Query 014576
Match_columns 422
No_of_seqs 177 out of 565
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 06:29:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014576.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014576hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1498 26S proteasome regulat 100.0 8E-104 2E-108 764.1 35.6 397 1-420 42-438 (439)
2 COG5071 RPN5 26S proteasome re 100.0 2.1E-89 4.5E-94 643.3 29.9 398 1-421 42-439 (439)
3 KOG1497 COP9 signalosome, subu 100.0 9.1E-53 2E-57 398.4 30.0 359 16-412 7-390 (399)
4 KOG1463 26S proteasome regulat 100.0 1.1E-39 2.4E-44 312.0 27.7 338 14-383 51-394 (411)
5 KOG1464 COP9 signalosome, subu 100.0 4.8E-40 1E-44 307.2 22.4 350 7-402 61-435 (440)
6 COG5159 RPN6 26S proteasome re 100.0 2.9E-34 6.2E-39 269.7 24.8 338 13-383 47-392 (421)
7 KOG0687 26S proteasome regulat 99.9 4.2E-25 9.1E-30 211.0 22.2 282 86-410 100-392 (393)
8 COG5187 RPN7 26S proteasome re 99.9 1.6E-19 3.6E-24 170.5 23.9 281 86-409 111-405 (412)
9 PF01399 PCI: PCI domain; Int 99.7 4.1E-16 8.9E-21 129.0 11.4 105 270-380 1-105 (105)
10 KOG0686 COP9 signalosome, subu 99.5 9.8E-13 2.1E-17 130.0 19.5 256 90-384 150-414 (466)
11 smart00088 PINT motif in prote 99.5 1.4E-13 3.1E-18 110.9 10.1 72 313-384 2-73 (88)
12 smart00753 PAM PCI/PINT associ 99.5 1.4E-13 3.1E-18 110.9 10.1 72 313-384 2-73 (88)
13 KOG2908 26S proteasome regulat 99.5 4.1E-10 8.8E-15 109.4 32.1 338 26-409 22-378 (380)
14 KOG2581 26S proteasome regulat 99.2 4.9E-09 1.1E-13 104.0 24.8 278 90-406 169-452 (493)
15 KOG2582 COP9 signalosome, subu 99.0 3.2E-07 7E-12 90.2 24.8 279 62-380 72-360 (422)
16 PF10602 RPN7: 26S proteasome 99.0 1E-08 2.2E-13 93.6 12.7 145 84-257 30-175 (177)
17 KOG2758 Translation initiation 98.6 0.00018 4E-09 70.1 30.0 339 11-411 35-423 (432)
18 KOG1076 Translation initiation 97.8 6.2E-05 1.3E-09 79.6 8.9 71 313-383 692-766 (843)
19 KOG2753 Uncharacterized conser 97.4 0.0051 1.1E-07 60.4 14.7 192 195-398 166-368 (378)
20 KOG2072 Translation initiation 96.7 1.4 2.9E-05 48.5 26.0 71 310-380 422-493 (988)
21 PF10255 Paf67: RNA polymerase 96.7 0.48 1E-05 48.7 21.9 43 315-357 301-343 (404)
22 PF14938 SNAP: Soluble NSF att 96.6 0.38 8.3E-06 46.9 20.4 189 5-222 29-224 (282)
23 PF09976 TPR_21: Tetratricopep 96.4 0.39 8.5E-06 41.8 17.0 112 71-220 33-144 (145)
24 COG5600 Transcription-associat 96.4 0.06 1.3E-06 54.0 12.7 240 103-382 143-405 (413)
25 PF10075 PCI_Csn8: COP9 signal 96.1 0.044 9.5E-07 48.0 9.5 49 311-359 73-121 (143)
26 KOG2688 Transcription-associat 96.0 0.054 1.2E-06 55.0 10.4 207 137-382 170-386 (394)
27 PF09976 TPR_21: Tetratricopep 95.4 1.4 3E-05 38.3 16.0 133 11-156 12-144 (145)
28 PRK11788 tetratricopeptide rep 95.2 3.5 7.6E-05 41.3 20.6 96 92-223 216-311 (389)
29 PRK11788 tetratricopeptide rep 95.1 4 8.7E-05 40.9 26.3 103 90-223 141-243 (389)
30 PRK10747 putative protoheme IX 95.1 1.4 2.9E-05 45.3 17.5 174 7-222 183-389 (398)
31 TIGR02521 type_IV_pilW type IV 94.3 3.8 8.2E-05 36.7 18.9 175 4-223 24-198 (234)
32 PF14938 SNAP: Soluble NSF att 93.9 6.6 0.00014 38.2 19.3 148 7-159 71-225 (282)
33 KOG1840 Kinesin light chain [C 93.8 8 0.00017 41.2 19.7 192 8-224 196-397 (508)
34 PF09012 FeoC: FeoC like trans 93.8 0.14 3E-06 39.0 5.0 48 326-373 5-52 (69)
35 PF09295 ChAPs: ChAPs (Chs5p-A 93.3 1.8 3.8E-05 44.6 13.6 119 50-214 170-288 (395)
36 PF08784 RPA_C: Replication pr 92.5 0.17 3.7E-06 41.6 4.0 37 335-371 65-101 (102)
37 TIGR02795 tol_pal_ybgF tol-pal 92.4 2 4.4E-05 34.8 10.5 103 92-224 4-106 (119)
38 KOG2003 TPR repeat-containing 92.2 9.3 0.0002 39.7 16.6 101 90-226 521-624 (840)
39 COG3107 LppC Putative lipoprot 92.1 1.9 4E-05 45.5 11.8 105 87-222 60-164 (604)
40 KOG2076 RNA polymerase III tra 91.4 16 0.00034 41.0 18.3 193 40-281 131-328 (895)
41 PF09756 DDRGK: DDRGK domain; 90.9 0.34 7.4E-06 44.6 4.5 76 333-410 111-188 (188)
42 cd00189 TPR Tetratricopeptide 90.7 4.7 0.0001 29.6 10.4 94 93-222 3-96 (100)
43 KOG1586 Protein required for f 90.7 12 0.00025 35.9 14.5 32 306-337 229-263 (288)
44 PF13424 TPR_12: Tetratricopep 90.5 2.2 4.7E-05 32.5 8.2 69 89-158 4-74 (78)
45 COG3071 HemY Uncharacterized e 90.5 18 0.00039 36.9 16.6 169 10-221 186-388 (400)
46 TIGR02917 PEP_TPR_lipo putativ 89.9 34 0.00074 37.5 21.5 58 93-156 536-593 (899)
47 PF13432 TPR_16: Tetratricopep 89.7 2.4 5.2E-05 31.0 7.7 58 95-158 2-59 (65)
48 TIGR02917 PEP_TPR_lipo putativ 89.1 39 0.00085 37.0 27.4 30 10-39 600-629 (899)
49 PF04348 LppC: LppC putative l 89.1 0.12 2.6E-06 55.4 0.0 107 87-223 21-127 (536)
50 TIGR00990 3a0801s09 mitochondr 88.1 32 0.00068 37.3 18.0 98 90-223 399-496 (615)
51 TIGR00540 hemY_coli hemY prote 87.5 37 0.0008 34.8 17.3 98 89-218 262-359 (409)
52 PLN03218 maturation of RBCL 1; 86.5 73 0.0016 37.3 28.3 100 92-223 544-643 (1060)
53 PRK02603 photosystem I assembl 85.7 14 0.0003 32.9 11.5 68 89-159 34-101 (172)
54 PF14559 TPR_19: Tetratricopep 85.7 2.5 5.4E-05 31.1 5.6 53 101-159 2-54 (68)
55 TIGR00990 3a0801s09 mitochondr 85.5 44 0.00094 36.2 17.3 102 91-223 468-571 (615)
56 PF12895 Apc3: Anaphase-promot 84.7 3.8 8.2E-05 31.8 6.5 60 90-156 25-84 (84)
57 TIGR03302 OM_YfiO outer membra 84.6 34 0.00073 31.7 15.6 63 93-158 169-231 (235)
58 PF13424 TPR_12: Tetratricopep 84.1 6.1 0.00013 29.9 7.3 70 130-222 5-74 (78)
59 TIGR02552 LcrH_SycD type III s 84.0 24 0.00051 29.4 13.4 99 90-224 17-115 (135)
60 PRK10049 pgaA outer membrane p 83.5 44 0.00095 37.4 16.6 99 89-223 358-456 (765)
61 PF13414 TPR_11: TPR repeat; P 83.3 3 6.5E-05 30.8 5.2 64 89-158 2-66 (69)
62 PF12895 Apc3: Anaphase-promot 83.2 14 0.00029 28.6 9.1 83 102-219 1-83 (84)
63 PF12569 NARP1: NMDA receptor- 82.8 20 0.00044 38.3 12.9 66 128-223 2-67 (517)
64 PF04733 Coatomer_E: Coatomer 82.4 10 0.00022 37.3 9.9 129 92-265 104-233 (290)
65 PF12802 MarR_2: MarR family; 82.2 7 0.00015 28.3 6.7 49 325-373 9-59 (62)
66 TIGR02521 type_IV_pilW type IV 82.1 36 0.00077 30.2 17.2 100 89-224 30-129 (234)
67 KOG1497 COP9 signalosome, subu 81.2 6.1 0.00013 39.3 7.5 71 86-206 140-210 (399)
68 TIGR03504 FimV_Cterm FimV C-te 80.6 3.5 7.6E-05 28.7 4.2 40 93-134 2-41 (44)
69 smart00347 HTH_MARR helix_turn 80.2 22 0.00048 27.9 9.6 65 335-399 24-89 (101)
70 PRK10370 formate-dependent nit 80.1 48 0.0011 30.4 16.9 100 90-225 73-175 (198)
71 PRK14574 hmsH outer membrane p 80.0 1.1E+02 0.0025 34.6 19.8 98 90-224 102-199 (822)
72 PF03399 SAC3_GANP: SAC3/GANP/ 79.9 9.6 0.00021 34.9 8.3 143 192-347 54-204 (204)
73 PRK15431 ferrous iron transpor 79.9 4.4 9.5E-05 31.8 4.9 42 327-368 8-49 (78)
74 COG2956 Predicted N-acetylgluc 79.7 72 0.0016 32.1 14.4 136 11-159 141-278 (389)
75 PRK14720 transcript cleavage f 79.2 84 0.0018 36.0 16.6 140 7-161 27-180 (906)
76 PRK15359 type III secretion sy 78.9 42 0.00091 29.0 11.8 93 95-223 29-121 (144)
77 COG3063 PilF Tfp pilus assembl 78.7 63 0.0014 30.9 13.6 139 87-265 32-171 (250)
78 PF13429 TPR_15: Tetratricopep 78.6 24 0.00053 33.8 11.1 132 8-158 41-174 (280)
79 PRK11447 cellulose synthase su 78.1 44 0.00095 39.4 14.8 67 92-158 673-739 (1157)
80 COG3355 Predicted transcriptio 77.9 21 0.00045 30.8 8.9 70 335-404 42-120 (126)
81 PF08220 HTH_DeoR: DeoR-like h 77.1 9.9 0.00021 27.7 6.0 48 328-379 7-54 (57)
82 smart00550 Zalpha Z-DNA-bindin 76.7 9.1 0.0002 29.0 5.9 32 336-367 23-54 (68)
83 cd00090 HTH_ARSR Arsenical Res 76.6 17 0.00036 26.6 7.5 45 336-380 21-65 (78)
84 PF13412 HTH_24: Winged helix- 76.6 11 0.00023 26.1 5.8 32 334-365 16-47 (48)
85 COG1497 Predicted transcriptio 76.3 19 0.0004 34.5 8.9 65 333-402 23-87 (260)
86 KOG2003 TPR repeat-containing 75.8 1.1E+02 0.0024 32.2 16.9 179 8-239 521-699 (840)
87 KOG3060 Uncharacterized conser 75.3 16 0.00035 35.4 8.2 29 90-118 154-182 (289)
88 PF02082 Rrf2: Transcriptional 75.2 13 0.00027 29.2 6.6 58 324-381 12-71 (83)
89 PLN03088 SGT1, suppressor of 74.6 51 0.0011 33.3 12.5 95 94-224 6-100 (356)
90 COG2956 Predicted N-acetylgluc 74.4 1E+02 0.0022 31.1 25.0 102 90-222 141-242 (389)
91 PF01047 MarR: MarR family; I 74.3 13 0.00028 26.7 6.0 50 325-374 7-56 (59)
92 TIGR03302 OM_YfiO outer membra 74.0 74 0.0016 29.3 20.1 184 8-223 30-232 (235)
93 KOG1538 Uncharacterized conser 73.7 89 0.0019 34.3 14.0 29 195-223 805-833 (1081)
94 KOG1861 Leucine permease trans 73.2 55 0.0012 34.3 12.0 139 192-348 346-491 (540)
95 PF13176 TPR_7: Tetratricopept 72.0 5.4 0.00012 25.9 3.1 23 94-116 3-25 (36)
96 PLN03081 pentatricopeptide (PP 71.9 1.6E+02 0.0035 32.4 17.0 168 13-220 362-554 (697)
97 TIGR03879 near_KaiC_dom probab 71.8 5.4 0.00012 30.9 3.5 41 325-365 22-62 (73)
98 KOG4414 COP9 signalosome, subu 71.6 11 0.00023 33.2 5.6 45 312-356 109-153 (197)
99 smart00419 HTH_CRP helix_turn_ 70.9 8.9 0.00019 26.0 4.3 32 335-366 8-39 (48)
100 PF13371 TPR_9: Tetratricopept 70.9 14 0.0003 27.4 5.7 58 96-159 1-58 (73)
101 PRK11447 cellulose synthase su 70.5 2.3E+02 0.0049 33.5 28.0 169 15-224 116-333 (1157)
102 cd05804 StaR_like StaR_like; a 70.4 51 0.0011 32.4 11.3 100 91-222 115-214 (355)
103 PF13174 TPR_6: Tetratricopept 70.3 12 0.00026 22.9 4.4 27 93-119 3-29 (33)
104 cd00092 HTH_CRP helix_turn_hel 70.1 8.4 0.00018 28.2 4.3 34 334-367 24-57 (67)
105 PLN03218 maturation of RBCL 1; 69.5 2.3E+02 0.0051 33.2 22.4 29 10-38 506-534 (1060)
106 PF00325 Crp: Bacterial regula 69.4 10 0.00023 24.5 3.9 30 336-365 3-32 (32)
107 PF02259 FAT: FAT domain; Int 68.9 1.2E+02 0.0026 29.6 16.0 137 84-223 140-287 (352)
108 PF04703 FaeA: FaeA-like prote 68.4 15 0.00032 27.6 5.1 34 333-366 13-46 (62)
109 smart00418 HTH_ARSR helix_turn 68.1 23 0.00049 25.0 6.2 46 333-378 8-53 (66)
110 PF13432 TPR_16: Tetratricopep 67.1 20 0.00043 25.9 5.8 59 135-223 2-60 (65)
111 PF13429 TPR_15: Tetratricopep 66.8 1.2E+02 0.0025 29.0 12.7 63 90-158 146-208 (280)
112 TIGR01764 excise DNA binding d 66.5 18 0.00038 24.4 5.1 47 336-393 2-48 (49)
113 PF13428 TPR_14: Tetratricopep 66.4 11 0.00024 25.4 3.9 26 92-117 3-28 (44)
114 cd00189 TPR Tetratricopeptide 66.2 29 0.00063 25.1 6.7 61 92-158 36-96 (100)
115 PF13404 HTH_AsnC-type: AsnC-t 65.9 14 0.0003 25.3 4.2 26 334-359 16-41 (42)
116 smart00344 HTH_ASNC helix_turn 65.9 18 0.00038 29.5 5.8 40 333-372 15-57 (108)
117 TIGR00540 hemY_coli hemY prote 65.7 1.3E+02 0.0028 30.8 13.4 138 10-159 262-399 (409)
118 PLN03077 Protein ECB2; Provisi 65.6 2.2E+02 0.0047 32.3 16.3 169 15-223 528-720 (857)
119 PF13181 TPR_8: Tetratricopept 64.8 14 0.00031 22.9 4.0 25 91-115 2-26 (34)
120 KOG0553 TPR repeat-containing 64.1 99 0.0022 30.6 11.2 153 198-367 85-250 (304)
121 PF07721 TPR_4: Tetratricopept 63.5 8.9 0.00019 23.0 2.6 24 91-114 2-25 (26)
122 PF13414 TPR_11: TPR repeat; P 63.5 19 0.00041 26.3 5.1 63 130-222 3-66 (69)
123 TIGR02010 IscR iron-sulfur clu 63.2 28 0.00061 29.9 6.8 42 335-376 25-66 (135)
124 PF09295 ChAPs: ChAPs (Chs5p-A 63.2 1.9E+02 0.0041 29.9 14.4 125 12-157 170-295 (395)
125 PF12728 HTH_17: Helix-turn-he 62.9 25 0.00054 24.5 5.3 47 336-393 2-48 (51)
126 smart00345 HTH_GNTR helix_turn 62.2 19 0.00042 25.4 4.8 32 335-366 19-51 (60)
127 TIGR02337 HpaR homoprotocatech 62.0 90 0.002 25.8 9.9 42 333-374 40-81 (118)
128 PF09339 HTH_IclR: IclR helix- 61.7 20 0.00043 25.3 4.6 39 328-366 11-49 (52)
129 CHL00033 ycf3 photosystem I as 61.7 1.1E+02 0.0024 26.7 13.0 68 89-159 34-101 (168)
130 PRK11179 DNA-binding transcrip 61.6 13 0.00028 32.8 4.4 38 334-371 22-62 (153)
131 PRK10803 tol-pal system protei 61.5 1E+02 0.0022 29.9 11.0 67 90-160 180-247 (263)
132 KOG1129 TPR repeat-containing 60.9 1.2E+02 0.0026 30.6 11.2 97 93-226 226-322 (478)
133 PF13545 HTH_Crp_2: Crp-like h 60.8 16 0.00035 27.6 4.3 33 334-366 27-59 (76)
134 cd07377 WHTH_GntR Winged helix 58.8 35 0.00076 24.5 5.8 30 337-366 27-56 (66)
135 PRK09954 putative kinase; Prov 58.5 34 0.00073 34.4 7.4 47 333-379 15-64 (362)
136 smart00420 HTH_DEOR helix_turn 58.2 27 0.00059 23.8 4.9 34 334-367 13-46 (53)
137 PF13374 TPR_10: Tetratricopep 57.8 22 0.00048 22.8 4.1 28 90-117 2-29 (42)
138 PF07719 TPR_2: Tetratricopept 57.8 24 0.00051 21.7 4.1 24 92-115 3-26 (34)
139 PF03704 BTAD: Bacterial trans 57.4 64 0.0014 27.4 8.1 72 84-161 56-127 (146)
140 COG2976 Uncharacterized protei 56.8 29 0.00064 32.2 5.9 65 89-160 125-189 (207)
141 PF14559 TPR_19: Tetratricopep 56.4 22 0.00049 25.7 4.4 30 90-119 25-54 (68)
142 PRK11189 lipoprotein NlpI; Pro 55.8 2E+02 0.0043 28.0 12.2 101 87-223 61-161 (296)
143 TIGR00738 rrf2_super rrf2 fami 55.8 35 0.00075 28.9 6.0 51 324-374 12-64 (132)
144 KOG1585 Protein required for f 55.7 2.1E+02 0.0045 27.9 14.0 88 66-158 127-218 (308)
145 TIGR00373 conserved hypothetic 55.5 1.5E+02 0.0033 26.3 10.4 68 335-402 28-97 (158)
146 KOG2376 Signal recognition par 55.3 1.6E+02 0.0035 31.9 11.7 108 13-120 112-254 (652)
147 KOG3060 Uncharacterized conser 55.0 1.3E+02 0.0028 29.3 10.0 114 67-224 70-184 (289)
148 PF08279 HTH_11: HTH domain; 54.9 35 0.00076 24.1 5.0 28 336-363 16-43 (55)
149 TIGR01610 phage_O_Nterm phage 54.8 30 0.00065 27.9 5.2 46 332-379 44-89 (95)
150 TIGR02944 suf_reg_Xantho FeS a 54.6 22 0.00048 30.2 4.6 41 334-374 24-64 (130)
151 PRK03573 transcriptional regul 54.6 1.1E+02 0.0025 26.1 9.2 41 335-375 46-86 (144)
152 PRK09782 bacteriophage N4 rece 54.0 4.2E+02 0.009 30.9 18.5 93 93-225 47-139 (987)
153 PRK10857 DNA-binding transcrip 53.6 36 0.00079 30.5 6.0 43 334-376 24-66 (164)
154 TIGR02795 tol_pal_ybgF tol-pal 53.4 1.1E+02 0.0024 24.1 10.9 24 14-37 5-28 (119)
155 COG1959 Predicted transcriptio 53.2 42 0.00092 29.6 6.3 53 324-376 12-66 (150)
156 KOG1155 Anaphase-promoting com 53.1 2.2E+02 0.0049 30.1 12.0 63 94-158 470-535 (559)
157 PRK10803 tol-pal system protei 53.1 2E+02 0.0044 27.8 11.5 94 101-224 154-247 (263)
158 PRK10747 putative protoheme IX 52.7 2.7E+02 0.0058 28.4 13.3 80 66-159 311-390 (398)
159 PF01325 Fe_dep_repress: Iron 52.5 56 0.0012 24.0 5.9 34 333-366 20-53 (60)
160 PF04545 Sigma70_r4: Sigma-70, 52.5 44 0.00095 23.2 5.1 30 331-360 16-45 (50)
161 KOG1070 rRNA processing protei 52.5 4.4E+02 0.0095 31.9 15.2 134 12-161 1531-1665(1710)
162 KOG3054 Uncharacterized conser 52.5 31 0.00067 33.0 5.3 79 330-410 209-289 (299)
163 PRK11169 leucine-responsive tr 52.1 38 0.00082 30.2 5.9 42 330-371 23-67 (164)
164 KOG2002 TPR-containing nuclear 51.5 1.7E+02 0.0037 33.5 11.7 103 90-224 270-372 (1018)
165 PRK10141 DNA-binding transcrip 50.9 1.5E+02 0.0033 25.0 9.3 70 335-406 30-104 (117)
166 KOG3250 COP9 signalosome, subu 50.9 18 0.00039 34.0 3.5 74 331-404 105-189 (258)
167 KOG1840 Kinesin light chain [C 50.9 3.4E+02 0.0074 29.0 21.1 184 13-222 243-437 (508)
168 PHA02943 hypothetical protein; 50.0 1.1E+02 0.0025 27.2 8.1 87 333-420 22-115 (165)
169 PF01022 HTH_5: Bacterial regu 49.9 49 0.0011 22.7 5.0 33 334-366 14-46 (47)
170 PF10345 Cohesin_load: Cohesin 49.3 3.8E+02 0.0083 29.1 15.3 107 106-240 37-144 (608)
171 cd05804 StaR_like StaR_like; a 49.2 61 0.0013 31.9 7.5 65 91-157 149-213 (355)
172 PRK11014 transcriptional repre 48.9 46 0.00099 28.8 5.7 47 334-380 24-70 (141)
173 PF04492 Phage_rep_O: Bacterio 48.7 27 0.00059 28.7 4.0 35 331-365 50-84 (100)
174 PF06163 DUF977: Bacterial pro 48.7 29 0.00063 29.8 4.2 60 330-398 21-81 (127)
175 KOG0396 Uncharacterized conser 48.3 3.2E+02 0.0069 27.9 14.2 127 27-157 56-218 (389)
176 KOG2047 mRNA splicing factor [ 48.1 4.2E+02 0.0092 29.3 15.5 81 74-158 373-453 (835)
177 PF13463 HTH_27: Winged helix 48.1 73 0.0016 23.2 6.1 40 331-370 14-53 (68)
178 PRK11920 rirA iron-responsive 47.8 60 0.0013 28.7 6.4 50 326-375 14-64 (153)
179 PF00392 GntR: Bacterial regul 47.5 79 0.0017 23.1 6.1 37 331-367 19-56 (64)
180 PF13730 HTH_36: Helix-turn-he 47.4 29 0.00062 24.5 3.5 29 337-365 27-55 (55)
181 KOG1128 Uncharacterized conser 47.4 1.3E+02 0.0029 33.2 9.9 143 89-260 397-562 (777)
182 PF04967 HTH_10: HTH DNA bindi 46.7 36 0.00078 24.6 3.9 29 332-360 17-48 (53)
183 PRK10870 transcriptional repre 44.6 1.3E+02 0.0029 27.0 8.3 40 335-374 71-110 (176)
184 PF13601 HTH_34: Winged helix 44.4 1.5E+02 0.0032 23.1 7.4 42 333-374 12-53 (80)
185 PF01978 TrmB: Sugar-specific 42.8 65 0.0014 23.8 5.1 39 333-371 20-58 (68)
186 PRK11512 DNA-binding transcrip 42.2 2.2E+02 0.0048 24.4 10.3 42 334-375 53-94 (144)
187 PRK06266 transcription initiat 42.2 1.8E+02 0.004 26.4 8.7 65 335-399 36-102 (178)
188 PRK10046 dpiA two-component re 41.8 57 0.0012 30.1 5.6 45 326-370 168-212 (225)
189 TIGR01889 Staph_reg_Sar staphy 41.6 1.9E+02 0.0042 23.6 8.9 41 334-374 42-82 (109)
190 PF09743 DUF2042: Uncharacteri 41.1 1E+02 0.0022 30.2 7.3 39 334-372 129-167 (272)
191 PF12793 SgrR_N: Sugar transpo 41.0 69 0.0015 27.0 5.4 49 333-381 17-68 (115)
192 KOG2041 WD40 repeat protein [G 40.4 5.8E+02 0.013 28.7 13.4 59 137-223 767-825 (1189)
193 PLN03077 Protein ECB2; Provisi 39.8 6E+02 0.013 28.7 20.5 30 9-38 422-451 (857)
194 PF12840 HTH_20: Helix-turn-he 39.8 71 0.0015 23.2 4.7 37 331-367 20-56 (61)
195 PF08349 DUF1722: Protein of u 39.7 2.2E+02 0.0049 23.7 9.3 80 12-92 10-95 (117)
196 COG1522 Lrp Transcriptional re 39.7 65 0.0014 27.8 5.3 37 335-371 22-61 (154)
197 PF11873 DUF3393: Domain of un 39.7 24 0.00051 33.0 2.5 63 234-299 110-172 (204)
198 KOG0495 HAT repeat protein [RN 39.3 77 0.0017 34.8 6.5 45 130-181 753-797 (913)
199 PRK14720 transcript cleavage f 39.3 6.6E+02 0.014 29.0 14.2 125 90-254 31-168 (906)
200 PF05584 Sulfolobus_pRN: Sulfo 39.2 1.1E+02 0.0025 23.6 5.8 43 324-368 9-51 (72)
201 KOG2376 Signal recognition par 38.9 4.2E+02 0.0092 28.9 11.8 133 11-158 376-519 (652)
202 PF08281 Sigma70_r4_2: Sigma-7 38.9 42 0.00091 23.5 3.3 29 331-359 22-50 (54)
203 PRK03902 manganese transport t 38.6 1.9E+02 0.0041 24.8 8.1 33 334-366 21-53 (142)
204 PF13371 TPR_9: Tetratricopept 38.3 1.2E+02 0.0026 22.0 6.0 56 138-223 3-58 (73)
205 PF12964 DUF3853: Protein of u 37.5 25 0.00055 28.7 2.1 41 337-381 47-87 (96)
206 PF12854 PPR_1: PPR repeat 37.1 37 0.0008 21.7 2.5 23 94-116 11-33 (34)
207 smart00421 HTH_LUXR helix_turn 37.0 92 0.002 21.2 4.9 29 332-360 15-43 (58)
208 COG1729 Uncharacterized protei 36.8 1.6E+02 0.0035 28.6 7.8 85 71-160 144-245 (262)
209 PF00515 TPR_1: Tetratricopept 36.6 81 0.0017 19.4 4.1 24 92-115 3-26 (34)
210 COG2345 Predicted transcriptio 36.4 1.6E+02 0.0035 27.8 7.5 40 333-373 23-62 (218)
211 KOG2180 Late Golgi protein sor 36.3 6.5E+02 0.014 28.1 22.4 111 11-121 19-134 (793)
212 KOG2002 TPR-containing nuclear 35.5 7.6E+02 0.016 28.6 23.8 248 12-299 308-592 (1018)
213 PF10602 RPN7: 26S proteasome 35.3 3.4E+02 0.0073 24.5 13.2 81 123-230 29-109 (177)
214 TIGR02702 SufR_cyano iron-sulf 35.1 1.6E+02 0.0034 27.1 7.4 36 333-368 13-48 (203)
215 COG3629 DnrI DNA-binding trans 34.7 1.8E+02 0.0038 28.6 7.8 71 83-159 139-216 (280)
216 PF10078 DUF2316: Uncharacteri 34.6 43 0.00094 27.0 3.0 24 334-357 22-45 (89)
217 PRK10866 outer membrane biogen 34.3 4.1E+02 0.0089 25.2 12.3 153 69-240 52-221 (243)
218 PF04760 IF2_N: Translation in 34.2 23 0.0005 25.2 1.3 24 334-357 2-25 (54)
219 PF13525 YfiO: Outer membrane 34.0 3.6E+02 0.0079 24.5 14.2 140 8-150 39-198 (203)
220 PF08679 DsrD: Dissimilatory s 33.7 76 0.0016 24.1 3.9 34 332-365 16-50 (67)
221 PRK10411 DNA-binding transcrip 33.3 1E+02 0.0022 29.4 5.9 42 326-367 9-50 (240)
222 cd06170 LuxR_C_like C-terminal 33.1 1.1E+02 0.0024 20.9 4.8 29 332-360 12-40 (57)
223 PF09613 HrpB1_HrpK: Bacterial 32.8 3.7E+02 0.0079 24.2 9.2 80 47-134 9-88 (160)
224 PRK13918 CRP/FNR family transc 32.6 1.2E+02 0.0027 27.1 6.2 32 335-366 149-180 (202)
225 PRK10049 pgaA outer membrane p 32.4 7.5E+02 0.016 27.7 22.4 103 92-224 312-423 (765)
226 PF13613 HTH_Tnp_4: Helix-turn 32.3 1E+02 0.0022 21.8 4.4 40 322-361 6-45 (53)
227 PRK13509 transcriptional repre 31.5 1.1E+02 0.0024 29.2 5.9 41 326-366 10-50 (251)
228 smart00874 B5 tRNA synthetase 31.3 98 0.0021 23.0 4.4 62 335-408 5-68 (71)
229 smart00299 CLH Clathrin heavy 31.3 1.9E+02 0.0042 24.3 6.9 35 16-54 74-108 (140)
230 smart00346 HTH_ICLR helix_turn 31.0 2.5E+02 0.0053 21.6 8.2 33 335-367 20-52 (91)
231 PF08221 HTH_9: RNA polymerase 30.5 2.2E+02 0.0048 20.9 6.9 35 332-366 24-58 (62)
232 PF12324 HTH_15: Helix-turn-he 30.3 62 0.0013 25.4 3.1 28 333-360 36-63 (77)
233 PRK15363 pathogenicity island 30.3 4E+02 0.0087 23.8 10.8 96 92-223 37-132 (157)
234 PF02847 MA3: MA3 domain; Int 30.2 2.9E+02 0.0064 22.2 9.6 110 192-326 1-111 (113)
235 cd08312 Death_MyD88 Death doma 30.1 1.1E+02 0.0023 23.9 4.5 47 339-407 20-71 (79)
236 PRK10434 srlR DNA-bindng trans 30.1 1.2E+02 0.0026 29.1 5.8 42 324-365 8-49 (256)
237 PF10345 Cohesin_load: Cohesin 29.8 7.5E+02 0.016 26.8 19.3 123 80-230 50-175 (608)
238 PF08672 APC2: Anaphase promot 29.6 63 0.0014 23.9 3.0 25 344-368 30-54 (60)
239 PHA02360 hypothetical protein 28.8 61 0.0013 24.3 2.7 46 70-115 9-59 (70)
240 PF14394 DUF4423: Domain of un 28.7 3E+02 0.0065 24.8 7.8 31 337-367 41-73 (171)
241 PRK14165 winged helix-turn-hel 27.9 3.3E+02 0.0071 25.7 8.2 48 333-380 19-66 (217)
242 PRK11753 DNA-binding transcrip 27.9 2.5E+02 0.0054 25.2 7.4 32 335-366 168-199 (211)
243 PLN03088 SGT1, suppressor of 27.8 4.5E+02 0.0098 26.4 9.9 61 133-223 5-65 (356)
244 PF06971 Put_DNA-bind_N: Putat 27.8 76 0.0017 22.6 3.0 26 332-357 25-50 (50)
245 KOG1126 DNA-binding cell divis 27.7 3.8E+02 0.0082 29.4 9.4 68 86-159 313-382 (638)
246 PF13512 TPR_18: Tetratricopep 27.7 2.1E+02 0.0046 25.1 6.4 60 95-159 15-76 (142)
247 KOG0548 Molecular co-chaperone 27.3 8E+02 0.017 26.4 17.3 91 97-223 365-455 (539)
248 KOG1931 Putative transmembrane 26.9 1.1E+03 0.023 27.7 20.8 45 74-120 196-245 (1156)
249 PF13542 HTH_Tnp_ISL3: Helix-t 26.5 1.8E+02 0.0039 20.0 4.9 26 334-359 26-51 (52)
250 COG5481 Uncharacterized conser 26.4 1.2E+02 0.0027 22.4 3.8 28 88-115 5-32 (67)
251 PRK13777 transcriptional regul 26.3 5.1E+02 0.011 23.7 9.6 47 328-374 52-98 (185)
252 COG2976 Uncharacterized protei 25.9 5.5E+02 0.012 24.0 11.0 116 71-224 74-189 (207)
253 COG4367 Uncharacterized protei 25.9 82 0.0018 25.3 3.1 25 333-357 21-45 (97)
254 PF09986 DUF2225: Uncharacteri 25.8 4E+02 0.0086 24.9 8.4 77 78-158 109-193 (214)
255 PRK12370 invasion protein regu 25.7 7.2E+02 0.016 26.5 11.5 64 90-159 338-401 (553)
256 PF04733 Coatomer_E: Coatomer 25.6 6.4E+02 0.014 24.6 18.6 130 92-262 133-264 (290)
257 PRK04424 fatty acid biosynthes 25.6 1E+02 0.0022 28.2 4.2 43 323-365 9-51 (185)
258 PRK14574 hmsH outer membrane p 25.3 1.1E+03 0.023 27.1 17.4 96 91-224 35-132 (822)
259 smart00028 TPR Tetratricopepti 25.3 1.3E+02 0.0028 16.5 3.6 23 94-116 5-27 (34)
260 TIGR01884 cas_HTH CRISPR locus 25.2 2.4E+02 0.0051 25.9 6.7 38 334-371 156-193 (203)
261 PF13518 HTH_28: Helix-turn-he 25.1 1.2E+02 0.0025 20.7 3.7 43 329-372 6-48 (52)
262 TIGR03697 NtcA_cyano global ni 25.0 1E+02 0.0023 27.3 4.2 33 335-367 143-175 (193)
263 PF01638 HxlR: HxlR-like helix 24.6 3.5E+02 0.0075 21.2 7.0 61 334-394 17-85 (90)
264 PF01726 LexA_DNA_bind: LexA D 24.5 1.5E+02 0.0032 22.2 4.2 31 336-366 26-57 (65)
265 PF00440 TetR_N: Bacterial reg 24.5 1.5E+02 0.0034 20.1 4.1 22 331-352 12-33 (47)
266 KOG1155 Anaphase-promoting com 24.3 5.6E+02 0.012 27.3 9.5 65 90-160 432-496 (559)
267 COG5127 Vacuolar H+-ATPase V1 24.3 4.3E+02 0.0094 26.3 8.3 105 22-130 43-166 (383)
268 PF04539 Sigma70_r3: Sigma-70 24.1 98 0.0021 23.4 3.3 36 334-373 19-54 (78)
269 PF01984 dsDNA_bind: Double-st 24.0 45 0.00098 27.8 1.5 21 350-370 62-82 (107)
270 KOG1129 TPR repeat-containing 23.9 2.3E+02 0.005 28.8 6.5 60 93-158 259-318 (478)
271 PHA02591 hypothetical protein; 23.9 84 0.0018 24.7 2.7 23 336-358 60-82 (83)
272 PRK04217 hypothetical protein; 23.6 2.1E+02 0.0045 24.0 5.4 43 332-374 55-104 (110)
273 PF08626 TRAPPC9-Trs120: Trans 23.5 1E+02 0.0022 36.5 4.8 58 191-249 239-297 (1185)
274 COG3118 Thioredoxin domain-con 23.4 7.4E+02 0.016 24.6 12.2 48 202-252 244-291 (304)
275 PF01535 PPR: PPR repeat; Int 23.0 1.1E+02 0.0025 17.9 2.9 23 95-117 5-27 (31)
276 PF13431 TPR_17: Tetratricopep 22.9 1E+02 0.0022 19.6 2.7 21 90-110 13-33 (34)
277 KOG3081 Vesicle coat complex C 22.9 7.4E+02 0.016 24.4 17.7 128 93-265 111-239 (299)
278 PRK10906 DNA-binding transcrip 22.5 2E+02 0.0043 27.5 5.8 38 328-365 12-49 (252)
279 PRK10402 DNA-binding transcrip 22.3 2.9E+02 0.0063 25.5 6.8 32 336-367 170-201 (226)
280 PF10771 DUF2582: Protein of u 21.9 1.7E+02 0.0038 22.0 4.1 44 333-378 20-63 (65)
281 PF06711 DUF1198: Protein of u 21.8 65 0.0014 28.2 2.0 25 337-361 27-51 (148)
282 PF09986 DUF2225: Uncharacteri 21.6 6.6E+02 0.014 23.4 10.2 89 123-228 111-199 (214)
283 KOG1900 Nuclear pore complex, 21.4 1E+03 0.022 28.6 11.7 57 194-251 1007-1063(1311)
284 PRK10167 hypothetical protein; 21.2 6.2E+02 0.013 22.9 9.1 49 48-96 92-140 (169)
285 KOG3617 WD40 and TPR repeat-co 21.1 1.3E+03 0.028 26.7 13.2 55 82-150 1137-1191(1416)
286 PRK04841 transcriptional regul 21.1 1E+03 0.023 26.7 12.2 68 92-159 493-560 (903)
287 smart00531 TFIIE Transcription 21.0 5.2E+02 0.011 22.4 7.7 33 333-365 13-45 (147)
288 PRK15174 Vi polysaccharide exp 21.0 1.1E+03 0.024 25.8 21.7 97 91-223 247-347 (656)
289 PRK15174 Vi polysaccharide exp 20.9 1.1E+03 0.024 25.8 21.2 98 90-223 284-381 (656)
290 PRK11050 manganese transport r 20.9 5.7E+02 0.012 22.3 10.2 35 334-368 50-84 (152)
291 TIGR02552 LcrH_SycD type III s 20.8 4.6E+02 0.01 21.3 11.2 65 129-223 16-80 (135)
292 PF04079 DUF387: Putative tran 20.7 1.6E+02 0.0034 26.3 4.4 56 322-381 3-61 (159)
293 KOG2460 Signal recognition par 20.6 4.6E+02 0.01 28.2 8.2 84 25-114 362-446 (593)
294 PF09202 Rio2_N: Rio2, N-termi 20.3 2.5E+02 0.0054 22.2 4.9 50 330-379 19-69 (82)
295 PRK11161 fumarate/nitrate redu 20.1 1.4E+02 0.003 27.6 4.2 32 335-366 184-215 (235)
No 1
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.9e-104 Score=764.13 Aligned_cols=397 Identities=60% Similarity=0.919 Sum_probs=385.0
Q ss_pred CccCCChhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhc
Q 014576 1 MRLSGDVAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSA 80 (422)
Q Consensus 1 ~R~~~D~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~ 80 (422)
||+++|+.|++|++..|+++||.+++|+.|++++..|+|||||+|+||++||+++|.|++++||.+++++||+||+.||+
T Consensus 42 tR~~~D~~s~~kv~~~i~~lc~~~~~w~~Lne~i~~Lskkrgqlk~ai~~Mvq~~~~y~~~~~d~~~k~~li~tLr~Vte 121 (439)
T KOG1498|consen 42 TRLASDMASNTKVLEEIMKLCFSAKDWDLLNEQIRLLSKKRGQLKQAIQSMVQQAMTYIDGTPDLETKIKLIETLRTVTE 121 (439)
T ss_pred HHHHhhHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCCchhHHHHHHHHHHhhc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 81 GKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 81 ~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
||||||+||||+|..||+++|++|++++||++|+++||||||+|+.++|++|+|||||||+..+||++|+++++||+.++
T Consensus 122 gkIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~ 201 (439)
T KOG1498|consen 122 GKIYVEVERARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKF 201 (439)
T ss_pred CceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHH
Q 014576 161 FDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKI 240 (422)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~ 240 (422)
|+.+ +.+++|++||++|++++.|++.|+++|++|+++++++.++.||++|..+|.++
T Consensus 202 F~~~-----------------------~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~i 258 (439)
T KOG1498|consen 202 FEKP-----------------------DVQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSI 258 (439)
T ss_pred cCCc-----------------------cHHHHHHHHHHHHHHhcccccchhhHHHHHHHHhcccccccChhhhhhhhhhh
Confidence 9853 45799999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHH
Q 014576 241 CWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQR 320 (422)
Q Consensus 241 v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~ 320 (422)
++|++|||++++++++++++..|+.++++|.++.+++.|.+++|++|+.+...|++.+....-..++..|+.||++|+.|
T Consensus 259 v~f~~LAp~dneQsdll~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~~~gek~~~dL~~R 338 (439)
T KOG1498|consen 259 VSFCVLAPHDNEQSDLLARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGGEEGEKRWSDLKLR 338 (439)
T ss_pred eeEEeecCCCcHHHHHHHHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhcccccccchhhhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999988899999998553333455699999999999
Q ss_pred HHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHH
Q 014576 321 IIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLD 400 (422)
Q Consensus 321 viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~ 400 (422)
|+|||+|++++|||||++.|+|+++|+|++++|.+||+||..|.++||||||+|||.|..++++++.||+|+.|+.+|++
T Consensus 339 IiEHNiRiiA~yYSrIt~~rl~eLLdl~~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~~~~~LneW~~nve~L~~ 418 (439)
T KOG1498|consen 339 IIEHNIRIIAKYYSRITLKRLAELLDLPVEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKDSNEILNEWASNVEKLLG 418 (439)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHhCCCHHHHHHHHHHHHhccceEEEecCCCceEEEEecccHHHHHHHHHhhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhHHHhhhhcc
Q 014576 401 LVEKSCHQIHKETMVHKTAL 420 (422)
Q Consensus 401 ~v~k~~~lI~ke~~~~~~~~ 420 (422)
+++++||||+||+|||++..
T Consensus 419 ll~K~~HLI~KEemmhsi~~ 438 (439)
T KOG1498|consen 419 LLEKVSHLIHKEEMMHSIQK 438 (439)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999854
No 2
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.1e-89 Score=643.31 Aligned_cols=398 Identities=40% Similarity=0.675 Sum_probs=384.2
Q ss_pred CccCCChhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhc
Q 014576 1 MRLSGDVAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSA 80 (422)
Q Consensus 1 ~R~~~D~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~ 80 (422)
+|+++|.+++++++..|+++|+..|+|++|+++++.|+|||||+|++|+.||+++|+|+....|+.+++.+++||+.|||
T Consensus 42 ~RqasD~~~~~kvl~~i~dLl~S~~~~~~Lneql~~L~kKhGQlk~sI~~MIq~vmEylKg~~dl~t~i~~ietlr~VtE 121 (439)
T COG5071 42 VRQASDTSTNTKVLIYIADLLFSAGDFQGLNEQLVSLFKKHGQLKQSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTE 121 (439)
T ss_pred HhhhccHHHHHHHHHHHHHHHhhcCchhhhhhHHHHHHHHcchHHHHHHHHHHHHHHhccCcccccchHhHHHHHHHHhc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 81 GKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 81 ~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
||||+|+||+++|..|..+++.+||+++|+++++++||||||+|+..+|+.|+|||+|||+..+||.+|.++.+||+.++
T Consensus 122 gkIFvEvERariT~~L~~ikee~Gdi~sA~Dilcn~pVETygs~~~Sekv~fiLEQ~rL~vl~~Dy~~A~~~~kKI~KK~ 201 (439)
T COG5071 122 GKIFVEVERARLTQLLSQIKEEQGDIKSAQDILCNEPVETYGSFDLSEKVAFILEQVRLFLLRSDYYMASTYTKKINKKF 201 (439)
T ss_pred CceEEehhHHHHHHHHHHHHHHhcchhHHHHHHhcCchhhccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHH
Q 014576 161 FDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKI 240 (422)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~ 240 (422)
|..+ +...+|++||++..+++.|.+.|++||++|+++|.|..+.+|++.|..+|+++
T Consensus 202 Fe~~-----------------------d~~slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~t~~~~~d~Akwk~VLS~~ 258 (439)
T COG5071 202 FEKE-----------------------DVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDTAVVQEDPAKWKEVLSNV 258 (439)
T ss_pred hccc-----------------------cHHHHHHHHHHHhheeecccHHHHHHHHHHHHHHHHHHhccCcccccchhhcc
Confidence 9753 45789999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHH
Q 014576 241 CWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQR 320 (422)
Q Consensus 241 v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~ 320 (422)
++|++|+|+++++.++++++..|.++..+|.-..+++.|..+++++||.+...|++.+....--|++..++.||.+|++|
T Consensus 259 v~F~iLtpy~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~e~~~~~w~DL~kr 338 (439)
T COG5071 259 VCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRKR 338 (439)
T ss_pred eeeEEecccccHHHHHHHHhhhhhhhccchhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhccchhhhhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999887443335677788999999999
Q ss_pred HHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHH
Q 014576 321 IIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLD 400 (422)
Q Consensus 321 viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~ 400 (422)
|+|||+|+|++|||||++.||+.++++|++++|.++|+||+.|-++|||+||+|||.|+++++..+.||.|++|++.+++
T Consensus 339 viEHN~RvI~~yYSrI~~~rl~~lld~~~s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n~~~~lneW~~NV~ellg 418 (439)
T COG5071 339 VIEHNIRVIANYYSRIHCSRLGVLLDMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLG 418 (439)
T ss_pred HHHhhHhHHHHHhhhhhHHHHHHHHcCCHHHHHHHHHHHHhcCcEEEEecCccceEEeeccccHHHHHHHhcccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhHHHhhhhccc
Q 014576 401 LVEKSCHQIHKETMVHKTALK 421 (422)
Q Consensus 401 ~v~k~~~lI~ke~~~~~~~~~ 421 (422)
.++++.|||.||+|+|.++.|
T Consensus 419 klek~~HLI~KEe~m~siqak 439 (439)
T COG5071 419 KLEKVRHLIIKEEMMNSIQAK 439 (439)
T ss_pred HHHHHhHHHhHHHHHhhhccC
Confidence 999999999999999998754
No 3
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=9.1e-53 Score=398.36 Aligned_cols=359 Identities=24% Similarity=0.337 Sum_probs=307.7
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHhhhh---------hhHHHHHHHHHHHHHhhh-------------cCCCCHHHHHHHHH
Q 014576 16 EILQLCFEAKDWKTLNEQIVNLSKKR---------GQLKQAVTAMVQQAMQYI-------------DQTPDLDTRIELIK 73 (422)
Q Consensus 16 ~i~~~~~~~~~~~~l~~~i~~l~k~~---------~qlk~ai~~~v~~~~~~l-------------~~~~~~~~~~~li~ 73 (422)
..+.+++..|+.+...+++..++.+. .++|..|..+|+.-...+ +..| .+.+-.+++
T Consensus 7 eev~~~~~~g~hk~~~~qyr~~l~~~lt~~~~el~e~~k~~id~~~~~~vslvvsrqllsl~~~~l~~l~-~e~~Kei~~ 85 (399)
T KOG1497|consen 7 EEVVLIFAEGDHKDQAEQYRQLLAKVLTNNGMELLEALKRFIDAIVNENVSLVVSRQLLSLFDVELSILE-DELRKEISH 85 (399)
T ss_pred HHHHHHHhcCchhhHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHhccCC-HHHHHHHHH
Confidence 45666777777777777777666433 233555655554433222 2223 355556676
Q ss_pred -HHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh-ccCchHHHHHHHHHHHHHHhccCCHHHHHH
Q 014576 74 -TLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF-GAMAKTEKIAFILEQVRLCLDRQDYVRAQI 151 (422)
Q Consensus 74 -tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~-~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~ 151 (422)
||..++++.|.||++.+.++.+||.+||++++|..||..|.+|+.+|+ ...+...|+..++++.||||+.+|.+.|+.
T Consensus 86 ~~l~~iq~rvisfeEqv~~irl~LAsiYE~Eq~~~~aaq~L~~I~~~tg~~~~d~~~kl~l~iriarlyLe~~d~veae~ 165 (399)
T KOG1497|consen 86 FTLEKIQPRVISFEEQVASIRLHLASIYEKEQNWRDAAQVLVGIPLDTGQKAYDVEQKLLLCIRIARLYLEDDDKVEAEA 165 (399)
T ss_pred HHHHhcccccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccCcccchhhhhhHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence 999999999999999999999999999999999999999999999995 478889999999999999999999999999
Q ss_pred HHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChh
Q 014576 152 LSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPA 231 (422)
Q Consensus 152 ~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~ 231 (422)
+.+|++-..-.. .+.++.+.|..|.+|..+..|+|+||+++|+++..+.-+ |..
T Consensus 166 ~inRaSil~a~~------------------------~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~ki~--~e~ 219 (399)
T KOG1497|consen 166 YINRASILQAES------------------------SNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQRKIV--DES 219 (399)
T ss_pred HHHHHHHhhhcc------------------------cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--chH
Confidence 999998643110 235889999999999999999999999999999987664 346
Q ss_pred hHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhh-hhhhhcCCchh
Q 014576 232 QWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFE-NETNMLGGSLG 310 (422)
Q Consensus 232 ~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~-~~~~~~~d~~~ 310 (422)
++.++|+.++.|++||.+||+|+++|+.+++|++++++|+|..+.|+|.. .+|+.++. ..|...|. |+.....|
T Consensus 220 ~~~~aL~~a~~CtlLA~~gpqrsr~Latlfkder~~~l~~y~ileKmyl~-riI~k~el-~ef~~~L~pHQka~~~d--- 294 (399)
T KOG1497|consen 220 ERLEALKKALQCTLLASAGPQRSRMLATLFKDERCQKLPAYGILEKMYLE-RIIRKEEL-QEFEAFLQPHQKAHTMD--- 294 (399)
T ss_pred HHHHHHHHhHhheeecCCChHHHHHHHHHhcCcccccccchHHHHHHHHH-HHhcchhH-HHHHHHhcchhhhcccC---
Confidence 88999999999999999999999999999999999999999999999996 69999998 78887776 66554233
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHH
Q 014576 311 AKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNS 390 (422)
Q Consensus 311 ~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~ 390 (422)
+...+.++++||||..+|+.|.+||++.||++|++|++.+|+++++||.++|++|.|||.+|+|+|.+. +.+..
T Consensus 295 --gssil~ra~~EhNlls~Skly~nisf~~Lg~ll~i~~ekaekiaa~MI~qeRmng~IDQ~egiihFe~~----e~l~~ 368 (399)
T KOG1497|consen 295 --GSSILDRAVIEHNLLSASKLYNNISFEELGALLKIDAEKAEKIAAQMITQERMNGSIDQIEGIIHFEDR----EELPQ 368 (399)
T ss_pred --cchhhhhHHHHHhHHHHHHHHHhccHHHHHHHhCCCHHHHHHHHHHHHhHHHhccchHhhcceEeecch----hhhhh
Confidence 347899999999999999999999999999999999999999999999999999999999999999975 67899
Q ss_pred HHHHHHHHHHHHHHHHhhhhhH
Q 014576 391 WAMNLEKLLDLVEKSCHQIHKE 412 (422)
Q Consensus 391 W~~~I~~l~~~v~k~~~lI~ke 412 (422)
|+++|.++|+.||++.+.|++=
T Consensus 369 wdkqi~sl~~qvNki~~~i~~~ 390 (399)
T KOG1497|consen 369 WDKQIQSLCNQVNKILDKISHY 390 (399)
T ss_pred hhHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999998763
No 4
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.1e-39 Score=312.00 Aligned_cols=338 Identities=16% Similarity=0.224 Sum_probs=297.5
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHhhhcCCCC-HHHHHHHHHHHHh--hhcCcchHHHHH
Q 014576 14 VTEILQLCFEAKDWKTLNEQIVNLSKKRGQL-KQAVTAMVQQAMQYIDQTPD-LDTRIELIKTLNS--VSAGKIYVEIER 89 (422)
Q Consensus 14 ~~~i~~~~~~~~~~~~l~~~i~~l~k~~~ql-k~ai~~~v~~~~~~l~~~~~-~~~~~~li~tL~~--~~~~ki~~E~er 89 (422)
+..+.+++.+.|+++.+.+.+..+.....++ |+.++|+|+.+++.+..+|+ .+.++.++....+ ..+++.|+ |
T Consensus 51 Ilel~~ll~~~~~~~~lr~li~~~Rpf~~~v~KakaaKlvR~Lvd~~~~~~~~~~~~i~l~~~cIeWA~~ekRtFL---R 127 (411)
T KOG1463|consen 51 ILELGDLLAKEGDAEELRDLITSLRPFLSSVSKAKAAKLVRSLVDMFLKIDDGTGDQIELCTECIEWAKREKRTFL---R 127 (411)
T ss_pred HHHHHHHHHhccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHHhHHHH---H
Confidence 4467788899999999999999999999999 99999999999999998887 4778888886553 67788999 9
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
..|+-+|+.+|.+.++|.+|..+++++.-|.-+--|+.--++++|+..+.|...+|..+|+..+.-+++.
T Consensus 128 q~Learli~Ly~d~~~YteAlaL~~~L~rElKKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~---------- 197 (411)
T KOG1463|consen 128 QSLEARLIRLYNDTKRYTEALALINDLLRELKKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTT---------- 197 (411)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHh----------
Confidence 9999999999999999999999999999998443444589999999999999999999999988888663
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCC
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPH 249 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~ 249 (422)
++.+| |||..++. .|+ +.+.+|.+++||..||+||+|+|+++....++.++...|+||++|.|+.+-
T Consensus 198 -----AnaiY-cpPqlQa~-lDL------qSGIlha~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMln~ 264 (411)
T KOG1463|consen 198 -----ANAIY-CPPQLQAT-LDL------QSGILHAAEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIMLNL 264 (411)
T ss_pred -----hcccc-cCHHHHHH-HHH------hccceeecccccchHHHHHHHHHccccccCCcHHHHHHHHHHHHHHHHhcC
Confidence 56667 77777775 455 788999999999999999999999988776656889999999999999999
Q ss_pred ChhhhHHhhhhhc-ccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHH
Q 014576 250 DPMQSSLLNSTLE-DKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILV 328 (422)
Q Consensus 250 ~~~rs~ll~~~~~-d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~ 328 (422)
..+...+++.... -...+.+.+|+....+|-+|+|-.|..+..+|..++. +||+++.|+..|.+++.|.||.+
T Consensus 265 ~ddv~~lls~K~~l~y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~------~D~ivr~Hl~~Lyd~lLEknl~r 338 (411)
T KOG1463|consen 265 PDDVAALLSAKLALKYAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELA------EDPIVRSHLQSLYDNLLEKNLCR 338 (411)
T ss_pred HHHHHHHHhhHHHHhccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHh------cChHHHHHHHHHHHHHHHHhHHH
Confidence 8888888765431 1335679999999999999999888777777777775 89999999999999999999999
Q ss_pred HhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE-EEEccCCC
Q 014576 329 VSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI-VCFQVAKD 383 (422)
Q Consensus 329 isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi-V~F~~~~~ 383 (422)
|++|||+|.++++|+++|++..+||+.||+||.|+.++|.+||.+|. |.|+.|..
T Consensus 339 iIEPyS~Vei~hIA~~IGl~~~~VEkKLsqMILDKkf~G~LDQg~g~Liv~~e~~~ 394 (411)
T KOG1463|consen 339 IIEPYSRVEISHIAEVIGLDVPQVEKKLSQMILDKKFYGTLDQGEGCLIVFEEPPA 394 (411)
T ss_pred HcCchhhhhHHHHHHHHCCCcHHHHHHHHHHHHHHHhhcccccCCCeEEEeCCCCc
Confidence 99999999999999999999999999999999999999999999995 78887643
No 5
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=4.8e-40 Score=307.19 Aligned_cols=350 Identities=17% Similarity=0.245 Sum_probs=304.1
Q ss_pred hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHH-----HHHHHHHhhhcCCCCHHHHHHHHH-HHHhhhc
Q 014576 7 VAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVT-----AMVQQAMQYIDQTPDLDTRIELIK-TLNSVSA 80 (422)
Q Consensus 7 ~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~-----~~v~~~~~~l~~~~~~~~~~~li~-tL~~~~~ 80 (422)
+.-.+++++++++..|..++|+.|++.+..|. .++|+||+ +.|+.+++|++...+++....|++ ||..+.+
T Consensus 61 geWGFKALKQmiKI~f~l~~~~eMm~~Y~qlL---TYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkd 137 (440)
T KOG1464|consen 61 GEWGFKALKQMIKINFRLGNYKEMMERYKQLL---TYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKD 137 (440)
T ss_pred chhHHHHHHHHHHHHhccccHHHHHHHHHHHH---HHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHh
Confidence 45578999999999999999999999999988 79999998 899999999999999999999999 7766555
Q ss_pred C---cchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhc--cCchHHHHHHHHHHH----HHHhccCCHHHHHH
Q 014576 81 G---KIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFG--AMAKTEKIAFILEQV----RLCLDRQDYVRAQI 151 (422)
Q Consensus 81 ~---ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~--~~~~~eK~e~~Le~~----rL~l~~~D~~~a~~ 151 (422)
. ++|| ....+|+++|.+.|+|....++|.++++.|.. +-++..|...+||+. ++|.+.+|..+.+.
T Consensus 138 AKNeRLWF-----KTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~ 212 (440)
T KOG1464|consen 138 AKNERLWF-----KTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKA 212 (440)
T ss_pred hhcceeee-----eccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHH
Confidence 4 4555 47889999999999999999999999998873 667788888888875 56999999999999
Q ss_pred HHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChh
Q 014576 152 LSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPA 231 (422)
Q Consensus 152 ~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~ 231 (422)
++.++... -++.|+ +.++|+| ++|+| ||+...++|..+..||+|||++|.|.++ .
T Consensus 213 lYeqalhi-KSAIPH------PlImGvI---RECGG-------KMHlreg~fe~AhTDFFEAFKNYDEsGs--------p 267 (440)
T KOG1464|consen 213 LYEQALHI-KSAIPH------PLIMGVI---RECGG-------KMHLREGEFEKAHTDFFEAFKNYDESGS--------P 267 (440)
T ss_pred HHHHHHHh-hccCCc------hHHHhHH---HHcCC-------ccccccchHHHHHhHHHHHHhcccccCC--------c
Confidence 98887653 255665 3678887 55555 6888889999999999999999999987 4
Q ss_pred hHHHHHHHHHHHHHhC-----CCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhh-hhhhhc
Q 014576 232 QWMPVLRKICWYLVLA-----PHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFE-NETNML 305 (422)
Q Consensus 232 ~~~~~L~~~v~~~ILa-----~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~-~~~~~~ 305 (422)
++.+||++.|+.-+|. |++.+.. +.|++ .+++.+|..|+.+|++++|+ .|+..+. |+..+|
T Consensus 268 RRttCLKYLVLANMLmkS~iNPFDsQEA----KPyKN--dPEIlAMTnlv~aYQ~NdI~-------eFE~Il~~~~~~IM 334 (440)
T KOG1464|consen 268 RRTTCLKYLVLANMLMKSGINPFDSQEA----KPYKN--DPEILAMTNLVAAYQNNDII-------EFERILKSNRSNIM 334 (440)
T ss_pred chhHHHHHHHHHHHHHHcCCCCCccccc----CCCCC--CHHHHHHHHHHHHHhcccHH-------HHHHHHHhhhcccc
Confidence 8899999888887775 5555554 77865 47799999999999999994 6677776 778899
Q ss_pred CCchhhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCCh-
Q 014576 306 GGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDS- 384 (422)
Q Consensus 306 ~d~~~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~- 384 (422)
+||++++|.++|.+.|+.+.+..+++||++|.++.+++.|++++.+||..|..+|.+.+|.|+||+++|++...+.+..
T Consensus 335 ~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~ 414 (440)
T KOG1464|consen 335 DDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSG 414 (440)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhccccccchHHhhhHhccCccCCcc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999876552
Q ss_pred ---HHHHHHHHHHHHHHHHHH
Q 014576 385 ---NDILNSWAMNLEKLLDLV 402 (422)
Q Consensus 385 ---~~~l~~W~~~I~~l~~~v 402 (422)
...|..|++++.++-..|
T Consensus 415 ~k~~~al~kW~~ql~Sl~~~i 435 (440)
T KOG1464|consen 415 SKLYKALDKWNNQLKSLQSNI 435 (440)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999987765
No 6
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.9e-34 Score=269.69 Aligned_cols=338 Identities=14% Similarity=0.211 Sum_probs=296.0
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHhhhcCCCC-HHHHHHHHHHHHh--hhcCcchHHHH
Q 014576 13 AVTEILQLCFEAKDWKTLNEQIVNLSKKRGQL-KQAVTAMVQQAMQYIDQTPD-LDTRIELIKTLNS--VSAGKIYVEIE 88 (422)
Q Consensus 13 ~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~ql-k~ai~~~v~~~~~~l~~~~~-~~~~~~li~tL~~--~~~~ki~~E~e 88 (422)
.+..+.++|...|++..+.+.++.+..-..++ |..++++|+..++.++..|+ .+.++++++.+.+ ..|++.|+
T Consensus 47 tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fL--- 123 (421)
T COG5159 47 TVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRTLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFL--- 123 (421)
T ss_pred HHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHH---
Confidence 46678999999999999999999988888898 99999999999999998887 5888889987775 67888999
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchH-HHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKT-EKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSK 167 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~-eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~ 167 (422)
|..+.-+|+.++.+.|.|.+|...+..+.-|. +.+|++ .-++++|-..+.|.+-++..+++..+..++..
T Consensus 124 r~~Le~Kli~l~y~~~~YsdalalIn~ll~El-Kk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~-------- 194 (421)
T COG5159 124 RLELECKLIYLLYKTGKYSDALALINPLLHEL-KKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTL-------- 194 (421)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH-HhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHH--------
Confidence 99999999999999999999999999999887 555554 88999999999999999999999888877653
Q ss_pred ccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhC
Q 014576 168 EKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLA 247 (422)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa 247 (422)
|+.+| |||.+++. .|+ +.+.++..++||..|+++|.|++++++...+..++...|+++++..|++
T Consensus 195 -------Ans~Y-CPpqlqa~-lDL------~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMl 259 (421)
T COG5159 195 -------ANSAY-CPPQLQAQ-LDL------LSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIML 259 (421)
T ss_pred -------hhccC-CCHHHHHH-HHH------hccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHH
Confidence 45566 77777775 455 7789999999999999999999999988766567888999999999999
Q ss_pred CCChhhhHHhhhhhcc--cCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHH
Q 014576 248 PHDPMQSSLLNSTLED--KNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHN 325 (422)
Q Consensus 248 ~~~~~rs~ll~~~~~d--~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhN 325 (422)
+.-.+...+|+..+.- ...+.|.+|.....+|-|+++.+|..+..+|++.+. .|++++.|++.|++.+.|.|
T Consensus 260 N~~~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~------~D~~iRsHl~~LYD~LLe~N 333 (421)
T COG5159 260 NRREEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELH------QDSFIRSHLQYLYDVLLEKN 333 (421)
T ss_pred hhHHHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhc------cCHHHHHHHHHHHHHHHHhh
Confidence 8866666666544321 223568999999999999999999888888888775 79999999999999999999
Q ss_pred HHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE-EEEccCCC
Q 014576 326 ILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI-VCFQVAKD 383 (422)
Q Consensus 326 i~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi-V~F~~~~~ 383 (422)
+..|.+||+++.++++|..+|++..++|..+++||.++-++|.+||.+|. +.++.|..
T Consensus 334 l~kiiEPfs~VeishIa~viGldt~qvEgKLsqMILDKifyG~LDqg~gcLivy~ep~q 392 (421)
T COG5159 334 LVKIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIFYGTLDQGDGCLIVYGEPAQ 392 (421)
T ss_pred hhhhcCcceeeehhHHHHHhcccHHHHHHHHHHHHHHHHHHhhhccCCceEEEeCCccc
Confidence 99999999999999999999999999999999999999999999999995 66766643
No 7
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=4.2e-25 Score=211.03 Aligned_cols=282 Identities=17% Similarity=0.170 Sum_probs=229.4
Q ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh-ccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCC
Q 014576 86 EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF-GAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDAD 164 (422)
Q Consensus 86 E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~-~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~ 164 (422)
|-|........|.+|...||.+.|.+.+.. |+ +.++-+.|+++.+-.+||.+...|..-....+.|++..+-.+
T Consensus 100 E~ev~ea~~~kaeYycqigDkena~~~~~~----t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~G- 174 (393)
T KOG0687|consen 100 ESEVREAMLRKAEYYCQIGDKENALEALRK----TYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEG- 174 (393)
T ss_pred hHHHHHHHHHHHHHHHHhccHHHHHHHHHH----HHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhC-
Confidence 566788899999999999999999999887 77 478999999999999999999999999999999999887554
Q ss_pred CccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHH
Q 014576 165 PSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYL 244 (422)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ 244 (422)
||| |-|.++.-+++.|..+.+||.+|+..|.+...|++.-| +..++.+|.|+
T Consensus 175 -------gDW----------------eRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~E-----l~~Y~~~v~Yt 226 (393)
T KOG0687|consen 175 -------GDW----------------ERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYE-----LMSYETFVRYT 226 (393)
T ss_pred -------CCh----------------hhhhhHHHHHHHHHHHHHhHHHHHHHHHHHccccccee-----cccHHHHHHHH
Confidence 788 77889999999999999999999999999999997643 23555666677
Q ss_pred HhCCC-ChhhhHHhhhhhcccC----CCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHH-
Q 014576 245 VLAPH-DPMQSSLLNSTLEDKN----LSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLR- 318 (422)
Q Consensus 245 ILa~~-~~~rs~ll~~~~~d~~----~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~- 318 (422)
|.+.. ..+|.++-+++.+.+. ++++|...+++..++. ++|...|.+...+....+..+++-.-|
T Consensus 227 v~~g~i~leR~dlktKVi~~~Evl~vl~~l~~~~q~l~SLY~----------C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~ 296 (393)
T KOG0687|consen 227 VITGLIALERVDLKTKVIKCPEVLEVLHKLPSVSQLLNSLYE----------CDYSDFFNDLAAVEAKQLKDDRYLGPHY 296 (393)
T ss_pred HHHhhheeccchHHhhhcCcHHHHHHhhcCchHHHHHHHHHh----------ccHHHHHHHHHHHHHHhhccchhcchHH
Confidence 76654 6788899899988764 4567777777666654 677776664322211111222222222
Q ss_pred -HHHHHHHHHHHh---hhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHH
Q 014576 319 -QRIIEHNILVVS---KYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMN 394 (422)
Q Consensus 319 -~~viEhNi~~is---k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~ 394 (422)
--++|--+++.+ ..|..++++.||+.||+|++.+++.|+++|.+|+++|+||+++|||+.++|+..|.+...-..+
T Consensus 297 ~yyvREMR~rvY~QlLESYrsl~l~~MA~aFgVSVefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~KN~qyq~vikq 376 (393)
T KOG0687|consen 297 RYYVREMRRRVYAQLLESYRSLTLESMAKAFGVSVEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDEKNAQYQAVIKQ 376 (393)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHhHHHHhhccCceeeeeecccceeecCCccccchHHHHHHhh
Confidence 234444455555 5699999999999999999999999999999999999999999999999999888889999999
Q ss_pred HHHHHHHHHHHHhhhh
Q 014576 395 LEKLLDLVEKSCHQIH 410 (422)
Q Consensus 395 I~~l~~~v~k~~~lI~ 410 (422)
.+-|++.|+|++..|+
T Consensus 377 Gd~LLnriQK~~rvi~ 392 (393)
T KOG0687|consen 377 GDLLLNRIQKLSRVIN 392 (393)
T ss_pred hHHHHHHHHHHHHHhc
Confidence 9999999999999885
No 8
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.85 E-value=1.6e-19 Score=170.55 Aligned_cols=281 Identities=15% Similarity=0.150 Sum_probs=217.6
Q ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh-ccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCC
Q 014576 86 EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF-GAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDAD 164 (422)
Q Consensus 86 E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~-~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~ 164 (422)
|.|-+.....+|.+|...+|.+.+.+.+.. +. ..|+..-|++++|..+||.+-.+|-.-.+..+.++++.+-.+
T Consensus 111 E~e~~ea~~n~aeyY~qi~D~~ng~~~~~~----~~~~a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkG- 185 (412)
T COG5187 111 ETEGSEADRNIAEYYCQIMDIQNGFEWMRR----LMRDAMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKG- 185 (412)
T ss_pred chHHHHHHHHHHHHHHHHhhhhhHHHHHHH----HHHHHHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhC-
Confidence 566789999999999999999999998887 44 478889999999999999999999999999999998877554
Q ss_pred CccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHH
Q 014576 165 PSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYL 244 (422)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ 244 (422)
||| |-+.+|..+.+.+....++|.+|+..+.++..|++..+ +..+..+|-|+
T Consensus 186 -------gDW----------------eRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~E-----l~sY~~~vrYa 237 (412)
T COG5187 186 -------GDW----------------ERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSE-----LISYSRAVRYA 237 (412)
T ss_pred -------CCH----------------HhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccc-----cccHHHHHHHH
Confidence 678 77889999999999999999999999999999987643 22444555565
Q ss_pred HhCCC-ChhhhHHhhhhhcccC----CCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhc-----CCchhhhHH
Q 014576 245 VLAPH-DPMQSSLLNSTLEDKN----LSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNML-----GGSLGAKAA 314 (422)
Q Consensus 245 ILa~~-~~~rs~ll~~~~~d~~----~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~-----~d~~~~~~~ 314 (422)
+.+.. ..+|.++.+++.+.|. ++....+..|...-.+ | ..+.|...|.+...++ +|.+.-.|.
T Consensus 238 ~~~Gl~~leR~diktki~dspevl~vi~~~e~l~sl~~l~~S--L-----y~cdY~~~F~~ll~~~~n~L~~d~fl~rh~ 310 (412)
T COG5187 238 IFCGLLRLERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATS--L-----YECDYGGDFMNLLYLFCNSLQDDVFLGRHV 310 (412)
T ss_pred HHhhhheeehhhhhhhhcCCHHHHHhccchhhhhhHHHHHHH--H-----HHhccchhhHHHHHHHHhhccchHHHHHHH
Confidence 55543 6789999999988764 2223333333332211 1 1245555555333222 222222222
Q ss_pred HHHHHHHHHHHHHHHh---hhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHH
Q 014576 315 EDLRQRIIEHNILVVS---KYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSW 391 (422)
Q Consensus 315 ~~L~~~viEhNi~~is---k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W 391 (422)
.. -++|--.++.+ +-|...+++.||+.||+|++-+++-|..+|.+|+++|.|||++|+|...+|...|.....-
T Consensus 311 d~---fvREMRrrvYaQlLESYr~lsl~sMA~tFgVSV~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpdekn~qy~~v 387 (412)
T COG5187 311 DL---FVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDEKNQQYSSV 387 (412)
T ss_pred HH---HHHHHHHHHHHHHHHHHHHhhHHHHHHHhCccHHHHhhhHHhhCCCCceeeeeecccceEeccCcchhhhhHHHH
Confidence 22 24454555555 4599999999999999999999999999999999999999999999999998888888889
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 014576 392 AMNLEKLLDLVEKSCHQI 409 (422)
Q Consensus 392 ~~~I~~l~~~v~k~~~lI 409 (422)
..+.+.|+..++|....+
T Consensus 388 VkqGd~ll~klqKy~atv 405 (412)
T COG5187 388 VKQGDDLLRKLQKYVATV 405 (412)
T ss_pred HhcchHHHHHHHHHHHHH
Confidence 999999999999977654
No 9
>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=99.67 E-value=4.1e-16 Score=129.00 Aligned_cols=105 Identities=27% Similarity=0.431 Sum_probs=88.0
Q ss_pred hhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCH
Q 014576 270 PNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSI 349 (422)
Q Consensus 270 p~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~ 349 (422)
|.|..|.++|.+.++..+.+....+ ...++.++....+.+.+...+++++++.++++|++|+++++|+.++++.
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~------~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~~ 74 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKH------SESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLSE 74 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHT------CHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCCH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHH------HHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccch
Confidence 7889999999998874444433333 1334456667778899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCeEEEEeccCCcEEEEcc
Q 014576 350 QEAEKHLSDMVVSKALVAKIDRPQGIVCFQV 380 (422)
Q Consensus 350 ~e~E~~ls~mI~~~~i~akIDq~~giV~F~~ 380 (422)
+++|..+++||.+|.|.|+|||++|+|+|.+
T Consensus 75 ~~vE~~l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 75 EEVESILIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHHHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHHHHHHHCCCEEEEEECCCCEEEecC
Confidence 9999999999999999999999999999974
No 10
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.52 E-value=9.8e-13 Score=129.96 Aligned_cols=256 Identities=14% Similarity=0.095 Sum_probs=185.4
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
-+.-..|+..|.+-|+++.|.+......- - -.+.+.-+.+++..|++.+..+||.+.-.+++|+..... +...
T Consensus 150 Rra~~Dl~dhy~~cG~l~~Alr~YsR~Rd-Y--CTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~-~~~~--- 222 (466)
T KOG0686|consen 150 RRALEDLGDHYLDCGQLDNALRCYSRARD-Y--CTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPD-ANEN--- 222 (466)
T ss_pred HHHHHHHHHHHHHhccHHHHHhhhhhhhh-h--hcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCch-hhhh---
Confidence 34457899999999999999996666332 1 235678999999999999999999999999999966421 1000
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHH-HhCC
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYL-VLAP 248 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~-ILa~ 248 (422)
.+ +... .|++- +.+.-+...++|..|+++|..+--+.. |. .++-.=+...+|+ ..|-
T Consensus 223 ----~~-------q~v~-----~kl~C--~agLa~L~lkkyk~aa~~fL~~~~~~~---d~-~~ivtpsdv~iYggLcAL 280 (466)
T KOG0686|consen 223 ----LA-------QEVP-----AKLKC--AAGLANLLLKKYKSAAKYFLLAEFDHC---DY-PEIVTPSDVAIYGGLCAL 280 (466)
T ss_pred ----HH-------HhcC-----cchHH--HHHHHHHHHHHHHHHHHHHHhCCCCcc---Cc-cceecchhhHHHHhhHhh
Confidence 00 0111 12222 444666777899999999987653211 10 1111111222333 3334
Q ss_pred CChhhhHHhhhhhccc----CCCCChhHHHHHHHhcccccccchhhHHHHHHHhhh----hhhhcCCchhhhHHHHHHHH
Q 014576 249 HDPMQSSLLNSTLEDK----NLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFEN----ETNMLGGSLGAKAAEDLRQR 320 (422)
Q Consensus 249 ~~~~rs~ll~~~~~d~----~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~----~~~~~~d~~~~~~~~~L~~~ 320 (422)
++..|.+++..+..+. .++-.|.+..++..|++ ..|..+|.- ...+.-|.....|...|...
T Consensus 281 Atfdr~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~----------sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~ 350 (466)
T KOG0686|consen 281 ATFDRQDLKLNVIKNESFKLFLELEPQLREILFKFYS----------SKYASCLELLREIKPRLLLDMYLAPHVDNLYSL 350 (466)
T ss_pred ccCCHHHHHHHHHcchhhhhHHhcChHHHHHHHHHhh----------hhHHHHHHHHHHhccceeechhcchhHHHHHHH
Confidence 4556777765555442 35668999999999997 588888762 23344577778888899999
Q ss_pred HHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCCh
Q 014576 321 IIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDS 384 (422)
Q Consensus 321 viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~ 384 (422)
|++.-+...-.||+++.+++||..+|.|+...|..|-++|.+|+|+||||+.++++...+..+.
T Consensus 351 IR~r~llqy~~py~s~~m~~mA~af~~sv~~le~~l~~LI~~~~i~~rIDs~~ki~~~~~~~~e 414 (466)
T KOG0686|consen 351 IRNRALLQYLSPYSSADMSKMAEAFNTSVAILESELLELILEGKISGRIDSHNKILYARDADSE 414 (466)
T ss_pred HHHhhHHHhcCccccchHHHHHHHhcccHHHHHHHHHHHHHccchheeeccccceeeecccccc
Confidence 9999888888999999999999999999999999999999999999999999999988776443
No 11
>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=99.50 E-value=1.4e-13 Score=110.86 Aligned_cols=72 Identities=39% Similarity=0.511 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCCh
Q 014576 313 AAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDS 384 (422)
Q Consensus 313 ~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~ 384 (422)
++..+.+.++++|+..++++|++|++++||+.+++|.+++|..+++||.+|.|.|+|||++|+|.|.+..+.
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 457789999999999999999999999999999999999999999999999999999999999999876543
No 12
>smart00753 PAM PCI/PINT associated module.
Probab=99.50 E-value=1.4e-13 Score=110.86 Aligned_cols=72 Identities=39% Similarity=0.511 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCCh
Q 014576 313 AAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDS 384 (422)
Q Consensus 313 ~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~ 384 (422)
++..+.+.++++|+..++++|++|++++||+.+++|.+++|..+++||.+|.|.|+|||++|+|.|.+..+.
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r 73 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPR 73 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchh
Confidence 457789999999999999999999999999999999999999999999999999999999999999876543
No 13
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.46 E-value=4.1e-10 Score=109.38 Aligned_cols=338 Identities=19% Similarity=0.228 Sum_probs=210.5
Q ss_pred CHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhcc
Q 014576 26 DWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGL 105 (422)
Q Consensus 26 ~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~ 105 (422)
.|+.+-+.+. -|.--|+--++...|+.. .....+.+..++.-...--+++|-. -.+...+-.+.+.-+|
T Consensus 22 ew~~leeLy~--eKLW~QLt~~l~~fvd~~-----~f~~~~~~l~lY~NFvsefe~kINp----lslvei~l~~~~~~~D 90 (380)
T KOG2908|consen 22 EWDRLEELYE--EKLWHQLTLALVDFVDDP-----PFQAGDLLLQLYLNFVSEFETKINP----LSLVEILLVVSEQISD 90 (380)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHhcc-----ccccchHHHHHHHHHHHHHhhccCh----HHHHHHHHHHHHHhcc
Confidence 5666555554 244456655555555521 0122345556666444444555533 2233444555677789
Q ss_pred HHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCC
Q 014576 106 IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPAD 185 (422)
Q Consensus 106 ~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (422)
.++|.+.|.++--.+-..-.+..-.-...++.|++|+.+|...++..+.......-+ ..++.
T Consensus 91 ~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~------------~~~v~------ 152 (380)
T KOG2908|consen 91 KDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDS------------LDGVT------ 152 (380)
T ss_pred HHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhc------------ccCCC------
Confidence 999999999987655433344466667788899999999999999888777653322 11111
Q ss_pred ccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCC-hhhHHHHHHHHHHHHHhCCC-ChhhhHHhh-hhhc
Q 014576 186 IPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKED-PAQWMPVLRKICWYLVLAPH-DPMQSSLLN-STLE 262 (422)
Q Consensus 186 ~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d-~~~~~~~L~~~v~~~ILa~~-~~~rs~ll~-~~~~ 262 (422)
.-....||.....||...+||-..+++-.--..+..+.+= .+++...-=-..++++|+.. -|. -.+|+ -+.+
T Consensus 153 ----~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~YL~~~d~~~l~~se~~~lA~~L~~aALLGe~iyNf-GELL~HPile 227 (380)
T KOG2908|consen 153 ----SNVHSSFYSLSSQYYKKIGDFASYYRHALLYLGCSDIDDLSESEKQDLAFDLSLAALLGENIYNF-GELLAHPILE 227 (380)
T ss_pred ----hhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHhccccccccCHHHHHHHHHHHHHHHHhccccccH-HHHHhhHHHH
Confidence 1245579999999999999998766654433333222111 12322222234467777752 222 22333 3333
Q ss_pred ccCCCCChhHHHHHHHhcccccccchhhHHHHHH--HhhhhhhhcCCchhhhHHHHHHHHHHHHHH--HHHhhh--cccc
Q 014576 263 DKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKD--EFENETNMLGGSLGAKAAEDLRQRIIEHNI--LVVSKY--YSRI 336 (422)
Q Consensus 263 d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~--~l~~~~~~~~d~~~~~~~~~L~~~viEhNi--~~isk~--Ys~I 336 (422)
.-..........++.+|...++-+|......+.. .|..+ -..|...+.---+ .+.++| =..|
T Consensus 228 sL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~------------e~~L~qKI~LmaLiEi~F~rpa~~R~l 295 (380)
T KOG2908|consen 228 SLKGTNREWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASN------------EDFLLQKIRLLALIEITFSRPANERTL 295 (380)
T ss_pred HhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHH------------HHHHHHHHHHHHHHHHHhcCcchhccc
Confidence 2222334566789999998888666554444432 22211 1222221111000 112232 3459
Q ss_pred cHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCCh----------HHHHHHHHHHHHHHHHHHHHHH
Q 014576 337 TLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDS----------NDILNSWAMNLEKLLDLVEKSC 406 (422)
Q Consensus 337 sl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~----------~~~l~~W~~~I~~l~~~v~k~~ 406 (422)
|++.+|+...+|.++||-.+.+..+-|-|.|.|||++|+|+|.+..+. .+.+..|.+++.++-..|+.-+
T Consensus 296 sf~~Ia~~tkip~~eVE~LVMKAlslgLikG~Idqv~~~v~~swvqPRvl~~~qI~~Mk~rl~~W~~~v~~me~~ve~~~ 375 (380)
T KOG2908|consen 296 SFKEIAEATKIPNKEVELLVMKALSLGLIKGSIDQVEGVVYMSWVQPRVLDRSQIVKMKDRLDEWNKDVKSMEGLVEHRG 375 (380)
T ss_pred cHHHHHHHhCCCHHHHHHHHHHHHhccceeeeecccccEEEEecccccccCHHHHHhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999986552 3679999999999999999888
Q ss_pred hhh
Q 014576 407 HQI 409 (422)
Q Consensus 407 ~lI 409 (422)
|-|
T Consensus 376 ~~i 378 (380)
T KOG2908|consen 376 HEI 378 (380)
T ss_pred ccc
Confidence 765
No 14
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=4.9e-09 Score=103.99 Aligned_cols=278 Identities=19% Similarity=0.193 Sum_probs=187.2
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCc-hHHHHH-HHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMA-KTEKIA-FILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSK 167 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~-~~eK~e-~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~ 167 (422)
+++-.-++-.||-+|+...--..|....- | .++- +.+=.. ++=-..|.||..+-|.+|..++.|..- ..
T Consensus 169 ak~~fy~~l~~E~~~~l~~~rs~l~~~lr-t-AtLrhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~~---pe---- 239 (493)
T KOG2581|consen 169 AKLYFYLYLSYELEGRLADIRSFLHALLR-T-ATLRHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSVY---PE---- 239 (493)
T ss_pred HHHHHHHHHHHHhhcchHHHHHHHHHHHH-H-hhhcCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhcccC---cc----
Confidence 66777778888888886666655555442 1 2222 222222 333356899999999999999887742 11
Q ss_pred ccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhC
Q 014576 168 EKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLA 247 (422)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa 247 (422)
..-.. ..-+|.-+.+++..-+.+|-+|.+||..+.--.+-..--.-+.++-+.+++--.|.
T Consensus 240 -----------------~~snn--e~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll~ 300 (493)
T KOG2581|consen 240 -----------------AASNN--EWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELLL 300 (493)
T ss_pred -----------------ccccH--HHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHHc
Confidence 00111 33477778889999999999999999988863221000012345666666666677
Q ss_pred CCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHH
Q 014576 248 PHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNIL 327 (422)
Q Consensus 248 ~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~ 327 (422)
..-|+|+-.-...++ ..+-.|-.|.++--..+|-+|....++|.+.|..+ +. -.-.--|+.+|+..-||
T Consensus 301 geiPers~F~Qp~~~----ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D-----~t--y~LivRLR~NVIkTgIR 369 (493)
T KOG2581|consen 301 GEIPERSVFRQPGMR----KSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQAD-----GT--YTLIVRLRHNVIKTGIR 369 (493)
T ss_pred CCCcchhhhcCccHH----HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhC-----Cc--chHHHHHHHHHHHHhhh
Confidence 777888644322222 11334446888877778888877778888777621 11 11235577899999999
Q ss_pred HHhhhcccccHHHHHHHhCCCHHH-HHHHHHHHHhcCeEEEEeccCCcEEEEccCC---ChHHHHHHHHHHHHHHHHHHH
Q 014576 328 VVSKYYSRITLKRLAELLCLSIQE-AEKHLSDMVVSKALVAKIDRPQGIVCFQVAK---DSNDILNSWAMNLEKLLDLVE 403 (422)
Q Consensus 328 ~isk~Ys~Isl~~La~ll~ls~~e-~E~~ls~mI~~~~i~akIDq~~giV~F~~~~---~~~~~l~~W~~~I~~l~~~v~ 403 (422)
.||=-|||||+..+|.-|+++.++ +|-.+++.|.+|-|.|+||-.+|.+.-...- ++++.=..++..|.-.+++=|
T Consensus 370 ~ISlsYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~LhN 449 (493)
T KOG2581|consen 370 KISLSYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLHN 449 (493)
T ss_pred heeeeeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHHH
Confidence 999999999999999999997555 9999999999999999999999976443211 112333457778877777655
Q ss_pred HHH
Q 014576 404 KSC 406 (422)
Q Consensus 404 k~~ 406 (422)
...
T Consensus 450 ~~v 452 (493)
T KOG2581|consen 450 EAV 452 (493)
T ss_pred HHH
Confidence 543
No 15
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.98 E-value=3.2e-07 Score=90.17 Aligned_cols=279 Identities=16% Similarity=0.199 Sum_probs=157.8
Q ss_pred CCCHHHHHHHHHHHHhhhcC-cchH-HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccC--chHHHHHHHHHHH
Q 014576 62 TPDLDTRIELIKTLNSVSAG-KIYV-EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAM--AKTEKIAFILEQV 137 (422)
Q Consensus 62 ~~~~~~~~~li~tL~~~~~~-ki~~-E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~--~~~eK~e~~Le~~ 137 (422)
.|+.++-+.++.....-..| .+=+ =.=-..+...|+....+.++-.--.+++...- +.| ....-..++-...
T Consensus 72 ~~~~~~li~~~~~FV~~~n~eqlr~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~av----~k~~~~~~qlT~~H~~l~ 147 (422)
T KOG2582|consen 72 NPDPETLIELLNDFVDENNGEQLRLASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQAV----DKMQPSNGQLTSIHADLL 147 (422)
T ss_pred CCCHHHHHHHHHHHHHhcChHHHhhHHHHHHHHHHHHHHHHHhcCCccccchHHHHHH----HHhccCccchhhhHHHHH
Confidence 46666666555544332222 1100 00013366777777665554433333332211 112 2224555666667
Q ss_pred HHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHH
Q 014576 138 RLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCY 217 (422)
Q Consensus 138 rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y 217 (422)
.+|++.+||.-+.-+ ++.+ +..+.-..+...+ ..-+-|+.+-+-++...++|-.|---|
T Consensus 148 ~~~L~ak~y~~~~p~--------ld~d----------ivei~~~n~h~~~---k~fL~Y~yYgg~iciglk~fe~Al~~~ 206 (422)
T KOG2582|consen 148 QLCLEAKDYASVLPY--------LDDD----------IVEICKANPHLDP---KYFLLYLYYGGMICIGLKRFERALYLL 206 (422)
T ss_pred HHHHHhhcccccCCc--------cchh----------HHHHhccCCCCCH---HHHHHHHHhcceeeeccccHHHHHHHH
Confidence 889999987433211 1100 0000000011122 344567777777888888988887777
Q ss_pred HHHhhcCCCCCChhhHHHHHH-HHHHHHHhCCC----ChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHH
Q 014576 218 KAIYEIPYIKEDPAQWMPVLR-KICWYLVLAPH----DPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWN 292 (422)
Q Consensus 218 ~e~~~~~~~~~d~~~~~~~L~-~~v~~~ILa~~----~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~ 292 (422)
..+.-+|.-.... .-.++++ +.++++|+..- +..-++-..+..+ +..|.|.++.++|.++..-.-..+..
T Consensus 207 e~~v~~Pa~~vs~-~hlEaYkkylLvsLI~~GK~~ql~k~ts~~~~r~~K----~ms~pY~ef~~~Y~~~~~~eLr~lVk 281 (422)
T KOG2582|consen 207 EICVTTPAMAVSH-IHLEAYKKYLLVSLILTGKVFQLPKNTSQNAGRFFK----PMSNPYHEFLNVYLKDSSTELRTLVK 281 (422)
T ss_pred HHHHhcchhHHHH-HHHHHHHHHHHHHhhhcCceeeccccchhhhHHhcc----cCCchHHHHHHHHhcCCcHHHHHHHH
Confidence 7777777543322 2234444 66677777652 1111122223333 34678999999998753311222223
Q ss_pred HHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCC-CHHHHHHHHHHHHhcCeEEEEecc
Q 014576 293 TYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCL-SIQEAEKHLSDMVVSKALVAKIDR 371 (422)
Q Consensus 293 ~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~l-s~~e~E~~ls~mI~~~~i~akIDq 371 (422)
.+...|. .|.. -...+..-..+--|||.+..|-|++++|+.+|++..+ +.+|+|+++-+||.+|+|+|.||
T Consensus 282 ~~~~rF~------kDnn-t~l~k~av~sl~k~nI~rltktF~sLsL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN- 353 (422)
T KOG2582|consen 282 KHSERFT------KDNN-TGLAKQAVSSLYKKNIQRLTKTFLSLSLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN- 353 (422)
T ss_pred HHHHHHh------hcCc-HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec-
Confidence 3333332 2211 0112444456677999999999999999999997777 47899999999999999999999
Q ss_pred CCcEEEEcc
Q 014576 372 PQGIVCFQV 380 (422)
Q Consensus 372 ~~giV~F~~ 380 (422)
|.|.|..
T Consensus 354 --G~v~f~~ 360 (422)
T KOG2582|consen 354 --GMVFFTD 360 (422)
T ss_pred --ceEEEec
Confidence 9888854
No 16
>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=98.95 E-value=1e-08 Score=93.57 Aligned_cols=145 Identities=12% Similarity=0.016 Sum_probs=113.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccC
Q 014576 84 YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDA 163 (422)
Q Consensus 84 ~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~ 163 (422)
..+++..+....||.+|.+.||+++|.+.+....- ...+.+.+++++|.++|+++..+||..+..++.|+....-.+
T Consensus 30 ~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~---~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~ 106 (177)
T PF10602_consen 30 LGKESIRMALEDLADHYCKIGDLEEALKAYSRARD---YCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKG 106 (177)
T ss_pred cchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh---hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcc
Confidence 34466778889999999999999999999887442 256889999999999999999999999999999998765332
Q ss_pred CCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHH
Q 014576 164 DPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWY 243 (422)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~ 243 (422)
+| .+.+.|+.-+.+.++.+.++|.+|++.|.++..+++... ..+ +-...-+++|
T Consensus 107 --------~d----------------~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~~~-~~e-l~s~~d~a~Y 160 (177)
T PF10602_consen 107 --------GD----------------WERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFTSLQ-YTE-LISYNDFAIY 160 (177)
T ss_pred --------ch----------------HHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCCCCc-hhh-hcCHHHHHHH
Confidence 22 378888888999999999999999999999998876311 112 2344455555
Q ss_pred HHhCC-CChhhhHHh
Q 014576 244 LVLAP-HDPMQSSLL 257 (422)
Q Consensus 244 ~ILa~-~~~~rs~ll 257 (422)
++|+. ++..|++|.
T Consensus 161 ~~l~aLat~~R~eLk 175 (177)
T PF10602_consen 161 GGLCALATLDRSELK 175 (177)
T ss_pred HHHHHHHhCCHHHHc
Confidence 55544 466777664
No 17
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=98.61 E-value=0.00018 Score=70.09 Aligned_cols=339 Identities=17% Similarity=0.179 Sum_probs=173.2
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHH-----------------hhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH
Q 014576 11 KKAVTEILQLCFEAKDWKTLNEQIVNL-----------------SKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK 73 (422)
Q Consensus 11 ~~~~~~i~~~~~~~~~~~~l~~~i~~l-----------------~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~ 73 (422)
+.++....+++.+++..+-..+....| ...+.+++..++-+|. .+ ..|+ +++
T Consensus 35 keLle~k~~ll~~TNMiDy~md~~k~l~~sed~p~a~~ekr~~Vla~lkeLe~ev~piv~----~l-e~Pd------~~~ 103 (432)
T KOG2758|consen 35 KELLEAKLQLLNKTNMIDYVMDTYKNLHTSEDMPNALVEKRTEVLAELKELEEEVAPIVK----VL-ENPD------LIA 103 (432)
T ss_pred HHHHHHHHHHHcccchHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH----HH-cCHH------HHH
Confidence 356677778888888887777777655 1223334444433333 22 2232 223
Q ss_pred HHHhhhcCcchHH---------HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHH--HHHHHHHHHHHhc
Q 014576 74 TLNSVSAGKIYVE---------IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEK--IAFILEQVRLCLD 142 (422)
Q Consensus 74 tL~~~~~~ki~~E---------~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK--~e~~Le~~rL~l~ 142 (422)
.++.-.+|+.+++ .|+-..-.++|++..+-|+|.+|++.|---.. -+++-++ +...---..=-+.
T Consensus 104 ~~~~~k~~~~~l~~L~e~ynf~~e~i~~lykyakfqyeCGNY~gAs~yLY~~r~----l~~~~d~n~lsalwGKlASEIL 179 (432)
T KOG2758|consen 104 ALRSDKDRVQNLQHLQEHYNFTPERIETLYKYAKFQYECGNYSGASDYLYFYRA----LVSDPDRNYLSALWGKLASEIL 179 (432)
T ss_pred HHHhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCcccHHHHHHHHHH----hcCCcchhhHHHHHHHHHHHHH
Confidence 3333333333322 55677779999999999999999998875332 1222222 1111000111223
Q ss_pred cCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhc------------cH
Q 014576 143 RQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNN------------DY 210 (422)
Q Consensus 143 ~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~------------~y 210 (422)
..||.-|-.-+.|.+..+-+ .+... ..+.+ .+.-|..|.. +.
T Consensus 180 ~qnWd~A~edL~rLre~IDs-~~f~~-------------------~~~~l------~qRtWLiHWslfv~fnhpkgrd~i 233 (432)
T KOG2758|consen 180 TQNWDGALEDLTRLREYIDS-KSFST-------------------SAQQL------QQRTWLIHWSLFVFFNHPKGRDTI 233 (432)
T ss_pred HhhHHHHHHHHHHHHHHHcc-ccccc-------------------HHHHH------HHHHHHHHHHHHhhccCCChhhHH
Confidence 45777777766666554422 22210 11122 2223333322 22
Q ss_pred HHHHHH---HHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHH---hhhhhcccCCCCChhHHHHHHHhccccc
Q 014576 211 LEICRC---YKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSL---LNSTLEDKNLSEIPNFRLLLKQLVTMEV 284 (422)
Q Consensus 211 ~ea~~~---y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~l---l~~~~~d~~~~~ip~~~~L~k~f~~~el 284 (422)
.+++-+ |..+..|.. | -.|.|..+. ++.+-...|.+| ..-+......=+=|.-..|.-.|.+
T Consensus 234 id~fly~p~YLNaIQt~c----P----hllRYLatA-vvtnk~~rr~~lkdlvkVIqqE~ysYkDPiteFl~clyvn--- 301 (432)
T KOG2758|consen 234 IDMFLYQPPYLNAIQTSC----P----HLLRYLATA-VVTNKRRRRNRLKDLVKVIQQESYSYKDPITEFLECLYVN--- 301 (432)
T ss_pred HHHHccCHHHHHHHHhhC----H----HHHHHHHHH-hhcchHhhHHHHHHHHHHHHHhccccCCcHHHHHHHHhhc---
Confidence 233221 333333210 1 134443333 333322233222 2222111111112333333334444
Q ss_pred ccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHh----hhcccccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 285 IQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVS----KYYSRITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 285 i~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~is----k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
.+|+.+.+....+= ..+.+|.+. ..+..-++|.-=.-|- +.=++|+++-||.-|+++++++|+-+.++|
T Consensus 302 ~DFdgAq~kl~eCe---eVl~nDfFL----va~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~~eeaErwivnlI 374 (432)
T KOG2758|consen 302 YDFDGAQKKLRECE---EVLVNDFFL----VALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMDPEEAERWIVNLI 374 (432)
T ss_pred cchHHHHHHHHHHH---HHHhcchhH----HHHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCCHHHHHHHHHHHH
Confidence 24444433322211 122245442 2233333333333333 345789999999999999999999999999
Q ss_pred hcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 014576 361 VSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQIHK 411 (422)
Q Consensus 361 ~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~~v~k~~~lI~k 411 (422)
.+-+|.||||...|-|..+.+.. .+..+-.+++++|.-.-+++...|.|
T Consensus 375 r~~rl~AkidSklg~Vvmg~~~~--s~~qQ~ie~tksLS~rsq~la~~lek 423 (432)
T KOG2758|consen 375 RTARLDAKIDSKLGHVVMGHPTV--SPHQQLIEKTKSLSFRSQNLAQQLEK 423 (432)
T ss_pred HHhhhhhhhccccCceeecCCCC--CHHHHHHHhccccchhHHHHHHHHHH
Confidence 99999999999999999987643 23444456666666666666555554
No 18
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=97.83 E-value=6.2e-05 Score=79.57 Aligned_cols=71 Identities=23% Similarity=0.418 Sum_probs=63.1
Q ss_pred HHHHHHHHHHHHHHHH----HhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCC
Q 014576 313 AAEDLRQRIIEHNILV----VSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKD 383 (422)
Q Consensus 313 ~~~~L~~~viEhNi~~----isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~ 383 (422)
-..-|.++|.|.-||. .+.+|++||+..||++|+||+..|-.++|.||.+..|.|+.|||.++|.|++...
T Consensus 692 V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp~~~VhsIiSkmiineEl~AslDqpt~~iv~hrvE~ 766 (843)
T KOG1076|consen 692 VLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLPEPKVHSIISKMIINEELHASLDQPTQCIVMHRVEP 766 (843)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCCchhHHHHHHHHHHHHHhhhccCCCcceEEEeeccc
Confidence 3455667888888775 5688999999999999999999999999999999999999999999999998544
No 19
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=97.40 E-value=0.0051 Score=60.38 Aligned_cols=192 Identities=17% Similarity=0.164 Sum_probs=110.7
Q ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHH
Q 014576 195 IYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRL 274 (422)
Q Consensus 195 k~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~ 274 (422)
.++.+..+.....+.--++++.+-+...|++-++ ...+...--..|.-++-+|....=..++.-.- =..++.-+ +..
T Consensus 166 el~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dn-as~AredA~rcV~~av~dP~~F~fD~Ll~L~p-V~qLE~d~-i~q 242 (378)
T KOG2753|consen 166 ELLRAVHKALKDNKSVDESSKVMTELLGTYTEDN-ASEAREDAMRCVVEAVKDPKIFLFDHLLTLPP-VKQLEGDL-IHQ 242 (378)
T ss_pred HHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHcCCceeccchhccCch-HHHhccch-HHH
Confidence 3344433333334444568888888888776543 12222222234445566664322222221110 00122222 557
Q ss_pred HHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHH
Q 014576 275 LLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEK 354 (422)
Q Consensus 275 L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~ 354 (422)
|++.|.+..+ .+|-..-..+.++.. ..|-.+ ++.-+.++---+..++.+=..|+++.|++.|++.++|+|-
T Consensus 243 LL~IF~s~~L-------~aYveF~~~N~~Fvq-s~gl~~-E~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~edeVE~ 313 (378)
T KOG2753|consen 243 LLKIFVSGKL-------DAYVEFVAANSGFVQ-SQGLVH-EQNMAKMRLLTLMSLAEESNEISYDTLAKELQINEDEVEL 313 (378)
T ss_pred HHHHHHhcch-------HHHHHHHHhChHHHH-HhcccH-HHHHHHHHHHHHHHHhccCCCCCHHHHHHHhccCHHHHHH
Confidence 8899988766 555443332211110 001111 2333344444455666788899999999999999999999
Q ss_pred HHHHHHhcCeEEEEeccCCcEEEEccCCC----------hHHHHHHHH-HHHHHH
Q 014576 355 HLSDMVVSKALVAKIDRPQGIVCFQVAKD----------SNDILNSWA-MNLEKL 398 (422)
Q Consensus 355 ~ls~mI~~~~i~akIDq~~giV~F~~~~~----------~~~~l~~W~-~~I~~l 398 (422)
.+.+.|..|-+.|||||.++.|+-..... -.+.|+.|. +++..+
T Consensus 314 fVIdaI~aklV~~kidq~~~~viVs~~~hR~FG~~qW~~L~~kL~aw~k~~~stv 368 (378)
T KOG2753|consen 314 FVIDAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQQWQQLRDKLAAWGKQNLSTV 368 (378)
T ss_pred HHHHHHHHHHHHhhHHhhcceEEeehhhhhhcccHHHHHHHHHHHHHHhhhhHHH
Confidence 99999999999999999999876544311 135688895 444433
No 20
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=96.68 E-value=1.4 Score=48.52 Aligned_cols=71 Identities=27% Similarity=0.313 Sum_probs=65.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhC-CCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEcc
Q 014576 310 GAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLC-LSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQV 380 (422)
Q Consensus 310 ~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~-ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~ 380 (422)
...+...|+..++-.-+..+|+.|.+|++++|.+|.- ++.-++|+.+.+.+..+-+..+||-..+.|.|..
T Consensus 422 ~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 422 KSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeecc
Confidence 3567788999999999999999999999999999876 4888999999999999999999999999999983
No 21
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=96.67 E-value=0.48 Score=48.73 Aligned_cols=43 Identities=23% Similarity=0.343 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHH
Q 014576 315 EDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLS 357 (422)
Q Consensus 315 ~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls 357 (422)
..++....-.+||..-|.|++|+++.||.+++++++++-..|.
T Consensus 301 ~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd~~~lr~~Ll 343 (404)
T PF10255_consen 301 DEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVDEEELRSQLL 343 (404)
T ss_pred HHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCCHHHHHHHHH
Confidence 4444455556888899999999999999999999986655543
No 22
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.62 E-value=0.38 Score=46.94 Aligned_cols=189 Identities=21% Similarity=0.242 Sum_probs=115.2
Q ss_pred CChhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhh---hhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHHh-hh
Q 014576 5 GDVAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSK---KRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLNS-VS 79 (422)
Q Consensus 5 ~D~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k---~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~~-~~ 79 (422)
+|..+..-........+...|+|+.-.+.+..... +.+....+-...++ +....... +.+.-+..++ ++.- ..
T Consensus 29 ~~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~-Aa~~~k~~-~~~~Ai~~~~~A~~~y~~ 106 (282)
T PF14938_consen 29 PDYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEE-AANCYKKG-DPDEAIECYEKAIEIYRE 106 (282)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHH-HHHHHHHT-THHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHH-HHHHHHhh-CHHHHHHHHHHHHHHHHh
Confidence 37777888888899988888999888877765443 22222233333333 33333333 3333333444 3321 22
Q ss_pred cCcchHHHHHHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHHhhcc-CchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Q 014576 80 AGKIYVEIERARLIKKLAKIKEEQ-GLIAEAADLMQEVAVETFGA-MAKTEKIAFILEQVRLCLDRQDYVRAQILSRKIS 157 (422)
Q Consensus 80 ~~ki~~E~era~l~~~La~i~e~~-g~~~eAa~iL~~l~vEt~~~-~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~ 157 (422)
.|+. ..-+++-..+|++|+.. |++++|.+..+.-- |.|.. -....-.+.++..+.++...++|..|-.++.++.
T Consensus 107 ~G~~---~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~-~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~ 182 (282)
T PF14938_consen 107 AGRF---SQAAKCLKELAEIYEEQLGDYEKAIEYYQKAA-ELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVA 182 (282)
T ss_dssp CT-H---HHHHHHHHHHHHHHCCTT--HHHHHHHHHHHH-HHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred cCcH---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 2321 22488999999999999 99999999888744 45532 2456778899999999999999999999999987
Q ss_pred cccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 158 PRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
......+-. + ...| +|+...+..+...+|+..|-+.|....+
T Consensus 183 ~~~l~~~l~---------------------~-~~~~-~~~l~a~l~~L~~~D~v~A~~~~~~~~~ 224 (282)
T PF14938_consen 183 KKCLENNLL---------------------K-YSAK-EYFLKAILCHLAMGDYVAARKALERYCS 224 (282)
T ss_dssp HTCCCHCTT---------------------G-HHHH-HHHHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred HHhhccccc---------------------c-hhHH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 654332100 0 0121 3445556677777777777666665543
No 23
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=96.39 E-value=0.39 Score=41.78 Aligned_cols=112 Identities=23% Similarity=0.209 Sum_probs=83.8
Q ss_pred HHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHH
Q 014576 71 LIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQ 150 (422)
Q Consensus 71 li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~ 150 (422)
.++.|..--++..|- ....+.||+++...|++++|...|+.+.-.+ -++.-+--..|..+++++..++|..|.
T Consensus 33 ~~~~l~~~~~~s~ya----~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~---~d~~l~~~a~l~LA~~~~~~~~~d~Al 105 (145)
T PF09976_consen 33 AAEQLAKDYPSSPYA----ALAALQLAKAAYEQGDYDEAKAALEKALANA---PDPELKPLARLRLARILLQQGQYDEAL 105 (145)
T ss_pred HHHHHHHHCCCChHH----HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC---CCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 455555544444332 4467789999999999999999999977432 344556667788899999999999999
Q ss_pred HHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Q 014576 151 ILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAI 220 (422)
Q Consensus 151 ~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~ 220 (422)
..+..+.... .+-.++.+.+.++...|++-+|-..|..+
T Consensus 106 ~~L~~~~~~~-------------------------------~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 106 ATLQQIPDEA-------------------------------FKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHhccCcc-------------------------------hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 9987643211 12246778889999999999999999865
No 24
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=96.37 E-value=0.06 Score=53.96 Aligned_cols=240 Identities=13% Similarity=0.146 Sum_probs=137.3
Q ss_pred hccHHHHHHHHHHHHHHhh---c-cCchHHHHH-HHHH--HHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCC
Q 014576 103 QGLIAEAADLMQEVAVETF---G-AMAKTEKIA-FILE--QVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEG 175 (422)
Q Consensus 103 ~g~~~eAa~iL~~l~vEt~---~-~~~~~eK~e-~~Le--~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~ 175 (422)
...++++.+++....--+- + ...+..|.- |++- ...+|+..+...-++.+++--......+.+ .
T Consensus 143 ~d~l~~~sr~l~R~Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~-~-------- 213 (413)
T COG5600 143 QDNLSKISRLLTRMFNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKEVSMPDIS-E-------- 213 (413)
T ss_pred HhhHHHHHHHHHHHHHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcccccccccc-h--------
Confidence 3467777777776432111 1 133444444 2221 236688888888888777655443221111 0
Q ss_pred CcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc-CC-CCCChhhHHHHHHHHHH-HHHhCCCChh
Q 014576 176 DNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI-PY-IKEDPAQWMPVLRKICW-YLVLAPHDPM 252 (422)
Q Consensus 176 ~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~-~~-~~~d~~~~~~~L~~~v~-~~ILa~~~~~ 252 (422)
. ..+--.-|+=+.++||.+..+|-+|+-++.+++.. +. +.-+- + -.+.+++. ++++-...|-
T Consensus 214 -----------~-~~sq~v~f~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n~-~--rIl~~~ipt~Llv~~~~Pt 278 (413)
T COG5600 214 -----------Y-QKSQVVVFHYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRNR-K--RILPYYIPTSLLVNKFPPT 278 (413)
T ss_pred -----------h-hhcceeehhhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcch-h--eehhHHhhHHHHhCCCCCc
Confidence 0 01122246667779999999999999999999964 22 11111 1 23344444 4444445555
Q ss_pred hhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHhhh
Q 014576 253 QSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKY 332 (422)
Q Consensus 253 rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~isk~ 332 (422)
+. +|.+.. ....|.-|.++--+..+ +.|...++.....+.+...---+.....-|.-.|+.+ +-
T Consensus 279 k~-~L~r~~------~~s~~~~LvkavrsGni-------~~~~~~l~~ner~~~~~~l~ltl~~~~~~V~~RNL~r--k~ 342 (413)
T COG5600 279 KD-LLERFK------RCSVYSPLVKAVRSGNI-------EDFDLALSRNERKFAKRGLYLTLLAHYPLVCFRNLFR--KI 342 (413)
T ss_pred hH-HHHhcc------ccchhHHHHHHHHcCCH-------HHHHHHHHHhHHHHHHcchHHHHHhhccHHHHHHHHH--HH
Confidence 54 555432 15567778888877666 5555555532222222111111122223455566655 22
Q ss_pred ------ccc--ccHHHHHHHhCC-C----HHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCC
Q 014576 333 ------YSR--ITLKRLAELLCL-S----IQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAK 382 (422)
Q Consensus 333 ------Ys~--Isl~~La~ll~l-s----~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~ 382 (422)
=++ .++-..+..+.. + .+++|-.++.||..|.+.|.|-.....|+|.+.+
T Consensus 343 w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk~~ 405 (413)
T COG5600 343 WRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILVTLIGLGLLRGYISHSRRTVVFSKKD 405 (413)
T ss_pred HhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHHHHHhhhhhhheecccceEEEEecCC
Confidence 223 344455555543 2 7999999999999999999999999999998754
No 25
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=96.13 E-value=0.044 Score=48.04 Aligned_cols=49 Identities=35% Similarity=0.394 Sum_probs=39.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHH
Q 014576 311 AKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDM 359 (422)
Q Consensus 311 ~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~m 359 (422)
......|+..+++.-...+++.|++|+++.++++||++++++++.+.+-
T Consensus 73 ~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~ 121 (143)
T PF10075_consen 73 KPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSR 121 (143)
T ss_dssp HHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHc
Confidence 3445678899999999999999999999999999999988888877665
No 26
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=95.96 E-value=0.054 Score=55.02 Aligned_cols=207 Identities=14% Similarity=0.132 Sum_probs=121.1
Q ss_pred HHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHH
Q 014576 137 VRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRC 216 (422)
Q Consensus 137 ~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~ 216 (422)
.++|+..+...-++.+.+-+.... ... .++. .+-...|.-+.++++.++.||.+|+.+
T Consensus 170 f~Iyfri~~~~L~k~l~ra~~~~~-~~~-------~~~~--------------l~~~v~y~YylGr~a~~~~d~~~A~~~ 227 (394)
T KOG2688|consen 170 FQIYFRIEKLLLCKNLIRAFDQSG-SDI-------SDFP--------------LAQLVVYHYYLGRYAMFESDFLNAFLQ 227 (394)
T ss_pred HHHHHHHhhHHHhHHHHHHhhccc-cch-------hhcc--------------cccceeeeeeeeeehhhhhhHHHHHHH
Confidence 356777777777777666665532 100 0111 111223444455999999999999999
Q ss_pred HHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHH
Q 014576 217 YKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKD 296 (422)
Q Consensus 217 y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~ 296 (422)
..+++..-.-.--.+. ...|.+.|-++++....|... ++.+.- +..|..|+++-....+ ..|..
T Consensus 228 L~~af~~cp~~~~~n~-~~iliylip~~~llg~~Pt~~-lL~~~~-------~~~~~~lv~aVr~Gnl-------~~f~~ 291 (394)
T KOG2688|consen 228 LNEAFRLCPDLLLKNK-RLILIYLIPTGLLLGRIPTKE-LLDFYT-------LDKYSPLVQAVRSGNL-------RLFDL 291 (394)
T ss_pred HHHHHHhCcHHHHhhh-hhHHHHHhHHHHHhccCcchh-hHhHhh-------HHhHHHHHHHHHhccH-------HHHHH
Confidence 9999973211000011 226777777777777755532 222211 3345666666655555 33433
Q ss_pred HhhhhhhhcCCchhhhHHHHHHHHHHHHHH-HHHhhhc---ccccHHHHHHHhCCC------HHHHHHHHHHHHhcCeEE
Q 014576 297 EFENETNMLGGSLGAKAAEDLRQRIIEHNI-LVVSKYY---SRITLKRLAELLCLS------IQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 297 ~l~~~~~~~~d~~~~~~~~~L~~~viEhNi-~~isk~Y---s~Isl~~La~ll~ls------~~e~E~~ls~mI~~~~i~ 366 (422)
.+..+...+....+---...+ +-+.=||+ +.+.+.- +++.++++-..+..+ .+|+|-.++.||..|+|.
T Consensus 292 al~~~E~~f~~~gi~l~l~~l-~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ik 370 (394)
T KOG2688|consen 292 ALADNERFFIRSGIYLTLEKL-PLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIK 370 (394)
T ss_pred HHhhhHHHHHHhccHHHhhhh-hHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhcccc
Confidence 443222222111111111222 22333444 4555666 888999888777653 699999999999999999
Q ss_pred EEeccCCcEEEEccCC
Q 014576 367 AKIDRPQGIVCFQVAK 382 (422)
Q Consensus 367 akIDq~~giV~F~~~~ 382 (422)
|.|+.....++|.+..
T Consensus 371 gYish~~~~~V~sK~~ 386 (394)
T KOG2688|consen 371 GYISHQLQTLVFSKKD 386 (394)
T ss_pred chhchhhheEEEecCC
Confidence 9999999999887653
No 27
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=95.38 E-value=1.4 Score=38.27 Aligned_cols=133 Identities=20% Similarity=0.107 Sum_probs=84.9
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHH
Q 014576 11 KKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERA 90 (422)
Q Consensus 11 ~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era 90 (422)
+.+...++... ..+++..+.+.+..+.+..+...-+....+..+-.++..- +.+.=...++.+....+.. .-+.
T Consensus 12 ~~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g-~~~~A~~~l~~~~~~~~d~----~l~~ 85 (145)
T PF09976_consen 12 SALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQG-DYDEAKAALEKALANAPDP----ELKP 85 (145)
T ss_pred HHHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHhhCCCH----HHHH
Confidence 44445555544 4688888877777777777766555444444444555442 2222223333222222222 1245
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKI 156 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~ 156 (422)
..+..||.++...|++++|...|+.++- ...+..+......+++..||+..|...++++
T Consensus 86 ~a~l~LA~~~~~~~~~d~Al~~L~~~~~-------~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 86 LARLRLARILLQQGQYDEALATLQQIPD-------EAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhccC-------cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 5778899999999999999999977442 2234445566788899999999999998875
No 28
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.20 E-value=3.5 Score=41.33 Aligned_cols=96 Identities=9% Similarity=0.016 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKK 171 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~ 171 (422)
....|+.++...|++++|.+.+..+.-. ++....+.+...+.+|...|++..|...++++.... |
T Consensus 216 ~~~~la~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~----p------ 280 (389)
T PRK11788 216 ASILLGDLALAQGDYAAAIEALERVEEQ-----DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY----P------ 280 (389)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHH-----ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----C------
Confidence 4566888888888888888887775522 222333445556677788888888888888765421 0
Q ss_pred CCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 172 PKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
+. + .+...+..+...+++-+|...|.++...
T Consensus 281 ----------------~~-~----~~~~la~~~~~~g~~~~A~~~l~~~l~~ 311 (389)
T PRK11788 281 ----------------GA-D----LLLALAQLLEEQEGPEAAQALLREQLRR 311 (389)
T ss_pred ----------------Cc-h----HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 00 1 1245567777888888888888887764
No 29
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=95.13 E-value=4 Score=40.88 Aligned_cols=103 Identities=17% Similarity=0.141 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
......|+.++...|++++|.+.+..+.-.. ..-.......++.....+++..+++..|..+.+++.... +
T Consensus 141 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~---p----- 211 (389)
T PRK11788 141 EGALQQLLEIYQQEKDWQKAIDVAERLEKLG-GDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD---P----- 211 (389)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHHHHHHhc-CCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC---c-----
Confidence 4466788999999999999999888765321 111122345567778888999999999999999885531 1
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
... .-+...+..+...++|-+|-..|.++...
T Consensus 212 ------------------~~~----~~~~~la~~~~~~g~~~~A~~~~~~~~~~ 243 (389)
T PRK11788 212 ------------------QCV----RASILLGDLALAQGDYAAAIEALERVEEQ 243 (389)
T ss_pred ------------------CCH----HHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 000 12345668888899999999999998863
No 30
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=95.11 E-value=1.4 Score=45.31 Aligned_cols=174 Identities=11% Similarity=0.076 Sum_probs=105.4
Q ss_pred hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHH--------HHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhh
Q 014576 7 VAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQ--------AVTAMVQQAMQYIDQTPDLDTRIELIKTLNSV 78 (422)
Q Consensus 7 ~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~--------ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~ 78 (422)
.+.+..++....+++...|+|+...+.+..+.|....-.. +...++... ...++.+.-.++.+.+-..
T Consensus 183 ~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~----~~~~~~~~l~~~w~~lp~~ 258 (398)
T PRK10747 183 APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA----MADQGSEGLKRWWKNQSRK 258 (398)
T ss_pred CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH----HHhcCHHHHHHHHHhCCHH
Confidence 3556677788888888889999998888877654322111 111222211 1112222222222222111
Q ss_pred hcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh--------ccC--chHHH---------------HHHH
Q 014576 79 SAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF--------GAM--AKTEK---------------IAFI 133 (422)
Q Consensus 79 ~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~--------~~~--~~~eK---------------~e~~ 133 (422)
.+. ...+...+|..+...|+.++|.++|.+...... +.+ ++..+ .+..
T Consensus 259 ~~~-------~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~ 331 (398)
T PRK10747 259 TRH-------QVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLW 331 (398)
T ss_pred HhC-------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHH
Confidence 111 244666788888888888888888876543221 101 11111 3356
Q ss_pred HHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHH
Q 014576 134 LEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEI 213 (422)
Q Consensus 134 Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea 213 (422)
+-..|+|+..++|.+|+.+..++...- | +..+ +..+++.+.+.++.-+|
T Consensus 332 l~lgrl~~~~~~~~~A~~~le~al~~~----P----------------------~~~~-----~~~La~~~~~~g~~~~A 380 (398)
T PRK10747 332 STLGQLLMKHGEWQEASLAFRAALKQR----P----------------------DAYD-----YAWLADALDRLHKPEEA 380 (398)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHhcC----C----------------------CHHH-----HHHHHHHHHHcCCHHHH
Confidence 666899999999999999999986531 1 1112 24677889999999999
Q ss_pred HHHHHHHhh
Q 014576 214 CRCYKAIYE 222 (422)
Q Consensus 214 ~~~y~e~~~ 222 (422)
..+|.+...
T Consensus 381 ~~~~~~~l~ 389 (398)
T PRK10747 381 AAMRRDGLM 389 (398)
T ss_pred HHHHHHHHh
Confidence 999998765
No 31
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=94.29 E-value=3.8 Score=36.69 Aligned_cols=175 Identities=10% Similarity=0.054 Sum_probs=106.1
Q ss_pred CCChhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcc
Q 014576 4 SGDVAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKI 83 (422)
Q Consensus 4 ~~D~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki 83 (422)
..|......+...++..++..|+++...+.+....+.....-.+.. ..+.-+. ...+.+.-.+.++......++.
T Consensus 24 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~---~la~~~~-~~~~~~~A~~~~~~al~~~~~~- 98 (234)
T TIGR02521 24 TTDRNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYL---ALALYYQ-QLGELEKAEDSFRRALTLNPNN- 98 (234)
T ss_pred cccCCcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHH---HHHHHHH-HcCCHHHHHHHHHHHHhhCCCC-
Confidence 3455666788888999999999999988877654432211100000 0111111 1122222233333222222221
Q ss_pred hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccC
Q 014576 84 YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDA 163 (422)
Q Consensus 84 ~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~ 163 (422)
......++.++...|++++|.+.+....-. -........+......+...|++..|..+..++......
T Consensus 99 ------~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~- 167 (234)
T TIGR02521 99 ------GDVLNNYGTFLCQQGKYEQAMQQFEQAIED----PLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ- 167 (234)
T ss_pred ------HHHHHHHHHHHHHcccHHHHHHHHHHHHhc----cccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-
Confidence 235677899999999999999998886421 011122344555678899999999999999988653210
Q ss_pred CCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 164 DPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
.. ..+..++..+...++|-+|...|.+....
T Consensus 168 -------------------------~~----~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 168 -------------------------RP----ESLLELAELYYLRGQYKDARAYLERYQQT 198 (234)
T ss_pred -------------------------Ch----HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 01 12345667888899999999888887764
No 32
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=93.93 E-value=6.6 Score=38.18 Aligned_cols=148 Identities=19% Similarity=0.211 Sum_probs=84.8
Q ss_pred hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHh---hhhhhHHHHHHHHHHHHHhhhcCC-CCHHHHHHHHH-HHHhh-hc
Q 014576 7 VAGTKKAVTEILQLCFEAKDWKTLNEQIVNLS---KKRGQLKQAVTAMVQQAMQYIDQT-PDLDTRIELIK-TLNSV-SA 80 (422)
Q Consensus 7 ~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~---k~~~qlk~ai~~~v~~~~~~l~~~-~~~~~~~~li~-tL~~~-~~ 80 (422)
-....+.+...+..+.+. +++...+.+..-+ ...|+...+ +++...+-...... .+.+.-++.++ .+.-. .+
T Consensus 71 ~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~a-A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e 148 (282)
T PF14938_consen 71 KFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQA-AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQE 148 (282)
T ss_dssp HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHH-HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHH-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence 334444555555554443 5555444443222 344444333 22333333334344 55555555555 33321 22
Q ss_pred CcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh-ccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 81 GKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF-GAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 81 ~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~-~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
|. ......+..++|.++...|+|++|.++++++--..- ..+.+-.--+++|..+=++|..+|++.|+..+.+....
T Consensus 149 ~~---~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~ 225 (282)
T PF14938_consen 149 GS---PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQ 225 (282)
T ss_dssp T----HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred CC---hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 32 233577889999999999999999999998654322 23334344468888888999999999999999988653
No 33
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=93.77 E-value=8 Score=41.16 Aligned_cols=192 Identities=18% Similarity=0.157 Sum_probs=121.4
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHH----HHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHH--hhhc
Q 014576 8 AGTKKAVTEILQLCFEAKDWKTLNEQIV----NLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLN--SVSA 80 (422)
Q Consensus 8 ~s~~~~~~~i~~~~~~~~~~~~l~~~i~----~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~--~~~~ 80 (422)
+.-.+++..++..|...|+|+.-..... .+.|..|----.++.|.+.+-.+.-.......-..+++ +|. .-.-
T Consensus 196 P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~ 275 (508)
T KOG1840|consen 196 PERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVF 275 (508)
T ss_pred chHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence 3445677779999999999998665443 22233331133344555522222222221222223333 222 2222
Q ss_pred CcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhc---cCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Q 014576 81 GKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFG---AMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKIS 157 (422)
Q Consensus 81 ~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~---~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~ 157 (422)
|.... -++-+-..||..|...|++++|...+... +|-+. +-+..+-...+.+.+-++-..+++..|..++.++.
T Consensus 276 G~~h~--~va~~l~nLa~ly~~~GKf~EA~~~~e~A-l~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al 352 (508)
T KOG1840|consen 276 GEDHP--AVAATLNNLAVLYYKQGKFAEAEEYCERA-LEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKAL 352 (508)
T ss_pred CCCCH--HHHHHHHHHHHHHhccCChHHHHHHHHHH-HHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence 33222 24667789999999999999998766542 23332 23455667788888889999999999999999887
Q ss_pred cccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 158 PRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
..+...++. ..-.--++|.-++..+.+.|+|.||-..|.++....
T Consensus 353 ~i~~~~~g~----------------------~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~ 397 (508)
T KOG1840|consen 353 KIYLDAPGE----------------------DNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL 397 (508)
T ss_pred HHHHhhccc----------------------cchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence 766533221 011334678888999999999999999999888643
No 34
>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=93.75 E-value=0.14 Score=39.05 Aligned_cols=48 Identities=17% Similarity=0.094 Sum_probs=35.9
Q ss_pred HHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCC
Q 014576 326 ILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQ 373 (422)
Q Consensus 326 i~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~ 373 (422)
|+.+.+--.++|+..||..|++|++.+|..|..||..|+|.-.-+...
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 344445566799999999999999999999999999999986555444
No 35
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=93.34 E-value=1.8 Score=44.62 Aligned_cols=119 Identities=19% Similarity=0.213 Sum_probs=87.2
Q ss_pred HHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHH
Q 014576 50 AMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEK 129 (422)
Q Consensus 50 ~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK 129 (422)
.+|...+.++...+..+.-+.+++.|.+-.+. ....||+++...++-.+|.++|.+...+.. .+
T Consensus 170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pe----------v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p--~d---- 233 (395)
T PF09295_consen 170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPE----------VAVLLARVYLLMNEEVEAIRLLNEALKENP--QD---- 233 (395)
T ss_pred HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc----------HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC--CC----
Confidence 66666677776666666666677766654432 334589999999999999999998664332 22
Q ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhcc
Q 014576 130 IAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNND 209 (422)
Q Consensus 130 ~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~ 209 (422)
.+.+..|++.++..+++..|..+++++-....+ +. +.+...+..|...++
T Consensus 234 ~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~----------------------------~f--~~W~~La~~Yi~~~d 283 (395)
T PF09295_consen 234 SELLNLQAEFLLSKKKYELALEIAKKAVELSPS----------------------------EF--ETWYQLAECYIQLGD 283 (395)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch----------------------------hH--HHHHHHHHHHHhcCC
Confidence 889999999999999999999999999664311 12 344556788888888
Q ss_pred HHHHH
Q 014576 210 YLEIC 214 (422)
Q Consensus 210 y~ea~ 214 (422)
|-+|-
T Consensus 284 ~e~AL 288 (395)
T PF09295_consen 284 FENAL 288 (395)
T ss_pred HHHHH
Confidence 88775
No 36
>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=92.50 E-value=0.17 Score=41.61 Aligned_cols=37 Identities=22% Similarity=0.276 Sum_probs=34.4
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEecc
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDR 371 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq 371 (422)
=|+++.|++.|++++++++..+-.|+.+|.||..||-
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 5999999999999999999999999999999999994
No 37
>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=92.39 E-value=2 Score=34.76 Aligned_cols=103 Identities=9% Similarity=-0.137 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKK 171 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~ 171 (422)
....+|..+...|++++|.+.+..+.-...+ .....+..+...+++...+++..|..+++++.......+
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~------- 73 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPK---STYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSP------- 73 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC---ccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCC-------
Confidence 4567889999999999999999887533211 123345677788999999999999999999865421100
Q ss_pred CCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 172 PKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
... ..+..++..+...+++-+|.++|.++....
T Consensus 74 ----------------~~~----~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 74 ----------------KAP----DALLKLGMSLQELGDKEKAKATLQQVIKRY 106 (119)
T ss_pred ----------------ccc----HHHHHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence 001 123455577788999999999999998853
No 38
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=92.23 E-value=9.3 Score=39.72 Aligned_cols=101 Identities=16% Similarity=0.167 Sum_probs=77.3
Q ss_pred HHHHHHHHHH---HHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 90 ARLIKKLAKI---KEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 90 a~l~~~La~i---~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
+.++..|-.| +++.|++++|.+..-.++.= -..-++++..++-+|-...|..+|-.++..++..+... |
T Consensus 521 asc~ealfniglt~e~~~~ldeald~f~klh~i------l~nn~evl~qianiye~led~aqaie~~~q~~slip~d-p- 592 (840)
T KOG2003|consen 521 ASCTEALFNIGLTAEALGNLDEALDCFLKLHAI------LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPND-P- 592 (840)
T ss_pred hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH------HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCC-H-
Confidence 6677777666 88999999999987777632 23456778888889999999999999999888765332 1
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCC
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYI 226 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~ 226 (422)
.. ..-.+.+|+.++|--.||+||++.|..+..
T Consensus 593 ------------------------~i----lskl~dlydqegdksqafq~~ydsyryfp~ 624 (840)
T KOG2003|consen 593 ------------------------AI----LSKLADLYDQEGDKSQAFQCHYDSYRYFPC 624 (840)
T ss_pred ------------------------HH----HHHHHHHhhcccchhhhhhhhhhcccccCc
Confidence 11 123457889999999999999999988765
No 39
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=92.13 E-value=1.9 Score=45.50 Aligned_cols=105 Identities=16% Similarity=0.179 Sum_probs=89.9
Q ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 87 IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 87 ~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
+|.......=++.+.++|+...|..+|.+|++ .+++..|.+.-|--++|.+..+++..|...+.+...-.++
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 56777778888899999999999999999886 5789999999999999999999999999999998764432
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
. --+.+||...+......++-++|.+..-...-
T Consensus 132 ---------------------~--~Qq~Ry~q~~a~a~ea~~~~~~a~rari~~~~ 164 (604)
T COG3107 132 ---------------------Q--NQQARYYQARADALEARGDSIDAARARIAQDP 164 (604)
T ss_pred ---------------------H--HHHHHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence 1 13679999999999999999999988766553
No 40
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=91.36 E-value=16 Score=40.97 Aligned_cols=193 Identities=11% Similarity=0.156 Sum_probs=116.6
Q ss_pred hhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Q 014576 40 KRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVE 119 (422)
Q Consensus 40 ~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vE 119 (422)
+++++..++..|..++-..... -+.+.-++++....+..+.- ...-..||.+||..||.+.|...-- ..
T Consensus 131 ~~~~l~~~l~~ll~eAN~lfar-g~~eeA~~i~~EvIkqdp~~-------~~ay~tL~~IyEqrGd~eK~l~~~l--lA- 199 (895)
T KOG2076|consen 131 GKSKLAPELRQLLGEANNLFAR-GDLEEAEEILMEVIKQDPRN-------PIAYYTLGEIYEQRGDIEKALNFWL--LA- 199 (895)
T ss_pred cccccCHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHhCccc-------hhhHHHHHHHHHHcccHHHHHHHHH--HH-
Confidence 4455566677777766544433 34455555555444333331 2345789999999999999985211 00
Q ss_pred hhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHH
Q 014576 120 TFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYEL 199 (422)
Q Consensus 120 t~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~ 199 (422)
..+.++.. +++...+.+..+.+++.+|..++.|+-..- |. .- +|+--
T Consensus 200 --AHL~p~d~-e~W~~ladls~~~~~i~qA~~cy~rAI~~~----p~------------------------n~--~~~~e 246 (895)
T KOG2076|consen 200 --AHLNPKDY-ELWKRLADLSEQLGNINQARYCYSRAIQAN----PS------------------------NW--ELIYE 246 (895)
T ss_pred --HhcCCCCh-HHHHHHHHHHHhcccHHHHHHHHHHHHhcC----Cc------------------------ch--HHHHH
Confidence 24666666 999999999999999999999999985431 11 12 23333
Q ss_pred HHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHH-HHHHHHHhCCCChhhhHHhhhhhc----ccCCCCChhHHH
Q 014576 200 MIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLR-KICWYLVLAPHDPMQSSLLNSTLE----DKNLSEIPNFRL 274 (422)
Q Consensus 200 ~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~-~~v~~~ILa~~~~~rs~ll~~~~~----d~~~~~ip~~~~ 274 (422)
-+.+|..-|++..|...|..++...+ +.|- +|...+. .++-|-+-. .++...++.+.. ....-..|.+..
T Consensus 247 rs~L~~~~G~~~~Am~~f~~l~~~~p-~~d~-er~~d~i~~~~~~~~~~---~~~e~a~~~le~~~s~~~~~~~~ed~ni 321 (895)
T KOG2076|consen 247 RSSLYQKTGDLKRAMETFLQLLQLDP-PVDI-ERIEDLIRRVAHYFITH---NERERAAKALEGALSKEKDEASLEDLNI 321 (895)
T ss_pred HHHHHHHhChHHHHHHHHHHHHhhCC-chhH-HHHHHHHHHHHHHHHHh---hHHHHHHHHHHHHHhhccccccccHHHH
Confidence 33667888999999999999998543 2222 3333333 223333322 333444444432 112334677766
Q ss_pred HHHHhcc
Q 014576 275 LLKQLVT 281 (422)
Q Consensus 275 L~k~f~~ 281 (422)
+...|+.
T Consensus 322 ~ael~l~ 328 (895)
T KOG2076|consen 322 LAELFLK 328 (895)
T ss_pred HHHHHHH
Confidence 7776764
No 41
>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=90.89 E-value=0.34 Score=44.57 Aligned_cols=76 Identities=14% Similarity=0.214 Sum_probs=34.5
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHH--HHHHHHHHHHhhhh
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLE--KLLDLVEKSCHQIH 410 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~--~l~~~v~k~~~lI~ 410 (422)
=..+.|+.||..||++++++-.-|-.|..+|+|.|-||--...|+..+.. -+.+..|...-+ ++.+++..++.+|+
T Consensus 111 ~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~eE--~~~va~fi~~rGRvsi~el~~~~N~~i~ 188 (188)
T PF09756_consen 111 HKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFIYISEEE--MEAVAKFIKQRGRVSISELAQESNRLIN 188 (188)
T ss_dssp -SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EEE-----------------------------------
T ss_pred cceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeEEecHHH--HHHHHHHHHHcCCccHHHHHHHHHhhcC
Confidence 35589999999999999999999999999999999999976666655321 233444443322 44555555665553
No 42
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=90.74 E-value=4.7 Score=29.58 Aligned_cols=94 Identities=15% Similarity=0.046 Sum_probs=66.1
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCC
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKP 172 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~ 172 (422)
...+|..+...|++++|...+....-.. +... ..+.....++...+++..|...++++......
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~----~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~---------- 66 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD----PDNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPD---------- 66 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC----CccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc----------
Confidence 4568889999999999999998764321 1111 56677788888899999999988887553210
Q ss_pred CCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 173 KEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
. . ..+...+..+...+++.+|..+|..+..
T Consensus 67 ---------------~-~----~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 67 ---------------N-A----KAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred ---------------c-h----hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 0 0 2334555677778888888888777664
No 43
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.70 E-value=12 Score=35.90 Aligned_cols=32 Identities=28% Similarity=0.285 Sum_probs=22.7
Q ss_pred CCchhhhHHHHHHHHHHHHHHHHHh---hhccccc
Q 014576 306 GGSLGAKAAEDLRQRIIEHNILVVS---KYYSRIT 337 (422)
Q Consensus 306 ~d~~~~~~~~~L~~~viEhNi~~is---k~Ys~Is 337 (422)
.|+--.+.+++|..+|-|.|+-..+ +-|.+||
T Consensus 229 ~dsREckflk~L~~aieE~d~e~fte~vkefDsis 263 (288)
T KOG1586|consen 229 TDSRECKFLKDLLDAIEEQDIEKFTEVVKEFDSIS 263 (288)
T ss_pred cccHHHHHHHHHHHHHhhhhHHHHHHHHHhhhccc
Confidence 3443456678999999999998766 3466654
No 44
>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=90.47 E-value=2.2 Score=32.46 Aligned_cols=69 Identities=17% Similarity=0.115 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCc--hHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMA--KTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~--~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
.+.+-..+|.+|...|+|++|.+.++...- ....++ ....+..+.....++...||+..|..+..|+..
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALD-IEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH-HHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 456678899999999999999998876432 123332 335688888899999999999999999998853
No 45
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=90.46 E-value=18 Score=36.90 Aligned_cols=169 Identities=15% Similarity=0.085 Sum_probs=100.0
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhh-------H-HHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcC
Q 014576 10 TKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQ-------L-KQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAG 81 (422)
Q Consensus 10 ~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~q-------l-k~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ 81 (422)
.++++.=.++.|.+.|+|..+...+-.|+|.+-- + ..+...+.+++++-=. .+ .+-.-+..+...
T Consensus 186 ~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~----~~---gL~~~W~~~pr~ 258 (400)
T COG3071 186 HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNG----SE---GLKTWWKNQPRK 258 (400)
T ss_pred ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcccc----ch---HHHHHHHhccHH
Confidence 4667777788899999999999999998875433 3 3333344444443110 01 111122211111
Q ss_pred -cchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh--------cc--CchHHH----HHHHHH-----------
Q 014576 82 -KIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF--------GA--MAKTEK----IAFILE----------- 135 (422)
Q Consensus 82 -ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~--------~~--~~~~eK----~e~~Le----------- 135 (422)
|-- -.+...+|..+..-|+.++|-+++.+-..-.+ +. ..+.++ ++..+.
T Consensus 259 lr~~-----p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~t 333 (400)
T COG3071 259 LRND-----PELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLST 333 (400)
T ss_pred hhcC-----hhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHH
Confidence 101 23566778888888888888888876432221 11 112222 222222
Q ss_pred HHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHH
Q 014576 136 QVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICR 215 (422)
Q Consensus 136 ~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~ 215 (422)
--|||+..+.|.+|+.+.+++...-.+ ..| |...+..++..++--+|..
T Consensus 334 LG~L~~k~~~w~kA~~~leaAl~~~~s--------------------------~~~-----~~~la~~~~~~g~~~~A~~ 382 (400)
T COG3071 334 LGRLALKNKLWGKASEALEAALKLRPS--------------------------ASD-----YAELADALDQLGEPEEAEQ 382 (400)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHhcCCC--------------------------hhh-----HHHHHHHHHHcCChHHHHH
Confidence 248899999999999999977553211 112 2455677777777777777
Q ss_pred HHHHHh
Q 014576 216 CYKAIY 221 (422)
Q Consensus 216 ~y~e~~ 221 (422)
++.+..
T Consensus 383 ~r~e~L 388 (400)
T COG3071 383 VRREAL 388 (400)
T ss_pred HHHHHH
Confidence 777766
No 46
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=89.89 E-value=34 Score=37.49 Aligned_cols=58 Identities=19% Similarity=0.176 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKI 156 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~ 156 (422)
...++.++...|++++|...+....--. . .-.+..+..++++...|++.+|..+++++
T Consensus 536 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~ 593 (899)
T TIGR02917 536 ILALAGLYLRTGNEEEAVAWLEKAAELN--P----QEIEPALALAQYYLGKGQLKKALAILNEA 593 (899)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhC--c----cchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3445555555555555555554432110 0 01122333444555555555555555544
No 47
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=89.72 E-value=2.4 Score=30.98 Aligned_cols=58 Identities=16% Similarity=0.078 Sum_probs=48.1
Q ss_pred HHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 95 KLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 95 ~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
.+|..+...|++++|.+.++.+.-. . ..-.+.++...+++...|++..|..+++++..
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~----~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQ----D--PDNPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCC----S--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHH----C--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 6889999999999999999986632 1 23678888889999999999999999998854
No 48
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=89.06 E-value=39 Score=37.02 Aligned_cols=30 Identities=13% Similarity=0.021 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHhh
Q 014576 10 TKKAVTEILQLCFEAKDWKTLNEQIVNLSK 39 (422)
Q Consensus 10 ~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k 39 (422)
...+...++..+...|+++...+.+..+.+
T Consensus 600 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~ 629 (899)
T TIGR02917 600 SPEAWLMLGRAQLAAGDLNKAVSSFKKLLA 629 (899)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 445677778888888898888877766543
No 49
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=89.06 E-value=0.12 Score=55.36 Aligned_cols=107 Identities=21% Similarity=0.230 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 87 IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 87 ~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
.+|+.+.+.-|+.+..+|++..|..+|.+|.. ..++...+.++.|..+++.+..+++..|...++......+.
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 EQRAQLLLLAARALLQEGDWAQAQALLNQLDP---QQLSPSQQARYQLLRARLALAQGDPEQALSLLNAQDLWQLP---- 93 (536)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HhHHHHHHHHHHHHHhCCCHHHHHHHHHhccc---ccCChHHHHHHHHHHHHHHHhcCCHHHHHHHhccCCcccCC----
Confidence 45788889999999999999999999999884 35678899999999999999999999999888764432221
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
.....+||...+..+...+++++|++.+..+...
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 2455689999999999999999999998877653
No 50
>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=88.11 E-value=32 Score=37.33 Aligned_cols=98 Identities=11% Similarity=0.060 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
..+-..++.++...|++++|...++...- +++ .-...++....++...|++..|...++++......
T Consensus 399 ~~~~~~lg~~~~~~g~~~~A~~~~~kal~-----l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~------- 465 (615)
T TIGR00990 399 PDIYYHRAQLHFIKGEFAQAGKDYQKSID-----LDP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPE------- 465 (615)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----cCc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-------
Confidence 44667788899999999999988876432 111 12344556677888899999999998888653211
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
..+ .+...+..+...++|-+|-.+|..+...
T Consensus 466 -------------------~~~----~~~~lg~~~~~~g~~~~A~~~~~~Al~l 496 (615)
T TIGR00990 466 -------------------APD----VYNYYGELLLDQNKFDEAIEKFDTAIEL 496 (615)
T ss_pred -------------------ChH----HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 011 3445577788899999999999998875
No 51
>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=87.47 E-value=37 Score=34.83 Aligned_cols=98 Identities=13% Similarity=0.047 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKE 168 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~ 168 (422)
..++...+|..+...|++++|.+++.+...... +.....+.+-..-..+..+|...+.....+......
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~p----d~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p------- 330 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLG----DDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD------- 330 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCC----CcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC-------
Confidence 356788899999999999999999998664332 222111111111223445777777777777654321
Q ss_pred cCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Q 014576 169 KKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYK 218 (422)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~ 218 (422)
+..+ ..+...+++.+...++|-+|-++|.
T Consensus 331 -------------------~~~~--~~ll~sLg~l~~~~~~~~~A~~~le 359 (409)
T TIGR00540 331 -------------------DKPK--CCINRALGQLLMKHGEFIEAADAFK 359 (409)
T ss_pred -------------------CChh--HHHHHHHHHHHHHcccHHHHHHHHH
Confidence 1111 2466788899999999999888777
No 52
>PLN03218 maturation of RBCL 1; Provisional
Probab=86.53 E-value=73 Score=37.28 Aligned_cols=100 Identities=15% Similarity=0.176 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKK 171 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~ 171 (422)
.-..|...|...|++++|.+++.++..+..+-.++ ...+--.+..|...|++.+|..+..+....-...
T Consensus 544 TYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD---~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p-------- 612 (1060)
T PLN03218 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPD---HITVGALMKACANAGQVDRAKEVYQMIHEYNIKG-------- 612 (1060)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCc---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC--------
Confidence 44567778889999999999999987543332222 2344456678999999999999998886532210
Q ss_pred CCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 172 PKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
+. ..|..++..|...+++-+|.+.|.+....
T Consensus 613 -------------------~~--~tynsLI~ay~k~G~~deAl~lf~eM~~~ 643 (1060)
T PLN03218 613 -------------------TP--EVYTIAVNSCSQKGDWDFALSIYDDMKKK 643 (1060)
T ss_pred -------------------Ch--HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence 11 35678888888899999999999988763
No 53
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=85.71 E-value=14 Score=32.89 Aligned_cols=68 Identities=10% Similarity=-0.021 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
.+.....+|..+...|++++|...+.+..-... +..+....+.....++...|++.+|..++.++...
T Consensus 34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~---~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEE---DPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhh---ccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 566778999999999999999998887542211 11234567888889999999999999999988653
No 54
>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=85.68 E-value=2.5 Score=31.06 Aligned_cols=53 Identities=19% Similarity=0.187 Sum_probs=42.0
Q ss_pred HHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 101 EEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 101 e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
.+.|++++|.+.++.+.-... .-.++.+.-+++|+..|++.+|...+.++...
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p------~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNP------DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTT------TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hhccCHHHHHHHHHHHHHHCC------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 478999999999998764321 25567778899999999999999999988653
No 55
>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=85.50 E-value=44 Score=36.24 Aligned_cols=102 Identities=15% Similarity=0.131 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHH-HHhhccCchHHHHHHHHHHH-HHHhccCCHHHHHHHHHHhccccccCCCccc
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVA-VETFGAMAKTEKIAFILEQV-RLCLDRQDYVRAQILSRKISPRVFDADPSKE 168 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~-vEt~~~~~~~eK~e~~Le~~-rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~ 168 (422)
.+-..++.++...|++++|.+.+.... .+- +..+....+-.++... -++...+++.+|..++.++.... +
T Consensus 468 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p-~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~---p---- 539 (615)
T TIGR00990 468 DVYNYYGELLLDQNKFDEAIEKFDTAIELEK-ETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID---P---- 539 (615)
T ss_pred HHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-ccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC---C----
Confidence 344567778888888888877666522 111 0001111111111111 22233578888888888775421 1
Q ss_pred cCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 169 KKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
+.. ..+..+++.+...|+|-+|-+.|.++...
T Consensus 540 -------------------~~~----~a~~~la~~~~~~g~~~eAi~~~e~A~~l 571 (615)
T TIGR00990 540 -------------------ECD----IAVATMAQLLLQQGDVDEALKLFERAAEL 571 (615)
T ss_pred -------------------CcH----HHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 000 13456678888899999999999888764
No 56
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=84.67 E-value=3.8 Score=31.78 Aligned_cols=60 Identities=22% Similarity=0.189 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKI 156 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~ 156 (422)
......||..+...|++++|..+++.... ++.. .+......+.+++.|+|..|...+.|+
T Consensus 25 ~~~~~~la~~~~~~~~y~~A~~~~~~~~~------~~~~-~~~~~l~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 25 SAYLYNLAQCYFQQGKYEEAIELLQKLKL------DPSN-PDIHYLLARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHCHTH------HHCH-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHhCC------CCCC-HHHHHHHHHHHHHhCCHHHHHHHHhcC
Confidence 33556799999999999999999987222 1222 333334499999999999999888764
No 57
>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=84.57 E-value=34 Score=31.67 Aligned_cols=63 Identities=13% Similarity=0.026 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
...+|.+|...|++.+|...+....-. +.. ...-.+.+....+.+...||+..|..+...+..
T Consensus 169 ~~~~a~~~~~~g~~~~A~~~~~~al~~-~p~--~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~ 231 (235)
T TIGR03302 169 ELYVARFYLKRGAYVAAINRFETVVEN-YPD--TPATEEALARLVEAYLKLGLKDLAQDAAAVLGA 231 (235)
T ss_pred HHHHHHHHHHcCChHHHHHHHHHHHHH-CCC--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 347899999999999999988886533 211 134466777888999999999999998877654
No 58
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=84.07 E-value=6.1 Score=29.91 Aligned_cols=70 Identities=13% Similarity=-0.031 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhcc
Q 014576 130 IAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNND 209 (422)
Q Consensus 130 ~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~ 209 (422)
...+.....+|...|+|.+|..+.+|+... .... ++........+..++..+...++
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~-~~~~----------------------~~~~~~~a~~~~~lg~~~~~~g~ 61 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDI-EEQL----------------------GDDHPDTANTLNNLGECYYRLGD 61 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-HHHT----------------------TTHHHHHHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHHH----------------------CCCCHHHHHHHHHHHHHHHHcCC
Confidence 345667788999999999999999999876 3211 11122336778888899999999
Q ss_pred HHHHHHHHHHHhh
Q 014576 210 YLEICRCYKAIYE 222 (422)
Q Consensus 210 y~ea~~~y~e~~~ 222 (422)
|-+|-.+|.++.+
T Consensus 62 ~~~A~~~~~~al~ 74 (78)
T PF13424_consen 62 YEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHh
Confidence 9999999998875
No 59
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=83.97 E-value=24 Score=29.42 Aligned_cols=99 Identities=17% Similarity=0.026 Sum_probs=71.3
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
......+|..+...|++.+|...++.+. +. . + .-.+.+.....++...+++..|..+++++.... +
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~-~--p--~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---p----- 82 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLA-AY-D--P--YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD---P----- 82 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHH-Hh-C--C--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---C-----
Confidence 3456788999999999999999988753 11 1 1 124666677888899999999999998875531 1
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
+ +. ..+...+..+...++|-+|.+.|..+....
T Consensus 83 ------------------~--~~--~~~~~la~~~~~~g~~~~A~~~~~~al~~~ 115 (135)
T TIGR02552 83 ------------------D--DP--RPYFHAAECLLALGEPESALKALDLAIEIC 115 (135)
T ss_pred ------------------C--Ch--HHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence 0 11 123344567778899999999999888754
No 60
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=83.49 E-value=44 Score=37.44 Aligned_cols=99 Identities=7% Similarity=-0.078 Sum_probs=76.1
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKE 168 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~ 168 (422)
.......+|.++...|++++|...++++.-.. +.. .+.++..+.++...|++.+|...++++.....
T Consensus 358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~----P~n--~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P------- 424 (765)
T PRK10049 358 WLQGQSLLSQVAKYSNDLPQAEMRARELAYNA----PGN--QGLRIDYASVLQARGWPRAAENELKKAEVLEP------- 424 (765)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC-------
Confidence 34566789999999999999999999875322 222 46888899999999999999999999976421
Q ss_pred cCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 169 KKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
+ +.. ++...+..+...++|-+|-..+.++...
T Consensus 425 -------------------d--~~~--l~~~~a~~al~~~~~~~A~~~~~~ll~~ 456 (765)
T PRK10049 425 -------------------R--NIN--LEVEQAWTALDLQEWRQMDVLTDDVVAR 456 (765)
T ss_pred -------------------C--ChH--HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 1 122 2334456788888999999999998874
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=83.28 E-value=3 Score=30.75 Aligned_cols=64 Identities=17% Similarity=0.080 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccC-CHHHHHHHHHHhcc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQ-DYVRAQILSRKISP 158 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~-D~~~a~~~~~K~~~ 158 (422)
.+..-..+|.++...|++++|...+...- .+++ .-...+......+...+ ++.+|....+++..
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai-----~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAI-----ELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHH-----HHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 35667889999999999999999877632 1222 33668888899999999 79999999888743
No 62
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=83.23 E-value=14 Score=28.56 Aligned_cols=83 Identities=19% Similarity=0.266 Sum_probs=56.6
Q ss_pred HhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCccccc
Q 014576 102 EQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEE 181 (422)
Q Consensus 102 ~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (422)
+.|+|++|...+..+.-.... ...-.+++..+..+...|+|.+|-.++++. . . .
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~~~----~~~~~~~~~la~~~~~~~~y~~A~~~~~~~-~-~-~------------------- 54 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELDPT----NPNSAYLYNLAQCYFQQGKYEEAIELLQKL-K-L-D------------------- 54 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHHCG----THHHHHHHHHHHHHHHTTHHHHHHHHHHCH-T-H-H-------------------
T ss_pred CCccHHHHHHHHHHHHHHCCC----ChhHHHHHHHHHHHHHCCCHHHHHHHHHHh-C-C-C-------------------
Confidence 468999999999887744321 226668888999999999999999999882 1 1 1
Q ss_pred CCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHH
Q 014576 182 APADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKA 219 (422)
Q Consensus 182 ~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e 219 (422)
++ .....| +.++-+...++|-+|-++|.+
T Consensus 55 -----~~--~~~~~~--l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 55 -----PS--NPDIHY--LLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp -----HC--HHHHHH--HHHHHHHHTT-HHHHHHHHHH
T ss_pred -----CC--CHHHHH--HHHHHHHHhCCHHHHHHHHhc
Confidence 01 112223 336878888888888887765
No 63
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=82.76 E-value=20 Score=38.27 Aligned_cols=66 Identities=17% Similarity=0.141 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhh
Q 014576 128 EKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHN 207 (422)
Q Consensus 128 eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~ 207 (422)
|..|.+|-+..+..+.|++.+|-.++.+....+.+ ++.+++..+.++..-
T Consensus 2 E~SE~lLY~~~il~e~g~~~~AL~~L~~~~~~I~D------------------------------k~~~~E~rA~ll~kL 51 (517)
T PF12569_consen 2 EHSELLLYKNSILEEAGDYEEALEHLEKNEKQILD------------------------------KLAVLEKRAELLLKL 51 (517)
T ss_pred cHHHHHHHHHHHHHHCCCHHHHHHHHHhhhhhCCC------------------------------HHHHHHHHHHHHHHc
Confidence 34567777777777778887777777665544322 235667777778888
Q ss_pred ccHHHHHHHHHHHhhc
Q 014576 208 NDYLEICRCYKAIYEI 223 (422)
Q Consensus 208 ~~y~ea~~~y~e~~~~ 223 (422)
|++-+|...|.++.+.
T Consensus 52 g~~~eA~~~y~~Li~r 67 (517)
T PF12569_consen 52 GRKEEAEKIYRELIDR 67 (517)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 8888888888888873
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=82.43 E-value=10 Score=37.33 Aligned_cols=129 Identities=13% Similarity=0.077 Sum_probs=83.0
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKK 171 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~ 171 (422)
+....|.++..+|++++|.+++..- .-+|...-.+.++|..+.+.-|+..+++.... ..
T Consensus 104 ~~~~~A~i~~~~~~~~~AL~~l~~~-----------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~e-------- 162 (290)
T PF04733_consen 104 VQLLAATILFHEGDYEEALKLLHKG-----------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DE-------- 162 (290)
T ss_dssp HHHHHHHHHCCCCHHHHHHCCCTTT-----------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SC--------
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHcc-----------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CC--------
Confidence 5567788899999999999876541 33567777889999999999999998887652 11
Q ss_pred CCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCC-C
Q 014576 172 PKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPH-D 250 (422)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~-~ 250 (422)
...-.......+.++....+|-+|+..|.|+.++++- .+. .|-...+|.+.... +
T Consensus 163 ------------------D~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~-----t~~-~lng~A~~~l~~~~~~ 218 (290)
T PF04733_consen 163 ------------------DSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGS-----TPK-LLNGLAVCHLQLGHYE 218 (290)
T ss_dssp ------------------CHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS-------SHH-HHHHHHHHHHHCT-HH
T ss_pred ------------------cHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCC-----CHH-HHHHHHHHHHHhCCHH
Confidence 1333344555566666677899999999999986532 222 34444445555544 4
Q ss_pred hhhhHHhhhhhcccC
Q 014576 251 PMQSSLLNSTLEDKN 265 (422)
Q Consensus 251 ~~rs~ll~~~~~d~~ 265 (422)
.-+.-+...+..|++
T Consensus 219 eAe~~L~~al~~~~~ 233 (290)
T PF04733_consen 219 EAEELLEEALEKDPN 233 (290)
T ss_dssp HHHHHHHHHCCC-CC
T ss_pred HHHHHHHHHHHhccC
Confidence 334444444445543
No 65
>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=82.25 E-value=7 Score=28.31 Aligned_cols=49 Identities=16% Similarity=0.135 Sum_probs=37.6
Q ss_pred HHHHHhhhccc--ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCC
Q 014576 325 NILVVSKYYSR--ITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQ 373 (422)
Q Consensus 325 Ni~~isk~Ys~--Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~ 373 (422)
.+..+...+.. ++...||+.+++++.-+-..+..|+..|-|.-.-|..+
T Consensus 9 ~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~~D 59 (62)
T PF12802_consen 9 RVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDPGD 59 (62)
T ss_dssp HHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-SSS
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCCCC
Confidence 34444444444 99999999999999999999999999998877666554
No 66
>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=82.13 E-value=36 Score=30.17 Aligned_cols=100 Identities=13% Similarity=0.057 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKE 168 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~ 168 (422)
.+.....++..+...|++++|...+....-.. ..-...+.....++...||+..|..+++++......
T Consensus 30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~------p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~------ 97 (234)
T TIGR02521 30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD------PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN------ 97 (234)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC------
Confidence 46677889999999999999999988754221 122456667788999999999999999988653210
Q ss_pred cCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 169 KKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
..+ .+...+..+...++|-+|-..|..+...+
T Consensus 98 --------------------~~~----~~~~~~~~~~~~g~~~~A~~~~~~~~~~~ 129 (234)
T TIGR02521 98 --------------------NGD----VLNNYGTFLCQQGKYEQAMQQFEQAIEDP 129 (234)
T ss_pred --------------------CHH----HHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence 011 23344567788899999999999998753
No 67
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=81.17 E-value=6.1 Score=39.29 Aligned_cols=71 Identities=18% Similarity=0.258 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCC
Q 014576 86 EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADP 165 (422)
Q Consensus 86 E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~ 165 (422)
++....++.++|++|.+.||..+|.-.... | |+.- +.+.|... .
T Consensus 140 ~~~kl~l~iriarlyLe~~d~veae~~inR----a--Sil~--------------------------a~~~Ne~L-q--- 183 (399)
T KOG1497|consen 140 VEQKLLLCIRIARLYLEDDDKVEAEAYINR----A--SILQ--------------------------AESSNEQL-Q--- 183 (399)
T ss_pred hHHHHHHHHHHHHHHHhcCcHHHHHHHHHH----H--HHhh--------------------------hcccCHHH-H---
Confidence 345677899999999999999998865543 1 1100 01111111 0
Q ss_pred ccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHh
Q 014576 166 SKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSH 206 (422)
Q Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~ 206 (422)
..|++|++++.|.|.||.+...+||.-
T Consensus 184 --------------ie~kvc~ARvlD~krkFlEAAqrYyel 210 (399)
T KOG1497|consen 184 --------------IEYKVCYARVLDYKRKFLEAAQRYYEL 210 (399)
T ss_pred --------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 145678888899999999999888854
No 68
>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=80.60 E-value=3.5 Score=28.66 Aligned_cols=40 Identities=30% Similarity=0.351 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHH
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFIL 134 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~L 134 (422)
+..||+.|.+.||.+.|-++|+++..+ +..+-+....-+|
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl~~--~~~~q~~eA~~LL 41 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVIEE--GDEAQRQEARALL 41 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHHHc--CCHHHHHHHHHHH
Confidence 468999999999999999999999832 3433344444433
No 69
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=80.17 E-value=22 Score=27.86 Aligned_cols=65 Identities=11% Similarity=0.131 Sum_probs=46.6
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE-EEEccCCChHHHHHHHHHHHHHHH
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI-VCFQVAKDSNDILNSWAMNLEKLL 399 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi-V~F~~~~~~~~~l~~W~~~I~~l~ 399 (422)
.++.+.|++.++++...+-+.+.+|+..|-+...-|+.++- ..+.-.......+..+...+....
T Consensus 24 ~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~~~~~~~~~~~~ 89 (101)
T smart00347 24 PLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELIEELLEARHETL 89 (101)
T ss_pred CcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999998777754442 233222333455555555555444
No 70
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=80.14 E-value=48 Score=30.43 Aligned_cols=100 Identities=9% Similarity=0.021 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHH-HHhccCC--HHHHHHHHHHhccccccCCCc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVR-LCLDRQD--YVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~r-L~l~~~D--~~~a~~~~~K~~~~~~~~~~~ 166 (422)
......|+.+|...|++++|...+.... .+. ....++++.... ++...|+ +..|...++++...-..
T Consensus 73 ~~~w~~Lg~~~~~~g~~~~A~~a~~~Al-----~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~---- 142 (198)
T PRK10370 73 SEQWALLGEYYLWRNDYDNALLAYRQAL-----QLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN---- 142 (198)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHH-----HhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC----
Confidence 4577889999999999999999887532 111 235666676666 4566666 58999999999664211
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCC
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPY 225 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~ 225 (422)
+. ..+...+..+...++|-+|-.+|..+.+...
T Consensus 143 ------------------------~~--~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~ 175 (198)
T PRK10370 143 ------------------------EV--TALMLLASDAFMQADYAQAIELWQKVLDLNS 175 (198)
T ss_pred ------------------------Ch--hHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 11 2345666778889999999999999987543
No 71
>PRK14574 hmsH outer membrane protein; Provisional
Probab=80.02 E-value=1.1e+02 Score=34.65 Aligned_cols=98 Identities=9% Similarity=-0.012 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
......+|.++...|++++|.++++.+.-.- ++. .+.++-.+.++...++..+|...++++.....
T Consensus 102 ~~~llalA~ly~~~gdyd~Aiely~kaL~~d----P~n--~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp-------- 167 (822)
T PRK14574 102 SRGLASAARAYRNEKRWDQALALWQSSLKKD----PTN--PDLISGMIMTQADAGRGGVVLKQATELAERDP-------- 167 (822)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC----CCC--HHHHHHHHHHHhhcCCHHHHHHHHHHhcccCc--------
Confidence 4566777999999999999999999876321 111 34445668899999999999999999866421
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
+ ..++...+.++...+++.+|...|.++.+..
T Consensus 168 ---------------------~--~~~~l~layL~~~~~~~~~AL~~~ekll~~~ 199 (822)
T PRK14574 168 ---------------------T--VQNYMTLSYLNRATDRNYDALQASSEAVRLA 199 (822)
T ss_pred ---------------------c--hHHHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence 1 2344555555556788888999999999864
No 72
>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=79.94 E-value=9.6 Score=34.86 Aligned_cols=143 Identities=20% Similarity=0.162 Sum_probs=69.7
Q ss_pred HHHHHHHHHHHHHHhhccHHHHH---HHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCC
Q 014576 192 LKRIYYELMIRYYSHNNDYLEIC---RCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSE 268 (422)
Q Consensus 192 lklk~~~~~~~~~~~~~~y~ea~---~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ 268 (422)
.-+..|+..++++...+|.-+-. ..-.+.|+............+...+.++|.+.....++-...+..+-. ....
T Consensus 54 ~~i~v~E~~ar~~i~~~d~~qf~~c~~~L~~lY~~~~~~~~~~~~~ef~~y~lL~~l~~~~~~~~~~~l~~l~~--~~~~ 131 (204)
T PF03399_consen 54 FAIKVYERIARFAIESGDLEQFNQCLSQLKELYDDLRDLPPSPNEAEFIAYYLLYLLCQNNIPDFHMELELLPS--EILS 131 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---TTHHHHHHHHHHHTT-T---THHHHHHTTS-H--HHHT
T ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHHHHcccchHHHHHHHHCch--hhhc
Confidence 35577888888888776654322 222222222100000123345677777776655433343333333311 1223
Q ss_pred ChhHH---HHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhH-HHHHHHHHHHHHHHHHhhhccc-ccHHHHHH
Q 014576 269 IPNFR---LLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKA-AEDLRQRIIEHNILVVSKYYSR-ITLKRLAE 343 (422)
Q Consensus 269 ip~~~---~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~-~~~L~~~viEhNi~~isk~Ys~-Isl~~La~ 343 (422)
-|.++ .+.+++.+. .|...|.-...- ..+....+ ...+-.+++.+-+..+++-|.+ |+++.|++
T Consensus 132 ~~~i~~al~l~~a~~~g----------ny~~ff~l~~~~-~~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~ 200 (204)
T PF03399_consen 132 SPYIQFALELCRALMEG----------NYVRFFRLYRSK-SAPYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAE 200 (204)
T ss_dssp SHHHHHHHHHHHHH--T----------THHHHHHHHT-T-TS-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHH
T ss_pred CHHHHHHHHHHHHHHcC----------CHHHHHHHHhcc-CCChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence 34444 455666653 333333211000 11212222 2335578899999999999999 99999999
Q ss_pred HhCC
Q 014576 344 LLCL 347 (422)
Q Consensus 344 ll~l 347 (422)
+|+.
T Consensus 201 ~L~F 204 (204)
T PF03399_consen 201 LLGF 204 (204)
T ss_dssp HTT-
T ss_pred HcCC
Confidence 9974
No 73
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=79.92 E-value=4.4 Score=31.79 Aligned_cols=42 Identities=10% Similarity=0.013 Sum_probs=36.2
Q ss_pred HHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEE
Q 014576 327 LVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAK 368 (422)
Q Consensus 327 ~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ak 368 (422)
+-...-+-+++...||..|+.|++-+|..|..++.-|++.-.
T Consensus 8 Rd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 8 RDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEee
Confidence 334455788999999999999999999999999999998643
No 74
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=79.72 E-value=72 Score=32.13 Aligned_cols=136 Identities=16% Similarity=0.172 Sum_probs=88.2
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhH-HHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHHhhhcCcchHHHH
Q 014576 11 KKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQL-KQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLNSVSAGKIYVEIE 88 (422)
Q Consensus 11 ~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~ql-k~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~~~~~~ki~~E~e 88 (422)
--++.+++.+|-..++|++.++.-..|.|--+|- +--|+..-=+.-.-.....+.+-.+.+++ +|. +.+-
T Consensus 141 ~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlq---a~~~----- 212 (389)
T COG2956 141 EGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQ---ADKK----- 212 (389)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHh---hCcc-----
Confidence 3467778888888888988888877766555554 33344332221111111122222232332 222 2221
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
-.|.+..|+++....|++..|.+.++.+.- =++.+-.++.-.-+.-|-..|+.......++++...
T Consensus 213 cvRAsi~lG~v~~~~g~y~~AV~~~e~v~e-----Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~ 278 (389)
T COG2956 213 CVRASIILGRVELAKGDYQKAVEALERVLE-----QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET 278 (389)
T ss_pred ceehhhhhhHHHHhccchHHHHHHHHHHHH-----hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence 257889999999999999999999988652 145566677777778899999999999998888664
No 75
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=79.22 E-value=84 Score=36.00 Aligned_cols=140 Identities=11% Similarity=0.088 Sum_probs=75.2
Q ss_pred hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--------------cCCCCHHHHHHHH
Q 014576 7 VAGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYI--------------DQTPDLDTRIELI 72 (422)
Q Consensus 7 ~~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l--------------~~~~~~~~~~~li 72 (422)
-+++..+..+++..+...++|+.+.+.+.... ...+..+.-.+-..+-+. +..+. +.+..++
T Consensus 27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l---~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~-~~~~~~v 102 (906)
T PRK14720 27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHL---KEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQ-NLKWAIV 102 (906)
T ss_pred CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHH---HhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhccc-ccchhHH
Confidence 46788999999999999999999877765322 111222221111111111 11111 1111222
Q ss_pred HHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHH
Q 014576 73 KTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQIL 152 (422)
Q Consensus 73 ~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~ 152 (422)
+-+..... . +.+ ...+-..||.+|...|++++|..+.+.+..=......--..+.+++. ..|..+|..+
T Consensus 103 e~~~~~i~-~-~~~--~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~a-------e~dL~KA~~m 171 (906)
T PRK14720 103 EHICDKIL-L-YGE--NKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYE-------EEDKEKAITY 171 (906)
T ss_pred HHHHHHHH-h-hhh--hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHH-------HhhHHHHHHH
Confidence 22221000 0 121 12355789999999999999999998866332211111123333332 2288888888
Q ss_pred HHHhccccc
Q 014576 153 SRKISPRVF 161 (422)
Q Consensus 153 ~~K~~~~~~ 161 (422)
++|+-..+.
T Consensus 172 ~~KAV~~~i 180 (906)
T PRK14720 172 LKKAIYRFI 180 (906)
T ss_pred HHHHHHHHH
Confidence 888866544
No 76
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=78.89 E-value=42 Score=28.99 Aligned_cols=93 Identities=4% Similarity=-0.169 Sum_probs=70.5
Q ss_pred HHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCC
Q 014576 95 KLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKE 174 (422)
Q Consensus 95 ~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~ 174 (422)
.++..+...|++++|...++...-- +..-.+++..-..++...|++..|...++++...... .
T Consensus 29 ~~g~~~~~~g~~~~A~~~~~~al~~------~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~---~-------- 91 (144)
T PRK15359 29 ASGYASWQEGDYSRAVIDFSWLVMA------QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS---H-------- 91 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHc------CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC---C--------
Confidence 4688899999999999988774321 1234677788889999999999999999999763211 0
Q ss_pred CCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 175 GDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 175 ~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
. ..+...+..+...|++-+|..+|..+..-
T Consensus 92 -----------------~--~a~~~lg~~l~~~g~~~eAi~~~~~Al~~ 121 (144)
T PRK15359 92 -----------------P--EPVYQTGVCLKMMGEPGLAREAFQTAIKM 121 (144)
T ss_pred -----------------c--HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 0 13345567778899999999999998874
No 77
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.70 E-value=63 Score=30.91 Aligned_cols=139 Identities=15% Similarity=0.021 Sum_probs=97.4
Q ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 87 IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 87 ~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
.|.+..+..||-=|.+.||+..|-+-|.+-. +. |+ .-..-++--+-+|-..|+.+.|...++|+...-...
T Consensus 32 ~~aa~arlqLal~YL~~gd~~~A~~nlekAL-~~----DP-s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~--- 102 (250)
T COG3063 32 NEAAKARLQLALGYLQQGDYAQAKKNLEKAL-EH----DP-SYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNN--- 102 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH-Hh----Cc-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCc---
Confidence 5578899999999999999999998777633 11 12 222334445667888999999999999996542111
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHh
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVL 246 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~IL 246 (422)
+++ ..-.+-+....+.|-+|-..|..+.+.|...+- ...+.++.+|..=
T Consensus 103 --------------------GdV-------LNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~----s~t~eN~G~Cal~ 151 (250)
T COG3063 103 --------------------GDV-------LNNYGAFLCAQGRPEEAMQQFERALADPAYGEP----SDTLENLGLCALK 151 (250)
T ss_pred --------------------cch-------hhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCc----chhhhhhHHHHhh
Confidence 221 234456778899999999999999998877542 2477888889886
Q ss_pred CCC-ChhhhHHhhhhhcccC
Q 014576 247 APH-DPMQSSLLNSTLEDKN 265 (422)
Q Consensus 247 a~~-~~~rs~ll~~~~~d~~ 265 (422)
+.- +.-+..+-..+..|+.
T Consensus 152 ~gq~~~A~~~l~raL~~dp~ 171 (250)
T COG3063 152 AGQFDQAEEYLKRALELDPQ 171 (250)
T ss_pred cCCchhHHHHHHHHHHhCcC
Confidence 654 4444445555666654
No 78
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=78.64 E-value=24 Score=33.80 Aligned_cols=132 Identities=15% Similarity=0.144 Sum_probs=29.0
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-cCCCCHHHHHHHHH-HHHhhhcCcchH
Q 014576 8 AGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYI-DQTPDLDTRIELIK-TLNSVSAGKIYV 85 (422)
Q Consensus 8 ~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l-~~~~~~~~~~~li~-tL~~~~~~ki~~ 85 (422)
+........+++++...++++...+.+..+.......-.....++ .++ ..-|+.. ..+.+ .... .....
T Consensus 41 ~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~----~l~~~~~~~~A--~~~~~~~~~~-~~~~~-- 111 (280)
T PF13429_consen 41 PDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLI----QLLQDGDPEEA--LKLAEKAYER-DGDPR-- 111 (280)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccc----ccccccccccc--cccccccccc-ccccc--
Confidence 344456666777777778888777777665532222111121222 221 1112111 11111 1111 11111
Q ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 86 EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 86 E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
.-...+.++...|+++++.+++..+.- . ... ..-..+++..++++...|++.+|...++++..
T Consensus 112 ------~l~~~l~~~~~~~~~~~~~~~l~~~~~-~-~~~--~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~ 174 (280)
T PF13429_consen 112 ------YLLSALQLYYRLGDYDEAEELLEKLEE-L-PAA--PDSARFWLALAEIYEQLGDPDKALRDYRKALE 174 (280)
T ss_dssp ------------H-HHHTT-HHHHHHHHHHHHH---T-----T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred ------hhhHHHHHHHHHhHHHHHHHHHHHHHh-c-cCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 112344455566666666666665441 1 111 12344555556666666666666666666654
No 79
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=78.12 E-value=44 Score=39.37 Aligned_cols=67 Identities=10% Similarity=0.008 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
....+|.++...|++++|...++.+.-......+......++...++++...|++.+|...++++-.
T Consensus 673 ~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~ 739 (1157)
T PRK11447 673 TQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV 739 (1157)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 4566899999999999999999987643322233333455666779999999999999999999953
No 80
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=77.87 E-value=21 Score=30.75 Aligned_cols=70 Identities=21% Similarity=0.340 Sum_probs=50.3
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeE-EEEeccCCc-EEEEccCCChH-------HHHHHHHHHHHHHHHHHHH
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKAL-VAKIDRPQG-IVCFQVAKDSN-------DILNSWAMNLEKLLDLVEK 404 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i-~akIDq~~g-iV~F~~~~~~~-------~~l~~W~~~I~~l~~~v~k 404 (422)
-.+.+.||+.|+++..-|.+-|-+++.-|-+ .-+..-+.| ...-=.+-+++ ..|++|..++.++....+.
T Consensus 42 ~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~~~l~~w~~~~~~~i~~~~~ 120 (126)
T COG3355 42 PLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKILKDLDEWYDKMKQLIEEFEK 120 (126)
T ss_pred CcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4688999999999999999999999999988 344443333 33222233333 4688888888888776553
No 81
>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=77.07 E-value=9.9 Score=27.67 Aligned_cols=48 Identities=21% Similarity=0.261 Sum_probs=38.5
Q ss_pred HHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEc
Q 014576 328 VVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQ 379 (422)
Q Consensus 328 ~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~ 379 (422)
...+--..++++.||+.||+|+.-+-+-+..|...|. |.+.-|-+.+.
T Consensus 7 ~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~----i~r~~GG~~~~ 54 (57)
T PF08220_consen 7 ELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGL----IKRTHGGAVLN 54 (57)
T ss_pred HHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCC----EEEEcCEEEeC
Confidence 3334567899999999999999999999999999996 55566655543
No 82
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=76.68 E-value=9.1 Score=28.98 Aligned_cols=32 Identities=22% Similarity=0.173 Sum_probs=30.1
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
++...||+.+|++...+.+.|..|..+|.+..
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 83
>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=76.64 E-value=17 Score=26.58 Aligned_cols=45 Identities=20% Similarity=0.231 Sum_probs=38.6
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEcc
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQV 380 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~ 380 (422)
++.+.+++.+|++...+-+.+..|...|-+...-+...+...+.+
T Consensus 21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 899999999999999999999999999999887666555555543
No 84
>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=76.56 E-value=11 Score=26.07 Aligned_cols=32 Identities=31% Similarity=0.334 Sum_probs=27.9
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
..+|...||+.+|+|..-+-..+.+|+..|-|
T Consensus 16 ~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 16 PRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp TTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 45999999999999999999999999999976
No 85
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=76.27 E-value=19 Score=34.47 Aligned_cols=65 Identities=18% Similarity=0.329 Sum_probs=52.4
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHHHH
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLV 402 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~~v 402 (422)
=-+++-+.+|.-||+|++-+-.++-+||.+|-+.- .|-.++.=.+...+.+-+|..++....+.|
T Consensus 23 qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~-----~gR~~Y~iTkkG~e~l~~~~~dlr~f~~ev 87 (260)
T COG1497 23 QPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEK-----EGRGEYEITKKGAEWLLEQLSDLRRFSEEV 87 (260)
T ss_pred CCCCCHHHHHHHcCCCHHHHHHHHHHHHhccceee-----cCCeeEEEehhHHHHHHHHHHHHHHHHHHH
Confidence 36788999999999999999999999999997654 333344333455788999999999888887
No 86
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=75.83 E-value=1.1e+02 Score=32.18 Aligned_cols=179 Identities=17% Similarity=0.142 Sum_probs=109.7
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHH
Q 014576 8 AGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEI 87 (422)
Q Consensus 8 ~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~ 87 (422)
.|...++-.|.-.+...|+.+..++.+. |-|+-+...+.-+|+-+--| ..+.|...-++++-....+.+.-
T Consensus 521 asc~ealfniglt~e~~~~ldeald~f~---klh~il~nn~evl~qianiy-e~led~aqaie~~~q~~slip~d----- 591 (840)
T KOG2003|consen 521 ASCTEALFNIGLTAEALGNLDEALDCFL---KLHAILLNNAEVLVQIANIY-ELLEDPAQAIELLMQANSLIPND----- 591 (840)
T ss_pred hHHHHHHHHhcccHHHhcCHHHHHHHHH---HHHHHHHhhHHHHHHHHHHH-HHhhCHHHHHHHHHHhcccCCCC-----
Confidence 5778888889888888899888877764 44566655555555533222 12223333333333333333332
Q ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcc
Q 014576 88 ERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSK 167 (422)
Q Consensus 88 era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~ 167 (422)
-.+--+||.+|-.+||...|...--+ +|.-.+- .++.+-=....|+...=|.+|-.|..|+.-.. +
T Consensus 592 --p~ilskl~dlydqegdksqafq~~yd----syryfp~--nie~iewl~ayyidtqf~ekai~y~ekaaliq---p--- 657 (840)
T KOG2003|consen 592 --PAILSKLADLYDQEGDKSQAFQCHYD----SYRYFPC--NIETIEWLAAYYIDTQFSEKAINYFEKAALIQ---P--- 657 (840)
T ss_pred --HHHHHHHHHHhhcccchhhhhhhhhh----cccccCc--chHHHHHHHHHHHhhHHHHHHHHHHHHHHhcC---c---
Confidence 23447899999999999999875443 5543322 12222223456788888999999999986532 1
Q ss_pred ccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHH
Q 014576 168 EKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRK 239 (422)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~ 239 (422)
. .. |+..+.+--+-..++|..|+..|..+-..+. +-+.||+.
T Consensus 658 --------------------~--~~--kwqlmiasc~rrsgnyqka~d~yk~~hrkfp------edldclkf 699 (840)
T KOG2003|consen 658 --------------------N--QS--KWQLMIASCFRRSGNYQKAFDLYKDIHRKFP------EDLDCLKF 699 (840)
T ss_pred --------------------c--HH--HHHHHHHHHHHhcccHHHHHHHHHHHHHhCc------cchHHHHH
Confidence 1 11 2223333556678999999999998887542 23568874
No 87
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.26 E-value=16 Score=35.37 Aligned_cols=29 Identities=24% Similarity=0.251 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHH
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAV 118 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~v 118 (422)
+.....||.||.+.|+|+.|+=+++++-.
T Consensus 154 ~EAW~eLaeiY~~~~~f~kA~fClEE~ll 182 (289)
T KOG3060|consen 154 QEAWHELAEIYLSEGDFEKAAFCLEELLL 182 (289)
T ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence 55778888888888888888888877653
No 88
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=75.24 E-value=13 Score=29.18 Aligned_cols=58 Identities=17% Similarity=0.135 Sum_probs=41.4
Q ss_pred HHHHHHhhhcc--cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccC
Q 014576 324 HNILVVSKYYS--RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVA 381 (422)
Q Consensus 324 hNi~~isk~Ys--~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~ 381 (422)
|-+..++.... .++.+.||+.+++|+..+++.+.+|...|-+...=-+..|+.--.++
T Consensus 12 ~~l~~la~~~~~~~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~ 71 (83)
T PF02082_consen 12 RILLYLARHPDGKPVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRLARPP 71 (83)
T ss_dssp HHHHHHHCTTTSC-BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-C
T ss_pred HHHHHHHhCCCCCCCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecCCH
Confidence 34444454433 39999999999999999999999999999887765555555444444
No 89
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=74.59 E-value=51 Score=33.28 Aligned_cols=95 Identities=13% Similarity=-0.002 Sum_probs=69.9
Q ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCC
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPK 173 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~ 173 (422)
...|.-....|+|.+|...+....-.. + .-...++..+.+++..|++..|...+.++.... |
T Consensus 6 ~~~a~~a~~~~~~~~Ai~~~~~Al~~~-----P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~----P-------- 67 (356)
T PLN03088 6 EDKAKEAFVDDDFALAVDLYTQAIDLD-----P-NNAELYADRAQANIKLGNFTEAVADANKAIELD----P-------- 67 (356)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhC-----C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----c--------
Confidence 345777889999999999888754221 1 124577788889999999999999999986532 1
Q ss_pred CCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 174 EGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 174 ~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
. .. ..|...+..+...++|-+|..+|..+....
T Consensus 68 --------------~--~~--~a~~~lg~~~~~lg~~~eA~~~~~~al~l~ 100 (356)
T PLN03088 68 --------------S--LA--KAYLRKGTACMKLEEYQTAKAALEKGASLA 100 (356)
T ss_pred --------------C--CH--HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence 0 01 234455678888999999999999988753
No 90
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=74.44 E-value=1e+02 Score=31.11 Aligned_cols=102 Identities=17% Similarity=0.132 Sum_probs=77.7
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
-.....|..||..+.+|++|.++-..+..=+. .--..+-..|+-|-+.-++...|..+|...+.|+..-. +.+
T Consensus 141 ~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~-q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~---~~c--- 213 (389)
T COG2956 141 EGALQQLLNIYQATREWEKAIDVAERLVKLGG-QTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD---KKC--- 213 (389)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCC-ccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC---ccc---
Confidence 34567899999999999999998877664332 22244788899999999999999999999999996521 111
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
. +=-..+++++...|+|-.|-+.|..+.+
T Consensus 214 ----------------v--------RAsi~lG~v~~~~g~y~~AV~~~e~v~e 242 (389)
T COG2956 214 ----------------V--------RASIILGRVELAKGDYQKAVEALERVLE 242 (389)
T ss_pred ----------------e--------ehhhhhhHHHHhccchHHHHHHHHHHHH
Confidence 1 1113667888889999999999888887
No 91
>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=74.26 E-value=13 Score=26.68 Aligned_cols=50 Identities=20% Similarity=0.140 Sum_probs=40.4
Q ss_pred HHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 325 NILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 325 Ni~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
.+..+..-+-.++...||+.++++..-+=+.+.+|+..|-|.-..|..++
T Consensus 7 ~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~~D~ 56 (59)
T PF01047_consen 7 RILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDPDDR 56 (59)
T ss_dssp HHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEETTET
T ss_pred HHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCC
Confidence 34444445677999999999999999999999999999999887776554
No 92
>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=73.96 E-value=74 Score=29.32 Aligned_cols=184 Identities=14% Similarity=0.007 Sum_probs=100.8
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHH
Q 014576 8 AGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEI 87 (422)
Q Consensus 8 ~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~ 87 (422)
.-........+..++..|+|+.....+..+.+....-......-...+..+. ...+.+.=+..++.+....++.-.+
T Consensus 30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~-~~~~~~~A~~~~~~~l~~~p~~~~~-- 106 (235)
T TIGR03302 30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYY-KSGDYAEAIAAADRFIRLHPNHPDA-- 106 (235)
T ss_pred cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHCcCCCch--
Confidence 3344566677777788888888777776554332211100001111111122 2233333344455444444433221
Q ss_pred HHHHHHHHHHHHHHHh--------ccHHHHHHHHHHHHHHhhccC-chH----------HHHHHHHHHHHHHhccCCHHH
Q 014576 88 ERARLIKKLAKIKEEQ--------GLIAEAADLMQEVAVETFGAM-AKT----------EKIAFILEQVRLCLDRQDYVR 148 (422)
Q Consensus 88 era~l~~~La~i~e~~--------g~~~eAa~iL~~l~vEt~~~~-~~~----------eK~e~~Le~~rL~l~~~D~~~ 148 (422)
...-..++..+... |++++|.+.++.+-....++. ... ......+....+++..|++..
T Consensus 107 --~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~ 184 (235)
T TIGR03302 107 --DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVA 184 (235)
T ss_pred --HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHH
Confidence 12334555555544 889999999988754322221 110 011123466788999999999
Q ss_pred HHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 149 AQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 149 a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
|.....++....-..+ ...+. +..++..+...++|-+|..+|..+...
T Consensus 185 A~~~~~~al~~~p~~~-----------------------~~~~a----~~~l~~~~~~lg~~~~A~~~~~~l~~~ 232 (235)
T TIGR03302 185 AINRFETVVENYPDTP-----------------------ATEEA----LARLVEAYLKLGLKDLAQDAAAVLGAN 232 (235)
T ss_pred HHHHHHHHHHHCCCCc-----------------------chHHH----HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 9999998865432110 11122 235668888999999999988777653
No 93
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=73.69 E-value=89 Score=34.29 Aligned_cols=29 Identities=10% Similarity=0.178 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 195 IYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 195 k~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
.-|.-.++|..+...|.||-+.|+.++-+
T Consensus 805 dVy~pyaqwLAE~DrFeEAqkAfhkAGr~ 833 (1081)
T KOG1538|consen 805 DVYMPYAQWLAENDRFEEAQKAFHKAGRQ 833 (1081)
T ss_pred cccchHHHHhhhhhhHHHHHHHHHHhcch
Confidence 34567789999999999999999999874
No 94
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=73.22 E-value=55 Score=34.34 Aligned_cols=139 Identities=17% Similarity=0.145 Sum_probs=87.3
Q ss_pred HHHHHHHHHHHHHHhhccHHHHHHHH--HHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCC
Q 014576 192 LKRIYYELMIRYYSHNNDYLEICRCY--KAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEI 269 (422)
Q Consensus 192 lklk~~~~~~~~~~~~~~y~ea~~~y--~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~i 269 (422)
.-.+-|+-.+|+.++.||--|=-+|- ....-.+.+.. ...+.+.|-|+|-|+....++-..+|..+..+ +.+-
T Consensus 346 FTveVYEtHARIALEkGD~~EfNQCQtQLk~LY~egipg---~~~EF~AYriLY~i~tkN~~di~sll~~lt~E--~ked 420 (540)
T KOG1861|consen 346 FTVEVYETHARIALEKGDLEEFNQCQTQLKALYSEGIPG---AYLEFTAYRILYYIFTKNYPDILSLLRDLTEE--DKED 420 (540)
T ss_pred eeeeeehhhhHHHHhcCCHHHHHHHHHHHHHHHccCCCC---chhhHHHHHHHHHHHhcCchHHHHHHHhccHh--hccC
Confidence 34456788889999999987744443 33333444432 35677788899999998888777777777643 2333
Q ss_pred hhHH---HHHHHhcccccccchhhHHHHHHHhhhhhhhcCCchhhhH-HHHHHHHHHHHHHHHHhhhcc-cccHHHHHHH
Q 014576 270 PNFR---LLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKA-AEDLRQRIIEHNILVVSKYYS-RITLKRLAEL 344 (422)
Q Consensus 270 p~~~---~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~-~~~L~~~viEhNi~~isk~Ys-~Isl~~La~l 344 (422)
|... .+..+-.. ..|-.+|..+.. -|....+ ...+..+-+-.-+.+|+|-|. +|+++.|++.
T Consensus 421 ~~V~hAL~vR~A~~~----------GNY~kFFrLY~~---AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~ 487 (540)
T KOG1861|consen 421 EAVAHALEVRSAVTL----------GNYHKFFRLYLT---APNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASE 487 (540)
T ss_pred HHHHHHHHHHHHHHh----------ccHHHHHHHHhh---cccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhh
Confidence 3333 23333332 455555552211 1112222 234446667778899999999 9999999998
Q ss_pred hCCC
Q 014576 345 LCLS 348 (422)
Q Consensus 345 l~ls 348 (422)
|.+.
T Consensus 488 laf~ 491 (540)
T KOG1861|consen 488 LAFD 491 (540)
T ss_pred hhhc
Confidence 7765
No 95
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=71.96 E-value=5.4 Score=25.90 Aligned_cols=23 Identities=22% Similarity=0.381 Sum_probs=19.2
Q ss_pred HHHHHHHHHhccHHHHHHHHHHH
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEV 116 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l 116 (422)
..||.+|...|+|++|.++.+..
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 46899999999999999988873
No 96
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=71.88 E-value=1.6e+02 Score=32.37 Aligned_cols=168 Identities=11% Similarity=0.152 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHhh--------------hhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHh-
Q 014576 13 AVTEILQLCFEAKDWKTLNEQIVNLSK--------------KRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNS- 77 (422)
Q Consensus 13 ~~~~i~~~~~~~~~~~~l~~~i~~l~k--------------~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~- 77 (422)
+...+++.|.+.|+++...+.+..+.+ +.|+...|+.-+=+ |.-..-.||..+-..++..+..
T Consensus 362 ~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~--M~~~g~~Pd~~T~~~ll~a~~~~ 439 (697)
T PLN03081 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER--MIAEGVAPNHVTFLAVLSACRYS 439 (697)
T ss_pred ehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHH--HHHhCCCCCHHHHHHHHHHHhcC
Q ss_pred --hhcCcchHHHHHHH--------HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHH
Q 014576 78 --VSAGKIYVEIERAR--------LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYV 147 (422)
Q Consensus 78 --~~~~ki~~E~era~--------l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~ 147 (422)
+.++.-+|+.=... .-.-+.+.|...|++++|.+++.+ |+..--...+--.+..|-..|++.
T Consensus 440 g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~--------~~~~p~~~~~~~Ll~a~~~~g~~~ 511 (697)
T PLN03081 440 GLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR--------APFKPTVNMWAALLTACRIHKNLE 511 (697)
T ss_pred CcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHH--------CCCCCCHHHHHHHHHHHHHcCCcH
Q ss_pred HHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Q 014576 148 RAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAI 220 (422)
Q Consensus 148 ~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~ 220 (422)
.|+...++....-...... |.+++..|...|++-+|.+.+.+.
T Consensus 512 ~a~~~~~~l~~~~p~~~~~------------------------------y~~L~~~y~~~G~~~~A~~v~~~m 554 (697)
T PLN03081 512 LGRLAAEKLYGMGPEKLNN------------------------------YVVLLNLYNSSGRQAEAAKVVETL 554 (697)
T ss_pred HHHHHHHHHhCCCCCCCcc------------------------------hHHHHHHHHhCCCHHHHHHHHHHH
No 97
>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=71.83 E-value=5.4 Score=30.94 Aligned_cols=41 Identities=20% Similarity=0.143 Sum_probs=34.5
Q ss_pred HHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 325 NILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 325 Ni~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
.+..+++++...|.+.||+.+|+|+.-+...+..+...|.+
T Consensus 22 ~af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 22 AAAALAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchH
Confidence 34445578899999999999999999999999988777754
No 98
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=71.56 E-value=11 Score=33.25 Aligned_cols=45 Identities=20% Similarity=0.280 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHH
Q 014576 312 KAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHL 356 (422)
Q Consensus 312 ~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~l 356 (422)
.....+++.-+.+-..-+++.|++|....+|..+|++++++-+.+
T Consensus 109 ~imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~~ddAtk~i 153 (197)
T KOG4414|consen 109 DIMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLPEDDATKGI 153 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 344666666666777788899999999999999999999987654
No 99
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=70.90 E-value=8.9 Score=26.02 Aligned_cols=32 Identities=22% Similarity=0.304 Sum_probs=29.8
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
.++...||+.+|++...+-+.+..|...|-+.
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 47889999999999999999999999999885
No 100
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=70.89 E-value=14 Score=27.36 Aligned_cols=58 Identities=16% Similarity=0.094 Sum_probs=46.2
Q ss_pred HHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 96 LAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 96 La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
|+.+|...++|++|.++++.+-.-. + .-...++.-..++...|+|..|...+.++...
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~~-----p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALELD-----P-DDPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHhC-----c-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 5678999999999999888765321 1 24566777889999999999999999998754
No 101
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=70.45 E-value=2.3e+02 Score=33.48 Aligned_cols=169 Identities=13% Similarity=0.049 Sum_probs=95.9
Q ss_pred HHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCC-CHHHHHHHHHHHHhhhcCcchHHHHHHHHH
Q 014576 15 TEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTP-DLDTRIELIKTLNSVSAGKIYVEIERARLI 93 (422)
Q Consensus 15 ~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~-~~~~~~~li~tL~~~~~~ki~~E~era~l~ 93 (422)
....+++...|+|+.....+..+.+....-......... .+...+ ..+.-+..++.+....++. ..+.
T Consensus 116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~----~~~~~~g~~~~A~~~L~~ll~~~P~~-------~~~~ 184 (1157)
T PRK11447 116 LQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWR----LVAKLPAQRPEAINQLQRLNADYPGN-------TGLR 184 (1157)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHH----HHhhCCccHHHHHHHHHHHHHhCCCC-------HHHH
Confidence 334456677777777777776655332111110000111 111111 2233344444444444552 4567
Q ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHhhc-------------c-----------------Cch---HHHHHHHHH-----
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEVAVETFG-------------A-----------------MAK---TEKIAFILE----- 135 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l~vEt~~-------------~-----------------~~~---~eK~e~~Le----- 135 (422)
..||.++...|++++|...+..+...... . .+. ..+....|.
T Consensus 185 ~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~ 264 (1157)
T PRK11447 185 NTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQ 264 (1157)
T ss_pred HHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHh
Confidence 89999999999999999999887432100 0 000 011111121
Q ss_pred ----------HHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHH
Q 014576 136 ----------QVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYS 205 (422)
Q Consensus 136 ----------~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~ 205 (422)
....++..+++..|...++++..... ...+ -+..++..+.
T Consensus 265 ~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P--------------------------~~~~----a~~~Lg~~~~ 314 (1157)
T PRK11447 265 LADPAFRARAQGLAAVDSGQGGKAIPELQQAVRANP--------------------------KDSE----ALGALGQAYS 314 (1157)
T ss_pred ccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--------------------------CCHH----HHHHHHHHHH
Confidence 13457788999999999988865321 1112 2345668888
Q ss_pred hhccHHHHHHHHHHHhhcC
Q 014576 206 HNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 206 ~~~~y~ea~~~y~e~~~~~ 224 (422)
..++|-+|-.+|..+....
T Consensus 315 ~~g~~~eA~~~l~~Al~~~ 333 (1157)
T PRK11447 315 QQGDRARAVAQFEKALALD 333 (1157)
T ss_pred HcCCHHHHHHHHHHHHHhC
Confidence 9999999999999988743
No 102
>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=70.38 E-value=51 Score=32.38 Aligned_cols=100 Identities=12% Similarity=0.030 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccC
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKK 170 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~ 170 (422)
.....+|.++...|++++|...+...-- .-++. ...+.....++.+.|++..|..++.++.......
T Consensus 115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~----~~p~~--~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~------- 181 (355)
T cd05804 115 YLLGMLAFGLEEAGQYDRAEEAARRALE----LNPDD--AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCS------- 181 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHh----hCCCC--cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCC-------
Confidence 3456788999999999999998887432 11111 3455556788999999999999999886532110
Q ss_pred CCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 171 KPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 171 ~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
.+.....+-..+.++...|++-+|...|.++..
T Consensus 182 -------------------~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~ 214 (355)
T cd05804 182 -------------------SMLRGHNWWHLALFYLERGDYEAALAIYDTHIA 214 (355)
T ss_pred -------------------cchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 123234455677899999999999999999864
No 103
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=70.32 E-value=12 Score=22.90 Aligned_cols=27 Identities=22% Similarity=0.250 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHH
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVE 119 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vE 119 (422)
...+|.++...|++++|.+.++.+.-+
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence 467899999999999999999987643
No 104
>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=70.07 E-value=8.4 Score=28.23 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=31.0
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
..++.+.||+.+|++..-+.+.+..|...|-|..
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 3589999999999999999999999999998764
No 105
>PLN03218 maturation of RBCL 1; Provisional
Probab=69.52 E-value=2.3e+02 Score=33.22 Aligned_cols=29 Identities=7% Similarity=0.008 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Q 014576 10 TKKAVTEILQLCFEAKDWKTLNEQIVNLS 38 (422)
Q Consensus 10 ~~~~~~~i~~~~~~~~~~~~l~~~i~~l~ 38 (422)
+......++..|.+.|+++...+.+..+.
T Consensus 506 dvvTynaLI~gy~k~G~~eeAl~lf~~M~ 534 (1060)
T PLN03218 506 NVHTFGALIDGCARAGQVAKAFGAYGIMR 534 (1060)
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence 44556677777777788777776665543
No 106
>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=69.41 E-value=10 Score=24.46 Aligned_cols=30 Identities=17% Similarity=0.264 Sum_probs=24.5
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
+|-..||..+|++++-+-+.++++-.+|-|
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 566889999999999999999999888854
No 107
>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=68.88 E-value=1.2e+02 Score=29.63 Aligned_cols=137 Identities=16% Similarity=0.101 Sum_probs=87.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccC
Q 014576 84 YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDA 163 (422)
Q Consensus 84 ~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~ 163 (422)
....+.+....++|++....|.+.-|...|..+..- ..........+.++.+++.-..|+...|-..++......+..
T Consensus 140 ~~~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~--~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~ 217 (352)
T PF02259_consen 140 LLPEELAETWLKFAKLARKAGNFQLALSALNRLFQL--NPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSK 217 (352)
T ss_pred cchhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhcc--CCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhh
Confidence 345677889999999999999999999999875521 111112267888999999999999988887666554411111
Q ss_pred C-Ccc-ccCCCCCC---CcccccCCCCccchHHHHHHHHHHHHHHHHhh------ccHHHHHHHHHHHhhc
Q 014576 164 D-PSK-EKKKPKEG---DNVVEEAPADIPSLLELKRIYYELMIRYYSHN------NDYLEICRCYKAIYEI 223 (422)
Q Consensus 164 ~-~~~-~~~~~~~~---~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~------~~y~ea~~~y~e~~~~ 223 (422)
. +.. .+....+- .... ..........+.+.+.+...+.|.... .++-++.+.|.++...
T Consensus 218 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~ 287 (352)
T PF02259_consen 218 NIDSISNAELKSGLLESLEVI-SSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKL 287 (352)
T ss_pred ccccccHHHHhhccccccccc-cccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHh
Confidence 1 000 00000000 0000 000012233577788888999999888 8888899999988864
No 108
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=68.43 E-value=15 Score=27.56 Aligned_cols=34 Identities=21% Similarity=0.224 Sum_probs=30.1
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
..-++-..+|+.+|+|.-.+-.+|..|..+|+|.
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 6668999999999999999999999999999885
No 109
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=68.06 E-value=23 Score=25.04 Aligned_cols=46 Identities=17% Similarity=0.213 Sum_probs=36.8
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCF 378 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F 378 (422)
-..+++..|++.+|++...+-+.+..|...|-+...-+...+...+
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~ 53 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSL 53 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEE
Confidence 4568999999999999999999999999999997554433334433
No 110
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=67.12 E-value=20 Score=25.91 Aligned_cols=59 Identities=17% Similarity=0.120 Sum_probs=44.7
Q ss_pred HHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHH
Q 014576 135 EQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEIC 214 (422)
Q Consensus 135 e~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~ 214 (422)
...+.++..|||..|...++++..... + .. ..+...+..+...++|-+|.
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P--------------------------~--~~--~a~~~lg~~~~~~g~~~~A~ 51 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDP--------------------------D--NP--EAWYLLGRILYQQGRYDEAL 51 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCST--------------------------T--HH--HHHHHHHHHHHHTT-HHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCC--------------------------C--CH--HHHHHHHHHHHHcCCHHHHH
Confidence 467889999999999999999966431 1 11 34456678888999999999
Q ss_pred HHHHHHhhc
Q 014576 215 RCYKAIYEI 223 (422)
Q Consensus 215 ~~y~e~~~~ 223 (422)
..|.++...
T Consensus 52 ~~~~~a~~~ 60 (65)
T PF13432_consen 52 AYYERALEL 60 (65)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 999988763
No 111
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=66.78 E-value=1.2e+02 Score=29.00 Aligned_cols=63 Identities=21% Similarity=0.121 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
..+-..+|.++...|++++|.+.++....-. ++.. ++....+.+++..|++.+++..+++...
T Consensus 146 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~----P~~~--~~~~~l~~~li~~~~~~~~~~~l~~~~~ 208 (280)
T PF13429_consen 146 ARFWLALAEIYEQLGDPDKALRDYRKALELD----PDDP--DARNALAWLLIDMGDYDEAREALKRLLK 208 (280)
T ss_dssp HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-----TT-H--HHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC----CCCH--HHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence 3344667777777777777777776643211 1111 1222234455666666665555554443
No 112
>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=66.52 E-value=18 Score=24.44 Aligned_cols=47 Identities=15% Similarity=0.097 Sum_probs=33.7
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHH
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAM 393 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~ 393 (422)
++++.+|++||++..- +-+++.+|.|.+... .|...|.. +.+.+|-+
T Consensus 2 lt~~e~a~~lgis~~t----i~~~~~~g~i~~~~~--g~~~~~~~-----~~l~~~~~ 48 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDT----VYRLIHEGELPAYRV--GRHYRIPR-----EDVDEYLE 48 (49)
T ss_pred CCHHHHHHHHCCCHHH----HHHHHHcCCCCeEEe--CCeEEEeH-----HHHHHHHh
Confidence 4789999999999875 555678999877543 46666653 45667753
No 113
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=66.35 E-value=11 Score=25.43 Aligned_cols=26 Identities=23% Similarity=0.198 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHH
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVA 117 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~ 117 (422)
+...||..|...|++++|.++++.+.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l 28 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRAL 28 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 45678888888888888888888755
No 114
>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=66.23 E-value=29 Score=25.06 Aligned_cols=61 Identities=13% Similarity=-0.055 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
....+|.++...|++++|.+.++...--. +.. .+.+.....++...+++..|..+..++..
T Consensus 36 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 36 AYYNLAAAYYKLGKYEEALEDYEKALELD----PDN--AKAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCC----Ccc--hhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 45678888888999999999888744211 111 16677778889999999999998887744
No 115
>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=65.93 E-value=14 Score=25.27 Aligned_cols=26 Identities=27% Similarity=0.333 Sum_probs=21.2
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHH
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDM 359 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~m 359 (422)
.+.++..||+.+|+|+..+-.-+.+|
T Consensus 16 ~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 16 GRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 89999999999999999988777665
No 116
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=65.93 E-value=18 Score=29.52 Aligned_cols=40 Identities=23% Similarity=0.249 Sum_probs=34.8
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE---EEeccC
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV---AKIDRP 372 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~---akIDq~ 372 (422)
-.+++++.||+.+|+|+..+-+.+.+|...|-+. +.+|+.
T Consensus 15 ~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~~~~ 57 (108)
T smart00344 15 DARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGYTAVINPK 57 (108)
T ss_pred hCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeceEEEeCHH
Confidence 4689999999999999999999999999999765 556643
No 117
>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=65.66 E-value=1.3e+02 Score=30.78 Aligned_cols=138 Identities=14% Similarity=0.108 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHH
Q 014576 10 TKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIER 89 (422)
Q Consensus 10 ~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~er 89 (422)
..++....+.++...|+++.-.+.+....++.-.-....-..+.... .++. .+.+...+.++...+..++. -.
T Consensus 262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~-~l~~-~~~~~~~~~~e~~lk~~p~~-----~~ 334 (409)
T TIGR00540 262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIP-RLKP-EDNEKLEKLIEKQAKNVDDK-----PK 334 (409)
T ss_pred CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhh-hcCC-CChHHHHHHHHHHHHhCCCC-----hh
Confidence 45566666667777777777766666655544433211000111111 1111 22233344555333333332 11
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
..+...|+.++...|+|++|.+.++... ....-++.+ .+..-..++...|+...|..+.++....
T Consensus 335 ~~ll~sLg~l~~~~~~~~~A~~~le~a~--a~~~~p~~~---~~~~La~ll~~~g~~~~A~~~~~~~l~~ 399 (409)
T TIGR00540 335 CCINRALGQLLMKHGEFIEAADAFKNVA--ACKEQLDAN---DLAMAADAFDQAGDKAEAAAMRQDSLGL 399 (409)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHhH--HhhcCCCHH---HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 2677899999999999999999888422 111112222 2446689999999999999999997543
No 118
>PLN03077 Protein ECB2; Provisional
Probab=65.60 E-value=2.2e+02 Score=32.26 Aligned_cols=169 Identities=18% Similarity=0.223 Sum_probs=97.7
Q ss_pred HHHHHHHHHhcCHHHHHHHHHHH-------------hhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHH---hh
Q 014576 15 TEILQLCFEAKDWKTLNEQIVNL-------------SKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLN---SV 78 (422)
Q Consensus 15 ~~i~~~~~~~~~~~~l~~~i~~l-------------~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~---~~ 78 (422)
..+++.|.+.|+++...+.+... .-++|+...|+. +.++.. --.-.||..+-..++.... .+
T Consensus 528 naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~-lf~~M~-~~g~~Pd~~T~~~ll~a~~~~g~v 605 (857)
T PLN03077 528 NALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVE-LFNRMV-ESGVNPDEVTFISLLCACSRSGMV 605 (857)
T ss_pred hHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHH-HHHHHH-HcCCCCCcccHHHHHHHHhhcChH
Confidence 45677888888877765544332 124455544432 111111 1123566655555555443 24
Q ss_pred hcCcchHHHHH--------HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHH
Q 014576 79 SAGKIYVEIER--------ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQ 150 (422)
Q Consensus 79 ~~~ki~~E~er--------a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~ 150 (422)
.++.-+|+.=+ ...-..+...+...|++++|.+++++++++. + ...+--.+.-|...+|...++
T Consensus 606 ~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~p-----d---~~~~~aLl~ac~~~~~~e~~e 677 (857)
T PLN03077 606 TQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITP-----D---PAVWGALLNACRIHRHVELGE 677 (857)
T ss_pred HHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCC-----C---HHHHHHHHHHHHHcCChHHHH
Confidence 44433343111 1234567788899999999999888875321 1 122222334455578888888
Q ss_pred HHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 151 ILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 151 ~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
...+++... .|. + .-+|.++...|...|++-+|.+.....-+.
T Consensus 678 ~~a~~l~~l----~p~------------------------~--~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~ 720 (857)
T PLN03077 678 LAAQHIFEL----DPN------------------------S--VGYYILLCNLYADAGKWDEVARVRKTMREN 720 (857)
T ss_pred HHHHHHHhh----CCC------------------------C--cchHHHHHHHHHHCCChHHHHHHHHHHHHc
Confidence 777776542 111 0 136778888889999999999888877653
No 119
>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=64.78 E-value=14 Score=22.93 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHH
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQE 115 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~ 115 (422)
++-..+|.+|...|++++|.+.++.
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~ 26 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEK 26 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 3456677777777888777776664
No 120
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=64.05 E-value=99 Score=30.60 Aligned_cols=153 Identities=16% Similarity=0.107 Sum_probs=95.0
Q ss_pred HHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHH
Q 014576 198 ELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLK 277 (422)
Q Consensus 198 ~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k 277 (422)
...+.=+...++|.+|-..|-++..- ||......=-.+..|.=|--+.+-..+-.+.+.-|+.-. -.|..|--
T Consensus 85 K~eGN~~m~~~~Y~eAv~kY~~AI~l-----~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~ys--kay~RLG~ 157 (304)
T KOG0553|consen 85 KNEGNKLMKNKDYQEAVDKYTEAIEL-----DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYS--KAYGRLGL 157 (304)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHHhc-----CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHH--HHHHHHHH
Confidence 45666677899999999999999874 333332222244556666777777777888887776432 35667888
Q ss_pred HhcccccccchhhHHHHHHHhhhhhhhcCCchhhhHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHhCCC---------
Q 014576 278 QLVTMEVIQWTSLWNTYKDEFENETNMLGGSLGAKAAEDLRQRIIEHNILVVSKYYSRITLKRLAELLCLS--------- 348 (422)
Q Consensus 278 ~f~~~eli~~~~~~~~y~~~l~~~~~~~~d~~~~~~~~~L~~~viEhNi~~isk~Ys~Isl~~La~ll~ls--------- 348 (422)
+|++ +=++.+....|...|. -||.-+.+++.|+ +.|.+++--...=..+.-..++.++|..
T Consensus 158 A~~~--~gk~~~A~~aykKaLe------ldP~Ne~~K~nL~--~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~s~~~~ 227 (304)
T KOG0553|consen 158 AYLA--LGKYEEAIEAYKKALE------LDPDNESYKSNLK--IAEQKLNEPKSSAQASGSFDMAGLIGAFPDSRSMFNG 227 (304)
T ss_pred HHHc--cCcHHHHHHHHHhhhc------cCCCcHHHHHHHH--HHHHHhcCCCcccccccchhhhhhccCCccchhhhcc
Confidence 8875 3445555566776665 3444344454443 2344443333334556667777777772
Q ss_pred ----HHHHHHHHHHHHhcCeEEE
Q 014576 349 ----IQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 349 ----~~e~E~~ls~mI~~~~i~a 367 (422)
...+-...+.|+.+|.+++
T Consensus 228 ~l~nnp~l~~~~~~m~~~~~~~~ 250 (304)
T KOG0553|consen 228 DLMNNPQLMQLASQMMKDGALNG 250 (304)
T ss_pred ccccCHHHHHHHHHHhhcccccC
Confidence 3356667788888766654
No 121
>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=63.53 E-value=8.9 Score=23.00 Aligned_cols=24 Identities=33% Similarity=0.257 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHH
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQ 114 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~ 114 (422)
+....||..+...|++++|...+.
T Consensus 2 ~a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 2 RARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHh
Confidence 356789999999999999998765
No 122
>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=63.46 E-value=19 Score=26.27 Aligned_cols=63 Identities=14% Similarity=0.055 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhc-
Q 014576 130 IAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNN- 208 (422)
Q Consensus 130 ~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~- 208 (422)
.+.+......++..+||.+|..+.+++...- + . +. ..+..++..+...+
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~---p-----------------------~--~~--~~~~~~g~~~~~~~~ 52 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD---P-----------------------N--NA--EAYYNLGLAYMKLGK 52 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS---T-----------------------T--HH--HHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---C-----------------------C--CH--HHHHHHHHHHHHhCc
Confidence 4677888899999999999999999996642 1 1 11 24455667777777
Q ss_pred cHHHHHHHHHHHhh
Q 014576 209 DYLEICRCYKAIYE 222 (422)
Q Consensus 209 ~y~ea~~~y~e~~~ 222 (422)
+|.+|..+|..+..
T Consensus 53 ~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 53 DYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHH
Confidence 89999999888765
No 123
>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=63.25 E-value=28 Score=29.90 Aligned_cols=42 Identities=14% Similarity=0.134 Sum_probs=35.7
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIV 376 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV 376 (422)
.++.+.||+.+++|+..+++.+..|...|-+...=-...|+.
T Consensus 25 ~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~ 66 (135)
T TIGR02010 25 PVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQ 66 (135)
T ss_pred cCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEe
Confidence 489999999999999999999999999998876544445543
No 124
>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=63.19 E-value=1.9e+02 Score=29.88 Aligned_cols=125 Identities=10% Similarity=0.106 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHHhhhcCcchHHHHHH
Q 014576 12 KAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLNSVSAGKIYVEIERA 90 (422)
Q Consensus 12 ~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~~~~~~ki~~E~era 90 (422)
-++..+++++...++|+...+.+..|.++-...-. .+.+-.+. ..+...-+.+++ +|.. .+. -+
T Consensus 170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~---~LA~v~l~----~~~E~~AI~ll~~aL~~-~p~-------d~ 234 (395)
T PF09295_consen 170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAV---LLARVYLL----MNEEVEAIRLLNEALKE-NPQ-------DS 234 (395)
T ss_pred HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHH---HHHHHHHh----cCcHHHHHHHHHHHHHh-CCC-------CH
Confidence 45566777777778888888888887766554322 22221111 111111133333 3321 111 15
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKIS 157 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~ 157 (422)
.+-...|+++.+.|+++.|.++.+.-- ..-+. ..+.+..-++.|+..|||..|-..+|-+-
T Consensus 235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av----~lsP~--~f~~W~~La~~Yi~~~d~e~ALlaLNs~P 295 (395)
T PF09295_consen 235 ELLNLQAEFLLSKKKYELALEIAKKAV----ELSPS--EFETWYQLAECYIQLGDFENALLALNSCP 295 (395)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHH----HhCch--hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence 567788999999999999999888622 12222 23344457899999999999999988653
No 125
>PF12728 HTH_17: Helix-turn-helix domain
Probab=62.86 E-value=25 Score=24.51 Aligned_cols=47 Identities=19% Similarity=0.176 Sum_probs=34.3
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHH
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAM 393 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~ 393 (422)
+|.+.+|++||+|... +-+|+..|.|.+- +..+.+.|.. +.+++|-+
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 4788999999999876 4567789999666 3556666654 35677754
No 126
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=62.15 E-value=19 Score=25.35 Aligned_cols=32 Identities=19% Similarity=0.227 Sum_probs=29.5
Q ss_pred cc-cHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 335 RI-TLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 335 ~I-sl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
++ |...||+.+|+|..-+.+.+..|..+|-+.
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 127
>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=61.97 E-value=90 Score=25.77 Aligned_cols=42 Identities=10% Similarity=0.094 Sum_probs=37.8
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
...++.+.||+.+|++..-+=..+..|...|-|...-|..++
T Consensus 40 ~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~ 81 (118)
T TIGR02337 40 QGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQ 81 (118)
T ss_pred cCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCC
Confidence 457899999999999999999999999999999988876665
No 128
>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=61.74 E-value=20 Score=25.32 Aligned_cols=39 Identities=18% Similarity=0.198 Sum_probs=32.0
Q ss_pred HHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 328 VVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 328 ~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
.++..=..++++.||+.+|++..-+-+++..|+..|-+.
T Consensus 11 ~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 11 ALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp CHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 344445568999999999999999999999999998663
No 129
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=61.67 E-value=1.1e+02 Score=26.72 Aligned_cols=68 Identities=12% Similarity=-0.022 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
.+.....++..+...|++++|...+....-... +.......+.....++...|++..|..++.++...
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~---~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI---DPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER 101 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc---cchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 566778899999999999999998887542211 12234457778889999999999999999998753
No 130
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=61.57 E-value=13 Score=32.77 Aligned_cols=38 Identities=13% Similarity=0.184 Sum_probs=34.9
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE---EEecc
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALV---AKIDR 371 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~---akIDq 371 (422)
.|++.+.||+.+|+|+..+-.-+-+|..+|-|. |-+|.
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 799999999999999999999999999999884 56774
No 131
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=61.51 E-value=1e+02 Score=29.88 Aligned_cols=67 Identities=13% Similarity=0.184 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCch-HHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAK-TEKIAFILEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~-~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
......||..|...|++++|...++.+-- .| ++ ...-+.++....++...||+..|..+++++...+
T Consensus 180 ~~A~y~LG~~y~~~g~~~~A~~~f~~vv~-~y---P~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~y 247 (263)
T PRK10803 180 PNANYWLGQLNYNKGKKDDAAYYFASVVK-NY---PKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKY 247 (263)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HC---CCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 34678999999999999999998887652 22 23 2455667777888889999999999999886644
No 132
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=60.94 E-value=1.2e+02 Score=30.65 Aligned_cols=97 Identities=12% Similarity=0.064 Sum_probs=75.7
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCC
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKP 172 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~ 172 (422)
..++++.|..-|-+.+|-+-|+. ++...+-.+.+|--.+.|-..+...+|-..+.....++.
T Consensus 226 k~Q~gkCylrLgm~r~Aekqlqs-------sL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP----------- 287 (478)
T KOG1129|consen 226 KQQMGKCYLRLGMPRRAEKQLQS-------SLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFP----------- 287 (478)
T ss_pred HHHHHHHHHHhcChhhhHHHHHH-------HhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCC-----------
Confidence 56788999999999999998774 555667788888899999999999888877665544321
Q ss_pred CCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCC
Q 014576 173 KEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYI 226 (422)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~ 226 (422)
.-..|.--++|+|.+-+++-+|.+.|.++....++
T Consensus 288 -------------------~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~ 322 (478)
T KOG1129|consen 288 -------------------FDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPI 322 (478)
T ss_pred -------------------chhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCc
Confidence 11246677889999999999999999999976544
No 133
>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=60.75 E-value=16 Score=27.58 Aligned_cols=33 Identities=15% Similarity=0.206 Sum_probs=30.2
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
-.++.+.||.++|+|.+.+-+.+..|..+|-|.
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 347889999999999999999999999999776
No 134
>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=58.76 E-value=35 Score=24.49 Aligned_cols=30 Identities=20% Similarity=0.210 Sum_probs=27.9
Q ss_pred cHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 337 TLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 337 sl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
+...||+.+|+|...+-+.+..|...|-|.
T Consensus 27 ~~~~la~~~~is~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 27 SERELAEELGVSRTTVREALRELEAEGLVE 56 (66)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Confidence 489999999999999999999999999764
No 135
>PRK09954 putative kinase; Provisional
Probab=58.50 E-value=34 Score=34.39 Aligned_cols=47 Identities=15% Similarity=0.185 Sum_probs=39.8
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE---EEEeccCCcEEEEc
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL---VAKIDRPQGIVCFQ 379 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i---~akIDq~~giV~F~ 379 (422)
-.++|.+.||+.||+|...+-+.+.+|..+|.| ...+|+..+++.+.
T Consensus 15 ~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG 64 (362)
T PRK09954 15 NPLIQQNEIADILQISRSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVG 64 (362)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEE
Confidence 358999999999999999999999999999987 35677777776443
No 136
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=58.18 E-value=27 Score=23.80 Aligned_cols=34 Identities=24% Similarity=0.351 Sum_probs=30.6
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
..++...|++.+|+++.-+.+.+..|...|.|..
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 3489999999999999999999999999987753
No 137
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=57.83 E-value=22 Score=22.83 Aligned_cols=28 Identities=32% Similarity=0.418 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHH
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVA 117 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~ 117 (422)
+.....||.+|...|++++|..++++..
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 3456789999999999999999888753
No 138
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=57.77 E-value=24 Score=21.71 Aligned_cols=24 Identities=17% Similarity=0.122 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHH
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQE 115 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~ 115 (422)
.-..+|.++...|++++|.+.++.
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~ 26 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEK 26 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHH
Confidence 445677777788888887776665
No 139
>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=57.41 E-value=64 Score=27.45 Aligned_cols=72 Identities=15% Similarity=0.013 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccc
Q 014576 84 YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVF 161 (422)
Q Consensus 84 ~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~ 161 (422)
+++.....+-..++..+...|++++|...++.+.-. -+- --..+..-|+.+...|+...|...+.+......
T Consensus 56 ~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~----dP~--~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~ 127 (146)
T PF03704_consen 56 RLRELYLDALERLAEALLEAGDYEEALRLLQRALAL----DPY--DEEAYRLLMRALAAQGRRAEALRVYERYRRRLR 127 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH----STT---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc----CCC--CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 444555667888999999999999999998875521 122 234566679999999999999999999977553
No 140
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.77 E-value=29 Score=32.23 Aligned_cols=65 Identities=17% Similarity=0.154 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
.+-+..+||.+..+.|.+++|.++|..+.-+.+.++-..-+.|+ ++..||-..|+..+.++....
T Consensus 125 k~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDi-------ll~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 125 KALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDI-------LLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhH-------HHHcCchHHHHHHHHHHHHcc
Confidence 46678999999999999999999999888776655544455554 457899999999999997653
No 141
>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=56.44 E-value=22 Score=25.74 Aligned_cols=30 Identities=23% Similarity=0.234 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVE 119 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vE 119 (422)
..+...||.+|...|++++|..+|..+.-.
T Consensus 25 ~~~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 25 PEARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 446778999999999999999999987643
No 142
>PRK11189 lipoprotein NlpI; Provisional
Probab=55.85 E-value=2e+02 Score=27.98 Aligned_cols=101 Identities=13% Similarity=-0.095 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 87 IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 87 ~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
.+++..-..++.+|...|++++|...+....- +++. -.+.+.....++...|++..|...++++......
T Consensus 61 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~-----l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~---- 130 (296)
T PRK11189 61 EERAQLHYERGVLYDSLGLRALARNDFSQALA-----LRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT---- 130 (296)
T ss_pred HhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-----cCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC----
Confidence 35677888889999999999999987665321 1111 2456677788999999999999999998653211
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
... .+...+..+...++|-+|...|..+...
T Consensus 131 ----------------------~~~----a~~~lg~~l~~~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 131 ----------------------YNY----AYLNRGIALYYGGRYELAQDDLLAFYQD 161 (296)
T ss_pred ----------------------CHH----HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 011 2233455566678999999999888863
No 143
>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=55.78 E-value=35 Score=28.86 Aligned_cols=51 Identities=18% Similarity=0.120 Sum_probs=38.7
Q ss_pred HHHHHHhhhcc--cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 324 HNILVVSKYYS--RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 324 hNi~~isk~Ys--~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
|-+..+++.-. .++.+.||+.+|+|+..+.+.+..|+..|-|...-....|
T Consensus 12 ~~l~~la~~~~~~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~gg 64 (132)
T TIGR00738 12 RALLDLALNPDEGPVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGG 64 (132)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCC
Confidence 34444444322 6899999999999999999999999999988764334344
No 144
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.68 E-value=2.1e+02 Score=27.91 Aligned_cols=88 Identities=22% Similarity=0.223 Sum_probs=53.0
Q ss_pred HHHHHHHH-HHHhhhcC-cchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--hhccCchHHHHHHHHHHHHHHh
Q 014576 66 DTRIELIK-TLNSVSAG-KIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVE--TFGAMAKTEKIAFILEQVRLCL 141 (422)
Q Consensus 66 ~~~~~li~-tL~~~~~~-ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vE--t~~~~~~~eK~e~~Le~~rL~l 141 (422)
+.-+.|++ ++.-+.++ +.-.+ ..+-.+.+.++-.-+.+.||+..+...-+- .+.+.....| .++-++-+||
T Consensus 127 d~AlqlYqralavve~~dr~~ma---~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k--~~va~ilv~L 201 (308)
T KOG1585|consen 127 DDALQLYQRALAVVEEDDRDQMA---FELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCK--AYVAAILVYL 201 (308)
T ss_pred HHHHHHHHHHHHHHhccchHHHH---HHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHH--HHHHHHHHHh
Confidence 33455666 55533332 22221 224566778888888899999776642221 1123333333 3556677788
Q ss_pred ccCCHHHHHHHHHHhcc
Q 014576 142 DRQDYVRAQILSRKISP 158 (422)
Q Consensus 142 ~~~D~~~a~~~~~K~~~ 158 (422)
-.+||+.|+..++....
T Consensus 202 ~~~Dyv~aekc~r~~~q 218 (308)
T KOG1585|consen 202 YAHDYVQAEKCYRDCSQ 218 (308)
T ss_pred hHHHHHHHHHHhcchhc
Confidence 89999999999998754
No 145
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=55.52 E-value=1.5e+02 Score=26.33 Aligned_cols=68 Identities=15% Similarity=0.124 Sum_probs=45.5
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE-EEe-ccCCcEEEEccCCChHHHHHHHHHHHHHHHHHH
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALV-AKI-DRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLV 402 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~-akI-Dq~~giV~F~~~~~~~~~l~~W~~~I~~l~~~v 402 (422)
-+|-+.||++||++..++-+.|..|..+|-+. -+. |-..|-..+-..-+..++...-...+..+...+
T Consensus 28 ~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~Ik~~~~~~~~~l 97 (158)
T TIGR00373 28 EFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDVLKRKLEETAKKL 97 (158)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999999999999999883 221 334455544433344455544444444444433
No 146
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.34 E-value=1.6e+02 Score=31.93 Aligned_cols=108 Identities=19% Similarity=0.266 Sum_probs=74.6
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHhh---------hhhhHHHHHHHHHHHHHhhhcCCCCH------------------
Q 014576 13 AVTEILQLCFEAKDWKTLNEQIVNLSK---------KRGQLKQAVTAMVQQAMQYIDQTPDL------------------ 65 (422)
Q Consensus 13 ~~~~i~~~~~~~~~~~~l~~~i~~l~k---------~~~qlk~ai~~~v~~~~~~l~~~~~~------------------ 65 (422)
++.==++.|++.++|+.-++-+..|.| +|..+-++......+.+..++.+|+.
T Consensus 112 ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky 191 (652)
T KOG2376|consen 112 LLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKY 191 (652)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccH
Confidence 333447889999999999999998864 55556555555555566677766641
Q ss_pred HHHHHHHHHH-----HhhhcCcc---hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHh
Q 014576 66 DTRIELIKTL-----NSVSAGKI---YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVET 120 (422)
Q Consensus 66 ~~~~~li~tL-----~~~~~~ki---~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt 120 (422)
..-++++++- +++.++-. ..|.|.+-++.+||-++...|+..||..+..++....
T Consensus 192 ~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~ 254 (652)
T KOG2376|consen 192 NQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN 254 (652)
T ss_pred HHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence 1223444422 12333332 3667889999999999999999999999887776543
No 147
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.02 E-value=1.3e+02 Score=29.32 Aligned_cols=114 Identities=16% Similarity=0.169 Sum_probs=70.1
Q ss_pred HHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhc-cCchHHHHHHHHHHHHHHhccCC
Q 014576 67 TRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFG-AMAKTEKIAFILEQVRLCLDRQD 145 (422)
Q Consensus 67 ~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~-~~~~~eK~e~~Le~~rL~l~~~D 145 (422)
.-...+.+|+.--+|. -|+...-|-.+|+.|.|++|.+.+..+.-|-.. ....+-|+.++. ..|-
T Consensus 70 lAq~C~~~L~~~fp~S-------~RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilk-------a~GK 135 (289)
T KOG3060|consen 70 LAQKCINQLRDRFPGS-------KRVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILK-------AQGK 135 (289)
T ss_pred HHHHHHHHHHHhCCCC-------hhHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHH-------HcCC
Confidence 3456677777655664 556677788899999999999999887755431 222233443333 2233
Q ss_pred HHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 146 YVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 146 ~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
...|-.-+++-..++.. ++|.. .....+|...++|..||-||.|+.-+.
T Consensus 136 ~l~aIk~ln~YL~~F~~--------------------------D~EAW----~eLaeiY~~~~~f~kA~fClEE~ll~~ 184 (289)
T KOG3060|consen 136 NLEAIKELNEYLDKFMN--------------------------DQEAW----HELAEIYLSEGDFEKAAFCLEELLLIQ 184 (289)
T ss_pred cHHHHHHHHHHHHHhcC--------------------------cHHHH----HHHHHHHHhHhHHHHHHHHHHHHHHcC
Confidence 33333333333333322 12332 244577889999999999999998753
No 148
>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=54.88 E-value=35 Score=24.06 Aligned_cols=28 Identities=29% Similarity=0.286 Sum_probs=26.1
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcC
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSK 363 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~ 363 (422)
||.+.||+.||+|..-+.+.+..+-..|
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 149
>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=54.80 E-value=30 Score=27.91 Aligned_cols=46 Identities=22% Similarity=0.244 Sum_probs=38.1
Q ss_pred hcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEc
Q 014576 332 YYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQ 379 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~ 379 (422)
.-..++-+.||+++|++.+-+-+.|.+|...|-|. .++..|.+..+
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 46788999999999999999999999999999886 34445665554
No 150
>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=54.62 E-value=22 Score=30.18 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=34.7
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
..++...||+.+|+|+.-+.+.+..|...|-|.+.-....|
T Consensus 24 ~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~gg 64 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGG 64 (130)
T ss_pred CCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCC
Confidence 46899999999999999999999999999999775333333
No 151
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=54.57 E-value=1.1e+02 Score=26.09 Aligned_cols=41 Identities=7% Similarity=0.033 Sum_probs=37.2
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI 375 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi 375 (422)
.++.+.||+.++++..-+=+.+.+|+..|-|.-.-|..++-
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 46789999999999999999999999999999888877773
No 152
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=53.95 E-value=4.2e+02 Score=30.93 Aligned_cols=93 Identities=11% Similarity=-0.022 Sum_probs=68.4
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCC
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKP 172 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~ 172 (422)
-...|..+...|++++|...++... ..++.. .+.++..+++|+..|++..|..+++|+...- |.
T Consensus 47 ~f~~a~~~~~~Gd~~~A~~~l~~Al-----~~dP~n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld----P~------ 110 (987)
T PRK09782 47 RLDKALKAQKNNDEATAIREFEYIH-----QQVPDN-IPLTLYLAEAYRHFGHDDRARLLLEDQLKRH----PG------ 110 (987)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHH-----HhCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC----cc------
Confidence 3556677788899999999888753 223444 7777999999999999999999999996542 11
Q ss_pred CCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCC
Q 014576 173 KEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPY 225 (422)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~ 225 (422)
+. .|+...+.+ ++|-+|...|.++.....
T Consensus 111 ------------------n~--~~~~~La~i----~~~~kA~~~ye~l~~~~P 139 (987)
T PRK09782 111 ------------------DA--RLERSLAAI----PVEVKSVTTVEELLAQQK 139 (987)
T ss_pred ------------------cH--HHHHHHHHh----ccChhHHHHHHHHHHhCC
Confidence 01 233333333 899999999999998644
No 153
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=53.61 E-value=36 Score=30.51 Aligned_cols=43 Identities=14% Similarity=0.147 Sum_probs=37.2
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIV 376 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV 376 (422)
..++.+.||+.+|+|+..+++.+..|...|-+.+.=....|+.
T Consensus 24 ~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~ 66 (164)
T PRK10857 24 GPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYL 66 (164)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCee
Confidence 3599999999999999999999999999999987555555643
No 154
>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=53.42 E-value=1.1e+02 Score=24.14 Aligned_cols=24 Identities=13% Similarity=0.164 Sum_probs=13.7
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHHH
Q 014576 14 VTEILQLCFEAKDWKTLNEQIVNL 37 (422)
Q Consensus 14 ~~~i~~~~~~~~~~~~l~~~i~~l 37 (422)
....+..+...|+|+...+.+..+
T Consensus 5 ~~~~~~~~~~~~~~~~A~~~~~~~ 28 (119)
T TIGR02795 5 YYDAALLVLKAGDYADAIQAFQAF 28 (119)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHH
Confidence 344555566666666665555443
No 155
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=53.20 E-value=42 Score=29.57 Aligned_cols=53 Identities=17% Similarity=0.114 Sum_probs=43.6
Q ss_pred HHHHHHhhhcc--cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEE
Q 014576 324 HNILVVSKYYS--RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIV 376 (422)
Q Consensus 324 hNi~~isk~Ys--~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV 376 (422)
|-|..++.-.. -++.+.||+..|+|+..+++.++.|...|-+...==...|+.
T Consensus 12 ~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~ 66 (150)
T COG1959 12 RALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYR 66 (150)
T ss_pred HHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCcc
Confidence 55666665544 688999999999999999999999999999987766566654
No 156
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=53.11 E-value=2.2e+02 Score=30.08 Aligned_cols=63 Identities=24% Similarity=0.255 Sum_probs=46.7
Q ss_pred HHHHHHHHHhccHHHHHHHHHHH-HHH-hhccCch-HHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEV-AVE-TFGAMAK-TEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l-~vE-t~~~~~~-~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
..||++|+.-++..+|+.....- .++ ..|..++ -.|...+| ++-+...+||.+|..|.++++.
T Consensus 470 ~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fL--A~~f~k~~~~~~As~Ya~~~~~ 535 (559)
T KOG1155|consen 470 VRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFL--AEYFKKMKDFDEASYYATLVLK 535 (559)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHH--HHHHHhhcchHHHHHHHHHHhc
Confidence 58999999999999999876542 222 2244444 46666664 5568889999999999998864
No 157
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=53.05 E-value=2e+02 Score=27.78 Aligned_cols=94 Identities=7% Similarity=-0.071 Sum_probs=65.0
Q ss_pred HHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccc
Q 014576 101 EEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVE 180 (422)
Q Consensus 101 e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (422)
...|+|++|...++.+.-....+ .+.-..+.....+|+..||+..|....+++-..+...+
T Consensus 154 ~~~~~y~~Ai~af~~fl~~yP~s---~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~---------------- 214 (263)
T PRK10803 154 QDKSRQDDAIVAFQNFVKKYPDS---TYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSP---------------- 214 (263)
T ss_pred HhcCCHHHHHHHHHHHHHHCcCC---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc----------------
Confidence 45699999999988866322111 13345566778889999999999999999876542211
Q ss_pred cCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 181 EAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 181 ~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
...|.. ..++..+...+++-+|...|.++...+
T Consensus 215 -------~~~dAl----~klg~~~~~~g~~~~A~~~~~~vi~~y 247 (263)
T PRK10803 215 -------KAADAM----FKVGVIMQDKGDTAKAKAVYQQVIKKY 247 (263)
T ss_pred -------chhHHH----HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 122331 223456667899999999999998754
No 158
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=52.74 E-value=2.7e+02 Score=28.37 Aligned_cols=80 Identities=9% Similarity=-0.077 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCC
Q 014576 66 DTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQD 145 (422)
Q Consensus 66 ~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D 145 (422)
+..++.++.+.+..++. ..+...+|.++...|+|++|.+.++...- ..+. ...++.-++++-+.|+
T Consensus 311 ~~al~~~e~~lk~~P~~-------~~l~l~lgrl~~~~~~~~~A~~~le~al~-----~~P~--~~~~~~La~~~~~~g~ 376 (398)
T PRK10747 311 EQLEKVLRQQIKQHGDT-------PLLWSTLGQLLMKHGEWQEASLAFRAALK-----QRPD--AYDYAWLADALDRLHK 376 (398)
T ss_pred HHHHHHHHHHHhhCCCC-------HHHHHHHHHHHHHCCCHHHHHHHHHHHHh-----cCCC--HHHHHHHHHHHHHcCC
Confidence 34455555555444442 56789999999999999999998887442 1122 2336678899999999
Q ss_pred HHHHHHHHHHhccc
Q 014576 146 YVRAQILSRKISPR 159 (422)
Q Consensus 146 ~~~a~~~~~K~~~~ 159 (422)
...|..++++....
T Consensus 377 ~~~A~~~~~~~l~~ 390 (398)
T PRK10747 377 PEEAAAMRRDGLML 390 (398)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999988553
No 159
>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=52.52 E-value=56 Score=24.04 Aligned_cols=34 Identities=18% Similarity=0.121 Sum_probs=29.7
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
=..|+...||+.||+++.-+=..+.+|...|-+.
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 4679999999999999999999999999998663
No 160
>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=52.48 E-value=44 Score=23.16 Aligned_cols=30 Identities=27% Similarity=0.478 Sum_probs=25.0
Q ss_pred hhcccccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 331 KYYSRITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
.||..-|++.+|+.+|+|...|-....+.+
T Consensus 16 ~y~~~~t~~eIa~~lg~s~~~V~~~~~~al 45 (50)
T PF04545_consen 16 RYFEGLTLEEIAERLGISRSTVRRILKRAL 45 (50)
T ss_dssp HHTST-SHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred HhcCCCCHHHHHHHHCCcHHHHHHHHHHHH
Confidence 468999999999999999998888776654
No 161
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=52.46 E-value=4.4e+02 Score=31.86 Aligned_cols=134 Identities=14% Similarity=0.184 Sum_probs=86.3
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHHhhhcCcchHHHHHH
Q 014576 12 KAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLNSVSAGKIYVEIERA 90 (422)
Q Consensus 12 ~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~~~~~~ki~~E~era 90 (422)
++-.++...|.+.++++...+.+..+.||++|-++.-..-.+-.+ ...+.+--..++. +|..+-. + |..
T Consensus 1531 ~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl----~~ne~~aa~~lL~rAL~~lPk-~-----eHv 1600 (1710)
T KOG1070|consen 1531 TVHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLL----RQNEAEAARELLKRALKSLPK-Q-----EHV 1600 (1710)
T ss_pred HHHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHh----cccHHHHHHHHHHHHHhhcch-h-----hhH
Confidence 344455667778888888888888888888876554332222111 1111111222333 4443322 2 234
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccc
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVF 161 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~ 161 (422)
.+-.+.|.+-++.||-+.+-.++.++..+ .-.+.+++.--++.-+..+|...++.+..|+-.+.+
T Consensus 1601 ~~IskfAqLEFk~GDaeRGRtlfEgll~a------yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1601 EFISKFAQLEFKYGDAERGRTLFEGLLSA------YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred HHHHHHHHHHhhcCCchhhHHHHHHHHhh------CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence 46678888888999999888888876532 235677787777888888888888888888866544
No 162
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.45 E-value=31 Score=32.98 Aligned_cols=79 Identities=16% Similarity=0.235 Sum_probs=56.8
Q ss_pred hhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHH--HHHHHHHHHHh
Q 014576 330 SKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLE--KLLDLVEKSCH 407 (422)
Q Consensus 330 sk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~--~l~~~v~k~~~ 407 (422)
++--..|-|+.||..|||-.+++-.-+-+++.+|.+.|-||--...|...... -.+..++.++=. ++..+-++.+.
T Consensus 209 Ik~nKvV~ledLas~f~Lrtqd~inriq~~l~eg~ltGVmDDRGKfIYIS~eE--l~AVAkfIkqrGRVSIaelAe~SN~ 286 (299)
T KOG3054|consen 209 IKKNKVVPLEDLASEFGLRTQDSINRIQELLAEGLLTGVMDDRGKFIYISMEE--LAAVAKFIKQRGRVSIAELAEKSNQ 286 (299)
T ss_pred HHhcCeeeHHHHHHHhCccHHHHHHHHHHHHHhhhheeeecCCCceEEecHHH--HHHHHHHHHHcCceeHHHHHHhhcc
Confidence 34567899999999999999999999999999999999999999988875421 122333333221 23444455555
Q ss_pred hhh
Q 014576 408 QIH 410 (422)
Q Consensus 408 lI~ 410 (422)
||.
T Consensus 287 lI~ 289 (299)
T KOG3054|consen 287 LID 289 (299)
T ss_pred hhc
Confidence 554
No 163
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=52.10 E-value=38 Score=30.17 Aligned_cols=42 Identities=14% Similarity=0.082 Sum_probs=36.4
Q ss_pred hhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE---EEecc
Q 014576 330 SKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV---AKIDR 371 (422)
Q Consensus 330 sk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~---akIDq 371 (422)
-+-=.|++.+.||+.+|+|+.-+-+-+.+|..+|.|. |.+|.
T Consensus 23 Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~~~~v~p 67 (164)
T PRK11169 23 LQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQGYTALLNP 67 (164)
T ss_pred hccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEEEECH
Confidence 3456799999999999999999999999999999874 56773
No 164
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=51.48 E-value=1.7e+02 Score=33.48 Aligned_cols=103 Identities=15% Similarity=0.053 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
.-+-..||..|...||+..+..+....-.- +..+..+.+-+.-..|-|+..|||.+|..|+-.+....- +.+
T Consensus 270 P~~l~~LAn~fyfK~dy~~v~~la~~ai~~---t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~--d~~--- 341 (1018)
T KOG2002|consen 270 PVALNHLANHFYFKKDYERVWHLAEHAIKN---TENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADN--DNF--- 341 (1018)
T ss_pred cHHHHHHHHHHhhcccHHHHHHHHHHHHHh---hhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCC--CCc---
Confidence 345678999999999999999877653322 234557778788899999999999999999887755321 111
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
+. + +.-.++.+.+.+++-++..||..++.+.
T Consensus 342 --------~l-------~---------~~GlgQm~i~~~dle~s~~~fEkv~k~~ 372 (1018)
T KOG2002|consen 342 --------VL-------P---------LVGLGQMYIKRGDLEESKFCFEKVLKQL 372 (1018)
T ss_pred --------cc-------c---------ccchhHHHHHhchHHHHHHHHHHHHHhC
Confidence 10 0 0133467788999999999999999864
No 165
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=50.91 E-value=1.5e+02 Score=25.01 Aligned_cols=70 Identities=16% Similarity=0.212 Sum_probs=49.2
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHH-----HHHHHHHHHHHHHHHHH
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILN-----SWAMNLEKLLDLVEKSC 406 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~-----~W~~~I~~l~~~v~k~~ 406 (422)
..+...|++.+|+++.-+-..|.-|...|-|..+-+-. -+.|.-..+..+.+. .|....+.+-..+++++
T Consensus 30 ~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr--~~~Y~l~~~~~~~~~~~~~~~w~~~~~~l~~~l~~l~ 104 (117)
T PRK10141 30 ELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGK--WVHYRLSPHIPAWAAKIIEQAWLCEQEDVQAIVRNLA 104 (117)
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcC--EEEEEECchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47888999999999999999999999999998876643 333433222222222 47777776666666653
No 166
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=50.91 E-value=18 Score=34.02 Aligned_cols=74 Identities=22% Similarity=0.323 Sum_probs=54.5
Q ss_pred hhcccccHHHHHHHhCCC-HHHHHHHHHHHHhcCeEEEEeccCCcEE--EEcc-----CCChH---HHHHHHHHHHHHHH
Q 014576 331 KYYSRITLKRLAELLCLS-IQEAEKHLSDMVVSKALVAKIDRPQGIV--CFQV-----AKDSN---DILNSWAMNLEKLL 399 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls-~~e~E~~ls~mI~~~~i~akIDq~~giV--~F~~-----~~~~~---~~l~~W~~~I~~l~ 399 (422)
.+-+.|--.-|-.++.++ +-++|.++.+.+..+-+.|||||.+... .|.- +++-+ -.|.+|.+.-.+++
T Consensus 105 s~~k~lpy~~Ll~~l~~~nvrelEd~iieamya~IlrGkldqr~q~leV~faigRdlr~k~i~nm~~TL~~w~~~cenvL 184 (258)
T KOG3250|consen 105 SFEKCLPYLVLLRLLPSRNVRELEDLIIEAMYADILRGKLDQRNQTLEVDFAIGRDLRSKDIDNMKYTLDEWCEGCENVL 184 (258)
T ss_pred hhchhhhHHHHHhhccCCchhHHHHHHHHHHHHHHHHhhHHhhcceEeechhhcccccHhHHHHHHHHHHHHHHHHHHHH
Confidence 344455555666667764 6799999999999999999999999984 4432 22222 36899999888888
Q ss_pred HHHHH
Q 014576 400 DLVEK 404 (422)
Q Consensus 400 ~~v~k 404 (422)
-.|+.
T Consensus 185 ~~ie~ 189 (258)
T KOG3250|consen 185 FGIEA 189 (258)
T ss_pred HHHHh
Confidence 77764
No 167
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=50.85 E-value=3.4e+02 Score=29.04 Aligned_cols=184 Identities=15% Similarity=0.088 Sum_probs=102.9
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHhhhh----hhHHHH-HHHHHHHHHhhhcCCCCHHHHHHHHH-HHH--hhhcCcch
Q 014576 13 AVTEILQLCFEAKDWKTLNEQIVNLSKKR----GQLKQA-VTAMVQQAMQYIDQTPDLDTRIELIK-TLN--SVSAGKIY 84 (422)
Q Consensus 13 ~~~~i~~~~~~~~~~~~l~~~i~~l~k~~----~qlk~a-i~~~v~~~~~~l~~~~~~~~~~~li~-tL~--~~~~~ki~ 84 (422)
.+..+..+|...++|+.-...+..-..-| |----+ .+-+++-+.-|..+.+=.+.+. .++ +++ +...|.-.
T Consensus 243 ~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~-~~e~Al~I~~~~~~~~~ 321 (508)
T KOG1840|consen 243 MLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEE-YCERALEIYEKLLGASH 321 (508)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHH-HHHHHHHHHHHhhccCh
Confidence 34456666666666666555444322111 222122 2234444444544433222222 233 222 11222222
Q ss_pred HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhc-cCchH--HHHHHHHHHHHHHhccCCHHHHHHHHHHhccccc
Q 014576 85 VEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFG-AMAKT--EKIAFILEQVRLCLDRQDYVRAQILSRKISPRVF 161 (422)
Q Consensus 85 ~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~-~~~~~--eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~ 161 (422)
.+.+..-..++-+++..|++++|.++++. .++-+. .+... .-..+.-...++|+..|.+..|..+.++|-.+.-
T Consensus 322 --~~v~~~l~~~~~~~~~~~~~Eea~~l~q~-al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~ 398 (508)
T KOG1840|consen 322 --PEVAAQLSELAAILQSMNEYEEAKKLLQK-ALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILR 398 (508)
T ss_pred --HHHHHHHHHHHHHHHHhcchhHHHHHHHH-HHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH
Confidence 34566667889999999999999999984 223331 22222 3444566678999999999999999999977653
Q ss_pred cCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Q 014576 162 DADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE 222 (422)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~ 222 (422)
..... ....-.+++..++.-+...+.|-+|.+.|.+..+
T Consensus 399 ~~~~~----------------------~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~ 437 (508)
T KOG1840|consen 399 ELLGK----------------------KDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD 437 (508)
T ss_pred hcccC----------------------cChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence 32211 1112224555556555667777788888777665
No 168
>PHA02943 hypothetical protein; Provisional
Probab=50.02 E-value=1.1e+02 Score=27.21 Aligned_cols=87 Identities=15% Similarity=0.098 Sum_probs=57.2
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHHHH-------HHH
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLV-------EKS 405 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~~v-------~k~ 405 (422)
.-.-|.+++|+.+|+|-.+++-.|--+=.+|.+.- +-+..-.+.+-.++.....+++.-..+-.++..= ...
T Consensus 22 ~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~Vkr-V~~G~~tyw~l~~day~~~v~~~~Relwrlv~s~~~kfi~p~~l 100 (165)
T PHA02943 22 DGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLK-VEIGRAAIWCLDEDAYTNLVFEIKRELWRLVCNSRLKFITPSRL 100 (165)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEE-EeecceEEEEEChHHHHHHHHHHHHHHHHHHHhccccccChHHH
Confidence 45668899999999999999999999999999864 4455555555544322233333333333332211 235
Q ss_pred HhhhhhHHHhhhhcc
Q 014576 406 CHQIHKETMVHKTAL 420 (422)
Q Consensus 406 ~~lI~ke~~~~~~~~ 420 (422)
-+||.|+.-+|++..
T Consensus 101 ~~li~kd~~a~~~~a 115 (165)
T PHA02943 101 LRLIAKDTEAHNIFA 115 (165)
T ss_pred HHHHHhCHHHHHHHH
Confidence 678888888877654
No 169
>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=49.93 E-value=49 Score=22.74 Aligned_cols=33 Identities=27% Similarity=0.303 Sum_probs=29.0
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
...+...|++.+|++...+-..|..|...|-+.
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 170
>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=49.30 E-value=3.8e+02 Score=29.12 Aligned_cols=107 Identities=17% Similarity=0.108 Sum_probs=70.8
Q ss_pred HHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHh-ccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCC
Q 014576 106 IAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCL-DRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPA 184 (422)
Q Consensus 106 ~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l-~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (422)
+.-|.+.|+-+-- ...++++......|+.+++++ +..|+..|+.++.|+....-.
T Consensus 37 I~~ai~CL~~~~~--~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~---------------------- 92 (608)
T PF10345_consen 37 IATAIKCLEAVLK--QFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCER---------------------- 92 (608)
T ss_pred HHHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc----------------------
Confidence 5667777777553 247889999999999999988 789999999999988654321
Q ss_pred CccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHH
Q 014576 185 DIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKI 240 (422)
Q Consensus 185 ~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~ 240 (422)
.+..|+|....-+.++++...+-.. |.+.-.+..+...-.. ...|..+++.+
T Consensus 93 --~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~-~~~w~~~frll 144 (608)
T PF10345_consen 93 --HRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYG-HSAWYYAFRLL 144 (608)
T ss_pred --cchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccC-chhHHHHHHHH
Confidence 2456888887777777766655444 5555555443221111 12566666654
No 171
>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=49.17 E-value=61 Score=31.86 Aligned_cols=65 Identities=17% Similarity=0.118 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhc
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKIS 157 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~ 157 (422)
..-..+|.++...|++++|...++...... .. +.......+...+++++..||+..|...++++.
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 456789999999999999999988754211 11 233445567778999999999999999999873
No 172
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=48.88 E-value=46 Score=28.77 Aligned_cols=47 Identities=13% Similarity=0.101 Sum_probs=40.5
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEcc
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQV 380 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~ 380 (422)
..++.+.||+.+|+|..-+.+.+..|...|-+..+=-+..|+....+
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 46899999999999999999999999999999887777777755443
No 173
>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=48.75 E-value=27 Score=28.71 Aligned_cols=35 Identities=26% Similarity=0.377 Sum_probs=33.6
Q ss_pred hhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 331 KYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
|...+|+.+.++++.|+++..+.+.+..+|..|.|
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 67889999999999999999999999999999988
No 174
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=48.67 E-value=29 Score=29.79 Aligned_cols=60 Identities=23% Similarity=0.310 Sum_probs=47.7
Q ss_pred hhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE-EEEccCCChHHHHHHHHHHHHHH
Q 014576 330 SKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI-VCFQVAKDSNDILNSWAMNLEKL 398 (422)
Q Consensus 330 sk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi-V~F~~~~~~~~~l~~W~~~I~~l 398 (422)
.+-=-++|+..+...+|++-.-+..++.+||..|.|+- .|. =.|.+ +.+..+|.+.-.++
T Consensus 21 VRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~-----~G~~GvF~s----eqA~~dw~~~~~~~ 81 (127)
T PF06163_consen 21 VREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLYR-----HGRSGVFPS----EQARKDWDKARKKL 81 (127)
T ss_pred HHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEe-----CCCcccccc----HHHHHHHHHhHHhh
Confidence 34457899999999999999999999999999998864 222 24532 36788998888777
No 175
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.31 E-value=3.2e+02 Score=27.93 Aligned_cols=127 Identities=16% Similarity=0.200 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH-HHHhhhcCcchHHHHHHHHHHHHHHHHHHhcc
Q 014576 27 WKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK-TLNSVSAGKIYVEIERARLIKKLAKIKEEQGL 105 (422)
Q Consensus 27 ~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~-tL~~~~~~ki~~E~era~l~~~La~i~e~~g~ 105 (422)
-+...+.+..|-.+..-+|......++.-...++.+ ..++.+++ .+..-++ .-+-+-.|.++.+.++...+..|-
T Consensus 56 ~d~~~~~id~Li~kv~~~krk~e~~iq~e~~~~~~i---ksRid~m~e~~~~d~~-~~~~~w~r~~l~r~vvdhmlr~gy 131 (389)
T KOG0396|consen 56 LDSTVSLIDRLIRKVQCLKRKLEEYIQSEEEQLKRI---KSRIDFMHEEISSDTP-ANSRKWPRNKLDRFVVDHMLRNGY 131 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhcccCc-hHHHHhHHHHHHHHHHHHHHHcCc
Confidence 555666666666666666666665555333333221 12233333 1111111 112334578999999999999999
Q ss_pred HHHHHHHHHHHHHHhhc------cC---------------------------chHHHHHHHHHHHHH--HhccCCHHHHH
Q 014576 106 IAEAADLMQEVAVETFG------AM---------------------------AKTEKIAFILEQVRL--CLDRQDYVRAQ 150 (422)
Q Consensus 106 ~~eAa~iL~~l~vEt~~------~~---------------------------~~~eK~e~~Le~~rL--~l~~~D~~~a~ 150 (422)
|+.|..+..+.++|..- .+ ....++|+-+++=+. .++.+++.+|-
T Consensus 132 ~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai 211 (389)
T KOG0396|consen 132 FGAAVLLGKKSQLEDLVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAI 211 (389)
T ss_pred hhHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHH
Confidence 99999998888877321 11 011234444444322 56778999999
Q ss_pred HHHHHhc
Q 014576 151 ILSRKIS 157 (422)
Q Consensus 151 ~~~~K~~ 157 (422)
.+.+|=-
T Consensus 212 ~~akk~f 218 (389)
T KOG0396|consen 212 AFAKKHF 218 (389)
T ss_pred HHHHHHH
Confidence 8888753
No 176
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=48.13 E-value=4.2e+02 Score=29.32 Aligned_cols=81 Identities=15% Similarity=0.194 Sum_probs=57.1
Q ss_pred HHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHH
Q 014576 74 TLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILS 153 (422)
Q Consensus 74 tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~ 153 (422)
+..++.+.+-- .--.+|--.+|++|+..|+++.|-.++..-..=.|+ .-.+..++++.-+.+-+..+++..|-.+.
T Consensus 373 Av~~vdP~ka~--Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~--~v~dLa~vw~~waemElrh~~~~~Al~lm 448 (835)
T KOG2047|consen 373 AVKTVDPKKAV--GSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK--TVEDLAEVWCAWAEMELRHENFEAALKLM 448 (835)
T ss_pred HHHccCcccCC--CChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc--chHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence 55555554320 003567788999999999999999887652211222 22356778888888899999999999998
Q ss_pred HHhcc
Q 014576 154 RKISP 158 (422)
Q Consensus 154 ~K~~~ 158 (422)
+++..
T Consensus 449 ~~A~~ 453 (835)
T KOG2047|consen 449 RRATH 453 (835)
T ss_pred Hhhhc
Confidence 88854
No 177
>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=48.11 E-value=73 Score=23.19 Aligned_cols=40 Identities=18% Similarity=0.130 Sum_probs=31.1
Q ss_pred hhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEec
Q 014576 331 KYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKID 370 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akID 370 (422)
.....+++..|++.++++...+-+.+.+|+..|-|.=.=|
T Consensus 14 ~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~ 53 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERD 53 (68)
T ss_dssp --TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE
T ss_pred ccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCC
Confidence 4678899999999999999999999999999998854433
No 178
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=47.75 E-value=60 Score=28.66 Aligned_cols=50 Identities=14% Similarity=0.066 Sum_probs=38.9
Q ss_pred HHHHhhhcc-cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE
Q 014576 326 ILVVSKYYS-RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI 375 (422)
Q Consensus 326 i~~isk~Ys-~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi 375 (422)
+..++.... .++.+.||+..++|+..+++.+..|...|-|...==...|+
T Consensus 14 L~~LA~~~~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy 64 (153)
T PRK11920 14 LMYCAANDGKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGV 64 (153)
T ss_pred HHHHHhCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCe
Confidence 333443333 47999999999999999999999999999887765555554
No 179
>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=47.54 E-value=79 Score=23.12 Aligned_cols=37 Identities=16% Similarity=0.119 Sum_probs=30.7
Q ss_pred hhcccc-cHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 331 KYYSRI-TLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 331 k~Ys~I-sl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
++=+++ +...||+.+|+|..-+-+.+..|..+|-+.-
T Consensus 19 ~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 19 PPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIER 56 (64)
T ss_dssp -TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEE
Confidence 344789 9999999999999999999999999998754
No 180
>PF13730 HTH_36: Helix-turn-helix domain
Probab=47.45 E-value=29 Score=24.54 Aligned_cols=29 Identities=14% Similarity=0.213 Sum_probs=26.6
Q ss_pred cHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 337 TLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 337 sl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
|.+.||+.+|++..-+.+.+..++..|-|
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 79999999999999999999999988743
No 181
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=47.37 E-value=1.3e+02 Score=33.25 Aligned_cols=143 Identities=15% Similarity=0.102 Sum_probs=90.5
Q ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHH-----HHhhccCchHHHHHHHHHH-------HHHHhccCCHHHHHHHHHHh
Q 014576 89 RARLIKKLAKIKEEQGLIAEAADLMQEVA-----VETFGAMAKTEKIAFILEQ-------VRLCLDRQDYVRAQILSRKI 156 (422)
Q Consensus 89 ra~l~~~La~i~e~~g~~~eAa~iL~~l~-----vEt~~~~~~~eK~e~~Le~-------~rL~l~~~D~~~a~~~~~K~ 156 (422)
+..+...||.++.+-|=..+|..+...+. ++||..+....|.+-++.| .|+|-..||...=..+..|+
T Consensus 397 ~Wq~q~~laell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEka 476 (777)
T KOG1128|consen 397 IWQLQRLLAELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKA 476 (777)
T ss_pred cchHHHHHHHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHH
Confidence 36688899999999999999999888775 3556666677888888777 47888888866555555555
Q ss_pred ccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCCh------
Q 014576 157 SPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDP------ 230 (422)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~------ 230 (422)
...+-. .-.|-++ +.+.....+++|-++-+++...+...+.+.+.
T Consensus 477 wElsn~---------------------------~sarA~r--~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~ 527 (777)
T KOG1128|consen 477 WELSNY---------------------------ISARAQR--SLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGC 527 (777)
T ss_pred HHHhhh---------------------------hhHHHHH--hhccccccchhHHHHHHHHHHHhhcCccchhHHHhccH
Confidence 432100 0011111 11122334678888888887777654443221
Q ss_pred -----hhHHHHHHHHHHHHHhCCCChhhhHHhhhh
Q 014576 231 -----AQWMPVLRKICWYLVLAPHDPMQSSLLNST 260 (422)
Q Consensus 231 -----~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~ 260 (422)
.++..+.+.+-.|+=|.|...+-..=+...
T Consensus 528 ~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~a 562 (777)
T KOG1128|consen 528 AALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTA 562 (777)
T ss_pred HHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHH
Confidence 244556777778888888766555444443
No 182
>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=46.65 E-value=36 Score=24.64 Aligned_cols=29 Identities=41% Similarity=0.584 Sum_probs=24.0
Q ss_pred hcc---cccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 332 YYS---RITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 332 ~Ys---~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
||. .++++.||+.||+|+.-+...|.+..
T Consensus 17 Yfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 17 YFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred CCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 565 89999999999999988877776543
No 183
>PRK10870 transcriptional repressor MprA; Provisional
Probab=44.59 E-value=1.3e+02 Score=26.99 Aligned_cols=40 Identities=13% Similarity=0.020 Sum_probs=37.1
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
.++...||+.++++..-+=+.+.+|+..|-|.=.-|..++
T Consensus 71 ~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~Dr 110 (176)
T PRK10870 71 SIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDR 110 (176)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCC
Confidence 5889999999999999999999999999999888887776
No 184
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=44.35 E-value=1.5e+02 Score=23.08 Aligned_cols=42 Identities=19% Similarity=0.138 Sum_probs=33.7
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
-..++|+.|.+.+|+|...+-+.+..|...|-|..+-.-.++
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 467999999999999999999999999999999766554433
No 185
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=42.77 E-value=65 Score=23.83 Aligned_cols=39 Identities=18% Similarity=0.124 Sum_probs=34.0
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEecc
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDR 371 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq 371 (422)
....+.+.||+.+|+|...+-+.|..|...|-+.-.-.+
T Consensus 20 ~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~~~ 58 (68)
T PF01978_consen 20 NGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREEGR 58 (68)
T ss_dssp HCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEEEC
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCc
Confidence 456899999999999999999999999999988655444
No 186
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=42.22 E-value=2.2e+02 Score=24.36 Aligned_cols=42 Identities=14% Similarity=0.120 Sum_probs=39.0
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI 375 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi 375 (422)
..++.+.||+.+++++.-+=+.+.+|+..|-|.=.-|..++-
T Consensus 53 ~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR 94 (144)
T PRK11512 53 ACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKR 94 (144)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCC
Confidence 469999999999999999999999999999999998888873
No 187
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=42.17 E-value=1.8e+02 Score=26.42 Aligned_cols=65 Identities=11% Similarity=0.076 Sum_probs=43.4
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEecc--CCcEEEEccCCChHHHHHHHHHHHHHHH
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDR--PQGIVCFQVAKDSNDILNSWAMNLEKLL 399 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq--~~giV~F~~~~~~~~~l~~W~~~I~~l~ 399 (422)
-+|-+.||..||++..++-+.|..|-.+|-+..+-=+ ..|-..+-+.-+...+...-...+..+.
T Consensus 36 ~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~~~~i~d~ik~~~~~~~ 102 (178)
T PRK06266 36 EVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTWKPELEKLPEIIKKKKMEEL 102 (178)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeCHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999999999988643322 3454444443333344333333344433
No 188
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=41.78 E-value=57 Score=30.11 Aligned_cols=45 Identities=18% Similarity=0.118 Sum_probs=38.0
Q ss_pred HHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEec
Q 014576 326 ILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKID 370 (422)
Q Consensus 326 i~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akID 370 (422)
+..+++.+...|.+.+|+.||+|+.-++.+++.+...|.+...++
T Consensus 168 l~~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~~ 212 (225)
T PRK10046 168 RKLFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEIV 212 (225)
T ss_pred HHHHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEee
Confidence 445566666678999999999999999999999999999866554
No 189
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=41.62 E-value=1.9e+02 Score=23.55 Aligned_cols=41 Identities=12% Similarity=0.155 Sum_probs=36.8
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
..++.+.||..++++..-+=+.+..|+..|-|.=.-|..++
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~ 82 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDE 82 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccC
Confidence 45999999999999999999999999999999866666665
No 190
>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=41.11 E-value=1e+02 Score=30.16 Aligned_cols=39 Identities=15% Similarity=0.246 Sum_probs=34.7
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccC
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRP 372 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~ 372 (422)
-.|+++.||+.+++|.+.+-..+......+.|+|++|..
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 679999999999999999996666668888999999988
No 191
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=41.00 E-value=69 Score=26.98 Aligned_cols=49 Identities=27% Similarity=0.229 Sum_probs=39.3
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE--EEeccCCc-EEEEccC
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV--AKIDRPQG-IVCFQVA 381 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~--akIDq~~g-iV~F~~~ 381 (422)
-..|+++.||+.|..|+-.+-..|-+|...|-|. +..=|.+. .++|..+
T Consensus 17 ~~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~~ 68 (115)
T PF12793_consen 17 PVEVTLDELAELLFCSRRNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLKS 68 (115)
T ss_pred CcceeHHHHHHHhCCCHHHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEeeC
Confidence 3478999999999999999999999999999884 44444444 5777643
No 192
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=40.41 E-value=5.8e+02 Score=28.67 Aligned_cols=59 Identities=15% Similarity=0.098 Sum_probs=39.7
Q ss_pred HHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHH
Q 014576 137 VRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRC 216 (422)
Q Consensus 137 ~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~ 216 (422)
+.|++..+||-+.-.+++--..- ...+.+-.=...++.++..-..+.+|+++
T Consensus 767 ielr~klgDwfrV~qL~r~g~~d----------------------------~dD~~~e~A~r~ig~~fa~~~~We~A~~y 818 (1189)
T KOG2041|consen 767 IELRKKLGDWFRVYQLIRNGGSD----------------------------DDDEGKEDAFRNIGETFAEMMEWEEAAKY 818 (1189)
T ss_pred HHHHHhhhhHHHHHHHHHccCCC----------------------------cchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777889998888877632210 11133333345667888888899999999
Q ss_pred HHHHhhc
Q 014576 217 YKAIYEI 223 (422)
Q Consensus 217 y~e~~~~ 223 (422)
|-.-.++
T Consensus 819 Y~~~~~~ 825 (1189)
T KOG2041|consen 819 YSYCGDT 825 (1189)
T ss_pred HHhccch
Confidence 9887765
No 193
>PLN03077 Protein ECB2; Provisional
Probab=39.81 E-value=6e+02 Score=28.69 Aligned_cols=30 Identities=10% Similarity=0.080 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Q 014576 9 GTKKAVTEILQLCFEAKDWKTLNEQIVNLS 38 (422)
Q Consensus 9 s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~ 38 (422)
+..-+...+++.|.+.|+++...+.+..+.
T Consensus 422 ~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~ 451 (857)
T PLN03077 422 SYVVVANALIEMYSKCKCIDKALEVFHNIP 451 (857)
T ss_pred cchHHHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence 334456677888888888888887776654
No 194
>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=39.78 E-value=71 Score=23.18 Aligned_cols=37 Identities=22% Similarity=0.210 Sum_probs=32.3
Q ss_pred hhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 331 KYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
.--...++..||+.+|+++.-+-..|..|...|-|..
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 4578899999999999999999999999999997754
No 195
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=39.69 E-value=2.2e+02 Score=23.72 Aligned_cols=80 Identities=16% Similarity=0.229 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHhcC--HHHHHHHHHHHh----hhhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchH
Q 014576 12 KAVTEILQLCFEAKD--WKTLNEQIVNLS----KKRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYV 85 (422)
Q Consensus 12 ~~~~~i~~~~~~~~~--~~~l~~~i~~l~----k~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~ 85 (422)
+....|.++....++ ++.+.+.+..+. .+... +.......+++.+|+...-+.+.|..+.+.+..-.+|+|-+
T Consensus 10 ~~y~~lg~~va~~~~~~~~~~~~~Y~~~l~~al~~~~~-~~~~~Nvl~Hi~Gyfk~~ls~~EK~~~~~~i~~yr~g~i~l 88 (117)
T PF08349_consen 10 KIYRELGRLVANAGKRPLEEVFEEYEELLMEALSKPPT-RGSHINVLQHIFGYFKKKLSSEEKQHFLDLIEDYREGKIPL 88 (117)
T ss_pred HHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHcCCccH
Confidence 445566666666544 455555443322 11111 23344566778888888777888999999999999999888
Q ss_pred HHHHHHH
Q 014576 86 EIERARL 92 (422)
Q Consensus 86 E~era~l 92 (422)
.+-...|
T Consensus 89 ~~~l~~L 95 (117)
T PF08349_consen 89 SVPLTLL 95 (117)
T ss_pred HHHHHHH
Confidence 6655444
No 196
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=39.67 E-value=65 Score=27.80 Aligned_cols=37 Identities=24% Similarity=0.272 Sum_probs=34.0
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeE---EEEecc
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKAL---VAKIDR 371 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i---~akIDq 371 (422)
++++..||+.+|+|+..+-.-+-+|..+|-| .+.+|.
T Consensus 22 r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 22 RISNAELAERVGLSPSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeEEEEECH
Confidence 4999999999999999999999999999966 678886
No 197
>PF11873 DUF3393: Domain of unknown function (DUF3393); InterPro: IPR024570 Membrane-bound lytic murein transglycosylase C (also known as murein hydrolase C), is a murein-degrading enzyme that may play a role in the recycling of muropeptides during cell elongation and/or cell division. This entry represents the N-terminal domain, whose function is currently not known.
Probab=39.65 E-value=24 Score=33.00 Aligned_cols=63 Identities=24% Similarity=0.276 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHHHhcccccccchhhHHHHHHHhh
Q 014576 234 MPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLKQLVTMEVIQWTSLWNTYKDEFE 299 (422)
Q Consensus 234 ~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k~f~~~eli~~~~~~~~y~~~l~ 299 (422)
...|+.||+-++|+|.+|...|+.+. ++..++.-|++...+.-..+ .-|+|+--...|++.|-
T Consensus 110 ~~~Lk~AIv~TLL~~~Dp~~vDl~Sd--~~i~l~g~PFLygqVlD~~g-~~I~~~wRA~ryAdYLi 172 (204)
T PF11873_consen 110 KAHLKQAIVTTLLTPDDPSSVDLFSD--KDIPLSGEPFLYGQVLDQDG-QPIRWEWRANRYADYLI 172 (204)
T ss_pred HHHHHHHHHHHhcCCCCCccccCccC--CCCccCCCceehheeecCCC-CeEeeHhHHHHHHHHHH
Confidence 67899999999999999999988875 45557778887666666654 67899876688988875
No 198
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=39.32 E-value=77 Score=34.83 Aligned_cols=45 Identities=18% Similarity=0.137 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCccccc
Q 014576 130 IAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEE 181 (422)
Q Consensus 130 ~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (422)
..++|+-+|+-+..|+...|+....|+.+...+.. .-|+++|...
T Consensus 753 ~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg-------~LWaEaI~le 797 (913)
T KOG0495|consen 753 ALLWLESIRMELRAGNKEQAELLMAKALQECPSSG-------LLWAEAIWLE 797 (913)
T ss_pred chhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccc-------hhHHHHHHhc
Confidence 45788888999999999999999999988653321 2366666543
No 199
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=39.31 E-value=6.6e+02 Score=29.02 Aligned_cols=125 Identities=13% Similarity=0.171 Sum_probs=72.1
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
......|...+...|++++|..++.+-. +.. ...+++++-..-|++..+++..+-.. ++...+.. .
T Consensus 31 ~~a~~~Li~~~~~~~~~deai~i~~~~l-~~~-----P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~-~----- 96 (906)
T PRK14720 31 FKELDDLIDAYKSENLTDEAKDICEEHL-KEH-----KKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQ-N----- 96 (906)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHH-HhC-----CcceehHHHHHHHHHhhcchhhhhhh--hhhhhccc-c-----
Confidence 5578899999999999999999988533 222 12334444444488888887666655 33332211 1
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhh-------------ccHHHHHHHHHHHhhcCCCCCChhhHHHH
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHN-------------NDYLEICRCYKAIYEIPYIKEDPAQWMPV 236 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~-------------~~y~ea~~~y~e~~~~~~~~~d~~~~~~~ 236 (422)
.+| ..---|+.++..++.+. +++-+|...|.++.... |.. ..+
T Consensus 97 --~~~----------------~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-----~~n-~~a 152 (906)
T PRK14720 97 --LKW----------------AIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-----RDN-PEI 152 (906)
T ss_pred --cch----------------hHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----ccc-HHH
Confidence 112 12222444444544444 77777777777777643 222 346
Q ss_pred HHHHHHHHHhCCCChhhh
Q 014576 237 LRKICWYLVLAPHDPMQS 254 (422)
Q Consensus 237 L~~~v~~~ILa~~~~~rs 254 (422)
|.+..++.-.. +.+++
T Consensus 153 LNn~AY~~ae~--dL~KA 168 (906)
T PRK14720 153 VKKLATSYEEE--DKEKA 168 (906)
T ss_pred HHHHHHHHHHh--hHHHH
Confidence 66665555555 44444
No 200
>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=39.16 E-value=1.1e+02 Score=23.59 Aligned_cols=43 Identities=23% Similarity=0.180 Sum_probs=36.3
Q ss_pred HHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEE
Q 014576 324 HNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAK 368 (422)
Q Consensus 324 hNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ak 368 (422)
.-+.++|+- ++|++.|-+-.|++...+-..|++|-..|.|.=+
T Consensus 9 ~IL~~ls~~--c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~Rk 51 (72)
T PF05584_consen 9 KILIILSKR--CCTLEELEEKTGISKNTLLVYLSRLAKRGIIERK 51 (72)
T ss_pred HHHHHHHhc--cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeeee
Confidence 334555555 9999999999999999999999999999988543
No 201
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.90 E-value=4.2e+02 Score=28.87 Aligned_cols=133 Identities=23% Similarity=0.164 Sum_probs=80.4
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHh-------hhhhhHHHHHHHHHHHHHhhhcCCCC----HHHHHHHHHHHHhhh
Q 014576 11 KKAVTEILQLCFEAKDWKTLNEQIVNLS-------KKRGQLKQAVTAMVQQAMQYIDQTPD----LDTRIELIKTLNSVS 79 (422)
Q Consensus 11 ~~~~~~i~~~~~~~~~~~~l~~~i~~l~-------k~~~qlk~ai~~~v~~~~~~l~~~~~----~~~~~~li~tL~~~~ 79 (422)
+-++..++++.+.+|+|+..++.+..+. -..+.+-..|..+|. ....+.+ .++..+-+.-++.-.
T Consensus 376 ~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~----l~~~~~~~~~a~~vl~~Ai~~~~~~~ 451 (652)
T KOG2376|consen 376 KVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVA----LYYKIKDNDSASAVLDSAIKWWRKQQ 451 (652)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHH----HHHhccCCccHHHHHHHHHHHHHHhc
Confidence 4466788999999999999987776211 122222233333332 2222332 344555566666555
Q ss_pred cCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 80 AGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 80 ~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
.+++- -..+...+|.+.+..|+-++|...|++|-- ..+...+ - |-+.=..+..=|..+|..++++.-+
T Consensus 452 t~s~~----l~~~~~~aa~f~lr~G~~~ea~s~leel~k-~n~~d~~-~-----l~~lV~a~~~~d~eka~~l~k~L~p 519 (652)
T KOG2376|consen 452 TGSIA----LLSLMREAAEFKLRHGNEEEASSLLEELVK-FNPNDTD-L-----LVQLVTAYARLDPEKAESLSKKLPP 519 (652)
T ss_pred ccchH----HHhHHHHHhHHHHhcCchHHHHHHHHHHHH-hCCchHH-H-----HHHHHHHHHhcCHHHHHHHhhcCCC
Confidence 55522 245678899999999999999999999863 2221111 1 1111124455688899999888755
No 202
>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=38.86 E-value=42 Score=23.54 Aligned_cols=29 Identities=21% Similarity=0.486 Sum_probs=22.2
Q ss_pred hhcccccHHHHHHHhCCCHHHHHHHHHHH
Q 014576 331 KYYSRITLKRLAELLCLSIQEAEKHLSDM 359 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~E~~ls~m 359 (422)
.|+...+...+|+.+|+|+..+...+.+-
T Consensus 22 ~~~~g~s~~eIa~~l~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 22 RYFQGMSYAEIAEILGISESTVKRRLRRA 50 (54)
T ss_dssp HHTS---HHHHHHHCTS-HHHHHHHHHHH
T ss_pred HHHHCcCHHHHHHHHCcCHHHHHHHHHHH
Confidence 58899999999999999999999888764
No 203
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=38.57 E-value=1.9e+02 Score=24.81 Aligned_cols=33 Identities=15% Similarity=0.199 Sum_probs=29.9
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
..++++.||+.+++++.-+=..|..|...|-|.
T Consensus 21 ~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 21 GYARVSDIAEALSVHPSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred CCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEE
Confidence 445889999999999999999999999999876
No 204
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=38.30 E-value=1.2e+02 Score=22.02 Aligned_cols=56 Identities=16% Similarity=0.124 Sum_probs=41.4
Q ss_pred HHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHH
Q 014576 138 RLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCY 217 (422)
Q Consensus 138 rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y 217 (422)
.+|+..+||..|..++.++...... +. ..+...+..+...++|-+|...|
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p~----------------------------~~--~~~~~~a~~~~~~g~~~~A~~~l 52 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDPD----------------------------DP--ELWLQRARCLFQLGRYEEALEDL 52 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCcc----------------------------cc--hhhHHHHHHHHHhccHHHHHHHH
Confidence 5788999999999999998664211 11 12345667888899999999988
Q ss_pred HHHhhc
Q 014576 218 KAIYEI 223 (422)
Q Consensus 218 ~e~~~~ 223 (422)
..+..-
T Consensus 53 ~~~l~~ 58 (73)
T PF13371_consen 53 ERALEL 58 (73)
T ss_pred HHHHHH
Confidence 888863
No 205
>PF12964 DUF3853: Protein of unknown function (DUF3853); InterPro: IPR024363 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=37.53 E-value=25 Score=28.65 Aligned_cols=41 Identities=20% Similarity=0.171 Sum_probs=35.2
Q ss_pred cHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccC
Q 014576 337 TLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVA 381 (422)
Q Consensus 337 sl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~ 381 (422)
-++.||++||.|..- ++++..+|.|+--|=|..+.|.|+..
T Consensus 47 G~~GlAklfgcSv~T----a~RiK~sG~id~AI~Q~Gr~IivD~~ 87 (96)
T PF12964_consen 47 GLKGLAKLFGCSVPT----ANRIKKSGKIDPAITQIGRKIIVDAD 87 (96)
T ss_pred hHHHHHHHhCCCchh----HHHHHhcCCccHHHHHcCCEEEEeHH
Confidence 478899999999874 57788899999999999999999854
No 206
>PF12854 PPR_1: PPR repeat
Probab=37.09 E-value=37 Score=21.70 Aligned_cols=23 Identities=26% Similarity=0.310 Sum_probs=18.9
Q ss_pred HHHHHHHHHhccHHHHHHHHHHH
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEV 116 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l 116 (422)
-.|-+-|.+.|++++|.+++.++
T Consensus 11 ~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 11 NTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhC
Confidence 34667788999999999998874
No 207
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=37.04 E-value=92 Score=21.23 Aligned_cols=29 Identities=31% Similarity=0.405 Sum_probs=25.0
Q ss_pred hcccccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 332 YYSRITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
++...+...+|+.+|+|+.-+...+.++.
T Consensus 15 ~~~g~s~~eia~~l~is~~tv~~~~~~~~ 43 (58)
T smart00421 15 LAEGLTNKEIAERLGISEKTVKTHLSNIM 43 (58)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 35677999999999999999999988763
No 208
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.80 E-value=1.6e+02 Score=28.60 Aligned_cols=85 Identities=20% Similarity=0.135 Sum_probs=68.2
Q ss_pred HHH-HHHhhhcCcchHHHHH---------------HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHH-HHH
Q 014576 71 LIK-TLNSVSAGKIYVEIER---------------ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKI-AFI 133 (422)
Q Consensus 71 li~-tL~~~~~~ki~~E~er---------------a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~-e~~ 133 (422)
+++ .+.-+..|+ |.+.+- ......|++.+...|++++|+.+...+.- ..++.-|. |-+
T Consensus 144 ~Y~~A~~~~ksgd-y~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k----~~P~s~KApdal 218 (262)
T COG1729 144 LYNAALDLYKSGD-YAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVK----DYPKSPKAPDAL 218 (262)
T ss_pred HHHHHHHHHHcCC-HHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHH----hCCCCCCChHHH
Confidence 566 777788888 665444 56688999999999999999999988664 44666666 788
Q ss_pred HHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 134 LEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 134 Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
|......-..++...|..++..+...+
T Consensus 219 lKlg~~~~~l~~~d~A~atl~qv~k~Y 245 (262)
T COG1729 219 LKLGVSLGRLGNTDEACATLQQVIKRY 245 (262)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHHHHC
Confidence 888888888999999999988886655
No 209
>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=36.65 E-value=81 Score=19.38 Aligned_cols=24 Identities=21% Similarity=0.109 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHH
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQE 115 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~ 115 (422)
+-..+|.++...|++++|...++.
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~ 26 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQR 26 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCchHHHHHHHH
Confidence 445667777777777777765554
No 210
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=36.41 E-value=1.6e+02 Score=27.83 Aligned_cols=40 Identities=20% Similarity=0.260 Sum_probs=35.1
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCC
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQ 373 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~ 373 (422)
=.-+|...||+.||+|+.-+-+.+-+++.+|-+... .++.
T Consensus 23 ~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~-~~~~ 62 (218)
T COG2345 23 SGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVE-RQQG 62 (218)
T ss_pred cCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee-eccC
Confidence 456899999999999999999999999999988877 4444
No 211
>KOG2180 consensus Late Golgi protein sorting complex, subunit Vps53 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.25 E-value=6.5e+02 Score=28.09 Aligned_cols=111 Identities=9% Similarity=0.104 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCCC-H----HHHHHHHHHHHhhhcCcchH
Q 014576 11 KKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTPD-L----DTRIELIKTLNSVSAGKIYV 85 (422)
Q Consensus 11 ~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~~-~----~~~~~li~tL~~~~~~ki~~ 85 (422)
+..+..|=++......+..+-+.+..++..-+-+.+.+...|+.--+.-...+. + ..-.++.+.+.++.+..=-=
T Consensus 19 f~~v~~in~lfp~eqSL~~id~li~ki~~eir~~d~~l~~~Vr~q~N~g~~~~e~l~da~~ai~eL~~~i~eiks~ae~T 98 (793)
T KOG2180|consen 19 FNFVEYINELFPAEQSLTNIDSLIQKIQGEIRRVDKNLLAVVRTQENSGTRGKENLADAQAAIEELFQKIQEIKSVAEST 98 (793)
T ss_pred hhHHHHHHHhccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 344555555665656666666666666655555555555555533222211111 1 11123333333322222223
Q ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh
Q 014576 86 EIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF 121 (422)
Q Consensus 86 E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~ 121 (422)
|.-...+++...++=.+..++..+...|..|+.=+.
T Consensus 99 e~~V~eiTrdIKqLD~AKkNLTtSiT~L~~L~MLv~ 134 (793)
T KOG2180|consen 99 EAMVQEITRDIKQLDFAKKNLTTSITTLHRLHMLVT 134 (793)
T ss_pred HHHHHHHHHHHHhhhHHHhhHHHHHHHHHHHHHHHH
Confidence 555678888888888888999999999999887553
No 212
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=35.45 E-value=7.6e+02 Score=28.60 Aligned_cols=248 Identities=15% Similarity=0.108 Sum_probs=136.7
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHhh------------------hhhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHH
Q 014576 12 KAVTEILQLCFEAKDWKTLNEQIVNLSK------------------KRGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIK 73 (422)
Q Consensus 12 ~~~~~i~~~~~~~~~~~~l~~~i~~l~k------------------~~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~ 73 (422)
.-+-.+++.+...|+|+...-++..-.+ ++|.++.++ ...-..+.+.|+.-.-++++-
T Consensus 308 es~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~----~~fEkv~k~~p~~~etm~iLG 383 (1018)
T KOG2002|consen 308 ESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESK----FCFEKVLKQLPNNYETMKILG 383 (1018)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHH----HHHHHHHHhCcchHHHHHHHH
Confidence 3466778888888999888877775332 223332222 222223345555322222222
Q ss_pred HH------------------HhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHH
Q 014576 74 TL------------------NSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILE 135 (422)
Q Consensus 74 tL------------------~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le 135 (422)
.| .++++.. ..-.+....||.+||...-|.. ...+....-.-...+.. -=.++.=-
T Consensus 384 ~Lya~~~~~~~~~d~a~~~l~K~~~~~----~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~-ip~E~LNN 457 (1018)
T KOG2002|consen 384 CLYAHSAKKQEKRDKASNVLGKVLEQT----PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQ-IPPEVLNN 457 (1018)
T ss_pred hHHHhhhhhhHHHHHHHHHHHHHHhcc----cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCC-CCHHHHHh
Confidence 22 2222211 2236678899999998876665 65555433111111100 22344555
Q ss_pred HHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHH
Q 014576 136 QVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICR 215 (422)
Q Consensus 136 ~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~ 215 (422)
+.-+++..|++.+|.....++..+.....+. .++ +...+-++|-.. +...+-++|-.|..
T Consensus 458 vaslhf~~g~~~~A~~~f~~A~~~~~~~~n~--------de~----------~~~~lt~~YNla--rl~E~l~~~~~A~e 517 (1018)
T KOG2002|consen 458 VASLHFRLGNIEKALEHFKSALGKLLEVANK--------DEG----------KSTNLTLKYNLA--RLLEELHDTEVAEE 517 (1018)
T ss_pred HHHHHHHhcChHHHHHHHHHHhhhhhhhcCc--------ccc----------ccchhHHHHHHH--HHHHhhhhhhHHHH
Confidence 6788999999999999999887763221111 110 111233455544 88899999999999
Q ss_pred HHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChhHHHHHH-HhcccccccchhhHHHH
Q 014576 216 CYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPNFRLLLK-QLVTMEVIQWTSLWNTY 294 (422)
Q Consensus 216 ~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~~~~L~k-~f~~~eli~~~~~~~~y 294 (422)
.|.++..- .| -++.|.-.....+......++=+.+++....- ....|.-..|.- .|+.+ -.|....+.|
T Consensus 518 ~Yk~Ilke-----hp-~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~--d~~np~arsl~G~~~l~k--~~~~~a~k~f 587 (1018)
T KOG2002|consen 518 MYKSILKE-----HP-GYIDAYLRLGCMARDKNNLYEASLLLKDALNI--DSSNPNARSLLGNLHLKK--SEWKPAKKKF 587 (1018)
T ss_pred HHHHHHHH-----Cc-hhHHHHHHhhHHHHhccCcHHHHHHHHHHHhc--ccCCcHHHHHHHHHHHhh--hhhcccccHH
Confidence 99999862 23 33444333221222234455556666555431 245676666665 66654 3465555666
Q ss_pred HHHhh
Q 014576 295 KDEFE 299 (422)
Q Consensus 295 ~~~l~ 299 (422)
...+.
T Consensus 588 ~~i~~ 592 (1018)
T KOG2002|consen 588 ETILK 592 (1018)
T ss_pred HHHHh
Confidence 66665
No 213
>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=35.31 E-value=3.4e+02 Score=24.46 Aligned_cols=81 Identities=10% Similarity=-0.095 Sum_probs=63.0
Q ss_pred cCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHH
Q 014576 123 AMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIR 202 (422)
Q Consensus 123 ~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~ 202 (422)
.+.+.+.-.-++.....|...||...|-..+.++....-. ...++.++...++
T Consensus 29 n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~---------------------------~~~~id~~l~~ir 81 (177)
T PF10602_consen 29 NLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTS---------------------------PGHKIDMCLNVIR 81 (177)
T ss_pred ccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCC---------------------------HHHHHHHHHHHHH
Confidence 4566677778888889999999999999999998764211 2567778888899
Q ss_pred HHHhhccHHHHHHHHHHHhhcCCCCCCh
Q 014576 203 YYSHNNDYLEICRCYKAIYEIPYIKEDP 230 (422)
Q Consensus 203 ~~~~~~~y~ea~~~y~e~~~~~~~~~d~ 230 (422)
.....+||..+-.+...+-..+.-.+|.
T Consensus 82 v~i~~~d~~~v~~~i~ka~~~~~~~~d~ 109 (177)
T PF10602_consen 82 VAIFFGDWSHVEKYIEKAESLIEKGGDW 109 (177)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHhccchH
Confidence 9999999999888888777766554444
No 214
>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=35.08 E-value=1.6e+02 Score=27.07 Aligned_cols=36 Identities=28% Similarity=0.324 Sum_probs=33.0
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAK 368 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ak 368 (422)
...+|...||+.+|+++.-+=+.+..|...|-|.-.
T Consensus 13 ~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 13 QGQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 466999999999999999999999999999999655
No 215
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=34.71 E-value=1.8e+02 Score=28.62 Aligned_cols=71 Identities=14% Similarity=0.027 Sum_probs=55.1
Q ss_pred chHHHHHHHHHHH-------HHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHH
Q 014576 83 IYVEIERARLIKK-------LAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRK 155 (422)
Q Consensus 83 i~~E~era~l~~~-------La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K 155 (422)
-||..+|..++.. |++.+.+.|.++.+...++++--. +-.--..+...|+.|+..|+...|...+++
T Consensus 139 ~WV~~~R~~l~e~~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~------dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~ 212 (280)
T COG3629 139 EWVLEQRRALEELFIKALTKLAEALIACGRADAVIEHLERLIEL------DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQ 212 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc------CccchHHHHHHHHHHHHcCCchHHHHHHHH
Confidence 3677788777666 888888999999999998886521 112234577789999999999999999999
Q ss_pred hccc
Q 014576 156 ISPR 159 (422)
Q Consensus 156 ~~~~ 159 (422)
....
T Consensus 213 l~~~ 216 (280)
T COG3629 213 LKKT 216 (280)
T ss_pred HHHH
Confidence 8775
No 216
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=34.62 E-value=43 Score=27.00 Aligned_cols=24 Identities=29% Similarity=0.315 Sum_probs=21.6
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHH
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLS 357 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls 357 (422)
+.+|++.+|.-||+|++++|++|.
T Consensus 22 ~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 22 SGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHc
Confidence 577999999999999999999864
No 217
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=34.34 E-value=4.1e+02 Score=25.17 Aligned_cols=153 Identities=14% Similarity=0.133 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHH--------
Q 014576 69 IELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLC-------- 140 (422)
Q Consensus 69 ~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~-------- 140 (422)
...++.+...-++. .........||..+...|++.+|...++..- ..-+...++++.+-+.-++
T Consensus 52 i~~f~~l~~~yP~s----~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi----~~~P~~~~~~~a~Y~~g~~~~~~~~~~ 123 (243)
T PRK10866 52 ITQLEALDNRYPFG----PYSQQVQLDLIYAYYKNADLPLAQAAIDRFI----RLNPTHPNIDYVLYMRGLTNMALDDSA 123 (243)
T ss_pred HHHHHHHHHhCCCC----hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HhCcCCCchHHHHHHHHHhhhhcchhh
Q ss_pred --------hccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHH-HHHHhhccHH
Q 014576 141 --------LDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMI-RYYSHNNDYL 211 (422)
Q Consensus 141 --------l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~-~~~~~~~~y~ 211 (422)
...+|...++...+.....+-.-|.... .+.+...+ .....++--+++.+ ++|...++|.
T Consensus 124 ~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~y---a~~A~~rl--------~~l~~~la~~e~~ia~~Y~~~~~y~ 192 (243)
T PRK10866 124 LQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQY---TTDATKRL--------VFLKDRLAKYELSVAEYYTKRGAYV 192 (243)
T ss_pred hhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChh---HHHHHHHH--------HHHHHHHHHHHHHHHHHHHHcCchH
Q ss_pred HHHHHHHHHhhcCCCCCChhhHHHHHHHH
Q 014576 212 EICRCYKAIYEIPYIKEDPAQWMPVLRKI 240 (422)
Q Consensus 212 ea~~~y~e~~~~~~~~~d~~~~~~~L~~~ 240 (422)
.|...|.++.+..+-.....+.+..+..+
T Consensus 193 AA~~r~~~v~~~Yp~t~~~~eal~~l~~a 221 (243)
T PRK10866 193 AVVNRVEQMLRDYPDTQATRDALPLMENA 221 (243)
T ss_pred HHHHHHHHHHHHCCCCchHHHHHHHHHHH
No 218
>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=34.22 E-value=23 Score=25.24 Aligned_cols=24 Identities=29% Similarity=0.318 Sum_probs=19.1
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHH
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLS 357 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls 357 (422)
+.+++..||+.+|+++.++-+.+.
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l~ 25 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKLF 25 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH-
T ss_pred CceEHHHHHHHHCcCHHHHHHHHH
Confidence 357899999999999999888873
No 219
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=34.04 E-value=3.6e+02 Score=24.50 Aligned_cols=140 Identities=16% Similarity=0.062 Sum_probs=73.2
Q ss_pred hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcC-------CCCHH---HHHHHHHHHHh
Q 014576 8 AGTKKAVTEILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQ-------TPDLD---TRIELIKTLNS 77 (422)
Q Consensus 8 ~s~~~~~~~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~-------~~~~~---~~~~li~tL~~ 77 (422)
+-...+...++..+++.|+|+.-...+..+.+.......+--..-...+.+... -.|.. .-...++++..
T Consensus 39 ~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~ 118 (203)
T PF13525_consen 39 PYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIPGILRSDRDQTSTRKAIEEFEELIK 118 (203)
T ss_dssp TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHHHHH-TT---HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCccchhcccChHHHHHHHHHHHHHHH
Confidence 344567778889999999999998888887766555532211111111111111 11211 11233334444
Q ss_pred hhcCcchHH----------HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHH
Q 014576 78 VSAGKIYVE----------IERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYV 147 (422)
Q Consensus 78 ~~~~ki~~E----------~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~ 147 (422)
.-+..-|.+ ..-++=....|++|...|.|..|+.-.+.+- +.|......+..-+ ..++-|...|+..
T Consensus 119 ~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~-~~yp~t~~~~~al~--~l~~~y~~l~~~~ 195 (203)
T PF13525_consen 119 RYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVI-ENYPDTPAAEEALA--RLAEAYYKLGLKQ 195 (203)
T ss_dssp H-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHH-HHSTTSHHHHHHHH--HHHHHHHHTT-HH
T ss_pred HCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH-HHCCCCchHHHHHH--HHHHHHHHhCChH
Confidence 444444433 2225556677899999999999999998865 45533323333333 3345555566555
Q ss_pred HHH
Q 014576 148 RAQ 150 (422)
Q Consensus 148 ~a~ 150 (422)
.++
T Consensus 196 ~a~ 198 (203)
T PF13525_consen 196 AAD 198 (203)
T ss_dssp HHH
T ss_pred HHH
Confidence 333
No 220
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=33.67 E-value=76 Score=24.12 Aligned_cols=34 Identities=18% Similarity=0.178 Sum_probs=26.6
Q ss_pred hcccccHHHHHH-HhCCCHHHHHHHHHHHHhcCeE
Q 014576 332 YYSRITLKRLAE-LLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 332 ~Ys~Isl~~La~-ll~ls~~e~E~~ls~mI~~~~i 365 (422)
.=+...|..+.. ..+..+-++-+.+.+||.+|++
T Consensus 16 ~KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l 50 (67)
T PF08679_consen 16 KKSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKL 50 (67)
T ss_dssp HSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeE
Confidence 345666888888 6788999999999999999987
No 221
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=33.26 E-value=1e+02 Score=29.37 Aligned_cols=42 Identities=19% Similarity=0.249 Sum_probs=34.6
Q ss_pred HHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 326 ILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 326 i~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
|..+-+-...++.+.||+.||+|+.-+.+-|..|...|.+.-
T Consensus 9 Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 9 IVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 333333467899999999999999999999999999887753
No 222
>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=33.13 E-value=1.1e+02 Score=20.93 Aligned_cols=29 Identities=24% Similarity=0.368 Sum_probs=24.8
Q ss_pred hcccccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 332 YYSRITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
++...+...+|+.+|+|+.-+...+.++.
T Consensus 12 ~~~~~s~~eia~~l~~s~~tv~~~~~~~~ 40 (57)
T cd06170 12 LAEGKTNKEIADILGISEKTVKTHLRNIM 40 (57)
T ss_pred HHcCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 45678999999999999999999887653
No 223
>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=32.85 E-value=3.7e+02 Score=24.15 Aligned_cols=80 Identities=16% Similarity=0.101 Sum_probs=49.5
Q ss_pred HHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCch
Q 014576 47 AVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAK 126 (422)
Q Consensus 47 ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~ 126 (422)
.+..++..+.--+... +.+.-..++..|+-+.++. ..+..--+-++-..|+|.+|..+|.++.-...+.---
T Consensus 9 iv~gLie~~~~al~~~-~~~D~e~lL~ALrvLRP~~-------~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~ 80 (160)
T PF09613_consen 9 IVGGLIEVLSVALRLG-DPDDAEALLDALRVLRPEF-------PELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYA 80 (160)
T ss_pred HHHHHHHHHHHHHccC-ChHHHHHHHHHHHHhCCCc-------hHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHH
Confidence 3444444433333222 3444456888999888884 3455667888899999999999999975333221122
Q ss_pred HHHHHHHH
Q 014576 127 TEKIAFIL 134 (422)
Q Consensus 127 ~eK~e~~L 134 (422)
+.-..++|
T Consensus 81 kALlA~CL 88 (160)
T PF09613_consen 81 KALLALCL 88 (160)
T ss_pred HHHHHHHH
Confidence 34555555
No 224
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=32.59 E-value=1.2e+02 Score=27.12 Aligned_cols=32 Identities=13% Similarity=0.050 Sum_probs=29.5
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
.++-+.||..+|++++-+=+.+.+|-.+|-|.
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~ 180 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYIR 180 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCEE
Confidence 56888999999999999999999999999775
No 225
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=32.42 E-value=7.5e+02 Score=27.66 Aligned_cols=103 Identities=8% Similarity=-0.102 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhh---------ccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccccc
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETF---------GAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFD 162 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~---------~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~ 162 (422)
....|+..+.+.|++++|...+..+.-... ...+.....+.++..+.++...||+..|...+.++....
T Consensus 312 ~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-- 389 (765)
T PRK10049 312 ELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-- 389 (765)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--
Confidence 446677788999999999999998764321 122334567788888899999999999999999986532
Q ss_pred CCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 163 ADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
| ...++ ....+..+...+++-+|-..|..+....
T Consensus 390 -P-----------------------~n~~l----~~~lA~l~~~~g~~~~A~~~l~~al~l~ 423 (765)
T PRK10049 390 -P-----------------------GNQGL----RIDYASVLQARGWPRAAENELKKAEVLE 423 (765)
T ss_pred -C-----------------------CCHHH----HHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence 1 11222 3455578888999999999999998853
No 226
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=32.26 E-value=1e+02 Score=21.80 Aligned_cols=40 Identities=13% Similarity=0.156 Sum_probs=33.2
Q ss_pred HHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHh
Q 014576 322 IEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVV 361 (422)
Q Consensus 322 iEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~ 361 (422)
.++-+.++.+.=.+.+...||..+|++..-+-+.+..++.
T Consensus 6 ~d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~~ 45 (53)
T PF13613_consen 6 EDQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWIP 45 (53)
T ss_pred HHHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHHH
Confidence 4556677778888999999999999999998888877653
No 227
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=31.49 E-value=1.1e+02 Score=29.23 Aligned_cols=41 Identities=20% Similarity=0.234 Sum_probs=34.4
Q ss_pred HHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 326 ILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 326 i~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
|....+-...++.+.||+.||+|+.-+.+-|..|-..|.+.
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 33334456889999999999999999999999999988773
No 228
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=31.31 E-value=98 Score=23.04 Aligned_cols=62 Identities=19% Similarity=0.288 Sum_probs=40.1
Q ss_pred cccHHHHHHHhCC--CHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHHHHHHHHHHHHHHhh
Q 014576 335 RITLKRLAELLCL--SIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMNLEKLLDLVEKSCHQ 408 (422)
Q Consensus 335 ~Isl~~La~ll~l--s~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~I~~l~~~v~k~~~l 408 (422)
.++.+++.+++|+ +.+++.+.|.+|= +.+..+..++.+.+.-|. |-.+|..-++.++.+.+.
T Consensus 5 ~~~~~~i~~llG~~i~~~ei~~~L~~lg----~~~~~~~~~~~~~v~~P~--------~R~Di~~~~DliEei~r~ 68 (71)
T smart00874 5 TLRRERINRLLGLDLSAEEIEEILKRLG----FEVEVSGDDDTLEVTVPS--------YRFDILIEADLIEEVARI 68 (71)
T ss_pred EecHHHHHHHHCCCCCHHHHHHHHHHCC----CeEEecCCCCeEEEECCC--------CccccCcccHHHHHHHHH
Confidence 4678899999996 5778888877773 333333334666666553 555666666667666554
No 229
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=31.31 E-value=1.9e+02 Score=24.29 Aligned_cols=35 Identities=31% Similarity=0.578 Sum_probs=23.4
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Q 014576 16 EILQLCFEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQ 54 (422)
Q Consensus 16 ~i~~~~~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~ 54 (422)
.++++|.+.+-|+.. ..+.++.|+-+.|+.-+++.
T Consensus 74 ~~~~~c~~~~l~~~~----~~l~~k~~~~~~Al~~~l~~ 108 (140)
T smart00299 74 KVGKLCEKAKLYEEA----VELYKKDGNFKDAIVTLIEH 108 (140)
T ss_pred HHHHHHHHcCcHHHH----HHHHHhhcCHHHHHHHHHHc
Confidence 467788887777664 33445667777787766663
No 230
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=30.95 E-value=2.5e+02 Score=21.59 Aligned_cols=33 Identities=30% Similarity=0.249 Sum_probs=31.1
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
.++++.||+.+|+|..-+-+.+..|...|-+..
T Consensus 20 ~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 20 GLTLAELAERLGLSKSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred CcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeee
Confidence 599999999999999999999999999998865
No 231
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=30.48 E-value=2.2e+02 Score=20.95 Aligned_cols=35 Identities=20% Similarity=0.252 Sum_probs=29.0
Q ss_pred hcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 332 YYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
-+-+.++.+|.+..++|+.++-.-++-||.-|-+.
T Consensus 24 ~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 24 SRGRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp HC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEE
T ss_pred HcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCee
Confidence 57899999999999999999999999999988653
No 232
>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=30.31 E-value=62 Score=25.38 Aligned_cols=28 Identities=25% Similarity=0.326 Sum_probs=20.9
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHH
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMV 360 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI 360 (422)
=.-||.+.||..+|.+.+++...|..|-
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 4568999999999999999999999884
No 233
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=30.30 E-value=4e+02 Score=23.81 Aligned_cols=96 Identities=17% Similarity=0.120 Sum_probs=70.8
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKK 171 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~ 171 (422)
.-..+|-.+...|++++|.++.+-+-. =+.+-.++++--.-.+-..|+|..|-..+.++-....+. |
T Consensus 37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~------~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~dd-p------ 103 (157)
T PRK15363 37 TLYRYAMQLMEVKEFAGAARLFQLLTI------YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDA-P------ 103 (157)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH------hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC-c------
Confidence 347788899999999999998876442 244666778877888889999999999999886653221 1
Q ss_pred CCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 172 PKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
+-+...+.-+..-|+.-.|-++|..+.+.
T Consensus 104 -----------------------~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~ 132 (157)
T PRK15363 104 -----------------------QAPWAAAECYLACDNVCYAIKALKAVVRI 132 (157)
T ss_pred -----------------------hHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 12345556677778888888888877763
No 234
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=30.24 E-value=2.9e+02 Score=22.25 Aligned_cols=110 Identities=16% Similarity=0.273 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChhhhHHhhhhhcccCCCCChh
Q 014576 192 LKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPMQSSLLNSTLEDKNLSEIPN 271 (422)
Q Consensus 192 lklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~rs~ll~~~~~d~~~~~ip~ 271 (422)
+|-+.+.....|... +|+.||+.+..++.- ......+-+.++-..+-.....| +.
T Consensus 1 ~rk~i~~~l~ey~~~-~d~~ea~~~l~el~~--------~~~~~~vv~~~l~~~le~~~~~r----------------~~ 55 (113)
T PF02847_consen 1 LRKKIFSILMEYFSS-GDVDEAVECLKELKL--------PSQHHEVVKVILECALEEKKSYR----------------EY 55 (113)
T ss_dssp HHHHHHHHHHHHHHH-T-HHHHHHHHHHTT---------GGGHHHHHHHHHHHHHTSSHHHH----------------HH
T ss_pred ChHHHHHHHHHHhcC-CCHHHHHHHHHHhCC--------CccHHHHHHHHHHHHhhccHHHH----------------HH
Q ss_pred HHHHHHHhcccccccchhhHHHHHHHhhhhhhhcCC-chhhhHHHHHHHHHHHHHH
Q 014576 272 FRLLLKQLVTMEVIQWTSLWNTYKDEFENETNMLGG-SLGAKAAEDLRQRIIEHNI 326 (422)
Q Consensus 272 ~~~L~k~f~~~eli~~~~~~~~y~~~l~~~~~~~~d-~~~~~~~~~L~~~viEhNi 326 (422)
+..|+..+....++....+...|...+..-.++.-| |....++..+-.+.+..++
T Consensus 56 ~~~Ll~~L~~~~~~~~~~~~~gf~~~l~~l~Dl~~D~P~~~~~la~~~~~~i~~~~ 111 (113)
T PF02847_consen 56 YSKLLSHLCKRKLISKEQFQEGFEDLLESLEDLELDIPKAPEYLAKFLARLIADGI 111 (113)
T ss_dssp HHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHhHhhhccccchHHHHHHHHHHHHHHHcCC
No 235
>cd08312 Death_MyD88 Death domain of Myeloid Differentation primary response protein MyD88. Death Domain (DD) of Myeloid Differentiation primary response protein 88 (MyD88). MyD88 is an adaptor protein involved in interleukin-1 receptor (IL-1R)- and Toll-like receptor (TLR)-induced activation of nuclear factor-kappaB (NF-kB) and mitogen activated protein kinase pathways that lead to the induction of proinflammatory cytokines. It is a key component in the signaling pathway of pathogen recognition in the innate immune system. MyD88 contains an N-terminal DD and a C-terminal Toll/IL-1 Receptor (TIR) homology domain that mediates interaction with TLRs and IL-1R. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and
Probab=30.13 E-value=1.1e+02 Score=23.91 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=31.7
Q ss_pred HHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEccCCChHHHHHHHHHH-----HHHHHHHHHHHHh
Q 014576 339 KRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQVAKDSNDILNSWAMN-----LEKLLDLVEKSCH 407 (422)
Q Consensus 339 ~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~~~~~~~~l~~W~~~-----I~~l~~~v~k~~~ 407 (422)
..||+.||++..++..+-. .+.++...|+.|... |+.|+..+.++.+
T Consensus 20 r~LA~~Lg~~~~~I~~f~~----------------------~~sPt~~lL~~W~~r~~~atv~~L~~~L~~~~R 71 (79)
T cd08312 20 TALAEEMGFEYLEIRNFET----------------------KPSPTEKVLEDWETRPDGATVGNLLELLEKLER 71 (79)
T ss_pred HHHHHHcCCCHHHHHHHcc----------------------CCChHHHHHHHHHhcCCCCcHHHHHHHHHHcCh
Confidence 4578888988777753310 135567899999665 7777777766543
No 236
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=30.09 E-value=1.2e+02 Score=29.14 Aligned_cols=42 Identities=14% Similarity=0.106 Sum_probs=35.2
Q ss_pred HHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 324 HNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 324 hNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
.-|....+-..+++++.||+.||+|+.-+-+-|..|-..|.+
T Consensus 8 ~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l 49 (256)
T PRK10434 8 AAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTV 49 (256)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCE
Confidence 334444556778999999999999999999999999999955
No 237
>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=29.76 E-value=7.5e+02 Score=26.83 Aligned_cols=123 Identities=16% Similarity=0.090 Sum_probs=77.4
Q ss_pred cCcchHHHHHHHHHHHHHHHHH-HhccHHHHHHHHHHHHHHhh-ccCc-hHHHHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 014576 80 AGKIYVEIERARLIKKLAKIKE-EQGLIAEAADLMQEVAVETF-GAMA-KTEKIAFILEQVRLCLDRQDYVRAQILSRKI 156 (422)
Q Consensus 80 ~~ki~~E~era~l~~~La~i~e-~~g~~~eAa~iL~~l~vEt~-~~~~-~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~ 156 (422)
..++.. .+.++++.+||.++. +..++++|-..|..-..=+. ..+. -+..++++| ++++...+-.. |..+.++.
T Consensus 50 ~~~l~p-~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll--~~i~~~~~~~~-a~~~l~~~ 125 (608)
T PF10345_consen 50 QFKLSP-RQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLL--ARIYFKTNPKA-ALKNLDKA 125 (608)
T ss_pred cCCCCH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHH--HHHHHhcCHHH-HHHHHHHH
Confidence 555666 457999999999976 66799999998885322222 2332 245556655 88888887776 88877776
Q ss_pred ccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCCh
Q 014576 157 SPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDP 230 (422)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~ 230 (422)
-...-. .++ ..| -.-.+| +-+.++...+|+-.|+..+..+.+.+....|+
T Consensus 126 I~~~~~-~~~-----~~w----------------~~~frl--l~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~ 175 (608)
T PF10345_consen 126 IEDSET-YGH-----SAW----------------YYAFRL--LKIQLALQHKDYNAALENLQSIAQLANQRGDP 175 (608)
T ss_pred HHHHhc-cCc-----hhH----------------HHHHHH--HHHHHHHhcccHHHHHHHHHHHHHHhhhcCCH
Confidence 543211 110 001 122233 22344434489999999999999877655555
No 238
>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=29.60 E-value=63 Score=23.95 Aligned_cols=25 Identities=20% Similarity=0.228 Sum_probs=18.2
Q ss_pred HhCCCHHHHHHHHHHHHhcCeEEEE
Q 014576 344 LLCLSIQEAEKHLSDMVVSKALVAK 368 (422)
Q Consensus 344 ll~ls~~e~E~~ls~mI~~~~i~ak 368 (422)
-.+.|.++++.+|..+|.+|++.+.
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 3456789999999999999999764
No 239
>PHA02360 hypothetical protein
Probab=28.79 E-value=61 Score=24.31 Aligned_cols=46 Identities=24% Similarity=0.452 Sum_probs=36.3
Q ss_pred HHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhc-----cHHHHHHHHHH
Q 014576 70 ELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQG-----LIAEAADLMQE 115 (422)
Q Consensus 70 ~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g-----~~~eAa~iL~~ 115 (422)
+-+++|+....+++|+.+|--.+-.+.-+.||++| +.+|--+||-+
T Consensus 9 ~d~~iL~~A~~r~l~LDveyPklY~~i~k~YEe~gidFyG~~dEDYDILld 59 (70)
T PHA02360 9 KDLQILRAAANRELFLDVEYPKLYKKIRKYYEEEGIDFYGEPDEDYDILLD 59 (70)
T ss_pred HHHHHHHHHhcchheeecccHHHHHHHHHHHHHcCCcccCCcchhHHHHHH
Confidence 45578888889999999999999999999999885 44555555544
No 240
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=28.75 E-value=3e+02 Score=24.79 Aligned_cols=31 Identities=16% Similarity=0.090 Sum_probs=28.9
Q ss_pred cHHHHHHHh--CCCHHHHHHHHHHHHhcCeEEE
Q 014576 337 TLKRLAELL--CLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 337 sl~~La~ll--~ls~~e~E~~ls~mI~~~~i~a 367 (422)
....||+.+ ++|+++++.-|..|+.-|-|.=
T Consensus 41 d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k 73 (171)
T PF14394_consen 41 DPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKK 73 (171)
T ss_pred CHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEE
Confidence 889999999 9999999999999999998743
No 241
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=27.91 E-value=3.3e+02 Score=25.69 Aligned_cols=48 Identities=13% Similarity=0.080 Sum_probs=40.9
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEEcc
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCFQV 380 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F~~ 380 (422)
...||.+.||+.+|+|..-+=+.|.+|...|-|.-..|..+..|....
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 347899999999999999999999999999999888886555565543
No 242
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=27.90 E-value=2.5e+02 Score=25.24 Aligned_cols=32 Identities=13% Similarity=0.127 Sum_probs=29.7
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
+++-..||+.+|++++-+-+.+.+|-.+|.|.
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~ 199 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLIS 199 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEE
Confidence 68889999999999999999999999999774
No 243
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=27.82 E-value=4.5e+02 Score=26.39 Aligned_cols=61 Identities=10% Similarity=0.029 Sum_probs=46.2
Q ss_pred HHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHH
Q 014576 133 ILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLE 212 (422)
Q Consensus 133 ~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~e 212 (422)
++.+++-++..+||..|...++++.... + . +. ..|...+..+...++|-+
T Consensus 5 l~~~a~~a~~~~~~~~Ai~~~~~Al~~~---P-----------------------~--~~--~a~~~~a~~~~~~g~~~e 54 (356)
T PLN03088 5 LEDKAKEAFVDDDFALAVDLYTQAIDLD---P-----------------------N--NA--ELYADRAQANIKLGNFTE 54 (356)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhC---C-----------------------C--CH--HHHHHHHHHHHHcCCHHH
Confidence 5667888899999999999999996532 1 1 11 234455677788899999
Q ss_pred HHHHHHHHhhc
Q 014576 213 ICRCYKAIYEI 223 (422)
Q Consensus 213 a~~~y~e~~~~ 223 (422)
|...|..+...
T Consensus 55 Al~~~~~Al~l 65 (356)
T PLN03088 55 AVADANKAIEL 65 (356)
T ss_pred HHHHHHHHHHh
Confidence 99999999874
No 244
>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=27.80 E-value=76 Score=22.65 Aligned_cols=26 Identities=31% Similarity=0.367 Sum_probs=19.5
Q ss_pred hcccccHHHHHHHhCCCHHHHHHHHH
Q 014576 332 YYSRITLKRLAELLCLSIQEAEKHLS 357 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~E~~ls 357 (422)
-..+|+=..||+.+|+++.++-+=+|
T Consensus 25 G~~~vSS~~La~~~gi~~~qVRKDlS 50 (50)
T PF06971_consen 25 GVERVSSQELAEALGITPAQVRKDLS 50 (50)
T ss_dssp T-SEE-HHHHHHHHTS-HHHHHHHHH
T ss_pred CCeeECHHHHHHHHCCCHHHhcccCC
Confidence 35789999999999999999876554
No 245
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=27.71 E-value=3.8e+02 Score=29.41 Aligned_cols=68 Identities=13% Similarity=0.111 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHh--ccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 86 EIERARLIKKLAKIKEEQ--GLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 86 E~era~l~~~La~i~e~~--g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
+.++..+.+.+|+.|... -++.+|...++.++-.-++.+ =++....|.|++..||.+|+.+...+..+
T Consensus 313 ~~~l~~llr~~~~~~~~~s~y~~~~A~~~~~klp~h~~nt~------wvl~q~GrayFEl~~Y~~a~~~F~~~r~~ 382 (638)
T KOG1126|consen 313 ASELMELLRGLGEGYRSLSQYNCREALNLFEKLPSHHYNTG------WVLSQLGRAYFELIEYDQAERIFSLVRRI 382 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhcCCch------HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345677778888887654 478899999988775554322 24444569999999999999888887664
No 246
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=27.68 E-value=2.1e+02 Score=25.12 Aligned_cols=60 Identities=17% Similarity=0.159 Sum_probs=45.2
Q ss_pred HHHHHHHHhccHHHHHHHHHHHHHHhh--ccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 95 KLAKIKEEQGLIAEAADLMQEVAVETF--GAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 95 ~La~i~e~~g~~~eAa~iL~~l~vEt~--~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
.-|.-..+.|+|.+|.+.|+.|.- .| |..+ -...|..+-.|...+||..|...+.+-...
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~-ryP~g~ya----~qAqL~l~yayy~~~~y~~A~a~~~rFirL 76 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDT-RYPFGEYA----EQAQLDLAYAYYKQGDYEEAIAAYDRFIRL 76 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHh-cCCCCccc----HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence 345556788999999999999762 22 2233 245677788899999999999998887654
No 247
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=27.30 E-value=8e+02 Score=26.36 Aligned_cols=91 Identities=19% Similarity=0.169 Sum_probs=56.3
Q ss_pred HHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCC
Q 014576 97 AKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGD 176 (422)
Q Consensus 97 a~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~ 176 (422)
+.-++..|||.+|.+-+.+ -+ . .+ .+=...|=--+--|+..+++..|-.-.+++..+ +|. |
T Consensus 365 Gne~Fk~gdy~~Av~~Yte-AI---k-r~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL----~p~-------~-- 425 (539)
T KOG0548|consen 365 GNEAFKKGDYPEAVKHYTE-AI---K-RD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL----DPN-------F-- 425 (539)
T ss_pred HHHHHhccCHHHHHHHHHH-HH---h-cC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc----Cch-------H--
Confidence 8889999999999987765 11 1 11 111223333444566677777776666666543 111 1
Q ss_pred cccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 177 NVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 177 ~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
.|. |...+..+-+-++|-.|..+|.+..+-
T Consensus 426 ---------------~kg--y~RKg~al~~mk~ydkAleay~eale~ 455 (539)
T KOG0548|consen 426 ---------------IKA--YLRKGAALRAMKEYDKALEAYQEALEL 455 (539)
T ss_pred ---------------HHH--HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 222 333356677788899999999999874
No 248
>KOG1931 consensus Putative transmembrane protein [General function prediction only]
Probab=26.92 E-value=1.1e+03 Score=27.74 Aligned_cols=45 Identities=24% Similarity=0.193 Sum_probs=35.7
Q ss_pred HHHhhhcCcc-----hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHh
Q 014576 74 TLNSVSAGKI-----YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVET 120 (422)
Q Consensus 74 tL~~~~~~ki-----~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt 120 (422)
.+|++.+++- |.| -.-+.++||-++|.-.-+++|..-++++..+-
T Consensus 196 ~iRslre~r~~~~wdF~~--fFl~kE~LA~iFe~l~l~edAL~qydel~a~~ 245 (1156)
T KOG1931|consen 196 SIRSLREKRNSPGWDFCE--FFLTKEKLAFIFEMLNLLEDALLQYDELDAEF 245 (1156)
T ss_pred HHHHHHhhcCCchHHHHH--HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 6666667665 443 56688999999999999999999999887654
No 249
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=26.53 E-value=1.8e+02 Score=19.98 Aligned_cols=26 Identities=15% Similarity=0.170 Sum_probs=21.8
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHH
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDM 359 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~m 359 (422)
...|+..+|+.+|+|..-+.+.+-+.
T Consensus 26 ~~~s~~~vA~~~~vs~~TV~ri~~~~ 51 (52)
T PF13542_consen 26 ESRSFKDVARELGVSWSTVRRIFDRY 51 (52)
T ss_pred hcCCHHHHHHHHCCCHHHHHHHHHhh
Confidence 33799999999999999998877553
No 250
>COG5481 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=26.42 E-value=1.2e+02 Score=22.41 Aligned_cols=28 Identities=21% Similarity=0.343 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHH
Q 014576 88 ERARLIKKLAKIKEEQGLIAEAADLMQE 115 (422)
Q Consensus 88 era~l~~~La~i~e~~g~~~eAa~iL~~ 115 (422)
+.+.+++.||.+.++..||+.|.+.+.+
T Consensus 5 dqaeirl~~arLrqeH~D~DaaInAmi~ 32 (67)
T COG5481 5 DQAEIRLTLARLRQEHADFDAAINAMIA 32 (67)
T ss_pred cHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3567899999999999999999998887
No 251
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=26.31 E-value=5.1e+02 Score=23.69 Aligned_cols=47 Identities=6% Similarity=0.024 Sum_probs=39.1
Q ss_pred HHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCc
Q 014576 328 VVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 328 ~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~g 374 (422)
.+......++.+.||+.++++..-+=+.+.+|...|-|.=..|..++
T Consensus 52 ~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~Dr 98 (185)
T PRK13777 52 WIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDK 98 (185)
T ss_pred HHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCC
Confidence 33333457999999999999999999999999999999877776666
No 252
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.94 E-value=5.5e+02 Score=24.01 Aligned_cols=116 Identities=17% Similarity=0.117 Sum_probs=82.8
Q ss_pred HHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHH
Q 014576 71 LIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQ 150 (422)
Q Consensus 71 li~tL~~~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~ 150 (422)
.++.+..--++.+|= +-..+.||+-+-+.|++++|..-|+...- .+-|...|.=.-++.+|+-+..+.+..|-
T Consensus 74 ~~ekf~~~n~~t~Ya----~laaL~lAk~~ve~~~~d~A~aqL~~~l~---~t~De~lk~l~~lRLArvq~q~~k~D~AL 146 (207)
T COG2976 74 AAEKFVQANGKTIYA----VLAALELAKAEVEANNLDKAEAQLKQALA---QTKDENLKALAALRLARVQLQQKKADAAL 146 (207)
T ss_pred HHHHHHhhccccHHH----HHHHHHHHHHHHhhccHHHHHHHHHHHHc---cchhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence 344444433345554 33568999999999999999998886331 23355577777888999999999999998
Q ss_pred HHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC
Q 014576 151 ILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 151 ~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
..+.-+....+. -+.-++-+..+...||=-+|-..|-.+.+..
T Consensus 147 ~~L~t~~~~~w~-------------------------------~~~~elrGDill~kg~k~~Ar~ay~kAl~~~ 189 (207)
T COG2976 147 KTLDTIKEESWA-------------------------------AIVAELRGDILLAKGDKQEARAAYEKALESD 189 (207)
T ss_pred HHHhccccccHH-------------------------------HHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence 887766543221 1233455678888999999999999888864
No 253
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.93 E-value=82 Score=25.31 Aligned_cols=25 Identities=20% Similarity=0.170 Sum_probs=22.3
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHH
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLS 357 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls 357 (422)
-++.|.+.+|..||+++..+|+.+.
T Consensus 21 l~~LS~~~iA~~Ln~t~~~lekil~ 45 (97)
T COG4367 21 LCPLSDEEIATALNWTEVKLEKILQ 45 (97)
T ss_pred hccccHHHHHHHhCCCHHHHHHHHH
Confidence 4677999999999999999999874
No 254
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=25.84 E-value=4e+02 Score=24.89 Aligned_cols=77 Identities=14% Similarity=0.168 Sum_probs=52.8
Q ss_pred hhcCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh----c----cCchHHHHHHHHHHHHHHhccCCHHHH
Q 014576 78 VSAGKIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETF----G----AMAKTEKIAFILEQVRLCLDRQDYVRA 149 (422)
Q Consensus 78 ~~~~ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~----~----~~~~~eK~e~~Le~~rL~l~~~D~~~a 149 (422)
+.+++-. +.|.+.+++|=+|...|+-+.....|+. -++.| . .........++.-+..|+...|++..|
T Consensus 109 ~~~~~~s---~~A~l~LrlAWlyR~~~~~~~E~~fl~~-Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA 184 (214)
T PF09986_consen 109 IKKEKPS---KKAGLCLRLAWLYRDLGDEENEKRFLRK-ALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEA 184 (214)
T ss_pred HhCCCHH---HHHHHHHHHHHHhhccCCHHHHHHHHHH-HHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHH
Confidence 4454444 4899999999999999995554444432 11222 1 122334455666788999999999999
Q ss_pred HHHHHHhcc
Q 014576 150 QILSRKISP 158 (422)
Q Consensus 150 ~~~~~K~~~ 158 (422)
..+..|+-.
T Consensus 185 ~~~fs~vi~ 193 (214)
T PF09986_consen 185 KRWFSRVIG 193 (214)
T ss_pred HHHHHHHHc
Confidence 999999855
No 255
>PRK12370 invasion protein regulator; Provisional
Probab=25.67 E-value=7.2e+02 Score=26.52 Aligned_cols=64 Identities=6% Similarity=-0.124 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
......+|.++...|++++|...++...- .. +.. .+.+..-..++...|++..|...+.++...
T Consensus 338 ~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-l~---P~~--~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l 401 (553)
T PRK12370 338 PQALGLLGLINTIHSEYIVGSLLFKQANL-LS---PIS--ADIKYYYGWNLFMAGQLEEALQTINECLKL 401 (553)
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHHHHH-hC---CCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence 44556789999999999999998877432 11 111 123444577888899999999999998664
No 256
>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=25.58 E-value=6.4e+02 Score=24.63 Aligned_cols=130 Identities=12% Similarity=0.049 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCch-HHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccC
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAK-TEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKK 170 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~-~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~ 170 (422)
+......++...|.++.|.+.+..++ .+++ .--+.+..--+.++...+.+..|--++.-...++-.
T Consensus 133 ~~al~Vqi~L~~~R~dlA~k~l~~~~-----~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~-------- 199 (290)
T PF04733_consen 133 LLALAVQILLKMNRPDLAEKELKNMQ-----QIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGS-------- 199 (290)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH-----CCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----------
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH-----hcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCC--------
Confidence 44557788999999999999888754 2333 233333333344445555677777777766554311
Q ss_pred CCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCC
Q 014576 171 KPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHD 250 (422)
Q Consensus 171 ~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~ 250 (422)
. . .-...++..+.+.++|-||-....++.+. ||.+ -.+|-+.++|..+.+-+
T Consensus 200 -----------------t---~--~~lng~A~~~l~~~~~~eAe~~L~~al~~-----~~~~-~d~LaNliv~~~~~gk~ 251 (290)
T PF04733_consen 200 -----------------T---P--KLLNGLAVCHLQLGHYEEAEELLEEALEK-----DPND-PDTLANLIVCSLHLGKP 251 (290)
T ss_dssp -----------------S---H--HHHHHHHHHHHHCT-HHHHHHHHHHHCCC------CCH-HHHHHHHHHHHHHTT-T
T ss_pred -----------------C---H--HHHHHHHHHHHHhCCHHHHHHHHHHHHHh-----ccCC-HHHHHHHHHHHHHhCCC
Confidence 1 1 22467889999999999999999998763 2322 34677777777776654
Q ss_pred -hhhhHHhhhhhc
Q 014576 251 -PMQSSLLNSTLE 262 (422)
Q Consensus 251 -~~rs~ll~~~~~ 262 (422)
..-.+.+..+..
T Consensus 252 ~~~~~~~l~qL~~ 264 (290)
T PF04733_consen 252 TEAAERYLSQLKQ 264 (290)
T ss_dssp CHHHHHHHHHCHH
T ss_pred hhHHHHHHHHHHH
Confidence 556667777664
No 257
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=25.56 E-value=1e+02 Score=28.17 Aligned_cols=43 Identities=19% Similarity=0.126 Sum_probs=35.5
Q ss_pred HHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 323 EHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 323 EhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
++.|....+-...+++..|++.||+|+.-+-+-|..|..+|.+
T Consensus 9 ~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 9 QKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 3445555556888999999999999999999999999888866
No 258
>PRK14574 hmsH outer membrane protein; Provisional
Probab=25.29 E-value=1.1e+03 Score=27.05 Aligned_cols=96 Identities=9% Similarity=-0.013 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccC
Q 014576 91 RLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKK 170 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~ 170 (422)
.....-+-+....|++.+|...|+.+..-- +..-..+. ..+.++...|+...|..+++|+... . |.
T Consensus 35 ~~~y~~aii~~r~Gd~~~Al~~L~qaL~~~-----P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p---~-n~---- 100 (822)
T PRK14574 35 DTQYDSLIIRARAGDTAPVLDYLQEESKAG-----PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS---M-NI---- 100 (822)
T ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-----ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC---C-CC----
Confidence 355666777889999999999999865211 11110111 5566777779999999999998621 0 00
Q ss_pred CCCCCCcccccCCCCccchHHHHHHHHHHH--HHHHHhhccHHHHHHHHHHHhhcC
Q 014576 171 KPKEGDNVVEEAPADIPSLLELKRIYYELM--IRYYSHNNDYLEICRCYKAIYEIP 224 (422)
Q Consensus 171 ~~~~~~~~~~~~~~~~~~~~dlklk~~~~~--~~~~~~~~~y~ea~~~y~e~~~~~ 224 (422)
-++... +..+...++|-.|...|.++....
T Consensus 101 ------------------------~~~~llalA~ly~~~gdyd~Aiely~kaL~~d 132 (822)
T PRK14574 101 ------------------------SSRGLASAARAYRNEKRWDQALALWQSSLKKD 132 (822)
T ss_pred ------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence 122333 568888999999999999998753
No 259
>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=25.27 E-value=1.3e+02 Score=16.49 Aligned_cols=23 Identities=17% Similarity=0.144 Sum_probs=17.3
Q ss_pred HHHHHHHHHhccHHHHHHHHHHH
Q 014576 94 KKLAKIKEEQGLIAEAADLMQEV 116 (422)
Q Consensus 94 ~~La~i~e~~g~~~eAa~iL~~l 116 (422)
..+|..+...|++++|...++..
T Consensus 5 ~~~a~~~~~~~~~~~a~~~~~~~ 27 (34)
T smart00028 5 YNLGNAYLKLGDYDEALEYYEKA 27 (34)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHH
Confidence 46777888888888888777653
No 260
>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=25.18 E-value=2.4e+02 Score=25.88 Aligned_cols=38 Identities=18% Similarity=0.240 Sum_probs=33.3
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEecc
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDR 371 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq 371 (422)
..++++.||+.+|+|+.-+-+.+..|...|-+.-.-++
T Consensus 156 g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~r 193 (203)
T TIGR01884 156 GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGRK 193 (203)
T ss_pred CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCC
Confidence 46899999999999999999999999999988755433
No 261
>PF13518 HTH_28: Helix-turn-helix domain
Probab=25.06 E-value=1.2e+02 Score=20.74 Aligned_cols=43 Identities=9% Similarity=0.106 Sum_probs=31.6
Q ss_pred HhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccC
Q 014576 329 VSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRP 372 (422)
Q Consensus 329 isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~ 372 (422)
|..+-...|...+|..+|+|...+..-+...=..| +.|-.+++
T Consensus 6 v~~~~~g~s~~~~a~~~gis~~tv~~w~~~y~~~G-~~~l~~~~ 48 (52)
T PF13518_consen 6 VELYLEGESVREIAREFGISRSTVYRWIKRYREGG-IEGLKPKK 48 (52)
T ss_pred HHHHHcCCCHHHHHHHHCCCHhHHHHHHHHHHhcC-HHHhccCC
Confidence 33344567999999999999999988887777666 45544443
No 262
>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=24.99 E-value=1e+02 Score=27.29 Aligned_cols=33 Identities=18% Similarity=0.234 Sum_probs=30.2
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
.+|-+.||.++|++.+-+=+.+++|-.+|-|..
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLISI 175 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEe
Confidence 478899999999999999999999999998854
No 263
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=24.56 E-value=3.5e+02 Score=21.21 Aligned_cols=61 Identities=11% Similarity=0.216 Sum_probs=44.2
Q ss_pred ccccHHHHHHHh-CCCHHHHHHHHHHHHhcCeEEEEeccCCc-EEEEccCCCh------HHHHHHHHHH
Q 014576 334 SRITLKRLAELL-CLSIQEAEKHLSDMVVSKALVAKIDRPQG-IVCFQVAKDS------NDILNSWAMN 394 (422)
Q Consensus 334 s~Isl~~La~ll-~ls~~e~E~~ls~mI~~~~i~akIDq~~g-iV~F~~~~~~------~~~l~~W~~~ 394 (422)
...+|+.|.+.+ |+|+.-+-+-|..|...|-+.-.++...+ -|.+.-.... -..+.+|..+
T Consensus 17 g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~~~l~~l~~W~~~ 85 (90)
T PF01638_consen 17 GPMRFSELQRRLPGISPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELLPVLEALEEWGEE 85 (90)
T ss_dssp SSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHHHHHHHHHHHHHH
Confidence 678999999999 99999999999999999999877765444 3666543221 1346666654
No 264
>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=24.55 E-value=1.5e+02 Score=22.24 Aligned_cols=31 Identities=23% Similarity=0.311 Sum_probs=26.8
Q ss_pred ccHHHHHHHhCCC-HHHHHHHHHHHHhcCeEE
Q 014576 336 ITLKRLAELLCLS-IQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 336 Isl~~La~ll~ls-~~e~E~~ls~mI~~~~i~ 366 (422)
-|+.+||+.||++ +.-|-..|..|...|.|.
T Consensus 26 Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~ 57 (65)
T PF01726_consen 26 PTVREIAEALGLKSTSTVQRHLKALERKGYIR 57 (65)
T ss_dssp --HHHHHHHHTSSSHHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHhCCCChHHHHHHHHHHHHCcCcc
Confidence 5899999999996 999999999999998774
No 265
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=24.48 E-value=1.5e+02 Score=20.10 Aligned_cols=22 Identities=18% Similarity=0.235 Sum_probs=19.5
Q ss_pred hhcccccHHHHHHHhCCCHHHH
Q 014576 331 KYYSRITLKRLAELLCLSIQEA 352 (422)
Q Consensus 331 k~Ys~Isl~~La~ll~ls~~e~ 352 (422)
+.|..+|+..+|+..|++..-+
T Consensus 12 ~G~~~~s~~~Ia~~~gvs~~~~ 33 (47)
T PF00440_consen 12 KGYEAVSIRDIARRAGVSKGSF 33 (47)
T ss_dssp HHTTTSSHHHHHHHHTSCHHHH
T ss_pred hCHHhCCHHHHHHHHccchhhH
Confidence 5799999999999999997654
No 266
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=24.31 E-value=5.6e+02 Score=27.26 Aligned_cols=65 Identities=17% Similarity=0.141 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRV 160 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~ 160 (422)
.|+...|++.|++-+..++|.+.....- ..++. -...++..+.||=+.+|...|..+..|.-...
T Consensus 432 sRlw~aLG~CY~kl~~~~eAiKCykrai-----~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~ 496 (559)
T KOG1155|consen 432 SRLWVALGECYEKLNRLEEAIKCYKRAI-----LLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVS 496 (559)
T ss_pred hHHHHHHHHHHHHhccHHHHHHHHHHHH-----hcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 7899999999999999999999555421 11222 45678889999999999999999999886644
No 267
>COG5127 Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=24.28 E-value=4.3e+02 Score=26.32 Aligned_cols=105 Identities=15% Similarity=0.150 Sum_probs=68.0
Q ss_pred HHhcCHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhcCCC------------CHHHHHHHHH--HHHhhhcCcc----
Q 014576 22 FEAKDWKTLNEQIVNLSKKRGQLKQAVTAMVQQAMQYIDQTP------------DLDTRIELIK--TLNSVSAGKI---- 83 (422)
Q Consensus 22 ~~~~~~~~l~~~i~~l~k~~~qlk~ai~~~v~~~~~~l~~~~------------~~~~~~~li~--tL~~~~~~ki---- 83 (422)
|+.+..+.|+.+-..|+|--.|.-.+|.|++...+++..+-. ..+. ...++ +=+=++.+.|
T Consensus 43 Fk~~SLd~lI~qsE~L~k~d~qc~~aIsKi~~i~~g~~~ss~gd~~~~~iv~~~~pEy-~~~f~W~~~~F~~nKsI~~~i 121 (383)
T COG5127 43 FKGVSLDGLINQSERLGKLDKQCEGAISKILKIFMGYCRSSNGDRVGKGIVYGSTPEY-GDFFEWDRQSFVTNKSIEKAI 121 (383)
T ss_pred ccccchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhccccccccccccccCCchhh-hhhhhcchhheeccccHHHHH
Confidence 567789999999999999999999999999999999886311 1110 11111 0000111111
Q ss_pred -hHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHH
Q 014576 84 -YVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKI 130 (422)
Q Consensus 84 -~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~ 130 (422)
-+-.| .+..=+.+.+...+|+.|-.-++.++--+.|++++....
T Consensus 122 ~li~~E---~~~~~~d~r~~~~~f~~Ak~~~~~~qrk~~G~Ls~~sL~ 166 (383)
T COG5127 122 LLIDGE---YRRISKDYREKAEEFDGAKRECEKLQRKTRGSLSDISLG 166 (383)
T ss_pred HHhhhH---HHHHHHHHHHHHHHhhHHHHHHHHHHhhccCChhhhhHh
Confidence 01111 222335566777889999999999998888888766543
No 268
>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=24.12 E-value=98 Score=23.41 Aligned_cols=36 Identities=25% Similarity=0.254 Sum_probs=24.5
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCC
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQ 373 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~ 373 (422)
..-+.+.||+.+|+|++++...+...-. ...+|.+.
T Consensus 19 r~Pt~eEiA~~lgis~~~v~~~l~~~~~----~~Sl~~~~ 54 (78)
T PF04539_consen 19 REPTDEEIAEELGISVEEVRELLQASRR----PVSLDLPV 54 (78)
T ss_dssp S--BHHHHHHHHTS-HHHHHHHHHHHSC----CEESSHCC
T ss_pred CCCCHHHHHHHHcccHHHHHHHHHhCCC----CeEEeeee
Confidence 3568899999999999999998874322 34555553
No 269
>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=24.04 E-value=45 Score=27.79 Aligned_cols=21 Identities=33% Similarity=0.457 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHhcCeEEEEec
Q 014576 350 QEAEKHLSDMVVSKALVAKID 370 (422)
Q Consensus 350 ~e~E~~ls~mI~~~~i~akID 370 (422)
..||..|.+|...|+|.++||
T Consensus 62 ~~VE~~Liqlaq~G~l~~kI~ 82 (107)
T PF01984_consen 62 RQVENQLIQLAQSGQLRGKID 82 (107)
T ss_dssp HHHHHHHHHHHHCTSSSS-B-
T ss_pred HHHHHHHHHHHHcCCCCCCcC
Confidence 578999999999999999887
No 270
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=23.90 E-value=2.3e+02 Score=28.76 Aligned_cols=60 Identities=17% Similarity=0.132 Sum_probs=48.4
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhcc
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISP 158 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~ 158 (422)
=.-|++.|-...+...|..++.+ |..+--.-+.+.+.|+|++-+.+++..|-.+++.+..
T Consensus 259 fllLskvY~ridQP~~AL~~~~~------gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk 318 (478)
T KOG1129|consen 259 FLLLSKVYQRIDQPERALLVIGE------GLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLK 318 (478)
T ss_pred HHHHHHHHHHhccHHHHHHHHhh------hhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHh
Confidence 35688999999899999886665 2222347889999999999999999999999998854
No 271
>PHA02591 hypothetical protein; Provisional
Probab=23.86 E-value=84 Score=24.71 Aligned_cols=23 Identities=26% Similarity=0.524 Sum_probs=19.6
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHH
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSD 358 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~ 358 (422)
.|.+++|++||+|.+.|-+++..
T Consensus 60 lSqeqIA~~LGVsqetVrKYL~~ 82 (83)
T PHA02591 60 FTVEKIASLLGVSVRKVRRYLES 82 (83)
T ss_pred CCHHHHHHHhCCCHHHHHHHHhc
Confidence 48899999999999998887653
No 272
>PRK04217 hypothetical protein; Provisional
Probab=23.62 E-value=2.1e+02 Score=24.00 Aligned_cols=43 Identities=14% Similarity=0.182 Sum_probs=32.3
Q ss_pred hcccccHHHHHHHhCCCHHHH-------HHHHHHHHhcCeEEEEeccCCc
Q 014576 332 YYSRITLKRLAELLCLSIQEA-------EKHLSDMVVSKALVAKIDRPQG 374 (422)
Q Consensus 332 ~Ys~Isl~~La~ll~ls~~e~-------E~~ls~mI~~~~i~akIDq~~g 374 (422)
+|..+|.+.+|+.+|+|..-+ .+.|.+++.......-+.+.+.
T Consensus 55 ~~eGlS~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~~~~~~~~~~~~~ 104 (110)
T PRK04217 55 DYEGLTQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEGRELIILPQGNE 104 (110)
T ss_pred HHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhccceeEecCCcc
Confidence 568889999999999997754 4455667777777776665554
No 273
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=23.48 E-value=1e+02 Score=36.52 Aligned_cols=58 Identities=19% Similarity=0.247 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHH-HHHHHHHHHHHhCCC
Q 014576 191 ELKRIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWM-PVLRKICWYLVLAPH 249 (422)
Q Consensus 191 dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~-~~L~~~v~~~ILa~~ 249 (422)
..++|....++.++...|.+.+|-+.|.++.+......|. -|. .+|+.++.|.+|..+
T Consensus 239 r~~gR~~k~~gd~~LlaG~~~dAl~~y~~a~~~~k~~~D~-lW~a~alEg~~~~~~l~~~ 297 (1185)
T PF08626_consen 239 RCKGRLQKVLGDLYLLAGRWPDALKEYTEAIEILKSSNDY-LWLASALEGIAVCLLLLSW 297 (1185)
T ss_pred hhhhhhhhhhhhHHHHcCCHHHHHHHHHHHHHHHhhcCcH-hhhHHHHHHHHHHHHHHhc
Confidence 4677888899999999999999999999999876665665 564 789998888888643
No 274
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=23.40 E-value=7.4e+02 Score=24.62 Aligned_cols=48 Identities=15% Similarity=0.093 Sum_probs=31.0
Q ss_pred HHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCChh
Q 014576 202 RYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDPM 252 (422)
Q Consensus 202 ~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~~ 252 (422)
..+.+.+++-+|+.+...+.....--+|..-+...+. +|-.+.|.+|.
T Consensus 244 ~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle---~f~~~g~~Dp~ 291 (304)
T COG3118 244 DQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLE---LFEAFGPADPL 291 (304)
T ss_pred HHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHH---HHHhcCCCCHH
Confidence 5567788888888888888876444444434455555 35666666664
No 275
>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=23.01 E-value=1.1e+02 Score=17.89 Aligned_cols=23 Identities=22% Similarity=0.239 Sum_probs=18.0
Q ss_pred HHHHHHHHhccHHHHHHHHHHHH
Q 014576 95 KLAKIKEEQGLIAEAADLMQEVA 117 (422)
Q Consensus 95 ~La~i~e~~g~~~eAa~iL~~l~ 117 (422)
.+-+.|...|++++|.+++.++.
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M~ 27 (31)
T PF01535_consen 5 SLISGYCKMGQFEEALEVFDEMR 27 (31)
T ss_pred HHHHHHHccchHHHHHHHHHHHh
Confidence 34566788889999999888875
No 276
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=22.94 E-value=1e+02 Score=19.59 Aligned_cols=21 Identities=33% Similarity=0.292 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHhccHHHHH
Q 014576 90 ARLIKKLAKIKEEQGLIAEAA 110 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa 110 (422)
+.....||.+|...|++++|.
T Consensus 13 ~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 13 AEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHHCcCHHhhc
Confidence 456788999999999999985
No 277
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.89 E-value=7.4e+02 Score=24.42 Aligned_cols=128 Identities=13% Similarity=0.070 Sum_probs=77.2
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCC
Q 014576 93 IKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKP 172 (422)
Q Consensus 93 ~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~ 172 (422)
...=|.++...|++++|.+.+.. .+-+|...-.+.+.+...-..-|+..+++....-
T Consensus 111 ~l~aa~i~~~~~~~deAl~~~~~-----------~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id------------ 167 (299)
T KOG3081|consen 111 LLLAAIIYMHDGDFDEALKALHL-----------GENLEAAALNVQILLKMHRFDLAEKELKKMQQID------------ 167 (299)
T ss_pred HHHhhHHhhcCCChHHHHHHHhc-----------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc------------
Confidence 34556788999999999997764 1234444555555666666666777777775421
Q ss_pred CCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhh-cCCCCCChhhHHHHHHHHHHHHHhCCCCh
Q 014576 173 KEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYE-IPYIKEDPAQWMPVLRKICWYLVLAPHDP 251 (422)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~-~~~~~~d~~~~~~~L~~~v~~~ILa~~~~ 251 (422)
+ ...-..--...+.+.....++.+|+-.|.|..+ ++. .+......++.+..+-.+..
T Consensus 168 ---e-------------d~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~------T~~llnG~Av~~l~~~~~ee 225 (299)
T KOG3081|consen 168 ---E-------------DATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPP------TPLLLNGQAVCHLQLGRYEE 225 (299)
T ss_pred ---h-------------HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCC------ChHHHccHHHHHHHhcCHHH
Confidence 1 011111234555666667778888888888887 432 34444556666666666655
Q ss_pred hhhHHhhhhhcccC
Q 014576 252 MQSSLLNSTLEDKN 265 (422)
Q Consensus 252 ~rs~ll~~~~~d~~ 265 (422)
-.+-+...+.+|+.
T Consensus 226 Ae~lL~eaL~kd~~ 239 (299)
T KOG3081|consen 226 AESLLEEALDKDAK 239 (299)
T ss_pred HHHHHHHHHhccCC
Confidence 55555555555544
No 278
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=22.48 E-value=2e+02 Score=27.53 Aligned_cols=38 Identities=18% Similarity=0.272 Sum_probs=33.1
Q ss_pred HHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 328 VVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 328 ~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
.+-+-...+++..||+.|++|++-+-+-|..|-..|.+
T Consensus 12 ~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l 49 (252)
T PRK10906 12 ELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKI 49 (252)
T ss_pred HHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCE
Confidence 33345678999999999999999999999999999976
No 279
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=22.31 E-value=2.9e+02 Score=25.46 Aligned_cols=32 Identities=19% Similarity=0.099 Sum_probs=29.0
Q ss_pred ccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEE
Q 014576 336 ITLKRLAELLCLSIQEAEKHLSDMVVSKALVA 367 (422)
Q Consensus 336 Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~a 367 (422)
.+-..||+.+|++++-+=+.+++|..+|-|.-
T Consensus 170 ~t~~~lA~~lG~sretvsR~L~~L~~~G~I~~ 201 (226)
T PRK10402 170 EKHTQAAEYLGVSYRHLLYVLAQFIQDGYLKK 201 (226)
T ss_pred chHHHHHHHHCCcHHHHHHHHHHHHHCCCEEe
Confidence 47799999999999999999999999997754
No 280
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=21.89 E-value=1.7e+02 Score=22.05 Aligned_cols=44 Identities=11% Similarity=0.105 Sum_probs=36.3
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcEEEE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGIVCF 378 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~giV~F 378 (422)
-...|++.|++..+++..++-.-|.=+..+++|. +++.+|.+.|
T Consensus 20 ~~~~s~~el~k~~~l~~~~~~~AiGWLarE~KI~--~~~~~~~~~v 63 (65)
T PF10771_consen 20 NGEWSVSELKKATGLSDKEVYLAIGWLARENKIE--FEEKNGELYV 63 (65)
T ss_dssp SSSEEHHHHHHHCT-SCHHHHHHHHHHHCTTSEE--EEEETTEEEE
T ss_pred CCCcCHHHHHHHhCcCHHHHHHHHHHHhccCcee--EEeeCCEEEE
Confidence 3568999999999999999999999999999984 5577776554
No 281
>PF06711 DUF1198: Protein of unknown function (DUF1198); InterPro: IPR009587 This family consists of several bacterial proteins of around 150 residues in length which are specific to Escherichia coli, Salmonella species and Yersinia pestis. The function of this family is unknown.
Probab=21.84 E-value=65 Score=28.19 Aligned_cols=25 Identities=28% Similarity=0.294 Sum_probs=22.1
Q ss_pred cHHHHHHHhCCCHHHHHHHHHHHHh
Q 014576 337 TLKRLAELLCLSIQEAEKHLSDMVV 361 (422)
Q Consensus 337 sl~~La~ll~ls~~e~E~~ls~mI~ 361 (422)
-..+||++|+++|--+|..+++|=.
T Consensus 27 A~~~Ls~rL~I~Pv~iESMl~qMGk 51 (148)
T PF06711_consen 27 AIRRLSERLNIKPVYIESMLDQMGK 51 (148)
T ss_pred HHHHHHHHhCCCceeHHHHHHHHhH
Confidence 3578999999999999999999954
No 282
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=21.59 E-value=6.6e+02 Score=23.38 Aligned_cols=89 Identities=18% Similarity=0.151 Sum_probs=63.5
Q ss_pred cCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHH
Q 014576 123 AMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIR 202 (422)
Q Consensus 123 ~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~ 202 (422)
..+..++.-++|+.+-||-..+|...-+.++++|...+-..-.. +..+.+ ...+.++-| +.+.
T Consensus 111 ~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~-------------e~~~~~--~~~~~~l~Y--Lige 173 (214)
T PF09986_consen 111 KEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYEN-------------EDFPIE--GMDEATLLY--LIGE 173 (214)
T ss_pred CCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHh-------------CcCCCC--CchHHHHHH--HHHH
Confidence 34566999999999999999999888888988887644221100 011111 234565544 4458
Q ss_pred HHHhhccHHHHHHHHHHHhhcCCCCC
Q 014576 203 YYSHNNDYLEICRCYKAIYEIPYIKE 228 (422)
Q Consensus 203 ~~~~~~~y~ea~~~y~e~~~~~~~~~ 228 (422)
++-.-|+|-+|.+.|-.+...+....
T Consensus 174 L~rrlg~~~eA~~~fs~vi~~~~~s~ 199 (214)
T PF09986_consen 174 LNRRLGNYDEAKRWFSRVIGSKKASK 199 (214)
T ss_pred HHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence 88889999999999999999877643
No 283
>KOG1900 consensus Nuclear pore complex, Nup155 component (D Nup154, sc Nup157/Nup170) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.40 E-value=1e+03 Score=28.59 Aligned_cols=57 Identities=9% Similarity=0.186 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCCCCChhhHHHHHHHHHHHHHhCCCCh
Q 014576 194 RIYYELMIRYYSHNNDYLEICRCYKAIYEIPYIKEDPAQWMPVLRKICWYLVLAPHDP 251 (422)
Q Consensus 194 lk~~~~~~~~~~~~~~y~ea~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~ILa~~~~ 251 (422)
+|+.++.-+||.-...|.+|+.-++.+- |.+-.-.-++|++.|..|+.|+=-+..+.
T Consensus 1007 lk~~dLLw~YY~K~e~~~~AA~VL~rLA-t~~~~itLeqRiEyLsRA~~~~~s~s~~s 1063 (1311)
T KOG1900|consen 1007 LKIFDLLWKYYEKREQFSQAAHVLYRLA-TSSFDITLEQRIEYLSRAVGFAKSSSPSS 1063 (1311)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcCCCccHHHHHHHHHHHhhhcccCCCch
Confidence 6899999999999999999999888877 33222223689999999999877665543
No 284
>PRK10167 hypothetical protein; Provisional
Probab=21.25 E-value=6.2e+02 Score=22.88 Aligned_cols=49 Identities=16% Similarity=0.175 Sum_probs=34.4
Q ss_pred HHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHH
Q 014576 48 VTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKL 96 (422)
Q Consensus 48 i~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~L 96 (422)
.+..++.+++|+...-+.+.|..+.+.+..-..|++-+.+-..-++.-+
T Consensus 92 ~~NvL~Hi~GYFKk~Ls~~EKq~l~~lI~~Yr~g~vpl~vpltlL~h~~ 140 (169)
T PRK10167 92 HTNVLMHVQGYFRPHIDSTERQQLAALIDSYRRGEQPLLAPLMRIKHYM 140 (169)
T ss_pred hHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 4466677777877766777888888888888888887765444444333
No 285
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=21.15 E-value=1.3e+03 Score=26.65 Aligned_cols=55 Identities=22% Similarity=0.313 Sum_probs=41.7
Q ss_pred cchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHH
Q 014576 82 KIYVEIERARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQ 150 (422)
Q Consensus 82 ki~~E~era~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~ 150 (422)
-.+-|.+|..+-..+|.+...+|+|..|++-... - +.| |.-||-.|+.||..+..
T Consensus 1137 ~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQ--------A--GdK----l~AMraLLKSGdt~KI~ 1191 (1416)
T KOG3617|consen 1137 DMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQ--------A--GDK----LSAMRALLKSGDTQKIR 1191 (1416)
T ss_pred CCccHHHHHHHHHHHHHHHHhccchHHHHHHHhh--------h--hhH----HHHHHHHHhcCCcceEE
Confidence 4888999999999999999999999999983332 1 122 34678888888875433
No 286
>PRK04841 transcriptional regulator MalT; Provisional
Probab=21.11 E-value=1e+03 Score=26.68 Aligned_cols=68 Identities=15% Similarity=0.046 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccc
Q 014576 92 LIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPR 159 (422)
Q Consensus 92 l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~ 159 (422)
....++..+...|++++|...+....-.....-+.............+++..||+..|..+..++...
T Consensus 493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~ 560 (903)
T PRK04841 493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQL 560 (903)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 44567888888999999988887755322221223333445566678899999999999988887553
No 287
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.02 E-value=5.2e+02 Score=22.44 Aligned_cols=33 Identities=27% Similarity=0.232 Sum_probs=29.7
Q ss_pred cccccHHHHHHHhCCCHHHHHHHHHHHHhcCeE
Q 014576 333 YSRITLKRLAELLCLSIQEAEKHLSDMVVSKAL 365 (422)
Q Consensus 333 Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i 365 (422)
..-++=+.||+.+|++..++-+.|..|-.+|.+
T Consensus 13 ~~~~~dedLa~~l~i~~n~vRkiL~~L~ed~~~ 45 (147)
T smart00531 13 NGCVTEEDLAELLGIKQKQLRKILYLLYDEKLI 45 (147)
T ss_pred cCCcCHHHHHHHhCCCHHHHHHHHHHHHhhhcc
Confidence 356899999999999999999999999997765
No 288
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=20.96 E-value=1.1e+03 Score=25.78 Aligned_cols=97 Identities=11% Similarity=0.040 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHhccHHH----HHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCc
Q 014576 91 RLIKKLAKIKEEQGLIAE----AADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPS 166 (422)
Q Consensus 91 ~l~~~La~i~e~~g~~~e----Aa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~ 166 (422)
.+...||..+...|++++ |...+....- . ++. -...+.....++...|++..|..+++++.....
T Consensus 247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~-l----~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P----- 315 (656)
T PRK15174 247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ-F----NSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP----- 315 (656)
T ss_pred HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh-h----CCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-----
Confidence 344556777777777765 3444433221 1 111 224455557777788888888888877755311
Q ss_pred cccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 167 KEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
...+. +...+..+...++|-+|...|..+...
T Consensus 316 ---------------------~~~~a----~~~La~~l~~~G~~~eA~~~l~~al~~ 347 (656)
T PRK15174 316 ---------------------DLPYV----RAMYARALRQVGQYTAASDEFVQLARE 347 (656)
T ss_pred ---------------------CCHHH----HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 00111 123456666677777777777777653
No 289
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=20.94 E-value=1.1e+03 Score=25.78 Aligned_cols=98 Identities=11% Similarity=0.013 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCcccc
Q 014576 90 ARLIKKLAKIKEEQGLIAEAADLMQEVAVETFGAMAKTEKIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEK 169 (422)
Q Consensus 90 a~l~~~La~i~e~~g~~~eAa~iL~~l~vEt~~~~~~~eK~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~ 169 (422)
..+...||.++...|++++|...++...- .. ++ -.+......+++...|++..|...+.++.... +
T Consensus 284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~-l~---P~--~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~---P----- 349 (656)
T PRK15174 284 VRIVTLYADALIRTGQNEKAIPLLQQSLA-TH---PD--LPYVRAMYARALRQVGQYTAASDEFVQLAREK---G----- 349 (656)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hC---CC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---c-----
Confidence 45778899999999999999999888552 21 11 12334445788899999999999998886531 1
Q ss_pred CCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhc
Q 014576 170 KKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNNDYLEICRCYKAIYEI 223 (422)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~~y~ea~~~y~e~~~~ 223 (422)
. .. .++...+..+...+++-+|-..|..+...
T Consensus 350 ------------------~--~~--~~~~~~a~al~~~G~~deA~~~l~~al~~ 381 (656)
T PRK15174 350 ------------------V--TS--KWNRYAAAALLQAGKTSEAESVFEHYIQA 381 (656)
T ss_pred ------------------c--ch--HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 0 11 12333455667789999999999988765
No 290
>PRK11050 manganese transport regulator MntR; Provisional
Probab=20.85 E-value=5.7e+02 Score=22.30 Aligned_cols=35 Identities=14% Similarity=0.096 Sum_probs=31.7
Q ss_pred ccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEE
Q 014576 334 SRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAK 368 (422)
Q Consensus 334 s~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ak 368 (422)
..++...||+.++++..-+-+.+..|...|-|.-+
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 56899999999999999999999999999977654
No 291
>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=20.79 E-value=4.6e+02 Score=21.28 Aligned_cols=65 Identities=14% Similarity=0.118 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHhccCCHHHHHHHHHHhccccccCCCccccCCCCCCCcccccCCCCccchHHHHHHHHHHHHHHHHhhc
Q 014576 129 KIAFILEQVRLCLDRQDYVRAQILSRKISPRVFDADPSKEKKKPKEGDNVVEEAPADIPSLLELKRIYYELMIRYYSHNN 208 (422)
Q Consensus 129 K~e~~Le~~rL~l~~~D~~~a~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlklk~~~~~~~~~~~~~ 208 (422)
..+..+.....++..+++..|.....++.... | . +. .++..++..+...+
T Consensus 16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~----p----------------------~--~~--~~~~~la~~~~~~~ 65 (135)
T TIGR02552 16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD----P----------------------Y--NS--RYWLGLAACCQMLK 65 (135)
T ss_pred hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC----C----------------------C--cH--HHHHHHHHHHHHHH
Confidence 35667788899999999999999998875421 1 0 01 23445667777788
Q ss_pred cHHHHHHHHHHHhhc
Q 014576 209 DYLEICRCYKAIYEI 223 (422)
Q Consensus 209 ~y~ea~~~y~e~~~~ 223 (422)
+|-+|...|..+...
T Consensus 66 ~~~~A~~~~~~~~~~ 80 (135)
T TIGR02552 66 EYEEAIDAYALAAAL 80 (135)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999888764
No 292
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=20.70 E-value=1.6e+02 Score=26.34 Aligned_cols=56 Identities=21% Similarity=0.224 Sum_probs=33.6
Q ss_pred HHHHHHHHhhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcC---eEEEEeccCCcEEEEccC
Q 014576 322 IEHNILVVSKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSK---ALVAKIDRPQGIVCFQVA 381 (422)
Q Consensus 322 iEhNi~~isk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~---~i~akIDq~~giV~F~~~ 381 (422)
+|-=|.+-.+| ++++.|++.++ ++++++..+.+|..+= .=-=.|-+.+|-..|..+
T Consensus 3 iEAlLF~s~~p---vs~~~La~~l~-~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk 61 (159)
T PF04079_consen 3 IEALLFASGEP---VSIEELAEILG-SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTK 61 (159)
T ss_dssp HHHHHHH-SS----B-HHHHHHHCT--HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-
T ss_pred hHhhHHHcCCC---CCHHHHHHHhC-CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEh
Confidence 44444444455 99999999999 9999999998887642 112334444555555443
No 293
>KOG2460 consensus Signal recognition particle, subunit Srp68 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.57 E-value=4.6e+02 Score=28.17 Aligned_cols=84 Identities=23% Similarity=0.207 Sum_probs=46.1
Q ss_pred cCHHHHHHHHHHHhhh-hhhHHHHHHHHHHHHHhhhcCCCCHHHHHHHHHHHHhhhcCcchHHHHHHHHHHHHHHHHHHh
Q 014576 25 KDWKTLNEQIVNLSKK-RGQLKQAVTAMVQQAMQYIDQTPDLDTRIELIKTLNSVSAGKIYVEIERARLIKKLAKIKEEQ 103 (422)
Q Consensus 25 ~~~~~l~~~i~~l~k~-~~qlk~ai~~~v~~~~~~l~~~~~~~~~~~li~tL~~~~~~ki~~E~era~l~~~La~i~e~~ 103 (422)
+.|+....+-+...|| |-|--..+-+.|-..+.-+.++|+.+.--.+...|. -.++|| ++..+.-+|..|-+.
T Consensus 362 n~~~~~ls~~~~~~~k~rpqdl~RLYd~iiknl~e~~elPG~~~D~~l~sqle---~~~~~f---kafRC~~iA~sY~a~ 435 (593)
T KOG2460|consen 362 NLWNQWLSQQTSDPKKLRPQDLERLYDSIIKNLSEIMELPGLESDKELQSQLE---LKKLYF---KAFRCFYIAVSYQAK 435 (593)
T ss_pred hhHHHHHHhCcccccccCHHHHHHHHHHHHHHHHHHHhCCCcccchHHHHHHH---HHHHHH---HHHHHHHHHHHHHHH
Confidence 4455554444444444 222222233333333333446776543333444332 224666 666789999999999
Q ss_pred ccHHHHHHHHH
Q 014576 104 GLIAEAADLMQ 114 (422)
Q Consensus 104 g~~~eAa~iL~ 114 (422)
+.|.||+-+..
T Consensus 436 ~K~~EAlALy~ 446 (593)
T KOG2460|consen 436 KKYSEALALYV 446 (593)
T ss_pred HHHHHHHHHHH
Confidence 99999876443
No 294
>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain. It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.
Probab=20.33 E-value=2.5e+02 Score=22.16 Aligned_cols=50 Identities=24% Similarity=0.252 Sum_probs=38.4
Q ss_pred hhhcccccHHHHHHHhCCCHHHHHHHHHHHHhcCeEEEEeccCCcE-EEEc
Q 014576 330 SKYYSRITLKRLAELLCLSIQEAEKHLSDMVVSKALVAKIDRPQGI-VCFQ 379 (422)
Q Consensus 330 sk~Ys~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~akIDq~~gi-V~F~ 379 (422)
.+.|.=|.++-|.+..|++..+++..|.+++..|-+.-+.-.-+|. ++|.
T Consensus 19 mk~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~~kLv~~~~~~Y~GYrLT~~ 69 (82)
T PF09202_consen 19 MKNHEWVPLELIEKISGLSEGEVEKRLKRLVKLKLVSRRNKPYDGYRLTFL 69 (82)
T ss_dssp TTT-SSEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE-SSS-EEEE-HH
T ss_pred ccCCccCCHHHHHHHhCcCHHHHHHHHHHHHhcCCccccCCCcceEEEeec
Confidence 3789999999999999999999999999999999887766556776 6664
No 295
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=20.14 E-value=1.4e+02 Score=27.59 Aligned_cols=32 Identities=19% Similarity=0.260 Sum_probs=29.0
Q ss_pred cccHHHHHHHhCCCHHHHHHHHHHHHhcCeEE
Q 014576 335 RITLKRLAELLCLSIQEAEKHLSDMVVSKALV 366 (422)
Q Consensus 335 ~Isl~~La~ll~ls~~e~E~~ls~mI~~~~i~ 366 (422)
.+|-+.||+.+|++.+-+=+.+.+|-.+|.|.
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~ 215 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLA 215 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEE
Confidence 36788999999999999999999999999765
Done!