 195 (347)
++|..++...|..+.-=-.+|+ +.+.+--+|+-+++|+-+++-+.+..-.-.++.+-..-.|-.|-|...-+|+.-
T Consensus 338 ~~PE~AlryYRRiLqmG~~spe----Lf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nl 413 (478)
T KOG1129|consen 338 NNPEMALRYYRRILQMGAQSPE----LFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNL 413 (478)
T ss_pred CChHHHHHHHHHHHHhcCCChH----HHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHH
Confidence 4566666666653332222333 445666789999999999999888765444466667788999999999999999
Q ss_pred HHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCC
Q 019008 196 ALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFS 234 (347)
Q Consensus 196 A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~ 234 (347)
|..+|..|++ -|.++ ||+..+-++. ...|+|-
T Consensus 414 A~rcfrlaL~~d~~h~------ealnNLavL~-~r~G~i~ 446 (478)
T KOG1129|consen 414 AKRCFRLALTSDAQHG------EALNNLAVLA-ARSGDIL 446 (478)
T ss_pred HHHHHHHHhccCcchH------HHHHhHHHHH-hhcCchH
Confidence 9999999998 45442 3444444333 2457766
No 192
>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=43.05 E-value=63 Score=21.68 Aligned_cols=38 Identities=13% Similarity=0.269 Sum_probs=30.4
Q ss_pred HHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 303 I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+..|.+ ...+..||++.++++ ...+-..+..|.+.|.+
T Consensus 8 l~~L~~--~~~~~~el~~~l~~s-~~~vs~hL~~L~~~glV 45 (47)
T PF01022_consen 8 LKLLSE--GPLTVSELAEELGLS-QSTVSHHLKKLREAGLV 45 (47)
T ss_dssp HHHHTT--SSEEHHHHHHHHTS--HHHHHHHHHHHHHTTSE
T ss_pred HHHHHh--CCCchhhHHHhcccc-chHHHHHHHHHHHCcCe
Confidence 334444 678899999999998 78899999999999975
No 193
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=42.71 E-value=44 Score=21.18 Aligned_cols=30 Identities=17% Similarity=0.215 Sum_probs=23.5
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
.++-.|||..+|+. .+-+-.++.++-++|.
T Consensus 2 ~mtr~diA~~lG~t-~ETVSR~l~~l~~~gl 31 (32)
T PF00325_consen 2 PMTRQDIADYLGLT-RETVSRILKKLERQGL 31 (32)
T ss_dssp E--HHHHHHHHTS--HHHHHHHHHHHHHTTS
T ss_pred CcCHHHHHHHhCCc-HHHHHHHHHHHHHcCC
Confidence 36778999999988 8888889999988886
No 194
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.40 E-value=52 Score=31.25 Aligned_cols=145 Identities=19% Similarity=0.212 Sum_probs=73.7
Q ss_pred hHHHHHHHHhhCCCCCchhhH-HHHHHHHHHhcCCchhhhhhhccc--ccccCCchhhHHHHHHH--HHHHHhhhcHHHH
Q 019008 122 VGPMLTAIRKIQSSTEHLTTL-HPEFLQLCLLAKCYKAGLSVLEDD--IYEINLPRDFFLYCYYG--GMIFIGQKRFRKA 196 (347)
Q Consensus 122 i~~L~~Ai~r~~~~~~~lT~~-H~~ll~l~l~~~~y~~Al~~l~~~--i~~i~~~~~~l~Y~yy~--G~i~~~~k~y~~A 196 (347)
+...+.|+.-+..+|+-=|.. -..=.--.+....++.|+.+..+. +++.+ .++...|-.|| |+++...++|.+|
T Consensus 91 vdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~-dr~~ma~el~gk~sr~lVrl~kf~Ea 169 (308)
T KOG1585|consen 91 VDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEED-DRDQMAFELYGKCSRVLVRLEKFTEA 169 (308)
T ss_pred HHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhcc-chHHHHHHHHHHhhhHhhhhHHhhHH
Confidence 344455555555444322221 111122345556666666666653 33333 45555665554 7899999999999
Q ss_pred HHHHHHhhc-------CCcc---chhHHHHHHH-HHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhc
Q 019008 197 LELLHNVVT-------APMS---SINAIAVEAY-KKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNT 265 (347)
Q Consensus 197 ~~~l~~ai~-------~P~~---~~s~i~vea~-Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~ 265 (347)
..+|..=.. .|+. .++.|.+.-| .-|+...-.. .+-. ..|.+-.+. .+..-.+|..+|..
T Consensus 170 a~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~-r~~~-qip~f~~se-------d~r~lenLL~ayd~ 240 (308)
T KOG1585|consen 170 ATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCY-RDCS-QIPAFLKSE-------DSRSLENLLTAYDE 240 (308)
T ss_pred HHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHh-cchh-cCccccChH-------HHHHHHHHHHHhcc
Confidence 877754332 3331 2222222211 1111111111 1111 123322222 23456678889999
Q ss_pred CChHHHHHHHH
Q 019008 266 GKIVELETYVQ 276 (347)
Q Consensus 266 g~~~~~~~~~~ 276 (347)
||.+++..++.
T Consensus 241 gD~E~~~kvl~ 251 (308)
T KOG1585|consen 241 GDIEEIKKVLS 251 (308)
T ss_pred CCHHHHHHHHc
Confidence 99999999876
No 195
>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]
Probab=42.26 E-value=1.4e+02 Score=27.89 Aligned_cols=90 Identities=13% Similarity=0.144 Sum_probs=60.5
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHH
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILV 225 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv 225 (347)
+...+..+....|+......+-.-| ..--+|-||+ ..++..++|++|..-++.|-+ .|+.+ .+.+-||-.|.+
T Consensus 8 ~seLL~~~sL~dai~~a~~qVkakP-tda~~Rhflf--qLlcvaGdw~kAl~Ql~l~a~l~p~~t---~~a~lyr~lir~ 81 (273)
T COG4455 8 ISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLF--QLLCVAGDWEKALAQLNLAATLSPQDT---VGASLYRHLIRC 81 (273)
T ss_pred HHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHH--HHHhhcchHHHHHHHHHHHhhcCcccc---hHHHHHHHHHHH
Confidence 3455666777777777666554333 3344666666 678999999999999999988 66643 345668888887
Q ss_pred HHHh-----cCCCCCCCCcccCH
Q 019008 226 SLIH-----HGQFSSTLPKYTSS 243 (347)
Q Consensus 226 ~LL~-----~G~i~~~lp~~~s~ 243 (347)
..+. .|..| .++-..+|
T Consensus 82 ea~R~evfag~~~P-gflg~p~p 103 (273)
T COG4455 82 EAARNEVFAGGAVP-GFLGGPSP 103 (273)
T ss_pred HHHHHHHhccCCCC-CCcCCCCH
Confidence 6653 36677 66553344
No 196
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=41.50 E-value=41 Score=22.95 Aligned_cols=33 Identities=12% Similarity=0.140 Sum_probs=28.3
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..+++.||++.++++ ...+-..+..|.+.|.+.
T Consensus 9 ~~~~~~~i~~~l~is-~~~v~~~l~~L~~~g~i~ 41 (66)
T smart00418 9 GELCVCELAEILGLS-QSTVSHHLKKLREAGLVE 41 (66)
T ss_pred CCccHHHHHHHHCCC-HHHHHHHHHHHHHCCCee
Confidence 467899999999987 677889999999998775
No 197
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=41.15 E-value=4.4e+02 Score=27.51 Aligned_cols=129 Identities=14% Similarity=0.120 Sum_probs=76.7
Q ss_pred hhhhHHHHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCc----hhhHHHHHHHH
Q 019008 74 RANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEH----LTTLHPEFLQL 149 (347)
Q Consensus 74 ~~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~----lT~~H~~ll~l 149 (347)
++..+..+...-...-.+.+---.+.....|... ....++-.-|...+++|+.+....... .--..+.+...
T Consensus 343 ea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l----~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~ 418 (508)
T KOG1840|consen 343 EAKKLLQKALKIYLDAPGEDNVNLAKIYANLAEL----YLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEA 418 (508)
T ss_pred HHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH----HHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHH
Confidence 4444444444443322222221334444444432 234566666889999999998543221 12223678889
Q ss_pred HHhcCCchhhhhhhccc--cccc--CCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcC
Q 019008 150 CLLAKCYKAGLSVLEDD--IYEI--NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (347)
Q Consensus 150 ~l~~~~y~~Al~~l~~~--i~~i--~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~ 206 (347)
|...+.|..|..++... |... +.+.+..-=+--.|-.|-.+++|++|.++.+.++++
T Consensus 419 ~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~ 479 (508)
T KOG1840|consen 419 YEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNA 479 (508)
T ss_pred HHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence 99999999888887753 4311 112222222334577899999999999999999853
No 198
>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=41.11 E-value=42 Score=24.54 Aligned_cols=33 Identities=9% Similarity=0.145 Sum_probs=29.0
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.++..|||..+|++ .+.+-.++.+|.++|.+-+
T Consensus 28 ~lt~~~iA~~~g~s-r~tv~r~l~~l~~~g~I~~ 60 (76)
T PF13545_consen 28 PLTQEEIADMLGVS-RETVSRILKRLKDEGIIEV 60 (76)
T ss_dssp ESSHHHHHHHHTSC-HHHHHHHHHHHHHTTSEEE
T ss_pred cCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEE
Confidence 47899999999988 7889999999999997754
No 199
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=41.00 E-value=69 Score=25.04 Aligned_cols=48 Identities=25% Similarity=0.451 Sum_probs=37.9
Q ss_pred HHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcc
Q 019008 185 MIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKY 240 (347)
Q Consensus 185 ~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~ 240 (347)
..|+-.++|.+-++|++.+ |..+...+..|+..|||=- -|..| |+|.-
T Consensus 9 ~L~i~r~~~~~iF~FL~~~---P~GT~~~~iR~~L~rYI~~----~G~~~-PiP~~ 56 (97)
T PRK13916 9 LLKIKKEDYPQIFDFLENV---PRGTKTAHIREALRRYIEE----IGENP-PIPSK 56 (97)
T ss_pred HHHhcccccHHHHHHHHHC---CCCCccHHHHHHHHHHHHh----cCCCC-CCCcc
Confidence 4567788999888888764 7777788999999999852 48888 99863
No 200
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=40.44 E-value=54 Score=28.74 Aligned_cols=32 Identities=25% Similarity=0.323 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
-..-.+-|++++..++|.+|...|+.+.. .|.
T Consensus 44 ~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~ 76 (160)
T PF09613_consen 44 PELDLFDGWLHIVRGDWDDALRLLRELEERAPG 76 (160)
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC
Confidence 44566789999999999999999999887 443
No 201
>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]
Probab=40.35 E-value=60 Score=34.43 Aligned_cols=89 Identities=13% Similarity=0.089 Sum_probs=65.1
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
..++|..|+..|..|.+-- |. +..-|+ ..|.++.++++...-|-.+|....- +. + .-=.+||-.|.+|.++++-
T Consensus 619 ~~gn~~~a~~cl~~a~~~~-p~-~~~v~~-v~la~~~~~~~~~~da~~~l~q~l~-~~-~-sepl~~~~~g~~~l~l~~i 692 (886)
T KOG4507|consen 619 AVGNSTFAIACLQRALNLA-PL-QQDVPL-VNLANLLIHYGLHLDATKLLLQALA-IN-S-SEPLTFLSLGNAYLALKNI 692 (886)
T ss_pred ecCCcHHHHHHHHHHhccC-hh-hhcccH-HHHHHHHHHhhhhccHHHHHHHHHh-hc-c-cCchHHHhcchhHHHHhhh
Confidence 3667777888888877643 32 334444 6678888998888888888877532 11 1 1125789999999999999
Q ss_pred HHHHHHHHHhhc-CCc
Q 019008 194 RKALELLHNVVT-APM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~ 208 (347)
+.|.+.|.+|+. .|.
T Consensus 693 ~~a~~~~~~a~~~~~~ 708 (886)
T KOG4507|consen 693 SGALEAFRQALKLTTK 708 (886)
T ss_pred HHHHHHHHHHHhcCCC
Confidence 999999999996 554
No 202
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=39.68 E-value=53 Score=24.03 Aligned_cols=34 Identities=15% Similarity=0.046 Sum_probs=28.5
Q ss_pred hhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 310 Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..-++-.|||+.++++ .-.|..++..+-++|.+.
T Consensus 13 ~~p~~T~eiA~~~gls-~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLS-IYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS--HHHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCC-HHHHHHHHHHHHHCCCEE
Confidence 5668889999999998 788999999999999763
No 203
>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=38.99 E-value=54 Score=28.55 Aligned_cols=30 Identities=13% Similarity=0.412 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhcCC
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVTAP 207 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P 207 (347)
....+-|++++..++|.+|.+.|.....-+
T Consensus 45 e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~ 74 (153)
T TIGR02561 45 ELDMFDGWLLIARGNYDEAARILRELLSSA 74 (153)
T ss_pred ccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence 445678999999999999999999999744
No 204
>PHA02695 hypothetical protein; Provisional
Probab=38.67 E-value=88 Score=33.56 Aligned_cols=120 Identities=13% Similarity=0.139 Sum_probs=85.2
Q ss_pred HHHHHHHH---HHHHHhcCCCCCCCCcccCHHHhhh-------hhhcchhHHHHHHHH-hcCChHHHHHHHHhccccccc
Q 019008 216 VEAYKKYI---LVSLIHHGQFSSTLPKYTSSAAQRN-------LKNFSQPYMELVNTY-NTGKIVELETYVQTNREKFES 284 (347)
Q Consensus 216 vea~Kk~i---Lv~LL~~G~i~~~lp~~~s~~~~r~-------~k~~~~pY~~la~a~-~~g~~~~~~~~~~~~~~~f~~ 284 (347)
-+||||+- -+.|+..|=-|+.+||--=+.+.+. ||+.-.++.+|.... +..|++.+.+-++-|+....+
T Consensus 19 ~~aF~~L~i~da~~li~~G~hP~~LPkkwY~~v~~~~P~kLyLFkPkhV~~~DLi~~i~~~~nve~y~~HI~f~K~~ilq 98 (725)
T PHA02695 19 ERAFAALSTSEAMSLMLDGVHPKHLPRRLYAPVSAEHPTHLHLFRPQHVTPEDLLEELSRRRCGALFARHIEFHTPYLVQ 98 (725)
T ss_pred HHHHHhcCHHHHHHHHHcCCCCccCCHHHHHHHHHhCCceEEEeccCcCCHHHHHHHHHHhccHHHHHHHHHHhHHHHHH
Confidence 36788875 3678888988878888433333332 344445777876655 668999999999999999999
Q ss_pred cccccHHHHHHHHHHHH--HHHHHHhhhhcccHHHHHHHcCC------C---ChhhHHHHHHH
Q 019008 285 DNNLGLVKQVVSSMYKR--NIQRLTQTYLTLSLQDIANTVQL------N---SSKEAEMHVLQ 336 (347)
Q Consensus 285 D~n~gLV~~~~~~~~r~--~I~~L~~~Ys~IsL~dIa~~l~l------~---s~~eaE~~v~~ 336 (347)
.++..++.+|+.-+.-. -||-|..-| .-.++||-..++- + |++.+|.++.+
T Consensus 99 ~~~~~li~kCi~yM~i~DDDiR~l~~rF-~~~vd~iL~~iN~~Si~~iny~FSd~~~E~i~~~ 160 (725)
T PHA02695 99 FADYALLCRCIPYMNITEDDVRLIEERF-PDDVDDILLHVNARSVHNINAAFTDEMMEDIVEA 160 (725)
T ss_pred hcCHHHHHHHhhhcccccchHHHHHHHh-cchHHHHHHhhhHHHhhhhhhhccHHHHHHHHhc
Confidence 99999999998866533 677777777 5556666555432 2 56777766653
No 205
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.65 E-value=3.7e+02 Score=25.98 Aligned_cols=108 Identities=11% Similarity=0.165 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccc---cccCCchh
Q 019008 99 EKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDI---YEINLPRD 175 (347)
Q Consensus 99 ~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i---~~i~~~~~ 175 (347)
.+..++-..+.+++...+.-...+..++.-+.+.+|.. +.+-.-|-+.....+..+.|....++-- -..+...-
T Consensus 174 KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~---p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~ 250 (366)
T KOG2796|consen 174 KRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQE---PQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQG 250 (366)
T ss_pred HHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCccc---HHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccch
Confidence 44445555555555545555556777888787655543 5566789999999999999988777321 11121122
Q ss_pred hHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 176 FFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 176 ~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
-..-+--.+.||.+.++|.+|..+|..++. -|++
T Consensus 251 ~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~ 285 (366)
T KOG2796|consen 251 KIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRN 285 (366)
T ss_pred hHHHHhhhhhheecccchHHHHHHHhhccccCCCc
Confidence 233344566788999999999999988885 6654
No 206
>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]
Probab=38.12 E-value=5e+02 Score=28.61 Aligned_cols=101 Identities=15% Similarity=0.238 Sum_probs=68.7
Q ss_pred CCCcccCHHHhhhhhhcch--hH-HHHHHHHhcCChHHHHHHHHhccccccccccccHHHHHH---------HHHHHHHH
Q 019008 236 TLPKYTSSAAQRNLKNFSQ--PY-MELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVV---------SSMYKRNI 303 (347)
Q Consensus 236 ~lp~~~s~~~~r~~k~~~~--pY-~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~---------~~~~r~~I 303 (347)
++|.--...+.|.+.+... -| ..+.-||+...+..++.. ....|.+-|....++ ..++-..|
T Consensus 125 ~iD~rL~~iv~rmi~kcl~d~e~~~aiGia~E~~rld~ie~A------il~~d~~~~~~~yll~l~~s~v~~~efR~~vl 198 (929)
T KOG2062|consen 125 PIDQRLRDIVERMIQKCLDDNEYKQAIGIAFETRRLDIIEEA------ILKSDSVIGNLTYLLELLISLVNNREFRNKVL 198 (929)
T ss_pred CCCHHHHHHHHHHHHHhhhhhHHHHHHhHHhhhhhHHHHHHH------hccccccchHHHHHHHHHHHHHhhHHHHHHHH
Confidence 4444345566666655432 23 457778888888777765 444555554444443 24445678
Q ss_pred HHHHhhhhcccHHHHHHHc----CCCChhhHHHHHHHHhhccc
Q 019008 304 QRLTQTYLTLSLQDIANTV----QLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 304 ~~L~~~Ys~IsL~dIa~~l----~l~s~~eaE~~v~~mI~~G~ 342 (347)
+.+-++|...+=.|+-.-. .+++++-|-.++.+.+++..
T Consensus 199 r~lv~~y~~~~~PDy~~vc~c~v~Ldd~~~va~ll~kL~~e~~ 241 (929)
T KOG2062|consen 199 RLLVKTYLKLPSPDYFSVCQCYVFLDDAEAVADLLEKLVKEDD 241 (929)
T ss_pred HHHHHHHccCCCCCeeeeeeeeEEcCCHHHHHHHHHHHHhcch
Confidence 8999999999999987654 57889999999999998763
No 207
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=37.44 E-value=29 Score=20.74 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLED 165 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~ 165 (347)
..+.+++.|.+++.++.|..+++.
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~ 26 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDE 26 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHH
Confidence 457788888888888888877764
No 208
>PHA02992 hypothetical protein; Provisional
Probab=37.42 E-value=1.1e+02 Score=32.91 Aligned_cols=122 Identities=16% Similarity=0.234 Sum_probs=83.6
Q ss_pred HHHHHHHHHH---HHHHhcCCCCCCCCcccCHHHhhh-------hhhcchhHHHHHHHH-hcCChHHHHHHHHhcccccc
Q 019008 215 AVEAYKKYIL---VSLIHHGQFSSTLPKYTSSAAQRN-------LKNFSQPYMELVNTY-NTGKIVELETYVQTNREKFE 283 (347)
Q Consensus 215 ~vea~Kk~iL---v~LL~~G~i~~~lp~~~s~~~~r~-------~k~~~~pY~~la~a~-~~g~~~~~~~~~~~~~~~f~ 283 (347)
..+||||+-. +.|+..|=-|+.+|+--=+.+.+. ||+.-.++.+|.... +..|++.+.+-++-|+....
T Consensus 19 l~~aF~~L~i~da~~Li~~G~hP~~LPkk~Y~~v~~~~P~kLyLFkPkhV~f~DLi~~i~~~~nve~ya~HI~fhk~~il 98 (728)
T PHA02992 19 LTKAFKKLRIDDAMRLIISGLHPTSLPKKWYNEVVETLPEKLYLFKPKHVLFIDLISVITKQKNVELYASHINFHKNEIL 98 (728)
T ss_pred HHHHHHhcCHHHHHHHHHcCCCCccCCHHHHHHHHHhCCceEEEeccCcCCHHHHHHHHHHhccHHHHHHHHHHhHHHHH
Confidence 3467777653 577888988878888433333332 345456778877665 66899999999999999999
Q ss_pred ccccccHHHHHHHHHHHH--HHHHHHhhhhcccHHHHHHHcCC---------CChhhHHHHHHH
Q 019008 284 SDNNLGLVKQVVSSMYKR--NIQRLTQTYLTLSLQDIANTVQL---------NSSKEAEMHVLQ 336 (347)
Q Consensus 284 ~D~n~gLV~~~~~~~~r~--~I~~L~~~Ys~IsL~dIa~~l~l---------~s~~eaE~~v~~ 336 (347)
+.++..|+.+|+.-+.-. -||-|..-|.--.+.+|-..++- =|++.+|.++.+
T Consensus 99 q~~~~~li~kCi~yM~i~DDDiR~L~~RF~~~~vd~iL~~iN~~Si~~isy~FSd~~~E~i~~~ 162 (728)
T PHA02992 99 QKCDKSLIAKCIPYMTISDDDIRCLRSRFYNNSVDYILSFINKESIYRMSYQFSESLTEKIFIQ 162 (728)
T ss_pred HhcCHHHHHHHhhhcccccchHHHHHHHhcchhHHHHHHhcchhhhhhhhhhccHHHHHHHHHh
Confidence 999999999998766522 56666666654444444444432 256777776653
No 209
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=36.43 E-value=37 Score=24.24 Aligned_cols=25 Identities=28% Similarity=0.557 Sum_probs=22.3
Q ss_pred HHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 184 GMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 184 G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
.-||+.+++|++|.++++.++. .|.
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~ 27 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPD 27 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCcc
Confidence 3588999999999999999998 676
No 210
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.12 E-value=50 Score=34.22 Aligned_cols=109 Identities=15% Similarity=0.248 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHH--HHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhcch
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEA--YKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQ 254 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea--~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~~~ 254 (347)
.-||..|-|+..+.+|++|..-|+.|++ .|.+..+.|+.-+ ||---+-..+ + +-.-..+-|-+...
T Consensus 395 dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m----------~-~Fee~kkkFP~~~E 463 (606)
T KOG0547|consen 395 DVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESM----------K-TFEEAKKKFPNCPE 463 (606)
T ss_pred chhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHH----------H-HHHHHHHhCCCCch
Confidence 4578999999999999999999999999 8988777665532 2222222111 0 11122333444556
Q ss_pred hHHHHHHHHhcCChHHHHHHHHhccc--ccccc------ccccHHHHHHHHHH
Q 019008 255 PYMELVNTYNTGKIVELETYVQTNRE--KFESD------NNLGLVKQVVSSMY 299 (347)
Q Consensus 255 pY~~la~a~~~g~~~~~~~~~~~~~~--~f~~D------~n~gLV~~~~~~~~ 299 (347)
-|.-+++..- |-.+|.+.++.+.. ..+.+ |-..||.+.+--++
T Consensus 464 vy~~fAeiLt--DqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q 514 (606)
T KOG0547|consen 464 VYNLFAEILT--DQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ 514 (606)
T ss_pred HHHHHHHHHh--hHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc
Confidence 6766666654 34566666666433 34455 55667777666555
No 211
>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones [].; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.
Probab=35.93 E-value=69 Score=20.62 Aligned_cols=24 Identities=17% Similarity=0.357 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHH
Q 019008 178 LYCYYGGMIFIGQKRFRKALELLH 201 (347)
Q Consensus 178 ~Y~yy~G~i~~~~k~y~~A~~~l~ 201 (347)
.|.|--|..+-..|+|++|.++|+
T Consensus 2 e~~y~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 2 EYLYGLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred cHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567777888889999999999955
No 212
>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=35.87 E-value=1e+02 Score=21.41 Aligned_cols=31 Identities=13% Similarity=0.241 Sum_probs=27.3
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
++..+|++.++++ ...+...+..|.+.|.+.
T Consensus 21 ~~~~ei~~~~~i~-~~~i~~~l~~L~~~g~i~ 51 (78)
T cd00090 21 LTVSELAERLGLS-QSTVSRHLKKLEEAGLVE 51 (78)
T ss_pred cCHHHHHHHHCcC-HhHHHHHHHHHHHCCCeE
Confidence 8999999999986 788899999999988764
No 213
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=35.11 E-value=1.6e+02 Score=30.10 Aligned_cols=67 Identities=21% Similarity=0.175 Sum_probs=53.1
Q ss_pred hhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccc
Q 019008 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (347)
Q Consensus 140 T~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~ 210 (347)
++.-..+..+|..-+-|+-+..+|++.....+ . ..-+--.|-++.++.++++|.+.|..|++ -|.+.
T Consensus 438 ~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~--D--~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~ 505 (564)
T KOG1174|consen 438 TPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP--D--VNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK 505 (564)
T ss_pred HHHHHHHHHHHHhhCccchHHHHHHHHHhhcc--c--cHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch
Confidence 55557788999999999999999998655332 1 22345578999999999999999999999 88753
No 214
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=35.01 E-value=97 Score=26.69 Aligned_cols=37 Identities=19% Similarity=0.279 Sum_probs=32.4
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 173 ~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+..--.|.||.+.-+...|+|++|..+....+. -|.+
T Consensus 67 ~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n 104 (149)
T KOG3364|consen 67 PERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNN 104 (149)
T ss_pred cccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCc
Confidence 556678999999999999999999999999997 6654
No 215
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=34.99 E-value=4.2e+02 Score=25.51 Aligned_cols=105 Identities=10% Similarity=0.051 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHH
Q 019008 100 KFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLY 179 (347)
Q Consensus 100 ~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y 179 (347)
-|..|.+-+.. .+...-++..+++|++.-.+++..+.-+=..|.... -.+.-..|..++++.+- .+ ....+=
T Consensus 158 gW~~Lg~~ym~----~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a-~~~~ta~a~~ll~~al~-~D--~~~ira 229 (287)
T COG4235 158 GWDLLGRAYMA----LGRASDALLAYRNALRLAGDNPEILLGLAEALYYQA-GQQMTAKARALLRQALA-LD--PANIRA 229 (287)
T ss_pred hHHHHHHHHHH----hcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhc-CCcccHHHHHHHHHHHh-cC--CccHHH
Confidence 36666655443 233334778888888776666555544433333322 33334445566655432 12 223566
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchh
Q 019008 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMSSIN 212 (347)
Q Consensus 180 ~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s 212 (347)
.||-|+.+..+++|.+|...++.-+. .|....-
T Consensus 230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r 263 (287)
T COG4235 230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPR 263 (287)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence 78889999999999999999999996 8876433
No 216
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=34.02 E-value=4.5e+02 Score=26.09 Aligned_cols=166 Identities=15% Similarity=0.128 Sum_probs=86.5
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcc----cccccCC------------------
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED----DIYEINL------------------ 172 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~----~i~~i~~------------------ 172 (347)
-+..-|||...++.+.+-|-+..+=--.--.|-|.+..++.|+-|..++.. +.|..+.
T Consensus 82 RGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAI 161 (389)
T COG2956 82 RGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAI 161 (389)
T ss_pred cchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHH
Confidence 344557888888877775544332211223467999999999999987653 2222110
Q ss_pred --------------chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 019008 173 --------------PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTLP 238 (347)
Q Consensus 173 --------------~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp 238 (347)
.-....||--.+.-+....+.++|.+++..|+.+ -||-+=++++ .|++- +-
T Consensus 162 d~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa------------~~~cvRAsi~-lG~v~--~~ 226 (389)
T COG2956 162 DVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA------------DKKCVRASII-LGRVE--LA 226 (389)
T ss_pred HHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh------------Cccceehhhh-hhHHH--Hh
Confidence 1233444444455555555555555555555552 2222233322 23332 11
Q ss_pred cccCHHHhhhhhhcc---hhHH-----HHHHHHh-cCChHHHHHHHHhccccccccccccHHHHHH
Q 019008 239 KYTSSAAQRNLKNFS---QPYM-----ELVNTYN-TGKIVELETYVQTNREKFESDNNLGLVKQVV 295 (347)
Q Consensus 239 ~~~s~~~~r~~k~~~---~pY~-----~la~a~~-~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~ 295 (347)
+-.-+...+.+.+.. ..|. .|..+|. -|+++++...+....+.+....-.--+.+++
T Consensus 227 ~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~li 292 (389)
T COG2956 227 KGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLI 292 (389)
T ss_pred ccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHH
Confidence 111112222232211 2233 3445664 3888888888888887777665544444443
No 217
>PF14493 HTH_40: Helix-turn-helix domain
Probab=33.58 E-value=57 Score=25.29 Aligned_cols=31 Identities=19% Similarity=0.234 Sum_probs=27.8
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
-.|+.+||+.-++. ..-++.++.+++..|..
T Consensus 13 G~si~eIA~~R~L~-~sTI~~HL~~~~~~g~~ 43 (91)
T PF14493_consen 13 GLSIEEIAKIRGLK-ESTIYGHLAELIESGEP 43 (91)
T ss_pred CCCHHHHHHHcCCC-HHHHHHHHHHHHHhCCC
Confidence 58999999999998 78899999999999973
No 218
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=33.44 E-value=4.1e+02 Score=24.86 Aligned_cols=36 Identities=8% Similarity=0.246 Sum_probs=24.3
Q ss_pred HHHHHhcCChHHHHHHHHhccccccccccc-cHHHHH
Q 019008 259 LVNTYNTGKIVELETYVQTNREKFESDNNL-GLVKQV 294 (347)
Q Consensus 259 la~a~~~g~~~~~~~~~~~~~~~f~~D~n~-gLV~~~ 294 (347)
|..++++++...|....++++....+|..+ ..+.++
T Consensus 198 Ll~t~e~~~~~~F~~L~~~Y~~~L~rd~~~~~~L~~I 234 (260)
T PF04190_consen 198 LLLTCERDNLPLFKKLCEKYKPSLKRDPSFKEYLDKI 234 (260)
T ss_dssp HHHHHHHT-HHHHHHHHHHTHH---HHHHTHHHHHHH
T ss_pred HHHHHhcCcHHHHHHHHHHhCccccccHHHHHHHHHH
Confidence 446888999999999999999998888654 444333
No 219
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=33.39 E-value=1.2e+02 Score=32.38 Aligned_cols=54 Identities=22% Similarity=0.175 Sum_probs=24.3
Q ss_pred HHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 149 LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 149 l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
.|++...|+.|+-.+.+.+ +|++.+.++ .-|.|+++-..|+.++|+.+|+.|+.
T Consensus 498 vy~Kqek~e~Ae~~fqkA~-~INP~nsvi--~~~~g~~~~~~k~~d~AL~~~~~A~~ 551 (638)
T KOG1126|consen 498 VYLKQEKLEFAEFHFQKAV-EINPSNSVI--LCHIGRIQHQLKRKDKALQLYEKAIH 551 (638)
T ss_pred heeccchhhHHHHHHHhhh-cCCccchhH--HhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence 3455555555555554443 232221111 12334555555555555555555554
No 220
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=33.05 E-value=1.4e+02 Score=32.55 Aligned_cols=83 Identities=14% Similarity=0.175 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhh---hhc
Q 019008 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNL---KNF 252 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~---k~~ 252 (347)
..-+|-.|..+-..+.|.+|.+.|..|+. .|.+..+.-. .-+.. +..| -| .+|.-+ .+..... ..+
T Consensus 684 ~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~A---la~~l----le~G-~~-~la~~~-~~L~dalr~dp~n 753 (799)
T KOG4162|consen 684 ASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTA---LAELL----LELG-SP-RLAEKR-SLLSDALRLDPLN 753 (799)
T ss_pred HHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHH---HHHHH----HHhC-Cc-chHHHH-HHHHHHHhhCCCC
Confidence 34578899999999999999999999998 8876544221 12222 2235 34 444321 1111111 134
Q ss_pred chhHHHHHHHHhc-CChH
Q 019008 253 SQPYMELVNTYNT-GKIV 269 (347)
Q Consensus 253 ~~pY~~la~a~~~-g~~~ 269 (347)
++....++..++. ||.+
T Consensus 754 ~eaW~~LG~v~k~~Gd~~ 771 (799)
T KOG4162|consen 754 HEAWYYLGEVFKKLGDSK 771 (799)
T ss_pred HHHHHHHHHHHHHccchH
Confidence 5678888888865 6644
No 221
>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=32.96 E-value=59 Score=21.14 Aligned_cols=26 Identities=12% Similarity=0.189 Sum_probs=20.1
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+++.++|+.+|++ +..+.+++++|.+
T Consensus 2 lt~~e~a~~lgis-----~~ti~~~~~~g~i 27 (49)
T TIGR01764 2 LTVEEAAEYLGVS-----KDTVYRLIHEGEL 27 (49)
T ss_pred CCHHHHHHHHCCC-----HHHHHHHHHcCCC
Confidence 5789999999987 2467777888864
No 222
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=32.83 E-value=2.5e+02 Score=22.30 Aligned_cols=68 Identities=12% Similarity=0.181 Sum_probs=44.4
Q ss_pred CccHHHHHHHHhhcCCChhcHHHHHHHHHHhHHHHhhhhhhhhhhhhhcCchhhHHHHHHHHHHhhhcc
Q 019008 1 MQSIENLVTQIQGLSSNASDITALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCS 69 (347)
Q Consensus 1 ~~~l~~~~~~i~~~~~s~~~~~~L~~~L~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~L~vL~~~~~~~ 69 (347)
|.+.++++...+++..|+.+...|......+...-..-......-+... |..+-|+.||++...+...
T Consensus 1 ~~~~~~~l~~L~~~~~S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~-~~~~KL~~LYL~dsIvkn~ 68 (114)
T cd03562 1 VFDYNALLEKLTFNKNSQPSIQTLTKLAIENRKHAKEIVEIIEKHIKKC-PPEQKLPLLYLLDSIVKNV 68 (114)
T ss_pred CccHHHHHHHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CcccchHHHHHHHHHHHHc
Confidence 3456788888888877787888888877654422222222233334444 4488999999999888643
No 223
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=32.53 E-value=1.9e+02 Score=20.82 Aligned_cols=36 Identities=14% Similarity=0.247 Sum_probs=28.8
Q ss_pred hhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 308 QTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 308 ~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..+-+.++.+|.+..+++ ...+..-+.-+|+-|.+.
T Consensus 23 l~~G~ltl~~i~~~t~l~-~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 23 LSRGRLTLREIVRRTGLS-PKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp HHC-SEEHHHHHHHHT---HHHHHHHHHHHHHTTSEE
T ss_pred HHcCCcCHHHHHHHhCCC-HHHHHHHHHHHHHcCCee
Confidence 456789999999999988 889999999999988764
No 224
>PF07389 DUF1500: Protein of unknown function (DUF1500); InterPro: IPR009974 This family consists of several Orthopoxvirus specific proteins, which include Vaccinia virus, B6 protein, they are around 100 residues in length. The function of this family is unknown.
Probab=32.21 E-value=1.3e+02 Score=23.81 Aligned_cols=45 Identities=20% Similarity=0.259 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccc
Q 019008 296 SSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 296 ~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
++.+-++|.|+..--.-++..||-+. ++++.++|+-|.+-+.+|+
T Consensus 32 S~~IlhNIyrlftr~~vi~Fd~iVr~--mpNes~v~qWV~dtln~i~ 76 (100)
T PF07389_consen 32 SNAILHNIYRLFTRCAVIPFDDIVRT--MPNESRVKQWVIDTLNDIM 76 (100)
T ss_pred hHHHHHHHHHHHHhhccccHHHHHHh--CCCHHHHHHHHHHHHHhHh
Confidence 56677788888777777899999876 6778899999999999886
No 225
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=32.16 E-value=5.1e+02 Score=27.16 Aligned_cols=100 Identities=19% Similarity=0.228 Sum_probs=62.6
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHH
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~ 194 (347)
.+.+..+|.-+..||.| +|+...+-+ --.-++++-..|..|+.=-++.|- . ...+..=|..-|.++-++++|+
T Consensus 371 ~gdy~~Av~~YteAIkr-~P~Da~lYs---NRAac~~kL~~~~~aL~Da~~~ie-L--~p~~~kgy~RKg~al~~mk~yd 443 (539)
T KOG0548|consen 371 KGDYPEAVKHYTEAIKR-DPEDARLYS---NRAACYLKLGEYPEALKDAKKCIE-L--DPNFIKAYLRKGAALRAMKEYD 443 (539)
T ss_pred ccCHHHHHHHHHHHHhc-CCchhHHHH---HHHHHHHHHhhHHHHHHHHHHHHh-c--CchHHHHHHHHHHHHHHHHHHH
Confidence 44455578888888877 566543322 222344455555555554444332 1 2245566667799999999999
Q ss_pred HHHHHHHHhhc-CCccchhHHHHHHHHHHHH
Q 019008 195 KALELLHNVVT-APMSSINAIAVEAYKKYIL 224 (347)
Q Consensus 195 ~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iL 224 (347)
+|.+.|+-++. -|.. .-.++.|++-+=
T Consensus 444 kAleay~eale~dp~~---~e~~~~~~rc~~ 471 (539)
T KOG0548|consen 444 KALEAYQEALELDPSN---AEAIDGYRRCVE 471 (539)
T ss_pred HHHHHHHHHHhcCchh---HHHHHHHHHHHH
Confidence 99999999997 6653 333455565543
No 226
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=32.09 E-value=4e+02 Score=28.85 Aligned_cols=51 Identities=16% Similarity=0.335 Sum_probs=41.7
Q ss_pred hhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccc--------------hhHHHHHHHHHHHHH
Q 019008 175 DFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS--------------INAIAVEAYKKYILV 225 (347)
Q Consensus 175 ~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~--------------~s~i~vea~Kk~iLv 225 (347)
.++.=||-.|-+|-..+.|++|..+++.|+. .|..+ .-...|.+||+-+=+
T Consensus 250 ~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~ 315 (966)
T KOG4626|consen 250 NFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL 315 (966)
T ss_pred cchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc
Confidence 4666778899999999999999999999997 77542 346789999987643
No 227
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=32.01 E-value=71 Score=29.91 Aligned_cols=63 Identities=14% Similarity=0.021 Sum_probs=47.5
Q ss_pred HHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..|--.|+..+++..|..-++|.+-+=|+ . -+=+--.+.+|..+++-+.|.+.|++|++ .|.+
T Consensus 39 lqLal~YL~~gd~~~A~~nlekAL~~DPs--~-~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~ 102 (250)
T COG3063 39 LQLALGYLQQGDYAQAKKNLEKALEHDPS--Y-YLAHLVRAHYYQKLGENDLADESYRKALSLAPNN 102 (250)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCcc--c-HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCc
Confidence 44666899999999999999998753222 1 22223345667889999999999999998 8875
No 228
>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=31.97 E-value=56 Score=26.88 Aligned_cols=33 Identities=18% Similarity=0.124 Sum_probs=29.5
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.+|..+||++++++ ..-+..++..+.+.|.+..
T Consensus 25 ~~s~~eia~~l~is-~~~v~~~l~~L~~~Gli~~ 57 (130)
T TIGR02944 25 PYSAAEIAEQTGLN-APTVSKILKQLSLAGIVTS 57 (130)
T ss_pred CccHHHHHHHHCcC-HHHHHHHHHHHHHCCcEEe
Confidence 58999999999998 7889999999999998743
No 229
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=31.84 E-value=3.2e+02 Score=27.81 Aligned_cols=60 Identities=18% Similarity=0.175 Sum_probs=43.8
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCH
Q 019008 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSS 243 (347)
Q Consensus 173 ~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~ 243 (347)
..|+..+|+-+|.+-.+.|.|.+|.++-++ .+-.+..+--|++|+ |-.|.+. .++.|++.
T Consensus 153 ~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs---------~khvInm~ln~i~VS-I~~~nw~-hv~sy~~~ 212 (466)
T KOG0686|consen 153 LEDLGDHYLDCGQLDNALRCYSRARDYCTS---------AKHVINMCLNLILVS-IYMGNWG-HVLSYISK 212 (466)
T ss_pred HHHHHHHHHHhccHHHHHhhhhhhhhhhcc---------hHHHHHHHHHHHHHH-Hhhcchh-hhhhHHHH
Confidence 357777777799999999999999885332 233355677899999 5567877 77776653
No 230
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=31.80 E-value=57 Score=28.97 Aligned_cols=32 Identities=28% Similarity=0.241 Sum_probs=29.2
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.+.++||++++++|..-+-..+.+|.+.|.+.
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~ 57 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIE 57 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEe
Confidence 78899999999998888999999999999864
No 231
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=31.44 E-value=1.6e+02 Score=21.07 Aligned_cols=35 Identities=6% Similarity=-0.019 Sum_probs=30.4
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..-..+..|||+.++++ ...+-..+.++.+.|.+-
T Consensus 19 ~~~~~t~~eIa~~l~i~-~~~v~~~L~~L~~~GlV~ 53 (68)
T PF01978_consen 19 KNGPATAEEIAEELGIS-RSTVYRALKSLEEKGLVE 53 (68)
T ss_dssp HHCHEEHHHHHHHHTSS-HHHHHHHHHHHHHTTSEE
T ss_pred HcCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 45667899999999999 788999999999999764
No 232
>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair]
Probab=31.37 E-value=1.1e+02 Score=29.01 Aligned_cols=67 Identities=10% Similarity=0.184 Sum_probs=45.4
Q ss_pred ccccccccccccHHHHHHHHHHHHHHH---------HHHhhhh---cc----cHHHHHHHcC----------CCChhhHH
Q 019008 278 NREKFESDNNLGLVKQVVSSMYKRNIQ---------RLTQTYL---TL----SLQDIANTVQ----------LNSSKEAE 331 (347)
Q Consensus 278 ~~~~f~~D~n~gLV~~~~~~~~r~~I~---------~L~~~Ys---~I----sL~dIa~~l~----------l~s~~eaE 331 (347)
+.=.|..||-+.|-+-+--.+.+.+|+ .+.++|. +. .+...-+.+| ++++...-
T Consensus 153 ~~~Afvtdg~wDl~~~l~~qck~~~i~~P~~f~qwInirk~yk~~y~~~~~t~it~mLe~~gL~f~Gr~HsGiDDa~Nia 232 (280)
T KOG0542|consen 153 GKFAFVTDGDWDLWVFLQYQCKLKNIRIPAFFNQWINIRKIYKNFYNRPAPTNITGMLEHYGLQFEGRAHSGIDDARNIA 232 (280)
T ss_pred CceEEEeCchhhHHHHHHHHHHHhcCCCcHHHHHHhHHHHHHHHHhcCccccCHHHHHHHhCCcccCCcccCchhHHHHH
Confidence 566799999998877776666555432 3444442 22 4555555554 56677888
Q ss_pred HHHHHHhhccccc
Q 019008 332 MHVLQMVTFEVNL 344 (347)
Q Consensus 332 ~~v~~mI~~G~~~ 344 (347)
.++.+||+||...
T Consensus 233 ~I~~kM~~dg~~~ 245 (280)
T KOG0542|consen 233 RIAQKMIRDGAEF 245 (280)
T ss_pred HHHHHHHhCCcEE
Confidence 9999999999754
No 233
>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=31.36 E-value=91 Score=22.23 Aligned_cols=34 Identities=9% Similarity=-0.004 Sum_probs=27.2
Q ss_pred hcc-cHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 311 LTL-SLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 311 s~I-sL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.++ |..++|++++++ ..-+...+..+..+|.+..
T Consensus 22 ~~lps~~~la~~~~vs-r~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 22 DRLPSERELAERYGVS-RTTVREALRRLEAEGLIER 56 (64)
T ss_dssp SBE--HHHHHHHHTS--HHHHHHHHHHHHHTTSEEE
T ss_pred CEeCCHHHHHHHhccC-CcHHHHHHHHHHHCCcEEE
Confidence 478 999999999988 7788888899999998753
No 234
>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=31.21 E-value=73 Score=21.47 Aligned_cols=29 Identities=14% Similarity=0.295 Sum_probs=23.0
Q ss_pred hhcccHHHHHHHcCCCChhhHHHHHHHHhh
Q 019008 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMVT 339 (347)
Q Consensus 310 Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~ 339 (347)
|...|+++||+.+|++ ...+..+..++++
T Consensus 18 ~~~~t~~eIa~~lg~s-~~~V~~~~~~al~ 46 (50)
T PF04545_consen 18 FEGLTLEEIAERLGIS-RSTVRRILKRALK 46 (50)
T ss_dssp TST-SHHHHHHHHTSC-HHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCc-HHHHHHHHHHHHH
Confidence 6789999999999997 7777777776664
No 235
>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=31.11 E-value=1.1e+02 Score=24.67 Aligned_cols=36 Identities=14% Similarity=0.144 Sum_probs=31.1
Q ss_pred hhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 308 QTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 308 ~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
|..-+||.+.+++..+++ ...+...+...|+.|++.
T Consensus 50 Kk~d~Is~sq~~e~tg~~-~~~V~~al~~Li~~~vI~ 85 (100)
T PF04492_consen 50 KKMDRISNSQIAEMTGLS-RDHVSKALNELIRRGVII 85 (100)
T ss_pred CccceeeHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 444589999999999988 788999999999999875
No 236
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=31.02 E-value=55 Score=24.31 Aligned_cols=32 Identities=16% Similarity=0.383 Sum_probs=20.6
Q ss_pred hhcccHHHHHHHcCCCC---------hhhHHHHHHHHhhcc
Q 019008 310 YLTLSLQDIANTVQLNS---------SKEAEMHVLQMVTFE 341 (347)
Q Consensus 310 Ys~IsL~dIa~~l~l~s---------~~eaE~~v~~mI~~G 341 (347)
++.=++.+||+.+|+++ ++|+|+-+.+-|++.
T Consensus 4 ~~~esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a 44 (66)
T PF02969_consen 4 FSQESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEA 44 (66)
T ss_dssp --HHHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34446789999999864 457888877777664
No 237
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.65 E-value=1.7e+02 Score=25.88 Aligned_cols=33 Identities=6% Similarity=0.055 Sum_probs=29.8
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..++-.|+|+.+|+. ..++..++.++-++|.+.
T Consensus 35 g~~tdeeLA~~Lgi~-~~~VRk~L~~L~e~gLv~ 67 (178)
T PRK06266 35 GEVTDEEIAEQTGIK-LNTVRKILYKLYDARLAD 67 (178)
T ss_pred CCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCeE
Confidence 458999999999997 799999999999999865
No 238
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.49 E-value=1.3e+02 Score=25.41 Aligned_cols=46 Identities=9% Similarity=0.069 Sum_probs=38.5
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 299 ~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.+..|..+.+-=-++++.|+...+|++ -.-++.++.++++.|.+..
T Consensus 13 Lk~rIvElVRe~GRiTi~ql~~~TGas-R~Tvk~~lreLVa~G~l~~ 58 (127)
T PF06163_consen 13 LKARIVELVREHGRITIKQLVAKTGAS-RNTVKRYLRELVARGDLYR 58 (127)
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHCCC-HHHHHHHHHHHHHcCCeEe
Confidence 445666667777799999999999988 7889999999999998864
No 239
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=30.49 E-value=1.1e+02 Score=31.28 Aligned_cols=36 Identities=14% Similarity=0.154 Sum_probs=31.6
Q ss_pred hhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 174 RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 174 ~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
-+....++--|.++..+++|++|..+|+.|+. .|..
T Consensus 72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~ 108 (453)
T PLN03098 72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNP 108 (453)
T ss_pred CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCc
Confidence 35677888889999999999999999999998 7764
No 240
>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=30.26 E-value=1.2e+02 Score=23.72 Aligned_cols=35 Identities=9% Similarity=0.036 Sum_probs=30.5
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.-..+|-.+||+.++++ .+.+-..+.++.+.|.+.
T Consensus 44 ~~~~is~~eLa~~~g~s-r~tVsr~L~~Le~~GlI~ 78 (95)
T TIGR01610 44 KQDRVTATVIAELTGLS-RTHVSDAIKSLARRRIIF 78 (95)
T ss_pred cCCccCHHHHHHHHCcC-HHHHHHHHHHHHHCCCee
Confidence 45678999999999997 678889999999999875
No 241
>KOG3783 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.22 E-value=6.7e+02 Score=26.38 Aligned_cols=166 Identities=14% Similarity=0.116 Sum_probs=84.8
Q ss_pred HHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhh-HHHHHHHHHHHHhhhcHHHHHHHHHHh
Q 019008 125 MLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDF-FLYCYYGGMIFIGQKRFRKALELLHNV 203 (347)
Q Consensus 125 L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~-l~Y~yy~G~i~~~~k~y~~A~~~l~~a 203 (347)
|...-.++.|++. .--...+.....++-+.|....+..+- +. -+++ ..-+|-.|++++.+.+|.+|.+.+..-
T Consensus 256 Ll~~~~~~p~ga~----wll~~ar~l~~~g~~eaa~~~~~~~v~-~~-~kQ~~~l~~fE~aw~~v~~~~~~~aad~~~~L 329 (546)
T KOG3783|consen 256 LKKYRKRYPKGAL----WLLMEARILSIKGNSEAAIDMESLSIP-IR-MKQVKSLMVFERAWLSVGQHQYSRAADSFDLL 329 (546)
T ss_pred hHHHHHhCCCCcc----HHHHHHHHHHHcccHHHHHHHHHhccc-HH-HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 3344445555433 223455777778887777777777665 22 3333 333455678888888888876554433
Q ss_pred hc------------------CCcc----c--hhHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhc-------
Q 019008 204 VT------------------APMS----S--INAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNF------- 252 (347)
Q Consensus 204 i~------------------~P~~----~--~s~i~vea~Kk~iLv~LL~~G~i~~~lp~~~s~~~~r~~k~~------- 252 (347)
.. .|.. + -....-...|.-...-- --||.. |+.+|.---+.|.-++.
T Consensus 330 ~desdWS~a~Y~Yfa~cc~l~~~~~~q~~~~ne~~a~~~~k~~~~l~~-~a~K~~-P~E~f~~RKverf~~~~~~~~~~~ 407 (546)
T KOG3783|consen 330 RDESDWSHAFYTYFAGCCLLQNWEVNQGAGGNEEKAQLYFKVGEELLA-NAGKNL-PLEKFIVRKVERFVKRGPLNASIL 407 (546)
T ss_pred HhhhhhhHHHHHHHHHHHHhccHHHHHhcccchhHHHHHHHHHHHHHH-hccccC-chhHHHHHHHHHHhcccccccccc
Confidence 21 2210 0 01111111122222111 136777 77776554454443332
Q ss_pred -chhHHHHH---HHHhcCChHHHHHHHHhccccccccccccHHHHHHHHH
Q 019008 253 -SQPYMELV---NTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSM 298 (347)
Q Consensus 253 -~~pY~~la---~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~~~~~ 298 (347)
..||.+++ +.|+..+.+++...-...+..+..|.--..++.++..+
T Consensus 408 la~P~~El~Y~Wngf~~~s~~~l~k~~~~~~~~~~~d~Dd~~lk~lL~g~ 457 (546)
T KOG3783|consen 408 LASPYYELAYFWNGFSRMSKNELEKMRAELENPKIDDSDDEGLKYLLKGV 457 (546)
T ss_pred ccchHHHHHHHHhhcccCChhhHHHHHHHHhccCCCCchHHHHHHHHHHH
Confidence 13999988 45566665665544444445555465543333333333
No 242
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.17 E-value=1.2e+02 Score=29.16 Aligned_cols=125 Identities=17% Similarity=0.240 Sum_probs=65.0
Q ss_pred CchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHH
Q 019008 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIA 215 (347)
Q Consensus 137 ~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~ 215 (347)
.+||.+-...+.++.-...+..|.-+...=--..+ ++..+ .---+.+.+.+++|++|...++.++. -|..
T Consensus 170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~-~T~~l--lnG~Av~~l~~~~~eeAe~lL~eaL~kd~~d------ 240 (299)
T KOG3081|consen 170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTP-PTPLL--LNGQAVCHLQLGRYEEAESLLEEALDKDAKD------ 240 (299)
T ss_pred HHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccC-CChHH--HccHHHHHHHhcCHHHHHHHHHHHHhccCCC------
Confidence 45555555555555555555555444332000001 11110 11124577899999999999999996 4432
Q ss_pred HHHHHHHHHHHHHhcCCCCCCC-CcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhcc
Q 019008 216 VEAYKKYILVSLIHHGQFSSTL-PKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNR 279 (347)
Q Consensus 216 vea~Kk~iLv~LL~~G~i~~~l-p~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~ 279 (347)
-|+.--.|... ++.|+-+ +. .++.++.. ...|=+.|+.-+... -.+|.+.+.++.
T Consensus 241 petL~Nliv~a-~~~Gkd~-~~~~r~l~QLk------~~~p~h~~vk~~~ek-eaeFDrl~~qy~ 296 (299)
T KOG3081|consen 241 PETLANLIVLA-LHLGKDA-EVTERNLSQLK------LSHPEHPFVKHLNEK-EAEFDRLVLQYD 296 (299)
T ss_pred HHHHHHHHHHH-HHhCCCh-HHHHHHHHHHH------hcCCcchHHHHHHHH-HHHHHHHHHHhc
Confidence 12222333333 4568876 32 22222221 224666677766553 357777777654
No 243
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=30.10 E-value=3e+02 Score=25.31 Aligned_cols=59 Identities=20% Similarity=0.295 Sum_probs=41.8
Q ss_pred HHHHHHHhcCCchhhhhhhcccccccCC----chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCc
Q 019008 145 EFLQLCLLAKCYKAGLSVLEDDIYEINL----PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (347)
Q Consensus 145 ~ll~l~l~~~~y~~Al~~l~~~i~~i~~----~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~ 208 (347)
-+.+.-...+.+..|.+.|++-. +.++ +.-.+.| |+.+.++++|.+|...|+.+++ +|.
T Consensus 129 glA~Aqfa~~~~A~a~~tLe~l~-e~~pa~r~pd~~Ll~----aR~laa~g~~a~Aesafe~a~~~ypg 192 (251)
T COG4700 129 GLAQAQFAIQEFAAAQQTLEDLM-EYNPAFRSPDGHLLF----ARTLAAQGKYADAESAFEVAISYYPG 192 (251)
T ss_pred HHHHHHHhhccHHHHHHHHHHHh-hcCCccCCCCchHHH----HHHHHhcCCchhHHHHHHHHHHhCCC
Confidence 34555666777777777777632 2221 3334443 8999999999999999999998 776
No 244
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=29.85 E-value=2.2e+02 Score=20.78 Aligned_cols=26 Identities=19% Similarity=0.184 Sum_probs=17.8
Q ss_pred hhcccHHHHHHHcCCCChhhHHHHHH
Q 019008 310 YLTLSLQDIANTVQLNSSKEAEMHVL 335 (347)
Q Consensus 310 Ys~IsL~dIa~~l~l~s~~eaE~~v~ 335 (347)
+...|+.|||.++|.+|...--....
T Consensus 43 ~~~~~i~~ia~~~Gf~~~~~f~~~fk 68 (81)
T PF12833_consen 43 NTDLSIAEIAEECGFSSQSHFSRAFK 68 (81)
T ss_dssp HTT--HHHHHHHTT-SSHHHHHHHHH
T ss_pred hhcccHHHHHHHcCCCCHHHHHHHHH
Confidence 57899999999999998776554443
No 245
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=29.46 E-value=94 Score=26.53 Aligned_cols=30 Identities=17% Similarity=0.242 Sum_probs=26.0
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhcccccccC
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLYH 347 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~~ 347 (347)
-++.+|++.++++ +..|.++|++|-|.+.+
T Consensus 47 ati~eV~e~tgVs-----~~~I~~~IreGRL~~~~ 76 (137)
T TIGR03826 47 ATVSEIVEETGVS-----EKLILKFIREGRLQLKH 76 (137)
T ss_pred CCHHHHHHHHCcC-----HHHHHHHHHcCCeeccC
Confidence 8899999999988 35889999999998754
No 246
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=29.20 E-value=1.2e+02 Score=22.82 Aligned_cols=32 Identities=16% Similarity=0.178 Sum_probs=27.8
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.++++|||+.++++ ...+..++..+.+.|.+.
T Consensus 20 ~~t~~~ia~~l~i~-~~tv~r~l~~L~~~g~l~ 51 (91)
T smart00346 20 GLTLAELAERLGLS-KSTAHRLLNTLQELGYVE 51 (91)
T ss_pred CcCHHHHHHHhCCC-HHHHHHHHHHHHHCCCee
Confidence 59999999999998 678888999998888764
No 247
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=28.61 E-value=1.1e+02 Score=26.50 Aligned_cols=44 Identities=11% Similarity=0.080 Sum_probs=34.8
Q ss_pred HHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 300 r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
-+.|..+..---.+...|||+++++. +.-|-.++.++.+.|.+.
T Consensus 12 L~~Iy~l~~~~~~~~~~diA~~L~Vs-p~sVt~ml~rL~~~GlV~ 55 (154)
T COG1321 12 LETIYELLEEKGFARTKDIAERLKVS-PPSVTEMLKRLERLGLVE 55 (154)
T ss_pred HHHHHHHHhccCcccHHHHHHHhCCC-cHHHHHHHHHHHHCCCeE
Confidence 35666677666778999999999998 566667889999988764
No 248
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=28.57 E-value=1.8e+02 Score=20.56 Aligned_cols=47 Identities=6% Similarity=0.047 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 298 MYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 298 ~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
+.+.-|..|.. -.-|+++++.++.|.+=.+.....+.+++++|.+.+
T Consensus 7 ~~e~i~~~LR~-~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~ 53 (66)
T PF06969_consen 7 LREYIMLGLRC-NEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEI 53 (66)
T ss_dssp HHHHHHHHHHH-HSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHh-HCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEE
Confidence 34444555544 557999999999998866677889999999998764
No 249
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=28.51 E-value=43 Score=20.99 Aligned_cols=21 Identities=10% Similarity=0.123 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHhhhcHHHHH
Q 019008 177 FLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
...++.-|.++...++|++|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 455666678888889998885
No 250
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=28.38 E-value=84 Score=32.96 Aligned_cols=104 Identities=13% Similarity=0.129 Sum_probs=63.7
Q ss_pred cccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCC-----------------------
Q 019008 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----------------------- 172 (347)
Q Consensus 116 ~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~----------------------- 172 (347)
.+-.+||..|+. |+.+||+. +..+ -.|.=.+...+.=..|+..|++-|..-++
T Consensus 333 E~E~~ai~AL~r-cl~LdP~N--leaL-maLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~ 408 (579)
T KOG1125|consen 333 ENEQNAISALRR-CLELDPTN--LEAL-MALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSS 408 (579)
T ss_pred cchHHHHHHHHH-HHhcCCcc--HHHH-HHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHH
Confidence 334568888887 45678753 3333 33344455555566677777765431110
Q ss_pred -chhhHHHH----------------HHHHHHHHhhhcHHHHHHHHHHhhc-CCccc--------------hhHHHHHHHH
Q 019008 173 -PRDFFLYC----------------YYGGMIFIGQKRFRKALELLHNVVT-APMSS--------------INAIAVEAYK 220 (347)
Q Consensus 173 -~~~~l~Y~----------------yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~--------------~s~i~vea~K 220 (347)
-.++.++| --.|.+|-..++|++|.+||+.|++ -|.+. -|.=+|+||.
T Consensus 409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~ 488 (579)
T KOG1125|consen 409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYN 488 (579)
T ss_pred HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHH
Confidence 11222222 3457888889999999999999998 88641 2556677777
Q ss_pred HHH
Q 019008 221 KYI 223 (347)
Q Consensus 221 k~i 223 (347)
+-+
T Consensus 489 rAL 491 (579)
T KOG1125|consen 489 RAL 491 (579)
T ss_pred HHH
Confidence 653
No 251
>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=28.35 E-value=94 Score=22.00 Aligned_cols=26 Identities=12% Similarity=0.334 Sum_probs=18.8
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHh
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMV 338 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI 338 (347)
.+++.|+|+.+|++ ..-+...+.++.
T Consensus 23 ~~tl~elA~~lgis-~st~~~~LRrae 48 (53)
T PF04967_consen 23 RITLEELAEELGIS-KSTVSEHLRRAE 48 (53)
T ss_pred cCCHHHHHHHhCCC-HHHHHHHHHHHH
Confidence 68999999999998 344445555443
No 252
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=28.00 E-value=3.6e+02 Score=27.99 Aligned_cols=88 Identities=15% Similarity=0.144 Sum_probs=58.3
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
.+..|.++|+.+..+..-...++..| .-|..+|=.-+.-.+|-...-...-.+|.+-... -+.|--|+-..-|
T Consensus 570 ~led~aqaie~~~q~~slip~dp~il----skl~dlydqegdksqafq~~ydsyryfp~nie~i---ewl~ayyidtqf~ 642 (840)
T KOG2003|consen 570 LLEDPAQAIELLMQANSLIPNDPAIL----SKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETI---EWLAAYYIDTQFS 642 (840)
T ss_pred HhhCHHHHHHHHHHhcccCCCCHHHH----HHHHHHhhcccchhhhhhhhhhcccccCcchHHH---HHHHHHHHhhHHH
Confidence 46678888998888877666656544 3455666666776777655444433444333333 3446667788899
Q ss_pred HHHHHHHHHhhc-CCc
Q 019008 194 RKALELLHNVVT-APM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~ 208 (347)
++|..+||.|-- -|.
T Consensus 643 ekai~y~ekaaliqp~ 658 (840)
T KOG2003|consen 643 EKAINYFEKAALIQPN 658 (840)
T ss_pred HHHHHHHHHHHhcCcc
Confidence 999999999876 564
No 253
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=27.98 E-value=1.2e+02 Score=25.27 Aligned_cols=42 Identities=17% Similarity=0.119 Sum_probs=32.7
Q ss_pred HHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 302 ~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.|..+...-..++++|||+.++++ ...+-..|.+|.+.|.+.
T Consensus 12 ~I~~l~~~~~~~~~~ela~~l~vs-~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 12 QIYLLIEEKGYARVSDIAEALSVH-PSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred HHHHHHhcCCCcCHHHHHHHhCCC-hhHHHHHHHHHHHCCCEE
Confidence 444455555667889999999997 677888899999999764
No 254
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=27.60 E-value=1.7e+02 Score=20.83 Aligned_cols=24 Identities=25% Similarity=0.174 Sum_probs=19.0
Q ss_pred cccHHHHHHHcCCCChhhHHHHHH
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVL 335 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~ 335 (347)
.+++.|||..+|+.|.........
T Consensus 50 ~~~~~~ia~~~g~~s~~~f~r~Fk 73 (84)
T smart00342 50 DLSVTEIALRVGFSSQSYFSRAFK 73 (84)
T ss_pred CCCHHHHHHHhCCCChHHHHHHHH
Confidence 799999999999977766555443
No 255
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=27.09 E-value=1.3e+02 Score=24.11 Aligned_cols=35 Identities=6% Similarity=-0.036 Sum_probs=29.3
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
..-.++.++||+.++++. ..+-..|.+|.++|.+.
T Consensus 39 ~~~~~t~~ela~~~~~~~-~tvs~~l~~Le~~GlI~ 73 (118)
T TIGR02337 39 EQGSMEFTQLANQACILR-PSLTGILARLERDGLVT 73 (118)
T ss_pred HcCCcCHHHHHHHhCCCc-hhHHHHHHHHHHCCCEE
Confidence 355789999999999984 46788999999999775
No 256
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=26.53 E-value=1.6e+02 Score=21.59 Aligned_cols=37 Identities=16% Similarity=0.185 Sum_probs=25.9
Q ss_pred HHHHHHHHHhhh-hcccHHHHHHHcCCCChhhHHHHHHH
Q 019008 299 YKRNIQRLTQTY-LTLSLQDIANTVQLNSSKEAEMHVLQ 336 (347)
Q Consensus 299 ~r~~I~~L~~~Y-s~IsL~dIa~~l~l~s~~eaE~~v~~ 336 (347)
+++.+++|.+.+ ..-+..+||+.+|++ .+++..++..
T Consensus 6 i~~a~~~L~~~lgr~Pt~eEiA~~lgis-~~~v~~~l~~ 43 (78)
T PF04539_consen 6 IERARRELEQELGREPTDEEIAEELGIS-VEEVRELLQA 43 (78)
T ss_dssp HHHHHHHHHHHHSS--BHHHHHHHHTS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHccc-HHHHHHHHHh
Confidence 455666777777 556789999999998 7888876653
No 257
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=26.23 E-value=90 Score=20.04 Aligned_cols=26 Identities=12% Similarity=0.079 Sum_probs=18.9
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
+++.++|+.++++. ..|.+++++|.+
T Consensus 1 ~s~~e~a~~lgvs~-----~tl~~~~~~g~~ 26 (49)
T cd04762 1 LTTKEAAELLGVSP-----STLRRWVKEGKL 26 (49)
T ss_pred CCHHHHHHHHCcCH-----HHHHHHHHcCCC
Confidence 47889999999872 456677777754
No 258
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=26.22 E-value=1.2e+02 Score=23.42 Aligned_cols=52 Identities=17% Similarity=0.142 Sum_probs=30.3
Q ss_pred HHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHH
Q 019008 147 LQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALEL 199 (347)
Q Consensus 147 l~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~ 199 (347)
+++| .++....|+..-.+..-.+..+.+-.+-+=|...+|+-.|+|+++++|
T Consensus 14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f 65 (80)
T PF10579_consen 14 LKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF 65 (80)
T ss_pred HHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555 666667777666665544444445444444555566666666666654
No 259
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=26.18 E-value=87 Score=33.88 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 177 l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..=+|-.|.......+|+.|..+|..|++ .|.+
T Consensus 519 ~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~ 552 (777)
T KOG1128|consen 519 LGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDN 552 (777)
T ss_pred hhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCc
Confidence 33456668899999999999999999999 9975
No 260
>PF12728 HTH_17: Helix-turn-helix domain
Probab=25.87 E-value=89 Score=21.05 Aligned_cols=26 Identities=12% Similarity=0.184 Sum_probs=20.1
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
++.+|+|+.++++ . ..+.+|+++|.+
T Consensus 2 lt~~e~a~~l~is-~----~tv~~~~~~g~i 27 (51)
T PF12728_consen 2 LTVKEAAELLGIS-R----STVYRWIRQGKI 27 (51)
T ss_pred CCHHHHHHHHCcC-H----HHHHHHHHcCCC
Confidence 5789999999987 2 357778888765
No 261
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=25.71 E-value=1.9e+02 Score=18.51 Aligned_cols=45 Identities=11% Similarity=0.242 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHhhh-hcccHHHHHHHcCCCChhhHHHHHHHH
Q 019008 292 KQVVSSMYKRNIQRLTQTY-LTLSLQDIANTVQLNSSKEAEMHVLQM 337 (347)
Q Consensus 292 ~~~~~~~~r~~I~~L~~~Y-s~IsL~dIa~~l~l~s~~eaE~~v~~m 337 (347)
..++..+.-..-.-+...| .-.+..+||+.+|++ ...+...+.+.
T Consensus 5 ~~~~~~l~~~~~~~~~~~~~~~~~~~~ia~~~~~s-~~~i~~~~~~~ 50 (55)
T cd06171 5 EEALDKLPEREREVILLRFGEGLSYEEIAEILGIS-RSTVRQRLHRA 50 (55)
T ss_pred HHHHHhCCHHHHHHHHHHHhcCCCHHHHHHHHCcC-HHHHHHHHHHH
Confidence 3344444444444444555 889999999999987 44444444443
No 262
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=25.61 E-value=1.7e+02 Score=21.95 Aligned_cols=34 Identities=9% Similarity=0.079 Sum_probs=29.1
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLY 346 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~ 346 (347)
.++.++|++.++++ ...+...|.+|.+.|.+..+
T Consensus 24 ~~~~~~la~~~~~s-~~~i~~~l~~L~~~g~v~~~ 57 (101)
T smart00347 24 PLSVSELAKRLGVS-PSTVTRVLDRLEKKGLIRRL 57 (101)
T ss_pred CcCHHHHHHHHCCC-chhHHHHHHHHHHCCCeEec
Confidence 58899999999987 66788999999999988644
No 263
>PRK04841 transcriptional regulator MalT; Provisional
Probab=25.31 E-value=5e+02 Score=28.32 Aligned_cols=173 Identities=15% Similarity=0.125 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcccccccCC---chhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHHHHH
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINL---PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVE 217 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~---~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i~ve 217 (347)
.+..+.+.....+.++.|...+.+..-.... ..+..+-+...|..+..++++++|.+.|+.|+. +.....-...++
T Consensus 693 ~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~~~g~~r~f~~ 772 (903)
T PRK04841 693 QWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLANRTGFISHFVI 772 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCccchhhhHHh
Q ss_pred HHHHH--HHHHHHhcCCCCCCCCcccCHHHhhh--------hhhcchhHHHHHHHHhcCChHHHHHHHHhcccccccccc
Q 019008 218 AYKKY--ILVSLIHHGQFSSTLPKYTSSAAQRN--------LKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNN 287 (347)
Q Consensus 218 a~Kk~--iLv~LL~~G~i~~~lp~~~s~~~~r~--------~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n 287 (347)
..... +|-.++..+..+ ...+...+...+. .......|.+-...-.......
T Consensus 773 ~g~~l~~lL~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------- 834 (903)
T PRK04841 773 EGEAMAQQLRQLIQLNTLP-ELEQHRAQRILREINQHHRHKFAHFDEAFVEKLLNHPDVPELI----------------- 834 (903)
T ss_pred ccHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHHHHhccccccCCHHHHHHHhcCCCCCccc-----------------
Q ss_pred ccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhh
Q 019008 288 LGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVT 339 (347)
Q Consensus 288 ~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~ 339 (347)
....+-.+.+.-+.....-.|-++||.+++++ ..-|+.++.+.-+
T Consensus 835 ------~~~~lt~~e~~v~~~~~~g~~~~~ia~~l~~s-~~tv~~h~~~~~~ 879 (903)
T PRK04841 835 ------RTSPLTQREWQVLGLIYSGYSNEQIAGELDVA-ATTIKTHIRNLYQ 879 (903)
T ss_pred ------ccCCCCHHHHHHHHHHHcCCCHHHHHHHhCCC-HHHHHHHHHHHHH
No 264
>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=24.63 E-value=63 Score=21.61 Aligned_cols=19 Identities=26% Similarity=0.478 Sum_probs=17.1
Q ss_pred HhhhhcccHHHHHHHcCCC
Q 019008 307 TQTYLTLSLQDIANTVQLN 325 (347)
Q Consensus 307 ~~~Ys~IsL~dIa~~l~l~ 325 (347)
.+-|..+|+.+||++.+++
T Consensus 11 ~~G~~~~s~~~Ia~~~gvs 29 (47)
T PF00440_consen 11 EKGYEAVSIRDIARRAGVS 29 (47)
T ss_dssp HHHTTTSSHHHHHHHHTSC
T ss_pred HhCHHhCCHHHHHHHHccc
Confidence 5679999999999999986
No 265
>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=24.58 E-value=5.9e+02 Score=23.86 Aligned_cols=107 Identities=13% Similarity=0.225 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHh-cCCchhhhhhhcccccccCC-chhhHH
Q 019008 101 FINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLL-AKCYKAGLSVLEDDIYEINL-PRDFFL 178 (347)
Q Consensus 101 ~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~-~~~y~~Al~~l~~~i~~i~~-~~~~l~ 178 (347)
|..+.+.+... .|+...|....+-...+..=--+...+..+=.. .+..+.|..+++.-.-.++. ..-++.
T Consensus 4 ~i~~m~~~~r~--------~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~ 75 (280)
T PF05843_consen 4 WIQYMRFMRRT--------EGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLE 75 (280)
T ss_dssp HHHHHHHHHHH--------HHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred HHHHHHHHHHh--------CChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhc-CCccchhHH-HHHHHHHHH
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAI-AVEAYKKYI 223 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~~~s~i-~vea~Kk~i 223 (347)
|.-|. +..++-+.|...|+.+++ .|. .. +...||||+
T Consensus 76 Y~~~l----~~~~d~~~aR~lfer~i~~l~~----~~~~~~iw~~~i 114 (280)
T PF05843_consen 76 YLDFL----IKLNDINNARALFERAISSLPK----EKQSKKIWKKFI 114 (280)
T ss_dssp HHHHH----HHTT-HHHHHHHHHHHCCTSSC----HHHCHHHHHHHH
T ss_pred HHHHH----HHhCcHHHHHHHHHHHHHhcCc----hhHHHHHHHHHH
No 266
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=24.54 E-value=60 Score=19.62 Aligned_cols=18 Identities=28% Similarity=0.255 Sum_probs=14.8
Q ss_pred HhhhcHHHHHHHHHHhhc
Q 019008 188 IGQKRFRKALELLHNVVT 205 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai~ 205 (347)
-..+++++|.++|+.+..
T Consensus 16 g~~~d~~~A~~~~~~Aa~ 33 (36)
T smart00671 16 GVKKDLEKALEYYKKAAE 33 (36)
T ss_pred CCCcCHHHHHHHHHHHHH
Confidence 356799999999998864
No 267
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=24.54 E-value=91 Score=25.61 Aligned_cols=81 Identities=15% Similarity=0.116 Sum_probs=48.5
Q ss_pred hcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhccccc-ccCC-chhhHH--HHHHHHHHHHhh
Q 019008 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIY-EINL-PRDFFL--YCYYGGMIFIGQ 190 (347)
Q Consensus 115 ~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~-~i~~-~~~~l~--Y~yy~G~i~~~~ 190 (347)
.+.+...+..|...+..-+. . -..+|+.++.+|++.+.++...+++...-. .++. .+.+-. ++-....+|...
T Consensus 20 ~~~~~~l~~yLe~~~~~~~~-~--~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~yd~~~~~~~c~~~~l~~~a~~Ly~~~ 96 (143)
T PF00637_consen 20 RNQPEELIEYLEALVKENKE-N--NPDLHTLLLELYIKYDPYEKLLEFLKTSNNYDLDKALRLCEKHGLYEEAVYLYSKL 96 (143)
T ss_dssp TT-GGGCTCCHHHHHHTSTC----SHHHHHHHHHHHHCTTTCCHHHHTTTSSSSS-CTHHHHHHHTTTSHHHHHHHHHCC
T ss_pred CCCHHHHHHHHHHHHhcccc-c--CHHHHHHHHHHHHhcCCchHHHHHcccccccCHHHHHHHHHhcchHHHHHHHHHHc
Confidence 34455556667666644332 2 278999999999999999999999996432 2221 011111 122233356667
Q ss_pred hcHHHHHH
Q 019008 191 KRFRKALE 198 (347)
Q Consensus 191 k~y~~A~~ 198 (347)
++|++|.+
T Consensus 97 ~~~~~al~ 104 (143)
T PF00637_consen 97 GNHDEALE 104 (143)
T ss_dssp TTHTTCSS
T ss_pred ccHHHHHH
Confidence 77777776
No 268
>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=24.48 E-value=94 Score=25.38 Aligned_cols=32 Identities=13% Similarity=0.089 Sum_probs=29.0
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.+|.++||+.++++ ...++.++..+.+.|.+.
T Consensus 25 ~~s~~eia~~~~i~-~~~v~~il~~L~~~gli~ 56 (132)
T TIGR00738 25 PVSVKEIAERQGIS-RSYLEKILRTLRRAGLVE 56 (132)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCcEE
Confidence 58999999999999 889999999999999764
No 269
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=24.44 E-value=1.1e+02 Score=24.52 Aligned_cols=52 Identities=12% Similarity=0.170 Sum_probs=35.2
Q ss_pred ccccHHHHHHHHHHHHHHHHHHhh-hhcccHHHHHHHcCCCChhhHHHHHHHHh
Q 019008 286 NNLGLVKQVVSSMYKRNIQRLTQT-YLTLSLQDIANTVQLNSSKEAEMHVLQMV 338 (347)
Q Consensus 286 ~n~gLV~~~~~~~~r~~I~~L~~~-Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI 338 (347)
-....+.+++..+..+.-.-+... +.-.|..+||+.+|++ ...+...+.++.
T Consensus 99 ~~~~~l~~~l~~L~~~~~~ii~~~~~~g~s~~eIA~~l~~s-~~~v~~~~~~~~ 151 (158)
T TIGR02937 99 EEREALREALEKLPEREREVLVLRYLEGLSYKEIAEILGIS-VGTVKRRLKRAR 151 (158)
T ss_pred HHHHHHHHHHHhCCHHHHHHHhhHHhcCCCHHHHHHHHCCC-HHHHHHHHHHHH
Confidence 334566667776655544444454 4789999999999996 666666665543
No 270
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=24.16 E-value=3.5e+02 Score=25.45 Aligned_cols=112 Identities=13% Similarity=0.070 Sum_probs=57.2
Q ss_pred HHHHHHHHHhHHHHhhhhhhhhhhhhhcCchhhHHHHHHHHHHhhhcccchhhhhhHHHH---HHHHHhcCC--hhhhhc
Q 019008 22 TALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSITKERANTLVPI---IARFITSCS--AEQIRY 96 (347)
Q Consensus 22 ~~L~~~L~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~L~vL~~~~~~~~~~~~~~~~~~~---~~~fl~~~~--~~Qlr~ 96 (347)
.++.+.|+-+.+.+......+..++..++|....+.-..--.+.+..... +...+++.. +........ +.|++-
T Consensus 20 ~ala~Al~GrG~~lg~~l~~l~~~l~~ln~~~~~l~~~l~~l~~v~~~~a-~aapdL~~~l~~~~~~s~tL~~~~~~L~~ 98 (267)
T PF11887_consen 20 SALATALDGRGEQLGETLDDLNTLLATLNPRLPQLREDLRNLADVADTYA-DAAPDLLDALDNLTTTSRTLVDQRQQLDA 98 (267)
T ss_pred HHHHHHHcCcchhHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHH-HhhhHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 34444444455777778888888888898888777665433333322211 122233333 333333332 445554
Q ss_pred hhHHHHHHHHHHHHhHhhhccc----ccchHHHHHHHHhhCC
Q 019008 97 VPEKFINVCKRYKDQVLLLEAP----IRGVGPMLTAIRKIQS 134 (347)
Q Consensus 97 ~~~~~~~l~~~~~~~~~~~~~~----~~~i~~L~~Ai~r~~~ 134 (347)
+-.....++....+.+...+.. ...+.+....+.++.|
T Consensus 99 lL~~~~~~a~~~~~~l~~n~~~L~~~~~~L~p~~~lL~~~~p 140 (267)
T PF11887_consen 99 LLLSATGLADTGTDFLADNRDNLIRALDDLRPTTDLLAKYSP 140 (267)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCc
Confidence 4455555555555555443333 2234444455555554
No 271
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=24.06 E-value=45 Score=33.79 Aligned_cols=174 Identities=17% Similarity=0.228 Sum_probs=91.3
Q ss_pred HHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHH----
Q 019008 146 FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKK---- 221 (347)
Q Consensus 146 ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk---- 221 (347)
|+|.=..-+.|..-++.+|..--++-...-.++--||.|-.|+.+++|.+|.+.|..++..=+.+-|-+..-+|+.
T Consensus 241 LlR~H~lLgDhQat~q~idi~pk~iy~t~p~c~VTY~VGFayLmmrryadai~~F~niLlyIqrtks~~~~~~y~~d~in 320 (525)
T KOG3677|consen 241 LLRMHILLGDHQATSQILDIMPKEIYGTEPMCRVTYQVGFAYLMMRRYADAIRVFLNILLYIQRTKSMFSRTTYQYDMIN 320 (525)
T ss_pred HHHHHHHhhhhHhhhhhhhcCchhhcCcccceeEeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhhHhhhh
Confidence 5565555566555555554322222111122333399999999999999999999988864322222111222221
Q ss_pred ------HHH-HHHHhcCCCCCCCCcccCHHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccc------cccc
Q 019008 222 ------YIL-VSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFES------DNNL 288 (347)
Q Consensus 222 ------~iL-v~LL~~G~i~~~lp~~~s~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~------D~n~ 288 (347)
.-| .-.+. --| -...-.....+.. -|.+=.--..+||++.|+..+.-.-..|.. ||-+
T Consensus 321 Kq~eqm~~llai~l~--~yP----q~iDESi~s~l~E---k~~d~ml~mqng~~q~~ks~f~y~cpkflsp~~~~~dgv~ 391 (525)
T KOG3677|consen 321 KQNEQMHHLLAICLS--MYP----QMIDESIHSQLAE---KYGDKMLPMQNGDPQVFKSLFSYLCPKFLSPVVPNYDGVL 391 (525)
T ss_pred hhHHHHHHHHHHHHH--hCc----hhhhHHHHHHHHH---HhcchhhhhhcCChHHHHHHHHHcCccccCCCCccccccc
Confidence 111 11111 111 1111111111111 132222222458999998888776655543 2222
Q ss_pred ------cHHHH-------HHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChh
Q 019008 289 ------GLVKQ-------VVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSK 328 (347)
Q Consensus 289 ------gLV~~-------~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~ 328 (347)
.|..| +.+.-.--.++.--+-|++++.+-.|.-+.+++.+
T Consensus 392 ~~y~kePl~~qlq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d~~ 444 (525)
T KOG3677|consen 392 PNYHKEPLLQQLQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTDQE 444 (525)
T ss_pred ccccccHHHHHHHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCchhh
Confidence 23333 33333344678888899999999999988887433
No 272
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=23.64 E-value=1.4e+02 Score=33.30 Aligned_cols=28 Identities=21% Similarity=0.269 Sum_probs=14.2
Q ss_pred HHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 182 YGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 182 y~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
|.|+++-..+.|.+|.+++..|+. .|.+
T Consensus 721 ~Lara~y~~~~~~eak~~ll~a~~~~p~~ 749 (1018)
T KOG2002|consen 721 YLARAWYEAGKLQEAKEALLKARHLAPSN 749 (1018)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHhCCcc
Confidence 344555555555555555555554 5544
No 273
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.64 E-value=2e+02 Score=26.43 Aligned_cols=78 Identities=12% Similarity=0.175 Sum_probs=55.7
Q ss_pred hhhhHHHHHHHHHhcCChhhhhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhc
Q 019008 74 RANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLA 153 (347)
Q Consensus 74 ~~~~~~~~~~~fl~~~~~~Qlr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~ 153 (347)
..+.++++..+-+...|-.-+| +-|..|=+.+..-+.....| .+.-|. |++...++=-|+.+
T Consensus 41 rvdrivdq~~~a~q~~Dl~aLr---~~W~~l~~r~Fs~Le~~y~~--~~~kle-------------~Sl~r~yLV~~~q~ 102 (241)
T KOG1333|consen 41 RVDRIVDQLQQAMQVYDLAALR---DYWSYLERRLFSRLEDIYRP--TIHKLE-------------TSLFRFYLVYTIQT 102 (241)
T ss_pred cHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhhhhHH--HHHHHH-------------HHHHHHHHhhhhhc
Confidence 4567788888888777766665 66888777777777666544 334333 55666777889999
Q ss_pred CCchhhhhhhcccccc
Q 019008 154 KCYKAGLSVLEDDIYE 169 (347)
Q Consensus 154 ~~y~~Al~~l~~~i~~ 169 (347)
|..+.+-++..|--..
T Consensus 103 nr~~K~~EFF~K~a~~ 118 (241)
T KOG1333|consen 103 NRNDKAQEFFAKQATE 118 (241)
T ss_pred CChHHHHHHHHHHHHH
Confidence 9999999998875443
No 274
>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=23.55 E-value=1.6e+02 Score=26.22 Aligned_cols=33 Identities=12% Similarity=0.049 Sum_probs=28.4
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
-.++.++||++++++ ..-+...+.+|.+.|.+.
T Consensus 156 g~~s~~eia~~l~is-~stv~r~L~~Le~~GlI~ 188 (203)
T TIGR01884 156 GEKSVKNIAKKLGKS-LSTISRHLRELEKKGLVE 188 (203)
T ss_pred CCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 468999999999997 667889999999998763
No 275
>PF13041 PPR_2: PPR repeat family
Probab=23.54 E-value=1.1e+02 Score=20.31 Aligned_cols=17 Identities=24% Similarity=0.448 Sum_probs=9.1
Q ss_pred HhhhcHHHHHHHHHHhh
Q 019008 188 IGQKRFRKALELLHNVV 204 (347)
Q Consensus 188 ~~~k~y~~A~~~l~~ai 204 (347)
+..+++++|.+.|+.-.
T Consensus 14 ~~~~~~~~a~~l~~~M~ 30 (50)
T PF13041_consen 14 CKAGKFEEALKLFKEMK 30 (50)
T ss_pred HHCcCHHHHHHHHHHHH
Confidence 34455555555555555
No 276
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=23.50 E-value=99 Score=25.41 Aligned_cols=32 Identities=13% Similarity=0.143 Sum_probs=27.6
Q ss_pred hcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
..++|+|+|..+.-+ ...|..++.+|.+.|-+
T Consensus 18 ~~vtl~elA~~l~cS-~Rn~r~lLkkm~~~gWi 49 (115)
T PF12793_consen 18 VEVTLDELAELLFCS-RRNARTLLKKMQEEGWI 49 (115)
T ss_pred cceeHHHHHHHhCCC-HHHHHHHHHHHHHCCCe
Confidence 368999999998854 89999999999999865
No 277
>PRK10941 hypothetical protein; Provisional
Probab=23.38 E-value=2.5e+02 Score=26.65 Aligned_cols=70 Identities=19% Similarity=0.073 Sum_probs=51.3
Q ss_pred CchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 137 ~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
+.+.-+-..+-..++..+.++.|+...+.-+.-.|. +..++ -=.|.+|.-+++|+.|.+-|+..+. +|..
T Consensus 178 ~il~Rml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~--dp~e~-RDRGll~~qL~c~~~A~~DL~~fl~~~P~d 248 (269)
T PRK10941 178 EVIRKLLDTLKAALMEEKQMELALRASEALLQFDPE--DPYEI-RDRGLIYAQLDCEHVALSDLSYFVEQCPED 248 (269)
T ss_pred HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHhCCC--CHHHH-HHHHHHHHHcCCcHHHHHHHHHHHHhCCCc
Confidence 444555566667789999999999999985543332 11111 1289999999999999999999995 8874
No 278
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=23.35 E-value=1.6e+02 Score=26.03 Aligned_cols=52 Identities=12% Similarity=0.172 Sum_probs=38.9
Q ss_pred HHHhhhhhhcchhHHHHHHHHhcCChHHHHHHHHhccccccccccccHHHHH
Q 019008 243 SAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQV 294 (347)
Q Consensus 243 ~~~~r~~k~~~~pY~~la~a~~~g~~~~~~~~~~~~~~~f~~D~n~gLV~~~ 294 (347)
......+......|.+|-+|+..+|.+..++........+..-+.-.+....
T Consensus 40 ~~~~~~l~~v~~~Yl~lk~ALv~dd~~~a~~aA~~l~~~l~~~~~~~~~~~~ 91 (174)
T PF11827_consen 40 EAADDSLQQVLNAYLALKDALVADDLKAAKAAAKALLAALKAVDMAELSASL 91 (174)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccccccHHH
Confidence 3444556667789999999999999999998888888877776555443333
No 279
>PF13994 PgaD: PgaD-like protein
Probab=23.23 E-value=1.4e+02 Score=25.14 Aligned_cols=43 Identities=16% Similarity=0.130 Sum_probs=31.8
Q ss_pred HHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccccC
Q 019008 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLLYH 347 (347)
Q Consensus 300 r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~~~ 347 (347)
|.+-++=.+....++.+|+|+..+++ +..+.+|-+.+.++|||
T Consensus 88 Rf~~~~rr~~~~~~~~~elA~~f~l~-----~~~l~~lr~~k~~~V~~ 130 (138)
T PF13994_consen 88 RFRGRRRRRRPPPVSDEELARSFGLS-----PEQLQQLRQAKVLTVHH 130 (138)
T ss_pred HhcchhhccCCCCCCHHHHHHHcCCC-----HHHHHHHHhCCeEEEEe
Confidence 33333333334449999999999999 35788899999999987
No 280
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=23.20 E-value=3.3e+02 Score=22.15 Aligned_cols=43 Identities=12% Similarity=0.102 Sum_probs=26.4
Q ss_pred ccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhc
Q 019008 117 APIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLE 164 (347)
Q Consensus 117 ~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~ 164 (347)
.+...+..|...+.+ ++ .-..+|+.++.++...+ -...++++.
T Consensus 22 ~~~~l~~yLe~~~~~-~~---~~~~~~~~li~ly~~~~-~~~ll~~l~ 64 (140)
T smart00299 22 LLEELIPYLESALKL-NS---ENPALQTKLIELYAKYD-PQKEIERLD 64 (140)
T ss_pred cHHHHHHHHHHHHcc-Cc---cchhHHHHHHHHHHHHC-HHHHHHHHH
Confidence 344455556555544 32 22558999999998653 455667777
No 281
>PF08564 CDC37_C: Cdc37 C terminal domain; InterPro: IPR013873 Cdc37 is a protein required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the C-terminal domain whose function is unclear. It is found C-terminal to the Hsp90 chaperone (heat shock protein 90) binding domain IPR013874 from INTERPRO and the N-terminal kinase binding domain of Cdc37 IPR013855 from INTERPRO []. ; PDB: 1US7_B.
Probab=23.13 E-value=71 Score=25.72 Aligned_cols=39 Identities=18% Similarity=0.150 Sum_probs=19.3
Q ss_pred HhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 307 TQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 307 ~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
.+++.+=+|..|-+-++==+.++||.+|...+.+|.+.+
T Consensus 29 q~Alet~~ld~vnkVl~~M~veeAE~~v~~~~esGi~~~ 67 (99)
T PF08564_consen 29 QKALETGDLDEVNKVLGKMPVEEAEYHVERCIESGIWSP 67 (99)
T ss_dssp -----------HHHHHT--SSSHHHHHHHHHHHTTSS--
T ss_pred HHHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhCCcccc
Confidence 344444455555555543347899999999999998754
No 282
>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=23.08 E-value=1e+02 Score=25.68 Aligned_cols=32 Identities=13% Similarity=0.100 Sum_probs=28.7
Q ss_pred cccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 312 TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 312 ~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.++.++||++++++ ...++.++.++.+.|.+.
T Consensus 25 ~~s~~~ia~~~~ip-~~~l~kil~~L~~~glv~ 56 (135)
T TIGR02010 25 PVTLADISERQGIS-LSYLEQLFAKLRKAGLVK 56 (135)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCceE
Confidence 48999999999999 899999999999988653
No 283
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=22.88 E-value=4e+02 Score=21.86 Aligned_cols=61 Identities=11% Similarity=-0.042 Sum_probs=41.3
Q ss_pred HHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 149 LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 149 l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
..=..+..+.|.++..+.+-.-....+--+=..-.|-.+-.+|++++|...|+.++. .|..
T Consensus 10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~ 71 (120)
T PF12688_consen 10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDD 71 (120)
T ss_pred HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCc
Confidence 334456778888888887653222222233344567778899999999999999996 6863
No 284
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=22.80 E-value=1.4e+02 Score=28.05 Aligned_cols=47 Identities=4% Similarity=0.035 Sum_probs=38.6
Q ss_pred HHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccccc
Q 019008 298 MYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 298 ~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~~ 345 (347)
-++..|.++-+...++++.|+|+.++++ ..-+.+-+..+-+.|.+.-
T Consensus 17 eR~~~Il~~L~~~~~vtv~eLa~~l~VS-~~TIRRDL~~Le~~G~l~r 63 (269)
T PRK09802 17 ERREQIIQRLRQQGSVQVNDLSALYGVS-TVTIRNDLAFLEKQGIAVR 63 (269)
T ss_pred HHHHHHHHHHHHcCCEeHHHHHHHHCCC-HHHHHHHHHHHHhCCCeEE
Confidence 3667888888888889999999999988 6778888888877777653
No 285
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.67 E-value=93 Score=24.57 Aligned_cols=25 Identities=20% Similarity=0.205 Sum_probs=20.3
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHH
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHV 334 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v 334 (347)
.-+++|.+.||.+++.. +.++|.++
T Consensus 20 el~~LS~~~iA~~Ln~t-~~~lekil 44 (97)
T COG4367 20 ELCPLSDEEIATALNWT-EVKLEKIL 44 (97)
T ss_pred hhccccHHHHHHHhCCC-HHHHHHHH
Confidence 45789999999999987 67777665
No 286
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=22.23 E-value=9.2e+02 Score=25.29 Aligned_cols=136 Identities=16% Similarity=0.144 Sum_probs=67.6
Q ss_pred ChhcHHHHHHHHHH-h-------HHHHhhhhhhhhhhhhhcCchhhHHHHHHHHHHhhhcccchhhhhhHHHHHHHHHhc
Q 019008 17 NASDITALKDYLKA-A-------EDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSITKERANTLVPIIARFITS 88 (347)
Q Consensus 17 s~~~~~~L~~~L~~-~-------~~~l~~~~~~~~~~L~~ldp~~~sl~~L~vL~~~~~~~~~~~~~~~~~~~~~~fl~~ 88 (347)
+..+|.+|...+.. . .+.|..-...+.+-...||.. |.--.-.+|...+.+- .+.+.....+|+..
T Consensus 27 d~~~Y~~L~~~l~~~~~~~d~~~~~~l~~~L~~L~~~Vs~Ld~~-~~~LV~ail~~~W~~~-----~~~~v~~y~~Fl~~ 100 (563)
T PF05327_consen 27 DSSQYDELVEQLSDPSESKDAISVSQLIRWLKALSSCVSLLDSS-CKQLVEAILSLNWLGR-----DEDFVEAYIQFLIN 100 (563)
T ss_dssp --HHHHHHHHHHHS-TT-TTS--HHHHHHHHHHHHHGGGGG-SC-CHHHHHHHHT-TGGGS------HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcccccCcccccHHHHHHHHHHHHHHHHHhhhH-HHHHHHHHHcCCCCCC-----CHHHHHHHHHHHHH
Confidence 33467777777722 1 123444444444445566777 3333335555444211 12345555555555
Q ss_pred CChhhhhchhHHHHHHHHHHHHh----------------------------HhhhcccccchHHHHHHHHhhCCCCCchh
Q 019008 89 CSAEQIRYVPEKFINVCKRYKDQ----------------------------VLLLEAPIRGVGPMLTAIRKIQSSTEHLT 140 (347)
Q Consensus 89 ~~~~Qlr~~~~~~~~l~~~~~~~----------------------------~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT 140 (347)
.-..|-.|....+..|++.+... ..+.- | .+...|...+.+.-|....=+
T Consensus 101 Lvsa~~~yl~~vl~~LV~~f~p~~~~~~~~~~~~~~~~~~~~~~vH~~L~~Il~lv-P-~s~~~L~~~l~~~FP~~~~~~ 178 (563)
T PF05327_consen 101 LVSAQPKYLSPVLSMLVKNFIPPPSSIAEWPGCPPEKRREIYERVHDALQKILRLV-P-TSPSFLIPILVQNFPHKRKSK 178 (563)
T ss_dssp HHHH-GGGHHHHHHHHHHGGGS-HHHHHH---------------HHHHHHHHHHH--G-GGHHHHHHHHHHTS--TTS-H
T ss_pred HHHhhHHHHHHHHHHHHHhccCCCccccccchhhhhhhhhhHHHHHHHHHHHHHHc-C-CCHHHHHHHHHHcCcCCCCCh
Confidence 54445555554444444333211 11111 2 245566777777777655557
Q ss_pred hHHHHHHHHHHhcCCchhhh
Q 019008 141 TLHPEFLQLCLLAKCYKAGL 160 (347)
Q Consensus 141 ~~H~~ll~l~l~~~~y~~Al 160 (347)
..|..+++++|.--.|.+.+
T Consensus 179 ~~~~~Yv~NlL~l~~Y~P~L 198 (563)
T PF05327_consen 179 DEHVNYVRNLLRLTEYCPEL 198 (563)
T ss_dssp HHHHHHHHHHHHHHCC-GGG
T ss_pred HHHHHHHHHHHHHHcchHHH
Confidence 78899999999988888765
No 287
>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=22.23 E-value=5.3e+02 Score=22.54 Aligned_cols=73 Identities=7% Similarity=-0.056 Sum_probs=59.6
Q ss_pred CchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhcCCcc
Q 019008 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMS 209 (347)
Q Consensus 137 ~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~~P~~ 209 (347)
..+--.|..+...+...+.++.|++.+.+..-.-.++.+.+..++..=++.+..++|.....+.+.+-..|..
T Consensus 33 esir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~ 105 (177)
T PF10602_consen 33 ESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEK 105 (177)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc
Confidence 3345677889999999999999999998843322347788888888889999999999999999999887754
No 288
>PLN02789 farnesyltranstransferase
Probab=22.23 E-value=2e+02 Score=27.88 Aligned_cols=120 Identities=17% Similarity=0.193 Sum_probs=74.7
Q ss_pred hhchhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcC--CchhhhhhhcccccccC
Q 019008 94 IRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAK--CYKAGLSVLEDDIYEIN 171 (347)
Q Consensus 94 lr~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~--~y~~Al~~l~~~i~~i~ 171 (347)
+.|. +.|......+-..+...+...+++.....+|. ++| ..-|.-|.- +.++..- .++.++.++++-+-.-|
T Consensus 30 i~y~-~~~~~a~~~~ra~l~~~e~serAL~lt~~aI~-lnP--~~ytaW~~R--~~iL~~L~~~l~eeL~~~~~~i~~np 103 (320)
T PLN02789 30 IAYT-PEFREAMDYFRAVYASDERSPRALDLTADVIR-LNP--GNYTVWHFR--RLCLEALDADLEEELDFAEDVAEDNP 103 (320)
T ss_pred eeeC-HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH-HCc--hhHHHHHHH--HHHHHHcchhHHHHHHHHHHHHHHCC
Confidence 4443 56777776666666667777788888777664 466 445665433 3444443 57889998888664322
Q ss_pred CchhhHHHHHHHHHHHHhhhc--HHHHHHHHHHhhc-CCccchhHHHHHHHHHHHHHH
Q 019008 172 LPRDFFLYCYYGGMIFIGQKR--FRKALELLHNVVT-APMSSINAIAVEAYKKYILVS 226 (347)
Q Consensus 172 ~~~~~l~Y~yy~G~i~~~~k~--y~~A~~~l~~ai~-~P~~~~s~i~vea~Kk~iLv~ 226 (347)
+. ..-.++.|.+.-.+++ ++++.++++.++. -|.+.- .=.++.|++-.
T Consensus 104 --kn-yqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~----AW~~R~w~l~~ 154 (320)
T PLN02789 104 --KN-YQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYH----AWSHRQWVLRT 154 (320)
T ss_pred --cc-hHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHH----HHHHHHHHHHH
Confidence 22 2236667777766665 4788999999997 665421 12355555544
No 289
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=22.18 E-value=71 Score=18.68 Aligned_cols=21 Identities=10% Similarity=0.067 Sum_probs=11.7
Q ss_pred HHHHHHHHhcCCchhhhhhhc
Q 019008 144 PEFLQLCLLAKCYKAGLSVLE 164 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~ 164 (347)
+.+++.|.+.+.++.|..+++
T Consensus 4 n~li~~~~~~~~~~~a~~~~~ 24 (35)
T TIGR00756 4 NTLIDGLCKAGRVEEALELFK 24 (35)
T ss_pred HHHHHHHHHCCCHHHHHHHHH
Confidence 445555555555555555554
No 290
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=22.13 E-value=47 Score=20.60 Aligned_cols=26 Identities=27% Similarity=0.420 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 179 YCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 179 Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
++|+-|. ....+++++|.+||+.+..
T Consensus 11 ~~~~~g~-~g~~~d~~~A~~~~~~Aa~ 36 (39)
T PF08238_consen 11 YMYYNGK-GGVPKDYEKAFKWYEKAAE 36 (39)
T ss_dssp HHHHHTS-TSSCHHHHHHHHHHHHHHH
T ss_pred Hhhhhcc-CCccccccchHHHHHHHHH
Confidence 4445555 2355689999999998863
No 291
>PRK02955 small acid-soluble spore protein SspI; Provisional
Probab=21.87 E-value=1.1e+02 Score=22.82 Aligned_cols=22 Identities=23% Similarity=0.182 Sum_probs=18.5
Q ss_pred HcCCCChhhHHHHHHHHhhccc
Q 019008 321 TVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 321 ~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
.++=.|.+|+|.+|.++|.+|+
T Consensus 12 nv~g~s~eel~~~I~daIqsgE 33 (68)
T PRK02955 12 NVSGNSKEELEGTIVDAIQSGE 33 (68)
T ss_pred HccCCCHHHHHHHHHHHHhccc
Confidence 4455689999999999999886
No 292
>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=21.64 E-value=2.5e+02 Score=18.95 Aligned_cols=30 Identities=10% Similarity=0.203 Sum_probs=19.8
Q ss_pred hhhcccHHHHHHHcCCCChhhHHHHHHHHhh
Q 019008 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMVT 339 (347)
Q Consensus 309 ~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~ 339 (347)
-+.-.|.++||+.+|++ +..+...+.++.+
T Consensus 23 ~~~g~s~~eIa~~l~~s-~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 23 YFQGMSYAEIAEILGIS-ESTVKRRLRRARK 52 (54)
T ss_dssp HTS---HHHHHHHCTS--HHHHHHHHHHHHH
T ss_pred HHHCcCHHHHHHHHCcC-HHHHHHHHHHHHh
Confidence 45678999999999988 6777777766543
No 293
>PHA02943 hypothetical protein; Provisional
Probab=21.56 E-value=2.1e+02 Score=25.01 Aligned_cols=40 Identities=18% Similarity=0.091 Sum_probs=30.8
Q ss_pred HHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHHHhhcccc
Q 019008 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMVTFEVN 343 (347)
Q Consensus 302 ~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~ 343 (347)
.|.++- ..-.-+.++||+++|++ ..+|+.++.-.=++|++
T Consensus 15 eILE~L-k~G~~TtseIAkaLGlS-~~qa~~~LyvLErEG~V 54 (165)
T PHA02943 15 KTLRLL-ADGCKTTSRIANKLGVS-HSMARNALYQLAKEGMV 54 (165)
T ss_pred HHHHHH-hcCCccHHHHHHHHCCC-HHHHHHHHHHHHHcCce
Confidence 333433 45557789999999998 78899999888888875
No 294
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=21.49 E-value=1.1e+02 Score=19.77 Aligned_cols=21 Identities=29% Similarity=0.303 Sum_probs=13.5
Q ss_pred hcccHHHHHHHcCCCChhhHHH
Q 019008 311 LTLSLQDIANTVQLNSSKEAEM 332 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~ 332 (347)
..++++|||..+|+ |+.....
T Consensus 7 ~~~~l~~iA~~~g~-S~~~f~r 27 (42)
T PF00165_consen 7 QKLTLEDIAEQAGF-SPSYFSR 27 (42)
T ss_dssp SS--HHHHHHHHTS--HHHHHH
T ss_pred CCCCHHHHHHHHCC-CHHHHHH
Confidence 35899999999999 5554433
No 295
>PF12739 TRAPPC-Trs85: ER-Golgi trafficking TRAPP I complex 85 kDa subunit; InterPro: IPR024420 This entry represents Trs85, a subunit of the TRAPP III complex []. Trs85 is a multimeric guanine nucleotide-exchange factor for Ypt1, required for membrane expansion during autophagy and the CVT pathway. It directs Ypt1 to the phagophore assembly site [, , , ].
Probab=21.39 E-value=2.3e+02 Score=28.38 Aligned_cols=52 Identities=10% Similarity=-0.023 Sum_probs=40.2
Q ss_pred HHHHHHhhhcHHHHHHHHHHhhcCCccchhHHHHHHHHHHHHHHHHhcCCCC
Q 019008 183 GGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFS 234 (347)
Q Consensus 183 ~G~i~~~~k~y~~A~~~l~~ai~~P~~~~s~i~vea~Kk~iLv~LL~~G~i~ 234 (347)
.|-....+++|+-|...++.+..-=.+.-+....++..-++.+++++.|...
T Consensus 214 LAD~aFml~Dy~~A~s~Y~~~k~Df~~Dkaw~~~A~~~Em~alsl~~~~~~~ 265 (414)
T PF12739_consen 214 LADLAFMLRDYELAYSTYRLLKKDFKNDKAWKYLAGAQEMAALSLLMQGQSI 265 (414)
T ss_pred HHHHHHHHccHHHHHHHHHHHHHHHhhchhHHHHHhHHHHHHHHHHhcCCCC
Confidence 4556677899999999999999844445566667777888889998877654
No 296
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=21.38 E-value=97 Score=24.48 Aligned_cols=22 Identities=27% Similarity=0.267 Sum_probs=16.6
Q ss_pred hcccHHHHHHHcCCCChhhHHHH
Q 019008 311 LTLSLQDIANTVQLNSSKEAEMH 333 (347)
Q Consensus 311 s~IsL~dIa~~l~l~s~~eaE~~ 333 (347)
+.+|+++||..++++ ++++|.+
T Consensus 22 ~~ls~~~ia~dL~~s-~~~le~v 43 (89)
T PF10078_consen 22 SGLSLEQIAADLGTS-PEHLEQV 43 (89)
T ss_pred cCCCHHHHHHHhCCC-HHHHHHH
Confidence 568899999999877 5666543
No 297
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=21.28 E-value=4.7e+02 Score=21.52 Aligned_cols=75 Identities=13% Similarity=0.150 Sum_probs=43.2
Q ss_pred HHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchh-hhhhhc----ccccccCCchhhHHHHHHHHHHHHhhhcHHHHH
Q 019008 123 GPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKA-GLSVLE----DDIYEINLPRDFFLYCYYGGMIFIGQKRFRKAL 197 (347)
Q Consensus 123 ~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~-Al~~l~----~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~ 197 (347)
..|..++.++...+..- --.-++++|+..-.+.. +..++. +.| ...+..||--=+..+-..++|++|.
T Consensus 47 ~lLer~~~~f~~~~~Y~--nD~RylkiWi~ya~~~~~~~~if~~l~~~~I-----G~~~A~fY~~wA~~le~~~~~~~A~ 119 (126)
T PF08311_consen 47 ELLERCIRKFKDDERYK--NDERYLKIWIKYADLSSDPREIFKFLYSKGI-----GTKLALFYEEWAEFLEKRGNFKKAD 119 (126)
T ss_dssp HHHHHHHHHHTTSGGGT--T-HHHHHHHHHHHTTBSHHHHHHHHHHHHTT-----STTBHHHHHHHHHHHHHTT-HHHHH
T ss_pred HHHHHHHHHHhhhHhhc--CCHHHHHHHHHHHHHccCHHHHHHHHHHcCc-----cHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 45666666665542211 11456777766443322 222221 122 3456677777778888999999999
Q ss_pred HHHHHhh
Q 019008 198 ELLHNVV 204 (347)
Q Consensus 198 ~~l~~ai 204 (347)
+-|+..|
T Consensus 120 ~I~~~Gi 126 (126)
T PF08311_consen 120 EIYQLGI 126 (126)
T ss_dssp HHHHHHH
T ss_pred HHHHhhC
Confidence 9988765
No 298
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=21.18 E-value=5.3e+02 Score=29.01 Aligned_cols=109 Identities=12% Similarity=-0.051 Sum_probs=65.0
Q ss_pred chhHHHHHHHHHHHHhHhhhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchh
Q 019008 96 YVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRD 175 (347)
Q Consensus 96 ~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~ 175 (347)
|.|..|..+-+ +.+.....+.+-.++..+. +-+.+.|+. +. .+-.+--+++..+.++.|..+=--+++.-+..-.
T Consensus 26 ~~p~n~~a~~~-Li~~~~~~~~~deai~i~~-~~l~~~P~~--i~-~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~ 100 (906)
T PRK14720 26 YSLSKFKELDD-LIDAYKSENLTDEAKDICE-EHLKEHKKS--IS-ALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWA 100 (906)
T ss_pred CCcchHHHHHH-HHHHHHhcCCHHHHHHHHH-HHHHhCCcc--ee-hHHHHHHHHHhhcchhhhhhhhhhhhcccccchh
Confidence 55555444433 3333334566666777776 444555543 22 2233333888888888887771113332221111
Q ss_pred hH--------------HHHHHHHHHHHhhhcHHHHHHHHHHhhc-CCcc
Q 019008 176 FF--------------LYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (347)
Q Consensus 176 ~l--------------~Y~yy~G~i~~~~k~y~~A~~~l~~ai~-~P~~ 209 (347)
.. .=+|..|++|-.++++++|...++.++. -|.+
T Consensus 101 ~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n 149 (906)
T PRK14720 101 IVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDN 149 (906)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCccc
Confidence 11 2345778999999999999999999997 7765
No 299
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=21.07 E-value=1.7e+02 Score=25.07 Aligned_cols=42 Identities=12% Similarity=-0.004 Sum_probs=33.6
Q ss_pred HHHHHHhhhh--cccHHHHHHHcCCCChhhHHHHHHHHhhccccc
Q 019008 302 NIQRLTQTYL--TLSLQDIANTVQLNSSKEAEMHVLQMVTFEVNL 344 (347)
Q Consensus 302 ~I~~L~~~Ys--~IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~~~ 344 (347)
.+.-|++-.. .+|+++||++.+++ +.-.++++.++-+.|.+.
T Consensus 13 ~L~~LA~~~~~~~~s~~~IA~~~~is-~~~L~kil~~L~kaGlV~ 56 (150)
T COG1959 13 ALLYLALLPGGGPVSSAEIAERQGIS-PSYLEKILSKLRKAGLVK 56 (150)
T ss_pred HHHHHHhCCCCCcccHHHHHHHhCcC-HHHHHHHHHHHHHcCCEE
Confidence 3444554444 68899999999998 899999999999999764
No 300
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=20.77 E-value=1.2e+02 Score=22.44 Aligned_cols=23 Identities=13% Similarity=0.075 Sum_probs=18.9
Q ss_pred HHcCCCChhhHHHHHHHHhhccc
Q 019008 320 NTVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 320 ~~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
..+.=.|.+|++.+|.++|.+|+
T Consensus 9 ~nv~g~s~~el~~~I~daI~sgE 31 (65)
T PF14098_consen 9 HNVKGSSKEELKDTIEDAIQSGE 31 (65)
T ss_pred HHccCCCHHHHHHHHHHHHhccc
Confidence 34555689999999999999886
No 301
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=20.77 E-value=3.3e+02 Score=30.53 Aligned_cols=72 Identities=10% Similarity=0.164 Sum_probs=53.3
Q ss_pred HHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHhhc
Q 019008 126 LTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (347)
Q Consensus 126 ~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y~~A~~~l~~ai~ 205 (347)
|..+..++|+- +. .--.++..+...+.++.|..+++..+-. +....+++||.|+++...+++.+|.-. .++.
T Consensus 20 r~~~~~~~p~n--~~-a~~~Li~~~~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~ 91 (906)
T PRK14720 20 RADANNYSLSK--FK-ELDDLIDAYKSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL--NLID 91 (906)
T ss_pred hcccccCCcch--HH-HHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh--hhhh
Confidence 34455566643 23 3367888999999999999999965443 335688999999999999999988766 6665
No 302
>PF12854 PPR_1: PPR repeat
Probab=20.55 E-value=1.1e+02 Score=19.02 Aligned_cols=24 Identities=4% Similarity=0.045 Sum_probs=19.8
Q ss_pred HHHHHHHHHHhcCCchhhhhhhcc
Q 019008 142 LHPEFLQLCLLAKCYKAGLSVLED 165 (347)
Q Consensus 142 ~H~~ll~l~l~~~~y~~Al~~l~~ 165 (347)
..+.++..+.+.+..+.|..++++
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHh
Confidence 457788888899999999888874
No 303
>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=20.39 E-value=98 Score=22.44 Aligned_cols=35 Identities=17% Similarity=0.077 Sum_probs=24.5
Q ss_pred hcccHHHHHHHcCC---------CChhhHHHHHHHHhhcccccc
Q 019008 311 LTLSLQDIANTVQL---------NSSKEAEMHVLQMVTFEVNLL 345 (347)
Q Consensus 311 s~IsL~dIa~~l~l---------~s~~eaE~~v~~mI~~G~~~~ 345 (347)
..++++.|...+++ .+.+|.+.++.+++++|.+..
T Consensus 10 gsl~l~RIh~mLkmf~~~~~~~~~s~~eL~~fL~~lv~e~~L~~ 53 (60)
T PF08672_consen 10 GSLPLDRIHSMLKMFPKDPGGYDISLEELQEFLDRLVEEGKLEC 53 (60)
T ss_dssp -SEEHHHHHHHHHHH-GGG--TT--HHHHHHHHHHHHHTTSEE-
T ss_pred CCCCHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHCCcEEe
Confidence 34666776666532 157899999999999998864
No 304
>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=20.36 E-value=2.8e+02 Score=18.67 Aligned_cols=25 Identities=24% Similarity=0.251 Sum_probs=21.7
Q ss_pred HHHHHHhhhcHHHHHHHHHHhhcCC
Q 019008 183 GGMIFIGQKRFRKALELLHNVVTAP 207 (347)
Q Consensus 183 ~G~i~~~~k~y~~A~~~l~~ai~~P 207 (347)
-+..|+..++++.|.+.++.++..+
T Consensus 5 LA~ayie~Gd~e~Ar~lL~evl~~~ 29 (44)
T TIGR03504 5 LARAYIEMGDLEGARELLEEVIEEG 29 (44)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHcC
Confidence 4688999999999999999999643
No 305
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=20.30 E-value=1.3e+02 Score=22.34 Aligned_cols=22 Identities=9% Similarity=0.202 Sum_probs=18.6
Q ss_pred HcCCCChhhHHHHHHHHhhccc
Q 019008 321 TVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 321 ~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
.++=.|.++++.+|.++|.+|+
T Consensus 9 nv~~~s~~elk~~I~daI~sgE 30 (65)
T TIGR03092 9 NISNNTKEQLEATIVDAIQSGE 30 (65)
T ss_pred HhcCCCHHHHHHHHHHHHhccc
Confidence 4555689999999999999886
No 306
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.28 E-value=2.8e+02 Score=29.46 Aligned_cols=62 Identities=19% Similarity=0.289 Sum_probs=47.0
Q ss_pred HHHHHHHHhcCCchhhhhhhccccc-ccCC---------------------------chhhHHHHHHHHHHHHhhhcHHH
Q 019008 144 PEFLQLCLLAKCYKAGLSVLEDDIY-EINL---------------------------PRDFFLYCYYGGMIFIGQKRFRK 195 (347)
Q Consensus 144 ~~ll~l~l~~~~y~~Al~~l~~~i~-~i~~---------------------------~~~~l~Y~yy~G~i~~~~k~y~~ 195 (347)
-+-.|.|++-+.|+.|+.+..+=+- ..+. +.+-..-+|-.+++++..++|.+
T Consensus 114 ~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~q 193 (652)
T KOG2376|consen 114 ELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYNQ 193 (652)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHHH
Confidence 4556899999999999988754211 1110 34456668999999999999999
Q ss_pred HHHHHHHhhc
Q 019008 196 ALELLHNVVT 205 (347)
Q Consensus 196 A~~~l~~ai~ 205 (347)
|.+.|+.|.+
T Consensus 194 A~elL~kA~~ 203 (652)
T KOG2376|consen 194 AIELLEKALR 203 (652)
T ss_pred HHHHHHHHHH
Confidence 9999999943
No 307
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=20.20 E-value=1.4e+02 Score=25.08 Aligned_cols=50 Identities=16% Similarity=0.288 Sum_probs=34.2
Q ss_pred ccccHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHcCCCChhhHHHHHHH
Q 019008 286 NNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQ 336 (347)
Q Consensus 286 ~n~gLV~~~~~~~~r~~I~~L~~~Ys~IsL~dIa~~l~l~s~~eaE~~v~~ 336 (347)
....++.+++..+....=.-+...|.-.|..+||+.+|++ ...+...+.+
T Consensus 101 ~~~~~l~~~l~~L~~~~r~il~l~~~g~s~~eIA~~lgis-~~tV~~~i~r 150 (166)
T PRK09639 101 EEITKVQEVLAKMTERDRTVLLLRFSGYSYKEIAEALGIK-ESSVGTTLAR 150 (166)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHCCC-HHHHHHHHHH
Confidence 3445566777776665555555566889999999999998 4555544443
No 308
>PF13730 HTH_36: Helix-turn-helix domain
Probab=20.04 E-value=1.6e+02 Score=20.01 Aligned_cols=29 Identities=7% Similarity=0.145 Sum_probs=24.8
Q ss_pred ccHHHHHHHcCCCChhhHHHHHHHHhhccc
Q 019008 313 LSLQDIANTVQLNSSKEAEMHVLQMVTFEV 342 (347)
Q Consensus 313 IsL~dIa~~l~l~s~~eaE~~v~~mI~~G~ 342 (347)
-|.++||+.+|++ ...+...+.+.++.|-
T Consensus 26 pS~~~la~~~g~s-~~Tv~~~i~~L~~~G~ 54 (55)
T PF13730_consen 26 PSQETLAKDLGVS-RRTVQRAIKELEEKGL 54 (55)
T ss_pred cCHHHHHHHHCcC-HHHHHHHHHHHHHCcC
Confidence 3899999999998 7888888888888774
No 309
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=20.01 E-value=8.3e+02 Score=26.59 Aligned_cols=88 Identities=8% Similarity=0.007 Sum_probs=61.0
Q ss_pred hhcccccchHHHHHHHHhhCCCCCchhhHHHHHHHHHHhcCCchhhhhhhcccccccCCchhhHHHHHHHHHHHHhhhcH
Q 019008 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (347)
Q Consensus 114 ~~~~~~~~i~~L~~Ai~r~~~~~~~lT~~H~~ll~l~l~~~~y~~Al~~l~~~i~~i~~~~~~l~Y~yy~G~i~~~~k~y 193 (347)
+.+.-..|+....+| +++.|+- --++ +.|--.+-+.+.++.|..+..+..-..| ++..=|=-.|.||--++++
T Consensus 332 d~G~V~ea~~cYnka-L~l~p~h--adam-~NLgni~~E~~~~e~A~~ly~~al~v~p---~~aaa~nNLa~i~kqqgnl 404 (966)
T KOG4626|consen 332 DKGSVTEAVDCYNKA-LRLCPNH--ADAM-NNLGNIYREQGKIEEATRLYLKALEVFP---EFAAAHNNLASIYKQQGNL 404 (966)
T ss_pred hccchHHHHHHHHHH-HHhCCcc--HHHH-HHHHHHHHHhccchHHHHHHHHHHhhCh---hhhhhhhhHHHHHHhcccH
Confidence 345455566666554 4566642 1223 5566778888899999988888643322 3444455578899999999
Q ss_pred HHHHHHHHHhhc-CCc
Q 019008 194 RKALELLHNVVT-APM 208 (347)
Q Consensus 194 ~~A~~~l~~ai~-~P~ 208 (347)
++|..++..|++ .|.
T Consensus 405 ~~Ai~~YkealrI~P~ 420 (966)
T KOG4626|consen 405 DDAIMCYKEALRIKPT 420 (966)
T ss_pred HHHHHHHHHHHhcCch
Confidence 999999999998 775
Done!