Query 013430
Match_columns 443
No_of_seqs 260 out of 744
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 03:46:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013430.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013430hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1497 COP9 signalosome, subu 100.0 2.1E-80 4.7E-85 599.5 35.6 388 4-442 8-395 (399)
2 KOG1498 26S proteasome regulat 100.0 1.3E-60 2.9E-65 473.0 24.3 357 62-440 58-433 (439)
3 COG5071 RPN5 26S proteasome re 100.0 2.7E-50 5.8E-55 387.9 24.4 352 82-439 70-432 (439)
4 KOG1463 26S proteasome regulat 100.0 4.7E-37 1E-41 300.6 24.3 300 100-420 86-402 (411)
5 KOG0687 26S proteasome regulat 100.0 7.2E-32 1.6E-36 263.0 29.1 318 91-433 60-387 (393)
6 KOG1464 COP9 signalosome, subu 100.0 7.2E-33 1.6E-37 265.2 20.7 338 57-428 75-436 (440)
7 COG5159 RPN6 26S proteasome re 100.0 7.4E-31 1.6E-35 252.5 20.2 315 101-437 84-416 (421)
8 COG5187 RPN7 26S proteasome re 100.0 5.1E-27 1.1E-31 226.2 26.0 287 125-432 100-400 (412)
9 KOG2581 26S proteasome regulat 99.8 2.6E-18 5.7E-23 172.4 29.6 295 120-435 146-456 (493)
10 KOG0686 COP9 signalosome, subu 99.7 7.7E-15 1.7E-19 147.8 23.8 281 142-439 150-451 (466)
11 PF01399 PCI: PCI domain; Int 99.6 3.5E-15 7.6E-20 124.9 10.5 99 304-407 1-104 (105)
12 PF10602 RPN7: 26S proteasome 99.6 1.2E-14 2.6E-19 134.9 13.8 147 136-292 30-176 (177)
13 KOG2908 26S proteasome regulat 99.6 4.9E-12 1.1E-16 125.3 31.9 275 147-434 80-378 (380)
14 smart00088 PINT motif in prote 99.4 2.5E-12 5.4E-17 105.3 9.9 67 343-409 4-70 (88)
15 smart00753 PAM PCI/PINT associ 99.4 2.5E-12 5.4E-17 105.3 9.9 67 343-409 4-70 (88)
16 KOG2582 COP9 signalosome, subu 99.2 1.3E-09 2.7E-14 109.2 21.0 300 115-435 74-389 (422)
17 KOG2753 Uncharacterized conser 98.3 0.00037 8E-09 69.7 25.0 284 100-407 44-338 (378)
18 KOG1076 Translation initiation 98.3 0.00027 6E-09 76.4 24.4 66 343-408 694-763 (843)
19 KOG2688 Transcription-associat 98.1 5.8E-05 1.3E-09 77.7 13.4 206 183-408 163-384 (394)
20 COG5600 Transcription-associat 97.6 0.0019 4.1E-08 65.8 14.7 232 156-408 144-403 (413)
21 KOG2758 Translation initiation 97.5 0.017 3.7E-07 58.0 20.1 245 143-408 130-394 (432)
22 PF09976 TPR_21: Tetratricopep 97.3 0.013 2.9E-07 51.9 15.0 95 144-249 50-144 (145)
23 PF14938 SNAP: Soluble NSF att 97.1 0.019 4.2E-07 56.9 16.0 190 142-343 75-270 (282)
24 PF10255 Paf67: RNA polymerase 96.6 0.058 1.3E-06 56.4 15.0 180 186-385 125-343 (404)
25 KOG2072 Translation initiation 96.5 1.4 3.1E-05 49.4 25.2 279 123-408 159-493 (988)
26 PF14938 SNAP: Soluble NSF att 95.8 0.29 6.3E-06 48.5 15.0 128 140-275 33-162 (282)
27 KOG2076 RNA polymerase III tra 95.6 1.1 2.3E-05 50.8 19.4 168 116-314 155-327 (895)
28 PF10075 PCI_Csn8: COP9 signal 95.6 0.078 1.7E-06 47.3 8.9 72 316-387 49-121 (143)
29 cd00189 TPR Tetratricopeptide 95.5 0.29 6.3E-06 36.7 10.8 94 145-251 3-96 (100)
30 TIGR02795 tol_pal_ybgF tol-pal 95.2 0.18 3.9E-06 41.7 9.5 101 144-252 4-105 (119)
31 PF13424 TPR_12: Tetratricopep 94.4 0.27 5.9E-06 38.3 8.1 70 183-252 5-75 (78)
32 PRK02603 photosystem I assembl 94.3 1.1 2.3E-05 40.8 12.9 106 142-251 35-141 (172)
33 COG3063 PilF Tfp pilus assembl 93.8 1.3 2.8E-05 43.1 12.6 139 139-299 32-171 (250)
34 KOG1840 Kinesin light chain [C 93.8 1.4 3.1E-05 47.6 14.4 136 116-252 257-396 (508)
35 KOG1840 Kinesin light chain [C 93.7 3.6 7.8E-05 44.5 17.3 134 116-252 215-354 (508)
36 TIGR02521 type_IV_pilW type IV 93.5 1.1 2.3E-05 40.7 11.4 98 142-252 31-128 (234)
37 PF09012 FeoC: FeoC like trans 93.4 0.13 2.8E-06 40.2 4.4 48 354-401 5-52 (69)
38 CHL00033 ycf3 photosystem I as 93.2 2.8 6E-05 37.8 13.5 107 142-252 35-142 (168)
39 KOG2300 Uncharacterized conser 92.9 13 0.00028 39.9 19.1 136 104-245 10-149 (629)
40 PF13424 TPR_12: Tetratricopep 92.8 0.52 1.1E-05 36.6 7.1 70 141-212 4-75 (78)
41 PF12895 Apc3: Anaphase-promot 92.8 0.63 1.4E-05 37.0 7.6 83 154-248 1-83 (84)
42 PF10345 Cohesin_load: Cohesin 92.3 5.1 0.00011 44.3 16.5 128 120-252 37-168 (608)
43 PF09295 ChAPs: ChAPs (Chs5p-A 92.3 2.8 6E-05 44.0 13.6 129 96-247 164-292 (395)
44 PF09976 TPR_21: Tetratricopep 92.2 3.1 6.6E-05 36.7 12.1 88 154-248 23-110 (145)
45 PRK11788 tetratricopeptide rep 92.0 2.5 5.4E-05 42.9 12.9 100 144-252 71-170 (389)
46 PF04348 LppC: LppC putative l 91.9 0.046 1E-06 59.4 0.0 107 139-252 21-127 (536)
47 PRK11788 tetratricopeptide rep 91.9 2.9 6.3E-05 42.4 13.2 102 143-252 108-209 (389)
48 TIGR02552 LcrH_SycD type III s 91.5 1.7 3.8E-05 37.0 9.4 96 144-252 19-114 (135)
49 TIGR02521 type_IV_pilW type IV 91.2 2.3 5E-05 38.4 10.6 97 144-251 101-197 (234)
50 PF13432 TPR_16: Tetratricopep 91.0 1.3 2.7E-05 33.2 7.2 59 147-212 2-60 (65)
51 PF14559 TPR_19: Tetratricopep 90.7 1.3 2.8E-05 33.2 7.1 56 153-215 2-57 (68)
52 TIGR03302 OM_YfiO outer membra 90.6 4.3 9.3E-05 38.3 12.1 110 136-252 27-144 (235)
53 COG2956 Predicted N-acetylgluc 90.3 8.9 0.00019 39.2 14.2 126 100-244 36-162 (389)
54 PF13414 TPR_11: TPR repeat; P 90.2 1.7 3.6E-05 32.8 7.3 65 182-252 2-67 (69)
55 PF09756 DDRGK: DDRGK domain; 89.9 0.59 1.3E-05 44.0 5.3 52 357-408 107-158 (188)
56 KOG2076 RNA polymerase III tra 89.4 4.9 0.00011 45.7 12.7 108 130-250 403-510 (895)
57 PF03704 BTAD: Bacterial trans 89.1 2.8 6E-05 36.7 8.8 91 128-225 48-142 (146)
58 COG2956 Predicted N-acetylgluc 88.8 7.2 0.00016 39.8 12.3 101 144-252 143-243 (389)
59 PF12895 Apc3: Anaphase-promot 88.6 2.3 5.1E-05 33.6 7.4 59 143-209 26-84 (84)
60 TIGR00990 3a0801s09 mitochondr 88.1 10 0.00023 41.6 14.4 98 142-252 331-428 (615)
61 PF13414 TPR_11: TPR repeat; P 88.0 1.2 2.7E-05 33.6 5.1 64 142-212 3-67 (69)
62 COG3107 LppC Putative lipoprot 87.9 5.6 0.00012 42.9 11.4 105 139-251 60-164 (604)
63 PF08784 RPA_C: Replication pr 87.8 0.53 1.1E-05 39.4 3.2 37 363-399 65-101 (102)
64 PF04733 Coatomer_E: Coatomer 87.5 3.4 7.3E-05 41.4 9.3 155 104-292 69-225 (290)
65 KOG2003 TPR repeat-containing 87.1 4.7 0.0001 42.8 10.1 66 183-254 558-623 (840)
66 PRK15359 type III secretion sy 87.1 18 0.00038 32.0 12.8 93 147-252 29-121 (144)
67 PRK11189 lipoprotein NlpI; Pro 87.1 9.5 0.0002 38.0 12.3 101 139-252 61-161 (296)
68 cd05804 StaR_like StaR_like; a 86.8 5 0.00011 40.2 10.2 98 145-251 117-214 (355)
69 TIGR02917 PEP_TPR_lipo putativ 86.0 8.2 0.00018 42.7 12.3 60 143-209 126-185 (899)
70 PLN03218 maturation of RBCL 1; 86.0 83 0.0018 37.4 24.6 98 145-251 545-642 (1060)
71 KOG3081 Vesicle coat complex C 85.5 22 0.00048 35.5 13.3 124 146-296 112-270 (299)
72 PLN03088 SGT1, suppressor of 85.3 6.9 0.00015 40.2 10.5 93 147-252 7-99 (356)
73 PF13432 TPR_16: Tetratricopep 84.9 3.9 8.5E-05 30.4 6.5 59 188-252 2-60 (65)
74 TIGR03302 OM_YfiO outer membra 84.8 14 0.0003 34.8 11.6 105 144-252 72-195 (235)
75 PRK10370 formate-dependent nit 83.9 38 0.00082 31.7 14.5 95 145-252 76-173 (198)
76 PF04733 Coatomer_E: Coatomer 83.3 21 0.00045 35.8 12.6 143 125-296 120-264 (290)
77 TIGR02795 tol_pal_ybgF tol-pal 82.6 6 0.00013 32.3 7.3 67 144-214 41-107 (119)
78 PF12802 MarR_2: MarR family; 82.2 4.8 0.0001 29.8 5.9 52 351-402 7-60 (62)
79 PRK10049 pgaA outer membrane p 81.4 22 0.00048 40.4 13.4 98 142-252 359-456 (765)
80 PRK11447 cellulose synthase su 81.2 10 0.00022 45.1 11.1 97 143-252 604-700 (1157)
81 TIGR00540 hemY_coli hemY prote 81.1 8.9 0.00019 40.0 9.4 98 141-247 262-359 (409)
82 PF12688 TPR_5: Tetratrico pep 80.8 19 0.00041 31.3 9.9 101 144-251 3-103 (120)
83 TIGR00990 3a0801s09 mitochondr 80.7 12 0.00026 41.1 10.8 61 145-212 368-428 (615)
84 PRK15431 ferrous iron transpor 80.6 3.6 7.9E-05 33.2 4.8 41 356-396 9-49 (78)
85 PF03399 SAC3_GANP: SAC3/GANP/ 80.6 6.8 0.00015 36.4 7.6 100 269-375 100-204 (204)
86 PRK10049 pgaA outer membrane p 79.9 16 0.00034 41.6 11.5 102 145-252 313-422 (765)
87 PF12569 NARP1: NMDA receptor- 79.8 50 0.0011 36.0 14.8 122 116-251 124-256 (517)
88 PF13371 TPR_9: Tetratricopept 79.8 6.9 0.00015 29.6 6.2 61 148-215 1-61 (73)
89 KOG1129 TPR repeat-containing 79.5 16 0.00036 37.5 10.1 95 145-253 226-320 (478)
90 PRK11447 cellulose synthase su 79.5 9.4 0.0002 45.4 10.0 91 145-252 576-666 (1157)
91 KOG2003 TPR repeat-containing 79.3 25 0.00054 37.6 11.6 150 83-253 540-690 (840)
92 PRK10803 tol-pal system protei 78.9 17 0.00038 35.9 10.2 94 151-252 152-246 (263)
93 PRK14574 hmsH outer membrane p 78.6 37 0.00079 39.2 13.9 94 145-252 105-198 (822)
94 CHL00033 ycf3 photosystem I as 78.4 12 0.00027 33.5 8.4 90 155-252 12-101 (168)
95 PF13412 HTH_24: Winged helix- 78.2 7.5 0.00016 27.6 5.5 34 361-394 15-48 (48)
96 KOG1861 Leucine permease trans 78.0 52 0.0011 35.3 13.6 89 152-241 317-405 (540)
97 KOG2002 TPR-containing nuclear 78.0 22 0.00048 41.0 11.5 100 144-252 272-371 (1018)
98 PLN03218 maturation of RBCL 1; 77.9 1.6E+02 0.0035 35.1 22.0 95 146-251 618-712 (1060)
99 smart00550 Zalpha Z-DNA-bindin 76.6 7.9 0.00017 30.0 5.6 32 364-395 23-54 (68)
100 TIGR02917 PEP_TPR_lipo putativ 76.2 20 0.00043 39.6 10.9 63 144-212 92-154 (899)
101 PF10300 DUF3808: Protein of u 76.0 26 0.00057 37.5 11.3 89 154-251 245-333 (468)
102 PRK09782 bacteriophage N4 rece 76.0 30 0.00065 40.7 12.5 93 144-253 46-138 (987)
103 TIGR03504 FimV_Cterm FimV C-te 75.5 4.3 9.2E-05 29.1 3.5 26 145-170 2-27 (44)
104 KOG3785 Uncharacterized conser 75.5 40 0.00087 35.1 11.6 104 142-252 57-180 (557)
105 KOG2300 Uncharacterized conser 75.1 1.3E+02 0.0028 32.7 21.5 145 126-281 349-496 (629)
106 cd00189 TPR Tetratricopeptide 74.9 19 0.0004 26.4 7.4 62 185-252 2-63 (100)
107 smart00347 HTH_MARR helix_turn 74.4 42 0.0009 26.7 9.8 41 362-402 23-63 (101)
108 PLN03081 pentatricopeptide (PP 74.3 68 0.0015 35.9 14.5 93 145-252 465-557 (697)
109 PRK10747 putative protoheme IX 73.9 41 0.00088 35.0 11.9 103 142-251 263-389 (398)
110 TIGR00540 hemY_coli hemY prote 73.8 56 0.0012 34.0 12.9 93 147-251 123-215 (409)
111 PRK10747 putative protoheme IX 73.7 1.2E+02 0.0025 31.5 16.9 91 149-251 125-215 (398)
112 PF13371 TPR_9: Tetratricopept 73.5 24 0.00051 26.6 7.6 57 190-252 2-58 (73)
113 PRK15174 Vi polysaccharide exp 73.3 57 0.0012 36.4 13.5 97 143-252 285-381 (656)
114 KOG3250 COP9 signalosome, subu 73.1 8.1 0.00018 37.2 5.7 48 360-407 106-154 (258)
115 COG2976 Uncharacterized protei 72.9 35 0.00076 32.5 9.8 97 145-252 92-188 (207)
116 PF12728 HTH_17: Helix-turn-he 72.8 10 0.00022 27.2 5.1 47 364-418 2-48 (51)
117 TIGR02337 HpaR homoprotocatech 72.8 38 0.00082 28.6 9.5 50 353-402 32-81 (118)
118 PF01047 MarR: MarR family; I 72.5 9.8 0.00021 28.0 5.1 51 352-402 6-56 (59)
119 PF13429 TPR_15: Tetratricopep 72.2 41 0.0009 32.6 10.9 97 143-252 147-243 (280)
120 COG3629 DnrI DNA-binding trans 71.9 27 0.00058 35.0 9.4 92 127-225 138-233 (280)
121 KOG3054 Uncharacterized conser 71.6 13 0.00027 36.4 6.6 52 357-408 208-259 (299)
122 cd00090 HTH_ARSR Arsenical Res 71.6 20 0.00042 26.6 6.8 45 364-408 21-65 (78)
123 PLN03081 pentatricopeptide (PP 71.5 1.7E+02 0.0037 32.7 16.8 96 146-251 193-318 (697)
124 TIGR01764 excise DNA binding d 70.6 13 0.00029 25.6 5.2 46 364-417 2-47 (49)
125 PF13176 TPR_7: Tetratricopept 70.6 5.7 0.00012 26.5 3.1 23 146-168 3-25 (36)
126 PRK10803 tol-pal system protei 70.3 26 0.00057 34.6 8.9 67 144-215 182-249 (263)
127 smart00419 HTH_CRP helix_turn_ 69.9 9 0.0002 26.6 4.2 32 363-394 8-39 (48)
128 PF13429 TPR_15: Tetratricopep 69.6 18 0.00039 35.2 7.7 96 143-251 181-276 (280)
129 PF12569 NARP1: NMDA receptor- 69.4 70 0.0015 34.9 12.7 65 182-252 3-67 (517)
130 KOG2053 Mitochondrial inherita 69.4 2.2E+02 0.0049 33.0 16.9 146 66-215 340-507 (932)
131 PF08220 HTH_DeoR: DeoR-like h 68.9 11 0.00023 28.2 4.6 48 355-406 6-53 (57)
132 PF14559 TPR_19: Tetratricopep 68.8 24 0.00051 26.2 6.6 53 194-252 2-54 (68)
133 PRK14574 hmsH outer membrane p 68.1 91 0.002 36.0 13.8 153 93-251 297-478 (822)
134 KOG1586 Protein required for f 67.9 53 0.0011 32.4 10.0 111 139-252 31-143 (288)
135 PLN03088 SGT1, suppressor of 67.9 38 0.00083 34.8 9.9 82 143-233 37-118 (356)
136 cd00092 HTH_CRP helix_turn_hel 67.2 9.9 0.00021 28.4 4.2 34 362-395 24-57 (67)
137 TIGR03879 near_KaiC_dom probab 67.2 8.3 0.00018 30.7 3.8 37 357-393 26-62 (73)
138 KOG0553 TPR repeat-containing 66.5 57 0.0012 33.0 10.3 144 228-395 86-250 (304)
139 PF10345 Cohesin_load: Cohesin 65.8 2.2E+02 0.0047 31.5 17.8 126 120-250 80-206 (608)
140 PRK14720 transcript cleavage f 64.7 38 0.00083 39.3 9.8 101 143-252 32-145 (906)
141 smart00344 HTH_ASNC helix_turn 64.6 18 0.00038 30.1 5.6 39 360-398 14-55 (108)
142 PF13181 TPR_8: Tetratricopept 64.4 13 0.00027 23.8 3.7 26 143-168 2-27 (34)
143 PF00325 Crp: Bacterial regula 63.4 14 0.0003 24.7 3.6 30 364-393 3-32 (32)
144 PF13525 YfiO: Outer membrane 63.3 1.3E+02 0.0028 28.0 13.0 105 144-253 7-120 (203)
145 COG3118 Thioredoxin domain-con 62.9 1.8E+02 0.0039 29.5 15.8 175 74-285 113-290 (304)
146 PF13174 TPR_6: Tetratricopept 62.7 9.1 0.0002 24.0 2.8 27 145-171 3-29 (33)
147 PF09986 DUF2225: Uncharacteri 62.7 89 0.0019 29.9 10.7 73 178-252 113-194 (214)
148 PF13428 TPR_14: Tetratricopep 62.6 12 0.00027 25.9 3.6 27 144-170 3-29 (44)
149 smart00418 HTH_ARSR helix_turn 62.3 23 0.00051 25.4 5.4 47 361-407 8-54 (66)
150 KOG1125 TPR repeat-containing 61.8 1.4E+02 0.003 32.8 12.8 159 116-299 407-569 (579)
151 PF12755 Vac14_Fab1_bd: Vacuol 61.6 77 0.0017 26.4 8.8 51 202-252 21-72 (97)
152 PF02082 Rrf2: Transcriptional 61.5 41 0.0009 26.8 7.0 46 364-409 26-71 (83)
153 KOG1155 Anaphase-promoting com 61.3 74 0.0016 34.2 10.4 101 142-251 432-535 (559)
154 KOG0543 FKBP-type peptidyl-pro 60.8 1E+02 0.0022 32.4 11.3 104 143-252 209-320 (397)
155 KOG4414 COP9 signalosome, subu 60.8 12 0.00025 34.0 3.9 40 345-384 114-153 (197)
156 cd05804 StaR_like StaR_like; a 60.7 33 0.00072 34.2 7.8 65 143-210 149-213 (355)
157 PF13545 HTH_Crp_2: Crp-like h 60.0 16 0.00034 28.2 4.2 33 362-394 27-59 (76)
158 COG3071 HemY Uncharacterized e 59.9 1.6E+02 0.0034 31.0 12.3 126 101-251 263-389 (400)
159 PF09295 ChAPs: ChAPs (Chs5p-A 59.4 1.8E+02 0.0039 30.6 13.1 94 143-252 170-263 (395)
160 PRK15174 Vi polysaccharide exp 59.0 66 0.0014 35.9 10.5 97 143-252 247-347 (656)
161 smart00420 HTH_DEOR helix_turn 58.8 25 0.00055 24.5 4.9 34 362-395 13-46 (53)
162 PRK11169 leucine-responsive tr 58.7 25 0.00054 31.9 5.9 47 352-398 17-66 (164)
163 PF13181 TPR_8: Tetratricopept 58.3 20 0.00044 22.7 3.9 29 184-212 2-30 (34)
164 PF07719 TPR_2: Tetratricopept 58.3 19 0.00042 22.7 3.8 27 143-169 2-28 (34)
165 smart00345 HTH_GNTR helix_turn 58.1 24 0.00052 25.4 4.7 32 363-394 19-51 (60)
166 PF13512 TPR_18: Tetratricopep 57.5 1.3E+02 0.0029 27.0 10.1 64 147-214 15-78 (142)
167 KOG2002 TPR-containing nuclear 57.4 17 0.00038 41.8 5.4 93 148-251 652-744 (1018)
168 PF04703 FaeA: FaeA-like prote 57.1 19 0.0004 27.8 4.0 34 361-394 13-46 (62)
169 PF07721 TPR_4: Tetratricopept 56.9 16 0.00034 22.6 3.0 24 143-166 2-25 (26)
170 PRK04841 transcriptional regul 56.6 1E+02 0.0022 35.2 11.7 106 145-251 494-601 (903)
171 KOG3060 Uncharacterized conser 56.4 2.2E+02 0.0048 28.5 14.2 97 143-252 87-183 (289)
172 TIGR01610 phage_O_Nterm phage 56.3 50 0.0011 27.2 6.8 46 360-407 44-89 (95)
173 PRK11179 DNA-binding transcrip 56.0 29 0.00062 31.1 5.8 38 362-399 22-62 (153)
174 PRK02603 photosystem I assembl 55.8 1.1E+02 0.0025 27.3 9.8 71 179-252 31-101 (172)
175 KOG1538 Uncharacterized conser 55.5 1.2E+02 0.0026 34.1 11.0 137 97-252 667-833 (1081)
176 COG5010 TadD Flp pilus assembl 55.2 80 0.0017 31.2 8.9 95 146-253 70-164 (257)
177 KOG2034 Vacuolar sorting prote 54.8 1.6E+02 0.0034 34.1 12.1 55 189-252 364-418 (911)
178 PF13374 TPR_10: Tetratricopep 54.1 23 0.00051 23.2 3.8 28 142-169 2-29 (42)
179 KOG1585 Protein required for f 54.1 2.4E+02 0.0052 28.2 15.6 103 147-251 56-178 (308)
180 PF13525 YfiO: Outer membrane 54.0 1.9E+02 0.0041 26.9 13.8 108 144-253 44-171 (203)
181 PF04545 Sigma70_r4: Sigma-70, 53.9 34 0.00074 24.3 4.8 31 359-389 16-46 (50)
182 KOG1586 Protein required for f 53.7 2.4E+02 0.0051 28.0 19.4 103 145-249 57-160 (288)
183 COG1497 Predicted transcriptio 53.5 70 0.0015 31.4 8.1 63 362-427 24-87 (260)
184 KOG1155 Anaphase-promoting com 53.3 73 0.0016 34.3 8.8 67 144-212 468-536 (559)
185 TIGR02010 IscR iron-sulfur clu 53.0 54 0.0012 28.7 6.9 45 363-407 25-69 (135)
186 COG3355 Predicted transcriptio 52.9 87 0.0019 27.6 8.0 66 363-428 42-119 (126)
187 TIGR02944 suf_reg_Xantho FeS a 52.7 23 0.00049 30.7 4.4 36 362-397 24-59 (130)
188 PRK12370 invasion protein regu 52.3 1.1E+02 0.0023 33.4 10.6 94 145-251 341-434 (553)
189 KOG1070 rRNA processing protei 51.8 85 0.0018 38.1 9.8 75 144-225 1532-1606(1710)
190 PF13428 TPR_14: Tetratricopep 51.8 43 0.00092 23.1 4.9 36 184-221 2-37 (44)
191 TIGR02552 LcrH_SycD type III s 51.4 1.4E+02 0.0031 24.9 11.0 64 183-252 17-80 (135)
192 PF09339 HTH_IclR: IclR helix- 50.8 29 0.00062 25.1 4.0 37 358-394 13-49 (52)
193 cd07377 WHTH_GntR Winged helix 50.7 54 0.0012 24.0 5.7 30 365-394 27-56 (66)
194 PRK10370 formate-dependent nit 50.4 2.2E+02 0.0047 26.6 11.0 85 155-252 52-139 (198)
195 PLN03077 Protein ECB2; Provisi 50.2 65 0.0014 36.9 8.8 91 150-251 597-719 (857)
196 PF13934 ELYS: Nuclear pore co 49.5 1.6E+02 0.0034 28.4 10.1 119 75-215 18-140 (226)
197 TIGR00738 rrf2_super rrf2 fami 48.4 51 0.0011 28.3 6.0 42 363-404 25-66 (132)
198 PRK04841 transcriptional regul 48.3 2.1E+02 0.0045 32.8 12.5 108 143-252 453-560 (903)
199 PRK09782 bacteriophage N4 rece 48.3 1.1E+02 0.0024 36.1 10.3 94 146-252 613-706 (987)
200 PRK09954 putative kinase; Prov 48.2 58 0.0013 33.2 7.3 54 354-407 8-64 (362)
201 COG2976 Uncharacterized protei 48.0 1.3E+02 0.0028 28.7 8.8 64 143-214 127-190 (207)
202 PRK15363 pathogenicity island 47.9 1.8E+02 0.004 26.6 9.6 95 145-252 38-132 (157)
203 PRK11512 DNA-binding transcrip 47.7 1.3E+02 0.0028 26.4 8.5 43 361-403 52-94 (144)
204 PF07719 TPR_2: Tetratricopept 47.3 38 0.00082 21.3 3.8 26 185-210 3-28 (34)
205 PRK10857 DNA-binding transcrip 47.1 34 0.00074 31.4 4.8 46 362-407 24-69 (164)
206 COG1959 Predicted transcriptio 45.9 61 0.0013 29.2 6.2 54 353-406 13-68 (150)
207 COG1729 Uncharacterized protei 45.7 70 0.0015 31.7 7.0 98 146-251 145-243 (262)
208 PF09670 Cas_Cas02710: CRISPR- 45.6 2.1E+02 0.0045 29.8 10.9 61 145-210 134-196 (379)
209 PRK13777 transcriptional regul 45.6 2.6E+02 0.0056 26.2 10.6 53 350-402 46-98 (185)
210 PRK12370 invasion protein regu 45.5 1.3E+02 0.0029 32.7 9.9 96 144-251 374-469 (553)
211 PRK10866 outer membrane biogen 45.3 2.9E+02 0.0064 26.7 13.7 105 144-253 71-205 (243)
212 PRK03573 transcriptional regul 45.1 1.7E+02 0.0038 25.4 9.0 41 363-403 46-86 (144)
213 PF13404 HTH_AsnC-type: AsnC-t 45.0 48 0.001 23.3 4.2 26 362-387 16-41 (42)
214 PF01325 Fe_dep_repress: Iron 44.7 61 0.0013 24.5 5.1 34 361-394 20-53 (60)
215 PF09743 DUF2042: Uncharacteri 44.2 65 0.0014 32.1 6.6 39 362-400 129-167 (272)
216 PF10602 RPN7: 26S proteasome 43.8 2.6E+02 0.0057 25.7 11.2 73 177-252 30-102 (177)
217 COG1522 Lrp Transcriptional re 43.8 45 0.00098 29.3 5.0 38 362-399 21-61 (154)
218 cd04762 HTH_MerR-trunc Helix-T 42.1 57 0.0012 22.1 4.4 45 365-416 2-46 (49)
219 KOG1585 Protein required for f 42.1 3.7E+02 0.008 26.9 13.8 110 141-252 90-219 (308)
220 PF13463 HTH_27: Winged helix 42.0 78 0.0017 23.5 5.5 44 359-402 14-57 (68)
221 PF04967 HTH_10: HTH DNA bindi 41.5 42 0.00091 25.0 3.7 27 362-388 22-48 (53)
222 PF07064 RIC1: RIC1; InterPro 41.0 3.5E+02 0.0077 26.6 11.2 124 83-209 118-246 (258)
223 PRK11920 rirA iron-responsive 40.9 98 0.0021 27.9 6.8 42 363-404 24-65 (153)
224 PF01022 HTH_5: Bacterial regu 40.9 59 0.0013 22.9 4.3 33 362-394 14-46 (47)
225 TIGR02702 SufR_cyano iron-sulf 39.8 2.2E+02 0.0048 26.6 9.3 36 361-396 13-48 (203)
226 KOG0495 HAT repeat protein [RN 39.6 3.3E+02 0.0072 30.8 11.4 107 144-252 687-846 (913)
227 PRK11014 transcriptional repre 39.4 1.2E+02 0.0026 26.7 7.0 47 362-408 24-70 (141)
228 PF12854 PPR_1: PPR repeat 39.4 36 0.00078 22.4 2.8 23 146-168 11-33 (34)
229 smart00346 HTH_ICLR helix_turn 39.3 1.9E+02 0.0041 22.7 7.6 44 362-407 19-62 (91)
230 PF08279 HTH_11: HTH domain; 39.0 61 0.0013 23.3 4.3 28 364-391 16-43 (55)
231 KOG3060 Uncharacterized conser 38.7 1.6E+02 0.0034 29.5 8.1 64 145-212 157-220 (289)
232 KOG0212 Uncharacterized conser 37.6 2.2E+02 0.0048 31.5 9.6 101 146-251 25-128 (675)
233 PF00515 TPR_1: Tetratricopept 37.1 73 0.0016 20.1 4.0 27 185-211 3-29 (34)
234 PF01978 TrmB: Sugar-specific 37.1 48 0.001 25.2 3.6 37 361-397 20-56 (68)
235 PF09613 HrpB1_HrpK: Bacterial 37.1 2.4E+02 0.0051 26.0 8.6 64 100-170 6-72 (160)
236 PRK11050 manganese transport r 35.7 3.2E+02 0.007 24.4 10.1 35 362-396 50-84 (152)
237 PRK10411 DNA-binding transcrip 35.6 78 0.0017 30.7 5.6 43 353-395 8-50 (240)
238 PF05584 Sulfolobus_pRN: Sulfo 35.3 1.3E+02 0.0029 23.9 5.7 40 354-395 11-50 (72)
239 PF06163 DUF977: Bacterial pro 35.1 2.9E+02 0.0063 24.4 8.4 62 357-423 20-81 (127)
240 PRK13509 transcriptional repre 34.9 81 0.0018 30.7 5.6 41 354-394 10-50 (251)
241 KOG2376 Signal recognition par 34.9 5.7E+02 0.012 28.5 12.2 106 146-252 114-253 (652)
242 PF13176 TPR_7: Tetratricopept 34.7 56 0.0012 21.5 3.2 25 186-210 2-26 (36)
243 PF11207 DUF2989: Protein of u 34.4 3.8E+02 0.0082 25.6 9.7 68 90-162 130-198 (203)
244 PRK11189 lipoprotein NlpI; Pro 34.2 2.4E+02 0.0052 27.9 9.0 70 177-252 58-127 (296)
245 KOG1941 Acetylcholine receptor 34.1 5.4E+02 0.012 27.2 11.3 117 133-252 156-275 (518)
246 KOG1156 N-terminal acetyltrans 33.6 4.2E+02 0.0092 29.8 11.1 100 147-253 148-249 (700)
247 PF12862 Apc5: Anaphase-promot 33.6 2.6E+02 0.0056 22.6 8.1 67 153-220 9-78 (94)
248 PF12840 HTH_20: Helix-turn-he 33.6 77 0.0017 23.6 4.1 37 359-395 20-56 (61)
249 PF10078 DUF2316: Uncharacteri 33.4 47 0.001 27.5 3.0 25 361-385 21-45 (89)
250 COG3063 PilF Tfp pilus assembl 33.2 1.9E+02 0.0042 28.4 7.6 69 177-252 29-98 (250)
251 KOG2047 mRNA splicing factor [ 33.1 2.3E+02 0.005 31.9 9.0 89 116-211 363-453 (835)
252 PF07106 TBPIP: Tat binding pr 32.8 3.8E+02 0.0081 24.3 9.4 80 349-431 5-92 (169)
253 KOG2796 Uncharacterized conser 32.7 2.4E+02 0.0052 28.5 8.3 101 144-253 179-282 (366)
254 KOG1173 Anaphase-promoting com 32.0 2.7E+02 0.0059 30.7 9.2 100 145-252 417-518 (611)
255 KOG1128 Uncharacterized conser 31.9 2.1E+02 0.0045 32.5 8.5 141 142-287 398-555 (777)
256 KOG0543 FKBP-type peptidyl-pro 31.8 6.4E+02 0.014 26.6 13.6 122 117-251 225-354 (397)
257 COG3071 HemY Uncharacterized e 31.8 6.4E+02 0.014 26.6 13.1 82 185-280 155-236 (400)
258 PF04100 Vps53_N: Vps53-like, 31.7 3.5E+02 0.0075 28.3 10.0 56 183-249 88-143 (383)
259 PRK04778 septation ring format 31.5 7.2E+02 0.016 27.3 12.9 100 126-226 460-562 (569)
260 PRK10046 dpiA two-component re 31.4 1E+02 0.0022 28.9 5.5 45 354-398 168-212 (225)
261 PF13730 HTH_36: Helix-turn-he 31.4 69 0.0015 23.0 3.5 29 365-393 27-55 (55)
262 PHA02943 hypothetical protein; 31.1 3.4E+02 0.0074 24.9 8.3 65 361-430 22-86 (165)
263 PF12324 HTH_15: Helix-turn-he 30.8 55 0.0012 26.4 3.0 28 361-388 36-63 (77)
264 PF12793 SgrR_N: Sugar transpo 30.7 70 0.0015 27.6 3.9 48 361-408 17-67 (115)
265 PF08281 Sigma70_r4_2: Sigma-7 30.2 96 0.0021 22.2 4.1 30 359-388 22-51 (54)
266 KOG1941 Acetylcholine receptor 30.1 1.4E+02 0.0031 31.3 6.5 102 146-252 126-235 (518)
267 PF11817 Foie-gras_1: Foie gra 30.0 2.7E+02 0.0058 26.9 8.3 50 118-169 156-205 (247)
268 PRK14165 winged helix-turn-hel 30.0 2.5E+02 0.0054 27.1 7.9 48 361-408 19-66 (217)
269 COG4783 Putative Zn-dependent 29.9 4.1E+02 0.0089 28.7 10.1 104 144-267 308-411 (484)
270 PF13613 HTH_Tnp_4: Helix-turn 29.7 94 0.002 22.6 3.9 39 350-388 6-44 (53)
271 COG4235 Cytochrome c biogenesi 29.6 6E+02 0.013 25.6 12.0 93 147-252 161-256 (287)
272 smart00421 HTH_LUXR helix_turn 29.6 1.2E+02 0.0026 21.0 4.5 29 360-388 15-43 (58)
273 PRK10434 srlR DNA-bindng trans 29.6 96 0.0021 30.3 5.2 43 351-393 7-49 (256)
274 PRK15179 Vi polysaccharide bio 29.5 4.1E+02 0.009 30.1 10.7 131 99-252 87-217 (694)
275 PRK15359 type III secretion sy 29.1 3.9E+02 0.0084 23.3 10.4 61 186-252 27-87 (144)
276 PF00392 GntR: Bacterial regul 28.9 1.2E+02 0.0025 22.7 4.5 35 361-395 21-56 (64)
277 PF12964 DUF3853: Protein of u 28.8 39 0.00084 28.4 1.8 40 365-408 47-86 (96)
278 KOG1497 COP9 signalosome, subu 28.7 6.7E+02 0.015 26.0 10.8 128 79-208 76-209 (399)
279 KOG2376 Signal recognition par 28.1 8.8E+02 0.019 27.1 12.5 107 144-252 378-487 (652)
280 PF07328 VirD1: T-DNA border e 28.1 1.9E+02 0.0042 25.8 6.1 65 365-441 39-104 (147)
281 COG4700 Uncharacterized protei 27.8 5.5E+02 0.012 24.7 9.5 121 145-289 92-212 (251)
282 PF04184 ST7: ST7 protein; In 27.8 1.9E+02 0.0041 31.5 7.2 63 142-209 259-321 (539)
283 PRK15331 chaperone protein Sic 27.4 3.6E+02 0.0078 24.9 8.1 94 145-251 40-133 (165)
284 PF04492 Phage_rep_O: Bacterio 27.4 88 0.0019 26.4 3.8 35 359-393 50-84 (100)
285 KOG2796 Uncharacterized conser 27.4 3.8E+02 0.0083 27.1 8.7 105 139-251 209-314 (366)
286 PF01726 LexA_DNA_bind: LexA D 27.2 1.1E+02 0.0023 23.6 4.0 31 364-394 26-57 (65)
287 PF09986 DUF2225: Uncharacteri 27.1 5.5E+02 0.012 24.4 10.4 81 140-221 116-203 (214)
288 KOG4626 O-linked N-acetylgluco 26.8 9.8E+02 0.021 27.2 14.0 56 191-252 362-417 (966)
289 COG4367 Uncharacterized protei 26.5 75 0.0016 26.3 3.1 25 361-385 21-45 (97)
290 PRK04217 hypothetical protein; 26.4 1.8E+02 0.004 24.9 5.7 44 360-403 55-105 (110)
291 TIGR03362 VI_chp_7 type VI sec 26.2 2.5E+02 0.0054 28.4 7.5 61 149-214 220-281 (301)
292 cd06170 LuxR_C_like C-terminal 26.1 1.5E+02 0.0032 20.7 4.4 29 360-388 12-40 (57)
293 PRK10153 DNA-binding transcrip 26.0 2E+02 0.0043 31.4 7.2 62 184-252 421-482 (517)
294 PF13601 HTH_34: Winged helix 25.9 3.4E+02 0.0073 21.6 7.8 42 361-402 12-53 (80)
295 PRK10870 transcriptional repre 25.6 5.2E+02 0.011 23.6 13.4 41 362-402 70-110 (176)
296 PF14947 HTH_45: Winged helix- 25.5 3.3E+02 0.0072 21.3 7.2 52 361-416 17-69 (77)
297 PF08672 APC2: Anaphase promot 25.4 73 0.0016 24.3 2.7 25 372-396 30-54 (60)
298 PRK04424 fatty acid biosynthes 24.8 91 0.002 29.0 3.8 44 350-393 8-51 (185)
299 COG3413 Predicted DNA binding 24.7 83 0.0018 29.8 3.6 27 362-388 177-203 (215)
300 KOG2908 26S proteasome regulat 24.6 7.1E+02 0.015 25.9 10.3 122 83-206 57-180 (380)
301 smart00028 TPR Tetratricopepti 24.6 1.4E+02 0.003 16.7 4.1 26 226-251 4-29 (34)
302 PF02259 FAT: FAT domain; Int 24.5 6.8E+02 0.015 24.5 17.1 111 138-251 142-286 (352)
303 PRK12798 chemotaxis protein; R 24.3 3.9E+02 0.0085 28.4 8.7 73 176-250 250-322 (421)
304 PF04760 IF2_N: Translation in 24.3 64 0.0014 23.5 2.2 23 363-385 3-25 (54)
305 smart00529 HTH_DTXR Helix-turn 24.3 3.7E+02 0.0079 21.4 7.6 33 366-398 2-34 (96)
306 KOG3785 Uncharacterized conser 24.2 8.7E+02 0.019 25.7 15.0 158 82-252 320-490 (557)
307 COG5010 TadD Flp pilus assembl 24.1 5.9E+02 0.013 25.3 9.4 92 148-252 106-197 (257)
308 PRK10866 outer membrane biogen 24.0 6.6E+02 0.014 24.2 11.9 97 101-208 141-237 (243)
309 PF03081 Exo70: Exo70 exocyst 23.9 1.3E+02 0.0029 30.6 5.2 63 324-387 304-371 (371)
310 PF01984 dsDNA_bind: Double-st 23.8 39 0.00084 28.9 1.1 22 377-398 61-82 (107)
311 TIGR01884 cas_HTH CRISPR locus 23.7 2.3E+02 0.005 26.4 6.5 37 362-398 156-192 (203)
312 PF01535 PPR: PPR repeat; Int 23.5 91 0.002 18.8 2.6 24 147-170 5-28 (31)
313 KOG2047 mRNA splicing factor [ 23.4 9.8E+02 0.021 27.2 11.6 101 145-252 172-277 (835)
314 KOG4626 O-linked N-acetylgluco 23.2 1.8E+02 0.004 32.6 6.1 54 194-253 331-384 (966)
315 PF04539 Sigma70_r3: Sigma-70 23.2 88 0.0019 24.2 3.0 25 362-386 19-43 (78)
316 cd04761 HTH_MerR-SF Helix-Turn 22.8 1.6E+02 0.0034 20.2 4.0 39 365-408 2-40 (49)
317 TIGR03697 NtcA_cyano global ni 22.4 1.2E+02 0.0026 27.3 4.2 33 363-395 143-175 (193)
318 PF06971 Put_DNA-bind_N: Putat 22.3 99 0.0021 22.7 2.8 25 361-385 26-50 (50)
319 PF10798 YmgB: Biofilm develop 22.1 1.8E+02 0.0039 22.3 4.3 48 82-130 6-53 (61)
320 PF13431 TPR_17: Tetratricopep 22.0 1.1E+02 0.0023 20.1 2.7 20 143-162 14-33 (34)
321 PF00440 TetR_N: Bacterial reg 21.9 1.7E+02 0.0037 20.4 4.0 23 358-380 11-33 (47)
322 PRK10906 DNA-binding transcrip 21.7 1.7E+02 0.0037 28.6 5.3 41 354-394 10-50 (252)
323 TIGR02561 HrpB1_HrpK type III 21.1 6.1E+02 0.013 23.2 8.2 66 181-252 8-73 (153)
324 PF13542 HTH_Tnp_ISL3: Helix-t 21.1 1.4E+02 0.003 21.1 3.4 27 361-387 25-51 (52)
325 PRK09334 30S ribosomal protein 21.0 4.8E+02 0.01 21.5 6.9 45 361-406 39-83 (86)
326 PF08679 DsrD: Dissimilatory s 20.8 1.4E+02 0.003 23.5 3.4 34 361-394 17-51 (67)
327 PF08625 Utp13: Utp13 specific 20.8 2.1E+02 0.0045 25.6 5.2 65 107-172 51-116 (141)
328 PRK11753 DNA-binding transcrip 20.7 1.4E+02 0.0029 27.4 4.2 32 363-394 168-199 (211)
329 COG1349 GlpR Transcriptional r 20.5 1.7E+02 0.0037 28.6 5.0 44 352-395 8-51 (253)
330 COG1846 MarR Transcriptional r 20.5 4.3E+02 0.0093 21.3 6.9 36 367-402 40-75 (126)
331 TIGR01257 rim_protein retinal- 20.4 9.7E+02 0.021 31.3 12.3 46 351-399 507-553 (2272)
332 KOG3470 Beta-tubulin folding c 20.0 2.1E+02 0.0045 24.5 4.6 54 116-169 49-104 (107)
333 PF03704 BTAD: Bacterial trans 20.0 5.5E+02 0.012 21.9 9.8 64 183-252 62-125 (146)
334 COG5481 Uncharacterized conser 20.0 1.5E+02 0.0034 22.6 3.4 27 142-168 7-33 (67)
No 1
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=2.1e-80 Score=599.52 Aligned_cols=388 Identities=56% Similarity=0.877 Sum_probs=370.4
Q ss_pred HhhhhhhhchhhHhHHHHHHHHHHhhcCCChHhhHHhhhcccCCCchhHHHHhhccccchhhhcccccccccCCCCcchh
Q 013430 4 ALASASAITDQRQKIEQYKHILSSVISSNDIVQAKKFIDHSYLSPSLSIFLIKNFRLGFFEIHYFGRKQIFVRPYPFSIF 83 (443)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (443)
.+.-+.+.+|||++.++|+.+|+..++++.. +.++. +
T Consensus 8 ev~~~~~~g~hk~~~~qyr~~l~~~lt~~~~----el~e~---------------------------------------~ 44 (399)
T KOG1497|consen 8 EVVLIFAEGDHKDQAEQYRQLLAKVLTNNGM----ELLEA---------------------------------------L 44 (399)
T ss_pred HHHHHHhcCchhhHHHHHHHHHHHHhccchH----HHHHH---------------------------------------H
Confidence 4455677789999999999999999987764 24455 6
Q ss_pred hHhhhhhhcCCcceeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHH
Q 013430 84 KFFFCAVLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQ 163 (443)
Q Consensus 84 ~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~ 163 (443)
|.||+.++++++++|+|||+++.|+..|+.+|++.+|++.++++..++|+.+|||+|++.+|.+||.+||++++|..|+.
T Consensus 45 k~~id~~~~~~vslvvsrqllsl~~~~l~~l~~e~~Kei~~~~l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~~~~aaq 124 (399)
T KOG1497|consen 45 KRFIDAIVNENVSLVVSRQLLSLFDVELSILEDELRKEISHFTLEKIQPRVISFEEQVASIRLHLASIYEKEQNWRDAAQ 124 (399)
T ss_pred HHHHHHHHcCCchhhhHHHHHHHHHHHhccCCHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 66666699999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 164 MLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAA 243 (443)
Q Consensus 164 ~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa 243 (443)
+|.+|+.+||++..+.+.|+..|+++.|+||+.+|.+.|+.++||++-.+....++++++.|++|+||++|.+|+|.|||
T Consensus 125 ~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne~Lqie~kvc~ARvlD~krkFlEAA 204 (399)
T KOG1497|consen 125 VLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEAYINRASILQAESSNEQLQIEYKVCYARVLDYKRKFLEAA 204 (399)
T ss_pred HHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999877899999999999999999999999999
Q ss_pred HHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcccccccchHHHHHHHHHHhcchhhH
Q 013430 244 LRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEI 323 (443)
Q Consensus 244 ~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~~~L~k~f~~~ii~~~el 323 (443)
++||+++.. ..+++.++.++|+.++.|++||.+||+|+|+|+.+++||||+++|.|..+.|||++++|+.+++
T Consensus 205 qrYyels~~-------ki~~e~~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~l~~y~ileKmyl~riI~k~el 277 (399)
T KOG1497|consen 205 QRYYELSQR-------KIVDESERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQKLPAYGILEKMYLERIIRKEEL 277 (399)
T ss_pred HHHHHHHHH-------HhcchHHHHHHHHHhHhheeecCCChHHHHHHHHHhcCcccccccchHHHHHHHHHHHhcchhH
Confidence 999999984 4588999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhHHHHhhcCCchhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCE
Q 013430 324 DAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 324 ~~F~~~L~~hq~~l~~D~~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~gi 403 (443)
+.|+..|.|||++-+.||.++|.++++||||+.+||+|.+|||+.||++|++|++++|+++++||.+||++|.|||.+|+
T Consensus 278 ~ef~~~L~pHQka~~~dgssil~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~ekaekiaa~MI~qeRmng~IDQ~egi 357 (399)
T KOG1497|consen 278 QEFEAFLQPHQKAHTMDGSSILDRAVIEHNLLSASKLYNNISFEELGALLKIDAEKAEKIAAQMITQERMNGSIDQIEGI 357 (399)
T ss_pred HHHHHHhcchhhhcccCcchhhhhHHHHHhHHHHHHHHHhccHHHHHHHhCCCHHHHHHHHHHHHhHHHhccchHhhcce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEECCcchHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCC
Q 013430 404 IHFEDDTEELQQWDQQIVGLCQALNDILDSMAKKGLPIP 442 (443)
Q Consensus 404 V~F~~~~~~l~~W~~~I~~l~~~v~~v~~~I~ke~~~~~ 442 (443)
|+|++ .+.+..||.+|+++|..||++.+.|.+.++.|+
T Consensus 358 ihFe~-~e~l~~wdkqi~sl~~qvNki~~~i~~~~s~~~ 395 (399)
T KOG1497|consen 358 IHFED-REELPQWDKQIQSLCNQVNKILDKISHYGSEWA 395 (399)
T ss_pred Eeecc-hhhhhhhhHHHHHHHHHHHHHHHHHHHhCcchh
Confidence 99997 478999999999999999999999999998775
No 2
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-60 Score=473.03 Aligned_cols=357 Identities=20% Similarity=0.299 Sum_probs=330.6
Q ss_pred chhhhcccccccccCCCCcchhhHhhhhhhcCCcceeecHH---------HHHHHHHHhCCCChHHHHHHHHHHHHhhcc
Q 013430 62 FFEIHYFGRKQIFVRPYPFSIFKFFFCAVLSDDVPLVVSRQ---------LLQTFAQELGRLEPETQKEIANYTLAQIQP 132 (443)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lv~sr~---------~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~ 132 (443)
++-+||+|-|+= .+||.+.+++.|+ |++++++++++.|+...+..+..||+.+++
T Consensus 58 i~~lc~~~~~w~----------------~Lne~i~~Lskkrgqlk~ai~~Mvq~~~~y~~~~~d~~~k~~li~tLr~Vte 121 (439)
T KOG1498|consen 58 IMKLCFSAKDWD----------------LLNEQIRLLSKKRGQLKQAIQSMVQQAMTYIDGTPDLETKIKLIETLRTVTE 121 (439)
T ss_pred HHHHHhccccHH----------------HHHHHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCCchhHHHHHHHHHHhhc
Confidence 688999999988 8889988888776 999999999999998888888999999999
Q ss_pred ccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 133 RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 133 ~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
|||++|.+|||++..||+++|++||..+||.+++++|||| +|+|+.++|+.++|+|||||+..+||.+|.++.+|++.+
T Consensus 122 gkIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VET-ygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K 200 (439)
T KOG1498|consen 122 GKIYVEVERARLTKMLAKIKEEQGDIAEAADILCELQVET-YGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKK 200 (439)
T ss_pred CceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhh-hhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHH
Confidence 9999999999999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred hccccH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHH
Q 013430 213 VSSSQQ-EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVL 291 (443)
Q Consensus 213 ~~~~~d-~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll 291 (443)
+++.++ .+++++||..|.+++.|++.|+++|++|.+++.++. ...|++.|...|..++++++|||.++++++++
T Consensus 201 ~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~-----vk~d~~kw~~vL~~iv~f~~LAp~dneQsdll 275 (439)
T KOG1498|consen 201 FFEKPDVQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGN-----VKEDPEKWIEVLRSIVSFCVLAPHDNEQSDLL 275 (439)
T ss_pred hcCCccHHHHHHHHHHHHHHhcccccchhhHHHHHHHHhcccc-----cccChhhhhhhhhhheeEEeecCCCcHHHHHH
Confidence 998654 689999999999999999999999999999999753 34588999999999999999999999999999
Q ss_pred HhhhcCcccccccchHHHHHHHH-HHhcchhhH-HHHHHHhhHHHHh-hcCCc---hhHHHHHHHHHHHHHHhhcccccC
Q 013430 292 ATLYKDERCSKLKIYPILQKVYL-ERILRKPEI-DAFAEELKPHQKA-LLPDN---FTVLDRAMIEHNLLSASKLYTNIS 365 (443)
Q Consensus 292 ~~l~kd~~~~~l~~~~~L~k~f~-~~ii~~~el-~~F~~~L~~hq~~-l~~D~---~~~L~~~viEhNL~~isk~Ys~It 365 (443)
+++..|+.+.++|.|..+++.|. .++++|..+ ..|...|.....+ ...+| |++|+.||+|||++.+++||++|+
T Consensus 276 ~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~RIiEHNiRiiA~yYSrIt 355 (439)
T KOG1498|consen 276 ARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLRIIEHNIRIIAKYYSRIT 355 (439)
T ss_pred HHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999998 689999854 5687777654222 12222 899999999999999999999999
Q ss_pred HHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC---cchHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 013430 366 FEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED---DTEELQQWDQQIVGLCQALNDILDSMAKKGLP 440 (443)
Q Consensus 366 l~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~---~~~~l~~W~~~I~~l~~~v~~v~~~I~ke~~~ 440 (443)
+.+||+++|+|++++|+++|.||..|.+.||||||.|+|.|.. +.+.++.|+.++.++++.++++.|+|+||+|-
T Consensus 356 ~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~~~LneW~~nve~L~~ll~K~~HLI~KEemm 433 (439)
T KOG1498|consen 356 LKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSNEILNEWASNVEKLLGLLEKVSHLIHKEEMM 433 (439)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCCCceEEEEecccHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999985 45789999999999999999999999999873
No 3
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.7e-50 Score=387.94 Aligned_cols=352 Identities=18% Similarity=0.293 Sum_probs=315.7
Q ss_pred hhhHhhhhhhcCCcceeecHH-HHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHH
Q 013430 82 IFKFFFCAVLSDDVPLVVSRQ-LLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSK 160 (443)
Q Consensus 82 ~~~~~~~~~~~~~~~lv~sr~-~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~e 160 (443)
+|+.-+-.++-.+..+-.|=+ |++.+.++++..++--.+.....||+.++++++++|.+|++++..|..+|+..||.++
T Consensus 70 ~Lneql~~L~kKhGQlk~sI~~MIq~vmEylKg~~dl~t~i~~ietlr~VtEgkIFvEvERariT~~L~~ikee~Gdi~s 149 (439)
T COG5071 70 GLNEQLVSLFKKHGQLKQSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTEGKIFVEVERARLTQLLSQIKEEQGDIKS 149 (439)
T ss_pred hhhhHHHHHHHHcchHHHHHHHHHHHHHHhccCcccccchHhHHHHHHHHhcCceEEehhHHHHHHHHHHHHHHhcchhH
Confidence 355555555555555544443 7888888888877656677778899999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc-HHHHHHHHHHHHHHHHHHHHHH
Q 013430 161 AAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLKRKF 239 (443)
Q Consensus 161 Aa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~-d~~lk~~y~~~~ari~~~~r~f 239 (443)
|+.++.++|+|| +++++..+|+.++|+|+|||+..+||.+|.++.+|+..+.++.+ ...++++||....+++.|+|.|
T Consensus 150 A~Dilcn~pVET-ygs~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~i~Lh~R~Y 228 (439)
T COG5071 150 AQDILCNEPVET-YGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHDRAY 228 (439)
T ss_pred HHHHHhcCchhh-ccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccHHHHHHHHHHHhheeecccHHH
Confidence 999999999999 99999999999999999999999999999999999999998865 4689999999999999999999
Q ss_pred HHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcccccccchHHHHHHHH-HHhc
Q 013430 240 LEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYL-ERIL 318 (443)
Q Consensus 240 ~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~~~L~k~f~-~~ii 318 (443)
++||++|.+++.|. ...-++..|..+|+..+++++|+|.++++.++++++..|-.+.++|.-..+++.|. ++++
T Consensus 229 l~v~~y~~~vY~t~-----~~~~d~Akwk~VLS~~v~F~iLtpy~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vNelm 303 (439)
T COG5071 229 LDVCKYYRAVYDTA-----VVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELM 303 (439)
T ss_pred HHHHHHHHHHHHHH-----HhccCcccccchhhcceeeEEecccccHHHHHHHHhhhhhhhccchhhhhHHHHHHHHHHH
Confidence 99999999999974 33456788999999999999999999999999999999888888999999999997 8999
Q ss_pred chhhHH-HHHHHhhHHHHhhcCCc----hhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 319 RKPEID-AFAEELKPHQKALLPDN----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 319 ~~~el~-~F~~~L~~hq~~l~~D~----~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
+|+-++ .++..|.....++..|. |.+|.++|+|||+|+|++|||+|+..+|+.++++|++++|+.+|.|+.+|-+
T Consensus 304 rwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~ISdlVN~G~~ 383 (439)
T COG5071 304 RWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFISDLVNKGHF 383 (439)
T ss_pred hhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHHHHHhcCcE
Confidence 999885 47777766544444332 8999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccCCCEEEECCc---chHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 013430 394 RGSIDQVEAVIHFEDD---TEELQQWDQQIVGLCQALNDILDSMAKKGL 439 (443)
Q Consensus 394 ~akIDQv~giV~F~~~---~~~l~~W~~~I~~l~~~v~~v~~~I~ke~~ 439 (443)
+|||+|+.|||.|+.+ .+.++.|+.||..+++.++++.|+|.||+|
T Consensus 384 yaKiNrpa~Ii~FEK~~n~~~~lneW~~NV~ellgklek~~HLI~KEe~ 432 (439)
T COG5071 384 YAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLGKLEKVRHLIIKEEM 432 (439)
T ss_pred EEEecCccceEEeeccccHHHHHHHhcccHHHHHHHHHHHhHHHhHHHH
Confidence 9999999999999974 478999999999999999999999999986
No 4
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.7e-37 Score=300.57 Aligned_cols=300 Identities=16% Similarity=0.296 Sum_probs=263.4
Q ss_pred cHHHHHHHHHHhCCCC--hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcC
Q 013430 100 SRQLLQTFAQELGRLE--PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVI 177 (443)
Q Consensus 100 sr~~l~~~~~~l~~l~--~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~ 177 (443)
+-++++++++.+.++| .+.+.++|..+++|.+.+++.|.+| .++-+|+.+|.+.++|.+|...++.+..| .+++
T Consensus 86 aaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFLRq--~Learli~Ly~d~~~YteAlaL~~~L~rE--lKKl 161 (411)
T KOG1463|consen 86 AAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFLRQ--SLEARLIRLYNDTKRYTEALALINDLLRE--LKKL 161 (411)
T ss_pred HHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHHHH--HHHHHHHHHHHhhHHHHHHHHHHHHHHHH--HHhc
Confidence 3459999999998887 4688999999999999999999999 88999999999999999999999999999 5999
Q ss_pred Chhh-HHHHHHHHHHHhhhcCCHHHHHHHHHH---hhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 178 DDTF-RLSKCVQIARLYLEDDDAVNAEAFINK---ASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 178 ~~~~-Kle~~L~i~RL~L~~~D~~~A~~~l~K---a~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
||+. .+|+++.+.+.|...+|.++|++.+.- +.+.+++ +|.++.......|.+|..+|||.+|++||||+|+.+
T Consensus 162 DDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYc--pPqlQa~lDLqSGIlha~ekDykTafSYFyEAfEgf 239 (411)
T KOG1463|consen 162 DDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYC--PPQLQATLDLQSGILHAAEKDYKTAFSYFYEAFEGF 239 (411)
T ss_pred ccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhccccc--CHHHHHHHHHhccceeecccccchHHHHHHHHHccc
Confidence 9985 799999999999999999999988864 5666776 899999999989999999999999999999999974
Q ss_pred hhccCCCCCC-HHHHHHHHHHHHHHHHhcCCCCChHHHHHhh----hcCcccccccchHHHHHHHHHHhcchhhHHHHHH
Q 013430 254 KRQIGDETID-EEALEQALSAAVTCTILAAAGPQRSRVLATL----YKDERCSKLKIYPILQKVYLERILRKPEIDAFAE 328 (443)
Q Consensus 254 ~~~~~~~~i~-~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l----~kd~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~ 328 (443)
..++ +......|+||++|.|+.+...+...+++.- |.+ +.+.+|+.+..+|-+ +++..|+.
T Consensus 240 ------~s~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~y~g---~~i~AmkavAeA~~n-----RSLkdF~~ 305 (411)
T KOG1463|consen 240 ------DSLDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALKYAG---RDIDAMKAVAEAFGN-----RSLKDFEK 305 (411)
T ss_pred ------cccCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHhccC---cchHHHHHHHHHhcC-----CcHHHHHH
Confidence 3444 3688999999999999987554444444322 333 347889999999975 88999999
Q ss_pred HhhHHHHhhcCCc-----hhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCE
Q 013430 329 ELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 329 ~L~~hq~~l~~D~-----~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~gi 403 (443)
.|..|...+..|+ ...|++++.|.||.++.+||++|.++++|+.+|++...+|+.+++||.|+++.|.+||++|+
T Consensus 306 AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~~~~VEkKLsqMILDKkf~G~LDQg~g~ 385 (411)
T KOG1463|consen 306 ALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLDVPQVEKKLSQMILDKKFYGTLDQGEGC 385 (411)
T ss_pred HHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCCcHHHHHHHHHHHHHHHhhcccccCCCe
Confidence 9999999999998 56799999999999999999999999999999999999999999999999999999999996
Q ss_pred -EEECCcchHHHHHHHHH
Q 013430 404 -IHFEDDTEELQQWDQQI 420 (443)
Q Consensus 404 -V~F~~~~~~l~~W~~~I 420 (443)
|.|+.+ ..-+.++..+
T Consensus 386 Liv~~e~-~~d~~y~~aL 402 (411)
T KOG1463|consen 386 LIVFEEP-PADNTYDAAL 402 (411)
T ss_pred EEEeCCC-CcchHHHHHH
Confidence 788865 3346677666
No 5
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.2e-32 Score=263.02 Aligned_cols=318 Identities=19% Similarity=0.164 Sum_probs=254.0
Q ss_pred hcCCcceeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhh
Q 013430 91 LSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDL 170 (443)
Q Consensus 91 ~~~~~~lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~ 170 (443)
+-++..+.+-+..+.++++. +.+..+++ ...++...+.. =|.+....-...|.+|++.||.+.|.+.+...-
T Consensus 60 lce~~~i~~D~~~l~~m~~~----neeki~el-d~~iedaeenl--GE~ev~ea~~~kaeYycqigDkena~~~~~~t~- 131 (393)
T KOG0687|consen 60 LCESLVIKLDQDLLNSMKKA----NEEKIKEL-DEKIEDAEENL--GESEVREAMLRKAEYYCQIGDKENALEALRKTY- 131 (393)
T ss_pred HHhhcceeccHHHHHHHHHh----hHHHHHHH-HHHHHHHHHhc--chHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH-
Confidence 44567788888877666653 22222222 33333332221 244555667889999999999999999998843
Q ss_pred hccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 171 DSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 250 (443)
Q Consensus 171 Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~ 250 (443)
.+.++.+.|+|+.+..+|+.+...|..-....+.||+.++.+++||+++++||+|+|.+.++.|||.+||..|.++.
T Consensus 132 ---~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~v 208 (393)
T KOG0687|consen 132 ---EKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLDSV 208 (393)
T ss_pred ---HHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCccc----ccccchHHHHHHHHHHhcchhhHHHH
Q 013430 251 QIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERC----SKLKIYPILQKVYLERILRKPEIDAF 326 (443)
Q Consensus 251 ~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~----~~l~~~~~L~k~f~~~ii~~~el~~F 326 (443)
.||+. +..++.+. +..|+|+|++++ .+|.++.+++.+.|++ .++|...++...+++ ++...|
T Consensus 209 sTFtS---~El~~Y~~---~v~Ytv~~g~i~---leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~-----C~Y~~F 274 (393)
T KOG0687|consen 209 STFTS---YELMSYET---FVRYTVITGLIA---LERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYE-----CDYSDF 274 (393)
T ss_pred ccccc---eecccHHH---HHHHHHHHhhhe---eccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHh-----ccHHHH
Confidence 99872 33456554 778999999995 5999999999999874 457777777766654 666666
Q ss_pred HHHhhHH-HHhhcCCc--hhHHHHHHHHHHHHHHhhc---ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccC
Q 013430 327 AEELKPH-QKALLPDN--FTVLDRAMIEHNLLSASKL---YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 400 (443)
Q Consensus 327 ~~~L~~h-q~~l~~D~--~~~L~~~viEhNL~~isk~---Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv 400 (443)
...|... ...+..|. ....+--++|..+++++|+ |+.++++.||+.||+|++.++..|+++|.+|+|+|+||++
T Consensus 275 f~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDrV 354 (393)
T KOG0687|consen 275 FNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDRV 354 (393)
T ss_pred HHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeecc
Confidence 6655322 22333333 1234456899999999995 9999999999999999999999999999999999999999
Q ss_pred CCEEEECCcchHHHHHHHHHHHHHHHHHHHHHH
Q 013430 401 EAVIHFEDDTEELQQWDQQIVGLCQALNDILDS 433 (443)
Q Consensus 401 ~giV~F~~~~~~l~~W~~~I~~l~~~v~~v~~~ 433 (443)
+|+|+.++|++.-.++..-|.+.+..+|++-..
T Consensus 355 nGVVEtNrpD~KN~qyq~vikqGd~LLnriQK~ 387 (393)
T KOG0687|consen 355 NGVVETNRPDEKNAQYQAVIKQGDLLLNRIQKL 387 (393)
T ss_pred cceeecCCccccchHHHHHHhhhHHHHHHHHHH
Confidence 999999988765566888888888888887653
No 6
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=7.2e-33 Score=265.20 Aligned_cols=338 Identities=19% Similarity=0.283 Sum_probs=281.9
Q ss_pred hccccchhhhcccccccccCCCCcchhhHhhhhhhcCCcceeecHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhh---cc
Q 013430 57 NFRLGFFEIHYFGRKQIFVRPYPFSIFKFFFCAVLSDDVPLVVSRQLLQTFAQELGRL-EPETQKEIANYTLAQI---QP 132 (443)
Q Consensus 57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l-~~~~~~~~~~~~L~~i---~~ 132 (443)
|||+|=++=--+.-+|. |. .|.+.+.-+ -|-+-+..+.+++++- +-+...++++.||+.+ ++
T Consensus 75 ~f~l~~~~eMm~~Y~ql---------LT-YIkSAVTrN----ySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKN 140 (440)
T KOG1464|consen 75 NFRLGNYKEMMERYKQL---------LT-YIKSAVTRN----YSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKN 140 (440)
T ss_pred HhccccHHHHHHHHHHH---------HH-HHHHHHhcc----ccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhc
Confidence 88998776554444443 21 222222121 2334444455555432 3566788888888887 67
Q ss_pred ccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCc-CChh-----hHHHHHHHHHHHhhhcCCHHHHHHHH
Q 013430 133 RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRV-IDDT-----FRLSKCVQIARLYLEDDDAVNAEAFI 206 (443)
Q Consensus 133 ~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~-~~~~-----~Kle~~L~i~RL~L~~~D~~~A~~~l 206 (443)
.+.||.. ..+|+++|.+.|+|.+..++|..++..| +.. ..++ +.+|+|..++++|.+.+|..+.+..+
T Consensus 141 eRLWFKT-----NtKLgkl~fd~~e~~kl~KIlkqLh~SC-q~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lY 214 (440)
T KOG1464|consen 141 ERLWFKT-----NTKLGKLYFDRGEYTKLQKILKQLHQSC-QTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALY 214 (440)
T ss_pred ceeeeec-----cchHhhhheeHHHHHHHHHHHHHHHHHh-ccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHH
Confidence 8889998 6899999999999999999999999987 322 2222 34999999999999999999999999
Q ss_pred HHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCC
Q 013430 207 NKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQ 286 (443)
Q Consensus 207 ~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~ 286 (443)
.++...-+..++|-+.+..++|+|.+|+.+|.|.+|.-.|+|+|.. +++.+.++|.+||+|+|++.+|..+|..
T Consensus 215 eqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKN------YDEsGspRRttCLKYLVLANMLmkS~iN 288 (440)
T KOG1464|consen 215 EQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKN------YDESGSPRRTTCLKYLVLANMLMKSGIN 288 (440)
T ss_pred HHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhc------ccccCCcchhHHHHHHHHHHHHHHcCCC
Confidence 9999888889999999999999999999999999999999999985 6677889999999999999999998865
Q ss_pred hHHH-HHhhhc-CcccccccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCc-----hhHHHHHHHHHHHHHHhh
Q 013430 287 RSRV-LATLYK-DERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN-----FTVLDRAMIEHNLLSASK 359 (443)
Q Consensus 287 rs~l-l~~l~k-d~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~-----~~~L~~~viEhNL~~isk 359 (443)
..|- .++.|+ ||+ +-+|..|+.+|.+ .++.+|++.|+.|+..+++|| ...|.+.|+.+.++...+
T Consensus 289 PFDsQEAKPyKNdPE---IlAMTnlv~aYQ~-----NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIk 360 (440)
T KOG1464|consen 289 PFDSQEAKPYKNDPE---ILAMTNLVAAYQN-----NDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIK 360 (440)
T ss_pred CCcccccCCCCCCHH---HHHHHHHHHHHhc-----ccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5554 567777 565 7789999999986 889999999999999999998 678999999999999999
Q ss_pred cccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCc-------chHHHHHHHHHHHHHHHHH
Q 013430 360 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD-------TEELQQWDQQIVGLCQALN 428 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~-------~~~l~~W~~~I~~l~~~v~ 428 (443)
||++|.+..+++.|++++.+||..+..+|.+.+|.|+||+++|++..... .+.+..|+++++++-..|-
T Consensus 361 PYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~~k~~~al~kW~~ql~Sl~~~i~ 436 (440)
T KOG1464|consen 361 PYTNIGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSGSKLYKALDKWNNQLKSLQSNIV 436 (440)
T ss_pred cccccCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHhhhHhccCccCCcchHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999988741 3689999999988876654
No 7
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=7.4e-31 Score=252.52 Aligned_cols=315 Identities=15% Similarity=0.223 Sum_probs=269.4
Q ss_pred HHHHHHHHHHhCCCC--hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCC
Q 013430 101 RQLLQTFAQELGRLE--PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID 178 (443)
Q Consensus 101 r~~l~~~~~~l~~l~--~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~ 178 (443)
-++++++++.++.-+ -+.++.+|..+++|...+++.|.++ .+..+|+.+|.+.|.|.+|...+..+.-| .+++|
T Consensus 84 ~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~--~Le~Kli~l~y~~~~YsdalalIn~ll~E--lKk~D 159 (421)
T COG5159 84 TKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRL--ELECKLIYLLYKTGKYSDALALINPLLHE--LKKYD 159 (421)
T ss_pred HHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHhcccHHHHHHHHHHHHHH--HHhhc
Confidence 348888999888775 4789999999999999999999998 78999999999999999999999999888 58999
Q ss_pred hh-hHHHHHHHHHHHhhhcCCHHHHHHHHHHh---hhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013430 179 DT-FRLSKCVQIARLYLEDDDAVNAEAFINKA---SFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 254 (443)
Q Consensus 179 ~~-~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka---~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~ 254 (443)
|+ ..+++++.+.+.|.+.++..+++..+.-| ++..+| +|.++.......|.+|+.++||..|+++|+|+++.++
T Consensus 160 DK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YC--Ppqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft 237 (421)
T COG5159 160 DKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYC--PPQLQAQLDLLSGILHCDDRDYKTASSYFIEALEGFT 237 (421)
T ss_pred CccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCC--CHHHHHHHHHhccceeeccccchhHHHHHHHHHhccc
Confidence 98 58999999999999999999999888654 555566 8899999999999999999999999999999999764
Q ss_pred hccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcc------cccccchHHHHHHHHHHhcchhhHHHHHH
Q 013430 255 RQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDER------CSKLKIYPILQKVYLERILRKPEIDAFAE 328 (443)
Q Consensus 255 ~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~------~~~l~~~~~L~k~f~~~ii~~~el~~F~~ 328 (443)
..-+..+..+.|+||++..|+.+ .|.++.+-+ .++. .+.+.+|..+..+|-+ +++..|+.
T Consensus 238 -----~l~~d~kAc~sLkYmlLSkIMlN---~~~evk~vl-~~K~t~~~y~~r~I~am~avaea~~N-----RsL~df~~ 303 (421)
T COG5159 238 -----LLKMDVKACVSLKYMLLSKIMLN---RREEVKAVL-RNKNTLKHYDDRMIRAMLAVAEAFGN-----RSLKDFSD 303 (421)
T ss_pred -----cccchHHHHHHHHHHHHHHHHHh---hHHHHHHHH-ccchhHhhhhhhhHHHHHHHHHHhCC-----CcHhhHHH
Confidence 22345778899999999999976 444444333 2221 2346778888888865 88999999
Q ss_pred HhhHHHHhhcCCc-----hhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCE
Q 013430 329 ELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 329 ~L~~hq~~l~~D~-----~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~gi 403 (443)
.|+.+...+..|+ ..-|++.+.|.|+..+..||++|.++++|+.+|++...+|..+++||.++-+.|.+||++|.
T Consensus 304 aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGldt~qvEgKLsqMILDKifyG~LDqg~gc 383 (421)
T COG5159 304 ALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIFYGTLDQGDGC 383 (421)
T ss_pred HHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhcccHHHHHHHHHHHHHHHHHHhhhccCCce
Confidence 9999888888877 56799999999999999999999999999999999999999999999999999999999997
Q ss_pred -EEECCcchHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 013430 404 -IHFEDDTEELQQWDQQIVGLCQALNDILDSMAKK 437 (443)
Q Consensus 404 -V~F~~~~~~l~~W~~~I~~l~~~v~~v~~~I~ke 437 (443)
+.++.|. .-+.+++.+ ...+.++.|++++..+
T Consensus 384 Livy~ep~-qd~tyd~al-e~v~~l~~vVd~l~ek 416 (421)
T COG5159 384 LIVYGEPA-QDNTYDEAL-EQVEALDCVVDSLYEK 416 (421)
T ss_pred EEEeCCcc-ccchHHHHH-HHHHHhhhHHHHHHHH
Confidence 5666553 346688888 7888999999988743
No 8
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=5.1e-27 Score=226.25 Aligned_cols=287 Identities=17% Similarity=0.151 Sum_probs=228.7
Q ss_pred HHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHH
Q 013430 125 YTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEA 204 (443)
Q Consensus 125 ~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~ 204 (443)
+.++..++.. =|.+.+..-..+|++|.+.+|.+.+.+.+.++-- +.++.+-|+++.+..+||.+..+|-.-.+.
T Consensus 100 e~i~~~eedn--gE~e~~ea~~n~aeyY~qi~D~~ng~~~~~~~~~----~a~stg~KiDv~l~kiRlg~~y~d~~vV~e 173 (412)
T COG5187 100 ERIREKEEDN--GETEGSEADRNIAEYYCQIMDIQNGFEWMRRLMR----DAMSTGLKIDVFLCKIRLGLIYGDRKVVEE 173 (412)
T ss_pred HHHHHHhhcc--cchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH----HHHhcccchhhHHHHHHHHHhhccHHHHHH
Confidence 3444444333 2455567788999999999999999999998643 458889999999999999999999999999
Q ss_pred HHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC-CCHHHHHHHHHHHHHHHHhcCC
Q 013430 205 FINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDET-IDEEALEQALSAAVTCTILAAA 283 (443)
Q Consensus 205 ~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~-i~~~~~~~~Lk~av~~~ILa~~ 283 (443)
.+.++...+.+++||+.+++||.|+|.+.++.|||.+|+..+.+...||+ +.+ ++..+ +..||++|+++
T Consensus 174 ~lE~~~~~iEkGgDWeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~----S~El~sY~~---~vrYa~~~Gl~--- 243 (412)
T COG5187 174 SLEVADDIIEKGGDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFE----SSELISYSR---AVRYAIFCGLL--- 243 (412)
T ss_pred HHHHHHHHHHhCCCHHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhcccc----ccccccHHH---HHHHHHHhhhh---
Confidence 99999999999999999999999999999999999999999999999986 344 45454 78899999999
Q ss_pred CCChHHHHHhhhcCcccc----cccchHHHH---HHHHHHhc---chhhHHHHHHHhhHHHHhhcCCchhHHHHHHHHHH
Q 013430 284 GPQRSRVLATLYKDERCS----KLKIYPILQ---KVYLERIL---RKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHN 353 (443)
Q Consensus 284 ~~~rs~ll~~l~kd~~~~----~l~~~~~L~---k~f~~~ii---~~~el~~F~~~L~~hq~~l~~D~~~~L~~~viEhN 353 (443)
..+|.++.+++.++|++- +-+.+..|. ...+..=. -+..+.-|.+.|++.+ ++. ...+-.|+|+.
T Consensus 244 ~leR~diktki~dspevl~vi~~~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~-fl~----rh~d~fvREMR 318 (412)
T COG5187 244 RLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDV-FLG----RHVDLFVREMR 318 (412)
T ss_pred eeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchH-HHH----HHHHHHHHHHH
Confidence 569999999999999742 222333333 22221000 0122334444444321 111 23445689999
Q ss_pred HHHHhhc---ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHHHHHHHHHHHHHHHH
Q 013430 354 LLSASKL---YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDI 430 (443)
Q Consensus 354 L~~isk~---Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W~~~I~~l~~~v~~v 430 (443)
.+++.|. |+..+++.||+.||+|++.++.-++++|.+|+++|.||+++|+|+.++|++.-.+++.-|.+.+..++++
T Consensus 319 rrvYaQlLESYr~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~vVkqGd~ll~kl 398 (412)
T COG5187 319 RRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSVVKQGDDLLRKL 398 (412)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHHHhcchHHHHHH
Confidence 9999885 9999999999999999999999999999999999999999999999998877788888888888888776
Q ss_pred HH
Q 013430 431 LD 432 (443)
Q Consensus 431 ~~ 432 (443)
..
T Consensus 399 qK 400 (412)
T COG5187 399 QK 400 (412)
T ss_pred HH
Confidence 44
No 9
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=2.6e-18 Score=172.37 Aligned_cols=295 Identities=17% Similarity=0.215 Sum_probs=232.1
Q ss_pred HHHHHHHHHhh-ccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcC--ChhhHHHHHHHHHHHhhhc
Q 013430 120 KEIANYTLAQI-QPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVI--DDTFRLSKCVQIARLYLED 196 (443)
Q Consensus 120 ~~~~~~~L~~i-~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~--~~~~Kle~~L~i~RL~L~~ 196 (443)
..+....+..+ .-.++++.-=.+++-..++-.||..|+...-...|..... | .++ +..-+.-++-...|.||-.
T Consensus 146 ~~~~~~~l~~i~~~nrRtlD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~lr-t--AtLrhd~e~qavLiN~LLr~yL~n 222 (493)
T KOG2581|consen 146 DKISDALLASISIQNRRTLDLIAAKLYFYLYLSYELEGRLADIRSFLHALLR-T--ATLRHDEEGQAVLINLLLRNYLHN 222 (493)
T ss_pred HHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH-H--hhhcCcchhHHHHHHHHHHHHhhh
Confidence 33444444444 3344567777788999999999999998877777776542 3 223 3334777788899999999
Q ss_pred CCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC-CCHHHHHHHHHHHH
Q 013430 197 DDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDET-IDEEALEQALSAAV 275 (443)
Q Consensus 197 ~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~-i~~~~~~~~Lk~av 275 (443)
+-|.+|...+.|..-.-...++ ...+|--|.|++.+.+.+|.+|..+|..+... +|. ..-.-+.++-+.++
T Consensus 223 ~lydqa~~lvsK~~~pe~~snn--e~ARY~yY~GrIkaiqldYssA~~~~~qa~rk------apq~~alGf~q~v~k~~i 294 (493)
T KOG2581|consen 223 KLYDQADKLVSKSVYPEAASNN--EWARYLYYLGRIKAIQLDYSSALEYFLQALRK------APQHAALGFRQQVNKLMI 294 (493)
T ss_pred HHHHHHHHHhhcccCccccccH--HHHHHHHHHhhHHHhhcchhHHHHHHHHHHHh------CcchhhhhHHHHHHHHHH
Confidence 9999999999987654433333 44677778999999999999999999999985 332 22345667888899
Q ss_pred HHHHhcCCCCChHHHHHhhhcCcccccccchHHHHHHHH-HHhcchhhHHHHHHHhhHHHHhhcCCch----hHHHHHHH
Q 013430 276 TCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYL-ERILRKPEIDAFAEELKPHQKALLPDNF----TVLDRAMI 350 (443)
Q Consensus 276 ~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~~~L~k~f~-~~ii~~~el~~F~~~L~~hq~~l~~D~~----~~L~~~vi 350 (443)
+..+|.+..|+|+-.-+..++ +.|...|. .+.++.++++.|...+..+...+..||. -.|+.+|+
T Consensus 295 vv~ll~geiPers~F~Qp~~~----------ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVI 364 (493)
T KOG2581|consen 295 VVELLLGEIPERSVFRQPGMR----------KSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVI 364 (493)
T ss_pred HHHHHcCCCcchhhhcCccHH----------HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHH
Confidence 999999999999855443333 34555553 6777889999999999999888888882 35888999
Q ss_pred HHHHHHHhhcccccCHHHHHHHhCC-ChHHHHHHHHhhhhcCceEEEeccCCCEEEECC------cchHHHHHHHHHHHH
Q 013430 351 EHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED------DTEELQQWDQQIVGL 423 (443)
Q Consensus 351 EhNL~~isk~Ys~Itl~~La~lLgL-s~eeaE~~ls~MI~~grL~akIDQv~giV~F~~------~~~~l~~W~~~I~~l 423 (443)
...|+.||-.||+|++.++|..||+ |++++|.++++.|.+|.|.|+||..+|.+...+ +.++-..++..|+-+
T Consensus 365 kTgIR~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fC 444 (493)
T KOG2581|consen 365 KTGIRKISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFC 444 (493)
T ss_pred HHhhhheeeeeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHH
Confidence 9999999999999999999999999 456699999999999999999999999987664 446678899999999
Q ss_pred HHHHHHHHHHhh
Q 013430 424 CQALNDILDSMA 435 (443)
Q Consensus 424 ~~~v~~v~~~I~ 435 (443)
++..|..+..|-
T Consensus 445 l~LhN~~vkamR 456 (493)
T KOG2581|consen 445 LQLHNEAVKAMR 456 (493)
T ss_pred HHHHHHHHHHhc
Confidence 999999887763
No 10
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.68 E-value=7.7e-15 Score=147.83 Aligned_cols=281 Identities=14% Similarity=0.096 Sum_probs=210.9
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc--cHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS--QQE 219 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~--~d~ 219 (443)
-+.-..|++.|+.-|+++.|.+.+..++-.| .+.++-+.+|+.-|++.+..+||...-.+++||....... -.+
T Consensus 150 Rra~~Dl~dhy~~cG~l~~Alr~YsR~RdYC----Ts~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q 225 (466)
T KOG0686|consen 150 RRALEDLGDHYLDCGQLDNALRCYSRARDYC----TSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQ 225 (466)
T ss_pred HHHHHHHHHHHHHhccHHHHHhhhhhhhhhh----cchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHH
Confidence 3557889999999999999999999988777 5778899999999999999999999999999987775321 244
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcc
Q 013430 220 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDER 299 (443)
Q Consensus 220 ~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~ 299 (443)
+.-.+.+..-|..+...++|..|+++|..+....+. +...+++.+ .+++.++.|-++.+|.+++..+.++..
T Consensus 226 ~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~~~d--~~~ivtpsd------v~iYggLcALAtfdr~~Lk~~vi~n~~ 297 (466)
T KOG0686|consen 226 EVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFDHCD--YPEIVTPSD------VAIYGGLCALATFDRQDLKLNVIKNES 297 (466)
T ss_pred hcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCCccC--ccceecchh------hHHHHhhHhhccCCHHHHHHHHHcchh
Confidence 556677777888899999999999999988764331 112356776 567777778889999999877767654
Q ss_pred c----ccccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHh-----hcCCchhHHHHHHHHHHHHHHhhcccccCHHHHH
Q 013430 300 C----SKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKA-----LLPDNFTVLDRAMIEHNLLSASKLYTNISFEELG 370 (443)
Q Consensus 300 ~----~~l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~-----l~~D~~~~L~~~viEhNL~~isk~Ys~Itl~~La 370 (443)
. +..|.++.+...|.+ .......+.|.....- ...+..+.|..-+++.-++.+-.||+++.+..||
T Consensus 298 Fk~flel~Pqlr~il~~fy~-----sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA 372 (466)
T KOG0686|consen 298 FKLFLELEPQLREILFKFYS-----SKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMA 372 (466)
T ss_pred hhhHHhcChHHHHHHHHHhh-----hhHHHHHHHHHHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHH
Confidence 2 345788888878864 2222222222221111 1233356688889999999999999999999999
Q ss_pred HHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCc----------chHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 013430 371 TLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD----------TEELQQWDQQIVGLCQALNDILDSMAKKGL 439 (443)
Q Consensus 371 ~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~----------~~~l~~W~~~I~~l~~~v~~v~~~I~ke~~ 439 (443)
..||.|+.+.|+.+-++|.+|.|+||||+.++++.-.+. ....++.......++.......+.|+....
T Consensus 373 ~af~~sv~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~en~~fe~~~~~~~~~~~~~kal~lr~~~~~~~~ht~s~ 451 (466)
T KOG0686|consen 373 EAFNTSVAILESELLELILEGKISGRIDSHNKILYARDADSENATFERVLPMGKRSQLEAKALLLRAALLKNKIHTKSL 451 (466)
T ss_pred HHhcccHHHHHHHHHHHHHccchheeeccccceeeecccccccchhhhcchhhHHHHHHHHHHHHHHHHHhccccCCCc
Confidence 999999999999999999999999999999999977642 122344444455555555555444544433
No 11
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=99.61 E-value=3.5e-15 Score=124.95 Aligned_cols=99 Identities=25% Similarity=0.386 Sum_probs=86.8
Q ss_pred cchHHHHHHHHHHhcchhhHHHHHHHhhHH-HHhhcCCc----hhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChH
Q 013430 304 KIYPILQKVYLERILRKPEIDAFAEELKPH-QKALLPDN----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQ 378 (443)
Q Consensus 304 ~~~~~L~k~f~~~ii~~~el~~F~~~L~~h-q~~l~~D~----~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~e 378 (443)
|.|..|.++|.. +++..|.+.+..| ...+..++ ...|.+.+++++++.++++|++|++++||+.++++.+
T Consensus 1 ~~~~~l~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~~ 75 (105)
T PF01399_consen 1 PPYSELLRAFRS-----GDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSEE 75 (105)
T ss_dssp HHHHHHHHHHHC-----T-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCHH
T ss_pred CHHHHHHHHHHh-----CCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccchH
Confidence 578888988874 7799999999999 55444444 4569999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 379 KAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 379 eaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
++|..+++||.+|.|+|+|||++|+|+|.
T Consensus 76 ~vE~~l~~~I~~~~i~~~ID~~~~~v~~~ 104 (105)
T PF01399_consen 76 EVESILIDLISNGLIKAKIDQVNGVVVFS 104 (105)
T ss_dssp HHHHHHHHHHHTTSSEEEEETTTTEEEE-
T ss_pred HHHHHHHHHHHCCCEEEEEECCCCEEEec
Confidence 99999999999999999999999999996
No 12
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=99.60 E-value=1.2e-14 Score=134.91 Aligned_cols=147 Identities=20% Similarity=0.131 Sum_probs=124.9
Q ss_pred hHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 136 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 136 sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
..++++.+....+|++|.+.||+++|.+.+...+-.| ++.+.++++++..+|++++.+||..+..+++|+...+..
T Consensus 30 ~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~----~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~ 105 (177)
T PF10602_consen 30 LGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYC----TSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEK 105 (177)
T ss_pred cchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc----CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc
Confidence 4566666778899999999999999999999977554 789999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHH
Q 013430 216 SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA 292 (443)
Q Consensus 216 ~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~ 292 (443)
++||+.+++++.+.|.+++..|+|.+||+.|.++..+++...+...+++++ +..|.++|+++ +.+|+++.+
T Consensus 106 ~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~~~el~s~~d---~a~Y~~l~aLa---t~~R~eLk~ 176 (177)
T PF10602_consen 106 GGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQYTELISYND---FAIYGGLCALA---TLDRSELKK 176 (177)
T ss_pred cchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCchhhhcCHHH---HHHHHHHHHHH---hCCHHHHcc
Confidence 999999999999999999999999999999999998874101133467776 44455555555 678988754
No 13
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=4.9e-12 Score=125.27 Aligned_cols=275 Identities=15% Similarity=0.138 Sum_probs=188.8
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-hhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-c-HHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-Q-QEVLNL 223 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~-d~~lk~ 223 (443)
.+-.+.++.+|.++|.+.|.++--.+ +..+. ..-.-+...++|++|+.+|...++..+.........- + ++....
T Consensus 80 i~l~~~~~~~D~~~al~~Le~i~~~~--~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~ 157 (380)
T KOG2908|consen 80 ILLVVSEQISDKDEALEFLEKIIEKL--KEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHS 157 (380)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHH--HhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhh
Confidence 34455667779999999999987554 22222 2456677889999999999999999999887766543 3 345889
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHH-hhhcCccccc
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLA-TLYKDERCSK 302 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~-~l~kd~~~~~ 302 (443)
.||...+.||...+||..++++-.--..+. +....+.+++.+.-.-..++++|+..--+--.+++ .+++.=...+
T Consensus 158 ~fY~lssqYyk~~~d~a~yYr~~L~YL~~~----d~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~ 233 (380)
T KOG2908|consen 158 SFYSLSSQYYKKIGDFASYYRHALLYLGCS----DIDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTN 233 (380)
T ss_pred hHHHHHHHHHHHHHhHHHHHHHHHHHhccc----cccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCc
Confidence 999999999999999987544332222221 12345677777666678899999875445555544 3333222222
Q ss_pred ccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCc---hhHHHHHHHHHHHH--HHhhc--ccccCHHHHHHHhCC
Q 013430 303 LKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN---FTVLDRAMIEHNLL--SASKL--YTNISFEELGTLLGI 375 (443)
Q Consensus 303 l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~---~~~L~~~viEhNL~--~isk~--Ys~Itl~~La~lLgL 375 (443)
-.....+..||. .+++..|++....+.. .+|- -..|.+.+.-.-+. ..++| =+.|||+.||+...+
T Consensus 234 ~eWL~dll~Afn-----~Gdl~~f~~l~~~~~~--~p~L~~~e~~L~qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tki 306 (380)
T KOG2908|consen 234 REWLKDLLIAFN-----SGDLKRFESLKGVWGK--QPDLASNEDFLLQKIRLLALIEITFSRPANERTLSFKEIAEATKI 306 (380)
T ss_pred HHHHHHHHHHhc-----cCCHHHHHHHHHHhcc--CchHHHHHHHHHHHHHHHHHHHHHhcCcchhccccHHHHHHHhCC
Confidence 223345555554 4888888876554432 1110 11122222211111 12443 567999999999999
Q ss_pred ChHHHHHHHHhhhhcCceEEEeccCCCEEEECC--c-----------chHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 376 APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED--D-----------TEELQQWDQQIVGLCQALNDILDSM 434 (443)
Q Consensus 376 s~eeaE~~ls~MI~~grL~akIDQv~giV~F~~--~-----------~~~l~~W~~~I~~l~~~v~~v~~~I 434 (443)
|.++||..+++.++-|-|.|.|||++|+|++.. | .+.+..|+.+|.++-..|++-.+.|
T Consensus 307 p~~eVE~LVMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~~~i 378 (380)
T KOG2908|consen 307 PNKEVELLVMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRGHEI 378 (380)
T ss_pred CHHHHHHHHHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 999999999999999999999999999999984 1 2578899999999888888776655
No 14
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=99.38 E-value=2.5e-12 Score=105.31 Aligned_cols=67 Identities=34% Similarity=0.566 Sum_probs=63.9
Q ss_pred hHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCc
Q 013430 343 TVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 409 (443)
Q Consensus 343 ~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~ 409 (443)
..|.+.++++++..++++|++|++++||+.+++|.+++|..+++||.+|.|.|+|||.+|+|.|...
T Consensus 4 ~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00088 4 ERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred HHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 4578889999999999999999999999999999999999999999999999999999999999863
No 15
>smart00753 PAM PCI/PINT associated module.
Probab=99.38 E-value=2.5e-12 Score=105.31 Aligned_cols=67 Identities=34% Similarity=0.566 Sum_probs=63.9
Q ss_pred hHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCc
Q 013430 343 TVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 409 (443)
Q Consensus 343 ~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~ 409 (443)
..|.+.++++++..++++|++|++++||+.+++|.+++|..+++||.+|.|.|+|||.+|+|.|...
T Consensus 4 ~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~ 70 (88)
T smart00753 4 ERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEV 70 (88)
T ss_pred HHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCC
Confidence 4578889999999999999999999999999999999999999999999999999999999999863
No 16
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.23 E-value=1.3e-09 Score=109.17 Aligned_cols=300 Identities=18% Similarity=0.222 Sum_probs=188.8
Q ss_pred ChHHHHHHHHHHHHhhccccch-HHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHh
Q 013430 115 EPETQKEIANYTLAQIQPRVVS-FEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY 193 (443)
Q Consensus 115 ~~~~~~~~~~~~L~~i~~~~~s-fe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~ 193 (443)
+++...+.....++....+-+- .-+-...+-..|++...+.++-.--.+++... ++. -....+...-++.....+|
T Consensus 74 ~~~~li~~~~~FV~~~n~eqlr~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~a-v~k--~~~~~~qlT~~H~~l~~~~ 150 (422)
T KOG2582|consen 74 DPETLIELLNDFVDENNGEQLRLASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQA-VDK--MQPSNGQLTSIHADLLQLC 150 (422)
T ss_pred CHHHHHHHHHHHHHhcChHHHhhHHHHHHHHHHHHHHHHHhcCCccccchHHHHH-HHH--hccCccchhhhHHHHHHHH
Confidence 4566677777777776544331 11222234566676666555433333322221 110 1122235566777788899
Q ss_pred hhcCCHHHHHHHHHHhhhhh---ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHH
Q 013430 194 LEDDDAVNAEAFINKASFLV---SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQA 270 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~~~---~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~ 270 (443)
|+.+||..+..+++---.-+ ..-.++..-+.|.-|+|-++..-++|..|-..|+....+|. ..++.---...
T Consensus 151 L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa-----~~vs~~hlEaY 225 (422)
T KOG2582|consen 151 LEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPA-----MAVSHIHLEAY 225 (422)
T ss_pred HHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcch-----hHHHHHHHHHH
Confidence 99999998887765211111 11136788888877777788999999999777777776542 12221111123
Q ss_pred HHHHHHHHHhcCCC---C-ChHHHHHhhhcCcccccccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCchhHHH
Q 013430 271 LSAAVTCTILAAAG---P-QRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLD 346 (443)
Q Consensus 271 Lk~av~~~ILa~~~---~-~rs~ll~~l~kd~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~~~~L~ 346 (443)
=||.+++.|+.+.- | .-+..-.+.+|. -.+.|.++.++|.+ +.-.+.+...+.|...++.|+.+.|-
T Consensus 226 kkylLvsLI~~GK~~ql~k~ts~~~~r~~K~----ms~pY~ef~~~Y~~-----~~~~eLr~lVk~~~~rF~kDnnt~l~ 296 (422)
T KOG2582|consen 226 KKYLLVSLILTGKVFQLPKNTSQNAGRFFKP----MSNPYHEFLNVYLK-----DSSTELRTLVKKHSERFTKDNNTGLA 296 (422)
T ss_pred HHHHHHHhhhcCceeeccccchhhhHHhccc----CCchHHHHHHHHhc-----CCcHHHHHHHHHHHHHHhhcCcHHHH
Confidence 35667777776542 1 111222233331 24689999999985 33344667788898889999966555
Q ss_pred H----HHHHHHHHHHhhcccccCHHHHHHHhCC-ChHHHHHHHHhhhhcCceEEEeccCCCEEEECC-cc--hHHHHHHH
Q 013430 347 R----AMIEHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFED-DT--EELQQWDQ 418 (443)
Q Consensus 347 ~----~viEhNL~~isk~Ys~Itl~~La~lLgL-s~eeaE~~ls~MI~~grL~akIDQv~giV~F~~-~~--~~l~~W~~ 418 (443)
+ .+-.|||.+..|-|+++++++||++..| +.++||+++-+||.+|++.++|| |.|.|.. +. ..-+...+
T Consensus 297 k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~~n 373 (422)
T KOG2582|consen 297 KQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPEMHEN 373 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHHHHhh
Confidence 4 4457999999999999999999998888 68999999999999999999999 8887763 11 11122333
Q ss_pred HHHHHHHHHHHHHHHhh
Q 013430 419 QIVGLCQALNDILDSMA 435 (443)
Q Consensus 419 ~I~~l~~~v~~v~~~I~ 435 (443)
.| .+|.+++...+.+.
T Consensus 374 k~-~~~~~L~e~l~~~e 389 (422)
T KOG2582|consen 374 KI-DLCIQLIEALKAME 389 (422)
T ss_pred HH-HHHHHHHHHHHhcc
Confidence 55 45555555555443
No 17
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=98.33 E-value=0.00037 Score=69.73 Aligned_cols=284 Identities=13% Similarity=0.111 Sum_probs=155.1
Q ss_pred cHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCH--HHHHHHHhhhhhhccCCcC
Q 013430 100 SRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQW--SKAAQMLSGIDLDSGMRVI 177 (443)
Q Consensus 100 sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~--~eAa~~L~~i~~Et~~~~~ 177 (443)
.-.++.+.|..+.++|.....-++..+...+.+-. +|.+...+.-...++--+-++. .-+.++|-.+ +..+
T Consensus 44 ~l~~ii~~c~v~~k~~ekdle~vlnsi~sLi~~~~--~e~~e~~v~a~~ekva~q~n~~~~~l~L~vLsnL-----fn~~ 116 (378)
T KOG2753|consen 44 DLLMIIEACDVLAKIPEKDLECVLNSIVSLIKNAP--PEKVEEMVKAICEKVAKQPNDKTASLRLQVLSNL-----FNGV 116 (378)
T ss_pred HHHHHHHHhHHhhcCCcchHHHHHHHHHHHHHhCC--HHHhHHHHHHHHHHHhcCccCCCcccHHHHHHHH-----Hhcc
Confidence 34466666777777776666666666666665554 5555444333333333232222 1344555554 3334
Q ss_pred Chhh--HHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 178 DDTF--RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS--QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 178 ~~~~--Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~--~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
+... +..+|-..+.++-..+-..-....+++...-+.+- +-.+-+- +...-.+.....+.-.++++-+.+++.|+
T Consensus 117 d~~~~aR~~Vy~~lv~la~~~~~~~~i~~~lk~~~~~lkew~~~vedqre-l~r~v~~al~~~k~~~~s~kvmt~lLgty 195 (378)
T KOG2753|consen 117 DKPTPARYQVYMSLVTLAASCKLIEYIVPNLKQLDDWLKEWNISVEDQRE-LLRAVHKALKDNKSVDESSKVMTELLGTY 195 (378)
T ss_pred CCCchHHHHHHHHHHHHHhhcceeeeecccHHHHHHHHHhCCCCHHHHHH-HHHHHHHHHHhcchhhhHHHHHHHHHHHh
Confidence 4432 45556666666655443333222333322222111 1111111 22223344444444668888888888875
Q ss_pred hhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcccccc--cchHHHHHHHHHHhcchhhHHHHHHHhh
Q 013430 254 KRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKL--KIYPILQKVYLERILRKPEIDAFAEELK 331 (443)
Q Consensus 254 ~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l--~~~~~L~k~f~~~ii~~~el~~F~~~L~ 331 (443)
+ +-+...+...-...|+.++-+|....=..++. -|-++++ ..+..|++.|.. +-+.+|-+.-.
T Consensus 196 t------~dnas~AredA~rcV~~av~dP~~F~fD~Ll~----L~pV~qLE~d~i~qLL~IF~s-----~~L~aYveF~~ 260 (378)
T KOG2753|consen 196 T------EDNASEAREDAMRCVVEAVKDPKIFLFDHLLT----LPPVKQLEGDLIHQLLKIFVS-----GKLDAYVEFVA 260 (378)
T ss_pred c------ccchhHHHHHHHHHHHHHHcCCceeccchhcc----CchHHHhccchHHHHHHHHHh-----cchHHHHHHHH
Confidence 4 22322222222346677777776544333322 1111111 124566777764 44555555555
Q ss_pred HHHHhhcCCchhHHHHHHHHHHHHHH---hhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 332 PHQKALLPDNFTVLDRAMIEHNLLSA---SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 332 ~hq~~l~~D~~~~L~~~viEhNL~~i---sk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
.|..|...-|... ...+....|+.+ +..=..|+++.|++.|++..+++|-.+.+.|.-|-+.|||||.++.|+..
T Consensus 261 ~N~~Fvqs~gl~~-E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~fVIdaI~aklV~~kidq~~~~viVs 338 (378)
T KOG2753|consen 261 ANSGFVQSQGLVH-EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVELFVIDAIRAKLVEGKIDQMNRTVIVS 338 (378)
T ss_pred hChHHHHHhcccH-HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHHHHHHHHHHHHHHhhHHhhcceEEee
Confidence 6656654444210 123333444333 44688999999999999999999999999999999999999999987554
No 18
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.28 E-value=0.00027 Score=76.36 Aligned_cols=66 Identities=24% Similarity=0.446 Sum_probs=60.9
Q ss_pred hHHHHHHHHHHHHHH----hhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 343 TVLDRAMIEHNLLSA----SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 343 ~~L~~~viEhNL~~i----sk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
.-|.++|.|.-|+.+ |.+|++||++.||++|+||+..|-.++++||.+.-|.|+.|||.++|.|.+
T Consensus 694 ~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hr 763 (843)
T KOG1076|consen 694 DMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHR 763 (843)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEee
Confidence 457788888887765 788999999999999999999999999999999999999999999999986
No 19
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=98.06 E-value=5.8e-05 Score=77.69 Aligned_cols=206 Identities=16% Similarity=0.212 Sum_probs=143.3
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCC
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDE 260 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~--~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~ 260 (443)
+.+-...-++|+..+....++..++-..+......++ .-...|+-+-|++.+.+.||.+|...+.+++.. .+
T Consensus 163 ~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~------cp 236 (394)
T KOG2688|consen 163 LYIVNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRL------CP 236 (394)
T ss_pred HHHHHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHHHh------Cc
Confidence 4555667888998888888888887655553222222 224455556789999999999999999999974 22
Q ss_pred CCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhhcCcccccccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCC
Q 013430 261 TIDEEALEQALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPD 340 (443)
Q Consensus 261 ~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D 340 (443)
...-......|.|++-++++.+..|... ++.+. . +..|..|.++ ++.+++..|...+++|+..+..-
T Consensus 237 ~~~~~n~~~iliylip~~~llg~~Pt~~-lL~~~-~------~~~~~~lv~a-----Vr~Gnl~~f~~al~~~E~~f~~~ 303 (394)
T KOG2688|consen 237 DLLLKNKRLILIYLIPTGLLLGRIPTKE-LLDFY-T------LDKYSPLVQA-----VRSGNLRLFDLALADNERFFIRS 303 (394)
T ss_pred HHHHhhhhhHHHHHhHHHHHhccCcchh-hHhHh-h------HHhHHHHHHH-----HHhccHHHHHHHHhhhHHHHHHh
Confidence 2111233347889999999887755442 11111 0 2234445544 44588999999999999887766
Q ss_pred c----hhHHHHHHHHHH-HHHHhhcc---cccCHHHHHHHhCCC------hHHHHHHHHhhhhcCceEEEeccCCCEEEE
Q 013430 341 N----FTVLDRAMIEHN-LLSASKLY---TNISFEELGTLLGIA------PQKAEKIASRMIFEDRMRGSIDQVEAVIHF 406 (443)
Q Consensus 341 ~----~~~L~~~viEhN-L~~isk~Y---s~Itl~~La~lLgLs------~eeaE~~ls~MI~~grL~akIDQv~giV~F 406 (443)
| ...+. -+.=+| +..+.+.- +++.++++-..+..+ .+++|-+++.+|.+|+|+|.|+.....++|
T Consensus 304 gi~l~l~~l~-lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgYish~~~~~V~ 382 (394)
T KOG2688|consen 304 GIYLTLEKLP-LVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGYISHQLQTLVF 382 (394)
T ss_pred ccHHHhhhhh-HHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccchhchhhheEEE
Confidence 6 22222 223334 45556666 889999988888764 699999999999999999999999998877
Q ss_pred CC
Q 013430 407 ED 408 (443)
Q Consensus 407 ~~ 408 (443)
.+
T Consensus 383 sK 384 (394)
T KOG2688|consen 383 SK 384 (394)
T ss_pred ec
Confidence 64
No 20
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=97.57 E-value=0.0019 Score=65.80 Aligned_cols=232 Identities=17% Similarity=0.200 Sum_probs=146.1
Q ss_pred cCHHHHHHHHhhhhhhc-cCC--cCChhhHHHHH---HHHHHHhhhcCCHHHHHHHHHHhhhhhcccc----HHHHHHHH
Q 013430 156 QQWSKAAQMLSGIDLDS-GMR--VIDDTFRLSKC---VQIARLYLEDDDAVNAEAFINKASFLVSSSQ----QEVLNLQY 225 (443)
Q Consensus 156 gd~~eAa~~L~~i~~Et-~~~--~~~~~~Kle~~---L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~----d~~lk~~y 225 (443)
...+++.+.+..+.--+ ..+ .+.+..|.-.| -....+|+..+.+..++..++--.. ....+ +..-...|
T Consensus 144 d~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~-vs~~Di~~~~~sq~v~f 222 (413)
T COG5600 144 DNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKE-VSMPDISEYQKSQVVVF 222 (413)
T ss_pred hhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhccc-ccccccchhhhcceeeh
Confidence 45677777777654322 111 13344444322 3557889999999988877763222 11111 11223456
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCC-CChHHHHHhhhcCccccccc
Q 013430 226 KVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYKDERCSKLK 304 (443)
Q Consensus 226 ~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~-~~rs~ll~~l~kd~~~~~l~ 304 (443)
.-|.|+++...++|.+|.-.+.++|.. .+..---.+...+-+++.+++|...- |-+. ++.+- ++ ..
T Consensus 223 ~YYLG~~~l~~en~heA~~~L~~aFl~------c~~l~~~n~~rIl~~~ipt~Llv~~~~Ptk~-~L~r~---~~---~s 289 (413)
T COG5600 223 HYYLGIYYLLNENFHEAFLHLNEAFLQ------CPWLITRNRKRILPYYIPTSLLVNKFPPTKD-LLERF---KR---CS 289 (413)
T ss_pred hhHHHHHHHHHHhHHHHHHHHHHHHHh------ChhhhhcchheehhHHhhHHHHhCCCCCchH-HHHhc---cc---cc
Confidence 667899999999999999999999974 22211112334566777777776543 3333 44433 32 34
Q ss_pred chHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCc----hhHHHHHHHHHHHHHHhhcc------cc--cCHHHHHHH
Q 013430 305 IYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN----FTVLDRAMIEHNLLSASKLY------TN--ISFEELGTL 372 (443)
Q Consensus 305 ~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~----~~~L~~~viEhNL~~isk~Y------s~--Itl~~La~l 372 (443)
.|.-|.++- +.+++..|+..|+.|...+..-| +.....-|.-.|+.. +.| ++ .++-.++..
T Consensus 290 ~~~~Lvkav-----rsGni~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~r--k~w~~~~~qsrlp~sil~~~~q 362 (413)
T COG5600 290 VYSPLVKAV-----RSGNIEDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFR--KIWRLHGKQSRLPLSILLIVLQ 362 (413)
T ss_pred hhHHHHHHH-----HcCCHHHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHH--HHHhhccccccCcHHHHHHHHH
Confidence 566777654 35889999999999988776555 122233444455544 332 33 233344444
Q ss_pred hCC-C----hHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 373 LGI-A----PQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 373 LgL-s----~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
+.. + .+++|-.++.||..|.|.|.|=.-...|+|.+
T Consensus 363 ls~~dn~~~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk 403 (413)
T COG5600 363 LSAIDNFHSFKEVECILVTLIGLGLLRGYISHSRRTVVFSK 403 (413)
T ss_pred ccCCCcccChHHHHHHHHHHHhhhhhhheecccceEEEEec
Confidence 443 2 78999999999999999999999999999975
No 21
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=97.51 E-value=0.017 Score=58.01 Aligned_cols=245 Identities=16% Similarity=0.144 Sum_probs=126.9
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc----cH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS----QQ 218 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~----~d 218 (443)
..-.+.|++..+-|+|.+|+..|---+.-+ ...+....-..|=..+ --+...||..|..-+.|....+... +-
T Consensus 130 ~~lykyakfqyeCGNY~gAs~yLY~~r~l~--~~~d~n~lsalwGKlA-SEIL~qnWd~A~edL~rLre~IDs~~f~~~~ 206 (432)
T KOG2758|consen 130 ETLYKYAKFQYECGNYSGASDYLYFYRALV--SDPDRNYLSALWGKLA-SEILTQNWDGALEDLTRLREYIDSKSFSTSA 206 (432)
T ss_pred HHHHHHHHHHHhccCcccHHHHHHHHHHhc--CCcchhhHHHHHHHHH-HHHHHhhHHHHHHHHHHHHHHHcccccccHH
Confidence 445789999999999999999887654432 2222223222232211 1122357777777777655554332 11
Q ss_pred HHHHHHHHHHHHHH---HH---HHHHHHHHHH---HHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHH
Q 013430 219 EVLNLQYKVCYARI---LD---LKRKFLEAAL---RYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSR 289 (443)
Q Consensus 219 ~~lk~~y~~~~ari---~~---~~r~f~eAa~---~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ 289 (443)
..++.+=+...=-. +- .+....++.- -|.++..|. + =+.|.|...+.|... ...|.+
T Consensus 207 ~~l~qRtWLiHWslfv~fnhpkgrd~iid~fly~p~YLNaIQt~-----c--------PhllRYLatAvvtnk-~~rr~~ 272 (432)
T KOG2758|consen 207 QQLQQRTWLIHWSLFVFFNHPKGRDTIIDMFLYQPPYLNAIQTS-----C--------PHLLRYLATAVVTNK-RRRRNR 272 (432)
T ss_pred HHHHHHHHHHHHHHHhhccCCChhhHHHHHHccCHHHHHHHHhh-----C--------HHHHHHHHHHhhcch-HhhHHH
Confidence 12222111100000 00 0111112111 134444431 1 135556555555532 222333
Q ss_pred HHH--hhhcCcccccccchHHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCc-hhHHHHHHHHHHHHHH----hhccc
Q 013430 290 VLA--TLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEELKPHQKALLPDN-FTVLDRAMIEHNLLSA----SKLYT 362 (443)
Q Consensus 290 ll~--~l~kd~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~-~~~L~~~viEhNL~~i----sk~Ys 362 (443)
+.. ++...++ -.|+.=...|+..+...-+.+.-...|++-+.-+..|. ...+..-++|.--+-+ -+.-+
T Consensus 273 lkdlvkVIqqE~----ysYkDPiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHq 348 (432)
T KOG2758|consen 273 LKDLVKVIQQES----YSYKDPITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLIFETFCRIHQ 348 (432)
T ss_pred HHHHHHHHHHhc----cccCCcHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 311 2211111 11222222333333223444444445555555555565 2223333333332222 33468
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
+||++-||..|+++++++|.-+.++|.+.||.|+||...|-|..+.
T Consensus 349 cIti~mLA~kLnm~~eeaErwivnlIr~~rl~AkidSklg~Vvmg~ 394 (432)
T KOG2758|consen 349 CITIDMLADKLNMDPEEAERWIVNLIRTARLDAKIDSKLGHVVMGH 394 (432)
T ss_pred heeHHHHHHHhcCCHHHHHHHHHHHHHHhhhhhhhccccCceeecC
Confidence 9999999999999999999999999999999999999999888875
No 22
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=97.27 E-value=0.013 Score=51.94 Aligned_cols=95 Identities=16% Similarity=0.139 Sum_probs=77.2
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
....+|+.+...|++++|...|..+.-.+ -++..+--..++.+++++..+++..|...++.+. ++....
T Consensus 50 A~l~lA~~~~~~g~~~~A~~~l~~~~~~~----~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-------~~~~~~ 118 (145)
T PF09976_consen 50 AALQLAKAAYEQGDYDEAKAALEKALANA----PDPELKPLARLRLARILLQQGQYDEALATLQQIP-------DEAFKA 118 (145)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhhC----CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc-------CcchHH
Confidence 36789999999999999999999976432 3445566778899999999999999999997632 233345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDI 249 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~ 249 (443)
.+....|.++...|++.+|-..|..+
T Consensus 119 ~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 119 LAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 56778999999999999999998765
No 23
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=97.11 E-value=0.019 Score=56.89 Aligned_cols=190 Identities=15% Similarity=0.158 Sum_probs=111.2
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-hhHHHHHHHHHHHhhhc-CCHHHHHHHHHHhhhhhccccHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFRLSKCVQIARLYLED-DDAVNAEAFINKASFLVSSSQQE 219 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-~~Kle~~L~i~RL~L~~-~D~~~A~~~l~Ka~~~~~~~~d~ 219 (443)
+..-...+.+|.+. ++.+|.+.+.... +. +...+. ..-...+....++|-.. +|+.+|-.++.+|.......+.+
T Consensus 75 a~~~~~Aa~~~k~~-~~~~Ai~~~~~A~-~~-y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~ 151 (282)
T PF14938_consen 75 AKAYEEAANCYKKG-DPDEAIECYEKAI-EI-YREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSP 151 (282)
T ss_dssp HHHHHHHHHHHHHT-THHHHHHHHHHHH-HH-HHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHHHHHHhh-CHHHHHHHHHHHH-HH-HHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence 34444555555444 6777766665532 22 222232 23466677778888888 89999999999999888776666
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHHHHHhhh-cCc
Q 013430 220 VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSRVLATLY-KDE 298 (443)
Q Consensus 220 ~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~~l~-kd~ 298 (443)
..-.....-.|.++...++|.+|...|-++..... ......-.....+-.+++|.+..+-...-...+.+.. .||
T Consensus 152 ~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l----~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~ 227 (282)
T PF14938_consen 152 HSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCL----ENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDP 227 (282)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCC----CHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhh----cccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 66677777788999999999999999988876421 1112222233344457888888653222223344332 356
Q ss_pred ccccccchH---HHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCchh
Q 013430 299 RCSKLKIYP---ILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFT 343 (443)
Q Consensus 299 ~~~~l~~~~---~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~~~ 343 (443)
....-..++ .|.++|- ..+.+.|...+..+.....-|+|.
T Consensus 228 ~F~~s~E~~~~~~l~~A~~-----~~D~e~f~~av~~~d~~~~ld~w~ 270 (282)
T PF14938_consen 228 SFASSREYKFLEDLLEAYE-----EGDVEAFTEAVAEYDSISRLDNWK 270 (282)
T ss_dssp TSTTSHHHHHHHHHHHHHH-----TT-CCCHHHHCHHHTTSS---HHH
T ss_pred CCCCcHHHHHHHHHHHHHH-----hCCHHHHHHHHHHHcccCccHHHH
Confidence 544433444 3344443 467788988888776655556653
No 24
>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=96.60 E-value=0.058 Score=56.39 Aligned_cols=180 Identities=18% Similarity=0.206 Sum_probs=100.1
Q ss_pred HHHHHHHhhhcCCHHHHHHHHHHhhh----hhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc----
Q 013430 186 CVQIARLYLEDDDAVNAEAFINKASF----LVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQI---- 257 (443)
Q Consensus 186 ~L~i~RL~L~~~D~~~A~~~l~Ka~~----~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~---- 257 (443)
++-.+|++...|||..|-..+.-+.. ....++...+...|+ .|-.|+.-|+|.+|.+.|..+.....+.-
T Consensus 125 ligLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~Yy--vGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~ 202 (404)
T PF10255_consen 125 LIGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYY--VGFAYLMLRRYADAIRTFSQILLYIQRTKNQYH 202 (404)
T ss_pred HHHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 35668999999999999988864321 333344555555554 57778899999999999988875332210
Q ss_pred -CCCCCC----HHHHHHHHHHHHHHHHhcCCCCC--hHHHHHhhhcCcccccccchHHHHHHHHHHhcchhhHHHHHHHh
Q 013430 258 -GDETID----EEALEQALSAAVTCTILAAAGPQ--RSRVLATLYKDERCSKLKIYPILQKVYLERILRKPEIDAFAEEL 330 (443)
Q Consensus 258 -~~~~i~----~~~~~~~Lk~av~~~ILa~~~~~--rs~ll~~l~kd~~~~~l~~~~~L~k~f~~~ii~~~el~~F~~~L 330 (443)
.+.+-| -.+++.+ .+.+|..|+|.-.+ -+..+..-+.|+ +.+| ..+++..|++.+
T Consensus 203 ~~~~q~d~i~K~~eqMya--LlAic~~l~p~~lde~i~~~lkeky~ek----------~~km------q~gd~~~f~elF 264 (404)
T PF10255_consen 203 QRSYQYDQINKKNEQMYA--LLAICLSLCPQRLDESISSQLKEKYGEK----------MEKM------QRGDEEAFEELF 264 (404)
T ss_pred cccchhhHHHhHHHHHHH--HHHHHHHhCCCCCCHHHHHHHHHHHHHH----------HHHH------HccCHHHHHHHH
Confidence 011111 2344434 36788888774211 111111112211 0100 012333333322
Q ss_pred hHH-HHhhcC---------------Cc----hh----HHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHH
Q 013430 331 KPH-QKALLP---------------DN----FT----VLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIAS 385 (443)
Q Consensus 331 ~~h-q~~l~~---------------D~----~~----~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls 385 (443)
..- -+|+.+ |+ .. .......--+||.+-|.|++|+++-||.+++++++++-..+.
T Consensus 265 ~~acPKFIsp~~pp~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 265 SFACPKFISPVSPPDYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred HhhCCCccCCCCCCCcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 100 011110 11 11 223333445788999999999999999999999886654443
No 25
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.51 E-value=1.4 Score=49.36 Aligned_cols=279 Identities=17% Similarity=0.159 Sum_probs=154.3
Q ss_pred HHHHHHhhccccchHHH---HHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhc-----cC---CcCChhhH----HHHHH
Q 013430 123 ANYTLAQIQPRVVSFEE---QVLIIREKLADLYESEQQWSKAAQMLSGIDLDS-----GM---RVIDDTFR----LSKCV 187 (443)
Q Consensus 123 ~~~~L~~i~~~~~sfe~---q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et-----~~---~~~~~~~K----le~~L 187 (443)
+..+|+.+.+... +|. -.|+-..+.+.-|-...+|...+++|.. |++. .+ -.+++.+- +|.-+
T Consensus 159 YR~vLdlLRNNa~-lE~lY~~ia~~aFqFCLkYqRktEFRrLCe~LR~-HL~~i~k~~nq~~~v~Ln~~Etlql~LDtRf 236 (988)
T KOG2072|consen 159 YRTVLDLLRNNAR-LEALYHDIARKAFQFCLKYQRKTEFRRLCELLRM-HLDNINKHQNQSTRVDLNDPETLQLYLDTRF 236 (988)
T ss_pred HHHHHHHHhhhHH-HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH-HHHHHHHhhccCcCCCCCCHHHHHHHHHHHH
Confidence 3445666654433 221 1233344555556666677777666543 3322 11 01233332 56666
Q ss_pred HHHHHhhhcCCHHHHHHHHHHhhhhhc---cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCH
Q 013430 188 QIARLYLEDDDAVNAEAFINKASFLVS---SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDE 264 (443)
Q Consensus 188 ~i~RL~L~~~D~~~A~~~l~Ka~~~~~---~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~ 264 (443)
.|.-...+.+=|..|-..+.-+..++. ..+-|.+...||.-.+.++--.+|++==|..++..|..... .....+.
T Consensus 237 ~QLdvAi~lELWQEAyrSiEDIhgLm~lSKrtPkp~~laNYY~KL~~VF~~sgn~LfHAaAw~k~f~l~k~--~~K~~Tq 314 (988)
T KOG2072|consen 237 QQLDVAIELELWQEAYRSIEDIHGLMKLSKRTPKPSTLANYYEKLAKVFWKSGNPLFHAAAWLKLFKLYKN--MNKNLTQ 314 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH--hcccccH
Confidence 777777777888888877777665552 23567888888888888887777766444444333321100 0223444
Q ss_pred HHHHHHHHHHHHHHHhcCCCCChHHH----------------HHhhhcCcccccccchHHHHHHHHH------------H
Q 013430 265 EALEQALSAAVTCTILAAAGPQRSRV----------------LATLYKDERCSKLKIYPILQKVYLE------------R 316 (443)
Q Consensus 265 ~~~~~~Lk~av~~~ILa~~~~~rs~l----------------l~~l~kd~~~~~l~~~~~L~k~f~~------------~ 316 (443)
++....-..++++++=-|-++.++++ |+.+..= +.-|.=..|.+--.. .
T Consensus 315 de~q~~as~VlLaaLSIP~~~~~~~~~r~~e~e~~~~ek~~rla~LL~L---~~~PTR~~ll~e~v~~gV~~~v~qe~kd 391 (988)
T KOG2072|consen 315 DELQRMASRVLLAALSIPIPDARSDSARLIEIEDIGKEKNLRLANLLGL---PAPPTRKGLLKEAVREGVLSKVDQEVKD 391 (988)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcccccccccccccchhhHHHHHHHHhCC---CCCccHHHHHHHHHHhccHhhhhHHHHH
Confidence 44333333344444444422333222 2222210 011211122211110 0
Q ss_pred hcchhhH----HHHHHHhhHHHHhhcCCc-----hhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCC-ChHHHHHHHHh
Q 013430 317 ILRKPEI----DAFAEELKPHQKALLPDN-----FTVLDRAMIEHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASR 386 (443)
Q Consensus 317 ii~~~el----~~F~~~L~~hq~~l~~D~-----~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgL-s~eeaE~~ls~ 386 (443)
|..|-++ ....+-+++--..+...| ...|...++-.-+..+|+.|.+|++++|-++.-+ +.-++|+.+.+
T Consensus 392 LY~iLEveF~PL~l~k~lq~ll~~ls~~~~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~ 471 (988)
T KOG2072|consen 392 LYNILEVEFHPLKLCKKLQPLLDKLSESPDKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVE 471 (988)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHHcCCCccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHH
Confidence 0001000 001122222222232222 3457777777788889999999999999999875 89999999999
Q ss_pred hhhcCceEEEeccCCCEEEECC
Q 013430 387 MIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 387 MI~~grL~akIDQv~giV~F~~ 408 (443)
....+-+..+||...+.|.|.+
T Consensus 472 a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 472 AAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred HHhccceeEEeccccceeeecc
Confidence 9999999999999999999983
No 26
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.83 E-value=0.29 Score=48.49 Aligned_cols=128 Identities=17% Similarity=0.194 Sum_probs=91.3
Q ss_pred HHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhH-HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 140 QVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR-LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 140 q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~K-le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
+.+.+..+-|..|-..|+|.+|++.+... .++ +..+.+... ...+..-+.+| ...|+..|-.++++|....-..+.
T Consensus 33 ~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kA-a~~-~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~A~~~y~~~G~ 109 (282)
T PF14938_consen 33 EAADLYEKAANCFKLAKDWEKAAEAYEKA-ADC-YEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEKAIEIYREAGR 109 (282)
T ss_dssp HHHHHHHHHHHHHHHTT-CHHHHHHHHHH-HHH-HHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHHHHHHHHHCT-
T ss_pred HHHHHHHHHHHHHHHHhccchhHHHHHHH-HHH-HHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHhcCc
Confidence 45778899999999999999999998875 344 333455443 55555555554 555999999999999999888888
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHH
Q 013430 219 EVLNLQYKVCYARILDLK-RKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAV 275 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~-r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av 275 (443)
+..-.+...-.|.++... +++.+|..+|..+...+.. +-.+.....++..+.
T Consensus 110 ~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~-----e~~~~~a~~~~~~~A 162 (282)
T PF14938_consen 110 FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQ-----EGSPHSAAECLLKAA 162 (282)
T ss_dssp HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHH-----TT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-----CCChhhHHHHHHHHH
Confidence 888888888899999888 9999999999999886431 123444455554443
No 27
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=95.63 E-value=1.1 Score=50.76 Aligned_cols=168 Identities=17% Similarity=0.162 Sum_probs=107.7
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHH-hhhhhhccCCcCChhhHHHHHHHHHHHhh
Q 013430 116 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQML-SGIDLDSGMRVIDDTFRLSKCVQIARLYL 194 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L-~~i~~Et~~~~~~~~~Kle~~L~i~RL~L 194 (443)
.+.-.++|.+++...-.-.+- ...||.+||+.||.++|...- ..-| +.++.. ++|....-+..
T Consensus 155 ~eeA~~i~~EvIkqdp~~~~a--------y~tL~~IyEqrGd~eK~l~~~llAAH-------L~p~d~-e~W~~ladls~ 218 (895)
T KOG2076|consen 155 LEEAEEILMEVIKQDPRNPIA--------YYTLGEIYEQRGDIEKALNFWLLAAH-------LNPKDY-ELWKRLADLSE 218 (895)
T ss_pred HHHHHHHHHHHHHhCccchhh--------HHHHHHHHHHcccHHHHHHHHHHHHh-------cCCCCh-HHHHHHHHHHH
Confidence 444566666666543222222 456999999999999998542 2222 344555 99999999999
Q ss_pred hcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHH
Q 013430 195 EDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAA 274 (443)
Q Consensus 195 ~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~a 274 (443)
+.+++.+|..+.+||-..-.. +|++..+ .+.++...|+...|...|..++.. .+.++-+.-......+
T Consensus 219 ~~~~i~qA~~cy~rAI~~~p~--n~~~~~e----rs~L~~~~G~~~~Am~~f~~l~~~------~p~~d~er~~d~i~~~ 286 (895)
T KOG2076|consen 219 QLGNINQARYCYSRAIQANPS--NWELIYE----RSSLYQKTGDLKRAMETFLQLLQL------DPPVDIERIEDLIRRV 286 (895)
T ss_pred hcccHHHHHHHHHHHHhcCCc--chHHHHH----HHHHHHHhChHHHHHHHHHHHHhh------CCchhHHHHHHHHHHH
Confidence 999999999999998766443 5554333 366778889999999999999985 3323323222233333
Q ss_pred HHHHHhcCCCCChHHHHHhhhcC----cccccccchHHHHHHHH
Q 013430 275 VTCTILAAAGPQRSRVLATLYKD----ERCSKLKIYPILQKVYL 314 (443)
Q Consensus 275 v~~~ILa~~~~~rs~ll~~l~kd----~~~~~l~~~~~L~k~f~ 314 (443)
+-+=+-. .+|.+..+.+..- ......|.+..+..+|+
T Consensus 287 ~~~~~~~---~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l 327 (895)
T KOG2076|consen 287 AHYFITH---NERERAAKALEGALSKEKDEASLEDLNILAELFL 327 (895)
T ss_pred HHHHHHh---hHHHHHHHHHHHHHhhccccccccHHHHHHHHHH
Confidence 3333332 2555555555431 12234677777777775
No 28
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=95.58 E-value=0.078 Score=47.27 Aligned_cols=72 Identities=19% Similarity=0.267 Sum_probs=48.6
Q ss_pred HhcchhhHHHHHHHhhHHHH-hhcCCchhHHHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhh
Q 013430 316 RILRKPEIDAFAEELKPHQK-ALLPDNFTVLDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRM 387 (443)
Q Consensus 316 ~ii~~~el~~F~~~L~~hq~-~l~~D~~~~L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~M 387 (443)
+.+..++..+|-..++.+.- .........|.+.+++.-+..+++.|++|+++.+++.||++.+++++.+.+-
T Consensus 49 ~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~ 121 (143)
T PF10075_consen 49 QALWEGDYSKFWQALRSNPWSPDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSR 121 (143)
T ss_dssp HHHHTT-HHHHHHHS-TT----HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHCCCHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHc
Confidence 44445778888777764310 0000013458999999999999999999999999999999988887777765
No 29
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=95.46 E-value=0.29 Score=36.74 Aligned_cols=94 Identities=16% Similarity=0.021 Sum_probs=71.0
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|..+...|++++|.+.+....... +... ..+.....++...+++..|...++++...... ++ .
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~ 69 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD-----PDNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPD--NA----K 69 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC-----CccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--ch----h
Confidence 4568899999999999999998864322 1111 67888899999999999999999987665433 22 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.....|.++...+++.+|...|..+..
T Consensus 70 ~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 70 AYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 344567888889999999888877765
No 30
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=95.20 E-value=0.18 Score=41.65 Aligned_cols=101 Identities=10% Similarity=-0.051 Sum_probs=77.3
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc-HHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLN 222 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~-d~~lk 222 (443)
....+|..+.+.|++++|.+.+..+.... -+.....+.++...+++...+++..|..+++++.......+ .+.
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-- 77 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKY----PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPD-- 77 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHC----CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccH--
Confidence 45788999999999999999999875332 12223456788899999999999999999999876543311 112
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.....|.++...+++.+|...|.++...
T Consensus 78 --~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 78 --ALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred --HHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 2244678888899999999999999885
No 31
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=94.42 E-value=0.27 Score=38.28 Aligned_cols=70 Identities=16% Similarity=0.014 Sum_probs=56.7
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~-d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...+.....+|...+++.+|..+++++.......+ +.......+..+|.++...++|.+|-.+|.+++..
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 56788899999999999999999999888853333 33334667788999999999999999999988763
No 32
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=94.30 E-value=1.1 Score=40.79 Aligned_cols=106 Identities=8% Similarity=-0.064 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-cHHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEV 220 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~d~~ 220 (443)
+.....+|..+...|++++|...+....... -+.......+.....++...|++..|..++.++....... ....
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~----~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~ 110 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKLE----EDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALN 110 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh----hccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHH
Confidence 3457889999999999999999998764221 1122356788999999999999999999999987754331 1112
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 221 LNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 221 lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.....+...++.....+++..|-.+|.++..
T Consensus 111 ~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~ 141 (172)
T PRK02603 111 NIAVIYHKRGEKAEEAGDQDEAEALFDKAAE 141 (172)
T ss_pred HHHHHHHHcCChHhHhhCHHHHHHHHHHHHH
Confidence 2233333333333344555555555544443
No 33
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.80 E-value=1.3 Score=43.06 Aligned_cols=139 Identities=16% Similarity=0.065 Sum_probs=103.1
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
.+++..+..||-=|.+.||+..|.+-|.+-. +. |..--..|+-.+-+|-..|+.+.|...++||...-.. +
T Consensus 32 ~~aa~arlqLal~YL~~gd~~~A~~nlekAL-~~------DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~--~ 102 (250)
T COG3063 32 NEAAKARLQLALGYLQQGDYAQAKKNLEKAL-EH------DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN--N 102 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH-Hh------CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC--c
Confidence 4556789999999999999999999988853 21 2233456788888999999999999999999888765 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCC-CChHHHHHhhhcC
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAG-PQRSRVLATLYKD 297 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~-~~rs~ll~~l~kd 297 (443)
-++.+.| |-.++.++.|.+|.+.|..++..+. +.+.. .++.++.+|++=++-. .-+..+...+..|
T Consensus 103 GdVLNNY----G~FLC~qg~~~eA~q~F~~Al~~P~----Y~~~s-----~t~eN~G~Cal~~gq~~~A~~~l~raL~~d 169 (250)
T COG3063 103 GDVLNNY----GAFLCAQGRPEEAMQQFERALADPA----YGEPS-----DTLENLGLCALKAGQFDQAEEYLKRALELD 169 (250)
T ss_pred cchhhhh----hHHHHhCCChHHHHHHHHHHHhCCC----CCCcc-----hhhhhhHHHHhhcCCchhHHHHHHHHHHhC
Confidence 3444444 7778889999999999999998543 33322 2556899999966543 3444455556667
Q ss_pred cc
Q 013430 298 ER 299 (443)
Q Consensus 298 ~~ 299 (443)
|.
T Consensus 170 p~ 171 (250)
T COG3063 170 PQ 171 (250)
T ss_pred cC
Confidence 75
No 34
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=93.78 E-value=1.4 Score=47.58 Aligned_cols=136 Identities=14% Similarity=0.071 Sum_probs=99.5
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCc--CChhhHHHHHHHHHHHh
Q 013430 116 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRV--IDDTFRLSKCVQIARLY 193 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~--~~~~~Kle~~L~i~RL~ 193 (443)
.+.-+.+++.+|.....-..--...++..-..||..|...|++++|...+.... +-..+. .+.++-...+...+-+|
T Consensus 257 ~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al-~I~~~~~~~~~~~v~~~l~~~~~~~ 335 (508)
T KOG1840|consen 257 YDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERAL-EIYEKLLGASHPEVAAQLSELAAIL 335 (508)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHH-HHHHHhhccChHHHHHHHHHHHHHH
Confidence 445566677777665544444556677788899999999999999987766532 221111 23445566677788888
Q ss_pred hhcCCHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 194 LEDDDAVNAEAFINKASFLVSSS--QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~~~~~~--~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
--.+.+..|..++.++...+... ++.-.-..+|.-+|+.+...|+|.+|-..|-++...
T Consensus 336 ~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~ 396 (508)
T KOG1840|consen 336 QSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI 396 (508)
T ss_pred HHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence 89999999999999887777632 233345677788999999999999999999988864
No 35
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=93.72 E-value=3.6 Score=44.55 Aligned_cols=134 Identities=16% Similarity=0.133 Sum_probs=101.5
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhh---hhccCCcCChhhHHHHHHHHHHH
Q 013430 116 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGID---LDSGMRVIDDTFRLSKCVQIARL 192 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~---~Et~~~~~~~~~Kle~~L~i~RL 192 (443)
-+.-..+|+.+++.+..+...-.--++.....+|.+|...+++.+|..++++.. .++ +|. +...-..++...+-+
T Consensus 215 ~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~-~G~-~h~~va~~l~nLa~l 292 (508)
T KOG1840|consen 215 LEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEV-FGE-DHPAVAATLNNLAVL 292 (508)
T ss_pred HHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh-cCC-CCHHHHHHHHHHHHH
Confidence 344567788888887655553333344556679999999999999999998754 222 443 344567788889999
Q ss_pred hhhcCCHHHHHHHHHHhhhhhcc---ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 193 YLEDDDAVNAEAFINKASFLVSS---SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 193 ~L~~~D~~~A~~~l~Ka~~~~~~---~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
|...+++..|+.+..+|..+... ..++++...+- .-+-++.+.++|.+|-.+|..++..
T Consensus 293 y~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~-~~~~~~~~~~~~Eea~~l~q~al~i 354 (508)
T KOG1840|consen 293 YYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLS-ELAAILQSMNEYEEAKKLLQKALKI 354 (508)
T ss_pred HhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHH-HHHHHHHHhcchhHHHHHHHHHHHH
Confidence 99999999999999998777755 36777777664 4567788999999999999877763
No 36
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=93.51 E-value=1.1 Score=40.71 Aligned_cols=98 Identities=17% Similarity=0.074 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 221 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~l 221 (443)
+.....+|..|...|++++|.+.+....... ....+.+.....+|...+|+..|..+++++...... ++.
T Consensus 31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-------p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~--~~~- 100 (234)
T TIGR02521 31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-------PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN--NGD- 100 (234)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC--CHH-
Confidence 4567789999999999999999998764221 122467788899999999999999999998766433 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 222 NLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 222 k~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.+...|.++...++|.+|-..|..+...
T Consensus 101 ---~~~~~~~~~~~~g~~~~A~~~~~~~~~~ 128 (234)
T TIGR02521 101 ---VLNNYGTFLCQQGKYEQAMQQFEQAIED 128 (234)
T ss_pred ---HHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence 2344577888899999999999988763
No 37
>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=93.43 E-value=0.13 Score=40.17 Aligned_cols=48 Identities=19% Similarity=0.231 Sum_probs=36.3
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCC
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVE 401 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~ 401 (443)
|+.+.+--.++|+++||..|++|++.+|..|..+|..|+|.-.-+...
T Consensus 5 i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~~ 52 (69)
T PF09012_consen 5 IRDYLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSSC 52 (69)
T ss_dssp HHHHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE--
T ss_pred HHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCCC
Confidence 344455678899999999999999999999999999999986555443
No 38
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=93.17 E-value=2.8 Score=37.77 Aligned_cols=107 Identities=11% Similarity=-0.137 Sum_probs=76.4
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-cHHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEV 220 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~d~~ 220 (443)
+.....++..+...|++++|...+....... .+.......+..+..+|...+++..|..++.++....... ..+-
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~----~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~ 110 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLE----IDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALN 110 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcc----ccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHH
Confidence 4556788999999999999999988864321 1222345688899999999999999999999987664332 2333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 221 LNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 221 lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.....+...|+.+...++|.+|-..|.++...
T Consensus 111 ~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~ 142 (168)
T CHL00033 111 NMAVICHYRGEQAIEQGDSEIAEAWFDQAAEY 142 (168)
T ss_pred HHHHHHHHhhHHHHHcccHHHHHHHHHHHHHH
Confidence 34455555666666788887776666666543
No 39
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.86 E-value=13 Score=39.90 Aligned_cols=136 Identities=18% Similarity=0.093 Sum_probs=100.8
Q ss_pred HHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHh-ccCHHHHHHHHhhhhhhccCCcCCh--h
Q 013430 104 LQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYES-EQQWSKAAQMLSGIDLDSGMRVIDD--T 180 (443)
Q Consensus 104 l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~-~gd~~eAa~~L~~i~~Et~~~~~~~--~ 180 (443)
|-.+.+++++.++.. +..|..|++.+-+-.++|+.+ |+...+|+.++.. ..+++-|..-|+.--.= .++++. +
T Consensus 10 LlGlAe~~rt~~PPk-Ikk~IkClqA~~~~~is~~ve-art~LqLg~lL~~yT~N~elAksHLekA~~i--~~~ip~fyd 85 (629)
T KOG2300|consen 10 LLGLAEHFRTSGPPK-IKKCIKCLQAIFQFQISFLVE-ARTHLQLGALLLRYTKNVELAKSHLEKAWLI--SKSIPSFYD 85 (629)
T ss_pred HHHHHHHHhhcCChh-HHHHHHHHHHHhccCChHHHH-HHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--HcccccHHh
Confidence 345777888774332 456778999999999999987 6889999998654 34666666555543221 123333 4
Q ss_pred hHHHHHHHHHHHhhhcC-CHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 181 FRLSKCVQIARLYLEDD-DAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALR 245 (443)
Q Consensus 181 ~Kle~~L~i~RL~L~~~-D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~ 245 (443)
-|.+-+-..+.+|+..+ .++.++..++|+-..-...+-|-=++-| ..|.++..++||..|...
T Consensus 86 vKf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq~~p~wsckllf--QLaql~~idkD~~sA~el 149 (629)
T KOG2300|consen 86 VKFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQSVPYWSCKLLF--QLAQLHIIDKDFPSALEL 149 (629)
T ss_pred hhhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCchhhHHHHH--HHHHHHhhhccchhHHHH
Confidence 68889999999999888 9999999999998887776666555544 468889999999999877
No 40
>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=92.82 E-value=0.52 Score=36.65 Aligned_cols=70 Identities=14% Similarity=0.080 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh--hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 141 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT--FRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 141 ~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~--~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
.+.+-..+|.+|...|+|++|.+.+....- . ...+++. ..+..+..+.++|...||+..|..++.++...
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~-~-~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALD-I-EEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH-H-HHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-H-HHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 456678899999999999999999887542 2 2333333 46899999999999999999999999987654
No 41
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=92.77 E-value=0.63 Score=37.01 Aligned_cols=83 Identities=14% Similarity=0.149 Sum_probs=59.2
Q ss_pred hccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHH
Q 013430 154 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 233 (443)
Q Consensus 154 ~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~ 233 (443)
+.|+|++|...+..+.-.. +....-.+++..++.|...+++.+|-.++++ ... ...+ ....| ..|+.+
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~-----~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~--~~~-~~~~--~~~~~--l~a~~~ 68 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELD-----PTNPNSAYLYNLAQCYFQQGKYEEAIELLQK--LKL-DPSN--PDIHY--LLARCL 68 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHH-----CGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC--HTH-HHCH--HHHHH--HHHHHH
T ss_pred CCccHHHHHHHHHHHHHHC-----CCChhHHHHHHHHHHHHHCCCHHHHHHHHHH--hCC-CCCC--HHHHH--HHHHHH
Confidence 3689999999999986443 1122566888899999999999999999998 111 1112 23333 448999
Q ss_pred HHHHHHHHHHHHHHH
Q 013430 234 DLKRKFLEAALRYYD 248 (443)
Q Consensus 234 ~~~r~f~eAa~~y~e 248 (443)
...++|.+|-..|.+
T Consensus 69 ~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 69 LKLGKYEEAIKALEK 83 (84)
T ss_dssp HHTT-HHHHHHHHHH
T ss_pred HHhCCHHHHHHHHhc
Confidence 999999999888765
No 42
>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi. It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].
Probab=92.30 E-value=5.1 Score=44.26 Aligned_cols=128 Identities=15% Similarity=0.072 Sum_probs=91.0
Q ss_pred HHHHHHHHHhhc-cccchHHHHHHHHHHHHHHHHH-hccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcC
Q 013430 120 KEIANYTLAQIQ-PRVVSFEEQVLIIREKLADLYE-SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD 197 (443)
Q Consensus 120 ~~~~~~~L~~i~-~~~~sfe~q~a~l~~~LA~iye-~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~ 197 (443)
+..+..+|+.+. ..+.+-+. .++++.+||.++. +..++++|-..|..-..-+ .+.-=.+.|.......+|++...+
T Consensus 37 I~~ai~CL~~~~~~~~l~p~~-ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~-~~~~~~d~k~~~~~ll~~i~~~~~ 114 (608)
T PF10345_consen 37 IATAIKCLEAVLKQFKLSPRQ-EARVRLRLASILLEETENLDLAETYLEKAILLC-ERHRLTDLKFRCQFLLARIYFKTN 114 (608)
T ss_pred HHHHHHHHHHHhccCCCCHHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-cccchHHHHHHHHHHHHHHHHhcC
Confidence 566778888885 77776644 4799999999966 7789999999998754444 232122346666667799998888
Q ss_pred CHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 198 DAVNAEAFINKASFLVSSS--QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 198 D~~~A~~~l~Ka~~~~~~~--~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-.. |..+++++......- ..|..-.+| ..+..+...+|+..|...+..+...
T Consensus 115 ~~~-a~~~l~~~I~~~~~~~~~~w~~~frl--l~~~l~~~~~d~~~Al~~L~~~~~~ 168 (608)
T PF10345_consen 115 PKA-ALKNLDKAIEDSETYGHSAWYYAFRL--LKIQLALQHKDYNAALENLQSIAQL 168 (608)
T ss_pred HHH-HHHHHHHHHHHHhccCchhHHHHHHH--HHHHHHHhcccHHHHHHHHHHHHHH
Confidence 877 999999865555443 345544444 4444444448999999999998875
No 43
>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=92.27 E-value=2.8 Score=43.98 Aligned_cols=129 Identities=20% Similarity=0.102 Sum_probs=91.6
Q ss_pred ceeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCC
Q 013430 96 PLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMR 175 (443)
Q Consensus 96 ~lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~ 175 (443)
+-.++..++..+++.+...+. -+.+...++.+....- + +...||+++...++-.+|.+++.+...+.
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~~---~~~ai~lle~L~~~~p--e-----v~~~LA~v~l~~~~E~~AI~ll~~aL~~~--- 230 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQR---YDEAIELLEKLRERDP--E-----VAVLLARVYLLMNEEVEAIRLLNEALKEN--- 230 (395)
T ss_pred CCCcchHHHHHHHHHHhhccc---HHHHHHHHHHHHhcCC--c-----HHHHHHHHHHhcCcHHHHHHHHHHHHHhC---
Confidence 445567788888888755432 3445555665544432 1 23458999988899999999999876443
Q ss_pred cCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 176 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYY 247 (443)
Q Consensus 176 ~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~ 247 (443)
..+ .++...|++.++..+++..|....+++....... ...+...+.+|...++|.+|-....
T Consensus 231 p~d----~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~------f~~W~~La~~Yi~~~d~e~ALlaLN 292 (395)
T PF09295_consen 231 PQD----SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE------FETWYQLAECYIQLGDFENALLALN 292 (395)
T ss_pred CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh------HHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 112 7888999999999999999999999987776541 2223346888999999999864443
No 44
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=92.19 E-value=3.1 Score=36.68 Aligned_cols=88 Identities=20% Similarity=0.146 Sum_probs=70.4
Q ss_pred hccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHH
Q 013430 154 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 233 (443)
Q Consensus 154 ~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~ 233 (443)
..|++.++...+..+..+- + +..+-....|..+..+...||+..|...++++.... +++.++..-+...++++
T Consensus 23 ~~~~~~~~~~~~~~l~~~~--~--~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~d~~l~~~a~l~LA~~~ 95 (145)
T PF09976_consen 23 QAGDPAKAEAAAEQLAKDY--P--SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA---PDPELKPLARLRLARIL 95 (145)
T ss_pred HCCCHHHHHHHHHHHHHHC--C--CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---CCHHHHHHHHHHHHHHH
Confidence 5889999988888876442 2 223667778889999999999999999999977744 46677766677789999
Q ss_pred HHHHHHHHHHHHHHH
Q 013430 234 DLKRKFLEAALRYYD 248 (443)
Q Consensus 234 ~~~r~f~eAa~~y~e 248 (443)
...++|.+|-..+..
T Consensus 96 ~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 96 LQQGQYDEALATLQQ 110 (145)
T ss_pred HHcCCHHHHHHHHHh
Confidence 999999999888743
No 45
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=92.02 E-value=2.5 Score=42.85 Aligned_cols=100 Identities=12% Similarity=0.069 Sum_probs=72.3
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
....++.++...|++++|...+..+... ...++..+...+...+.+|...+++.+|..+++++.... ..+.
T Consensus 71 ~~~~la~~~~~~g~~~~A~~~~~~~l~~---~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~--~~~~---- 141 (389)
T PRK11788 71 LHLALGNLFRRRGEVDRAIRIHQNLLSR---PDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG--DFAE---- 141 (389)
T ss_pred HHHHHHHHHHHcCcHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC--cchH----
Confidence 4567899999999999999988876431 223444566788888999999999999999988875531 1121
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
..+...+.++...++|.+|-..|..+...
T Consensus 142 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~ 170 (389)
T PRK11788 142 GALQQLLEIYQQEKDWQKAIDVAERLEKL 170 (389)
T ss_pred HHHHHHHHHHHHhchHHHHHHHHHHHHHh
Confidence 22345677788889999998888877653
No 46
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=91.94 E-value=0.046 Score=59.42 Aligned_cols=107 Identities=19% Similarity=0.186 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
.++..+...-|+.+.++|++..|..+|..|... .+++..+.+..|..+++.+..+++..|...++....... .
T Consensus 21 ~~~~~~~L~Aa~a~l~~g~~~~A~~ll~~l~~~----~L~~~q~~~~~Ll~A~lal~~~~~~~Al~~L~~~~~~~l---~ 93 (536)
T PF04348_consen 21 EQRAQLLLLAARALLQEGDWAQAQALLNQLDPQ----QLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDLWQL---P 93 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HhHHHHHHHHHHHHHhCCCHHHHHHHHHhcccc----cCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCcccC---C
Confidence 445567778899999999999999999998743 478889999999999999999999999999986333322 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+..+.+|+...+.++...+++.+|++.+..+...
T Consensus 94 ~~~~~~~~~l~A~a~~~~~~~l~Aa~~~i~l~~l 127 (536)
T PF04348_consen 94 PEQQARYHQLRAQAYEQQGDPLAAARERIALDPL 127 (536)
T ss_dssp ----------------------------------
T ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence 5667889999999999999999999999887763
No 47
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=91.90 E-value=2.9 Score=42.37 Aligned_cols=102 Identities=12% Similarity=0.062 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.....||..|...|++++|.+.+...... .......+...+.++...+++.+|...+.++...... ++....
T Consensus 108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~-------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~ 179 (389)
T PRK11788 108 LALQELGQDYLKAGLLDRAEELFLQLVDE-------GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGD-SLRVEI 179 (389)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHcC-------CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCC-cchHHH
Confidence 45677888899999999998888886421 1123456777788888889999888888876543222 112223
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
..++...|..+...+++.+|...|.++...
T Consensus 180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~ 209 (389)
T PRK11788 180 AHFYCELAQQALARGDLDAARALLKKALAA 209 (389)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHhH
Confidence 445556777778888888888888888764
No 48
>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=91.45 E-value=1.7 Score=37.05 Aligned_cols=96 Identities=13% Similarity=-0.078 Sum_probs=73.7
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
....+|..+...|++.+|...++.+.- . ++ .-.+.+......+...+++..|..+++++...... +++..
T Consensus 19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~-~-----~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~- 88 (135)
T TIGR02552 19 QIYALAYNLYQQGRYDEALKLFQLLAA-Y-----DP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD--DPRPY- 88 (135)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHH-h-----CC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC--ChHHH-
Confidence 356789999999999999999988632 1 11 12467788899999999999999999987665332 33332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...|.++...++|.+|...|..+...
T Consensus 89 ---~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 89 ---FHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred ---HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 33577888899999999999888875
No 49
>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=91.21 E-value=2.3 Score=38.44 Aligned_cols=97 Identities=12% Similarity=0.071 Sum_probs=63.9
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
....++.++...|++++|.+.+....-.. ......+.+......+...+++..|..++.++...... +++
T Consensus 101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~--- 170 (234)
T TIGR02521 101 VLNNYGTFLCQQGKYEQAMQQFEQAIEDP-----LYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ--RPE--- 170 (234)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHhcc-----ccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--ChH---
Confidence 35567888888888888888887754210 11123445666677888888888888888877655332 222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+...|.++...++|.+|...|.+...
T Consensus 171 -~~~~la~~~~~~~~~~~A~~~~~~~~~ 197 (234)
T TIGR02521 171 -SLLELAELYYLRGQYKDARAYLERYQQ 197 (234)
T ss_pred -HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 223467777778888888777777665
No 50
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=91.02 E-value=1.3 Score=33.19 Aligned_cols=59 Identities=15% Similarity=0.110 Sum_probs=47.2
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
.+|..+.+.|+|++|.+.++.+... . ..-.+.+....+++...|++..|..++.++...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~------~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQ------D-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCC------S-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHH------C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5788999999999999999997532 1 236778888999999999999999998887544
No 51
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=90.74 E-value=1.3 Score=33.21 Aligned_cols=56 Identities=13% Similarity=0.119 Sum_probs=44.5
Q ss_pred HhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 153 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 153 e~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
.+.|+|++|.+.++.+.... ..-.++++..+++|+..|++.+|+..++++......
T Consensus 2 l~~~~~~~A~~~~~~~l~~~-------p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRN-------PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHT-------TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hhccCHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 46899999999999975432 124677888999999999999999999988776554
No 52
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=90.56 E-value=4.3 Score=38.30 Aligned_cols=110 Identities=12% Similarity=-0.004 Sum_probs=78.8
Q ss_pred hHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 136 SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 136 sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
+..++.+.....+|..+...|++++|...+.++...- -+...-.+.++.....+...+++..|...++++......
T Consensus 27 ~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~----p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~ 102 (235)
T TIGR03302 27 PVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRY----PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN 102 (235)
T ss_pred CcccCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC
Confidence 4566777778899999999999999999999874321 112234567888899999999999999999998776654
Q ss_pred ccHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHhh
Q 013430 216 SQQEVLNLQYKVCYARILDL--------KRKFLEAALRYYDISQI 252 (443)
Q Consensus 216 ~~d~~lk~~y~~~~ari~~~--------~r~f~eAa~~y~e~~~t 252 (443)
.+... ...|. .|..+.. .+++.+|...|..+...
T Consensus 103 ~~~~~-~a~~~--~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 144 (235)
T TIGR03302 103 HPDAD-YAYYL--RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR 144 (235)
T ss_pred CCchH-HHHHH--HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH
Confidence 22211 12222 2333433 37899999998888875
No 53
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=90.31 E-value=8.9 Score=39.21 Aligned_cols=126 Identities=19% Similarity=0.162 Sum_probs=86.1
Q ss_pred cHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh
Q 013430 100 SRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD 179 (443)
Q Consensus 100 sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~ 179 (443)
||.-++.+---|+.-|++.... .++.++..+-+||.+ ..|+++|-+.|+.+.|.++=+.+. ++ ..++.
T Consensus 36 sr~Yv~GlNfLLs~Q~dKAvdl----F~e~l~~d~~t~e~~-----ltLGnLfRsRGEvDRAIRiHQ~L~-~s--pdlT~ 103 (389)
T COG2956 36 SRDYVKGLNFLLSNQPDKAVDL----FLEMLQEDPETFEAH-----LTLGNLFRSRGEVDRAIRIHQTLL-ES--PDLTF 103 (389)
T ss_pred cHHHHhHHHHHhhcCcchHHHH----HHHHHhcCchhhHHH-----HHHHHHHHhcchHHHHHHHHHHHh-cC--CCCch
Confidence 4443333333344445554443 455667888899996 569999999999999999999975 33 45788
Q ss_pred hhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhh-hhccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 180 TFRLSKCVQIARLYLEDDDAVNAEAFINKASF-LVSSSQQEVLNLQYKVCYARILDLKRKFLEAAL 244 (443)
Q Consensus 180 ~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~-~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~ 244 (443)
.+|+-......|=|+..|=+++|+...+-... --+. .+.++- ...+|..+|+|..|-.
T Consensus 104 ~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa--~~Alqq-----Ll~IYQ~treW~KAId 162 (389)
T COG2956 104 EQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFA--EGALQQ-----LLNIYQATREWEKAID 162 (389)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhh--HHHHHH-----HHHHHHHhhHHHHHHH
Confidence 89999999999999999999999998875332 1111 112211 2345666777776543
No 54
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=90.16 E-value=1.7 Score=32.81 Aligned_cols=65 Identities=12% Similarity=0.096 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhh
Q 013430 182 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKR-KFLEAALRYYDISQI 252 (443)
Q Consensus 182 Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r-~f~eAa~~y~e~~~t 252 (443)
..+.|......++..+|+.+|..+++++...-.. ++. .+..+|..+...+ +|.+|-..|..+...
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~--~~~----~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN--NAE----AYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT--HHH----HHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--CHH----HHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 4578899999999999999999999998887433 443 3455788888888 899999999888763
No 55
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=89.86 E-value=0.59 Score=43.95 Aligned_cols=52 Identities=21% Similarity=0.277 Sum_probs=37.6
Q ss_pred HhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 357 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 357 isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
+.+-=+.|.|++||..||++++++-.-|-.+..+|+|.|.||--...|+..+
T Consensus 107 yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~ 158 (188)
T PF09756_consen 107 YIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISE 158 (188)
T ss_dssp HHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE---
T ss_pred HHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecH
Confidence 3556788999999999999999999999999999999999999777777764
No 56
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=89.39 E-value=4.9 Score=45.66 Aligned_cols=108 Identities=18% Similarity=0.121 Sum_probs=80.0
Q ss_pred hccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 130 IQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 130 i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
+.....++ ..+.-+...+|+.|...|.+.+|.+.+..|.-. +.-.-..+|..++|+|.+.+.+..|..++.|+
T Consensus 403 l~~~n~~~-~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~------~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kv 475 (895)
T KOG2076|consen 403 LVEDNVWV-SDDVDLYLDLADALTNIGKYKEALRLLSPITNR------EGYQNAFVWYKLARCYMELGEYEEAIEFYEKV 475 (895)
T ss_pred HHHhcCCh-hhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcC------ccccchhhhHHHHHHHHHHhhHHHHHHHHHHH
Confidence 34445553 345678999999999999999999999987422 22234889999999999999999999999999
Q ss_pred hhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 210 SFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 250 (443)
Q Consensus 210 ~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~ 250 (443)
...... +-+.+..+ +-++...+++.+|-.....++
T Consensus 476 l~~~p~--~~D~Ri~L----asl~~~~g~~EkalEtL~~~~ 510 (895)
T KOG2076|consen 476 LILAPD--NLDARITL----ASLYQQLGNHEKALETLEQII 510 (895)
T ss_pred HhcCCC--chhhhhhH----HHHHHhcCCHHHHHHHHhccc
Confidence 877655 33333333 556666777777766655554
No 57
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=89.07 E-value=2.8 Score=36.74 Aligned_cols=91 Identities=12% Similarity=0.087 Sum_probs=65.4
Q ss_pred HhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHH
Q 013430 128 AQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFIN 207 (443)
Q Consensus 128 ~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~ 207 (443)
.|+.+.+..+..+...+-..++..+...|++++|.+.+..+... . ..-=+.|...||.|...|+...|...+.
T Consensus 48 ~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~---d----P~~E~~~~~lm~~~~~~g~~~~A~~~Y~ 120 (146)
T PF03704_consen 48 EWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALAL---D----PYDEEAYRLLMRALAAQGRRAEALRVYE 120 (146)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---S----TT-HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc---C----CCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence 45555555677777778889999999999999999999886432 1 1233578888999999999999999999
Q ss_pred Hhhhhhccc----cHHHHHHHH
Q 013430 208 KASFLVSSS----QQEVLNLQY 225 (443)
Q Consensus 208 Ka~~~~~~~----~d~~lk~~y 225 (443)
+......+. +.++++--|
T Consensus 121 ~~~~~l~~elg~~Ps~~~~~l~ 142 (146)
T PF03704_consen 121 RYRRRLREELGIEPSPETRALY 142 (146)
T ss_dssp HHHHHHHHHHS----HHHHHHH
T ss_pred HHHHHHHHHhCcCcCHHHHHHH
Confidence 887766532 455665544
No 58
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=88.83 E-value=7.2 Score=39.83 Aligned_cols=101 Identities=14% Similarity=0.142 Sum_probs=77.8
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
-...|..+|..+.||++|.++=.++..-+ +.--..+...+|-+.+.-++..+|..+|...+.||...-.++--.
T Consensus 143 AlqqLl~IYQ~treW~KAId~A~~L~k~~--~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRA---- 216 (389)
T COG2956 143 ALQQLLNIYQATREWEKAIDVAERLVKLG--GQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRA---- 216 (389)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHcC--CccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceeh----
Confidence 36789999999999999998877765433 222223567889999999999999999999999986654332111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-...|++.+.+++|..|-..+-.+.+.
T Consensus 217 --si~lG~v~~~~g~y~~AV~~~e~v~eQ 243 (389)
T COG2956 217 --SIILGRVELAKGDYQKAVEALERVLEQ 243 (389)
T ss_pred --hhhhhHHHHhccchHHHHHHHHHHHHh
Confidence 134689999999999999999888764
No 59
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=88.64 E-value=2.3 Score=33.63 Aligned_cols=59 Identities=22% Similarity=0.207 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
..-..||..|...|+|++|..+++.... ++.. .+.....+|.+++.+++..|...+.|+
T Consensus 26 ~~~~~la~~~~~~~~y~~A~~~~~~~~~-------~~~~-~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 26 AYLYNLAQCYFQQGKYEEAIELLQKLKL-------DPSN-PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHCHTH-------HHCH-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHhCC-------CCCC-HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 3456689999999999999999988322 1222 445555699999999999999998875
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=88.08 E-value=10 Score=41.58 Aligned_cols=98 Identities=20% Similarity=0.076 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 221 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~l 221 (443)
+.....++.+|...|++++|...+.... +. ++ .-.+.|+....+++..+++..|...+.++...-. .+++
T Consensus 331 a~a~~~lg~~~~~~g~~~eA~~~~~kal-~l-----~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p--~~~~- 400 (615)
T TIGR00990 331 AIALNLRGTFKCLKGKHLEALADLSKSI-EL-----DP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS--EDPD- 400 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hc-----CC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHH-
Confidence 3456778999999999999999998853 21 11 2245788889999999999999999999865532 2333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 222 NLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 222 k~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.+...|.++...++|.+|..+|..+...
T Consensus 401 ---~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 401 ---IYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 2345788899999999999999999874
No 61
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=88.05 E-value=1.2 Score=33.55 Aligned_cols=64 Identities=16% Similarity=0.137 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcC-CHHHHHHHHHHhhhh
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD-DAVNAEAFINKASFL 212 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~-D~~~A~~~l~Ka~~~ 212 (443)
+..-..+|..+...|+|++|...+...- + +++ .-..++......|...+ ++.+|...++++..+
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai-~-----~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l 67 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAI-E-----LDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL 67 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHH-H-----HST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHH-H-----cCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence 4566789999999999999999998853 2 122 23669999999999999 799999999987543
No 62
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=87.92 E-value=5.6 Score=42.93 Aligned_cols=105 Identities=19% Similarity=0.075 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
+|.......=++.+.++|+...|..++..+++ .+++.+|.+.-|..+++.+..+++..|..++.+...-...
T Consensus 60 ~~~~~~~llAa~al~~e~k~~qA~~Ll~ql~~-----~Ltd~Q~~~~~LL~ael~la~~q~~~Al~~L~~~~~~~ls--- 131 (604)
T COG3107 60 EQQNDWLLLAARALVEEGKTAQAQALLNQLPQ-----ELTDAQRAEKSLLAAELALAQKQPAAALQQLAKLLPADLS--- 131 (604)
T ss_pred hhhhhHHHHHHHHHHHcCChHHHHHHHHhccc-----cCCHHHHHHHHHHHHHHHHhccChHHHHHHHhhcchhhcC---
Confidence 55556666678889999999999999999976 3899999999999999999999999999999987666543
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+--+.+|+...+.+...+++-.+|++.......
T Consensus 132 ~~Qq~Ry~q~~a~a~ea~~~~~~a~rari~~~~ 164 (604)
T COG3107 132 QNQQARYYQARADALEARGDSIDAARARIAQDP 164 (604)
T ss_pred HHHHHHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence 223789998888888889899999988876654
No 63
>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=87.80 E-value=0.53 Score=39.42 Aligned_cols=37 Identities=19% Similarity=0.365 Sum_probs=34.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEecc
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQ 399 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQ 399 (443)
=|+++.|++.|+++.+++++.+-.|+.+|.|+-.||-
T Consensus 65 Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 65 GVHVDEIAQQLGMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred cccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecccCC
Confidence 4889999999999999999999999999999999984
No 64
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=87.54 E-value=3.4 Score=41.45 Aligned_cols=155 Identities=13% Similarity=0.109 Sum_probs=89.4
Q ss_pred HHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHH
Q 013430 104 LQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRL 183 (443)
Q Consensus 104 l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kl 183 (443)
+..+..++.. | .....++...-+++......... -+..-.|.++..+|++++|.+.+.+- .-+
T Consensus 69 v~~la~y~~~-~-~~~e~~l~~l~~~~~~~~~~~~~---~~~~~~A~i~~~~~~~~~AL~~l~~~------------~~l 131 (290)
T PF04733_consen 69 VRLLAEYLSS-P-SDKESALEELKELLADQAGESNE---IVQLLAATILFHEGDYEEALKLLHKG------------GSL 131 (290)
T ss_dssp HHHHHHHHCT-S-TTHHCHHHHHHHCCCTS---CHH---HHHHHHHHHHCCCCHHHHHHCCCTTT------------TCH
T ss_pred HHHHHHHHhC-c-cchHHHHHHHHHHHHhccccccH---HHHHHHHHHHHHcCCHHHHHHHHHcc------------Ccc
Confidence 3444555543 2 22344444444555554431111 23566788999999999999877551 336
Q ss_pred HHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhhhccCCCC
Q 013430 184 SKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDL--KRKFLEAALRYYDISQIQKRQIGDET 261 (443)
Q Consensus 184 e~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~--~r~f~eAa~~y~e~~~t~~~~~~~~~ 261 (443)
|.....+++||..+.++.|+..+++....- +..+-..+ +.+-+... ..++.+|...|-|+..++. .
T Consensus 132 E~~al~Vqi~L~~~R~dlA~k~l~~~~~~~----eD~~l~qL--a~awv~l~~g~e~~~~A~y~f~El~~~~~------~ 199 (290)
T PF04733_consen 132 ELLALAVQILLKMNRPDLAEKELKNMQQID----EDSILTQL--AEAWVNLATGGEKYQDAFYIFEELSDKFG------S 199 (290)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHCCS----CCHHHHHH--HHHHHHHHHTTTCCCHHHHHHHHHHCCS--------
T ss_pred cHHHHHHHHHHHcCCHHHHHHHHHHHHhcC----CcHHHHHH--HHHHHHHHhCchhHHHHHHHHHHHHhccC------C
Confidence 888899999999999999999998765432 22322333 33444444 3468888888888776421 0
Q ss_pred CCHHHHHHHHHHHHHHHHhcCCCCChHHHHH
Q 013430 262 IDEEALEQALSAAVTCTILAAAGPQRSRVLA 292 (443)
Q Consensus 262 i~~~~~~~~Lk~av~~~ILa~~~~~rs~ll~ 292 (443)
+ -..|....+|.|..+.-++=..++.
T Consensus 200 -t----~~~lng~A~~~l~~~~~~eAe~~L~ 225 (290)
T PF04733_consen 200 -T----PKLLNGLAVCHLQLGHYEEAEELLE 225 (290)
T ss_dssp -S----HHHHHHHHHHHHHCT-HHHHHHHHH
T ss_pred -C----HHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 1 1234455666666554444444433
No 65
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=87.14 E-value=4.7 Score=42.78 Aligned_cols=66 Identities=21% Similarity=0.184 Sum_probs=56.8
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQK 254 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~ 254 (443)
+++...++.+|-...|..+|-..+..++.++.. ||.+.-++ |..|+.+++=..|.+|||+.+..|+
T Consensus 558 ~evl~qianiye~led~aqaie~~~q~~slip~--dp~ilskl----~dlydqegdksqafq~~ydsyryfp 623 (840)
T KOG2003|consen 558 AEVLVQIANIYELLEDPAQAIELLMQANSLIPN--DPAILSKL----ADLYDQEGDKSQAFQCHYDSYRYFP 623 (840)
T ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCC--CHHHHHHH----HHHhhcccchhhhhhhhhhcccccC
Confidence 677888899999999999999999999998876 77765544 7789999999999999999998654
No 66
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=87.10 E-value=18 Score=31.98 Aligned_cols=93 Identities=13% Similarity=0.032 Sum_probs=73.5
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 226 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~ 226 (443)
.+|..+...|++++|...+.....- + ..-.+.+.....++...|++..|...++++...-.. +++..
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~------~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~--~~~a~---- 95 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMA------Q-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS--HPEPV---- 95 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHc------C-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CcHHH----
Confidence 4688899999999999998885321 1 124688899999999999999999999998876433 33322
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 227 VCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 227 ~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...|..+...+++.+|...|..+...
T Consensus 96 ~~lg~~l~~~g~~~eAi~~~~~Al~~ 121 (144)
T PRK15359 96 YQTGVCLKMMGEPGLAREAFQTAIKM 121 (144)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 23577788899999999999999874
No 67
>PRK11189 lipoprotein NlpI; Provisional
Probab=87.08 E-value=9.5 Score=37.98 Aligned_cols=101 Identities=11% Similarity=-0.066 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
++.+..-..+|.+|...|++++|...+..... ++++ -.+.|.....++...+++..|...++++..+-.. +
T Consensus 61 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~------l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~--~ 131 (296)
T PRK11189 61 EERAQLHYERGVLYDSLGLRALARNDFSQALA------LRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT--Y 131 (296)
T ss_pred HhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------cCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--C
Confidence 45567778899999999999999988876431 1221 2578889999999999999999999998766433 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.. .+...|.++...++|.+|...|..+...
T Consensus 132 ~~----a~~~lg~~l~~~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 132 NY----AYLNRGIALYYGGRYELAQDDLLAFYQD 161 (296)
T ss_pred HH----HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 22 1233567777889999999999888874
No 68
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=86.81 E-value=5 Score=40.18 Aligned_cols=98 Identities=12% Similarity=-0.077 Sum_probs=76.2
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|.++...|++++|.+.+.....- .++. ...+.....++.+.|++..|..++.++...... ++.....
T Consensus 117 ~~~~a~~~~~~G~~~~A~~~~~~al~~------~p~~-~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~ 187 (355)
T cd05804 117 LGMLAFGLEEAGQYDRAEEAARRALEL------NPDD-AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGH 187 (355)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhh------CCCC-cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHH
Confidence 456888999999999999999885321 1111 456677789999999999999999988765443 3445555
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+...++++...|++.+|-..|.++..
T Consensus 188 ~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 188 NWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 666789999999999999999988754
No 69
>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=86.02 E-value=8.2 Score=42.65 Aligned_cols=60 Identities=17% Similarity=0.035 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
.+...++..|...|++++|.+.+..+.-.. + .-.+.++..+++++..+++..|...++++
T Consensus 126 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~------~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~ 185 (899)
T TIGR02917 126 ELLALRGLAYLGLGQLELAQKSYEQALAID------P-RSLYAKLGLAQLALAENRFDEARALIDEV 185 (899)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------C-CChhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 334445555555555555555555432110 0 01223444455555555555555555443
No 70
>PLN03218 maturation of RBCL 1; Provisional
Probab=85.99 E-value=83 Score=37.43 Aligned_cols=98 Identities=10% Similarity=0.013 Sum_probs=63.4
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...|...|.+.|++++|.+++.++..+. .+ +.+. ...|-..+..|...+++..|..++.+....-.. +++ .
T Consensus 545 YnsLI~a~~k~G~~deA~~lf~eM~~~~-~g-i~PD--~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~-p~~----~ 615 (1060)
T PLN03218 545 FNALISACGQSGAVDRAFDVLAEMKAET-HP-IDPD--HITVGALMKACANAGQVDRAKEVYQMIHEYNIK-GTP----E 615 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhc-CC-CCCc--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CCh----H
Confidence 3457777888888888888888875432 11 1111 356777778888888888888888765543221 121 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+...+..+...+++.+|...|.+...
T Consensus 616 tynsLI~ay~k~G~~deAl~lf~eM~~ 642 (1060)
T PLN03218 616 VYTIAVNSCSQKGDWDFALSIYDDMKK 642 (1060)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 344556666777788888777777665
No 71
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.47 E-value=22 Score=35.47 Aligned_cols=124 Identities=14% Similarity=0.053 Sum_probs=71.1
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh-------------
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL------------- 212 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~------------- 212 (443)
..=|.+|...|++++|.+.+.. .++ +|.....+.+.+...-..-|+..+++....
T Consensus 112 l~aa~i~~~~~~~deAl~~~~~--~~~----------lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~aw 179 (299)
T KOG3081|consen 112 LLAAIIYMHDGDFDEALKALHL--GEN----------LEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAW 179 (299)
T ss_pred HHhhHHhhcCCChHHHHHHHhc--cch----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence 3457889999999999999876 222 333333334444433333333333332111
Q ss_pred ---------------hcc------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHH
Q 013430 213 ---------------VSS------SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQAL 271 (443)
Q Consensus 213 ---------------~~~------~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~L 271 (443)
+++ .+.|.+.+ -++..++..++|.+|-....+++... . .+++ +|
T Consensus 180 v~la~ggek~qdAfyifeE~s~k~~~T~~lln----G~Av~~l~~~~~eeAe~lL~eaL~kd------~--~dpe---tL 244 (299)
T KOG3081|consen 180 VKLATGGEKIQDAFYIFEELSEKTPPTPLLLN----GQAVCHLQLGRYEEAESLLEEALDKD------A--KDPE---TL 244 (299)
T ss_pred HHHhccchhhhhHHHHHHHHhcccCCChHHHc----cHHHHHHHhcCHHHHHHHHHHHHhcc------C--CCHH---HH
Confidence 000 01233222 24566788888888888888887631 1 1222 67
Q ss_pred HHHHHHHHhcCCC-CChHHHHHhhhc
Q 013430 272 SAAVTCTILAAAG-PQRSRVLATLYK 296 (443)
Q Consensus 272 k~av~~~ILa~~~-~~rs~ll~~l~k 296 (443)
..+++|+.+.+.+ +-..|.+..+..
T Consensus 245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~ 270 (299)
T KOG3081|consen 245 ANLIVLALHLGKDAEVTERNLSQLKL 270 (299)
T ss_pred HHHHHHHHHhCCChHHHHHHHHHHHh
Confidence 7888888876554 346667776654
No 72
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=85.33 E-value=6.9 Score=40.25 Aligned_cols=93 Identities=12% Similarity=-0.083 Sum_probs=72.6
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 226 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~ 226 (443)
..|.-....|+|.+|...+....... + .-.+.+...+..|+..+++..|...+.++...-.. ++.. +
T Consensus 7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~------P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~--~~~a----~ 73 (356)
T PLN03088 7 DKAKEAFVDDDFALAVDLYTQAIDLD------P-NNAELYADRAQANIKLGNFTEAVADANKAIELDPS--LAKA----Y 73 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhC------C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC--CHHH----H
Confidence 45788889999999999998864321 1 12467888999999999999999999998776432 3322 3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 227 VCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 227 ~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...|.++...++|.+|...|..+...
T Consensus 74 ~~lg~~~~~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 74 LRKGTACMKLEEYQTAKAALEKGASL 99 (356)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 34588889999999999999999875
No 73
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=84.94 E-value=3.9 Score=30.41 Aligned_cols=59 Identities=20% Similarity=0.119 Sum_probs=46.5
Q ss_pred HHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 188 QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 188 ~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...+.++..||+..|...++++...... +++. +...|.++...++|.+|...|.++...
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~--~~~a----~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDPD--NPEA----WYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCSTT--HHHH----HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCCC--CHHH----HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4678899999999999999998776533 3333 334689999999999999888888764
No 74
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=84.77 E-value=14 Score=34.81 Aligned_cols=105 Identities=10% Similarity=-0.036 Sum_probs=68.7
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhc--------CCHHHHHHHHHHhhhhhcc
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLED--------DDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~--------~D~~~A~~~l~Ka~~~~~~ 215 (443)
....+|..|.+.|++++|...+..+..... +.....+.+......+... +++..|...++++......
T Consensus 72 a~~~la~~~~~~~~~~~A~~~~~~~l~~~p----~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~ 147 (235)
T TIGR03302 72 AQLDLAYAYYKSGDYAEAIAAADRFIRLHP----NHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN 147 (235)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHCc----CCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC
Confidence 357889999999999999999999753321 1111122344444444443 7888999999887665443
Q ss_pred cc-HHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 216 SQ-QEVLNL----------QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 216 ~~-d~~lk~----------~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.. .++... ......|.++...++|.+|-..|.++...
T Consensus 148 ~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~ 195 (235)
T TIGR03302 148 SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVEN 195 (235)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence 21 121111 11234677788889999999999988875
No 75
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=83.88 E-value=38 Score=31.73 Aligned_cols=95 Identities=12% Similarity=0.107 Sum_probs=73.2
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHH-hhhcCC--HHHHHHHHHHhhhhhccccHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARL-YLEDDD--AVNAEAFINKASFLVSSSQQEVL 221 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL-~L~~~D--~~~A~~~l~Ka~~~~~~~~d~~l 221 (443)
-..||.+|...|++++|...+..... ++ ....+++...+.. +...|+ +..|...++++...-.+ +++
T Consensus 76 w~~Lg~~~~~~g~~~~A~~a~~~Al~------l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~--~~~- 145 (198)
T PRK10370 76 WALLGEYYLWRNDYDNALLAYRQALQ------LR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN--EVT- 145 (198)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH------hC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC--Chh-
Confidence 56799999999999999999987532 11 2356777777774 566676 59999999998877654 333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 222 NLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 222 k~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.....|..+...++|.+|-.+|..+...
T Consensus 146 ---al~~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 146 ---ALMLLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 2234688889999999999999999875
No 76
>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=83.28 E-value=21 Score=35.80 Aligned_cols=143 Identities=13% Similarity=0.038 Sum_probs=89.5
Q ss_pred HHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhh-HHHHHHHHHHHhhhcCCHHHHH
Q 013430 125 YTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF-RLSKCVQIARLYLEDDDAVNAE 203 (443)
Q Consensus 125 ~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~-Kle~~L~i~RL~L~~~D~~~A~ 203 (443)
.+|+.+... -++|- .--...+|...+..+.|.+.+..++ .++++. ..-+..--+.++...+.+..|-
T Consensus 120 ~AL~~l~~~-~~lE~-----~al~Vqi~L~~~R~dlA~k~l~~~~------~~~eD~~l~qLa~awv~l~~g~e~~~~A~ 187 (290)
T PF04733_consen 120 EALKLLHKG-GSLEL-----LALAVQILLKMNRPDLAEKELKNMQ------QIDEDSILTQLAEAWVNLATGGEKYQDAF 187 (290)
T ss_dssp HHHCCCTTT-TCHHH-----HHHHHHHHHHTT-HHHHHHHHHHHH------CCSCCHHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred HHHHHHHcc-CcccH-----HHHHHHHHHHcCCHHHHHHHHHHHH------hcCCcHHHHHHHHHHHHHHhCchhHHHHH
Confidence 345555444 34443 2346678899999999999998864 233333 3333333344444455788888
Q ss_pred HHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCC
Q 013430 204 AFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAA 283 (443)
Q Consensus 204 ~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~ 283 (443)
-++........ +.|.+ ...++..++..++|.+|-....+++... -..++ +|-+.++|..+.+.
T Consensus 188 y~f~El~~~~~--~t~~~----lng~A~~~l~~~~~~eAe~~L~~al~~~--------~~~~d---~LaNliv~~~~~gk 250 (290)
T PF04733_consen 188 YIFEELSDKFG--STPKL----LNGLAVCHLQLGHYEEAEELLEEALEKD--------PNDPD---TLANLIVCSLHLGK 250 (290)
T ss_dssp HHHHHHHCCS----SHHH----HHHHHHHHHHCT-HHHHHHHHHHHCCC---------CCHHH---HHHHHHHHHHHTT-
T ss_pred HHHHHHHhccC--CCHHH----HHHHHHHHHHhCCHHHHHHHHHHHHHhc--------cCCHH---HHHHHHHHHHHhCC
Confidence 88887766543 24443 3467888999999999999988887631 12333 67778888777665
Q ss_pred C-CChHHHHHhhhc
Q 013430 284 G-PQRSRVLATLYK 296 (443)
Q Consensus 284 ~-~~rs~ll~~l~k 296 (443)
. ..-.+.+..+..
T Consensus 251 ~~~~~~~~l~qL~~ 264 (290)
T PF04733_consen 251 PTEAAERYLSQLKQ 264 (290)
T ss_dssp TCHHHHHHHHHCHH
T ss_pred ChhHHHHHHHHHHH
Confidence 4 345567777654
No 77
>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=82.61 E-value=6 Score=32.30 Aligned_cols=67 Identities=12% Similarity=0.072 Sum_probs=53.4
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhc
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 214 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~ 214 (443)
....+|.++.+.|++++|.+.+..+.... . +.....+.+....+++...+++..|..+++++.....
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 107 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKY--P--KSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYP 107 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHC--C--CCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence 46779999999999999999999876432 1 1123456788888999999999999999998877654
No 78
>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=82.16 E-value=4.8 Score=29.82 Aligned_cols=52 Identities=19% Similarity=0.228 Sum_probs=40.3
Q ss_pred HHHHHHHhhcccc--cCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 351 EHNLLSASKLYTN--ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 351 EhNL~~isk~Ys~--Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
+..++.+...+.. ++..+||+.+++++.-+-..+.+|+..|-+.-.-|..++
T Consensus 7 q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D~ 60 (62)
T PF12802_consen 7 QFRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGDR 60 (62)
T ss_dssp HHHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSST
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCCC
Confidence 4444454444555 999999999999999999999999999999877776554
No 79
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=81.39 E-value=22 Score=40.36 Aligned_cols=98 Identities=12% Similarity=-0.008 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 221 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~l 221 (443)
......+|.++...|++++|.+.+.++... .+.. .++++..+.++...+++.+|...++++...... +..
T Consensus 359 ~~a~~~~a~~l~~~g~~~eA~~~l~~al~~------~P~n-~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd--~~~- 428 (765)
T PRK10049 359 LQGQSLLSQVAKYSNDLPQAEMRARELAYN------APGN-QGLRIDYASVLQARGWPRAAENELKKAEVLEPR--NIN- 428 (765)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC--ChH-
Confidence 345678999999999999999999997432 1222 578999999999999999999999998877543 333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 222 NLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 222 k~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
++...|..+...++|.+|-..+.++...
T Consensus 429 ---l~~~~a~~al~~~~~~~A~~~~~~ll~~ 456 (765)
T PRK10049 429 ---LEVEQAWTALDLQEWRQMDVLTDDVVAR 456 (765)
T ss_pred ---HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 3345677888899999999999999885
No 80
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=81.22 E-value=10 Score=45.12 Aligned_cols=97 Identities=11% Similarity=0.007 Sum_probs=74.2
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.+...||.+|++.|++++|...+..+.... + .-.+.++..++++...+++..|...++++..... .++..
T Consensus 604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~------P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p--~~~~~- 673 (1157)
T PRK11447 604 RIDLTLADWAQQRGDYAAARAAYQRVLTRE------P-GNADARLGLIEVDIAQGDLAAARAQLAKLPATAN--DSLNT- 673 (1157)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------C-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC--CChHH-
Confidence 456789999999999999999999875321 1 2356788889999999999999999997655422 23332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
....|.++...+++.+|...|..+...
T Consensus 674 ---~~~la~~~~~~g~~~eA~~~~~~al~~ 700 (1157)
T PRK11447 674 ---QRRVALAWAALGDTAAAQRTFNRLIPQ 700 (1157)
T ss_pred ---HHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence 234678888899999999999888653
No 81
>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=81.10 E-value=8.9 Score=39.96 Aligned_cols=98 Identities=16% Similarity=0.116 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHH
Q 013430 141 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 220 (443)
Q Consensus 141 ~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~ 220 (443)
..++...+|..+...|++++|.+.+.+..... ++.....+.+...-..+..+|...+...+.++...... +++
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-----pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~--~~~ 334 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-----GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD--KPK 334 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-----CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC--Chh
Confidence 34677889999999999999999999865432 22222111122222234457888888888776655433 553
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 221 LNLQYKVCYARILDLKRKFLEAALRYY 247 (443)
Q Consensus 221 lk~~y~~~~ari~~~~r~f~eAa~~y~ 247 (443)
..+..++|+++...++|.+|-.+|.
T Consensus 335 --~~ll~sLg~l~~~~~~~~~A~~~le 359 (409)
T TIGR00540 335 --CCINRALGQLLMKHGEFIEAADAFK 359 (409)
T ss_pred --HHHHHHHHHHHHHcccHHHHHHHHH
Confidence 4456788999999999999988665
No 82
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=80.83 E-value=19 Score=31.30 Aligned_cols=101 Identities=17% Similarity=-0.016 Sum_probs=79.8
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
+-..+|..+-..|+.++|...+..-. + ..++.....+.++....-+-..|++..|...+.+...... +.++..
T Consensus 3 ~~~~~A~a~d~~G~~~~Ai~~Y~~Al-~---~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p---~~~~~~ 75 (120)
T PF12688_consen 3 ALYELAWAHDSLGREEEAIPLYRRAL-A---AGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFP---DDELNA 75 (120)
T ss_pred hHHHHHHHHHhcCCHHHHHHHHHHHH-H---cCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC---CccccH
Confidence 45678999999999999999999863 3 2256667788999999999999999999999998765432 333444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
..+...+..+...+++.+|-..+..+.-
T Consensus 76 ~l~~f~Al~L~~~gr~~eAl~~~l~~la 103 (120)
T PF12688_consen 76 ALRVFLALALYNLGRPKEALEWLLEALA 103 (120)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 4455567788888999999999988775
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=80.74 E-value=12 Score=41.10 Aligned_cols=61 Identities=15% Similarity=-0.066 Sum_probs=34.9
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
...+|.++...|++++|...+.... +. ++ .-.+++.....+|+..||+..|...+.++...
T Consensus 368 ~~~la~~~~~~g~~~eA~~~~~~al-~~-----~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 368 YIKRASMNLELGDPDKAEEDFDKAL-KL-----NS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHH-Hh-----CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 4456666667777777776666542 11 11 11345556666666666666666666665443
No 84
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=80.59 E-value=3.6 Score=33.17 Aligned_cols=41 Identities=5% Similarity=0.001 Sum_probs=36.1
Q ss_pred HHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEE
Q 013430 356 SASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 396 (443)
Q Consensus 356 ~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ak 396 (443)
.+.+.+.+++...||..|+.|++-+|.+|.+++.-|++.-.
T Consensus 9 d~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 9 DLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEee
Confidence 33446789999999999999999999999999999999643
No 85
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=80.58 E-value=6.8 Score=36.41 Aligned_cols=100 Identities=16% Similarity=0.110 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHhcCCCCChHHHHHhhhcCcccccccchH---HHHHHHHHHhcchhhHHHHHHHhhHHHH-hhcCCchhH
Q 013430 269 QALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIYP---ILQKVYLERILRKPEIDAFAEELKPHQK-ALLPDNFTV 344 (443)
Q Consensus 269 ~~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~~---~L~k~f~~~ii~~~el~~F~~~L~~hq~-~l~~D~~~~ 344 (443)
....+.+++.++....++-...+..+ .++...-|..+ .+.+++. .++...|.+.+..... .+...-...
T Consensus 100 ef~~y~lL~~l~~~~~~~~~~~l~~l--~~~~~~~~~i~~al~l~~a~~-----~gny~~ff~l~~~~~~~~l~~~l~~~ 172 (204)
T PF03399_consen 100 EFIAYYLLYLLCQNNIPDFHMELELL--PSEILSSPYIQFALELCRALM-----EGNYVRFFRLYRSKSAPYLFACLMER 172 (204)
T ss_dssp HHHHHHHHHTT-T---THHHHHHTTS---HHHHTSHHHHHHHHHHHHH-------TTHHHHHHHHT-TTS-HHHHHHHGG
T ss_pred HHHHHHHHHHHHcccchHHHHHHHHC--chhhhcCHHHHHHHHHHHHHH-----cCCHHHHHHHHhccCCChHHHHHHHH
Confidence 35556666665544333333333332 11122223333 3334443 4777777776621000 000000223
Q ss_pred HHHHHHHHHHHHHhhcccc-cCHHHHHHHhCC
Q 013430 345 LDRAMIEHNLLSASKLYTN-ISFEELGTLLGI 375 (443)
Q Consensus 345 L~~~viEhNL~~isk~Ys~-Itl~~La~lLgL 375 (443)
+-..++.+-+..+++.|.+ |+++.+++.||.
T Consensus 173 ~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 173 FFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp GHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 6678999999999999999 999999999974
No 86
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=79.87 E-value=16 Score=41.59 Aligned_cols=102 Identities=13% Similarity=0.047 Sum_probs=78.7
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhcc--------CCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSG--------MRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS 216 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~--------~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~ 216 (443)
...|+..+.+.|++++|...+..+..... ....+.....+.+...+.++...+|+..|...+.++......
T Consensus 313 ~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~- 391 (765)
T PRK10049 313 LADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG- 391 (765)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-
Confidence 45677788999999999999988754321 012234467888899999999999999999999998766443
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 217 QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 217 ~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
++++ ....|.++...+++.+|-..|.++...
T Consensus 392 -n~~l----~~~lA~l~~~~g~~~~A~~~l~~al~l 422 (765)
T PRK10049 392 -NQGL----RIDYASVLQARGWPRAAENELKKAEVL 422 (765)
T ss_pred -CHHH----HHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence 4443 345688899999999999999998875
No 87
>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=79.83 E-value=50 Score=35.99 Aligned_cols=122 Identities=20% Similarity=0.153 Sum_probs=77.6
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhh--hccCCcC---------ChhhHHH
Q 013430 116 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDL--DSGMRVI---------DDTFRLS 184 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~--Et~~~~~---------~~~~Kle 184 (443)
++....+-.++...++-|..|+..- |-.+|....+..-..+++.+..- ++ .+.. ++...+=
T Consensus 124 ~~F~~~~~~yl~~~l~KgvPslF~~-------lk~Ly~d~~K~~~i~~l~~~~~~~l~~-~~~~~~~~~~~~~~p~~~lw 195 (517)
T PF12569_consen 124 DEFKERLDEYLRPQLRKGVPSLFSN-------LKPLYKDPEKAAIIESLVEEYVNSLES-NGSFSNGDDEEKEPPSTLLW 195 (517)
T ss_pred HHHHHHHHHHHHHHHhcCCchHHHH-------HHHHHcChhHHHHHHHHHHHHHHhhcc-cCCCCCccccccCCchHHHH
Confidence 3344455555555667777776653 33445443333322333333211 11 1111 1223455
Q ss_pred HHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 185 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 185 ~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
++.-.++.|-..|++.+|-.++++|-..... - ..+|...|+++-|.|++.+|+..+-++-.
T Consensus 196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt--~----~ely~~KarilKh~G~~~~Aa~~~~~Ar~ 256 (517)
T PF12569_consen 196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPT--L----VELYMTKARILKHAGDLKEAAEAMDEARE 256 (517)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC--c----HHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 6678899999999999999999988766433 2 45678899999999999999999888875
No 88
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=79.78 E-value=6.9 Score=29.61 Aligned_cols=61 Identities=18% Similarity=0.102 Sum_probs=45.9
Q ss_pred HHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 148 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 148 LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
|+.+|...++|++|.+++..+..- ++ .-...+....+++...|++..|...++++...-..
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~------~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~ 61 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALEL------DP-DDPELWLQRARCLFQLGRYEEALEDLERALELSPD 61 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHh------Cc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence 467888899999999988886432 11 24556777888889999999999999887755543
No 89
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=79.55 E-value=16 Score=37.47 Aligned_cols=95 Identities=14% Similarity=0.137 Sum_probs=75.6
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
..++++.|..-|-+.+|.+.|+.- +....-.|.++...+.|-..+...+|-..+......+.. ...
T Consensus 226 k~Q~gkCylrLgm~r~Aekqlqss--------L~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~------~VT 291 (478)
T KOG1129|consen 226 KQQMGKCYLRLGMPRRAEKQLQSS--------LTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF------DVT 291 (478)
T ss_pred HHHHHHHHHHhcChhhhHHHHHHH--------hhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc------hhh
Confidence 346899999999999999999873 233455788999999999999999888777655544432 245
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
|..-++|+|..-+++.+|.++|.++....
T Consensus 292 ~l~g~ARi~eam~~~~~a~~lYk~vlk~~ 320 (478)
T KOG1129|consen 292 YLLGQARIHEAMEQQEDALQLYKLVLKLH 320 (478)
T ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhcC
Confidence 56678999999999999999999998753
No 90
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=79.49 E-value=9.4 Score=45.44 Aligned_cols=91 Identities=9% Similarity=-0.020 Sum_probs=69.9
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|..+.+.|++++|.+++..-+ + -.+.++....++.+.+|+..|...+.++...-.. +++..
T Consensus 576 ~l~~a~~l~~~G~~~eA~~~l~~~p-~----------~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~--~~~a~-- 640 (1157)
T PRK11447 576 VLETANRLRDSGKEAEAEALLRQQP-P----------STRIDLTLADWAQQRGDYAAARAAYQRVLTREPG--NADAR-- 640 (1157)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHhCC-C----------CchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHH--
Confidence 3467899999999999999987321 1 1135677889999999999999999998876433 44432
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...++++...+++.+|-..|..+...
T Consensus 641 --~~la~~~~~~g~~~eA~~~l~~ll~~ 666 (1157)
T PRK11447 641 --LGLIEVDIAQGDLAAARAQLAKLPAT 666 (1157)
T ss_pred --HHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence 34578888899999999999887754
No 91
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=79.33 E-value=25 Score=37.55 Aligned_cols=150 Identities=21% Similarity=0.182 Sum_probs=99.3
Q ss_pred hhHhhhhhhcCCcceeecHHHHHHHHHHhCCCCh-HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHH
Q 013430 83 FKFFFCAVLSDDVPLVVSRQLLQTFAQELGRLEP-ETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKA 161 (443)
Q Consensus 83 ~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~~-~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eA 161 (443)
|..-++..+.=|..|.-+-++|-++.+....+.+ .+-++++-.+...+-+.. .+--+||++|-++||...|
T Consensus 540 ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~slip~dp--------~ilskl~dlydqegdksqa 611 (840)
T KOG2003|consen 540 LDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDP--------AILSKLADLYDQEGDKSQA 611 (840)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCH--------HHHHHHHHHhhcccchhhh
Confidence 4445555555566666666677666665555543 333454444333332211 3456899999999999999
Q ss_pred HHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 162 AQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLE 241 (443)
Q Consensus 162 a~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~e 241 (443)
.+..-+ + ++-.+- -+|++--..-.|++..=|.++-.|+.|++........|++.+ +-.+-..++|..
T Consensus 612 fq~~yd----s-yryfp~--nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmi------asc~rrsgnyqk 678 (840)
T KOG2003|consen 612 FQCHYD----S-YRYFPC--NIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMI------ASCFRRSGNYQK 678 (840)
T ss_pred hhhhhh----c-ccccCc--chHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHH------HHHHHhcccHHH
Confidence 877544 3 443332 344444456788888999999999999998887655565543 344566899999
Q ss_pred HHHHHHHHHhhh
Q 013430 242 AALRYYDISQIQ 253 (443)
Q Consensus 242 Aa~~y~e~~~t~ 253 (443)
|...|.++-..|
T Consensus 679 a~d~yk~~hrkf 690 (840)
T KOG2003|consen 679 AFDLYKDIHRKF 690 (840)
T ss_pred HHHHHHHHHHhC
Confidence 999999988764
No 92
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=78.92 E-value=17 Score=35.85 Aligned_cols=94 Identities=13% Similarity=0.104 Sum_probs=69.2
Q ss_pred HHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-cHHHHHHHHHHHH
Q 013430 151 LYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQYKVCY 229 (443)
Q Consensus 151 iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~d~~lk~~y~~~~ 229 (443)
++.+.|+|++|...+..+...- -+..+.-..+.....+|+..+|+..|...+.++....... ..++. .|+ .
T Consensus 152 l~~~~~~y~~Ai~af~~fl~~y----P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA--l~k--l 223 (263)
T PRK10803 152 LVQDKSRQDDAIVAFQNFVKKY----PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA--MFK--V 223 (263)
T ss_pred HHHhcCCHHHHHHHHHHHHHHC----cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH--HHH--H
Confidence 3456699999999999875331 1222445677788999999999999999999987666542 22332 222 4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 013430 230 ARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 230 ari~~~~r~f~eAa~~y~e~~~t 252 (443)
|.++...+++.+|...|.++...
T Consensus 224 g~~~~~~g~~~~A~~~~~~vi~~ 246 (263)
T PRK10803 224 GVIMQDKGDTAKAKAVYQQVIKK 246 (263)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHH
Confidence 77788899999999999999875
No 93
>PRK14574 hmsH outer membrane protein; Provisional
Probab=78.56 E-value=37 Score=39.18 Aligned_cols=94 Identities=10% Similarity=0.022 Sum_probs=68.0
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|.+|...|+|++|.+++..+... +++. .+++...+.+|...++..+|...++++...... +.
T Consensus 105 llalA~ly~~~gdyd~Aiely~kaL~~------dP~n-~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~-------~~ 170 (822)
T PRK14574 105 LASAARAYRNEKRWDQALALWQSSLKK------DPTN-PDLISGMIMTQADAGRGGVVLKQATELAERDPT-------VQ 170 (822)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhh------CCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcc-------hH
Confidence 445688999999999999999997532 1222 455567799999999999999999988776433 22
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
++...+.++...+++.+|...|.+++..
T Consensus 171 ~~l~layL~~~~~~~~~AL~~~ekll~~ 198 (822)
T PRK14574 171 NYMTLSYLNRATDRNYDALQASSEAVRL 198 (822)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence 2233344444466676688888888875
No 94
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=78.41 E-value=12 Score=33.52 Aligned_cols=90 Identities=10% Similarity=-0.057 Sum_probs=67.1
Q ss_pred ccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHH
Q 013430 155 EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILD 234 (443)
Q Consensus 155 ~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~ 234 (443)
++++..+...|..+- +..+...+...+......+...+++..|...++++.....+ +.. ....+...|.++.
T Consensus 12 ~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~--~~~-~~~~~~~lg~~~~ 83 (168)
T CHL00033 12 DKTFTIVADILLRIL-----PTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEID--PYD-RSYILYNIGLIHT 83 (168)
T ss_pred ccccccchhhhhHhc-----cCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcccc--chh-hHHHHHHHHHHHH
Confidence 345677777776652 23455568999999999999999999999999998766432 111 1223455789999
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 013430 235 LKRKFLEAALRYYDISQI 252 (443)
Q Consensus 235 ~~r~f~eAa~~y~e~~~t 252 (443)
..+++.+|-..|..+...
T Consensus 84 ~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 84 SNGEHTKALEYYFQALER 101 (168)
T ss_pred HcCCHHHHHHHHHHHHHh
Confidence 999999999999888864
No 95
>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=78.20 E-value=7.5 Score=27.55 Aligned_cols=34 Identities=18% Similarity=0.265 Sum_probs=28.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
=..+|..+||+.+|+|..-+-..+.+|+..|-|.
T Consensus 15 ~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 15 NPRITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp CTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred cCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 4559999999999999999999999999999763
No 96
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=78.05 E-value=52 Score=35.27 Aligned_cols=89 Identities=13% Similarity=0.198 Sum_probs=53.9
Q ss_pred HHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHH
Q 013430 152 YESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYAR 231 (443)
Q Consensus 152 ye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ar 231 (443)
|-+..+|.=+.+-+..|+-+-....+-...=+++|=.-+|+.||.||....-..-++...+...+.+-. .+.|-.|-..
T Consensus 317 ~k~~~~Y~y~CdQ~KSiRQDLTVQ~IrneFTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg~-~~EF~AYriL 395 (540)
T KOG1861|consen 317 WKAKANYAYLCDQFKSIRQDLTVQRIRNEFTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPGA-YLEFTAYRIL 395 (540)
T ss_pred HHhhccHHHHHHHHHHHhhhhhhheeccceeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCCc-hhhHHHHHHH
Confidence 334467877888777777654222344455688999999999999998766666555555553321111 4444444444
Q ss_pred HHHHHHHHHH
Q 013430 232 ILDLKRKFLE 241 (443)
Q Consensus 232 i~~~~r~f~e 241 (443)
|+....|+.+
T Consensus 396 Y~i~tkN~~d 405 (540)
T KOG1861|consen 396 YYIFTKNYPD 405 (540)
T ss_pred HHHHhcCchH
Confidence 5554444443
No 97
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=78.03 E-value=22 Score=41.05 Aligned_cols=100 Identities=9% Similarity=0.098 Sum_probs=74.0
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
+-..||..|...|||..+..+....-.-| ..+..+.+-+....|.|...||+.+|..|+-.+...-... -+-.
T Consensus 272 ~l~~LAn~fyfK~dy~~v~~la~~ai~~t----~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~---~~l~ 344 (1018)
T KOG2002|consen 272 ALNHLANHFYFKKDYERVWHLAEHAIKNT----ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN---FVLP 344 (1018)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC---cccc
Confidence 34578999999999999988876653322 2344678889999999999999999999997665543321 0111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+.-.|.++++++++.+|..+|..++..
T Consensus 345 --~~GlgQm~i~~~dle~s~~~fEkv~k~ 371 (1018)
T KOG2002|consen 345 --LVGLGQMYIKRGDLEESKFCFEKVLKQ 371 (1018)
T ss_pred --ccchhHHHHHhchHHHHHHHHHHHHHh
Confidence 123578899999999999999888875
No 98
>PLN03218 maturation of RBCL 1; Provisional
Probab=77.91 E-value=1.6e+02 Score=35.12 Aligned_cols=95 Identities=9% Similarity=0.015 Sum_probs=53.4
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 225 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y 225 (443)
..+...|.+.|++++|.+++.++... + +.+. ...|...+..|...+++..|..++++....-.. ++. ..
T Consensus 618 nsLI~ay~k~G~~deAl~lf~eM~~~---G-v~PD--~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~-pd~----~t 686 (1060)
T PLN03218 618 TIAVNSCSQKGDWDFALSIYDDMKKK---G-VKPD--EVFFSALVDVAGHAGDLDKAFEILQDARKQGIK-LGT----VS 686 (1060)
T ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHc---C-CCCC--HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CCH----HH
Confidence 44666677777777777777776532 1 1111 235566666677777777777776664432111 111 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 226 KVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 226 ~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+...+..|...+++.+|...|.+...
T Consensus 687 ynsLI~ay~k~G~~eeA~~lf~eM~~ 712 (1060)
T PLN03218 687 YSSLMGACSNAKNWKKALELYEDIKS 712 (1060)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 34445556666666666666666543
No 99
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=76.62 E-value=7.9 Score=30.03 Aligned_cols=32 Identities=9% Similarity=0.172 Sum_probs=30.4
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
++..+||+.+|++...+.+.|.+|..+|.+..
T Consensus 23 ~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 23 STALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 99999999999999999999999999998754
No 100
>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=76.22 E-value=20 Score=39.62 Aligned_cols=63 Identities=19% Similarity=0.132 Sum_probs=49.0
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
....+|..+...|++++|...+.+... .++....+.+......+...+++..|...++++...
T Consensus 92 ~~~~~a~~~~~~g~~~~a~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~ 154 (899)
T TIGR02917 92 VLPLLARAYLLQGKFQQVLDELPGKTL------LDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAI 154 (899)
T ss_pred hHHHHHHHHHHCCCHHHHHHhhccccc------CCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 356678888888899888887765421 234456788889999999999999999999987543
No 101
>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=76.04 E-value=26 Score=37.51 Aligned_cols=89 Identities=13% Similarity=0.005 Sum_probs=65.0
Q ss_pred hccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHH
Q 013430 154 SEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL 233 (443)
Q Consensus 154 ~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~ 233 (443)
..++...|-++|...+.. .+.+ .=+.+...|++...+|...|-..++++...... -++++.-.+--.+-.+
T Consensus 245 ~~~~~~~a~~lL~~~~~~-----yP~s--~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~--~~Ql~~l~~~El~w~~ 315 (468)
T PF10300_consen 245 EDVPLEEAEELLEEMLKR-----YPNS--ALFLFFEGRLERLKGNLEEAIESFERAIESQSE--WKQLHHLCYFELAWCH 315 (468)
T ss_pred cCCCHHHHHHHHHHHHHh-----CCCc--HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhh--HHhHHHHHHHHHHHHH
Confidence 356788888888886532 2222 235778899999999999999999987743322 3344433333457779
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 013430 234 DLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 234 ~~~r~f~eAa~~y~e~~~ 251 (443)
+...+|.+|+.+|..+..
T Consensus 316 ~~~~~w~~A~~~f~~L~~ 333 (468)
T PF10300_consen 316 MFQHDWEEAAEYFLRLLK 333 (468)
T ss_pred HHHchHHHHHHHHHHHHh
Confidence 999999999999999987
No 102
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=76.00 E-value=30 Score=40.70 Aligned_cols=93 Identities=12% Similarity=-0.012 Sum_probs=72.0
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
-....|..+...||+++|...+.... + .+++. .++++..+++|+..|++.+|..++.|+...-.. |.....
T Consensus 46 ~~f~~a~~~~~~Gd~~~A~~~l~~Al-~-----~dP~n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~--n~~~~~ 116 (987)
T PRK09782 46 PRLDKALKAQKNNDEATAIREFEYIH-Q-----QVPDN-IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG--DARLER 116 (987)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHH-H-----hCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc--cHHHHH
Confidence 34566778888899999999999863 2 35555 888899999999999999999999998777432 333322
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
..+.+ ++|.+|...|.++...+
T Consensus 117 ----~La~i----~~~~kA~~~ye~l~~~~ 138 (987)
T PRK09782 117 ----SLAAI----PVEVKSVTTVEELLAQQ 138 (987)
T ss_pred ----HHHHh----ccChhHHHHHHHHHHhC
Confidence 22444 99999999999999863
No 103
>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=75.51 E-value=4.3 Score=29.06 Aligned_cols=26 Identities=19% Similarity=0.170 Sum_probs=23.6
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhh
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDL 170 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~ 170 (443)
+..||..|.+.||.+.|.++|.++..
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~ 27 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIE 27 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHH
Confidence 46899999999999999999999873
No 104
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.49 E-value=40 Score=35.10 Aligned_cols=104 Identities=15% Similarity=0.118 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc------
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS------ 215 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~------ 215 (443)
..+...+|..+..-|||++|+..+..+.-+ -+...++.++|--...| .|-|..|+.+..|+.....+
T Consensus 57 ~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-----~~~~~el~vnLAcc~Fy--Lg~Y~eA~~~~~ka~k~pL~~RLlfh 129 (557)
T KOG3785|consen 57 DSLQLWIAHCYFHLGDYEEALNVYTFLMNK-----DDAPAELGVNLACCKFY--LGQYIEAKSIAEKAPKTPLCIRLLFH 129 (557)
T ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHhcc-----CCCCcccchhHHHHHHH--HHHHHHHHHHHhhCCCChHHHHHHHH
Confidence 467889999999999999999999887532 24445666666655555 47799999998876443221
Q ss_pred ----ccHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 216 ----SQQEVLNLQYK----------VCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 216 ----~~d~~lk~~y~----------~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-+|++.-+.|. ...|.+|-.+--|.+|-.-|-.++..
T Consensus 130 lahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d 180 (557)
T KOG3785|consen 130 LAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQD 180 (557)
T ss_pred HHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 13443333332 33456666677777777777666653
No 105
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.08 E-value=1.3e+02 Score=32.67 Aligned_cols=145 Identities=12% Similarity=0.006 Sum_probs=100.2
Q ss_pred HHHhh--ccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHH
Q 013430 126 TLAQI--QPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAE 203 (443)
Q Consensus 126 ~L~~i--~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~ 203 (443)
..+|+ .|+..-+-...+.+...++-+-..-|-+++|..-..+--.+|. +.+-++-.-+-.+=.||..+|-....
T Consensus 349 m~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a~k~t~----~~dl~a~~nlnlAi~YL~~~~~ed~y 424 (629)
T KOG2300|consen 349 MKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEATKLTE----SIDLQAFCNLNLAISYLRIGDAEDLY 424 (629)
T ss_pred HHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHHHHhhh----HHHHHHHHHHhHHHHHHHhccHHHHH
Confidence 45666 4554455556667778888888889999999987776544441 11225555566677888888888888
Q ss_pred HHHHHhhhhh-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhc
Q 013430 204 AFINKASFLV-SSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILA 281 (443)
Q Consensus 204 ~~l~Ka~~~~-~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa 281 (443)
..+..+.+.- .......+++-++..+|.....+++|.||-+...|.+.. +. ..+-.|+.++...++.-+.-
T Consensus 425 ~~ld~i~p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkm------an-aed~~rL~a~~LvLLs~v~l 496 (629)
T KOG2300|consen 425 KALDLIGPLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKM------AN-AEDLNRLTACSLVLLSHVFL 496 (629)
T ss_pred HHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhh------cc-hhhHHHHHHHHHHHHHHHHH
Confidence 8888776652 333466788888888899999999999999999999974 21 22345566665555555443
No 106
>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=74.94 E-value=19 Score=26.42 Aligned_cols=62 Identities=19% Similarity=0.121 Sum_probs=47.8
Q ss_pred HHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 185 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 185 ~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.+..++..+...+++..|...+.++...... ++ ......|.++...++|.+|-..|..+...
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~~~~~~a~~~~~~~~~~ 63 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPD--NA----DAYYNLAAAYYKLGKYEEALEDYEKALEL 63 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCc--cH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4667788899999999999999987665433 33 23445788888899999999988887763
No 107
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=74.44 E-value=42 Score=26.68 Aligned_cols=41 Identities=20% Similarity=0.324 Sum_probs=36.3
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
..++.++|++.++++...+-..+.+|...|-+...-|+.++
T Consensus 23 ~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~ 63 (101)
T smart00347 23 GPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDR 63 (101)
T ss_pred CCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCC
Confidence 36899999999999999999999999999999877775443
No 108
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=74.34 E-value=68 Score=35.85 Aligned_cols=93 Identities=11% Similarity=0.023 Sum_probs=70.7
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
..-+.+.|.+.|++++|.+++.+++... -..+|-..+..|-..+++..|+...++....-.. + ..
T Consensus 465 y~~li~~l~r~G~~~eA~~~~~~~~~~p---------~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~--~----~~ 529 (697)
T PLN03081 465 YACMIELLGREGLLDEAYAMIRRAPFKP---------TVNMWAALLTACRIHKNLELGRLAAEKLYGMGPE--K----LN 529 (697)
T ss_pred hHhHHHHHHhcCCHHHHHHHHHHCCCCC---------CHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC--C----Cc
Confidence 3457889999999999999988764321 1346888889999999999999988876433211 1 22
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.|.+.+.+|...++|.+|.+.+.+.-..
T Consensus 530 ~y~~L~~~y~~~G~~~~A~~v~~~m~~~ 557 (697)
T PLN03081 530 NYVVLLNLYNSSGRQAEAAKVVETLKRK 557 (697)
T ss_pred chHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 4577888999999999999999887763
No 109
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=73.91 E-value=41 Score=34.97 Aligned_cols=103 Identities=14% Similarity=-0.035 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccC-------CcC--ChhhH---------------HHHHHHHHHHhhhcC
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGM-------RVI--DDTFR---------------LSKCVQIARLYLEDD 197 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~-------~~~--~~~~K---------------le~~L~i~RL~L~~~ 197 (443)
..+...+|..+...|+.++|.+.+.+....... ..+ ++..+ .+..+...|+|+..+
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 346677899999999999999999876432200 000 11111 345556666667777
Q ss_pred CHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 198 DAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 198 D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+|.+|+.++.++...-.+ +.. +..+++++...++-.+|..+|.+...
T Consensus 343 ~~~~A~~~le~al~~~P~--~~~-----~~~La~~~~~~g~~~~A~~~~~~~l~ 389 (398)
T PRK10747 343 EWQEASLAFRAALKQRPD--AYD-----YAWLADALDRLHKPEEAAAMRRDGLM 389 (398)
T ss_pred CHHHHHHHHHHHHhcCCC--HHH-----HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 777777666665544221 211 12356666666666666666666544
No 110
>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=73.78 E-value=56 Score=34.00 Aligned_cols=93 Identities=10% Similarity=0.018 Sum_probs=53.3
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 226 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~ 226 (443)
..|.++...|++++|.+.+..... ..++..+.+-+..+++++..+++..|...+.+....-.. ++.. .
T Consensus 123 laA~aa~~~g~~~~A~~~l~~a~~------~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~--~~~~----l 190 (409)
T TIGR00540 123 KAAEAAQQRGDEARANQHLEEAAE------LAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPR--HKEV----L 190 (409)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH------hCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHH----H
Confidence 345666666777777766666421 112233344444577777777777777776665555332 3322 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 227 VCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 227 ~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
...+.++...++|.+|-..+-.+..
T Consensus 191 ~ll~~~~~~~~d~~~a~~~l~~l~k 215 (409)
T TIGR00540 191 KLAEEAYIRSGAWQALDDIIDNMAK 215 (409)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 2356667777777777666655554
No 111
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=73.70 E-value=1.2e+02 Score=31.52 Aligned_cols=91 Identities=11% Similarity=0.021 Sum_probs=59.8
Q ss_pred HHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHH
Q 013430 149 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 228 (443)
Q Consensus 149 A~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~ 228 (443)
|..-...|++++|...+..... .+++..+-..+...++++..+|+.+|...+++......+ ++.. ...
T Consensus 125 A~aA~~~g~~~~A~~~l~~A~~------~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~--~~~a----l~l 192 (398)
T PRK10747 125 AEAAQQRGDEARANQHLERAAE------LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR--HPEV----LRL 192 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHh------cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CHHH----HHH
Confidence 3444778888888888877532 233344445556688888888888888888887655433 2321 122
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 013430 229 YARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 229 ~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+..+...++|.+|...+-.+-.
T Consensus 193 l~~~~~~~gdw~~a~~~l~~l~k 215 (398)
T PRK10747 193 AEQAYIRTGAWSSLLDILPSMAK 215 (398)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHH
Confidence 45666777888888877777765
No 112
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=73.50 E-value=24 Score=26.56 Aligned_cols=57 Identities=19% Similarity=0.152 Sum_probs=45.5
Q ss_pred HHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 190 ARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 190 ~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.++|+..+||..|...+.++...-.. ++. .+...|.++...++|.+|...|......
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~--~~~----~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPD--DPE----LWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCcc--cch----hhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 36789999999999999998777433 332 2334789999999999999999998874
No 113
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=73.29 E-value=57 Score=36.42 Aligned_cols=97 Identities=16% Similarity=-0.057 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.....+|.++...|++++|...++.... . ++. -.+.+....+++...+++..|...+.++...-.. +..
T Consensus 285 ~a~~~lg~~l~~~g~~~eA~~~l~~al~-l-----~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~--~~~-- 353 (656)
T PRK15174 285 RIVTLYADALIRTGQNEKAIPLLQQSLA-T-----HPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGV--TSK-- 353 (656)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH-h-----CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc--chH--
Confidence 4566788888888999999888887542 1 111 1234555678888889999998888876654221 221
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+....|..+...+++.+|-..|..+...
T Consensus 354 --~~~~~a~al~~~G~~deA~~~l~~al~~ 381 (656)
T PRK15174 354 --WNRYAAAALLQAGKTSEAESVFEHYIQA 381 (656)
T ss_pred --HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 2233466777889999999999888875
No 114
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=73.13 E-value=8.1 Score=37.15 Aligned_cols=48 Identities=19% Similarity=0.332 Sum_probs=38.7
Q ss_pred cccccCHHHHHHHhCC-ChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 360 LYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgL-s~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
+-++|--.-|-.++.+ ++-++|.++.+.+-.+-+.|||||.++..+..
T Consensus 106 ~~k~lpy~~Ll~~l~~~nvrelEd~iieamya~IlrGkldqr~q~leV~ 154 (258)
T KOG3250|consen 106 FEKCLPYLVLLRLLPSRNVRELEDLIIEAMYADILRGKLDQRNQTLEVD 154 (258)
T ss_pred hchhhhHHHHHhhccCCchhHHHHHHHHHHHHHHHHhhHHhhcceEeec
Confidence 3455555566777777 57899999999999999999999999986554
No 115
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.91 E-value=35 Score=32.53 Aligned_cols=97 Identities=19% Similarity=0.093 Sum_probs=77.6
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|+.+-+.|++++|...|+-..-. +.|...|.=.-++.+|+-+..+.++.|-..++-+.. +.....
T Consensus 92 aL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-------~~w~~~ 160 (207)
T COG2976 92 ALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAALKTLDTIKE-------ESWAAI 160 (207)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-------ccHHHH
Confidence 578999999999999999999875322 235556888889999999999999999888874433 333345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+-...|-++...+|=.+|-..|-.+...
T Consensus 161 ~~elrGDill~kg~k~~Ar~ay~kAl~~ 188 (207)
T COG2976 161 VAELRGDILLAKGDKQEARAAYEKALES 188 (207)
T ss_pred HHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence 5566789999999999999999999874
No 116
>PF12728 HTH_17: Helix-turn-helix domain
Probab=72.82 E-value=10 Score=27.19 Aligned_cols=47 Identities=19% Similarity=0.387 Sum_probs=35.2
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHHHH
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQ 418 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W~~ 418 (443)
+|.+++|+.||+|... +-+|+.+|.|.+. ++.+.+.|.. +.+++|-+
T Consensus 2 lt~~e~a~~l~is~~t----v~~~~~~g~i~~~--~~g~~~~~~~--~~l~~~~~ 48 (51)
T PF12728_consen 2 LTVKEAAELLGISRST----VYRWIRQGKIPPF--KIGRKWRIPK--SDLDRWLE 48 (51)
T ss_pred CCHHHHHHHHCcCHHH----HHHHHHcCCCCeE--EeCCEEEEeH--HHHHHHHH
Confidence 4789999999999876 4567789999777 4666677764 55677754
No 117
>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=72.78 E-value=38 Score=28.65 Aligned_cols=50 Identities=12% Similarity=0.084 Sum_probs=41.5
Q ss_pred HHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 353 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 353 NL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
.++.+..-...++..+||+.+|++..-+=..+.+|...|-|...-|..++
T Consensus 32 ~iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~ 81 (118)
T TIGR02337 32 RILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQ 81 (118)
T ss_pred HHHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCC
Confidence 33333334567999999999999999999999999999999998877665
No 118
>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=72.54 E-value=9.8 Score=27.95 Aligned_cols=51 Identities=20% Similarity=0.205 Sum_probs=41.6
Q ss_pred HHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 352 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 352 hNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
..++.+..-+..++..+||+.++++..-+=..+.+|+..|-|.-..|..|+
T Consensus 6 ~~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 6 FRILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 334444445677999999999999999999999999999999988887664
No 119
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=72.19 E-value=41 Score=32.63 Aligned_cols=97 Identities=15% Similarity=0.005 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.+-..+|.++.+.|++++|.+.++....-- ++. .++....+.+++..+++..++..+++....... ++.+
T Consensus 147 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-----P~~--~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~--~~~~- 216 (280)
T PF13429_consen 147 RFWLALAEIYEQLGDPDKALRDYRKALELD-----PDD--PDARNALAWLLIDMGDYDEAREALKRLLKAAPD--DPDL- 216 (280)
T ss_dssp HHHHHHHHHHHHCCHHHHHHHHHHHHHHH------TT---HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HT--SCCH-
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----CCC--HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcC--HHHH-
Confidence 445567778888888888887777753211 111 223444566677778887777777765554422 3332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
....|..+..-+++.+|-..|..+...
T Consensus 217 ---~~~la~~~~~lg~~~~Al~~~~~~~~~ 243 (280)
T PF13429_consen 217 ---WDALAAAYLQLGRYEEALEYLEKALKL 243 (280)
T ss_dssp ---CHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred ---HHHHHHHhccccccccccccccccccc
Confidence 223467777778888888888887764
No 120
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=71.89 E-value=27 Score=34.99 Aligned_cols=92 Identities=13% Similarity=0.102 Sum_probs=68.0
Q ss_pred HHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHH
Q 013430 127 LAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFI 206 (443)
Q Consensus 127 L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l 206 (443)
-+|+...+..|++.-...-.++++.+...|+++.+.+.++++- ++ +-.-=..|...|+.|+..|+...|...+
T Consensus 138 ~~WV~~~R~~l~e~~~~~l~~lae~~~~~~~~~~~~~~l~~Li-~~------dp~~E~~~~~lm~~y~~~g~~~~ai~~y 210 (280)
T COG3629 138 DEWVLEQRRALEELFIKALTKLAEALIACGRADAVIEHLERLI-EL------DPYDEPAYLRLMEAYLVNGRQSAAIRAY 210 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH-hc------CccchHHHHHHHHHHHHcCCchHHHHHH
Confidence 3566666666777666667779999999999999999999974 22 1122246889999999999999999999
Q ss_pred HHhhhhhccc----cHHHHHHHH
Q 013430 207 NKASFLVSSS----QQEVLNLQY 225 (443)
Q Consensus 207 ~Ka~~~~~~~----~d~~lk~~y 225 (443)
++.+....+. +.++....|
T Consensus 211 ~~l~~~~~edlgi~P~~~~~~~y 233 (280)
T COG3629 211 RQLKKTLAEELGIDPAPELRALY 233 (280)
T ss_pred HHHHHHhhhhcCCCccHHHHHHH
Confidence 9988865442 334544444
No 121
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.61 E-value=13 Score=36.42 Aligned_cols=52 Identities=17% Similarity=0.241 Sum_probs=47.2
Q ss_pred HhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 357 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 357 isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
+.|--+.|-|++||..|||-.+.+-.-+-.++.+|.|.|.||--...|+...
T Consensus 208 YIk~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~ 259 (299)
T KOG3054|consen 208 YIKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISM 259 (299)
T ss_pred HHHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecH
Confidence 3556789999999999999999999999999999999999999999988764
No 122
>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=71.58 E-value=20 Score=26.64 Aligned_cols=45 Identities=11% Similarity=0.195 Sum_probs=38.5
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
++.+++++.+|++...+-..+..|...|-+...-+...+...+.+
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 999999999999999999999999999999887666555555553
No 123
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=71.46 E-value=1.7e+02 Score=32.66 Aligned_cols=96 Identities=10% Similarity=0.021 Sum_probs=62.2
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCc-----------------CChhhH-------------HHHHHHHHHHhhh
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRV-----------------IDDTFR-------------LSKCVQIARLYLE 195 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~-----------------~~~~~K-------------le~~L~i~RL~L~ 195 (443)
..|...|.+.|++++|.+++.++.... ... +....+ ..++-..+.+|..
T Consensus 193 n~li~~~~~~g~~~~A~~lf~~M~~~g-~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k 271 (697)
T PLN03081 193 GTIIGGLVDAGNYREAFALFREMWEDG-SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSK 271 (697)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHH
Confidence 456777888889999998888875321 110 000000 1233445777888
Q ss_pred cCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 196 DDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 196 ~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.|++..|...+++.... + ..-+..++..|...+++.+|...|.+...
T Consensus 272 ~g~~~~A~~vf~~m~~~-----~----~vt~n~li~~y~~~g~~~eA~~lf~~M~~ 318 (697)
T PLN03081 272 CGDIEDARCVFDGMPEK-----T----TVAWNSMLAGYALHGYSEEALCLYYEMRD 318 (697)
T ss_pred CCCHHHHHHHHHhCCCC-----C----hhHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 88888888887764321 1 12345667778889999999999988865
No 124
>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=70.63 E-value=13 Score=25.63 Aligned_cols=46 Identities=17% Similarity=0.309 Sum_probs=33.9
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHHH
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWD 417 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W~ 417 (443)
+|++++|+.||+|...+ -+++.+|.+.+... .|...|.. +.+.+|-
T Consensus 2 lt~~e~a~~lgis~~ti----~~~~~~g~i~~~~~--g~~~~~~~--~~l~~~~ 47 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTV----YRLIHEGELPAYRV--GRHYRIPR--EDVDEYL 47 (49)
T ss_pred CCHHHHHHHHCCCHHHH----HHHHHcCCCCeEEe--CCeEEEeH--HHHHHHH
Confidence 57899999999998754 55678999987653 46666654 5567774
No 125
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=70.59 E-value=5.7 Score=26.47 Aligned_cols=23 Identities=17% Similarity=0.403 Sum_probs=19.8
Q ss_pred HHHHHHHHhccCHHHHHHHHhhh
Q 013430 146 EKLADLYESEQQWSKAAQMLSGI 168 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i 168 (443)
..||.+|.+.|+|++|.+.++..
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~a 25 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQA 25 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHH
Confidence 46999999999999999999883
No 126
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=70.26 E-value=26 Score=34.60 Aligned_cols=67 Identities=10% Similarity=0.065 Sum_probs=54.3
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-hhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
....||..|...|++++|...+..+... .++ ...-+.++....++...||+..|..+++++......
T Consensus 182 A~y~LG~~y~~~g~~~~A~~~f~~vv~~-----yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~ 249 (263)
T PRK10803 182 ANYWLGQLNYNKGKKDDAAYYFASVVKN-----YPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPG 249 (263)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH-----CCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 4679999999999999999999987422 223 345777888899999999999999999987766554
No 127
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=69.89 E-value=9 Score=26.58 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=29.9
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
.++..+||+.+|+|...+-+.+.+|...|-+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999886
No 128
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=69.57 E-value=18 Score=35.20 Aligned_cols=96 Identities=22% Similarity=0.141 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.+...|+.++.+.|++++|..++....... -++. .++......|+..|++.+|-.+++++..... +||...
T Consensus 181 ~~~~~l~~~li~~~~~~~~~~~l~~~~~~~----~~~~---~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p--~d~~~~ 251 (280)
T PF13429_consen 181 DARNALAWLLIDMGDYDEAREALKRLLKAA----PDDP---DLWDALAAAYLQLGRYEEALEYLEKALKLNP--DDPLWL 251 (280)
T ss_dssp HHHHHHHHHHCTTCHHHHHHHHHHHHHHH-----HTSC---CHCHHHHHHHHHHT-HHHHHHHHHHHHHHST--T-HHHH
T ss_pred HHHHHHHHHHHHCCChHHHHHHHHHHHHHC----cCHH---HHHHHHHHHhccccccccccccccccccccc--cccccc
Confidence 356678889999999999888888875442 0111 2556678999999999999999999776544 377766
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
..| |.++...|++.+|...+..++.
T Consensus 252 ~~~----a~~l~~~g~~~~A~~~~~~~~~ 276 (280)
T PF13429_consen 252 LAY----ADALEQAGRKDEALRLRRQALR 276 (280)
T ss_dssp HHH----HHHHT-----------------
T ss_pred ccc----cccccccccccccccccccccc
Confidence 644 8889999999999998887764
No 129
>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=69.44 E-value=70 Score=34.89 Aligned_cols=65 Identities=15% Similarity=0.013 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 182 RLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 182 Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.-|++|-++.++.+.|++.+|-.++.+....+.+ +..+.+..|.++..-+++.+|...|.+++..
T Consensus 3 ~SE~lLY~~~il~e~g~~~~AL~~L~~~~~~I~D------k~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r 67 (517)
T PF12569_consen 3 HSELLLYKNSILEEAGDYEEALEHLEKNEKQILD------KLAVLEKRAELLLKLGRKEEAEKIYRELIDR 67 (517)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHhhhhhCCC------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4578899999999999999999999988777765 5667788899999999999999999999985
No 130
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=69.37 E-value=2.2e+02 Score=32.96 Aligned_cols=146 Identities=10% Similarity=0.099 Sum_probs=95.3
Q ss_pred hcccccccccCCCCcchhhHhhhhhhcCCcceeecHHHHHHHHHH---------hCCCChHHHHHHHHHHHHhhccc---
Q 013430 66 HYFGRKQIFVRPYPFSIFKFFFCAVLSDDVPLVVSRQLLQTFAQE---------LGRLEPETQKEIANYTLAQIQPR--- 133 (443)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lv~sr~~l~~~~~~---------l~~l~~~~~~~~~~~~L~~i~~~--- 133 (443)
||+--=+.|+--.|.+..+.+++.++.+.-+.-.+-++++.-... .-++|.+........+.-..+.+
T Consensus 340 cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~ 419 (932)
T KOG2053|consen 340 CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSL 419 (932)
T ss_pred HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccc
Confidence 555555667777788999999999997766665555555443332 24678887777765555554333
Q ss_pred -------cchHHHHHHH-HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHH
Q 013430 134 -------VVSFEEQVLI-IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAF 205 (443)
Q Consensus 134 -------~~sfe~q~a~-l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~ 205 (443)
..+|-+..+- .-..|-+++.+++|...-.+.+.=+ | .+-.....--.+=+..+|+|...|=++.|...
T Consensus 420 ~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LL--E--~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~ 495 (932)
T KOG2053|consen 420 SKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLL--E--NGLTKSPHNFQTKLLLIRIYSYLGAFPDAYEL 495 (932)
T ss_pred cccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH--H--HHhhcCCccHHHHHHHHHHHHHhcCChhHHHH
Confidence 1233333333 3456789999999988666666443 3 23333445556667789999999999999988
Q ss_pred HHH--hhhhhcc
Q 013430 206 INK--ASFLVSS 215 (443)
Q Consensus 206 l~K--a~~~~~~ 215 (443)
+.- |++...+
T Consensus 496 y~tLdIK~IQ~D 507 (932)
T KOG2053|consen 496 YKTLDIKNIQTD 507 (932)
T ss_pred HHhcchHHhhhc
Confidence 874 6666654
No 131
>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=68.94 E-value=11 Score=28.21 Aligned_cols=48 Identities=13% Similarity=0.146 Sum_probs=37.8
Q ss_pred HHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEE
Q 013430 355 LSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHF 406 (443)
Q Consensus 355 ~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F 406 (443)
..+-+--..+++++||+.||+|+.-+-+.+..+-..|.+ .++-|-+.+
T Consensus 6 l~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i----~r~~GG~~~ 53 (57)
T PF08220_consen 6 LELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLI----KRTHGGAVL 53 (57)
T ss_pred HHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCE----EEEcCEEEe
Confidence 333445688999999999999999999999999999974 445554444
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=68.78 E-value=24 Score=26.15 Aligned_cols=53 Identities=17% Similarity=0.050 Sum_probs=42.0
Q ss_pred hhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 194 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+..||+..|...++++...... +++... ..|.++...++|.+|...+..+...
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~--~~~~~~----~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD--NPEARL----LLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT--SHHHHH----HHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hhccCHHHHHHHHHHHHHHCCC--CHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5789999999999998777544 555444 4688999999999999999888875
No 133
>PRK14574 hmsH outer membrane protein; Provisional
Probab=68.12 E-value=91 Score=36.04 Aligned_cols=153 Identities=11% Similarity=0.071 Sum_probs=105.1
Q ss_pred CCcceeecHHHHHHHHHHhC-------CCChHHHHHHHHHHHHhhccccc-hHHHHHH-----------HH--HHHHHHH
Q 013430 93 DDVPLVVSRQLLQTFAQELG-------RLEPETQKEIANYTLAQIQPRVV-SFEEQVL-----------II--REKLADL 151 (443)
Q Consensus 93 ~~~~lv~sr~~l~~~~~~l~-------~l~~~~~~~~~~~~L~~i~~~~~-sfe~q~a-----------~l--~~~LA~i 151 (443)
|.++....|.-..++++... .+|+-.+..++-..|..-+|.+- .+..+.. .+ +..|.-.
T Consensus 297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA 376 (822)
T PRK14574 297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS 376 (822)
T ss_pred HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence 45557777777777776542 45666666666655555555443 1222110 11 3678888
Q ss_pred HHhccCHHHHHHHHhhhhhhccC-----C---cCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 152 YESEQQWSKAAQMLSGIDLDSGM-----R---VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 152 ye~~gd~~eAa~~L~~i~~Et~~-----~---~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
|.+.|++++|...++.+.-.+.. + ..+-..=.+.....+..+.-.||...|+..+.+.... .++++.+++
T Consensus 377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~ 454 (822)
T PRK14574 377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRI 454 (822)
T ss_pred HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHH
Confidence 99999999999999998764431 1 1222334688889999999999999999999987443 345777766
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+|.++..++.+.+|-..|-.+..
T Consensus 455 ----~~A~v~~~Rg~p~~A~~~~k~a~~ 478 (822)
T PRK14574 455 ----ALASIYLARDLPRKAEQELKAVES 478 (822)
T ss_pred ----HHHHHHHhcCCHHHHHHHHHHHhh
Confidence 568999999999999888854443
No 134
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.91 E-value=53 Score=32.38 Aligned_cols=111 Identities=17% Similarity=0.185 Sum_probs=65.9
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh-hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 217 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~-~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~ 217 (443)
++.+.+-.+=|++|--..+|+.|-....+.- +. +.+.+.+ .-...|. ++--|....|+..|-..+.++..++-..+
T Consensus 31 eeAadl~~~Aan~yklaK~w~~AG~aflkaA-~~-h~k~~skhDaat~Yv-eA~~cykk~~~~eAv~cL~~aieIyt~~G 107 (288)
T KOG1586|consen 31 EEAAELYERAANMYKLAKNWSAAGDAFLKAA-DL-HLKAGSKHDAATTYV-EAANCYKKVDPEEAVNCLEKAIEIYTDMG 107 (288)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HH-HHhcCCchhHHHHHH-HHHHHhhccChHHHHHHHHHHHHHHHhhh
Confidence 3345666666777776667776666554421 22 2222222 2333333 34445556677777777777777766555
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhh
Q 013430 218 QEVLNLQYKVCYARILDLK-RKFLEAALRYYDISQI 252 (443)
Q Consensus 218 d~~lk~~y~~~~ari~~~~-r~f~eAa~~y~e~~~t 252 (443)
.-.+-.+|+...|.||-.+ .||..|-.+|-.+-.-
T Consensus 108 rf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~ 143 (288)
T KOG1586|consen 108 RFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEY 143 (288)
T ss_pred HHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 5555666777777777776 7777777777666553
No 135
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=67.86 E-value=38 Score=34.77 Aligned_cols=82 Identities=12% Similarity=0.072 Sum_probs=62.0
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.+...+|..|...|++++|...+..... +++ .-...|+....+|+..+++..|...+.++...-.. ++++.
T Consensus 37 ~a~~~~a~~~~~~g~~~eAl~~~~~Al~------l~P-~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~--~~~~~ 107 (356)
T PLN03088 37 ELYADRAQANIKLGNFTEAVADANKAIE------LDP-SLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPG--DSRFT 107 (356)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHH------hCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC--CHHHH
Confidence 4567889999999999999999988632 122 22456888899999999999999999998876543 66666
Q ss_pred HHHHHHHHHHH
Q 013430 223 LQYKVCYARIL 233 (443)
Q Consensus 223 ~~y~~~~ari~ 233 (443)
.....|..++.
T Consensus 108 ~~l~~~~~kl~ 118 (356)
T PLN03088 108 KLIKECDEKIA 118 (356)
T ss_pred HHHHHHHHHHH
Confidence 65556655553
No 136
>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=67.24 E-value=9.9 Score=28.42 Aligned_cols=34 Identities=12% Similarity=0.228 Sum_probs=31.2
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
..++..+||+.+|+|..-+.+.+.+|..+|-|..
T Consensus 24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 24 LPLTRQEIADYLGLTRETVSRTLKELEEEGLISR 57 (67)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 4589999999999999999999999999998864
No 137
>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=67.19 E-value=8.3 Score=30.74 Aligned_cols=37 Identities=11% Similarity=0.034 Sum_probs=33.0
Q ss_pred HhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 357 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 357 isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
+++++...|.++||+.+|+|+.-+...+.++...|++
T Consensus 26 L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 26 LAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 3567899999999999999999999999998888765
No 138
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=66.51 E-value=57 Score=32.98 Aligned_cols=144 Identities=21% Similarity=0.200 Sum_probs=81.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHH-HHHHHHHHHHhcCCCCChHHHHHhhhcCcccccccch
Q 013430 228 CYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQ-ALSAAVTCTILAAAGPQRSRVLATLYKDERCSKLKIY 306 (443)
Q Consensus 228 ~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~-~Lk~av~~~ILa~~~~~rs~ll~~l~kd~~~~~l~~~ 306 (443)
++|-=++..++|.+|-..|.++... +|.+..- |=+.++++ =|.-..+-..|.++.+.-||.-. -.|
T Consensus 86 ~eGN~~m~~~~Y~eAv~kY~~AI~l----------~P~nAVyycNRAAAy~-~Lg~~~~AVkDce~Al~iDp~ys--kay 152 (304)
T KOG0553|consen 86 NEGNKLMKNKDYQEAVDKYTEAIEL----------DPTNAVYYCNRAAAYS-KLGEYEDAVKDCESALSIDPHYS--KAY 152 (304)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhc----------CCCcchHHHHHHHHHH-HhcchHHHHHHHHHHHhcChHHH--HHH
Confidence 3677788999999999999999974 2222111 11122222 22222233444555554555421 134
Q ss_pred HHHHHHHHHHhcchhhHHHHHHHhhHHHHhhcCCchhHHHHHHHHHHHHHHhh-------cccccCHHHHHHHhCCC---
Q 013430 307 PILQKVYLERILRKPEIDAFAEELKPHQKALLPDNFTVLDRAMIEHNLLSASK-------LYTNISFEELGTLLGIA--- 376 (443)
Q Consensus 307 ~~L~k~f~~~ii~~~el~~F~~~L~~hq~~l~~D~~~~L~~~viEhNL~~isk-------~Ys~Itl~~La~lLgLs--- 376 (443)
..|--+|+. ..+|+.....+++++.=||... +...||..+.+ +=..+.-.+++.++|-.
T Consensus 153 ~RLG~A~~~-------~gk~~~A~~aykKaLeldP~Ne----~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~ 221 (304)
T KOG0553|consen 153 GRLGLAYLA-------LGKYEEAIEAYKKALELDPDNE----SYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDS 221 (304)
T ss_pred HHHHHHHHc-------cCcHHHHHHHHHhhhccCCCcH----HHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccc
Confidence 555555542 3456666666777776666322 44555555544 23566677788887773
Q ss_pred ----------hHHHHHHHHhhhhcCceEE
Q 013430 377 ----------PQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 377 ----------~eeaE~~ls~MI~~grL~a 395 (443)
...+-...+.|+.+|.++|
T Consensus 222 ~s~~~~~l~nnp~l~~~~~~m~~~~~~~~ 250 (304)
T KOG0553|consen 222 RSMFNGDLMNNPQLMQLASQMMKDGALNG 250 (304)
T ss_pred hhhhccccccCHHHHHHHHHHhhcccccC
Confidence 2345566788888766654
No 139
>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=65.77 E-value=2.2e+02 Score=31.49 Aligned_cols=126 Identities=10% Similarity=-0.021 Sum_probs=86.3
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh-hHHHHHHHHHHHhhhcCC
Q 013430 120 KEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDD 198 (443)
Q Consensus 120 ~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~-~Kle~~L~i~RL~L~~~D 198 (443)
+..++..+..++. -.|.+..-+...-|+.+|++.+... |.+.+.+.--++ ...... -.--+-+..+.+++..+|
T Consensus 80 e~~L~k~~~l~~~--~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~--~~~~~~~w~~~frll~~~l~~~~~d 154 (608)
T PF10345_consen 80 ETYLEKAILLCER--HRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDS--ETYGHSAWYYAFRLLKIQLALQHKD 154 (608)
T ss_pred HHHHHHHHHhccc--cchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHH--hccCchhHHHHHHHHHHHHHHhccc
Confidence 3334444444433 5566666777888999999999888 999998854443 221111 222333334555655689
Q ss_pred HHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 199 AVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 250 (443)
Q Consensus 199 ~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~ 250 (443)
+..|-..+.++.......+||.....+....+.++...+...++-..-.++.
T Consensus 155 ~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~ 206 (608)
T PF10345_consen 155 YNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAI 206 (608)
T ss_pred HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHH
Confidence 9999999999888877668999999988888888887776666655555553
No 140
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=64.65 E-value=38 Score=39.35 Aligned_cols=101 Identities=12% Similarity=-0.038 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
..+..|...|...|++++|..++.+- ++. . ...+++|+...-+++..+++..+-.. ++...+....+|.+-
T Consensus 32 ~a~~~Li~~~~~~~~~deai~i~~~~-l~~-----~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~v 102 (906)
T PRK14720 32 KELDDLIDAYKSENLTDEAKDICEEH-LKE-----H-KKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIV 102 (906)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHH-HHh-----C-CcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHH
Confidence 34788999999999999999999863 332 1 23455555555599999997777666 666666665678887
Q ss_pred HHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLK-------------RKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~-------------r~f~eAa~~y~e~~~t 252 (443)
-.|+.|++.++..+ +++.+|...|-++...
T Consensus 103 e~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~ 145 (906)
T PRK14720 103 EHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKA 145 (906)
T ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Confidence 78888888877777 8888888888887763
No 141
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=64.61 E-value=18 Score=30.05 Aligned_cols=39 Identities=23% Similarity=0.370 Sum_probs=34.2
Q ss_pred cccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE---EEec
Q 013430 360 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR---GSID 398 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~---akID 398 (443)
--.++++.+||+.+|+|+..+-+.+.+|..+|-+. +.+|
T Consensus 14 ~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~ 55 (108)
T smart00344 14 KDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVIN 55 (108)
T ss_pred HhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeC
Confidence 34689999999999999999999999999999775 4455
No 142
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=64.36 E-value=13 Score=23.78 Aligned_cols=26 Identities=15% Similarity=0.230 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGI 168 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i 168 (443)
++-..+|.+|.+.|++++|.+.+...
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 45678999999999999999998874
No 143
>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=63.43 E-value=14 Score=24.72 Aligned_cols=30 Identities=10% Similarity=0.346 Sum_probs=24.6
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
+|-.+||+.+|++++-+=+.+.++-.+|-|
T Consensus 3 mtr~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 3 MTRQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp --HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred cCHHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 567899999999999999999999888864
No 144
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=63.27 E-value=1.3e+02 Score=28.02 Aligned_cols=105 Identities=10% Similarity=0.001 Sum_probs=62.9
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
-....|.-+.+.|+|.+|.+.+..+...- .. ...--+..+.++..|...+|+..|...+++-.......+..+ ..
T Consensus 7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~--P~--s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A 81 (203)
T PF13525_consen 7 ALYQKALEALQQGDYEEAIKLFEKLIDRY--PN--SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YA 81 (203)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHH---TT--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HH
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CC--ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hH
Confidence 34667888999999999999999986432 11 123345567788899999999999999998655554422211 12
Q ss_pred HHHHHHHHHHH---------HHHHHHHHHHHHHHHHhhh
Q 013430 224 QYKVCYARILD---------LKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 224 ~y~~~~ari~~---------~~r~f~eAa~~y~e~~~t~ 253 (443)
.|...++.+.. ..+...+|...|.++...+
T Consensus 82 ~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~y 120 (203)
T PF13525_consen 82 LYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRY 120 (203)
T ss_dssp HHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHC
Confidence 23222222211 1234456666676666654
No 145
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=62.89 E-value=1.8e+02 Score=29.51 Aligned_cols=175 Identities=16% Similarity=0.121 Sum_probs=93.1
Q ss_pred ccCCCCcchhhHhhhhhhcCCcceeecHHHHHHHHHHhCCCChHHHH---HHHHHHHHhhccccchHHHHHHHHHHHHHH
Q 013430 74 FVRPYPFSIFKFFFCAVLSDDVPLVVSRQLLQTFAQELGRLEPETQK---EIANYTLAQIQPRVVSFEEQVLIIREKLAD 150 (443)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~~~~~~---~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~ 150 (443)
|.-+-|-+-++.+++.++.- ..-..+-+....++.+..- ......+. .-+++ ..+..-||.
T Consensus 113 F~G~qPesqlr~~ld~~~~~--------~~e~~~~~~~~~~~~e~~~~a~~~~~~al~-~~~~~-------~~~~~~la~ 176 (304)
T COG3118 113 FQGAQPESQLRQFLDKVLPA--------EEEEALAEAKELIEAEDFGEAAPLLKQALQ-AAPEN-------SEAKLLLAE 176 (304)
T ss_pred cCCCCcHHHHHHHHHHhcCh--------HHHHHHHHhhhhhhccchhhHHHHHHHHHH-hCccc-------chHHHHHHH
Confidence 55666777777777776643 3222333333333322211 11122222 22333 245678899
Q ss_pred HHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHH
Q 013430 151 LYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYA 230 (443)
Q Consensus 151 iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~a 230 (443)
.|.+.|+.++|..+|..++.+- .++.-.. .-.++.+.....+.........+... ..+|.+ ..|. .|
T Consensus 177 ~~l~~g~~e~A~~iL~~lP~~~-----~~~~~~~-l~a~i~ll~qaa~~~~~~~l~~~~aa---dPdd~~--aa~~--lA 243 (304)
T COG3118 177 CLLAAGDVEAAQAILAALPLQA-----QDKAAHG-LQAQIELLEQAAATPEIQDLQRRLAA---DPDDVE--AALA--LA 243 (304)
T ss_pred HHHHcCChHHHHHHHHhCcccc-----hhhHHHH-HHHHHHHHHHHhcCCCHHHHHHHHHh---CCCCHH--HHHH--HH
Confidence 9999999999999999988663 1121111 11223344343444333333333221 112333 3343 47
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCC
Q 013430 231 RILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGP 285 (443)
Q Consensus 231 ri~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~ 285 (443)
..+...++..+|..++..++... ..-.+..-|.+.| =+...+.|..|
T Consensus 244 ~~~~~~g~~e~Ale~Ll~~l~~d-----~~~~d~~~Rk~ll---e~f~~~g~~Dp 290 (304)
T COG3118 244 DQLHLVGRNEAALEHLLALLRRD-----RGFEDGEARKTLL---ELFEAFGPADP 290 (304)
T ss_pred HHHHHcCCHHHHHHHHHHHHHhc-----ccccCcHHHHHHH---HHHHhcCCCCH
Confidence 88888999999999999999852 1222334444444 34555655544
No 146
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=62.69 E-value=9.1 Score=24.05 Aligned_cols=27 Identities=15% Similarity=0.143 Sum_probs=23.4
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhh
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLD 171 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~E 171 (443)
...+|.+|.+.|++++|.+.++.+..+
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 467899999999999999999997643
No 147
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=62.67 E-value=89 Score=29.86 Aligned_cols=73 Identities=18% Similarity=0.231 Sum_probs=58.4
Q ss_pred ChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc---------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 178 DDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS---------QQEVLNLQYKVCYARILDLKRKFLEAALRYYD 248 (443)
Q Consensus 178 ~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~---------~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e 248 (443)
++..+..++|+++-||=+.+|....+.++++|...+... +..+..+.| ..|.++..-|+|.+|.+.|-.
T Consensus 113 ~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~Y--LigeL~rrlg~~~eA~~~fs~ 190 (214)
T PF09986_consen 113 KPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLY--LIGELNRRLGNYDEAKRWFSR 190 (214)
T ss_pred CHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHH--HHHHHHHHhCCHHHHHHHHHH
Confidence 455789999999999999999999999999986655321 234555555 568888889999999999999
Q ss_pred HHhh
Q 013430 249 ISQI 252 (443)
Q Consensus 249 ~~~t 252 (443)
++..
T Consensus 191 vi~~ 194 (214)
T PF09986_consen 191 VIGS 194 (214)
T ss_pred HHcC
Confidence 9974
No 148
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=62.55 E-value=12 Score=25.88 Aligned_cols=27 Identities=22% Similarity=0.081 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhh
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDL 170 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~ 170 (443)
....||..|.+.|++++|.+.++.+..
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 356899999999999999999999753
No 149
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=62.27 E-value=23 Score=25.42 Aligned_cols=47 Identities=9% Similarity=0.126 Sum_probs=37.5
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
-..+++.+|++.+|++...+-+.+.+|...|-+.-.-+...+...+.
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~ 54 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLT 54 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEEc
Confidence 45689999999999999999999999999999985554433344443
No 150
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=61.85 E-value=1.4e+02 Score=32.84 Aligned_cols=159 Identities=14% Similarity=0.158 Sum_probs=96.8
Q ss_pred hHHHHHHHHHHHHhhcccc--chHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHh
Q 013430 116 PETQKEIANYTLAQIQPRV--VSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY 193 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~--~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~ 193 (443)
+.....+-+..|+...... +.-+.| .-|+-+|.-.|+|+.|.+.++..... + -.+ + -+|-+.---.
T Consensus 407 ~~~l~~i~~~fLeaa~~~~~~~DpdvQ-----~~LGVLy~ls~efdraiDcf~~AL~v---~-Pnd-~--~lWNRLGAtL 474 (579)
T KOG1125|consen 407 SSHLAHIQELFLEAARQLPTKIDPDVQ-----SGLGVLYNLSGEFDRAVDCFEAALQV---K-PND-Y--LLWNRLGATL 474 (579)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCChhHH-----hhhHHHHhcchHHHHHHHHHHHHHhc---C-Cch-H--HHHHHhhHHh
Confidence 3444566666677664433 777776 45999999999999999999875422 1 111 1 1233322222
Q ss_pred hhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC--CCHHHHHHHH
Q 013430 194 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDET--IDEEALEQAL 271 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~--i~~~~~~~~L 271 (443)
---+....|-..++||..+... =++.+|- +|.-++..|.|.||+.+|.+++........... ...+...+.|
T Consensus 475 AN~~~s~EAIsAY~rALqLqP~----yVR~RyN--lgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tL 548 (579)
T KOG1125|consen 475 ANGNRSEEAISAYNRALQLQPG----YVRVRYN--LGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTL 548 (579)
T ss_pred cCCcccHHHHHHHHHHHhcCCC----eeeeehh--hhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHH
Confidence 2334455666677788776533 3455554 678899999999999999999975321000111 1224556777
Q ss_pred HHHHHHHHhcCCCCChHHHHHhhhcCcc
Q 013430 272 SAAVTCTILAAAGPQRSRVLATLYKDER 299 (443)
Q Consensus 272 k~av~~~ILa~~~~~rs~ll~~l~kd~~ 299 (443)
+.++.| ..|+|++.....+..
T Consensus 549 R~als~-------~~~~D~l~~a~~~~n 569 (579)
T KOG1125|consen 549 RLALSA-------MNRSDLLQEAAPSRN 569 (579)
T ss_pred HHHHHH-------cCCchHHHHhccccC
Confidence 743332 378887777655443
No 151
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=61.58 E-value=77 Score=26.40 Aligned_cols=51 Identities=14% Similarity=0.039 Sum_probs=35.1
Q ss_pred HHHHHHHhhhhhcc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 202 AEAFINKASFLVSS-SQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 202 A~~~l~Ka~~~~~~-~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
...+++++-+.+.. -+|++.+.+|+.|.+.+...+--=.+.-.+|.++|..
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~ 72 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDA 72 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66777776555544 3788999999999999876543334444567777764
No 152
>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=61.51 E-value=41 Score=26.77 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=35.9
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCc
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDD 409 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~ 409 (443)
++.++||+.+|+|+..+++++.++...|-+..+=-+..|+.--.++
T Consensus 26 ~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~ 71 (83)
T PF02082_consen 26 VSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRLARPP 71 (83)
T ss_dssp BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-C
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecCCH
Confidence 9999999999999999999999999999987654444444444444
No 153
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=61.32 E-value=74 Score=34.21 Aligned_cols=101 Identities=21% Similarity=0.188 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhh-ccc--cH
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLV-SSS--QQ 218 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~-~~~--~d 218 (443)
.|+=..|++.|++.+..++|.+...+.-. . +|. --..++..+.+|=+.+|...|..+..|-.... .++ ++
T Consensus 432 sRlw~aLG~CY~kl~~~~eAiKCykrai~-~-----~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~ 504 (559)
T KOG1155|consen 432 SRLWVALGECYEKLNRLEEAIKCYKRAIL-L-----GDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDD 504 (559)
T ss_pred hHHHHHHHHHHHHhccHHHHHHHHHHHHh-c-----ccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccch
Confidence 36778899999999999999999988532 2 111 23468899999999999999999999855443 222 34
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.-.+... ..+.++...+||.+|+.+-.....
T Consensus 505 ~t~ka~~--fLA~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 505 ETIKARL--FLAEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHHHHH--HHHHHHHhhcchHHHHHHHHHHhc
Confidence 3444443 378888889999998877766665
No 154
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=60.82 E-value=1e+02 Score=32.39 Aligned_cols=104 Identities=14% Similarity=0.092 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccC-CcCChh-------hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhc
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGM-RVIDDT-------FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 214 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~-~~~~~~-------~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~ 214 (443)
.....-++.|.+.|+|..|...+...-..-.+ ++.+++ -|+-.++-.+-.|+..++|..|....+|+...-.
T Consensus 209 ~~~ke~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~ 288 (397)
T KOG0543|consen 209 DRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP 288 (397)
T ss_pred HHHHHhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence 34455678889999999998876553221111 222332 2477889999999999999999999988876644
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 215 SSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 215 ~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
. -.|.-|+ .|+.+...++|..|-..|..+...
T Consensus 289 ~----N~KALyR--rG~A~l~~~e~~~A~~df~ka~k~ 320 (397)
T KOG0543|consen 289 N----NVKALYR--RGQALLALGEYDLARDDFQKALKL 320 (397)
T ss_pred C----chhHHHH--HHHHHHhhccHHHHHHHHHHHHHh
Confidence 3 3456666 477788889999999999888874
No 155
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=60.79 E-value=12 Score=33.98 Aligned_cols=40 Identities=18% Similarity=0.280 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHH
Q 013430 345 LDRAMIEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIA 384 (443)
Q Consensus 345 L~~~viEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~l 384 (443)
++++-+..-..-+++.|++|+.+++|..+|++++++-+.+
T Consensus 114 f~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~i 153 (197)
T KOG4414|consen 114 FRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGI 153 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 3333333334445788999999999999999999887654
No 156
>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=60.73 E-value=33 Score=34.15 Aligned_cols=65 Identities=15% Similarity=0.152 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKAS 210 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~ 210 (443)
.....+|.+|.+.|++++|...+....... .. +.......+...+++++..||+..|...++++.
T Consensus 149 ~~~~~la~i~~~~g~~~eA~~~l~~~l~~~--~~-~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 149 WAVHAVAHVLEMQGRFKEGIAFMESWRDTW--DC-SSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhhhhcc--CC-CcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 345679999999999999999998854321 11 234456778899999999999999999999874
No 157
>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=59.97 E-value=16 Score=28.20 Aligned_cols=33 Identities=21% Similarity=0.400 Sum_probs=30.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
-.++-+.||..+|+|.+.+-+.+.+|..+|-|.
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~ 59 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIE 59 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEE
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 458899999999999999999999999999876
No 158
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=59.90 E-value=1.6e+02 Score=31.01 Aligned_cols=126 Identities=17% Similarity=0.039 Sum_probs=79.2
Q ss_pred HHHHHHHHHHhCCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh
Q 013430 101 RQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD 179 (443)
Q Consensus 101 r~~l~~~~~~l~~l~-~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~ 179 (443)
-.+.-+++..+-.++ .+.-.++.+++|..--+.. +..+ ...+ .-+|...-.+.+..=. +..++
T Consensus 263 p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--L~~~-------~~~l--~~~d~~~l~k~~e~~l-----~~h~~ 326 (400)
T COG3071 263 PELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--LCRL-------IPRL--RPGDPEPLIKAAEKWL-----KQHPE 326 (400)
T ss_pred hhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--HHHH-------Hhhc--CCCCchHHHHHHHHHH-----HhCCC
Confidence 346667888887776 4455777777777653332 2221 1111 2233333333333311 11122
Q ss_pred hhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 180 TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 180 ~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+. .++...-|+|+..+.|.+|+.+++++.....+..|+. ..|..++..++-.+|...+.|...
T Consensus 327 ~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~-------~la~~~~~~g~~~~A~~~r~e~L~ 389 (400)
T COG3071 327 DP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYA-------ELADALDQLGEPEEAEQVRREALL 389 (400)
T ss_pred Ch--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHH-------HHHHHHHHcCChHHHHHHHHHHHH
Confidence 22 7788889999999999999999998777766655544 356778888888888888888774
No 159
>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=59.38 E-value=1.8e+02 Score=30.63 Aligned_cols=94 Identities=21% Similarity=0.198 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.|..-|.+++...+.++.|.+++.++... + -++...++|+++..++-.+|-..++++-..... +.++
T Consensus 170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~------~----pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~--d~~L- 236 (395)
T PF09295_consen 170 YLVDTLLKYLSLTQRYDEAIELLEKLRER------D----PEVAVLLARVYLLMNEEVEAIRLLNEALKENPQ--DSEL- 236 (395)
T ss_pred HHHHHHHHHHhhcccHHHHHHHHHHHHhc------C----CcHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC--CHHH-
Confidence 46677888999999999999999998633 1 136677899999999999998888887643322 3332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-..+++.+..+++|..|......+...
T Consensus 237 ---L~~Qa~fLl~k~~~~lAL~iAk~av~l 263 (395)
T PF09295_consen 237 ---LNLQAEFLLSKKKYELALEIAKKAVEL 263 (395)
T ss_pred ---HHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 346889999999999998888887764
No 160
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=59.01 E-value=66 Score=35.92 Aligned_cols=97 Identities=12% Similarity=0.108 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHhccCHHH----HHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccH
Q 013430 143 IIREKLADLYESEQQWSK----AAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQ 218 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~e----Aa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d 218 (443)
.....||..|...|++++ |...+.....- ++. -.+.+.....+++..+++..|...++++...-. .+
T Consensus 247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l------~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P--~~ 317 (656)
T PRK15174 247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF------NSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP--DL 317 (656)
T ss_pred HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CC
Confidence 456678999999999986 56666654321 121 246777889999999999999999999876533 24
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 219 EVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 219 ~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+.... ..|.++...++|.+|...|..+...
T Consensus 318 ~~a~~----~La~~l~~~G~~~eA~~~l~~al~~ 347 (656)
T PRK15174 318 PYVRA----MYARALRQVGQYTAASDEFVQLARE 347 (656)
T ss_pred HHHHH----HHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 44332 3588888999999999999888764
No 161
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=58.76 E-value=25 Score=24.49 Aligned_cols=34 Identities=21% Similarity=0.319 Sum_probs=30.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
..++..+|++.+|++..-+.+.+..|...|.+.-
T Consensus 13 ~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 13 GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 3489999999999999999999999999988764
No 162
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=58.74 E-value=25 Score=31.93 Aligned_cols=47 Identities=19% Similarity=0.258 Sum_probs=39.0
Q ss_pred HHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE---EEec
Q 013430 352 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR---GSID 398 (443)
Q Consensus 352 hNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~---akID 398 (443)
+-|+.+-+--.+++..+||+.+|+|+.-+-+-+.+|..+|.|. +.+|
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~ 66 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLN 66 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEEC
Confidence 3344445567899999999999999999999999999999885 4566
No 163
>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=58.30 E-value=20 Score=22.74 Aligned_cols=29 Identities=21% Similarity=0.257 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 184 SKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 184 e~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
++|..+.++|...+|+..|..+++++...
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 46777778888888888888888776543
No 164
>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=58.26 E-value=19 Score=22.71 Aligned_cols=27 Identities=11% Similarity=0.020 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGID 169 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~ 169 (443)
..-..+|.+|...|++++|.+.+....
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al 28 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 445789999999999999999988753
No 165
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=58.09 E-value=24 Score=25.38 Aligned_cols=32 Identities=25% Similarity=0.339 Sum_probs=29.7
Q ss_pred cc-CHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 363 NI-SFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 363 ~I-tl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
.+ |..+||+.+|+|..-+.+.+.+|..+|.+.
T Consensus 19 ~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 19 KLPSERELAAQLGVSRTTVREALSRLEAEGLVQ 51 (60)
T ss_pred cCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 46 899999999999999999999999999875
No 166
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=57.45 E-value=1.3e+02 Score=26.99 Aligned_cols=64 Identities=16% Similarity=0.093 Sum_probs=47.1
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhc
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 214 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~ 214 (443)
.-|.-..+.|+|.+|.+.|..|.---.++.. --...|.++-.|...+++..|...+.+-..+-.
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~y----a~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP 78 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDTRYPFGEY----AEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHP 78 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHhcCCCCcc----cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence 4466677899999999999998522123333 335567788899999999999999998554443
No 167
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=57.40 E-value=17 Score=41.81 Aligned_cols=93 Identities=13% Similarity=0.066 Sum_probs=74.8
Q ss_pred HHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHH
Q 013430 148 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKV 227 (443)
Q Consensus 148 LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~ 227 (443)
+|-++...|.|.+|..++..++-.+. .-.++|+-++-.|++.+.|..|-..+.++..+++..++.++..
T Consensus 652 IgiVLA~kg~~~~A~dIFsqVrEa~~-------~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~---- 720 (1018)
T KOG2002|consen 652 IGIVLAEKGRFSEARDIFSQVREATS-------DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLH---- 720 (1018)
T ss_pred hhhhhhhccCchHHHHHHHHHHHHHh-------hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHH----
Confidence 34556678999999999999875441 2346899999999999999999999999999988766777654
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 228 CYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 228 ~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
|.||.+...++|.+|-....-+..
T Consensus 721 ~Lara~y~~~~~~eak~~ll~a~~ 744 (1018)
T KOG2002|consen 721 YLARAWYEAGKLQEAKEALLKARH 744 (1018)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHH
Confidence 578999988998888777666665
No 168
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=57.10 E-value=19 Score=27.78 Aligned_cols=34 Identities=15% Similarity=0.217 Sum_probs=30.2
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
..-++-.++|+.+|+|.-.+-.+|..+..+|++.
T Consensus 13 ~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLSIYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 6678999999999999999999999999999985
No 169
>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=56.94 E-value=16 Score=22.59 Aligned_cols=24 Identities=21% Similarity=0.145 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHh
Q 013430 143 IIREKLADLYESEQQWSKAAQMLS 166 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~ 166 (443)
+....||..+...||+++|...+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 346789999999999999998875
No 170
>PRK04841 transcriptional regulator MalT; Provisional
Probab=56.59 E-value=1e+02 Score=35.24 Aligned_cols=106 Identities=13% Similarity=0.006 Sum_probs=71.0
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHH--HHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQE--VLN 222 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~--~lk 222 (443)
...++..+...|++++|...+....... ...-+....+........+++..||+..|..+..++.......+.+ ...
T Consensus 494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~-~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~ 572 (903)
T PRK04841 494 TSVLGEVHHCKGELARALAMMQQTEQMA-RQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH 572 (903)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHH-hhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence 4567888889999999988887765332 1111223345566777889999999999999998876654332111 111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.......|.++...+++.+|...+.+...
T Consensus 573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~ 601 (903)
T PRK04841 573 EFLLRIRAQLLWEWARLDEAEQCARKGLE 601 (903)
T ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence 12234567777778888888887777655
No 171
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.44 E-value=2.2e+02 Score=28.47 Aligned_cols=97 Identities=14% Similarity=0.039 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
|+...-|-.+|..|.|++|.+.+..+.-|- ..+.. ++-+-+-+-...|....|-.-+++=..++.. |++.
T Consensus 87 RV~~lkam~lEa~~~~~~A~e~y~~lL~dd---pt~~v----~~KRKlAilka~GK~l~aIk~ln~YL~~F~~--D~EA- 156 (289)
T KOG3060|consen 87 RVGKLKAMLLEATGNYKEAIEYYESLLEDD---PTDTV----IRKRKLAILKAQGKNLEAIKELNEYLDKFMN--DQEA- 156 (289)
T ss_pred hHHHHHHHHHHHhhchhhHHHHHHHHhccC---cchhH----HHHHHHHHHHHcCCcHHHHHHHHHHHHHhcC--cHHH-
Confidence 445567889999999999999999986542 11111 1113333333445555555555554445543 4433
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+...+.+|...++|..|+.||-|+.-+
T Consensus 157 ---W~eLaeiY~~~~~f~kA~fClEE~ll~ 183 (289)
T KOG3060|consen 157 ---WHELAEIYLSEGDFEKAAFCLEELLLI 183 (289)
T ss_pred ---HHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence 234578899999999999999999875
No 172
>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=56.34 E-value=50 Score=27.24 Aligned_cols=46 Identities=4% Similarity=0.083 Sum_probs=38.4
Q ss_pred cccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 360 LYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
.-..++-.+||+++|++.+-+-+.+.++...|-|. .++..|.+-.+
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~--r~~~~~~~~~n 89 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIF--RQGMMGIVGVN 89 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCee--eecCCceeecC
Confidence 46789999999999999999999999999999996 34445666544
No 173
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=56.02 E-value=29 Score=31.12 Aligned_cols=38 Identities=13% Similarity=0.285 Sum_probs=34.6
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceE---EEecc
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR---GSIDQ 399 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~---akIDQ 399 (443)
.+++..+||+.+|+|+..+-.-+-+|..+|-|. +.+|.
T Consensus 22 ~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 22 ARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 789999999999999999999999999999986 45663
No 174
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=55.84 E-value=1.1e+02 Score=27.31 Aligned_cols=71 Identities=10% Similarity=-0.106 Sum_probs=55.6
Q ss_pred hhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 179 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 179 ~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.......+......+...+|+..|..+++++.......+ + ....+.-.|.++...++|.+|...|.++...
T Consensus 31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~--~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPN--D-RSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccc--h-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345778899999999999999999999998866533211 1 2234566788999999999999999998874
No 175
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=55.49 E-value=1.2e+02 Score=34.10 Aligned_cols=137 Identities=17% Similarity=0.171 Sum_probs=82.0
Q ss_pred eeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhh-----hhhh
Q 013430 97 LVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSG-----IDLD 171 (443)
Q Consensus 97 lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~-----i~~E 171 (443)
+-+-=+|.+..-+.+.+=.++..|.+...--+|..+-+ + -..-|+++.+.|+..+|+.+..+ +..|
T Consensus 667 myTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~k----e-----PkaAAEmLiSaGe~~KAi~i~~d~gW~d~lid 737 (1081)
T KOG1538|consen 667 MYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIK----E-----PKAAAEMLISAGEHVKAIEICGDHGWVDMLID 737 (1081)
T ss_pred HHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcC----C-----cHHHHHHhhcccchhhhhhhhhcccHHHHHHH
Confidence 33444555555556676677888888887778874332 1 12356778888888888877643 2223
Q ss_pred ccCCcCChhh-----HHHHHH--------------------HHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHH
Q 013430 172 SGMRVIDDTF-----RLSKCV--------------------QIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYK 226 (443)
Q Consensus 172 t~~~~~~~~~-----Kle~~L--------------------~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~ 226 (443)
- .+++|..+ ++..|+ .+++|+.+.++|+.|-.+..+ .|++.--.|
T Consensus 738 I-~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W~eAFalAe~---------hPe~~~dVy 807 (1081)
T KOG1538|consen 738 I-ARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRWDEAFALAEK---------HPEFKDDVY 807 (1081)
T ss_pred H-HhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccchHhHhhhhh---------Ccccccccc
Confidence 2 12233221 122221 234555555555555544432 444444445
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 227 VCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 227 ~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.-+|+-+.....|.||.+.|+.+-.+
T Consensus 808 ~pyaqwLAE~DrFeEAqkAfhkAGr~ 833 (1081)
T KOG1538|consen 808 MPYAQWLAENDRFEEAQKAFHKAGRQ 833 (1081)
T ss_pred chHHHHhhhhhhHHHHHHHHHHhcch
Confidence 56789999999999999999987653
No 176
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=55.18 E-value=80 Score=31.25 Aligned_cols=95 Identities=16% Similarity=0.067 Sum_probs=74.4
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 225 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y 225 (443)
..+++-+...|+=+.++.+++.+-... -++.+ +...+.+..+..+|+..|...++|+..+-.. ||+..
T Consensus 70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~----~~d~~---ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~--d~~~~--- 137 (257)
T COG5010 70 AKLATALYLRGDADSSLAVLQKSAIAY----PKDRE---LLAAQGKNQIRNGNFGEAVSVLRKAARLAPT--DWEAW--- 137 (257)
T ss_pred HHHHHHHHhcccccchHHHHhhhhccC----cccHH---HHHHHHHHHHHhcchHHHHHHHHHHhccCCC--Chhhh---
Confidence 678888889999999998888865443 23333 2223889999999999999999998887554 77653
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 226 KVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 226 ~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
...|-.|+..|+|.+|-..|..++..+
T Consensus 138 -~~lgaaldq~Gr~~~Ar~ay~qAl~L~ 164 (257)
T COG5010 138 -NLLGAALDQLGRFDEARRAYRQALELA 164 (257)
T ss_pred -hHHHHHHHHccChhHHHHHHHHHHHhc
Confidence 346888999999999999999999864
No 177
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.79 E-value=1.6e+02 Score=34.13 Aligned_cols=55 Identities=16% Similarity=0.112 Sum_probs=42.9
Q ss_pred HHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 189 IARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 189 i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.-+.||..|+|.+|..+-+- .|+-.-..+.-+|-.+.++++|..||..|-+.+..
T Consensus 364 vWk~yLd~g~y~kAL~~ar~---------~p~~le~Vl~~qAdf~f~~k~y~~AA~~yA~t~~~ 418 (911)
T KOG2034|consen 364 VWKTYLDKGEFDKALEIART---------RPDALETVLLKQADFLFQDKEYLRAAEIYAETLSS 418 (911)
T ss_pred HHHHHHhcchHHHHHHhccC---------CHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhh
Confidence 45799999999999877652 24433344466899999999999999999998764
No 178
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=54.06 E-value=23 Score=23.25 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhh
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGID 169 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~ 169 (443)
+.....||.+|...|++++|.+.+.+..
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 3456789999999999999999998864
No 179
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.05 E-value=2.4e+02 Score=28.17 Aligned_cols=103 Identities=17% Similarity=0.193 Sum_probs=56.9
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-hhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc-HH-----
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ-QE----- 219 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~-d~----- 219 (443)
+=++.||.+..|=-||+.....-.-. +.++. .+-++++-+-+.+|.+.|-..-|-..+.||...+.++. +.
T Consensus 56 kA~~~yEnnrslfhAAKayEqaamLa--ke~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlY 133 (308)
T KOG1585|consen 56 KASKGYENNRSLFHAAKAYEQAAMLA--KELSKLSEVVDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLY 133 (308)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHHHH--HHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHH
Confidence 33445555555544444443322110 11121 24566667777777777777777777777666665432 11
Q ss_pred -------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 220 -------------VLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 220 -------------~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
..-..++--.++++..-++|.||+..+..-..
T Consensus 134 qralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~ 178 (308)
T KOG1585|consen 134 QRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGV 178 (308)
T ss_pred HHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhh
Confidence 11222333446677777888888887766554
No 180
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=53.97 E-value=1.9e+02 Score=26.93 Aligned_cols=108 Identities=13% Similarity=0.038 Sum_probs=57.5
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhh------cCCHHHHHHHH---HHhhhhhc
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLE------DDDAVNAEAFI---NKASFLVS 214 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~------~~D~~~A~~~l---~Ka~~~~~ 214 (443)
....+|..+...|++.+|...+...... +..-+...-+-+++-.+..-.. ..|...++..+ ........
T Consensus 44 A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP 121 (203)
T PF13525_consen 44 AQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRYP 121 (203)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH-T
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHHHCc
Confidence 3678999999999999999999997543 2221111122222221111111 34444444333 33333333
Q ss_pred ccc---H-----HHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 215 SSQ---Q-----EVL---NLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 215 ~~~---d-----~~l---k~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
+.+ + .++ ....-...|+.+...++|..|..+|..+....
T Consensus 122 ~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~y 171 (203)
T PF13525_consen 122 NSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENY 171 (203)
T ss_dssp TSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHS
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence 221 1 112 22233445888888999999999999999864
No 181
>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=53.87 E-value=34 Score=24.33 Aligned_cols=31 Identities=23% Similarity=0.509 Sum_probs=25.6
Q ss_pred hcccccCHHHHHHHhCCChHHHHHHHHhhhh
Q 013430 359 KLYTNISFEELGTLLGIAPQKAEKIASRMIF 389 (443)
Q Consensus 359 k~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~ 389 (443)
.||...|++++|+.+|+|...|-....+.+.
T Consensus 16 ~y~~~~t~~eIa~~lg~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 16 RYFEGLTLEEIAERLGISRSTVRRILKRALK 46 (50)
T ss_dssp HHTST-SHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred HhcCCCCHHHHHHHHCCcHHHHHHHHHHHHH
Confidence 3589999999999999999998887776653
No 182
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.66 E-value=2.4e+02 Score=28.00 Aligned_cols=103 Identities=13% Similarity=-0.030 Sum_probs=68.4
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-cHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNL 223 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~d~~lk~ 223 (443)
-.+.|+++.+.|+.++|+..+.+.- - ++++.++.+-++..-.-+.+|...|.+..|-.+---+....... .|-+--+
T Consensus 57 flkaA~~h~k~~skhDaat~YveA~-~-cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI 134 (288)
T KOG1586|consen 57 FLKAADLHLKAGSKHDAATTYVEAA-N-CYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAI 134 (288)
T ss_pred HHHHHHHHHhcCCchhHHHHHHHHH-H-HhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHH
Confidence 4567888888888888888887743 2 37888888888888888888888888888777666666665543 3334344
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDI 249 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~ 249 (443)
.+|+.-|.+|..+..-..|-+++...
T Consensus 135 ~~YE~Aae~yk~ees~ssANKC~lKv 160 (288)
T KOG1586|consen 135 AHYEQAAEYYKGEESVSSANKCLLKV 160 (288)
T ss_pred HHHHHHHHHHcchhhhhhHHHHHHHH
Confidence 55555555555444444444444443
No 183
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=53.51 E-value=70 Score=31.42 Aligned_cols=63 Identities=13% Similarity=0.129 Sum_probs=47.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC-EEEECCcchHHHHHHHHHHHHHHHH
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA-VIHFEDDTEELQQWDQQIVGLCQAL 427 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g-iV~F~~~~~~l~~W~~~I~~l~~~v 427 (443)
-++.-+++|..+|++++.+-..+-+||.+|-+.- ...| ++..++.-+-+.+|-.+++...+.+
T Consensus 24 p~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~---~gR~~Y~iTkkG~e~l~~~~~dlr~f~~ev 87 (260)
T COG1497 24 PRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK---EGRGEYEITKKGAEWLLEQLSDLRRFSEEV 87 (260)
T ss_pred CCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee---cCCeeEEEehhHHHHHHHHHHHHHHHHHHH
Confidence 5688999999999999999999999999998764 2222 3444444456667777777777666
No 184
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=53.34 E-value=73 Score=34.28 Aligned_cols=67 Identities=21% Similarity=0.134 Sum_probs=49.8
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhh-hccCCcCChh-hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDL-DSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~-Et~~~~~~~~-~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
.-.+||++||+-+|..+|+..+..-.. ....|..+++ .|..++ .++-+...+|+.+|..|.+++..-
T Consensus 468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~f--LA~~f~k~~~~~~As~Ya~~~~~~ 536 (559)
T KOG1155|consen 468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLF--LAEYFKKMKDFDEASYYATLVLKG 536 (559)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHH--HHHHHHhhcchHHHHHHHHHHhcC
Confidence 457899999999999999988765321 1223455553 466666 577888999999999999887654
No 185
>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=52.95 E-value=54 Score=28.71 Aligned_cols=45 Identities=7% Similarity=0.049 Sum_probs=37.2
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
.++.++||+.+++|+..+++++.++...|-+...=....|+.--.
T Consensus 25 ~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~ 69 (135)
T TIGR02010 25 PVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGR 69 (135)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccC
Confidence 599999999999999999999999999999876544455554333
No 186
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=52.93 E-value=87 Score=27.64 Aligned_cols=66 Identities=9% Similarity=0.274 Sum_probs=44.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceE-EEec-cCCCE-EEECC--cc-------hHHHHHHHHHHHHHHHHH
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR-GSID-QVEAV-IHFED--DT-------EELQQWDQQIVGLCQALN 428 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~-akID-Qv~gi-V~F~~--~~-------~~l~~W~~~I~~l~~~v~ 428 (443)
-.|.++||+.++++..-|.+-+-+++.-|-+. =+.. ...|. -.+.+ ++ +.+++|..++.+.++...
T Consensus 42 ~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~~~~i~~~~ 119 (126)
T COG3355 42 PLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKMKQLIEEFE 119 (126)
T ss_pred CcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35788999999999999999999999999773 2332 23333 23322 11 346667666666655544
No 187
>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=52.67 E-value=23 Score=30.68 Aligned_cols=36 Identities=14% Similarity=0.183 Sum_probs=33.0
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEe
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 397 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akI 397 (443)
..++.++||+.+|+|...+.+.+..+...|-+.+.-
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~ 59 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKR 59 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecC
Confidence 468999999999999999999999999999997753
No 188
>PRK12370 invasion protein regulator; Provisional
Probab=52.34 E-value=1.1e+02 Score=33.35 Aligned_cols=94 Identities=9% Similarity=-0.064 Sum_probs=61.3
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
...+|.++...|++++|...+.....- ++. -.+.+.....++...|++..|...+.++...-.. ++...
T Consensus 341 ~~~lg~~~~~~g~~~~A~~~~~~Al~l------~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~~~~~-- 409 (553)
T PRK12370 341 LGLLGLINTIHSEYIVGSLLFKQANLL------SPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--RAAAG-- 409 (553)
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHh------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--ChhhH--
Confidence 446788888889999998888775321 111 1235566678888889999999999887666433 22211
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+ ..+.++...++|.+|...|.++..
T Consensus 410 ~--~~~~~~~~~g~~eeA~~~~~~~l~ 434 (553)
T PRK12370 410 I--TKLWITYYHTGIDDAIRLGDELRS 434 (553)
T ss_pred H--HHHHHHHhccCHHHHHHHHHHHHH
Confidence 1 122334446778888888777764
No 189
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=51.82 E-value=85 Score=38.09 Aligned_cols=75 Identities=15% Similarity=0.186 Sum_probs=60.3
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
+-.+|+.+|+..+++++|.++|+.+..-. ++...+|+.-+...+..++-..|+..+++|.....+-.+-+.--
T Consensus 1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF-------~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~Is 1604 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKF-------GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFIS 1604 (1710)
T ss_pred HHHHHHHHHHHhhcchhHHHHHHHHHHHh-------cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHH
Confidence 46789999999999999999999975432 26788999999999999999999999999887776544444433
Q ss_pred HH
Q 013430 224 QY 225 (443)
Q Consensus 224 ~y 225 (443)
+|
T Consensus 1605 kf 1606 (1710)
T KOG1070|consen 1605 KF 1606 (1710)
T ss_pred HH
Confidence 33
No 190
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=51.77 E-value=43 Score=23.07 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHH
Q 013430 184 SKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVL 221 (443)
Q Consensus 184 e~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~l 221 (443)
+.++...+.|...|++.+|...++++.....+ +++.
T Consensus 2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~--~~~a 37 (44)
T PF13428_consen 2 AAWLALARAYRRLGQPDEAERLLRRALALDPD--DPEA 37 (44)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC--CHHH
Confidence 45778899999999999999999998776543 4443
No 191
>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=51.36 E-value=1.4e+02 Score=24.87 Aligned_cols=64 Identities=13% Similarity=0.060 Sum_probs=49.2
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.+.....+..++..+++..|...+.++...-.. +++ .+...|..+...++|.+|...|..+...
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~--~~~----~~~~la~~~~~~~~~~~A~~~~~~~~~~ 80 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY--NSR----YWLGLAACCQMLKEYEEAIDAYALAAAL 80 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC--cHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 567888899999999999999999987665322 332 2334677888889999999999887763
No 192
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=50.78 E-value=29 Score=25.09 Aligned_cols=37 Identities=11% Similarity=0.275 Sum_probs=30.9
Q ss_pred hhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 358 SKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 358 sk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
++.=..+++.+||+.+|+|..-+-+++..|...|-+.
T Consensus 13 ~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 13 AESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp HCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 3344558999999999999999999999999998764
No 193
>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=50.70 E-value=54 Score=23.96 Aligned_cols=30 Identities=20% Similarity=0.214 Sum_probs=28.0
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
+..+||+.+|+|...+-+.+.+|...|-|.
T Consensus 27 ~~~~la~~~~is~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 27 SERELAEELGVSRTTVREALRELEAEGLVE 56 (66)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 489999999999999999999999999875
No 194
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=50.36 E-value=2.2e+02 Score=26.59 Aligned_cols=85 Identities=15% Similarity=0.002 Sum_probs=59.0
Q ss_pred ccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHH-
Q 013430 155 EQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARIL- 233 (443)
Q Consensus 155 ~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~- 233 (443)
.++.+++...++...... ..-.+.|....++|+..+++..|...++++.....+ ++++... .|..+
T Consensus 52 ~~~~~~~i~~l~~~L~~~-------P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~--~~~~~~~----lA~aL~ 118 (198)
T PRK10370 52 QQTPEAQLQALQDKIRAN-------PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE--NAELYAA----LATVLY 118 (198)
T ss_pred chhHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHH----HHHHHH
Confidence 455666666665533221 123668999999999999999999999998887654 5554433 35543
Q ss_pred HHHHH--HHHHHHHHHHHHhh
Q 013430 234 DLKRK--FLEAALRYYDISQI 252 (443)
Q Consensus 234 ~~~r~--f~eAa~~y~e~~~t 252 (443)
...++ +.+|-..|.++...
T Consensus 119 ~~~g~~~~~~A~~~l~~al~~ 139 (198)
T PRK10370 119 YQAGQHMTPQTREMIDKALAL 139 (198)
T ss_pred HhcCCCCcHHHHHHHHHHHHh
Confidence 44455 58999999998875
No 195
>PLN03077 Protein ECB2; Provisional
Probab=50.22 E-value=65 Score=36.93 Aligned_cols=91 Identities=13% Similarity=0.097 Sum_probs=49.3
Q ss_pred HHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh--------------------
Q 013430 150 DLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA-------------------- 209 (443)
Q Consensus 150 ~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka-------------------- 209 (443)
..+...|++++|.+++..+..+- +- . -.++.|-..+.++...|++..|..++++.
T Consensus 597 ~a~~~~g~v~ea~~~f~~M~~~~--gi-~--P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~ 671 (857)
T PLN03077 597 CACSRSGMVTQGLEYFHSMEEKY--SI-T--PNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHR 671 (857)
T ss_pred HHHhhcChHHHHHHHHHHHHHHh--CC-C--CchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Confidence 44556666666666666654221 11 1 12345666666666666666666666543
Q ss_pred ------------hhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 210 ------------SFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 210 ------------~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
...-.. ...+|...+.+|...++|.+|.+.....-.
T Consensus 672 ~~e~~e~~a~~l~~l~p~------~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~ 719 (857)
T PLN03077 672 HVELGELAAQHIFELDPN------SVGYYILLCNLYADAGKWDEVARVRKTMRE 719 (857)
T ss_pred ChHHHHHHHHHHHhhCCC------CcchHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence 211100 123455666677777777777776666554
No 196
>PF13934 ELYS: Nuclear pore complex assembly
Probab=49.48 E-value=1.6e+02 Score=28.38 Aligned_cols=119 Identities=19% Similarity=0.162 Sum_probs=73.8
Q ss_pred cCCCCcch---hhHhhhhhhcCCcceeecHHHHHHHHHHhCCCCh-HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH
Q 013430 75 VRPYPFSI---FKFFFCAVLSDDVPLVVSRQLLQTFAQELGRLEP-ETQKEIANYTLAQIQPRVVSFEEQVLIIREKLAD 150 (443)
Q Consensus 75 ~~~~~~~~---~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~~-~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~ 150 (443)
...||... |+++++.+++.++....+..++==+...+++..+ +...++.. ...=+.+ -+...-|=
T Consensus 18 ~~~YPP~s~~~L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~~~~~~~Fa~---~f~ip~~--------~~~~~~g~ 86 (226)
T PF13934_consen 18 TGLYPPKSDNDLRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRPSELAESFAR---AFGIPPK--------YIKFIQGF 86 (226)
T ss_pred CCCCCccCHHHHHHHHHHHhcCCcCHHHhHHHHHHHHHhcCccccccHHHHHHH---HhCCCHH--------HHHHHHHH
Confidence 35699999 9999999999999887555544333344443322 11122211 1111111 12334566
Q ss_pred HHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc
Q 013430 151 LYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS 215 (443)
Q Consensus 151 iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~ 215 (443)
-+.+.+++++|.+.|.+.- +.+ .+.-+|++..+..++...|-.+++-+......
T Consensus 87 W~LD~~~~~~A~~~L~~ps-------~~~----~~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s 140 (226)
T PF13934_consen 87 WLLDHGDFEEALELLSHPS-------LIP----WFPDKILQALLRRGDPKLALRYLRAVGPPLSS 140 (226)
T ss_pred HHhChHhHHHHHHHhCCCC-------CCc----ccHHHHHHHHHHCCChhHHHHHHHhcCCCCCC
Confidence 6778899999999996632 221 12234666667789999999999987777654
No 197
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=48.39 E-value=51 Score=28.34 Aligned_cols=42 Identities=17% Similarity=0.101 Sum_probs=35.1
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVI 404 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV 404 (443)
.++.++||+.+|+|+..+.+.+..|...|-+...-....|+.
T Consensus 25 ~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~ 66 (132)
T TIGR00738 25 PVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYR 66 (132)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCcc
Confidence 689999999999999999999999999998876433434543
No 198
>PRK04841 transcriptional regulator MalT; Provisional
Probab=48.30 E-value=2.1e+02 Score=32.77 Aligned_cols=108 Identities=9% Similarity=-0.068 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
.+...++.++...|++++|...+....... ..-+.....-........+...+|+..|..++.++.......+++...
T Consensus 453 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~ 530 (903)
T PRK04841 453 EFNALRAQVAINDGDPEEAERLAELALAEL--PLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYA 530 (903)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHH
Confidence 344456788889999999999887753211 111111233344556677888999999999999887665544444333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.......|.++...+++.+|...+.++...
T Consensus 531 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~ 560 (903)
T PRK04841 531 LWSLLQQSEILFAQGFLQAAYETQEKAFQL 560 (903)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 334455688888899999998888776653
No 199
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=48.28 E-value=1.1e+02 Score=36.07 Aligned_cols=94 Identities=9% Similarity=-0.013 Sum_probs=45.2
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQY 225 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y 225 (443)
..+|.++.+.|++++|...+.....- ++. -.+.+......+...+++..|...++++...... +++.
T Consensus 613 ~~LA~~l~~lG~~deA~~~l~~AL~l------~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~--~~~a---- 679 (987)
T PRK09782 613 VARATIYRQRHNVPAAVSDLRAALEL------EPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLPD--DPAL---- 679 (987)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh------CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHH----
Confidence 34455555555555555555443211 111 1134444444445555555555555555443221 2222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 226 KVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 226 ~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
....|..+...+++.+|-.+|..+...
T Consensus 680 ~~nLA~al~~lGd~~eA~~~l~~Al~l 706 (987)
T PRK09782 680 IRQLAYVNQRLDDMAATQHYARLVIDD 706 (987)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence 223456666667777776666666654
No 200
>PRK09954 putative kinase; Provisional
Probab=48.15 E-value=58 Score=33.16 Aligned_cols=54 Identities=13% Similarity=0.192 Sum_probs=42.4
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE---EEeccCCCEEEEC
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR---GSIDQVEAVIHFE 407 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~---akIDQv~giV~F~ 407 (443)
|+.+-+--.+++..+||+.||+|...+-+.+.+|..+|.+. ..+|+..+++.+.
T Consensus 8 il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG 64 (362)
T PRK09954 8 ILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVG 64 (362)
T ss_pred HHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEE
Confidence 33443444689999999999999999999999999999884 4566777665544
No 201
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.02 E-value=1.3e+02 Score=28.73 Aligned_cols=64 Identities=19% Similarity=0.095 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhc
Q 013430 143 IIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 214 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~ 214 (443)
-+..+||.+..+.|++++|.+.|..+.-+. +.+ .+--..--+++..||-..|+..+.++.....
T Consensus 127 l~~lRLArvq~q~~k~D~AL~~L~t~~~~~-w~~-------~~~elrGDill~kg~k~~Ar~ay~kAl~~~~ 190 (207)
T COG2976 127 LAALRLARVQLQQKKADAALKTLDTIKEES-WAA-------IVAELRGDILLAKGDKQEARAAYEKALESDA 190 (207)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHhcccccc-HHH-------HHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence 347789999999999999999999875442 222 2223334467789999999999999988863
No 202
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=47.90 E-value=1.8e+02 Score=26.56 Aligned_cols=95 Identities=9% Similarity=-0.004 Sum_probs=74.7
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
-..+|-.+.+.|++++|.++.+-+-. =|-.-.++|.-..-.|-..++|..|-..+.++..+-.+ ||.-
T Consensus 38 lY~~A~~ly~~G~l~~A~~~f~~L~~-------~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d--dp~~--- 105 (157)
T PRK15363 38 LYRYAMQLMEVKEFAGAARLFQLLTI-------YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID--APQA--- 105 (157)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH-------hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CchH---
Confidence 46788889999999999999988632 23455778888899999999999999999998777654 4432
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+-..|..+..-|+...|-..|..+...
T Consensus 106 -~~~ag~c~L~lG~~~~A~~aF~~Ai~~ 132 (157)
T PRK15363 106 -PWAAAECYLACDNVCYAIKALKAVVRI 132 (157)
T ss_pred -HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 123577788889999999999888874
No 203
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=47.67 E-value=1.3e+02 Score=26.40 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=39.5
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~gi 403 (443)
-..++..+||+.+|+++.-+=..+.+|+..|-|.=.-|..|+-
T Consensus 52 ~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR 94 (144)
T PRK11512 52 AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKR 94 (144)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCC
Confidence 3579999999999999999999999999999999998888873
No 204
>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=47.25 E-value=38 Score=21.27 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=12.6
Q ss_pred HHHHHHHHhhhcCCHHHHHHHHHHhh
Q 013430 185 KCVQIARLYLEDDDAVNAEAFINKAS 210 (443)
Q Consensus 185 ~~L~i~RL~L~~~D~~~A~~~l~Ka~ 210 (443)
.+..+..+|...+++.+|...++++.
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al 28 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 34444555555555555555555443
No 205
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=47.14 E-value=34 Score=31.36 Aligned_cols=46 Identities=11% Similarity=0.080 Sum_probs=38.5
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
..++.++||+.+|+|+..+++++..+...|-+...=....|+.--.
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar 69 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGK 69 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccC
Confidence 4599999999999999999999999999999987555556654333
No 206
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=45.87 E-value=61 Score=29.18 Aligned_cols=54 Identities=22% Similarity=0.158 Sum_probs=42.2
Q ss_pred HHHHHhhccc--ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEE
Q 013430 353 NLLSASKLYT--NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHF 406 (443)
Q Consensus 353 NL~~isk~Ys--~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F 406 (443)
-|.-++.-.. -++.+.||+..|+|+..++++++.+...|-+...==...|+.--
T Consensus 13 ~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~La 68 (150)
T COG1959 13 ALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLA 68 (150)
T ss_pred HHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCC
Confidence 3334444433 68899999999999999999999999999998776666666533
No 207
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.65 E-value=70 Score=31.75 Aligned_cols=98 Identities=10% Similarity=-0.082 Sum_probs=45.0
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc-ccHHHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS-SQQEVLNLQ 224 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~-~~d~~lk~~ 224 (443)
...|-=+...|||.+|...+..-..- +-.-+--.-.-+||-+ .++..+|+..|..+..++..-..+ ...|+-.++
T Consensus 145 Y~~A~~~~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe--~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK 220 (262)
T COG1729 145 YNAALDLYKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGE--SLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK 220 (262)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHH--HHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence 34444455556666666655553211 1111111234455544 334556666666555554333322 234444444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
. |.+....++-.+|+..|-++..
T Consensus 221 l----g~~~~~l~~~d~A~atl~qv~k 243 (262)
T COG1729 221 L----GVSLGRLGNTDEACATLQQVIK 243 (262)
T ss_pred H----HHHHHHhcCHHHHHHHHHHHHH
Confidence 4 3333344555555555555543
No 208
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=45.65 E-value=2.1e+02 Score=29.84 Aligned_cols=61 Identities=16% Similarity=0.139 Sum_probs=46.3
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcC--CHHHHHHHHHHhh
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDD--DAVNAEAFINKAS 210 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~--D~~~A~~~l~Ka~ 210 (443)
....|.-....++|..|++++.++.. + +++..+.+.+-..++.|..++ |+.+|...+++..
T Consensus 134 ~~~~a~~l~n~~~y~aA~~~l~~l~~----r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~ 196 (379)
T PF09670_consen 134 EWRRAKELFNRYDYGAAARILEELLR----R-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLL 196 (379)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH----h-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence 45667777899999999999999752 3 566655788888888888775 6777777777543
No 209
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=45.65 E-value=2.6e+02 Score=26.16 Aligned_cols=53 Identities=13% Similarity=0.069 Sum_probs=43.4
Q ss_pred HHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 350 IEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 350 iEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
.++.++.+..-...++..+||+.++++..-+=..+.+|...|-|.=..|..|+
T Consensus 46 ~q~~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~Dr 98 (185)
T PRK13777 46 NEHHILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDK 98 (185)
T ss_pred HHHHHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCC
Confidence 34555555545568999999999999999999999999999999877777666
No 210
>PRK12370 invasion protein regulator; Provisional
Probab=45.53 E-value=1.3e+02 Score=32.66 Aligned_cols=96 Identities=15% Similarity=-0.062 Sum_probs=64.7
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
....+|.++...|++++|...+.....- ++.. ...+...+.+++..+++..|...+.++...... +++.
T Consensus 374 a~~~lg~~l~~~G~~~eAi~~~~~Al~l------~P~~-~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p-~~~~--- 442 (553)
T PRK12370 374 IKYYYGWNLFMAGQLEEALQTINECLKL------DPTR-AAAGITKLWITYYHTGIDDAIRLGDELRSQHLQ-DNPI--- 442 (553)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhc------CCCC-hhhHHHHHHHHHhccCHHHHHHHHHHHHHhccc-cCHH---
Confidence 3567899999999999999999885321 2221 112222344566678999999998886544311 2233
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+...|.++...|++.+|...|..+..
T Consensus 443 -~~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 443 -LLSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred -HHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 234467888889999999998877654
No 211
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=45.28 E-value=2.9e+02 Score=26.67 Aligned_cols=105 Identities=14% Similarity=0.063 Sum_probs=63.7
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHh---h-------------hcCCHHHHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY---L-------------EDDDAVNAEAFIN 207 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~---L-------------~~~D~~~A~~~l~ 207 (443)
....||..|.+.|++.+|...++..-.. .++..+++..+-..=++ + ...|...++..++
T Consensus 71 a~l~la~ayy~~~~y~~A~~~~e~fi~~-----~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~ 145 (243)
T PRK10866 71 VQLDLIYAYYKNADLPLAQAAIDRFIRL-----NPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFR 145 (243)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHH
Confidence 3679999999999999999999886422 33344544322222221 1 2346665664444
Q ss_pred ---Hhhhhhcccc-HH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 208 ---KASFLVSSSQ-QE----------VLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 208 ---Ka~~~~~~~~-d~----------~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
+......+.+ .+ +...+.-..-|++|...++|..|..+|.++....
T Consensus 146 ~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Y 205 (243)
T PRK10866 146 DFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDY 205 (243)
T ss_pred HHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHC
Confidence 3333332221 01 1222334456778888999999999999999863
No 212
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=45.12 E-value=1.7e+02 Score=25.40 Aligned_cols=41 Identities=10% Similarity=0.050 Sum_probs=37.4
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~gi 403 (443)
.++..+||+.+|++..-+=+.+.+|...|-+.-.-|..|+-
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR 86 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRR 86 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcC
Confidence 47889999999999999999999999999999888877773
No 213
>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=45.03 E-value=48 Score=23.27 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=20.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhh
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRM 387 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~M 387 (443)
.+.++..||+.+|+|+..+-.=+.+|
T Consensus 16 ~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 16 GRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 88999999999999999887766654
No 214
>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=44.68 E-value=61 Score=24.48 Aligned_cols=34 Identities=12% Similarity=0.280 Sum_probs=30.0
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
=..|+..+||+.||+++.-|=+.+.++-..|-+.
T Consensus 20 ~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 20 GGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp TSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEE
Confidence 4779999999999999999999999999998774
No 215
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=44.16 E-value=65 Score=32.13 Aligned_cols=39 Identities=13% Similarity=0.179 Sum_probs=34.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQV 400 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv 400 (443)
-.|++.+||+.++||.+++-..+......+.|+|++|..
T Consensus 129 G~vsi~eLa~~~~Lp~efl~~~li~~~lg~~I~g~~d~~ 167 (272)
T PF09743_consen 129 GQVSISELAKQYDLPSEFLKEELISKRLGKIIKGRLDGD 167 (272)
T ss_pred CeEeHHHHHHhcCCcHHHHHHHHhhhhcCcceeEEEeCC
Confidence 578999999999999999996666668888999999987
No 216
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=43.81 E-value=2.6e+02 Score=25.69 Aligned_cols=73 Identities=8% Similarity=-0.038 Sum_probs=58.1
Q ss_pred CChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 177 IDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 177 ~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
..+.+.-+.+...+..|...||...|-..+.++.... ..+..++......+++....+||..+..+...+-.+
T Consensus 30 ~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~---~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~ 102 (177)
T PF10602_consen 30 LGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYC---TSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL 102 (177)
T ss_pred cchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhc---CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 4455667788899999999999999999999866643 345556666677889999999999998887777664
No 217
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=43.76 E-value=45 Score=29.29 Aligned_cols=38 Identities=24% Similarity=0.340 Sum_probs=33.9
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCce---EEEecc
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRM---RGSIDQ 399 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL---~akIDQ 399 (443)
.++++.+||+.+|+|+..+-.-+-++..+|-| .+.+|.
T Consensus 21 ~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 21 ARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 44999999999999999999999999999976 566775
No 218
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=42.14 E-value=57 Score=22.10 Aligned_cols=45 Identities=22% Similarity=0.419 Sum_probs=29.8
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHH
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQW 416 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W 416 (443)
++.++|+.+|+++.-+ -+++.+|.+.+.- ..+|-..|.. +.+..|
T Consensus 2 s~~e~a~~lgvs~~tl----~~~~~~g~~~~~~-~~~~~~~~~~--~ei~~~ 46 (49)
T cd04762 2 TTKEAAELLGVSPSTL----RRWVKEGKLKAIR-TPGGHRRFPE--EDLERL 46 (49)
T ss_pred CHHHHHHHHCcCHHHH----HHHHHcCCCCcee-CCCCceecCH--HHHHHH
Confidence 6789999999997754 4566678887643 2346666653 334444
No 219
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.06 E-value=3.7e+02 Score=26.89 Aligned_cols=110 Identities=16% Similarity=0.094 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhH--------------------HHHHHHHHHHhhhcCCHH
Q 013430 141 VLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR--------------------LSKCVQIARLYLEDDDAV 200 (443)
Q Consensus 141 ~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~K--------------------le~~L~i~RL~L~~~D~~ 200 (443)
+..+.++=+.+|.+.|..+-|+..|..--.-+ ....++.- .+++=.-.|++...+-+.
T Consensus 90 vvdl~eKAs~lY~E~GspdtAAmaleKAak~l--env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~ 167 (308)
T KOG1585|consen 90 VVDLYEKASELYVECGSPDTAAMALEKAAKAL--ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT 167 (308)
T ss_pred HHHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence 33555566666777666555544443321111 11222233 344444455555555555
Q ss_pred HHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 201 NAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 201 ~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.|-..+.|-.....+...---..+-++..+.+|.+..||..|=++|.+.+..
T Consensus 168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qi 219 (308)
T KOG1585|consen 168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQI 219 (308)
T ss_pred HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcC
Confidence 5444444422222221111112333455666788899999999999998874
No 220
>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=41.97 E-value=78 Score=23.53 Aligned_cols=44 Identities=14% Similarity=0.179 Sum_probs=33.2
Q ss_pred hcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 359 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 359 k~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
.....++..+|++.++++...+-+.+.+|+..|-+.=.=|..++
T Consensus 14 ~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~ 57 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDK 57 (68)
T ss_dssp --TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCT
T ss_pred ccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcC
Confidence 46788999999999999999999999999999999555444333
No 221
>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=41.51 E-value=42 Score=24.98 Aligned_cols=27 Identities=30% Similarity=0.384 Sum_probs=22.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
..+++++||+.||+|..-+...+-+..
T Consensus 22 R~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 22 RRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 489999999999999888877776543
No 222
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=40.99 E-value=3.5e+02 Score=26.65 Aligned_cols=124 Identities=15% Similarity=0.090 Sum_probs=76.8
Q ss_pred hhHhhhhhhcCCcce----eecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccc-hHHHHHHHHHHHHHHHHHhccC
Q 013430 83 FKFFFCAVLSDDVPL----VVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVV-SFEEQVLIIREKLADLYESEQQ 157 (443)
Q Consensus 83 ~~~~~~~~~~~~~~l----v~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~-sfe~q~a~l~~~LA~iye~~gd 157 (443)
|.-++-.++.+..+. ......+..+++-++..|. --++.-.|++++..+.- .+-.-.-. =..|-+-..+.|+
T Consensus 118 LE~LLh~vL~~e~~~~~~~~~~~~~L~~v~~ll~~f~~--~l~Ivv~C~RKtE~~~W~~LF~~lg~-P~dLf~~cl~~~~ 194 (258)
T PF07064_consen 118 LELLLHTVLEEEADSSEDSPIPDALLPRVISLLQEFPE--YLEIVVNCARKTEVRYWPYLFDYLGS-PRDLFEECLENGN 194 (258)
T ss_pred HHHHHHHHHhhcccccccccchHHHHHHHHHHHHcCcc--hHHHHHHHHHhhHHHHHHHHHHhcCC-HHHHHHHHHHcCc
Confidence 555555666666665 5677788888888877643 33444455555432211 01110001 1234444556899
Q ss_pred HHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 158 WSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 158 ~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
++.|+..|-=++-..+....++++-.+..++.+++.++.++|.-+...++=.
T Consensus 195 l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~Lc~eL~RFL 246 (258)
T PF07064_consen 195 LKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDLCFELVRFL 246 (258)
T ss_pred HHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence 9999998877752221222234556888899999999999999999888733
No 223
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=40.93 E-value=98 Score=27.88 Aligned_cols=42 Identities=12% Similarity=0.035 Sum_probs=36.0
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVI 404 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV 404 (443)
.++.++||+..|+|+..+++++..+...|-+...==...|+.
T Consensus 24 ~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~ 65 (153)
T PRK11920 24 LSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVR 65 (153)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCee
Confidence 489999999999999999999999999998876655555554
No 224
>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=40.88 E-value=59 Score=22.93 Aligned_cols=33 Identities=12% Similarity=0.195 Sum_probs=29.1
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
...+..+|++.+|+|...+-..+..|...|-+.
T Consensus 14 ~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 14 GPLTVSELAEELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCchhhHHHhccccchHHHHHHHHHHHCcCee
Confidence 667899999999999999999999999998764
No 225
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=39.82 E-value=2.2e+02 Score=26.56 Aligned_cols=36 Identities=17% Similarity=0.160 Sum_probs=33.2
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 396 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ak 396 (443)
...+|..+||+.+|+++.-+=+.+.+|...|-+.-.
T Consensus 13 ~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 13 QGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 466999999999999999999999999999999755
No 226
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=39.60 E-value=3.3e+02 Score=30.83 Aligned_cols=107 Identities=15% Similarity=0.078 Sum_probs=71.1
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhh-hhhhccCCcC-----------------------Chh-----hHHHHHHHHHHHhh
Q 013430 144 IREKLADLYESEQQWSKAAQMLSG-IDLDSGMRVI-----------------------DDT-----FRLSKCVQIARLYL 194 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~-i~~Et~~~~~-----------------------~~~-----~Kle~~L~i~RL~L 194 (443)
+-..|++++|+.++.+.|...+.. +. -| -.+. +.. .-..+||+-+|+-+
T Consensus 687 l~lmlGQi~e~~~~ie~aR~aY~~G~k-~c-P~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~El 764 (913)
T KOG0495|consen 687 LWLMLGQIEEQMENIEMAREAYLQGTK-KC-PNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMEL 764 (913)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHhccc-cC-CCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHH
Confidence 566788888888888888766532 21 11 0110 000 11678999999999
Q ss_pred hcCCHHHHHHHHHHhhhhhcccc-----------HHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 195 EDDDAVNAEAFINKASFLVSSSQ-----------QEVLNL-------------QYKVCYARILDLKRKFLEAALRYYDIS 250 (443)
Q Consensus 195 ~~~D~~~A~~~l~Ka~~~~~~~~-----------d~~lk~-------------~y~~~~ari~~~~r~f~eAa~~y~e~~ 250 (443)
..|+..+|+..+.||.......+ .+..+. +.-..-|+++-.+++|..|-.-|..+.
T Consensus 765 R~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Rav 844 (913)
T KOG0495|consen 765 RAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAV 844 (913)
T ss_pred HcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999877554321 111111 122334778888999999988888887
Q ss_pred hh
Q 013430 251 QI 252 (443)
Q Consensus 251 ~t 252 (443)
..
T Consensus 845 k~ 846 (913)
T KOG0495|consen 845 KK 846 (913)
T ss_pred cc
Confidence 64
No 227
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=39.44 E-value=1.2e+02 Score=26.68 Aligned_cols=47 Identities=11% Similarity=0.085 Sum_probs=40.1
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
..++.++||+.+|+|...+++.+.++...|-+..+=-...|+....+
T Consensus 24 ~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~ 70 (141)
T PRK11014 24 RMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKP 70 (141)
T ss_pred CccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCC
Confidence 46899999999999999999999999999999877666667655544
No 228
>PF12854 PPR_1: PPR repeat
Probab=39.35 E-value=36 Score=22.42 Aligned_cols=23 Identities=17% Similarity=0.260 Sum_probs=20.1
Q ss_pred HHHHHHHHhccCHHHHHHHHhhh
Q 013430 146 EKLADLYESEQQWSKAAQMLSGI 168 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i 168 (443)
..|-+-|.+.|++++|.+++.++
T Consensus 11 ~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 11 NTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhC
Confidence 34788899999999999999875
No 229
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=39.26 E-value=1.9e+02 Score=22.75 Aligned_cols=44 Identities=11% Similarity=0.194 Sum_probs=35.5
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE 407 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~ 407 (443)
..+++.+||+.+|+|..-+-+.+..|...|-+... ..+|.....
T Consensus 19 ~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~--~~~~~y~l~ 62 (91)
T smart00346 19 GGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQD--GQNGRYRLG 62 (91)
T ss_pred CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeec--CCCCceeec
Confidence 35999999999999999999999999999988652 234544443
No 230
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=39.04 E-value=61 Score=23.34 Aligned_cols=28 Identities=18% Similarity=0.188 Sum_probs=26.0
Q ss_pred cCHHHHHHHhCCChHHHHHHHHhhhhcC
Q 013430 364 ISFEELGTLLGIAPQKAEKIASRMIFED 391 (443)
Q Consensus 364 Itl~~La~lLgLs~eeaE~~ls~MI~~g 391 (443)
||.++||+.||+|..-+.+.+..+-..|
T Consensus 16 it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 16 ITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp BEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred cCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 9999999999999999999999998888
No 231
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.72 E-value=1.6e+02 Score=29.47 Aligned_cols=64 Identities=20% Similarity=0.129 Sum_probs=40.1
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
=..||++|...|+|.+|+-.+.++.+-+.+-.+=-.-..|++-.+.. ..+...+..++.++...
T Consensus 157 W~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg----~eN~~~arkyy~~alkl 220 (289)
T KOG3060|consen 157 WHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGG----AENLELARKYYERALKL 220 (289)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhh----HHHHHHHHHHHHHHHHh
Confidence 56799999999999999999999876542222111112333332222 44566667777766544
No 232
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.57 E-value=2.2e+02 Score=31.49 Aligned_cols=101 Identities=14% Similarity=0.097 Sum_probs=61.1
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-hhH-HHHHHHHHHHhhhcCCHHHHHHHHHHhhh-hhccccHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-TFR-LSKCVQIARLYLEDDDAVNAEAFINKASF-LVSSSQQEVLN 222 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-~~K-le~~L~i~RL~L~~~D~~~A~~~l~Ka~~-~~~~~~d~~lk 222 (443)
+++.+=+-..|+++.-.+++..+--|-. .+... .-| .-+-+.-+-++|..+|-. |..++-. .+.+-+|++.+
T Consensus 25 Ek~Vk~l~~~~~~~~i~k~I~~L~~d~a-~s~~~n~rkGgLiGlAA~~iaLg~~~~~----Y~~~iv~Pv~~cf~D~d~~ 99 (675)
T KOG0212|consen 25 EKLVKDLVNNNDYDQIRKVISELAGDYA-YSPHANMRKGGLIGLAAVAIALGIKDAG----YLEKIVPPVLNCFSDQDSQ 99 (675)
T ss_pred HHHHHHHHccCcHHHHHHHHHHHHHHhc-cCcccccccchHHHHHHHHHHhccccHH----HHHHhhHHHHHhccCccce
Confidence 4566677888999999999987765541 11111 122 222344445566666654 5665433 33445799999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
.+||.|.+.|...+--=.+.-.+|.++|.
T Consensus 100 vRyyACEsLYNiaKv~k~~v~~~Fn~iFd 128 (675)
T KOG0212|consen 100 VRYYACESLYNIAKVAKGEVLVYFNEIFD 128 (675)
T ss_pred eeeHhHHHHHHHHHHhccCcccchHHHHH
Confidence 99999999887655433333344444443
No 233
>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=37.13 E-value=73 Score=20.13 Aligned_cols=27 Identities=15% Similarity=0.175 Sum_probs=14.5
Q ss_pred HHHHHHHHhhhcCCHHHHHHHHHHhhh
Q 013430 185 KCVQIARLYLEDDDAVNAEAFINKASF 211 (443)
Q Consensus 185 ~~L~i~RL~L~~~D~~~A~~~l~Ka~~ 211 (443)
.|..+...|...+++..|....+++..
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence 455555555556666666555555443
No 234
>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=37.07 E-value=48 Score=25.16 Aligned_cols=37 Identities=14% Similarity=0.088 Sum_probs=33.1
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEe
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSI 397 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akI 397 (443)
....|.++||+.+|+|...+-+.+.+|...|-+.-.-
T Consensus 20 ~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 20 NGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEE
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 5668899999999999999999999999999886544
No 235
>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=37.06 E-value=2.4e+02 Score=25.97 Aligned_cols=64 Identities=17% Similarity=0.208 Sum_probs=43.2
Q ss_pred cHHHHHHHHHHhC---CCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhh
Q 013430 100 SRQLLQTFAQELG---RLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDL 170 (443)
Q Consensus 100 sr~~l~~~~~~l~---~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~ 170 (443)
+..++..+++.+. ...+..-.+.+-..|+.++|+..-+ ..--+-++-..|+|.+|..+|.++.-
T Consensus 6 ~~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~-------~~~~~~l~i~r~~w~dA~rlLr~l~~ 72 (160)
T PF09613_consen 6 SDEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPEL-------DLFDGWLHIVRGDWDDALRLLRELEE 72 (160)
T ss_pred cHHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHH-------HHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence 4556666666542 2223333344455788888887733 34567889999999999999999743
No 236
>PRK11050 manganese transport regulator MntR; Provisional
Probab=35.74 E-value=3.2e+02 Score=24.38 Aligned_cols=35 Identities=11% Similarity=0.195 Sum_probs=31.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEE
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGS 396 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ak 396 (443)
..++..+||+.+|++..-+=..+.+|...|-+.-+
T Consensus 50 ~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~ 84 (152)
T PRK11050 50 GEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMR 84 (152)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 56899999999999999999999999999987654
No 237
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=35.61 E-value=78 Score=30.70 Aligned_cols=43 Identities=9% Similarity=0.134 Sum_probs=35.9
Q ss_pred HHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 353 NLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 353 NL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
.|+.+-+-...++.++||+.||+|..-+.+.+..|...|.+.-
T Consensus 8 ~Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 8 AIVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 3444444578999999999999999999999999999888753
No 238
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=35.30 E-value=1.3e+02 Score=23.90 Aligned_cols=40 Identities=25% Similarity=0.205 Sum_probs=34.7
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
+..+++- +.|+++|-+..|++...+=-.+++|-..|.|.-
T Consensus 11 L~~ls~~--c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 11 LIILSKR--CCTLEELEEKTGISKNTLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHhc--cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeee
Confidence 3444555 999999999999999999999999999998853
No 239
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.11 E-value=2.9e+02 Score=24.44 Aligned_cols=62 Identities=11% Similarity=0.182 Sum_probs=48.2
Q ss_pred HhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHHHHHHHHH
Q 013430 357 ASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGL 423 (443)
Q Consensus 357 isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W~~~I~~l 423 (443)
+.+-=-++|+.+|...+|++-.-++..+.+++..|.|.- ... .=.|.+ ..+..+|+..-.++
T Consensus 20 lVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~---~G~-~GvF~s-eqA~~dw~~~~~~~ 81 (127)
T PF06163_consen 20 LVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLYR---HGR-SGVFPS-EQARKDWDKARKKL 81 (127)
T ss_pred HHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEe---CCC-cccccc-HHHHHHHHHhHHhh
Confidence 355668999999999999999999999999999999863 122 124543 36678898877665
No 240
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=34.89 E-value=81 Score=30.75 Aligned_cols=41 Identities=20% Similarity=0.282 Sum_probs=35.6
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
|+..-+-...++.++||+.||+|..-+.+.+..|-..|.+.
T Consensus 10 Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~ 50 (251)
T PRK13509 10 LLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLK 50 (251)
T ss_pred HHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEE
Confidence 44445557899999999999999999999999999998884
No 241
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.88 E-value=5.7e+02 Score=28.50 Aligned_cols=106 Identities=18% Similarity=0.173 Sum_probs=71.5
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCCh-------------------------hhHHHHHHHHHHHhhhcCCHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDD-------------------------TFRLSKCVQIARLYLEDDDAV 200 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~-------------------------~~Kle~~L~i~RL~L~~~D~~ 200 (443)
+--|.++...|+|++|.++++.|...+ ....+. ..=-+.+.-.+-.+++.++|.
T Consensus 114 ~L~AQvlYrl~~ydealdiY~~L~kn~-~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~ 192 (652)
T KOG2376|consen 114 ELRAQVLYRLERYDEALDIYQHLAKNN-SDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYN 192 (652)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHH
Confidence 344777888889999999998874322 110000 001345666788889999999
Q ss_pred HHHHHHHHhh----hhhccc--cHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 201 NAEAFINKAS----FLVSSS--QQEVLN---LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 201 ~A~~~l~Ka~----~~~~~~--~d~~lk---~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+|...+.++. .....+ ++.+++ ...++.++-++...|+-.+|.+.|-.....
T Consensus 193 qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~ 253 (652)
T KOG2376|consen 193 QAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR 253 (652)
T ss_pred HHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh
Confidence 9999999982 222222 223333 345667777788899999999999988864
No 242
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=34.71 E-value=56 Score=21.54 Aligned_cols=25 Identities=20% Similarity=0.325 Sum_probs=16.5
Q ss_pred HHHHHHHhhhcCCHHHHHHHHHHhh
Q 013430 186 CVQIARLYLEDDDAVNAEAFINKAS 210 (443)
Q Consensus 186 ~L~i~RL~L~~~D~~~A~~~l~Ka~ 210 (443)
+..+.++|...+||.+|..+..++.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 4456677777777777777777654
No 243
>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=34.36 E-value=3.8e+02 Score=25.64 Aligned_cols=68 Identities=18% Similarity=0.246 Sum_probs=57.1
Q ss_pred hhcCCcceeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccc-cchHHHHHHHHHHHHHHHHHhccCHHHHH
Q 013430 90 VLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPR-VVSFEEQVLIIREKLADLYESEQQWSKAA 162 (443)
Q Consensus 90 ~~~~~~~lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~-~~sfe~q~a~l~~~LA~iye~~gd~~eAa 162 (443)
+--|+-+-+-+-.|...+.+..-+-+++-.+.++..+|+..+++ .+.-+. -.-||.+|.+.|+++.|-
T Consensus 130 L~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~ei-----l~sLas~~~~~~~~e~AY 198 (203)
T PF11207_consen 130 LQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEI-----LKSLASIYQKLKNYEQAY 198 (203)
T ss_pred HHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHH-----HHHHHHHHHHhcchhhhh
Confidence 34488888889899999999988999888899999999998888 665433 677999999999999874
No 244
>PRK11189 lipoprotein NlpI; Provisional
Probab=34.21 E-value=2.4e+02 Score=27.86 Aligned_cols=70 Identities=14% Similarity=-0.017 Sum_probs=57.3
Q ss_pred CChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 177 IDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 177 ~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.++....+.|.....+|...|++..|...++++...... +++ .+...|.++...++|.+|...|..+...
T Consensus 58 ~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~--~~~----a~~~lg~~~~~~g~~~~A~~~~~~Al~l 127 (296)
T PRK11189 58 LTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD--MAD----AYNYLGIYLTQAGNFDAAYEAFDSVLEL 127 (296)
T ss_pred CCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC--CHH----HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 566777888999999999999999999999988776433 332 3345788999999999999999999874
No 245
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=34.06 E-value=5.4e+02 Score=27.23 Aligned_cols=117 Identities=17% Similarity=0.129 Sum_probs=81.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhh--c-cCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 133 RVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLD--S-GMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 133 ~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~E--t-~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
+-..+|-| +..-|+.+|-.-.|+++|+-....--.- + +-+.++.++..-...+.+=-+-..|....|+.+-+.+
T Consensus 156 ~D~~LElq---vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea 232 (518)
T KOG1941|consen 156 DDAMLELQ---VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEA 232 (518)
T ss_pred CCceeeee---hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence 34456664 4577999999999999887655442111 1 1122333444333333333334567777888888877
Q ss_pred hhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 210 SFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 210 ~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
..+-..-+|..+..+=-.|+|.||-..++-..|..+|-.+..+
T Consensus 233 ~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~ 275 (518)
T KOG1941|consen 233 MKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGT 275 (518)
T ss_pred HHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHH
Confidence 7776666888888888899999999999999999999999876
No 246
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=33.62 E-value=4.2e+02 Score=29.76 Aligned_cols=100 Identities=11% Similarity=0.048 Sum_probs=77.5
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh--hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT--FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~--~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
.+|--+--.|++..|.+++++...-. ..+.+.. +..+..|.+.++..+.+-...|...+.+..+.+.+ ++.
T Consensus 148 ~~Avs~~L~g~y~~A~~il~ef~~t~-~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D------kla 220 (700)
T KOG1156|consen 148 GFAVAQHLLGEYKMALEILEEFEKTQ-NTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD------KLA 220 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH------HHH
Confidence 34555667789999999999865322 2233333 57999999999999999999999888887777654 566
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
|....+.+++-.++..+|...|.-+..-+
T Consensus 221 ~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn 249 (700)
T KOG1156|consen 221 FEETKADLLMKLGQLEEAVKVYRRLLERN 249 (700)
T ss_pred HhhhHHHHHHHHhhHHhHHHHHHHHHhhC
Confidence 77778888899999999999998888753
No 247
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=33.57 E-value=2.6e+02 Score=22.62 Aligned_cols=67 Identities=13% Similarity=-0.004 Sum_probs=47.2
Q ss_pred HhccCHHHHHHHHhhhhhhccCCcCChh---hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHH
Q 013430 153 ESEQQWSKAAQMLSGIDLDSGMRVIDDT---FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEV 220 (443)
Q Consensus 153 e~~gd~~eAa~~L~~i~~Et~~~~~~~~---~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~ 220 (443)
...|||.+|.+.|...- +......... ..---.+..++++...|++..|...++.+-...-+.+|..
T Consensus 9 ~~~~dy~~A~d~L~~~f-D~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~ 78 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYF-DYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRR 78 (94)
T ss_pred HHcCCHHHHHHHHHHHH-HHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHH
Confidence 36789999999988854 3322222222 2233467789999999999999999998877776655543
No 248
>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=33.57 E-value=77 Score=23.55 Aligned_cols=37 Identities=14% Similarity=0.099 Sum_probs=32.4
Q ss_pred hcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 359 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 359 k~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
..-...+..+||+.+|++..-+-..+..|...|-|..
T Consensus 20 ~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 20 ASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred hcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 3478889999999999999999999999999998865
No 249
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=33.38 E-value=47 Score=27.55 Aligned_cols=25 Identities=24% Similarity=0.558 Sum_probs=22.6
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHH
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIAS 385 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls 385 (443)
-+.+|.+.+|.-||+|++++|+.+.
T Consensus 21 ~~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 21 LSGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred HcCCCHHHHHHHhCCCHHHHHHHHc
Confidence 4678999999999999999999875
No 250
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=33.22 E-value=1.9e+02 Score=28.38 Aligned_cols=69 Identities=19% Similarity=0.059 Sum_probs=47.9
Q ss_pred CChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 177 IDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS-QQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 177 ~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~-~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.+..+-.+..+...-=||+.+|+.+|+..+.||...-.+. ..|-. +|.++...+.-..|-..|..+...
T Consensus 29 ~~~~~aa~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~-------~A~~Yq~~Ge~~~A~e~YrkAlsl 98 (250)
T COG3063 29 TDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLV-------RAHYYQKLGENDLADESYRKALSL 98 (250)
T ss_pred ccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHH-------HHHHHHHcCChhhHHHHHHHHHhc
Confidence 3444567888888889999999999999999987664332 23333 455556666666666666666654
No 251
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=33.14 E-value=2.3e+02 Score=31.93 Aligned_cols=89 Identities=13% Similarity=0.144 Sum_probs=69.5
Q ss_pred hHHHHHHHHHHHHhhccccc--hHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHh
Q 013430 116 PETQKEIANYTLAQIQPRVV--SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLY 193 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~--sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~ 193 (443)
+..+...+.+++.++.|.+. ++- +|=-.+|++|+..|+.+.|..++..-. ...++. ..+..++|..=+-+-
T Consensus 363 ~~~~i~tyteAv~~vdP~ka~Gs~~----~Lw~~faklYe~~~~l~~aRvifeka~-~V~y~~--v~dLa~vw~~waemE 435 (835)
T KOG2047|consen 363 AAEQINTYTEAVKTVDPKKAVGSPG----TLWVEFAKLYENNGDLDDARVIFEKAT-KVPYKT--VEDLAEVWCAWAEME 435 (835)
T ss_pred hHHHHHHHHHHHHccCcccCCCChh----hHHHHHHHHHHhcCcHHHHHHHHHHhh-cCCccc--hHHHHHHHHHHHHHH
Confidence 56677888889999988775 343 345678999999999999999987632 122333 356789999999999
Q ss_pred hhcCCHHHHHHHHHHhhh
Q 013430 194 LEDDDAVNAEAFINKASF 211 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~ 211 (443)
|...++..|-..+.+|..
T Consensus 436 lrh~~~~~Al~lm~~A~~ 453 (835)
T KOG2047|consen 436 LRHENFEAALKLMRRATH 453 (835)
T ss_pred HhhhhHHHHHHHHHhhhc
Confidence 999999999999998744
No 252
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=32.79 E-value=3.8e+02 Score=24.28 Aligned_cols=80 Identities=18% Similarity=0.238 Sum_probs=52.9
Q ss_pred HHHHHHHHHhhcccccCHH-HHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC-------cchHHHHHHHHH
Q 013430 349 MIEHNLLSASKLYTNISFE-ELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED-------DTEELQQWDQQI 420 (443)
Q Consensus 349 viEhNL~~isk~Ys~Itl~-~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~-------~~~~l~~W~~~I 420 (443)
++..-+..-.+||+-..+- .|.. +++-..+.+.|-.++.+|+|.+|. =+...|+|-. +.+.+...+..|
T Consensus 5 ~Il~y~~~qNRPys~~di~~nL~~--~~~K~~v~k~Ld~L~~~g~i~~K~-~GKqkiY~~~Q~~~~~~s~eel~~ld~ei 81 (169)
T PF07106_consen 5 AILEYMKEQNRPYSAQDIFDNLHN--KVGKTAVQKALDSLVEEGKIVEKE-YGKQKIYFANQDELEVPSPEELAELDAEI 81 (169)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHh--hccHHHHHHHHHHHHhCCCeeeee-ecceEEEeeCccccCCCCchhHHHHHHHH
Confidence 3444455556789866543 2333 689999999999999999999995 3333566542 234567777777
Q ss_pred HHHHHHHHHHH
Q 013430 421 VGLCQALNDIL 431 (443)
Q Consensus 421 ~~l~~~v~~v~ 431 (443)
..+-+.+..+-
T Consensus 82 ~~L~~el~~l~ 92 (169)
T PF07106_consen 82 KELREELAELK 92 (169)
T ss_pred HHHHHHHHHHH
Confidence 76655555443
No 253
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.73 E-value=2.4e+02 Score=28.47 Aligned_cols=101 Identities=11% Similarity=0.091 Sum_probs=75.1
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHH---hhhhhccccHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINK---ASFLVSSSQQEV 220 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~K---a~~~~~~~~d~~ 220 (443)
+..-++..+.-.|+|.=...++.++.. .+..++--+.-..+|+....||..-|+++..+ .+++...+...-
T Consensus 179 Vmy~~~~~llG~kEy~iS~d~~~~vi~------~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~ 252 (366)
T KOG2796|consen 179 VMYSMANCLLGMKEYVLSVDAYHSVIK------YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKI 252 (366)
T ss_pred HHHHHHHHHhcchhhhhhHHHHHHHHH------hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhH
Confidence 455667888888899888888888642 34556777788889999999999999999984 455554433222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 221 LNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 221 lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
+- -.-++.+|...+||-+|.+.|-++..+.
T Consensus 253 ~V---~~n~a~i~lg~nn~a~a~r~~~~i~~~D 282 (366)
T KOG2796|consen 253 MV---LMNSAFLHLGQNNFAEAHRFFTEILRMD 282 (366)
T ss_pred HH---HhhhhhheecccchHHHHHHHhhccccC
Confidence 21 1236777888999999999999988763
No 254
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=32.02 E-value=2.7e+02 Score=30.72 Aligned_cols=100 Identities=10% Similarity=0.078 Sum_probs=69.7
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhH--HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFR--LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLN 222 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~K--le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk 222 (443)
...++-+....++|.+|.+.++... +- -++...+.. --++...--.|-..+-+..|-.+.+|+..+... +|.
T Consensus 417 ~~Elgvvay~~~~y~~A~~~f~~~l-~~-ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k--~~~-- 490 (611)
T KOG1173|consen 417 LHELGVVAYTYEEYPEALKYFQKAL-EV-IKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK--DAS-- 490 (611)
T ss_pred hhhhhheeehHhhhHHHHHHHHHHH-HH-hhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC--chh--
Confidence 4456666667789999999998854 22 233222221 223455556666778888888888888776554 444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
++..-|-+|...+++..|..+|++++..
T Consensus 491 --~~asig~iy~llgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 491 --THASIGYIYHLLGNLDKAIDHFHKALAL 518 (611)
T ss_pred --HHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 4566688899999999999999999974
No 255
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=31.85 E-value=2.1e+02 Score=32.48 Aligned_cols=141 Identities=16% Similarity=0.137 Sum_probs=83.5
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhc----cCCcCChhhHHHHHHHH-------HHHhhhcCCHHHHHHHHHHhh
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDS----GMRVIDDTFRLSKCVQI-------ARLYLEDDDAVNAEAFINKAS 210 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et----~~~~~~~~~Kle~~L~i-------~RL~L~~~D~~~A~~~l~Ka~ 210 (443)
-.+...||.++.+-|=..+|..+...+..-. ++..+.+..|++.++++ .|+|-..||...=..+..||.
T Consensus 398 Wq~q~~laell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkaw 477 (777)
T KOG1128|consen 398 WQLQRLLAELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAW 477 (777)
T ss_pred chHHHHHHHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHH
Confidence 3466778999999999999988887765322 14445555666666555 456666666666555555554
Q ss_pred hhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc--C----CCCCCHHHHHHHHHHHHHHHHhcCCC
Q 013430 211 FLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQI--G----DETIDEEALEQALSAAVTCTILAAAG 284 (443)
Q Consensus 211 ~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~--~----~~~i~~~~~~~~Lk~av~~~ILa~~~ 284 (443)
.... +...+=+.+.|.....+++|.+|-+++...+...+... + +-..--.+...++++.-.|.=|.|.+
T Consensus 478 Elsn-----~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~ 552 (777)
T KOG1128|consen 478 ELSN-----YISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDN 552 (777)
T ss_pred HHhh-----hhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCc
Confidence 4321 11111122234444557999999999888876543210 0 00111234456777777888887765
Q ss_pred CCh
Q 013430 285 PQR 287 (443)
Q Consensus 285 ~~r 287 (443)
.+-
T Consensus 553 ~ea 555 (777)
T KOG1128|consen 553 AEA 555 (777)
T ss_pred hhh
Confidence 443
No 256
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=31.82 E-value=6.4e+02 Score=26.64 Aligned_cols=122 Identities=16% Similarity=0.099 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHhhccccc-hHHHHHHH------HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHH
Q 013430 117 ETQKEIANYTLAQIQPRVV-SFEEQVLI------IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQI 189 (443)
Q Consensus 117 ~~~~~~~~~~L~~i~~~~~-sfe~q~a~------l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i 189 (443)
..-+.-++.++.++..+.. .-|++... +-..||-.|.+.++|.+|.+.-..+ +++. +.. +.-..+.
T Consensus 225 ~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kv-Le~~----~~N--~KALyRr 297 (397)
T KOG0543|consen 225 KLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKV-LELD----PNN--VKALYRR 297 (397)
T ss_pred HHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHH-HhcC----CCc--hhHHHHH
Confidence 3345556667777753333 33444333 4556788899999999888766554 3431 112 3346788
Q ss_pred HHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHh
Q 013430 190 ARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEA-ALRYYDISQ 251 (443)
Q Consensus 190 ~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eA-a~~y~e~~~ 251 (443)
-+.|+..+|+..|+..++|+...... +.+.+..+..|.-++.. |.+. ...|...|.
T Consensus 298 G~A~l~~~e~~~A~~df~ka~k~~P~--Nka~~~el~~l~~k~~~----~~~kekk~y~~mF~ 354 (397)
T KOG0543|consen 298 GQALLALGEYDLARDDFQKALKLEPS--NKAARAELIKLKQKIRE----YEEKEKKMYANMFA 354 (397)
T ss_pred HHHHHhhccHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhh
Confidence 99999999999999999999888765 56777777666655533 3333 344555554
No 257
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=31.78 E-value=6.4e+02 Score=26.63 Aligned_cols=82 Identities=17% Similarity=0.110 Sum_probs=38.7
Q ss_pred HHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCH
Q 013430 185 KCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDE 264 (443)
Q Consensus 185 ~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~ 264 (443)
+.+.-.|+-+..+|++.|...+......-.. ...-+++ +.++|...++|.+.....-++... ...++
T Consensus 155 v~ltrarlll~~~d~~aA~~~v~~ll~~~pr-~~~vlrL-----a~r~y~~~g~~~~ll~~l~~L~ka-------~~l~~ 221 (400)
T COG3071 155 VELTRARLLLNRRDYPAARENVDQLLEMTPR-HPEVLRL-----ALRAYIRLGAWQALLAILPKLRKA-------GLLSD 221 (400)
T ss_pred HHHHHHHHHHhCCCchhHHHHHHHHHHhCcC-ChHHHHH-----HHHHHHHhccHHHHHHHHHHHHHc-------cCCCh
Confidence 3444455555555555555555443332211 1112222 445666677777766665555542 23344
Q ss_pred HHHHHHHHHHHHHHHh
Q 013430 265 EALEQALSAAVTCTIL 280 (443)
Q Consensus 265 ~~~~~~Lk~av~~~IL 280 (443)
++ ..-|+...+-++|
T Consensus 222 ~e-~~~le~~a~~glL 236 (400)
T COG3071 222 EE-AARLEQQAWEGLL 236 (400)
T ss_pred HH-HHHHHHHHHHHHH
Confidence 43 2334455555555
No 258
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=31.70 E-value=3.5e+02 Score=28.28 Aligned_cols=56 Identities=18% Similarity=0.176 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDI 249 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~ 249 (443)
.+++=.|-+|-.+++|.+..-+.+++...++.. -.. -+.+..+|+|.+++..+..+
T Consensus 88 ~~it~dIk~LD~AKrNLT~SIT~LkrL~MLv~a--~~q---------L~~~~~~r~Y~e~a~~L~av 143 (383)
T PF04100_consen 88 QEITRDIKQLDNAKRNLTQSITTLKRLQMLVTA--VEQ---------LKELAKKRQYKEIASLLQAV 143 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH---------HHHHHHcCCHHHHHHHHHHH
Confidence 556667778888888888888888887777654 222 23356678888888887443
No 259
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=31.49 E-value=7.2e+02 Score=27.33 Aligned_cols=100 Identities=13% Similarity=0.117 Sum_probs=76.5
Q ss_pred HHHhhccccc---hHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHH
Q 013430 126 TLAQIQPRVV---SFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNA 202 (443)
Q Consensus 126 ~L~~i~~~~~---sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A 202 (443)
+-..+..+++ ..+.+...+..++..+..+..|..+++..+..+-.+. .+=.+.-..+.--+.++..++...||.+|
T Consensus 460 l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy~-nRfr~~~~~V~~~f~~Ae~lF~~~~Y~~a 538 (569)
T PRK04778 460 LAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQYA-NRYRSDNEEVAEALNEAERLFREYDYKAA 538 (569)
T ss_pred HHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hccCCCCHHHHHHHHHHHHHHHhCChHHH
Confidence 3334445666 3555777889999999999999999999999766553 33345567888899999999999999999
Q ss_pred HHHHHHhhhhhccccHHHHHHHHH
Q 013430 203 EAFINKASFLVSSSQQEVLNLQYK 226 (443)
Q Consensus 203 ~~~l~Ka~~~~~~~~d~~lk~~y~ 226 (443)
-..+..|-..+..|....+.-.|+
T Consensus 539 l~~~~~alE~vePG~~~ri~~~y~ 562 (569)
T PRK04778 539 LEIIATALEKVEPGVTKRIEDSYE 562 (569)
T ss_pred HHHHHHHHHhhCCcHHHHHHHHHH
Confidence 999988888887765666655553
No 260
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=31.40 E-value=1e+02 Score=28.89 Aligned_cols=45 Identities=11% Similarity=-0.043 Sum_probs=38.2
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEec
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 398 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akID 398 (443)
+..+.+-++..|.++||+.||+|+.-++.+++.+...|.+...++
T Consensus 168 l~~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~ 212 (225)
T PRK10046 168 RKLFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIV 212 (225)
T ss_pred HHHHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEee
Confidence 334455566789999999999999999999999999999987765
No 261
>PF13730 HTH_36: Helix-turn-helix domain
Probab=31.38 E-value=69 Score=23.04 Aligned_cols=29 Identities=17% Similarity=0.236 Sum_probs=26.2
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
|.+.||+.+|++..-+.+.+.+++..|-|
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 78999999999999999999999888743
No 262
>PHA02943 hypothetical protein; Provisional
Probab=31.09 E-value=3.4e+02 Score=24.92 Aligned_cols=65 Identities=12% Similarity=0.141 Sum_probs=46.0
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECCcchHHHHHHHHHHHHHHHHHHH
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFEDDTEELQQWDQQIVGLCQALNDI 430 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~~~~~l~~W~~~I~~l~~~v~~v 430 (443)
.-.-|.+++|+.+|+|-.+|+..|--+=.+|.+.- +-++.-.+++-.++. +.+.+......+...
T Consensus 22 ~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~da----y~~~v~~~~Relwrl 86 (165)
T PHA02943 22 DGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDEDA----YTNLVFEIKRELWRL 86 (165)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEEChHH----HHHHHHHHHHHHHHH
Confidence 55678899999999999999999999999999964 445666666655422 333344444444443
No 263
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=30.77 E-value=55 Score=26.40 Aligned_cols=28 Identities=18% Similarity=0.234 Sum_probs=20.9
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
=.-||.+.||..+|.+.+++...+..|-
T Consensus 36 G~PVt~~~LA~a~g~~~e~v~~~L~~~p 63 (77)
T PF12324_consen 36 GQPVTVEQLAAALGWPVEEVRAALAAMP 63 (77)
T ss_dssp TS-B-HHHHHHHHT--HHHHHHHHHH-T
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHhCC
Confidence 4568999999999999999999999874
No 264
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=30.70 E-value=70 Score=27.57 Aligned_cols=48 Identities=17% Similarity=0.212 Sum_probs=37.5
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE--EEeccCCC-EEEECC
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR--GSIDQVEA-VIHFED 408 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~--akIDQv~g-iV~F~~ 408 (443)
-..||+++||+.|..|+-.+-.++-+|...|-|. ...=|.+. .+.|..
T Consensus 17 ~~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~ 67 (115)
T PF12793_consen 17 PVEVTLDELAELLFCSRRNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLK 67 (115)
T ss_pred CcceeHHHHHHHhCCCHHHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEee
Confidence 4578999999999999999999999999999884 33333333 466654
No 265
>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=30.16 E-value=96 Score=22.17 Aligned_cols=30 Identities=20% Similarity=0.500 Sum_probs=22.5
Q ss_pred hcccccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 359 KLYTNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 359 k~Ys~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
.++...+..++|+.+|+|+..+...+.+..
T Consensus 22 ~~~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 22 RYFQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp HHTS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 478999999999999999999998887653
No 266
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=30.12 E-value=1.4e+02 Score=31.33 Aligned_cols=102 Identities=20% Similarity=0.151 Sum_probs=69.8
Q ss_pred HHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh-hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccc--cHHHHH
Q 013430 146 EKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSS--QQEVLN 222 (443)
Q Consensus 146 ~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~-~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~--~d~~lk 222 (443)
..++..+..-+.+..+.+-+++--.-. ...+|. --+.+|.-.--++-..+|+++|-++..||..+.... +||..
T Consensus 126 l~~~~Ahlgls~fq~~Lesfe~A~~~A--~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~- 202 (518)
T KOG1941|consen 126 LSMGNAHLGLSVFQKALESFEKALRYA--HNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSL- 202 (518)
T ss_pred hhHHHHhhhHHHHHHHHHHHHHHHHHh--hccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhH-
Confidence 347777777788888887776633211 223443 357788888999999999999999999998887654 45544
Q ss_pred HHHHHHHHHHHH-----HHHHHHHHHHHHHHHHhh
Q 013430 223 LQYKVCYARILD-----LKRKFLEAALRYYDISQI 252 (443)
Q Consensus 223 ~~y~~~~ari~~-----~~r~f~eAa~~y~e~~~t 252 (443)
+| -+++.||+ ..+..-+|-.+.-|+...
T Consensus 203 -ky-r~~~lyhmaValR~~G~LgdA~e~C~Ea~kl 235 (518)
T KOG1941|consen 203 -KY-RAMSLYHMAVALRLLGRLGDAMECCEEAMKL 235 (518)
T ss_pred -HH-HHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence 33 34555544 466667777777777653
No 267
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=30.00 E-value=2.7e+02 Score=26.94 Aligned_cols=50 Identities=14% Similarity=0.113 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhh
Q 013430 118 TQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGID 169 (443)
Q Consensus 118 ~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~ 169 (443)
..++++....+..+..+. .+-...+...+|.-|...|||++|.+.|..+.
T Consensus 156 ~iI~lL~~A~~~f~~~~~--~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~ 205 (247)
T PF11817_consen 156 LIIELLEKAYEQFKKYGQ--NRMASYLSLEMAEEYFRLGDYDKALKLLEPAA 205 (247)
T ss_pred HHHHHHHHHHHHHHHhcc--chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 446666666666654444 34444678899999999999999999999983
No 268
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=29.95 E-value=2.5e+02 Score=27.06 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=42.3
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
...||..+||+.+|+|..-+=+.+.+|...|-+.-..|..+..|...+
T Consensus 19 ~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTe 66 (217)
T PRK14165 19 TVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITE 66 (217)
T ss_pred CCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECH
Confidence 457899999999999999999999999999999999987666676664
No 269
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=29.90 E-value=4.1e+02 Score=28.72 Aligned_cols=104 Identities=18% Similarity=0.034 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
.+.-.|.-+...|++++|.+.|.++..+...... ++.....++++.|....|...++|+...... .+-+++
T Consensus 308 a~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~-------~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~--~~~l~~ 378 (484)
T COG4783 308 AQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPY-------YLELAGDILLEANKAKEAIERLKKALALDPN--SPLLQL 378 (484)
T ss_pred HHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHH-------HHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--ccHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHH
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEAL 267 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~ 267 (443)
.| |..++.-+++.+|-+...+... ....++.-|
T Consensus 379 ~~----a~all~~g~~~eai~~L~~~~~-------~~p~dp~~w 411 (484)
T COG4783 379 NL----AQALLKGGKPQEAIRILNRYLF-------NDPEDPNGW 411 (484)
T ss_pred HH----HHHHHhcCChHHHHHHHHHHhh-------cCCCCchHH
No 270
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=29.67 E-value=94 Score=22.62 Aligned_cols=39 Identities=26% Similarity=0.390 Sum_probs=31.6
Q ss_pred HHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 350 IEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 350 iEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
.++-+....+.=.+.+.+.||..||+|..-+-+....++
T Consensus 6 ~d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~ 44 (53)
T PF13613_consen 6 EDQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWI 44 (53)
T ss_pred HHHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHH
Confidence 345556667778899999999999999998888877765
No 271
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.58 E-value=6e+02 Score=25.63 Aligned_cols=93 Identities=17% Similarity=0.093 Sum_probs=63.9
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHH--HHHhh-hcCCHHHHHHHHHHhhhhhccccHHHHHH
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQI--ARLYL-EDDDAVNAEAFINKASFLVSSSQQEVLNL 223 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i--~RL~L-~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~ 223 (443)
.|+.+|...|++..|...+..-. +--++ +.++++-. +.+|- ...+..+++..++++..+-+. +++.
T Consensus 161 ~Lg~~ym~~~~~~~A~~AY~~A~-----rL~g~--n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~----~ira 229 (287)
T COG4235 161 LLGRAYMALGRASDALLAYRNAL-----RLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA----NIRA 229 (287)
T ss_pred HHHHHHHHhcchhHHHHHHHHHH-----HhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc----cHHH
Confidence 46899999999999999998742 22122 23333322 22222 456778888999988776443 5555
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 224 QYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 224 ~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.++ .|.-+..+++|.+|...+-.+...
T Consensus 230 l~l--LA~~afe~g~~~~A~~~Wq~lL~~ 256 (287)
T COG4235 230 LSL--LAFAAFEQGDYAEAAAAWQMLLDL 256 (287)
T ss_pred HHH--HHHHHHHcccHHHHHHHHHHHHhc
Confidence 554 567788899999999999888874
No 272
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=29.57 E-value=1.2e+02 Score=21.04 Aligned_cols=29 Identities=21% Similarity=0.362 Sum_probs=25.1
Q ss_pred cccccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 360 LYTNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
++...+..++|+.+|+|..-+...+.++.
T Consensus 15 ~~~g~s~~eia~~l~is~~tv~~~~~~~~ 43 (58)
T smart00421 15 LAEGLTNKEIAERLGISEKTVKTHLSNIM 43 (58)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35678999999999999999999888764
No 273
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=29.57 E-value=96 Score=30.33 Aligned_cols=43 Identities=14% Similarity=0.084 Sum_probs=36.3
Q ss_pred HHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 351 EHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 351 EhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
..-|+..-+-...+++++||+.||+|++-+-+-|..|-.+|.+
T Consensus 7 ~~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l 49 (256)
T PRK10434 7 QAAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTV 49 (256)
T ss_pred HHHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCE
Confidence 3344455556889999999999999999999999999999965
No 274
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=29.51 E-value=4.1e+02 Score=30.12 Aligned_cols=131 Identities=10% Similarity=-0.075 Sum_probs=83.0
Q ss_pred ecHHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCC
Q 013430 99 VSRQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVID 178 (443)
Q Consensus 99 ~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~ 178 (443)
-...+|.++-..++..++. ..++..+++ +.|.. +..+..+|.++-+.+.+++|........- .
T Consensus 87 ~~~~~La~i~~~~g~~~ea--~~~l~~~~~-~~Pd~-------~~a~~~~a~~L~~~~~~eeA~~~~~~~l~-~------ 149 (694)
T PRK15179 87 LFQVLVARALEAAHRSDEG--LAVWRGIHQ-RFPDS-------SEAFILMLRGVKRQQGIEAGRAEIELYFS-G------ 149 (694)
T ss_pred HHHHHHHHHHHHcCCcHHH--HHHHHHHHh-hCCCc-------HHHHHHHHHHHHHhccHHHHHHHHHHHhh-c------
Confidence 3445566666666655322 122222222 23332 25577889999999999999888877531 1
Q ss_pred hhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 179 DTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 179 ~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+-+..+.+...+....+.+.+.+|...++|+... . .++++..+ ..|..++..|+..+|...|..+...
T Consensus 150 ~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~-~-p~~~~~~~----~~a~~l~~~G~~~~A~~~~~~a~~~ 217 (694)
T PRK15179 150 GSSSAREILLEAKSWDEIGQSEQADACFERLSRQ-H-PEFENGYV----GWAQSLTRRGALWRARDVLQAGLDA 217 (694)
T ss_pred CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhc-C-CCcHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 1234556666777778889999999999998762 1 12344433 3467777778888888888877654
No 275
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=29.14 E-value=3.9e+02 Score=23.29 Aligned_cols=61 Identities=8% Similarity=-0.039 Sum_probs=47.4
Q ss_pred HHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 186 CVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 186 ~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+......+...|++..|..++.++...-.. + ..++...|.++...++|.+|...|..+...
T Consensus 27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~--~----~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l 87 (144)
T PRK15359 27 VYASGYASWQEGDYSRAVIDFSWLVMAQPW--S----WRAHIALAGTWMMLKEYTTAINFYGHALML 87 (144)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--c----HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 334577888999999999999987654322 2 233455788999999999999999999974
No 276
>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=28.93 E-value=1.2e+02 Score=22.73 Aligned_cols=35 Identities=17% Similarity=0.183 Sum_probs=30.1
Q ss_pred cccc-CHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 361 YTNI-SFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 361 Ys~I-tl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
=+.+ +...||+.+|+|..-+-+-+..+..+|.+.-
T Consensus 21 g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 21 GDRLPSERELAERYGVSRTTVREALRRLEAEGLIER 56 (64)
T ss_dssp TSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEE
Confidence 3688 9999999999999999999999999998863
No 277
>PF12964 DUF3853: Protein of unknown function (DUF3853); InterPro: IPR024363 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=28.76 E-value=39 Score=28.38 Aligned_cols=40 Identities=20% Similarity=0.326 Sum_probs=34.5
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
.+..||.+||.|..- ++++-.+|.|+.-|=|+.+.|+|+.
T Consensus 47 G~~GlAklfgcSv~T----a~RiK~sG~id~AI~Q~Gr~IivD~ 86 (96)
T PF12964_consen 47 GLKGLAKLFGCSVPT----ANRIKKSGKIDPAITQIGRKIIVDA 86 (96)
T ss_pred hHHHHHHHhCCCchh----HHHHHhcCCccHHHHHcCCEEEEeH
Confidence 578899999999874 5777888999999999999999985
No 278
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=28.66 E-value=6.7e+02 Score=26.00 Aligned_cols=128 Identities=17% Similarity=0.140 Sum_probs=74.0
Q ss_pred CcchhhHhhhhhhcCCcceeecHH-HHHHHHHHhCCC-ChH-HHHHHHHHHHHhh---ccccchHHHHHHHHHHHHHHHH
Q 013430 79 PFSIFKFFFCAVLSDDVPLVVSRQ-LLQTFAQELGRL-EPE-TQKEIANYTLAQI---QPRVVSFEEQVLIIREKLADLY 152 (443)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~lv~sr~-~l~~~~~~l~~l-~~~-~~~~~~~~~L~~i---~~~~~sfe~q~a~l~~~LA~iy 152 (443)
|-+.-|.+...++----+.|+|-. =+-.++..|.++ ..+ .++..+. .|.-+ +..+-+=+++...++.++|++|
T Consensus 76 ~~e~~Kei~~~~l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~~~~aaq-~L~~I~~~tg~~~~d~~~kl~l~iriarly 154 (399)
T KOG1497|consen 76 EDELRKEISHFTLEKIQPRVISFEEQVASIRLHLASIYEKEQNWRDAAQ-VLVGIPLDTGQKAYDVEQKLLLCIRIARLY 154 (399)
T ss_pred CHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHhccCcccchhhhhhHHHHHHHHHHHHHH
Confidence 334445555555544444444432 222344455554 222 2333333 44444 2122344567778899999999
Q ss_pred HhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHH
Q 013430 153 ESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINK 208 (443)
Q Consensus 153 e~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~K 208 (443)
.+.+|..+|......--.--... -.+.-.+++-++.+|..=..+.+..|-.-+.+
T Consensus 155 Le~~d~veae~~inRaSil~a~~-~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYye 209 (399)
T KOG1497|consen 155 LEDDDKVEAEAYINRASILQAES-SNEQLQIEYKVCYARVLDYKRKFLEAAQRYYE 209 (399)
T ss_pred HhcCcHHHHHHHHHHHHHhhhcc-cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999998776632221122 34556789999999988777776666544443
No 279
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.13 E-value=8.8e+02 Score=27.11 Aligned_cols=107 Identities=17% Similarity=0.034 Sum_probs=72.3
Q ss_pred HHHHHHHHHHhccCHHHHHHHHhhhhhhccC-CcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcc--ccHHH
Q 013430 144 IREKLADLYESEQQWSKAAQMLSGIDLDSGM-RVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSS--SQQEV 220 (443)
Q Consensus 144 l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~-~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~--~~d~~ 220 (443)
+-...|.+....|+|+.|+++|.... ++-- ...+..++=.+.-.+.-||...+|...|...+..|..-... .+-..
T Consensus 378 v~L~~aQl~is~gn~~~A~~il~~~~-~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~ 456 (652)
T KOG2376|consen 378 VLLLRAQLKISQGNPEVALEILSLFL-ESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIA 456 (652)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHh-hhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchH
Confidence 35667889999999999999999665 4311 11233455666777778888888888898888876554422 12234
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 221 LNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 221 lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+...+... +....-.|+=.+|.+.+-|+...
T Consensus 457 l~~~~~~a-a~f~lr~G~~~ea~s~leel~k~ 487 (652)
T KOG2376|consen 457 LLSLMREA-AEFKLRHGNEEEASSLLEELVKF 487 (652)
T ss_pred HHhHHHHH-hHHHHhcCchHHHHHHHHHHHHh
Confidence 44444332 33333348999999999999984
No 280
>PF07328 VirD1: T-DNA border endonuclease VirD1; InterPro: IPR009933 This family consists of several T-DNA border endonuclease VirD1 proteins, which appear to be found exclusively in Agrobacterium species. Agrobacterium, a plant pathogen, is capable to stably transform the plant cell with a segment of its own DNA called T-DNA (transferred DNA). This process depends, among others, on the specialised bacterial virulence proteins VirD1 and VirD2 that excise the T-DNA from its adjacent sequences. VirD1 is thought to interact with VirD2 in this process [].; GO: 0004519 endonuclease activity
Probab=28.06 E-value=1.9e+02 Score=25.76 Aligned_cols=65 Identities=25% Similarity=0.382 Sum_probs=51.7
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC-cchHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED-DTEELQQWDQQIVGLCQALNDILDSMAKKGLPI 441 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~-~~~~l~~W~~~I~~l~~~v~~v~~~I~ke~~~~ 441 (443)
+|++.+.++|++..-+-.++.+-| .|.++.+. +.+.+++...+|..+.+++|.+...-+..+-|+
T Consensus 39 sfs~q~~~lGl~~n~alRVavrri------------~GFLEiDa~tr~~l~~il~sIg~la~Nin~i~~Aa~~~~~pd 104 (147)
T PF07328_consen 39 SFSAQARELGLSDNMALRVAVRRI------------GGFLEIDAETRQKLEDILRSIGGLATNINQILKAANRTPRPD 104 (147)
T ss_pred HHHHHHHHhCCchhhHHHHHHHHH------------cchhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 578899999999999988888755 57777764 346788888999999999999888777665554
No 281
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=27.84 E-value=5.5e+02 Score=24.71 Aligned_cols=121 Identities=14% Similarity=0.079 Sum_probs=0.0
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
+.+||....+-|++.||...+++ --+---..--.+.|-.++--++.+++..|...+.+.-..-.....|+-.+-
T Consensus 92 r~rLa~al~elGr~~EA~~hy~q------alsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll 165 (251)
T COG4700 92 RYRLANALAELGRYHEAVPHYQQ------ALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL 165 (251)
T ss_pred HHHHHHHHHHhhhhhhhHHHHHH------HhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCCHHHHHHHHHHHHHHHHhcCCCCChHH
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQIQKRQIGDETIDEEALEQALSAAVTCTILAAAGPQRSR 289 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~t~~~~~~~~~i~~~~~~~~Lk~av~~~ILa~~~~~rs~ 289 (443)
| ||.+...+++.+|-..|.-+....+ ++.. ..-+..+|+..|-++.+
T Consensus 166 ~----aR~laa~g~~a~Aesafe~a~~~yp--------g~~a------r~~Y~e~La~qgr~~ea 212 (251)
T COG4700 166 F----ARTLAAQGKYADAESAFEVAISYYP--------GPQA------RIYYAEMLAKQGRLREA 212 (251)
T ss_pred H----HHHHHhcCCchhHHHHHHHHHHhCC--------CHHH------HHHHHHHHHHhcchhHH
No 282
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=27.77 E-value=1.9e+02 Score=31.47 Aligned_cols=63 Identities=14% Similarity=0.112 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHh
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKA 209 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka 209 (443)
..++.+||...-+.|..+||.+.+.++..|- +...-+-+.--.+--+|+.+.|..++..+.|=
T Consensus 259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~-----p~~~~l~IrenLie~LLelq~Yad~q~lL~kY 321 (539)
T PF04184_consen 259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEF-----PNLDNLNIRENLIEALLELQAYADVQALLAKY 321 (539)
T ss_pred hhhHHHHHHHHHHhCChHHHHHHHHHHHhhC-----CccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence 3467889999999999999999999998773 12222333334455678889999999888873
No 283
>PRK15331 chaperone protein SicA; Provisional
Probab=27.37 E-value=3.6e+02 Score=24.92 Aligned_cols=94 Identities=11% Similarity=0.001 Sum_probs=71.1
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQ 224 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~ 224 (443)
-...|--+...|++++|.++.+-+-.- . -.--++++-..-.|...++|.+|-..+..+...-.+.+.| .
T Consensus 40 iY~~Ay~~y~~Gk~~eA~~~F~~L~~~---d----~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p----~ 108 (165)
T PRK15331 40 LYAHAYEFYNQGRLDEAETFFRFLCIY---D----FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRP----V 108 (165)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHh---C----cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCc----c
Confidence 356677788999999999999887432 1 1225578888999999999999999998877765443333 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 225 YKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 225 y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
-+.|.-+..-++-..|-.+|..+..
T Consensus 109 --f~agqC~l~l~~~~~A~~~f~~a~~ 133 (165)
T PRK15331 109 --FFTGQCQLLMRKAAKARQCFELVNE 133 (165)
T ss_pred --chHHHHHHHhCCHHHHHHHHHHHHh
Confidence 2356778888899999888888876
No 284
>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=27.37 E-value=88 Score=26.37 Aligned_cols=35 Identities=17% Similarity=0.282 Sum_probs=33.3
Q ss_pred hcccccCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 359 KLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 359 k~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
|....|+.+.++++.|++...+.+.+..+|..|-|
T Consensus 50 Kk~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 50 KKMDRISNSQIAEMTGLSRDHVSKALNELIRRGVI 84 (100)
T ss_pred CccceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCE
Confidence 56789999999999999999999999999999998
No 285
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.37 E-value=3.8e+02 Score=27.10 Aligned_cols=105 Identities=14% Similarity=0.062 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh-hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhcccc
Q 013430 139 EQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT-FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQ 217 (443)
Q Consensus 139 ~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~-~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~ 217 (443)
+|.-.+...|+.+-.+.||.+.|-...+++..++ +.++.. -++-+.---.-+|+-.+|+..|-....++-..-..
T Consensus 209 e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~--~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~-- 284 (366)
T KOG2796|consen 209 EQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVT--QKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPR-- 284 (366)
T ss_pred cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH--hhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCC--
Confidence 4555778899999999999999999999888776 445554 47777777788899999999999888776443221
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 218 QEVLNLQYKVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 218 d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
++ .+-.-.|.+++.-|+-.+|-+....+.+
T Consensus 285 ~~----~a~NnKALcllYlg~l~DAiK~~e~~~~ 314 (366)
T KOG2796|consen 285 NA----VANNNKALCLLYLGKLKDALKQLEAMVQ 314 (366)
T ss_pred ch----hhhchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 21 1222345666777888888777766665
No 286
>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=27.24 E-value=1.1e+02 Score=23.60 Aligned_cols=31 Identities=13% Similarity=0.245 Sum_probs=26.9
Q ss_pred cCHHHHHHHhCCC-hHHHHHHHHhhhhcCceE
Q 013430 364 ISFEELGTLLGIA-PQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 364 Itl~~La~lLgLs-~eeaE~~ls~MI~~grL~ 394 (443)
-|+.+||+.||++ +.-|-..|..+...|.|.
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 5899999999995 999999999999998875
No 287
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=27.13 E-value=5.5e+02 Score=24.42 Aligned_cols=81 Identities=12% Similarity=0.013 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHHHhccCHHHH-------HHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhh
Q 013430 140 QVLIIREKLADLYESEQQWSKA-------AQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFL 212 (443)
Q Consensus 140 q~a~l~~~LA~iye~~gd~~eA-------a~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~ 212 (443)
..|.+-.++|=+|...||-++. ++.+.+. .++............+...+.-|+...|++..|..++.|+-..
T Consensus 116 ~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a-~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~ 194 (214)
T PF09986_consen 116 KKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEA-YENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGS 194 (214)
T ss_pred HHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHH-HHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcC
Confidence 5578999999999999995444 4444332 2222222333455667778899999999999999999997665
Q ss_pred hccccHHHH
Q 013430 213 VSSSQQEVL 221 (443)
Q Consensus 213 ~~~~~d~~l 221 (443)
.....++.+
T Consensus 195 ~~~s~~~~l 203 (214)
T PF09986_consen 195 KKASKEPKL 203 (214)
T ss_pred CCCCCcHHH
Confidence 544333343
No 288
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=26.78 E-value=9.8e+02 Score=27.21 Aligned_cols=56 Identities=18% Similarity=0.172 Sum_probs=32.2
Q ss_pred HHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 191 RLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 191 RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-+|-|.+.+..|-.++.|+-..... .-.-+ .-.|.++..++++.+|-.+|.|+...
T Consensus 362 ni~~E~~~~e~A~~ly~~al~v~p~-----~aaa~-nNLa~i~kqqgnl~~Ai~~YkealrI 417 (966)
T KOG4626|consen 362 NIYREQGKIEEATRLYLKALEVFPE-----FAAAH-NNLASIYKQQGNLDDAIMCYKEALRI 417 (966)
T ss_pred HHHHHhccchHHHHHHHHHHhhChh-----hhhhh-hhHHHHHHhcccHHHHHHHHHHHHhc
Confidence 3444555555555555555443321 11111 12366777888999999999888863
No 289
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.54 E-value=75 Score=26.30 Aligned_cols=25 Identities=36% Similarity=0.320 Sum_probs=22.7
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHH
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIAS 385 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls 385 (443)
-.+.|.+.+|..||+++.++|+++.
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil~ 45 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKILQ 45 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHHH
Confidence 5678999999999999999999885
No 290
>PRK04217 hypothetical protein; Provisional
Probab=26.44 E-value=1.8e+02 Score=24.92 Aligned_cols=44 Identities=27% Similarity=0.347 Sum_probs=34.4
Q ss_pred cccccCHHHHHHHhCCChHH-------HHHHHHhhhhcCceEEEeccCCCE
Q 013430 360 LYTNISFEELGTLLGIAPQK-------AEKIASRMIFEDRMRGSIDQVEAV 403 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~ee-------aE~~ls~MI~~grL~akIDQv~gi 403 (443)
+|..+|.+++|+.+|+|..- +.+.|.+++..+...+.+-+.|.+
T Consensus 55 ~~eGlS~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~~~~~~~~~~~~~~ 105 (110)
T PRK04217 55 DYEGLTQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEGRELIILPQGNEV 105 (110)
T ss_pred HHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhccceeEecCCccc
Confidence 46889999999999999664 445667788888888877766654
No 291
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=26.18 E-value=2.5e+02 Score=28.39 Aligned_cols=61 Identities=18% Similarity=0.123 Sum_probs=49.5
Q ss_pred HHHHHhccCHHHHHHHHhh-hhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhc
Q 013430 149 ADLYESEQQWSKAAQMLSG-IDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVS 214 (443)
Q Consensus 149 A~iye~~gd~~eAa~~L~~-i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~ 214 (443)
|.-..+.|.+++|...|++ ++ +.-+.+++.-..|..+|+|...|-+.-|...+......+.
T Consensus 220 A~~l~~~~gl~~Al~~L~~~~~-----~~~s~R~rf~~rL~~A~l~~~~g~~~lA~~ll~~L~~~~~ 281 (301)
T TIGR03362 220 ARALAAEGGLEAALQRLQQRLA-----QAREPRERFHWRLLLARLLEQAGKAELAQQLYAALDQQIQ 281 (301)
T ss_pred HHHHHHcCCHHHHHHHHHhhcc-----cCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 4556678899999999997 33 2347789999999999999999999999999987555443
No 292
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=26.13 E-value=1.5e+02 Score=20.72 Aligned_cols=29 Identities=17% Similarity=0.337 Sum_probs=24.8
Q ss_pred cccccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 360 LYTNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 360 ~Ys~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
++...+..++|+.+|+|+.-+...+.++.
T Consensus 12 ~~~~~s~~eia~~l~~s~~tv~~~~~~~~ 40 (57)
T cd06170 12 LAEGKTNKEIADILGISEKTVKTHLRNIM 40 (57)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35678999999999999999998887664
No 293
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=25.98 E-value=2e+02 Score=31.39 Aligned_cols=62 Identities=23% Similarity=0.034 Sum_probs=49.2
Q ss_pred HHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 184 SKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 184 e~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
..+.-..-+++..+++..|...++||..+.. ++ ..+.++|+.+...|++.+|...|..++..
T Consensus 421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p---s~----~a~~~lG~~~~~~G~~~eA~~~~~~A~~L 482 (517)
T PRK10153 421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM---SW----LNYVLLGKVYELKGDNRLAADAYSTAFNL 482 (517)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 3444445566678999999999999877753 22 35678899999999999999999999985
No 294
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=25.95 E-value=3.4e+02 Score=21.56 Aligned_cols=42 Identities=14% Similarity=0.111 Sum_probs=34.6
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
-..++|.+|.+.+|+|...+-+.+..+...|-+..+-.-.++
T Consensus 12 ~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~ 53 (80)
T PF13601_consen 12 NEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGR 53 (80)
T ss_dssp HSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCC
Confidence 367899999999999999999999999999999877665555
No 295
>PRK10870 transcriptional repressor MprA; Provisional
Probab=25.59 E-value=5.2e+02 Score=23.60 Aligned_cols=41 Identities=20% Similarity=0.210 Sum_probs=37.7
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
..++..+||+.+|++..-+=..+.+|+..|-+.-.-|..++
T Consensus 70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~Dr 110 (176)
T PRK10870 70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDR 110 (176)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCC
Confidence 35899999999999999999999999999999988888876
No 296
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=25.50 E-value=3.3e+02 Score=21.31 Aligned_cols=52 Identities=8% Similarity=0.008 Sum_probs=36.2
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEEC-CcchHHHHH
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFE-DDTEELQQW 416 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~-~~~~~l~~W 416 (443)
....++.+|+...|++...+.+++..++..|-+.. .++....+ .+.+.++.|
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~----~~~~Y~lTekG~~~l~~l 69 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKK----KDGKYRLTEKGKEFLEEL 69 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEE----ETTEEEE-HHHHHHHHHH
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeC----CCCEEEECccHHHHHHHH
Confidence 67888999999999999999999999999999933 45554444 344445444
No 297
>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=25.39 E-value=73 Score=24.28 Aligned_cols=25 Identities=16% Similarity=0.267 Sum_probs=18.4
Q ss_pred HhCCChHHHHHHHHhhhhcCceEEE
Q 013430 372 LLGIAPQKAEKIASRMIFEDRMRGS 396 (443)
Q Consensus 372 lLgLs~eeaE~~ls~MI~~grL~ak 396 (443)
-.+.+.++++.++.++|.+|+|.+.
T Consensus 30 ~~~~s~~eL~~fL~~lv~e~~L~~~ 54 (60)
T PF08672_consen 30 GYDISLEELQEFLDRLVEEGKLECS 54 (60)
T ss_dssp -TT--HHHHHHHHHHHHHTTSEE--
T ss_pred CCCCCHHHHHHHHHHHHHCCcEEec
Confidence 3566789999999999999999874
No 298
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=24.85 E-value=91 Score=29.03 Aligned_cols=44 Identities=16% Similarity=0.051 Sum_probs=36.5
Q ss_pred HHHHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCce
Q 013430 350 IEHNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRM 393 (443)
Q Consensus 350 iEhNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL 393 (443)
+++.|+.+.+-...++.++|++.||+|..-+-+-+..+-.+|.+
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 34455555666889999999999999999999999999888865
No 299
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=24.68 E-value=83 Score=29.79 Aligned_cols=27 Identities=22% Similarity=0.327 Sum_probs=23.0
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhh
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMI 388 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI 388 (443)
.++++.+||+.||+|+.-+.+.|.+..
T Consensus 177 R~~~l~dLA~~lGISkst~~ehLRrAe 203 (215)
T COG3413 177 RRVSLKDLAKELGISKSTLSEHLRRAE 203 (215)
T ss_pred ccCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 799999999999999887777776643
No 300
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=24.62 E-value=7.1e+02 Score=25.94 Aligned_cols=122 Identities=9% Similarity=0.059 Sum_probs=80.7
Q ss_pred hhHhhhhhhcCCcceeecHHHHHHHHHHhCCCC-hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHH
Q 013430 83 FKFFFCAVLSDDVPLVVSRQLLQTFAQELGRLE-PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKA 161 (443)
Q Consensus 83 ~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~-~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eA 161 (443)
+--+..+++++.=+=|--++++.-+....+++. .+...++++.+++.++.-+.-+ .+..+....|.++...||..++
T Consensus 57 ~l~lY~NFvsefe~kINplslvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~--av~~~~t~~~r~~L~i~DLk~~ 134 (380)
T KOG2908|consen 57 LLQLYLNFVSEFETKINPLSLVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPD--AVIYILTEIARLKLEINDLKEI 134 (380)
T ss_pred HHHHHHHHHHHHhhccChHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccch--hHHHHHHHHHHHHHhcccHHHH
Confidence 344555566666666666676666666666665 4555788888888875544432 3335556677777799999999
Q ss_pred HHHHhhhhhhc-cCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHH
Q 013430 162 AQMLSGIDLDS-GMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFI 206 (443)
Q Consensus 162 a~~L~~i~~Et-~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l 206 (443)
.+.|.+..-.- .-..++..--..+|..-.++|-..+|+...-...
T Consensus 135 kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~ 180 (380)
T KOG2908|consen 135 KKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHA 180 (380)
T ss_pred HHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHH
Confidence 99999876422 0223444445678888889998888887665433
No 301
>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=24.58 E-value=1.4e+02 Score=16.69 Aligned_cols=26 Identities=12% Similarity=-0.100 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013430 226 KVCYARILDLKRKFLEAALRYYDISQ 251 (443)
Q Consensus 226 ~~~~ari~~~~r~f~eAa~~y~e~~~ 251 (443)
+...|..+...++|.+|...|..+..
T Consensus 4 ~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 4 LYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 34567888889999999999887765
No 302
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=24.53 E-value=6.8e+02 Score=24.54 Aligned_cols=111 Identities=14% Similarity=0.071 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhh-hhcc-
Q 013430 138 EEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASF-LVSS- 215 (443)
Q Consensus 138 e~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~-~~~~- 215 (443)
..+.+..-.++|++.-+.|.+.-|...|..+... ..........+.++.+++.-..|+...|-..++.... ....
T Consensus 142 ~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~---~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~ 218 (352)
T PF02259_consen 142 PEELAETWLKFAKLARKAGNFQLALSALNRLFQL---NPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKN 218 (352)
T ss_pred hhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhcc---CCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhc
Confidence 3466677889999999999999999999886531 1111122677899999999999999999888765433 2211
Q ss_pred --------------------------ccHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHh
Q 013430 216 --------------------------SQQEVLNLQYKVCYARILDLK------RKFLEAALRYYDISQ 251 (443)
Q Consensus 216 --------------------------~~d~~lk~~y~~~~ari~~~~------r~f~eAa~~y~e~~~ 251 (443)
....+.+.+.+...|+..+.. .++.++...|.++..
T Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~ 286 (352)
T PF02259_consen 219 IDSISNAELKSGLLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATK 286 (352)
T ss_pred cccccHHHHhhccccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHH
Confidence 112355566666677776666 777777777777765
No 303
>PRK12798 chemotaxis protein; Reviewed
Probab=24.33 E-value=3.9e+02 Score=28.38 Aligned_cols=73 Identities=16% Similarity=0.019 Sum_probs=53.3
Q ss_pred cCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013430 176 VIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDIS 250 (443)
Q Consensus 176 ~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~ 250 (443)
.|++..+.++||+++|-.+..|....|.....|+..+...++...-+..+|.-.+. ...-++.+|....-.+.
T Consensus 250 ~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~A~~L~~~~~~~~~ra~LY~aaa~--v~s~~~~~al~~L~~I~ 322 (421)
T PRK12798 250 FMDPERQRELYLRIARAALIDGKTELARFASERALKLADPDSADAARARLYRGAAL--VASDDAESALEELSQID 322 (421)
T ss_pred hcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHc--cCcccHHHHHHHHhcCC
Confidence 47888899999999999999999999999999999988655444545555544443 33444666655444443
No 304
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=24.32 E-value=64 Score=23.52 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=18.8
Q ss_pred ccCHHHHHHHhCCChHHHHHHHH
Q 013430 363 NISFEELGTLLGIAPQKAEKIAS 385 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls 385 (443)
.+++.+||+.+|+++.++-+.+.
T Consensus 3 ~i~V~elAk~l~v~~~~ii~~l~ 25 (54)
T PF04760_consen 3 KIRVSELAKELGVPSKEIIKKLF 25 (54)
T ss_dssp EE-TTHHHHHHSSSHHHHHHHH-
T ss_pred ceEHHHHHHHHCcCHHHHHHHHH
Confidence 57899999999999999877773
No 305
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=24.29 E-value=3.7e+02 Score=21.37 Aligned_cols=33 Identities=9% Similarity=0.149 Sum_probs=28.6
Q ss_pred HHHHHHHhCCChHHHHHHHHhhhhcCceEEEec
Q 013430 366 FEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 398 (443)
Q Consensus 366 l~~La~lLgLs~eeaE~~ls~MI~~grL~akID 398 (443)
..+||+.+|++..-+=+.+.+|...|-|.-+-|
T Consensus 2 ~~ela~~l~is~stvs~~l~~L~~~glI~r~~~ 34 (96)
T smart00529 2 TSEIAERLNVSPPTVTQMLKKLEKDGLVEYEPY 34 (96)
T ss_pred HHHHHHHhCCChHHHHHHHHHHHHCCCEEEcCC
Confidence 568999999999999999999999987766443
No 306
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.16 E-value=8.7e+02 Score=25.67 Aligned_cols=158 Identities=16% Similarity=0.120 Sum_probs=94.5
Q ss_pred hhhHhhhhhhcCCcceeecHHHHHHHHHHhC-------CCChHHHHHHHHHHHHhhccccc------hHHHHHHHHHHHH
Q 013430 82 IFKFFFCAVLSDDVPLVVSRQLLQTFAQELG-------RLEPETQKEIANYTLAQIQPRVV------SFEEQVLIIREKL 148 (443)
Q Consensus 82 ~~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~-------~l~~~~~~~~~~~~L~~i~~~~~------sfe~q~a~l~~~L 148 (443)
+||+++.+.++...+---.=++-+.|.+.++ ++|--+...-+-+......+.-+ |+-.-.--....+
T Consensus 320 ilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N~ 399 (557)
T KOG3785|consen 320 ILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLNL 399 (557)
T ss_pred HHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHH
Confidence 5888888888766653333336666666663 45544444433333332222111 1111122356789
Q ss_pred HHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHH
Q 013430 149 ADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVC 228 (443)
Q Consensus 149 A~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~ 228 (443)
|+.+...|++.+|-+.+..|. .++.+.|.-+..-.+|.|...+.+..|-...-|..+.-.. .--+++.-.+|
T Consensus 400 AQAk~atgny~eaEelf~~is------~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~--fsLLqlIAn~C 471 (557)
T KOG3785|consen 400 AQAKLATGNYVEAEELFIRIS------GPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSER--FSLLQLIANDC 471 (557)
T ss_pred HHHHHHhcChHHHHHHHhhhc------ChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhH--HHHHHHHHHHH
Confidence 999999999999999997763 2344667777778899999998888887666544332111 22334433333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 229 YARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 229 ~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-.-+.|-=||+.|.++-..
T Consensus 472 -----Yk~~eFyyaaKAFd~lE~l 490 (557)
T KOG3785|consen 472 -----YKANEFYYAAKAFDELEIL 490 (557)
T ss_pred -----HHHHHHHHHHHhhhHHHcc
Confidence 3356777788888776543
No 307
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=24.07 E-value=5.9e+02 Score=25.26 Aligned_cols=92 Identities=10% Similarity=-0.055 Sum_probs=68.6
Q ss_pred HHHHHHhccCHHHHHHHHhhhhhhccCCcCChhhHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHH
Q 013430 148 LADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTFRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKV 227 (443)
Q Consensus 148 LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~ 227 (443)
+++.....|++.+|...+.+... ..-++ -+.|--..=.|...|+++.|+.-++++..+... +|...+
T Consensus 106 ~gk~~~~~g~~~~A~~~~rkA~~----l~p~d---~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~--~p~~~n---- 172 (257)
T COG5010 106 QGKNQIRNGNFGEAVSVLRKAAR----LAPTD---WEAWNLLGAALDQLGRFDEARRAYRQALELAPN--EPSIAN---- 172 (257)
T ss_pred HHHHHHHhcchHHHHHHHHHHhc----cCCCC---hhhhhHHHHHHHHccChhHHHHHHHHHHHhccC--Cchhhh----
Confidence 78889999999999999998642 22222 234444555678899999999999999888765 333222
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 228 CYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 228 ~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
-+|..++-++|+.+|..++......
T Consensus 173 Nlgms~~L~gd~~~A~~lll~a~l~ 197 (257)
T COG5010 173 NLGMSLLLRGDLEDAETLLLPAYLS 197 (257)
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHhC
Confidence 2466788899999999999998874
No 308
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=24.04 E-value=6.6e+02 Score=24.22 Aligned_cols=97 Identities=9% Similarity=0.077 Sum_probs=62.1
Q ss_pred HHHHHHHHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChh
Q 013430 101 RQLLQTFAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDT 180 (443)
Q Consensus 101 r~~l~~~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~ 180 (443)
+..+.+|-+.++.-|+..-..-+..-+..+ -...++-+...|++|.+.|+|..|+.-++.+... +.. ..
T Consensus 141 ~~A~~~~~~li~~yP~S~ya~~A~~rl~~l-------~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~--Yp~--t~ 209 (243)
T PRK10866 141 RAAFRDFSKLVRGYPNSQYTTDATKRLVFL-------KDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRD--YPD--TQ 209 (243)
T ss_pred HHHHHHHHHHHHHCcCChhHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHH--CCC--Cc
Confidence 444455555555555443333333333322 3334455678899999999999999999998643 222 22
Q ss_pred hHHHHHHHHHHHhhhcCCHHHHHHHHHH
Q 013430 181 FRLSKCVQIARLYLEDDDAVNAEAFINK 208 (443)
Q Consensus 181 ~Kle~~L~i~RL~L~~~D~~~A~~~l~K 208 (443)
.--|.......-|...|....|+.+...
T Consensus 210 ~~~eal~~l~~ay~~lg~~~~a~~~~~~ 237 (243)
T PRK10866 210 ATRDALPLMENAYRQLQLNAQADKVAKI 237 (243)
T ss_pred hHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence 3456666777888899999999887754
No 309
>PF03081 Exo70: Exo70 exocyst complex subunit; InterPro: IPR004140 The Exo70 protein forms one subunit of the exocyst complex. First discovered in Saccharomyces cerevisiae [], Exo70 and other exocyst proteins have been observed in several other eukaryotes, including humans. In S. cerevisiae, the exocyst complex is involved in the late stages of exocytosis, and is localized at the tip of the bud, the major site of exocytosis in yeast []. Exo70 interacts with the Rho3 GTPase []. This interaction mediates one of the three known functions of Rho3 in cell polarity: vesicle docking and fusion with the plasma membrane (the other two functions are regulation of actin polarity and transport of exocytic vesicles from the mother cell to the bud) []. In humans, the functions of Exo70 and the exocyst complex are less well characterised: Exo70 is expressed in several tissues and is thought to also be involved in exocytosis [].; GO: 0006887 exocytosis, 0000145 exocyst; PDB: 2PFV_A 2B7M_B 2B1E_A 2PFT_A.
Probab=23.88 E-value=1.3e+02 Score=30.63 Aligned_cols=63 Identities=22% Similarity=0.360 Sum_probs=43.3
Q ss_pred HHHHHHhhHHHHhhcCCc--hhHHHHHHHHHHHHHHhhc---ccccCHHHHHHHhCCChHHHHHHHHhh
Q 013430 324 DAFAEELKPHQKALLPDN--FTVLDRAMIEHNLLSASKL---YTNISFEELGTLLGIAPQKAEKIASRM 387 (443)
Q Consensus 324 ~~F~~~L~~hq~~l~~D~--~~~L~~~viEhNL~~isk~---Ys~Itl~~La~lLgLs~eeaE~~ls~M 387 (443)
.+|++..+.|+....+|+ -..|++.|.+.-+-++.++ |.++.+ .-.+-+..+++++|..|.++
T Consensus 304 ~~fee~~~~q~~~~vpD~~LR~~Lr~~i~~~v~p~Y~~F~~~~~~~~~-~~~Kyikyt~~~le~~l~~L 371 (371)
T PF03081_consen 304 SAFEEIYKAQKTWKVPDPELREELRREIKEKVVPAYRRFYERYRNSQF-NPEKYIKYTPEDLENMLNEL 371 (371)
T ss_dssp HHHHHHHHHHTT---S-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCSS-SHCCC-SS-HHHHHHHHHTC
T ss_pred HHHHHHHHcCcceecCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-CCCCCCccCHHHHHHHHHcC
Confidence 457777777777777777 3568888888888888888 666666 55566788999999998764
No 310
>PF01984 dsDNA_bind: Double-stranded DNA-binding domain; InterPro: IPR002836 This protein family is found in archaea and eukaryota. The human TFAR19 (TF-1 cell apoptosis-related protein 19) encodes a protein which shares significant homology to the corresponding proteins of species ranging from yeast to mice. TFAR19 exhibits a ubiquitous expression pattern and its expression is up-regulated in the tumour cells undergoing apoptosis. TFAR19 may play a general role in the apoptotic process []. Also included in this family is a DNA-binding protein from the archaea, Methanobacterium thermoautotrophicum.; GO: 0003677 DNA binding; PDB: 1EIJ_A 2K6B_A 2CRU_A 1YYB_A 2JXN_A 2FH0_A.
Probab=23.83 E-value=39 Score=28.89 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=18.2
Q ss_pred hHHHHHHHHhhhhcCceEEEec
Q 013430 377 PQKAEKIASRMIFEDRMRGSID 398 (443)
Q Consensus 377 ~eeaE~~ls~MI~~grL~akID 398 (443)
...||..|.+|...|+|.++||
T Consensus 61 A~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 61 ARQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HHHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHHHHcCCCCCCcC
Confidence 4578999999999999999986
No 311
>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=23.75 E-value=2.3e+02 Score=26.45 Aligned_cols=37 Identities=8% Similarity=0.021 Sum_probs=33.1
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEec
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSID 398 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akID 398 (443)
..++..+||+.+|+|..-+-+.+.+|...|-+.-.-+
T Consensus 156 g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~ 192 (203)
T TIGR01884 156 GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGR 192 (203)
T ss_pred CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcC
Confidence 5699999999999999999999999999998875543
No 312
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=23.47 E-value=91 Score=18.84 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=20.3
Q ss_pred HHHHHHHhccCHHHHHHHHhhhhh
Q 013430 147 KLADLYESEQQWSKAAQMLSGIDL 170 (443)
Q Consensus 147 ~LA~iye~~gd~~eAa~~L~~i~~ 170 (443)
.+-+.|.+.|++++|.+++.+++.
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 5 SLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHccchHHHHHHHHHHHhH
Confidence 466788999999999999999863
No 313
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=23.41 E-value=9.8e+02 Score=27.23 Aligned_cols=101 Identities=16% Similarity=0.057 Sum_probs=59.6
Q ss_pred HHHHHHHHHhccCHHHHHHHHhhhhhhccCCcCChhh--HHHHHHHHHHHhhhcCCHHH---HHHHHHHhhhhhccccHH
Q 013430 145 REKLADLYESEQQWSKAAQMLSGIDLDSGMRVIDDTF--RLSKCVQIARLYLEDDDAVN---AEAFINKASFLVSSSQQE 219 (443)
Q Consensus 145 ~~~LA~iye~~gd~~eAa~~L~~i~~Et~~~~~~~~~--Kle~~L~i~RL~L~~~D~~~---A~~~l~Ka~~~~~~~~d~ 219 (443)
++.--.++.+.+++++||+.|..+.-. ..-++.+- .-..|++..-|--..-|.++ .+.+++--.. . .+
T Consensus 172 ~eeyie~L~~~d~~~eaa~~la~vln~--d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~-r----ft 244 (835)
T KOG2047|consen 172 REEYIEYLAKSDRLDEAAQRLATVLNQ--DEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR-R----FT 244 (835)
T ss_pred HHHHHHHHHhccchHHHHHHHHHhcCc--hhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc-c----Cc
Confidence 444556778889999999999987533 22233332 23344444333322222211 1122221111 1 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 220 VLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 220 ~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
+--+.+..+.|.||...+.|..|-..|.|+..+
T Consensus 245 Dq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~ 277 (835)
T KOG2047|consen 245 DQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT 277 (835)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence 444667788899999999999999999998875
No 314
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=23.23 E-value=1.8e+02 Score=32.64 Aligned_cols=54 Identities=19% Similarity=0.106 Sum_probs=39.6
Q ss_pred hhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013430 194 LEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQIQ 253 (443)
Q Consensus 194 L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t~ 253 (443)
-+.|+.+.|..+++|+...... +++-++. .|.++...+++.+|.+.|..++..+
T Consensus 331 kd~G~V~ea~~cYnkaL~l~p~--hadam~N----Lgni~~E~~~~e~A~~ly~~al~v~ 384 (966)
T KOG4626|consen 331 KDKGSVTEAVDCYNKALRLCPN--HADAMNN----LGNIYREQGKIEEATRLYLKALEVF 384 (966)
T ss_pred HhccchHHHHHHHHHHHHhCCc--cHHHHHH----HHHHHHHhccchHHHHHHHHHHhhC
Confidence 3558888888888888776543 4443332 3778888999999999998887643
No 315
>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=23.17 E-value=88 Score=24.21 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=19.8
Q ss_pred cccCHHHHHHHhCCChHHHHHHHHh
Q 013430 362 TNISFEELGTLLGIAPQKAEKIASR 386 (443)
Q Consensus 362 s~Itl~~La~lLgLs~eeaE~~ls~ 386 (443)
..-|.++||+.+|+|++++...+..
T Consensus 19 r~Pt~eEiA~~lgis~~~v~~~l~~ 43 (78)
T PF04539_consen 19 REPTDEEIAEELGISVEEVRELLQA 43 (78)
T ss_dssp S--BHHHHHHHHTS-HHHHHHHHHH
T ss_pred CCCCHHHHHHHHcccHHHHHHHHHh
Confidence 5678899999999999999988874
No 316
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.84 E-value=1.6e+02 Score=20.24 Aligned_cols=39 Identities=15% Similarity=0.196 Sum_probs=27.3
Q ss_pred CHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEECC
Q 013430 365 SFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHFED 408 (443)
Q Consensus 365 tl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F~~ 408 (443)
+++++|+++|+++.-+... +..|.+.+.-+. +|--.|+.
T Consensus 2 ~~~e~a~~~gv~~~tlr~~----~~~g~l~~~~~~-~~~~~y~~ 40 (49)
T cd04761 2 TIGELAKLTGVSPSTLRYY----ERIGLLSPARTE-GGYRLYSD 40 (49)
T ss_pred cHHHHHHHHCcCHHHHHHH----HHCCCCCCCcCC-CCCEEeCH
Confidence 6789999999999866654 677777743332 35566654
No 317
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=22.35 E-value=1.2e+02 Score=27.27 Aligned_cols=33 Identities=6% Similarity=0.130 Sum_probs=30.5
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
.+|-++||+.+|++.+-+=+.+.+|-.+|.|.-
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLISI 175 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEe
Confidence 578899999999999999999999999998864
No 318
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=22.29 E-value=99 Score=22.73 Aligned_cols=25 Identities=36% Similarity=0.469 Sum_probs=19.5
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHH
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIAS 385 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls 385 (443)
...|+=.+||+.+|+++..+-+-+|
T Consensus 26 ~~~vSS~~La~~~gi~~~qVRKDlS 50 (50)
T PF06971_consen 26 VERVSSQELAEALGITPAQVRKDLS 50 (50)
T ss_dssp -SEE-HHHHHHHHTS-HHHHHHHHH
T ss_pred CeeECHHHHHHHHCCCHHHhcccCC
Confidence 5789999999999999999887664
No 319
>PF10798 YmgB: Biofilm development protein YmgB/AriR; InterPro: IPR024753 YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid, which indicates that YmgB has an important function in acid-resistance []. YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) [].; GO: 0042710 biofilm formation, 0071229 cellular response to acid; PDB: 2OXL_B.
Probab=22.08 E-value=1.8e+02 Score=22.26 Aligned_cols=48 Identities=10% Similarity=0.169 Sum_probs=34.8
Q ss_pred hhhHhhhhhhcCCcceeecHHHHHHHHHHhCCCChHHHHHHHHHHHHhh
Q 013430 82 IFKFFFCAVLSDDVPLVVSRQLLQTFAQELGRLEPETQKEIANYTLAQI 130 (443)
Q Consensus 82 ~~~~~~~~~~~~~~~lv~sr~~l~~~~~~l~~l~~~~~~~~~~~~L~~i 130 (443)
.|.+++..++..+ .-|.++-++..++..|..-.+..+.+++..+|+.+
T Consensus 6 vL~~iv~ell~~g-~~vsnKaII~~LI~~LE~e~Dv~~~dvyR~~LEiV 53 (61)
T PF10798_consen 6 VLGAIVRELLASG-GHVSNKAIILKLIHRLESESDVVQLDVYRNALEIV 53 (61)
T ss_dssp HHHHHHHHHHHTT----SHHHHHHHHHHHHHT---HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence 4677777787544 46777889999999999988999999999999875
No 320
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=21.99 E-value=1.1e+02 Score=20.12 Aligned_cols=20 Identities=25% Similarity=0.395 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhccCHHHHH
Q 013430 143 IIREKLADLYESEQQWSKAA 162 (443)
Q Consensus 143 ~l~~~LA~iye~~gd~~eAa 162 (443)
.....||.+|...|++++|.
T Consensus 14 ~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 14 EAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHCcCHHhhc
Confidence 34678999999999999985
No 321
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=21.90 E-value=1.7e+02 Score=20.43 Aligned_cols=23 Identities=17% Similarity=0.328 Sum_probs=19.7
Q ss_pred hhcccccCHHHHHHHhCCChHHH
Q 013430 358 SKLYTNISFEELGTLLGIAPQKA 380 (443)
Q Consensus 358 sk~Ys~Itl~~La~lLgLs~eea 380 (443)
.+-|..+|++++|+..|++..-+
T Consensus 11 ~~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 11 EKGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHHTTTSSHHHHHHHHTSCHHHH
T ss_pred HhCHHhCCHHHHHHHHccchhhH
Confidence 44699999999999999997654
No 322
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=21.74 E-value=1.7e+02 Score=28.57 Aligned_cols=41 Identities=17% Similarity=0.245 Sum_probs=35.1
Q ss_pred HHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 354 LLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 354 L~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
|+.+-+-...++..+|++.||+|.+-+-+.|..+-.+|.+.
T Consensus 10 Il~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~ 50 (252)
T PRK10906 10 IIELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKIL 50 (252)
T ss_pred HHHHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 34444557889999999999999999999999999999874
No 323
>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=21.13 E-value=6.1e+02 Score=23.19 Aligned_cols=66 Identities=17% Similarity=0.168 Sum_probs=51.8
Q ss_pred hHHHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 181 FRLSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 181 ~Kle~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
.-+--.++.+...+..+|...++..+....-+-.+ .+++ ..+-|.+|+..|+|.+|.+.|.++...
T Consensus 8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~--~~e~----d~~dg~l~i~rg~w~eA~rvlr~l~~~ 73 (153)
T TIGR02561 8 RLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPN--LKEL----DMFDGWLLIARGNYDEAARILRELLSS 73 (153)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--cccc----chhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence 34566778888999999999999999866555443 3333 246789999999999999999999874
No 324
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=21.11 E-value=1.4e+02 Score=21.10 Aligned_cols=27 Identities=22% Similarity=0.359 Sum_probs=22.4
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhh
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRM 387 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~M 387 (443)
-...|+..+|+.+|+|..-+..++-+.
T Consensus 25 ~~~~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 25 RESRSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred hhcCCHHHHHHHHCCCHHHHHHHHHhh
Confidence 344799999999999999998877553
No 325
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=20.99 E-value=4.8e+02 Score=21.49 Aligned_cols=45 Identities=11% Similarity=0.011 Sum_probs=38.6
Q ss_pred ccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCCEEEE
Q 013430 361 YTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEAVIHF 406 (443)
Q Consensus 361 Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~giV~F 406 (443)
|+-||-.-+|+.+++...-+-..|..+-..|.|.-. .+..+...|
T Consensus 39 ~K~ITps~lserlkI~~SlAr~~Lr~L~~kG~Ik~V-~~~~~q~IY 83 (86)
T PRK09334 39 EKIVTPYTLASKYGIKISVAKKVLRELEKRGVLVLY-SKNRRTPIY 83 (86)
T ss_pred CcEEcHHHHHHHhcchHHHHHHHHHHHHHCCCEEEE-ecCCCeEEe
Confidence 999999999999999999999999999999999765 455554443
No 326
>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=20.85 E-value=1.4e+02 Score=23.48 Aligned_cols=34 Identities=15% Similarity=0.388 Sum_probs=26.3
Q ss_pred ccccCHHHHHH-HhCCChHHHHHHHHhhhhcCceE
Q 013430 361 YTNISFEELGT-LLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 361 Ys~Itl~~La~-lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
=+..-|.++.. ..+..+-++-+.+..||.+|++.
T Consensus 17 KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l~ 51 (67)
T PF08679_consen 17 KSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKLE 51 (67)
T ss_dssp SS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeEE
Confidence 45556788888 66788999999999999999884
No 327
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=20.77 E-value=2.1e+02 Score=25.58 Aligned_cols=65 Identities=11% Similarity=0.082 Sum_probs=43.9
Q ss_pred HHHHhCCCChHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHH-HhccCHHHHHHHHhhhhhhc
Q 013430 107 FAQELGRLEPETQKEIANYTLAQIQPRVVSFEEQVLIIREKLADLY-ESEQQWSKAAQMLSGIDLDS 172 (443)
Q Consensus 107 ~~~~l~~l~~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~iy-e~~gd~~eAa~~L~~i~~Et 172 (443)
+-+.+.+++.+....++.++.+|-++.|-+--.|.. +...|..+- ++--++.+..+++.++...|
T Consensus 51 l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~v-L~~il~~~~~~~L~~~~~~~~~le~lipYt 116 (141)
T PF08625_consen 51 LDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRV-LNAILKSHPPEELLKIPGLKEILEALIPYT 116 (141)
T ss_pred HHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHH-HHHHHHhCCHHHHHccccHHHHHHHHhhhH
Confidence 445677888999999999999999999998888732 233333221 11134556777777776555
No 328
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=20.74 E-value=1.4e+02 Score=27.44 Aligned_cols=32 Identities=13% Similarity=0.293 Sum_probs=30.0
Q ss_pred ccCHHHHHHHhCCChHHHHHHHHhhhhcCceE
Q 013430 363 NISFEELGTLLGIAPQKAEKIASRMIFEDRMR 394 (443)
Q Consensus 363 ~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~ 394 (443)
.+|-.+||+.+|++.+-+-+.+.+|-.+|.|.
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~ 199 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLIS 199 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 68889999999999999999999999999875
No 329
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=20.50 E-value=1.7e+02 Score=28.56 Aligned_cols=44 Identities=18% Similarity=0.230 Sum_probs=36.6
Q ss_pred HHHHHHhhcccccCHHHHHHHhCCChHHHHHHHHhhhhcCceEE
Q 013430 352 HNLLSASKLYTNISFEELGTLLGIAPQKAEKIASRMIFEDRMRG 395 (443)
Q Consensus 352 hNL~~isk~Ys~Itl~~La~lLgLs~eeaE~~ls~MI~~grL~a 395 (443)
+-|..+-+--..|++++|+++||+|+.-+-+-|..+=.+|.+.-
T Consensus 8 ~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~R 51 (253)
T COG1349 8 QKILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLLR 51 (253)
T ss_pred HHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEEE
Confidence 33444445578899999999999999999999999999998853
No 330
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=20.50 E-value=4.3e+02 Score=21.29 Aligned_cols=36 Identities=17% Similarity=0.237 Sum_probs=34.7
Q ss_pred HHHHHHhCCChHHHHHHHHhhhhcCceEEEeccCCC
Q 013430 367 EELGTLLGIAPQKAEKIASRMIFEDRMRGSIDQVEA 402 (443)
Q Consensus 367 ~~La~lLgLs~eeaE~~ls~MI~~grL~akIDQv~g 402 (443)
..||+.++++..-+=..+-+|...|-+.=..|..|+
T Consensus 40 ~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~Dr 75 (126)
T COG1846 40 KELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDR 75 (126)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCcccc
Confidence 999999999999999999999999999999998887
No 331
>TIGR01257 rim_protein retinal-specific rim ABC transporter. This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.
Probab=20.36 E-value=9.7e+02 Score=31.33 Aligned_cols=46 Identities=11% Similarity=0.127 Sum_probs=36.6
Q ss_pred HHHHHHHhhcccccCHHHHHHHhCC-ChHHHHHHHHhhhhcCceEEEecc
Q 013430 351 EHNLLSASKLYTNISFEELGTLLGI-APQKAEKIASRMIFEDRMRGSIDQ 399 (443)
Q Consensus 351 EhNL~~isk~Ys~Itl~~La~lLgL-s~eeaE~~ls~MI~~grL~akIDQ 399 (443)
-|-+..++++-+++.++++ -++ ++++.+...-.+..+..+.|-|.=
T Consensus 507 ~~~~~~~~~~~~c~~~d~~---~~~~~~~~~~~~~~~l~~~~~~~agI~F 553 (2272)
T TIGR01257 507 DRFLRLANQYLECLVLDKF---ESYDDEVQLTQRALSLLEENRFWAGVVF 553 (2272)
T ss_pred HHHHHHHHHHHHHeeccce---ecCCCHHHHHHHHHHHhhcCCeEEEEEe
Confidence 4446677888899999988 445 688899999999999998887654
No 332
>KOG3470 consensus Beta-tubulin folding cofactor A [Posttranslational modification, protein turnover, chaperones]
Probab=20.01 E-value=2.1e+02 Score=24.47 Aligned_cols=54 Identities=17% Similarity=0.140 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH--HHHhccCHHHHHHHHhhhh
Q 013430 116 PETQKEIANYTLAQIQPRVVSFEEQVLIIREKLAD--LYESEQQWSKAAQMLSGID 169 (443)
Q Consensus 116 ~~~~~~~~~~~L~~i~~~~~sfe~q~a~l~~~LA~--iye~~gd~~eAa~~L~~i~ 169 (443)
.+.|++++.++...+-.-..-++...+-|+..|++ .++...++..|...|..+.
T Consensus 49 lkkQeeVl~et~~mlPD~~~RL~~a~~DLe~~l~~~~~~ee~~e~~~A~~~l~~~k 104 (107)
T KOG3470|consen 49 LKKQEEVLKETRMMLPDSQRRLRKAYEDLESILADEQYLEETPELKSANTYLDSAK 104 (107)
T ss_pred HHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHhcccchhccHHHHHHHHHHHHHH
Confidence 45578999999888866666677777778888888 7888889999998887754
No 333
>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=20.01 E-value=5.5e+02 Score=21.86 Aligned_cols=64 Identities=22% Similarity=0.128 Sum_probs=42.7
Q ss_pred HHHHHHHHHHhhhcCCHHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013430 183 LSKCVQIARLYLEDDDAVNAEAFINKASFLVSSSQQEVLNLQYKVCYARILDLKRKFLEAALRYYDISQI 252 (443)
Q Consensus 183 le~~L~i~RL~L~~~D~~~A~~~l~Ka~~~~~~~~d~~lk~~y~~~~ari~~~~r~f~eAa~~y~e~~~t 252 (443)
++.....+..++..+++..|.....++...-.- +... +....+.+...|++.+|-..|...-..
T Consensus 62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~--~E~~----~~~lm~~~~~~g~~~~A~~~Y~~~~~~ 125 (146)
T PF03704_consen 62 LDALERLAEALLEAGDYEEALRLLQRALALDPY--DEEA----YRLLMRALAAQGRRAEALRVYERYRRR 125 (146)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT---HHH----HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCC--CHHH----HHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 566677788888999999999999987665432 2221 233456677778888887777766554
No 334
>COG5481 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=20.01 E-value=1.5e+02 Score=22.64 Aligned_cols=27 Identities=22% Similarity=0.244 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHHhhh
Q 013430 142 LIIREKLADLYESEQQWSKAAQMLSGI 168 (443)
Q Consensus 142 a~l~~~LA~iye~~gd~~eAa~~L~~i 168 (443)
+.++..+|.+.++..||+.|.+.+...
T Consensus 7 aeirl~~arLrqeH~D~DaaInAmi~~ 33 (67)
T COG5481 7 AEIRLTLARLRQEHADFDAAINAMIAT 33 (67)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh
Confidence 568999999999999999999998773
Done!