Query 014453
Match_columns 424
No_of_seqs 199 out of 759
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 05:16:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014453.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014453hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2582 COP9 signalosome, subu 100.0 1.3E-70 2.9E-75 529.0 29.8 411 4-422 5-421 (422)
2 KOG2581 26S proteasome regulat 100.0 6.7E-56 1.4E-60 431.9 23.8 371 6-393 71-459 (493)
3 KOG1498 26S proteasome regulat 99.9 2.8E-22 6.2E-27 196.3 18.0 235 142-387 173-424 (439)
4 KOG1464 COP9 signalosome, subu 99.7 7.2E-17 1.6E-21 152.3 16.2 214 156-379 214-431 (440)
5 KOG1463 26S proteasome regulat 99.7 2.3E-16 4.9E-21 152.5 19.3 274 75-361 67-393 (411)
6 PF01399 PCI: PCI domain; Int 99.7 1E-16 2.2E-21 132.8 12.0 104 254-358 1-105 (105)
7 KOG1497 COP9 signalosome, subu 99.7 1.3E-14 2.8E-19 139.3 26.9 227 141-386 145-383 (399)
8 COG5071 RPN5 26S proteasome re 99.7 2.1E-16 4.5E-21 150.6 13.2 233 142-385 173-422 (439)
9 KOG2688 Transcription-associat 99.7 7.5E-16 1.6E-20 153.8 13.3 206 143-359 166-385 (394)
10 COG5600 Transcription-associat 99.5 2E-13 4.3E-18 133.9 15.3 209 142-360 179-405 (413)
11 COG5159 RPN6 26S proteasome re 99.5 1.6E-12 3.5E-17 123.7 18.3 187 173-365 202-395 (421)
12 smart00088 PINT motif in prote 99.3 4.7E-11 1E-15 96.3 10.5 73 290-363 2-74 (88)
13 smart00753 PAM PCI/PINT associ 99.3 4.7E-11 1E-15 96.3 10.5 73 290-363 2-74 (88)
14 KOG2908 26S proteasome regulat 99.2 1.4E-08 3.1E-13 99.0 28.1 266 75-361 54-342 (380)
15 PF10255 Paf67: RNA polymerase 98.3 9E-05 2E-09 75.7 21.5 177 144-332 126-340 (404)
16 KOG1076 Translation initiation 98.3 4E-05 8.6E-10 81.1 18.1 101 258-359 659-764 (843)
17 COG5187 RPN7 26S proteasome re 98.3 0.00033 7.1E-09 67.7 22.6 259 96-361 113-379 (412)
18 KOG0687 26S proteasome regulat 98.2 0.00019 4.2E-09 70.2 20.4 248 97-361 103-365 (393)
19 KOG0686 COP9 signalosome, subu 98.1 0.00061 1.3E-08 68.6 20.1 216 132-359 179-411 (466)
20 KOG2072 Translation initiation 97.8 0.0057 1.2E-07 66.2 23.3 73 286-358 421-493 (988)
21 PF08375 Rpn3_C: Proteasome re 97.7 5.2E-05 1.1E-09 57.9 4.5 43 361-403 1-44 (68)
22 KOG2758 Translation initiation 97.0 0.12 2.7E-06 50.9 19.9 130 255-393 290-421 (432)
23 KOG2753 Uncharacterized conser 96.9 0.5 1.1E-05 46.9 26.2 257 98-366 79-348 (378)
24 PF10075 PCI_Csn8: COP9 signal 96.4 0.0078 1.7E-07 52.9 6.1 81 253-337 41-121 (143)
25 PF13432 TPR_16: Tetratricopep 95.8 0.027 5.8E-07 41.8 5.7 61 146-209 3-64 (65)
26 PRK15359 type III secretion sy 95.6 0.088 1.9E-06 46.2 9.3 106 94-210 20-126 (144)
27 TIGR02552 LcrH_SycD type III s 95.6 0.17 3.6E-06 43.0 10.8 90 114-210 29-119 (135)
28 PF09976 TPR_21: Tetratricopep 95.5 0.049 1.1E-06 47.6 7.4 89 111-204 57-145 (145)
29 PF13371 TPR_9: Tetratricopept 95.3 0.032 6.9E-07 42.3 4.7 59 148-209 3-62 (73)
30 PF14938 SNAP: Soluble NSF att 95.1 0.25 5.5E-06 48.2 11.6 167 114-286 86-268 (282)
31 PF07719 TPR_2: Tetratricopept 95.1 0.046 9.9E-07 34.9 4.3 31 178-208 2-33 (34)
32 TIGR02795 tol_pal_ybgF tol-pal 95.0 0.19 4E-06 41.1 9.0 94 115-209 15-109 (119)
33 PRK12370 invasion protein regu 94.9 1.3 2.8E-05 47.6 17.4 205 119-344 321-539 (553)
34 PF12895 Apc3: Anaphase-promot 94.8 0.079 1.7E-06 41.6 5.8 77 121-203 8-84 (84)
35 PF13414 TPR_11: TPR repeat; P 94.6 0.095 2.1E-06 39.2 5.5 63 142-207 5-69 (69)
36 PLN03088 SGT1, suppressor of 93.7 0.37 8E-06 48.9 9.5 90 114-210 14-104 (356)
37 PF00515 TPR_1: Tetratricopept 93.5 0.15 3.3E-06 32.6 4.1 31 178-208 2-33 (34)
38 cd00189 TPR Tetratricopeptide 93.2 0.71 1.5E-05 34.3 8.3 86 115-207 13-99 (100)
39 PF09012 FeoC: FeoC like trans 92.9 0.29 6.3E-06 37.3 5.6 47 302-349 4-50 (69)
40 PRK10370 formate-dependent nit 92.2 1.3 2.8E-05 41.1 10.1 90 114-210 85-178 (198)
41 PRK10803 tol-pal system protei 91.8 1.1 2.5E-05 43.5 9.5 94 116-210 157-251 (263)
42 TIGR03302 OM_YfiO outer membra 91.6 1.8 3.9E-05 40.4 10.6 110 96-210 31-149 (235)
43 PF13174 TPR_6: Tetratricopept 91.4 0.35 7.5E-06 30.3 3.7 30 180-209 3-33 (33)
44 PF13181 TPR_8: Tetratricopept 91.0 0.37 8E-06 30.6 3.6 30 178-207 2-32 (34)
45 PF09295 ChAPs: ChAPs (Chs5p-A 90.8 1.3 2.8E-05 45.7 9.2 81 115-202 213-293 (395)
46 PF08784 RPA_C: Replication pr 90.8 0.23 5.1E-06 40.8 3.1 37 312-349 65-101 (102)
47 PF13424 TPR_12: Tetratricopep 90.4 0.54 1.2E-05 36.0 4.7 64 142-205 7-74 (78)
48 KOG3677 RNA polymerase I-assoc 90.2 11 0.00025 38.8 14.9 233 145-390 240-523 (525)
49 TIGR00990 3a0801s09 mitochondr 89.3 13 0.00028 40.4 16.0 63 143-208 436-499 (615)
50 PRK15359 type III secretion sy 88.9 3.4 7.4E-05 36.0 9.2 76 125-210 16-92 (144)
51 PRK10747 putative protoheme IX 88.4 3.9 8.5E-05 42.0 10.7 88 122-209 245-361 (398)
52 PF14559 TPR_19: Tetratricopep 88.2 0.51 1.1E-05 34.9 3.0 56 151-209 2-58 (68)
53 PF14853 Fis1_TPR_C: Fis1 C-te 87.9 1.6 3.5E-05 31.7 5.3 32 178-209 2-34 (53)
54 KOG1126 DNA-binding cell divis 87.8 3 6.4E-05 45.0 9.3 108 92-210 415-523 (638)
55 PF13412 HTH_24: Winged helix- 87.7 2.2 4.8E-05 29.7 5.9 41 303-344 8-48 (48)
56 TIGR02552 LcrH_SycD type III s 87.4 2.4 5.3E-05 35.6 7.2 79 124-209 5-84 (135)
57 TIGR00990 3a0801s09 mitochondr 86.9 42 0.00092 36.4 18.2 89 114-209 343-432 (615)
58 PRK10803 tol-pal system protei 86.8 3 6.5E-05 40.6 8.2 73 149-224 152-225 (263)
59 TIGR02917 PEP_TPR_lipo putativ 86.6 14 0.0003 40.6 14.5 89 114-209 137-226 (899)
60 PF10602 RPN7: 26S proteasome 86.0 9.7 0.00021 34.7 10.7 120 81-208 22-144 (177)
61 cd00189 TPR Tetratricopeptide 85.9 3.2 7E-05 30.5 6.5 63 144-209 4-67 (100)
62 smart00028 TPR Tetratricopepti 85.1 2 4.4E-05 25.0 4.2 29 179-207 3-32 (34)
63 CHL00033 ycf3 photosystem I as 85.1 4.9 0.00011 35.7 8.2 91 114-205 47-141 (168)
64 TIGR02917 PEP_TPR_lipo putativ 84.6 23 0.0005 38.9 15.0 60 146-208 742-802 (899)
65 PRK11788 tetratricopeptide rep 84.4 47 0.001 33.2 16.9 90 115-208 48-139 (389)
66 TIGR03302 OM_YfiO outer membra 84.1 3.4 7.3E-05 38.5 7.1 74 137-210 30-104 (235)
67 TIGR02521 type_IV_pilW type IV 84.0 30 0.00065 30.7 17.3 87 115-208 44-130 (234)
68 PF12569 NARP1: NMDA receptor- 83.7 6.5 0.00014 42.0 9.6 61 142-205 196-256 (517)
69 smart00550 Zalpha Z-DNA-bindin 82.9 4.3 9.4E-05 30.8 5.9 44 301-345 9-54 (68)
70 PF13429 TPR_15: Tetratricopep 82.9 2.1 4.5E-05 41.4 5.1 92 111-209 155-247 (280)
71 TIGR02795 tol_pal_ybgF tol-pal 82.8 3.3 7.1E-05 33.5 5.7 65 145-209 7-72 (119)
72 PRK09782 bacteriophage N4 rece 82.8 7.8 0.00017 44.8 10.4 46 116-166 590-635 (987)
73 PF13176 TPR_7: Tetratricopept 82.4 1.9 4.2E-05 28.1 3.3 25 181-205 3-27 (36)
74 PRK11189 lipoprotein NlpI; Pro 82.4 9.3 0.0002 37.5 9.6 88 115-209 77-165 (296)
75 PF09756 DDRGK: DDRGK domain; 82.1 3.4 7.4E-05 38.1 5.9 49 309-358 110-158 (188)
76 PF12688 TPR_5: Tetratrico pep 81.7 8.2 0.00018 32.9 7.8 93 112-205 11-103 (120)
77 PRK15174 Vi polysaccharide exp 81.6 10 0.00022 41.8 10.5 92 113-211 295-387 (656)
78 PRK15363 pathogenicity island 81.1 7.8 0.00017 34.7 7.7 94 106-206 39-133 (157)
79 PF13414 TPR_11: TPR repeat; P 80.9 2.5 5.4E-05 31.3 3.9 34 177-210 3-37 (69)
80 PF03399 SAC3_GANP: SAC3/GANP/ 80.7 10 0.00022 34.7 8.8 63 258-324 140-204 (204)
81 PRK02603 photosystem I assembl 80.7 11 0.00023 33.6 8.7 74 115-192 48-121 (172)
82 PRK02603 photosystem I assembl 80.6 4.4 9.5E-05 36.2 6.1 68 142-209 37-105 (172)
83 KOG4414 COP9 signalosome, subu 79.7 5.2 0.00011 35.2 5.8 44 290-334 110-153 (197)
84 CHL00033 ycf3 photosystem I as 79.5 5.6 0.00012 35.2 6.4 72 138-209 33-105 (168)
85 KOG3250 COP9 signalosome, subu 79.4 17 0.00036 34.3 9.3 95 254-357 60-154 (258)
86 PF12802 MarR_2: MarR family; 79.1 10 0.00022 27.5 6.7 38 313-351 22-59 (62)
87 PF01047 MarR: MarR family; I 79.1 9.8 0.00021 27.4 6.5 51 300-351 5-55 (59)
88 PF13429 TPR_15: Tetratricopep 78.8 2.7 5.9E-05 40.5 4.4 91 114-210 89-180 (280)
89 COG3071 HemY Uncharacterized e 77.8 22 0.00047 36.4 10.4 105 91-209 256-361 (400)
90 PLN03218 maturation of RBCL 1; 77.7 43 0.00093 39.2 14.3 17 326-342 769-785 (1060)
91 PF02082 Rrf2: Transcriptional 77.7 13 0.00029 29.1 7.3 51 312-364 25-75 (83)
92 TIGR02521 type_IV_pilW type IV 77.6 15 0.00032 32.7 8.8 91 114-209 77-168 (234)
93 KOG0543 FKBP-type peptidyl-pro 76.9 6.6 0.00014 40.2 6.5 70 138-210 255-325 (397)
94 PRK15331 chaperone protein Sic 76.7 32 0.0007 31.1 10.2 127 76-209 10-137 (165)
95 PF13428 TPR_14: Tetratricopep 76.7 4 8.6E-05 27.8 3.6 31 180-210 4-35 (44)
96 PRK11179 DNA-binding transcrip 76.4 7.9 0.00017 34.2 6.3 38 311-349 22-62 (153)
97 cd05804 StaR_like StaR_like; a 76.3 31 0.00066 34.0 11.3 114 114-234 126-242 (355)
98 PRK11169 leucine-responsive tr 76.3 6.7 0.00015 35.1 5.9 49 300-349 16-67 (164)
99 PRK11788 tetratricopeptide rep 76.2 86 0.0019 31.2 16.7 91 115-209 120-213 (389)
100 PLN03218 maturation of RBCL 1; 75.9 18 0.00039 42.2 10.6 24 142-165 439-462 (1060)
101 PRK11189 lipoprotein NlpI; Pro 75.9 8.3 0.00018 37.9 7.0 83 125-210 49-132 (296)
102 PF13525 YfiO: Outer membrane 75.1 46 0.00099 30.6 11.4 96 113-209 16-123 (203)
103 PF13424 TPR_12: Tetratricopep 75.1 4.8 0.0001 30.5 4.1 32 175-206 3-34 (78)
104 PF01726 LexA_DNA_bind: LexA D 74.6 5.9 0.00013 30.0 4.3 32 313-344 26-57 (65)
105 PRK10866 outer membrane biogen 74.3 82 0.0018 30.0 15.1 66 145-210 37-103 (243)
106 cd00092 HTH_CRP helix_turn_hel 73.8 12 0.00027 27.3 6.0 34 311-345 24-57 (67)
107 PF10037 MRP-S27: Mitochondria 73.8 9.3 0.0002 39.8 6.9 78 125-205 85-166 (429)
108 PF09986 DUF2225: Uncharacteri 73.3 30 0.00066 32.5 9.7 39 173-211 161-199 (214)
109 COG1522 Lrp Transcriptional re 73.2 11 0.00023 32.9 6.4 47 302-349 12-61 (154)
110 PRK10049 pgaA outer membrane p 73.2 26 0.00056 39.3 10.8 93 111-210 368-461 (765)
111 TIGR00540 hemY_coli hemY prote 72.8 16 0.00034 37.6 8.4 93 111-209 272-370 (409)
112 PF12895 Apc3: Anaphase-promot 72.6 4.7 0.0001 31.3 3.5 49 153-202 2-50 (84)
113 PRK15363 pathogenicity island 72.3 17 0.00037 32.6 7.3 88 136-234 32-120 (157)
114 PF14938 SNAP: Soluble NSF att 72.2 32 0.0007 33.4 10.0 97 116-212 129-232 (282)
115 PRK10153 DNA-binding transcrip 71.8 37 0.00081 36.4 11.1 65 141-209 421-486 (517)
116 PRK09782 bacteriophage N4 rece 71.7 25 0.00054 40.7 10.4 92 110-209 550-642 (987)
117 smart00419 HTH_CRP helix_turn_ 71.3 8.5 0.00018 26.2 4.2 32 312-344 8-39 (48)
118 PLN03088 SGT1, suppressor of 71.2 15 0.00033 37.2 7.7 61 146-209 8-69 (356)
119 PRK12370 invasion protein regu 71.1 14 0.00031 39.6 7.9 85 114-205 350-434 (553)
120 PRK10049 pgaA outer membrane p 70.4 1E+02 0.0022 34.7 14.7 97 113-210 283-393 (765)
121 PF04733 Coatomer_E: Coatomer 70.1 19 0.00041 35.5 7.9 48 180-234 204-252 (290)
122 PRK15431 ferrous iron transpor 70.0 14 0.0003 29.1 5.4 45 302-348 6-50 (78)
123 KOG1174 Anaphase-promoting com 69.8 14 0.00031 38.2 6.9 67 140-210 438-505 (564)
124 PLN03081 pentatricopeptide (PP 69.8 1.2E+02 0.0026 33.4 15.1 59 141-205 159-217 (697)
125 COG1729 Uncharacterized protei 68.7 13 0.00029 36.1 6.2 71 151-224 152-223 (262)
126 PRK10370 formate-dependent nit 68.6 24 0.00051 32.6 7.8 83 121-209 58-143 (198)
127 PRK15174 Vi polysaccharide exp 68.2 1.2E+02 0.0027 33.3 14.6 55 148-205 84-138 (656)
128 smart00344 HTH_ASNC helix_turn 67.8 17 0.00037 29.7 6.0 34 310-344 15-48 (108)
129 PF09976 TPR_21: Tetratricopep 66.7 39 0.00084 29.1 8.4 70 133-202 41-110 (145)
130 smart00418 HTH_ARSR helix_turn 66.6 18 0.00038 25.7 5.3 44 310-354 8-51 (66)
131 cd00090 HTH_ARSR Arsenical Res 66.5 36 0.00078 24.8 7.2 45 313-358 21-65 (78)
132 PF12569 NARP1: NMDA receptor- 66.3 1.7E+02 0.0037 31.4 14.6 90 115-208 241-336 (517)
133 PF00325 Crp: Bacterial regula 66.3 13 0.00028 24.1 3.8 31 312-343 2-32 (32)
134 TIGR02010 IscR iron-sulfur clu 66.2 16 0.00034 31.5 5.8 61 312-374 25-85 (135)
135 PF04703 FaeA: FaeA-like prote 65.4 16 0.00034 27.4 4.8 34 310-344 13-46 (62)
136 PF09339 HTH_IclR: IclR helix- 65.2 11 0.00023 26.8 3.8 38 306-344 12-49 (52)
137 PRK15179 Vi polysaccharide bio 65.1 33 0.00071 38.2 9.2 128 74-208 47-186 (694)
138 PF13374 TPR_10: Tetratricopep 64.7 12 0.00025 24.3 3.7 28 179-206 4-31 (42)
139 KOG2047 mRNA splicing factor [ 63.5 96 0.0021 34.1 11.8 93 117-209 362-457 (835)
140 KOG3054 Uncharacterized conser 61.8 36 0.00079 32.6 7.5 49 308-357 210-258 (299)
141 cd05804 StaR_like StaR_like; a 61.8 58 0.0013 32.1 9.7 66 140-208 114-180 (355)
142 cd07377 WHTH_GntR Winged helix 61.4 22 0.00048 25.6 5.1 32 312-344 24-56 (66)
143 PF13432 TPR_16: Tetratricopep 61.3 22 0.00047 25.7 5.0 29 181-209 1-30 (65)
144 PRK15179 Vi polysaccharide bio 61.3 1.8E+02 0.004 32.4 14.2 162 25-206 49-217 (694)
145 PF12840 HTH_20: Helix-turn-he 61.3 40 0.00087 24.6 6.4 47 299-346 11-57 (61)
146 PRK14574 hmsH outer membrane p 60.7 49 0.0011 37.6 9.8 86 115-209 47-135 (822)
147 PF14559 TPR_19: Tetratricopep 60.0 33 0.00072 24.9 5.9 51 114-168 3-53 (68)
148 PRK09954 putative kinase; Prov 59.9 26 0.00057 35.2 6.9 54 303-357 8-64 (362)
149 PF08220 HTH_DeoR: DeoR-like h 59.1 27 0.0006 25.4 5.1 43 301-344 3-45 (57)
150 PF13512 TPR_18: Tetratricopep 58.6 80 0.0017 27.8 8.7 89 119-209 27-132 (142)
151 PF01325 Fe_dep_repress: Iron 58.6 33 0.00072 25.3 5.5 41 303-344 13-53 (60)
152 KOG2076 RNA polymerase III tra 58.0 33 0.00072 38.6 7.5 66 142-209 416-482 (895)
153 PHA03249 DNA packaging tegumen 58.0 95 0.0021 33.6 10.6 281 88-407 207-515 (653)
154 PLN03081 pentatricopeptide (PP 58.0 61 0.0013 35.8 9.9 58 142-205 261-318 (697)
155 TIGR02944 suf_reg_Xantho FeS a 57.9 23 0.0005 30.1 5.3 36 311-347 24-59 (130)
156 COG2345 Predicted transcriptio 57.4 30 0.00064 32.8 6.2 50 299-349 12-61 (218)
157 PRK11906 transcriptional regul 57.4 1.8E+02 0.0038 30.7 12.3 81 122-209 324-405 (458)
158 KOG0495 HAT repeat protein [RN 57.3 1E+02 0.0022 34.1 10.7 104 118-232 735-866 (913)
159 PRK10747 putative protoheme IX 57.2 43 0.00093 34.3 8.0 88 113-206 129-216 (398)
160 PRK11447 cellulose synthase su 57.1 71 0.0015 37.7 10.7 58 149-209 360-418 (1157)
161 TIGR00540 hemY_coli hemY prote 57.1 44 0.00095 34.3 8.1 90 111-206 127-216 (409)
162 PF13525 YfiO: Outer membrane 56.9 25 0.00054 32.4 5.7 62 147-210 12-76 (203)
163 COG1497 Predicted transcriptio 56.9 1.3E+02 0.0029 28.9 10.3 50 295-345 7-57 (260)
164 COG5124 Protein predicted to b 56.8 44 0.00095 30.5 6.8 67 327-404 42-109 (209)
165 PF13404 HTH_AsnC-type: AsnC-t 56.5 31 0.00068 23.6 4.7 27 310-337 15-41 (42)
166 PRK11447 cellulose synthase su 55.8 48 0.001 39.1 9.0 61 142-205 605-665 (1157)
167 smart00420 HTH_DEOR helix_turn 55.6 62 0.0013 22.0 6.4 34 311-345 13-46 (53)
168 PLN03098 LPA1 LOW PSII ACCUMUL 55.5 36 0.00079 35.6 7.0 66 139-206 74-141 (453)
169 TIGR03879 near_KaiC_dom probab 55.2 24 0.00052 27.4 4.3 42 301-343 21-62 (73)
170 KOG1156 N-terminal acetyltrans 54.8 86 0.0019 34.3 9.7 91 112-209 17-108 (700)
171 PF10345 Cohesin_load: Cohesin 54.5 2.9E+02 0.0063 30.1 14.3 130 105-234 102-242 (608)
172 PRK03902 manganese transport t 54.3 1.4E+02 0.0031 25.7 10.7 39 305-344 15-53 (142)
173 KOG1129 TPR repeat-containing 53.6 22 0.00047 35.9 4.8 86 142-234 360-446 (478)
174 PLN03077 Protein ECB2; Provisi 53.2 97 0.0021 35.1 10.7 56 142-205 224-281 (857)
175 KOG1840 Kinesin light chain [C 52.9 1.9E+02 0.004 31.1 12.0 188 4-205 199-395 (508)
176 PF13463 HTH_27: Winged helix 52.9 85 0.0018 22.9 7.1 43 306-349 12-54 (68)
177 TIGR00738 rrf2_super rrf2 fami 52.8 27 0.00059 29.6 4.9 60 312-373 25-84 (132)
178 PF13545 HTH_Crp_2: Crp-like h 52.7 27 0.00059 26.3 4.4 42 312-358 28-69 (76)
179 PF05331 DUF742: Protein of un 52.4 31 0.00068 29.2 5.0 44 302-348 47-90 (114)
180 PHA02943 hypothetical protein; 52.4 1.3E+02 0.0028 26.9 8.9 49 309-359 21-69 (165)
181 TIGR02702 SufR_cyano iron-sulf 52.1 99 0.0022 28.5 8.9 45 301-346 4-48 (203)
182 COG4700 Uncharacterized protei 51.1 1.8E+02 0.004 27.2 10.0 61 144-209 128-193 (251)
183 PF09743 DUF2042: Uncharacteri 50.9 84 0.0018 30.8 8.5 94 303-411 2-98 (272)
184 smart00345 HTH_GNTR helix_turn 50.8 38 0.00082 23.8 4.7 32 312-344 19-51 (60)
185 PRK10857 DNA-binding transcrip 50.8 34 0.00073 30.8 5.3 60 312-373 25-84 (164)
186 KOG2316 Predicted ATPase (PP-l 50.7 26 0.00057 33.2 4.6 45 304-349 114-163 (277)
187 KOG1125 TPR repeat-containing 50.4 1.1E+02 0.0024 32.9 9.7 119 94-221 312-489 (579)
188 PF09295 ChAPs: ChAPs (Chs5p-A 50.2 1.2E+02 0.0026 31.4 9.8 64 143-209 203-267 (395)
189 PF01022 HTH_5: Bacterial regu 50.1 62 0.0013 22.3 5.5 33 311-344 14-46 (47)
190 PF09613 HrpB1_HrpK: Bacterial 49.8 72 0.0016 28.7 7.1 62 145-209 15-76 (160)
191 PF01978 TrmB: Sugar-specific 49.6 58 0.0013 24.2 5.7 39 309-348 19-57 (68)
192 KOG3364 Membrane protein invol 49.3 36 0.00078 29.9 4.9 53 156-209 51-104 (149)
193 KOG1129 TPR repeat-containing 48.7 1.1E+02 0.0025 30.9 8.9 86 115-208 236-322 (478)
194 KOG4162 Predicted calmodulin-b 48.3 1.2E+02 0.0026 33.9 9.7 119 83-208 658-786 (799)
195 PF10300 DUF3808: Protein of u 48.2 3.6E+02 0.0077 28.5 13.3 101 123-233 254-356 (468)
196 COG2976 Uncharacterized protei 47.6 87 0.0019 29.3 7.4 87 114-206 101-188 (207)
197 TIGR02337 HpaR homoprotocatech 47.4 1.6E+02 0.0035 24.3 10.0 42 309-351 39-80 (118)
198 PRK06266 transcription initiat 47.0 2.3E+02 0.0049 25.9 11.4 64 311-378 35-100 (178)
199 PF00392 GntR: Bacterial regul 46.5 53 0.0011 24.1 5.0 33 311-344 22-55 (64)
200 PF08631 SPO22: Meiosis protei 45.5 1.8E+02 0.0038 28.2 9.9 59 148-206 1-65 (278)
201 PRK11920 rirA iron-responsive 45.0 83 0.0018 27.8 6.9 48 312-361 24-71 (153)
202 PF03704 BTAD: Bacterial trans 44.5 58 0.0013 27.8 5.8 54 106-163 66-119 (146)
203 KOG3081 Vesicle coat complex C 44.2 60 0.0013 31.8 6.1 44 184-234 214-258 (299)
204 PRK14165 winged helix-turn-hel 43.9 93 0.002 29.4 7.3 48 310-358 19-66 (217)
205 COG1959 Predicted transcriptio 43.8 73 0.0016 28.1 6.3 53 302-355 13-67 (150)
206 COG3063 PilF Tfp pilus assembl 43.7 1.8E+02 0.0038 28.0 9.0 123 97-234 34-156 (250)
207 TIGR01610 phage_O_Nterm phage 43.4 1.4E+02 0.0029 24.1 7.3 46 309-357 44-89 (95)
208 TIGR01764 excise DNA binding d 43.3 68 0.0015 21.4 4.9 38 313-357 2-39 (49)
209 TIGR00498 lexA SOS regulatory 43.2 60 0.0013 29.7 5.9 36 313-348 26-61 (199)
210 PF04492 Phage_rep_O: Bacterio 42.9 84 0.0018 25.9 6.0 32 311-343 53-84 (100)
211 PRK10866 outer membrane biogen 42.9 1.6E+02 0.0035 28.0 9.0 105 116-225 46-170 (243)
212 PF13730 HTH_36: Helix-turn-he 42.5 38 0.00083 23.9 3.6 30 313-343 26-55 (55)
213 PF13512 TPR_18: Tetratricopep 42.2 1.3E+02 0.0027 26.6 7.3 64 145-210 15-81 (142)
214 PRK14720 transcript cleavage f 42.1 3.2E+02 0.007 31.5 12.3 73 126-206 20-92 (906)
215 COG3071 HemY Uncharacterized e 41.7 1.1E+02 0.0023 31.5 7.7 92 104-205 298-389 (400)
216 KOG2002 TPR-containing nuclear 41.4 57 0.0012 37.2 6.2 66 144-209 274-340 (1018)
217 PRK10141 DNA-binding transcrip 41.4 2.2E+02 0.0048 24.1 9.1 43 312-357 30-72 (117)
218 PRK14574 hmsH outer membrane p 41.0 1.3E+02 0.0028 34.2 9.1 95 115-210 340-450 (822)
219 TIGR02561 HrpB1_HrpK type III 40.6 91 0.002 27.8 6.2 59 145-207 15-74 (153)
220 PF08679 DsrD: Dissimilatory s 40.5 54 0.0012 25.0 4.0 36 309-344 16-51 (67)
221 KOG1173 Anaphase-promoting com 40.5 1.7E+02 0.0038 31.5 9.2 105 122-232 434-542 (611)
222 PF06163 DUF977: Bacterial pro 40.1 88 0.0019 27.0 5.8 44 300-344 14-57 (127)
223 KOG3151 26S proteasome regulat 38.9 2E+02 0.0043 27.7 8.5 43 294-336 174-216 (260)
224 KOG1861 Leucine permease trans 38.3 3.1E+02 0.0067 29.1 10.4 190 125-330 284-496 (540)
225 PRK11014 transcriptional repre 38.2 57 0.0012 28.2 4.7 45 312-357 25-69 (141)
226 PF07721 TPR_4: Tetratricopept 37.8 41 0.00089 20.1 2.6 22 180-201 4-25 (26)
227 PF08279 HTH_11: HTH domain; 37.7 1.4E+02 0.0031 20.9 6.9 30 311-341 14-43 (55)
228 KOG2003 TPR repeat-containing 37.3 1.6E+02 0.0035 31.0 8.2 89 114-209 570-659 (840)
229 PF10602 RPN7: 26S proteasome 37.3 2E+02 0.0042 26.1 8.2 70 141-211 37-107 (177)
230 PF04977 DivIC: Septum formati 37.2 99 0.0021 23.4 5.5 39 369-407 26-64 (80)
231 PF12793 SgrR_N: Sugar transpo 37.0 2.5E+02 0.0055 23.6 8.9 50 311-361 18-70 (115)
232 PRK03573 transcriptional regul 36.9 2.2E+02 0.0048 24.3 8.2 40 312-352 46-85 (144)
233 COG4105 ComL DNA uptake lipopr 36.5 2.4E+02 0.0051 27.4 8.8 34 175-208 165-198 (254)
234 PRK11512 DNA-binding transcrip 36.0 1.2E+02 0.0025 26.2 6.3 41 311-352 53-93 (144)
235 PF03962 Mnd1: Mnd1 family; I 36.0 1.2E+02 0.0027 27.8 6.7 34 313-347 12-50 (188)
236 PF09999 DUF2240: Uncharacteri 35.9 2.3E+02 0.005 25.0 8.0 89 323-415 32-140 (144)
237 PF12070 DUF3550: Protein of u 35.8 1.2E+02 0.0026 32.4 7.3 99 176-287 70-180 (513)
238 KOG1126 DNA-binding cell divis 35.7 2.1E+02 0.0045 31.4 9.1 107 94-210 482-591 (638)
239 COG2956 Predicted N-acetylgluc 35.7 53 0.0012 33.1 4.4 66 140-208 180-246 (389)
240 smart00346 HTH_ICLR helix_turn 35.4 1E+02 0.0022 24.0 5.3 34 311-345 19-52 (91)
241 KOG0553 TPR repeat-containing 34.9 2.3E+02 0.0049 28.2 8.5 85 119-210 98-183 (304)
242 PRK10512 selenocysteinyl-tRNA- 34.4 2.8E+02 0.006 30.5 10.1 81 310-403 504-586 (614)
243 PRK09210 RNA polymerase sigma 34.0 3.9E+02 0.0084 27.2 10.6 149 257-406 117-348 (367)
244 COG1729 Uncharacterized protei 33.7 2.1E+02 0.0046 27.8 8.1 84 123-211 162-250 (262)
245 KOG0548 Molecular co-chaperone 33.6 1.7E+02 0.0037 31.3 7.9 97 115-221 371-468 (539)
246 PF07106 TBPIP: Tat binding pr 32.9 3.5E+02 0.0077 24.0 9.7 82 310-393 14-102 (169)
247 KOG1128 Uncharacterized conser 32.8 1.8E+02 0.0039 32.4 8.1 34 177-210 519-553 (777)
248 KOG4507 Uncharacterized conser 32.8 67 0.0014 34.9 4.8 88 116-209 621-709 (886)
249 PRK10434 srlR DNA-bindng trans 32.2 1E+02 0.0022 29.7 5.7 45 299-344 6-50 (256)
250 PHA02992 hypothetical protein; 31.9 1.8E+02 0.0039 32.2 7.9 119 217-335 21-161 (728)
251 KOG2911 Uncharacterized conser 31.8 2.7E+02 0.0058 29.1 8.7 92 317-408 178-271 (439)
252 KOG0553 TPR repeat-containing 31.3 2.6E+02 0.0057 27.8 8.3 153 179-345 83-250 (304)
253 PRK15418 transcriptional regul 31.2 1.5E+02 0.0033 29.6 6.9 47 303-350 18-66 (318)
254 COG4783 Putative Zn-dependent 30.9 2.7E+02 0.0059 29.5 8.8 108 91-205 319-436 (484)
255 KOG2002 TPR-containing nuclear 30.4 2.4E+02 0.0052 32.5 8.7 70 141-211 681-751 (1018)
256 PF09743 DUF2042: Uncharacteri 30.1 3E+02 0.0066 26.9 8.6 84 310-406 68-154 (272)
257 KOG3060 Uncharacterized conser 30.0 1.8E+02 0.0039 28.4 6.8 85 116-208 134-223 (289)
258 COG1321 TroR Mn-dependent tran 29.9 1.1E+02 0.0023 27.3 5.1 55 301-359 13-67 (154)
259 TIGR01889 Staph_reg_Sar staphy 29.8 3.1E+02 0.0067 22.4 8.3 40 311-351 42-81 (109)
260 PRK10046 dpiA two-component re 29.7 1.5E+02 0.0032 27.3 6.3 46 304-350 169-214 (225)
261 PF12728 HTH_17: Helix-turn-he 29.6 1.2E+02 0.0026 21.0 4.4 38 313-357 2-39 (51)
262 TIGR00373 conserved hypothetic 29.5 4E+02 0.0088 23.6 10.5 63 312-378 28-92 (158)
263 PRK10906 DNA-binding transcrip 29.3 1.2E+02 0.0027 29.1 5.8 45 299-344 6-50 (252)
264 PF14947 HTH_45: Winged helix- 29.2 2.6E+02 0.0057 21.4 7.2 33 310-343 17-49 (77)
265 KOG0547 Translocase of outer m 29.2 3.6E+02 0.0079 28.9 9.3 72 131-208 422-494 (606)
266 PF04545 Sigma70_r4: Sigma-70, 29.2 1E+02 0.0022 21.3 3.9 29 310-339 18-46 (50)
267 COG3107 LppC Putative lipoprot 29.0 7.7E+02 0.017 26.7 11.8 207 112-349 73-288 (604)
268 KOG0547 Translocase of outer m 28.9 4E+02 0.0087 28.5 9.5 106 178-295 395-510 (606)
269 PF12862 Apc5: Anaphase-promot 28.5 1.8E+02 0.0039 23.1 5.8 62 146-208 4-72 (94)
270 COG5010 TadD Flp pilus assembl 28.3 3E+02 0.0064 26.8 8.0 65 141-208 101-166 (257)
271 PRK13509 transcriptional repre 28.3 1.4E+02 0.003 28.7 5.9 46 299-345 6-51 (251)
272 PRK10870 transcriptional repre 28.3 3.5E+02 0.0077 24.3 8.3 39 312-351 71-109 (176)
273 PF13591 MerR_2: MerR HTH fami 28.3 1E+02 0.0023 24.2 4.3 32 313-349 1-32 (84)
274 TIGR01884 cas_HTH CRISPR locus 27.8 1.5E+02 0.0033 27.3 5.9 35 311-346 156-190 (203)
275 COG3355 Predicted transcriptio 27.5 4E+02 0.0088 23.0 10.2 50 310-360 40-91 (126)
276 cd03562 CID CID (CTD-Interacti 27.3 2.2E+02 0.0049 23.3 6.4 68 2-70 2-69 (114)
277 TIGR02787 codY_Gpos GTP-sensin 27.2 2.4E+02 0.0051 27.3 7.0 36 311-347 197-232 (251)
278 PRK10265 chaperone-modulator p 26.8 2.6E+02 0.0056 22.9 6.5 42 310-357 5-46 (101)
279 KOG3252 Uncharacterized conser 26.8 4.2E+02 0.0091 24.6 8.2 86 254-352 99-184 (217)
280 PHA02695 hypothetical protein; 26.8 2.2E+02 0.0049 31.4 7.5 104 217-321 20-136 (725)
281 PF08672 APC2: Anaphase promot 26.0 2E+02 0.0044 21.3 5.1 37 310-346 9-54 (60)
282 PRK10411 DNA-binding transcrip 24.9 1.7E+02 0.0038 27.8 5.9 46 299-345 5-50 (240)
283 KOG4424 Predicted Rho/Rac guan 24.5 3.6E+02 0.0077 29.3 8.4 42 190-232 219-261 (623)
284 PF08221 HTH_9: RNA polymerase 24.4 3E+02 0.0064 20.3 7.8 37 308-345 23-59 (62)
285 PF04967 HTH_10: HTH DNA bindi 23.9 1.2E+02 0.0026 21.9 3.5 26 312-338 23-48 (53)
286 PF07720 TPR_3: Tetratricopept 23.9 1.7E+02 0.0037 19.2 3.9 24 178-201 2-25 (36)
287 KOG3060 Uncharacterized conser 23.6 6.4E+02 0.014 24.7 9.2 69 137-210 117-188 (289)
288 cd06171 Sigma70_r4 Sigma70, re 23.6 2.2E+02 0.0049 18.7 5.5 43 294-337 7-50 (55)
289 PF04539 Sigma70_r3: Sigma-70 23.6 2.4E+02 0.0052 21.2 5.5 38 299-337 6-44 (78)
290 COG5010 TadD Flp pilus assembl 23.5 6.9E+02 0.015 24.3 10.1 114 108-234 106-219 (257)
291 PF14493 HTH_40: Helix-turn-he 23.5 1.1E+02 0.0024 24.3 3.6 31 311-342 12-42 (91)
292 COG5625 Predicted transcriptio 23.4 1.5E+02 0.0032 24.6 4.2 68 313-386 37-107 (113)
293 KOG1155 Anaphase-promoting com 23.4 9.3E+02 0.02 25.7 11.6 110 120-234 348-503 (559)
294 KOG1173 Anaphase-promoting com 23.2 2.9E+02 0.0063 29.9 7.4 80 125-209 300-413 (611)
295 cd04762 HTH_MerR-trunc Helix-T 23.2 1.5E+02 0.0033 19.5 3.9 39 313-357 1-39 (49)
296 PF13812 PPR_3: Pentatricopept 23.2 86 0.0019 19.0 2.4 24 142-165 3-26 (34)
297 PF03704 BTAD: Bacterial trans 22.8 2.4E+02 0.0051 23.9 5.9 62 141-205 63-124 (146)
298 PF05843 Suf: Suppressor of fo 22.7 4.3E+02 0.0094 25.5 8.4 69 153-228 49-119 (280)
299 PF05584 Sulfolobus_pRN: Sulfo 22.7 3.3E+02 0.0073 21.1 5.8 41 303-346 11-51 (72)
300 PF10884 DUF2683: Protein of u 22.4 65 0.0014 25.4 1.9 25 394-418 47-71 (80)
301 PF08281 Sigma70_r4_2: Sigma-7 22.4 2.5E+02 0.0055 19.4 5.0 45 293-338 6-51 (54)
302 KOG1156 N-terminal acetyltrans 22.4 2.5E+02 0.0055 30.8 6.9 56 150-208 381-438 (700)
303 PF13371 TPR_9: Tetratricopept 22.3 89 0.0019 22.8 2.7 26 184-209 2-28 (73)
304 KOG1586 Protein required for f 22.2 7.3E+02 0.016 24.1 10.9 160 148-309 81-255 (288)
305 PLN02789 farnesyltranstransfer 21.6 8.1E+02 0.017 24.4 10.1 87 115-209 50-141 (320)
306 KOG2376 Signal recognition par 21.5 2.9E+02 0.0062 30.2 7.0 63 143-205 113-203 (652)
307 PF02259 FAT: FAT domain; Int 21.5 7.4E+02 0.016 23.9 11.0 103 107-209 151-291 (352)
308 PRK00215 LexA repressor; Valid 21.4 2.5E+02 0.0054 25.7 6.1 37 312-348 23-59 (205)
309 PF15015 NYD-SP12_N: Spermatog 21.3 9.8E+02 0.021 25.3 10.7 63 142-207 230-292 (569)
310 PRK09334 30S ribosomal protein 21.2 4.4E+02 0.0095 21.2 6.8 40 309-349 38-77 (86)
311 COG3413 Predicted DNA binding 21.0 1.8E+02 0.0039 27.0 5.1 41 297-338 155-203 (215)
312 PF10771 DUF2582: Protein of u 21.0 2.3E+02 0.005 21.4 4.6 44 310-356 20-63 (65)
313 PF10345 Cohesin_load: Cohesin 21.0 3.7E+02 0.008 29.3 8.2 48 121-168 40-88 (608)
314 KOG0030 Myosin essential light 20.7 2.6E+02 0.0057 24.7 5.5 65 252-340 71-136 (152)
315 PF02002 TFIIE_alpha: TFIIE al 20.4 2.2E+02 0.0047 23.1 4.9 36 311-347 26-61 (105)
316 KOG1127 TPR repeat-containing 20.3 2.5E+02 0.0053 32.7 6.5 81 119-206 579-659 (1238)
317 COG4367 Uncharacterized protei 20.2 1.2E+02 0.0026 24.4 3.0 25 310-335 21-45 (97)
No 1
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-70 Score=528.96 Aligned_cols=411 Identities=42% Similarity=0.646 Sum_probs=396.2
Q ss_pred HHHHHHHHhhcCCCcccHHHHHHHHHHhHHHHhhhcccccccccccCcchhhHHHHHHHhhccccccchhhhccHHHHHH
Q 014453 4 IENLVTQIQGLSSNASDITALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSITKERANTLVPIIA 83 (424)
Q Consensus 4 l~~~~~~i~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~l~ll~~~~~~~~~~~~~~~l~~~~~ 83 (424)
++..++.++++++++ ++.+|.+.+.++.+.|++++++++.+|..+||..||+|++|++..+.....+..+++++++++.
T Consensus 5 l~a~i~~~~~~~~~~-~~~eL~~~i~~~~ell~k~~~~~~~~L~~ld~~~hSlgml~~l~~~f~~~~~~~~~~~li~~~~ 83 (422)
T KOG2582|consen 5 LEAAINELCSLSHSS-NVGELAELIVKSKELLAKNSSDLDAVLLHLDPQVHSLGMLAVLKVKFHTPSANPDPETLIELLN 83 (422)
T ss_pred HHHHHHHHHhhhcCC-cHHHHHHHHHhhHHHHHhCcchHHHHHHhcCccccchhhhhhhhccccCcccCCCHHHHHHHHH
Confidence 788999999999999 9999999999999999999999999999999999999999999999987764457789999999
Q ss_pred HHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcc
Q 014453 84 RFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVL 163 (424)
Q Consensus 84 ~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il 163 (424)
+|+.++|.+|+|++++.|..+|+.+...+.+.++|.+|++++.+|+.++.+++.++|++|..++++||.+++|..+++++
T Consensus 84 ~FV~~~n~eqlr~as~~f~~lc~~l~~~~~~~~~p~~gi~ii~~av~k~~~~~~qlT~~H~~l~~~~L~ak~y~~~~p~l 163 (422)
T KOG2582|consen 84 DFVDENNGEQLRLASEIFFPLCHDLTEAVVKKNKPLRGIRIIMQAVDKMQPSNGQLTSIHADLLQLCLEAKDYASVLPYL 163 (422)
T ss_pred HHHHhcChHHHhhHHHHHHHHHHHHHHHHHhcCCccccchHHHHHHHHhccCccchhhhHHHHHHHHHHhhcccccCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccc------cCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHHHHHhcCCCCCCC
Q 014453 164 EDDIYEI------NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTL 237 (424)
Q Consensus 164 ~~~i~~~------~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~p~ 237 (424)
+.+|.++ .+|+.++.|+||||||+++.++|++|..+|+.|+++|+.+++.|+.|||||++||+||..|++. .+
T Consensus 164 d~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~Pa~~vs~~hlEaYkkylLvsLI~~GK~~-ql 242 (422)
T KOG2582|consen 164 DDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTTPAMAVSHIHLEAYKKYLLVSLILTGKVF-QL 242 (422)
T ss_pred chhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhhhcCcee-ec
Confidence 9999988 3478999999999999999999999999999999999999999999999999999999999999 89
Q ss_pred CcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHH
Q 014453 238 PKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQD 317 (424)
Q Consensus 238 p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~ 317 (424)
|+++|+.+.|.+|....||++|+++|-++...+++.++.+|.+.|.+|||.|+++++...+++++|.+++|+|++++|+|
T Consensus 243 ~k~ts~~~~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt~l~k~av~sl~k~nI~rltktF~sLsL~d 322 (422)
T KOG2582|consen 243 PKNTSQNAGRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNTGLAKQAVSSLYKKNIQRLTKTFLSLSLSD 322 (422)
T ss_pred cccchhhhHHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHHHHHHHhHHhhcCH
Q 014453 318 IANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSKKLTAMDELISCDP 397 (424)
Q Consensus 318 Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~~~~~~d~~l~~~~ 397 (424)
||++.+|.+.+|||..|.+||.+|+|.|.|| |+|.|.++++.|.++|+. +..|..|.+|.++++.||+.|.++|
T Consensus 323 IA~~vQLa~~qevek~Ilqmie~~~i~a~iN---G~v~f~~n~e~~~SpeM~---~nk~~~~~~L~e~l~~~e~si~l~s 396 (422)
T KOG2582|consen 323 IASRVQLASAQEVEKYILQMIEDGEIFASIN---GMVFFTDNPEKYNSPEMH---ENKIDLCIQLIEALKAMEESIRLNS 396 (422)
T ss_pred HHHHHHhcchHHHHHHHHHHhccCceEEEec---ceEEEecCcccCCCHHHH---hhHHHHHHHHHHHHHhcchheeeCc
Confidence 9999999999999999999999999999998 999999999999999874 4489999999999999999999999
Q ss_pred HHHHHhhhhhccCCCCCCCCCCccc
Q 014453 398 LYLGKAGRERQRFDFDDFDSVPQKF 422 (424)
Q Consensus 398 ~yi~~~~~~~~~~~~~~~~~~~~~~ 422 (424)
-|++|.++.+.+.-.++++.+|++|
T Consensus 397 ~~~~K~m~~~~d~~~~~p~t~s~~f 421 (422)
T KOG2582|consen 397 VYVSKSMGSQEDDGGSMPPTESKFF 421 (422)
T ss_pred eeeehhhhhhhccccCCCCccCCCC
Confidence 9999999999988999999999987
No 2
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.7e-56 Score=431.93 Aligned_cols=371 Identities=23% Similarity=0.306 Sum_probs=316.5
Q ss_pred HHHHHHhhcCCCcc-cHHHHHHHHHHhH------HH--Hhhhcccc-cccccccCcchhhHHHHHHHhhccccccchhhh
Q 014453 6 NLVTQIQGLSSNAS-DITALKDYLKAAE------DL--LRSESTRL-LSFLDQLDPSKHSLGYLYFLEPCMYCSITKERA 75 (424)
Q Consensus 6 ~~~~~i~~~~~~~~-~~~~l~~~l~~~~------~~--l~~~~~~~-~~~L~~ldp~~~sl~~l~ll~~~~~~~~~~~~~ 75 (424)
.++..++.+.++++ ....+..++.+.. +. ....++.. .++.++++++.|.|+.|++.+.|..... ...+
T Consensus 71 vL~~~v~~~~~~~se~~~~~l~fv~~~~~~~~p~~~~s~~t~~a~~~k~~~~Ei~aY~~lLv~Lfl~d~K~~kea-~~~~ 149 (493)
T KOG2581|consen 71 VLYKLVSSLLSSGSEAMDRLLRFVPAFDKNIKPLDTDSPNTQSALKRKPLPAEIEAYLYLLVLLFLIDQKEYKEA-DKIS 149 (493)
T ss_pred HHHHHHHHHcCCchHHHHHHHhhcccccccCCcccccccccccccccCCchHHHHHHHHHHHHHHHHhhHHHHHH-HHHH
Confidence 46677788877762 3334555444421 00 11111122 4445589999999999999999987665 3455
Q ss_pred ccHHHHHHHHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhcc---ccchHH--HHHHHHhhCCCCCCcchHHHHHHHHH
Q 014453 76 NTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAP---IRGVGP--MLTAIRKIQSSTEHLTTLHPEFLQLC 150 (424)
Q Consensus 76 ~~l~~~~~~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~---~~~i~~--L~~A~~rl~~~~~~lT~~h~~l~rlc 150 (424)
+..+..+ ..|+||+.|.+.+++++|..+++|.... +|+... |++|.+| ++..+...+-.+++|.+
T Consensus 150 ~~~l~~i--------~~~nrRtlD~i~ak~~fy~~l~~E~~~~l~~~rs~l~~~lrtAtLr--hd~e~qavLiN~LLr~y 219 (493)
T KOG2581|consen 150 DALLASI--------SIQNRRTLDLIAAKLYFYLYLSYELEGRLADIRSFLHALLRTATLR--HDEEGQAVLINLLLRNY 219 (493)
T ss_pred HHHHHHH--------HhcchhhHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhhhc--CcchhHHHHHHHHHHHH
Confidence 5666665 5679999999999999999999987775 445433 7888754 66777888999999999
Q ss_pred HHccChHHHHhccccccccccC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHH
Q 014453 151 LLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLI 228 (424)
Q Consensus 151 L~~~~y~~Al~il~~~i~~~~~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL 228 (424)
|..+.|++|.++++|..++-.. ++++++|+||.|+|.+.+++|++|.++|.+|++ +|+.++-++...+.|..|+|+||
T Consensus 220 L~n~lydqa~~lvsK~~~pe~~snne~ARY~yY~GrIkaiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll 299 (493)
T KOG2581|consen 220 LHNKLYDQADKLVSKSVYPEAASNNEWARYLYYLGRIKAIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELL 299 (493)
T ss_pred hhhHHHHHHHHHhhcccCccccccHHHHHHHHHHhhHHHhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHH
Confidence 9999999999999998875432 569999999999999999999999999999999 99987778888887877888988
Q ss_pred hcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHh
Q 014453 229 HHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQ 308 (424)
Q Consensus 229 ~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~ 308 (424)
+ |.+|+ ++.|.++.+++.+.||..|++|++.||+.+|+.+++++.+.|..||++.|+.+|+++|++++||+|+.
T Consensus 300 ~-geiPe-----rs~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISl 373 (493)
T KOG2581|consen 300 L-GEIPE-----RSVFRQPGMRKSLRPYFKLTQAVRLGDLKKFNETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISL 373 (493)
T ss_pred c-CCCcc-----hhhhcCccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheee
Confidence 6 99993 89999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHH-HHH
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSK-KLT 387 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~-~~~ 387 (424)
+|||||+.|||++|+|+|+++||.+|+++|+||.|.|+|||++|+++.++..++|+|.+|+.+|+.+|++|++|++ .++
T Consensus 374 sYSRISl~DIA~kL~l~Seed~EyiVakAIRDGvIea~Id~~~g~m~skE~~diy~t~epQ~~f~~rI~fCl~LhN~~vk 453 (493)
T KOG2581|consen 374 SYSRISLQDIAKKLGLNSEEDAEYIVAKAIRDGVIEAKIDHEDGFMQSKETFDIYSTREPQTAFDERIRFCLQLHNEAVK 453 (493)
T ss_pred eeeeccHHHHHHHhcCCCchhHHHHHHHHHHhccceeeeccccCceehhhhhhhhccCCchhhHhHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999997 667
Q ss_pred HHhHHh
Q 014453 388 AMDELI 393 (424)
Q Consensus 388 ~~d~~l 393 (424)
.|...=
T Consensus 454 amRyPp 459 (493)
T KOG2581|consen 454 AMRYPP 459 (493)
T ss_pred HhcCCC
Confidence 775543
No 3
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=2.8e-22 Score=196.26 Aligned_cols=235 Identities=16% Similarity=0.305 Sum_probs=194.9
Q ss_pred HHHHHHHHHHHccChHHHHhcccccccc--ccC-chhhHHHHHHHHHHHHh--hhcHHHHHHHHHHHhcccCccccHHH-
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYE--INL-PRDFFLYCYYGGMIFIG--QKRFRKALELLHNVVTAPMSSINAIA- 215 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~--~~~-~~~~l~Y~YY~G~I~~~--~~~y~~A~~~~~~a~~~P~~~~s~i~- 215 (424)
..++++|||+..++|.+| .+++|+|.. ++. ..+.+...||--||.++ .+.|-+++++|..+..+|....++-.
T Consensus 173 fiLEQmrKOG~~~D~vra-~i~skKI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw 251 (439)
T KOG1498|consen 173 FILEQMRLCLLRLDYVRA-QIISKKINKKFFEKPDVQELKLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKW 251 (439)
T ss_pred HHHHHHHHHHHhhhHHHH-HHHHHHhhHHhcCCccHHHHHHHHHHHHHHhcccccchhhHHHHHHHHhcccccccChhhh
Confidence 568999999999999999 999998753 332 23556666666666665 57999999999999999997655432
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhh----hccHHHHHHHHHHhcCCHHHHHHHHHHcccccccc----c-
Q 014453 216 VEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLK----NFSQPYMELVNTYNTGKIVELETYVQTNREKFESD----N- 286 (424)
Q Consensus 216 ~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k----~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~D----g- 286 (424)
.+.+...+..++| . |+.+.+|+++++.-. +..+.|..+++.|.++.+..|..+.+.++..+.++ +
T Consensus 252 ~~vL~~iv~f~~L-----A-p~dneQsdll~~is~dKkL~e~p~~k~lLklfv~~EL~rw~s~~~~yg~~l~~~~~~~~~ 325 (439)
T KOG1498|consen 252 IEVLRSIVSFCVL-----A-PHDNEQSDLLARISNDKKLSELPDYKELLKLFVTMELIRWVSLVESYGDELRTNDFFDGG 325 (439)
T ss_pred hhhhhhheeEEee-----c-CCCcHHHHHHHHHhcccccccCccHHHHHHHHHhcceeeehhHhhhhHHHHhhccccccc
Confidence 3444443344444 3 899999999887643 23677999999999999999999999988888766 2
Q ss_pred --chhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccC
Q 014453 287 --NLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYK 364 (424)
Q Consensus 287 --n~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~ 364 (424)
+-+.|.++..++++||||.++++|++|++.+++..++++ ++++|.+++.||..|.|.|+||++.|++.|....+
T Consensus 326 ~~gek~~~dL~~RIiEHNiRiiA~yYSrIt~~rl~eLLdl~-~ee~E~~LS~lv~t~ti~aKidrpsgII~F~k~K~--- 401 (439)
T KOG1498|consen 326 EEGEKRWSDLKLRIIEHNIRIIAKYYSRITLKRLAELLDLP-VEEMEKFLSDLVVTGTIYAKIDRPSGIINFQKVKD--- 401 (439)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHhCCC-HHHHHHHHHHHHhccceEEEecCCCceEEEEeccc---
Confidence 234799999999999999999999999999999999998 89999999999999999999999999999998876
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 014453 365 TCEMIEHIDSSIQRIMSLSKKLT 387 (424)
Q Consensus 365 ~~~~~~~~~~~i~~~~~L~~~~~ 387 (424)
..+.+++|+.++..++.+.+...
T Consensus 402 ~~~~LneW~~nve~L~~ll~K~~ 424 (439)
T KOG1498|consen 402 SNEILNEWASNVEKLLGLLEKVS 424 (439)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHH
Confidence 56889999999999999887654
No 4
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.73 E-value=7.2e-17 Score=152.28 Aligned_cols=214 Identities=14% Similarity=0.253 Sum_probs=176.6
Q ss_pred hHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHHHHHhcCCCCC
Q 014453 156 YKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSS 235 (424)
Q Consensus 156 y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~ 235 (424)
|++|+.+=+. +|.|.-.-...-+||.+++..++|++|...|..|+.....++|+-+..|+|++||..+|+...+.
T Consensus 214 YeqalhiKSA----IPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iN- 288 (440)
T KOG1464|consen 214 YEQALHIKSA----IPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGIN- 288 (440)
T ss_pred HHHHHHhhcc----CCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCC-
Confidence 5666554333 22244444555699999999999999999999999999999999899999999999999999999
Q ss_pred CCCcccCHHHhhhhhh--ccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhc
Q 014453 236 TLPKYTSSAAQRNLKN--FSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLT 312 (424)
Q Consensus 236 p~p~~~s~~~~~~~k~--~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~ 312 (424)
|++. +. .+.||+ .+.+...++.||...|+.+|++++..++.....|.-. .-++.+..+++...+.++.++|++
T Consensus 289 PFDs---QE-AKPyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~ 364 (440)
T KOG1464|consen 289 PFDS---QE-AKPYKNDPEILAMTNLVAAYQNNDIIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTN 364 (440)
T ss_pred CCcc---cc-cCCCCCCHHHHHHHHHHHHHhcccHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 9863 32 345664 3567889999999999999999999999988888754 578889999999999999999999
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccCh-HHHHHHHHHHHHHH
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKT-CEMIEHIDSSIQRI 379 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~-~~~~~~~~~~i~~~ 379 (424)
|.++-|++.|+++ +.+++.++.+.|.|..|.|+||+.++++...+....-+. -.....|..++..+
T Consensus 365 i~Ipfis~~Lnv~-~~dV~~LLV~~ILD~~i~g~Ide~n~~l~~~~~~~s~~k~~~al~kW~~ql~Sl 431 (440)
T KOG1464|consen 365 IGIPFISKELNVP-EADVESLLVSCILDDTIDGRIDEVNQYLELDKSKNSGSKLYKALDKWNNQLKSL 431 (440)
T ss_pred cCchhhHhhcCCC-HHHHHHHHHHHHhccccccchHHhhhHhccCccCCcchHHHHHHHHHHHHHHHH
Confidence 9999999999998 899999999999999999999999999988765543222 24556676665544
No 5
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=2.3e-16 Score=152.51 Aligned_cols=274 Identities=14% Similarity=0.228 Sum_probs=196.6
Q ss_pred hccHHHHHHHHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCc--chHHHHHHHHHHH
Q 014453 75 ANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHL--TTLHPEFLQLCLL 152 (424)
Q Consensus 75 ~~~l~~~~~~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~l--T~~h~~l~rlcL~ 152 (424)
-.++++.+..|+..|. .-++...++.+++.+...-... -..|..+..-|..-....-++ -++...++++++.
T Consensus 67 lr~li~~~Rpf~~~v~---KakaaKlvR~Lvd~~~~~~~~~---~~~i~l~~~cIeWA~~ekRtFLRq~Learli~Ly~d 140 (411)
T KOG1463|consen 67 LRDLITSLRPFLSSVS---KAKAAKLVRSLVDMFLKIDDGT---GDQIELCTECIEWAKREKRTFLRQSLEARLIRLYND 140 (411)
T ss_pred HHHHHHHHHHHHHHhh---hHHHHHHHHHHHHHHccCCCCc---chHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHh
Confidence 3467888888887665 2334444444444332210000 111222222222211111111 1466788999999
Q ss_pred ccChHHHHhccccccccc---c-C----------------------------------------chhhHHHHHHHHHHHH
Q 014453 153 AKCYKAGLSVLEDDIYEI---N-L----------------------------------------PRDFFLYCYYGGMIFI 188 (424)
Q Consensus 153 ~~~y~~Al~il~~~i~~~---~-~----------------------------------------~~~~l~Y~YY~G~I~~ 188 (424)
.+.|..|+++++.-+-++ + + |+.+.....-.|.+++
T Consensus 141 ~~~YteAlaL~~~L~rElKKlDDK~lLvev~llESK~y~~l~Nl~KakasLTsART~AnaiYcpPqlQa~lDLqSGIlha 220 (411)
T KOG1463|consen 141 TKRYTEALALINDLLRELKKLDDKILLVEVHLLESKAYHALRNLPKAKASLTSARTTANAIYCPPQLQATLDLQSGILHA 220 (411)
T ss_pred hHHHHHHHHHHHHHHHHHHhcccccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcccccCHHHHHHHHHhccceee
Confidence 999999998776433221 0 0 5678899999999999
Q ss_pred hhhcHHHHHHHHHHHhcccCccccH-HHHHHHHHHHHHHHHhcCCCCCCCCcccCHHH-hhh---hh-hccHHHHHHHHH
Q 014453 189 GQKRFRKALELLHNVVTAPMSSINA-IAVEAYKKYILVSLIHHGQFSSTLPKYTSSAA-QRN---LK-NFSQPYMELVNT 262 (424)
Q Consensus 189 ~~~~y~~A~~~~~~a~~~P~~~~s~-i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~-~~~---~k-~~~~~Y~~L~~a 262 (424)
..+||..|+.||..|+.-.....+. -...++|+++|+.+++ +... ....++ .|. |. +.+...+..++|
T Consensus 221 ~ekDykTafSYFyEAfEgf~s~~~~v~A~~sLKYMlLcKIMl-n~~d-----dv~~lls~K~~l~y~g~~i~AmkavAeA 294 (411)
T KOG1463|consen 221 AEKDYKTAFSYFYEAFEGFDSLDDDVKALTSLKYMLLCKIML-NLPD-----DVAALLSAKLALKYAGRDIDAMKAVAEA 294 (411)
T ss_pred cccccchHHHHHHHHHccccccCCcHHHHHHHHHHHHHHHHh-cCHH-----HHHHHHhhHHHHhccCcchHHHHHHHHH
Confidence 9999999999999999955543332 3467888877766655 4433 122222 222 21 346778999999
Q ss_pred HhcCCHHHHHHHHHHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcC
Q 014453 263 YNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDG 341 (424)
Q Consensus 263 ~~~gdl~~~~~~l~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G 341 (424)
|.++++..|...+..|..++..|... ....-|..++.+.|+-++..+||++.++.||+.+|++ ...+|.-+++||.|.
T Consensus 295 ~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~lLEknl~riIEPyS~Vei~hIA~~IGl~-~~~VEkKLsqMILDK 373 (411)
T KOG1463|consen 295 FGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDNLLEKNLCRIIEPYSRVEISHIAEVIGLD-VPQVEKKLSQMILDK 373 (411)
T ss_pred hcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHHHHHHhHHHHcCchhhhhHHHHHHHHCCC-cHHHHHHHHHHHHHH
Confidence 99999999999999999999999865 3567789999999999999999999999999999998 899999999999999
Q ss_pred ceEEEEecCCCEEEEecCCC
Q 014453 342 EIFATINQKDGMVRFLEDPE 361 (424)
Q Consensus 342 ~I~A~Id~~~g~v~F~~~~~ 361 (424)
.+.|++||.+|++.-.+.++
T Consensus 374 kf~G~LDQg~g~Liv~~e~~ 393 (411)
T KOG1463|consen 374 KFYGTLDQGEGCLIVFEEPP 393 (411)
T ss_pred HhhcccccCCCeEEEeCCCC
Confidence 99999999999888776655
No 6
>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=99.71 E-value=1e-16 Score=132.81 Aligned_cols=104 Identities=29% Similarity=0.566 Sum_probs=96.8
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHc-ccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHH
Q 014453 254 QPYMELVNTYNTGKIVELETYVQTN-REKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (424)
Q Consensus 254 ~~Y~~L~~a~~~gdl~~~~~~l~~~-~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~ 332 (424)
++|.+|.++|.+||+..|.+.++++ ...|.+++...+++.+...++++++++++++|++|++++||+.++++ .+++|.
T Consensus 1 ~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l~~l~~~y~~i~~~~ia~~l~~~-~~~vE~ 79 (105)
T PF01399_consen 1 PPYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNLRQLSKPYSSISISEIAKALQLS-EEEVES 79 (105)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHC-SEEEHHHHHHHHTCC-HHHHHH
T ss_pred CHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHhccc-hHHHHH
Confidence 5799999999999999999999999 77778888889999999999999999999999999999999999998 799999
Q ss_pred HHHHhHHcCceEEEEecCCCEEEEec
Q 014453 333 HVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 333 ~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
+|.+||.+|.|.|+|||.+|+|+|+.
T Consensus 80 ~l~~~I~~~~i~~~ID~~~~~v~~~k 105 (105)
T PF01399_consen 80 ILIDLISNGLIKAKIDQVNGVVVFSK 105 (105)
T ss_dssp HHHHHHHTTSSEEEEETTTTEEEE-S
T ss_pred HHHHHHHCCCEEEEEECCCCEEEecC
Confidence 99999999999999999999999963
No 7
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.70 E-value=1.3e-14 Score=139.27 Aligned_cols=227 Identities=17% Similarity=0.216 Sum_probs=179.0
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccc-c--CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHH
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEI-N--LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVE 217 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~-~--~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~e 217 (424)
.+-..+.|++|..++-..|..++++.-+.. + .+.-.+.|.-+-+++.-..++|-+|...|........ .......+
T Consensus 145 ~l~iriarlyLe~~d~veae~~inRaSil~a~~~Ne~Lqie~kvc~ARvlD~krkFlEAAqrYyels~~ki-~~e~~~~~ 223 (399)
T KOG1497|consen 145 LLCIRIARLYLEDDDKVEAEAYINRASILQAESSNEQLQIEYKVCYARVLDYKRKFLEAAQRYYELSQRKI-VDESERLE 223 (399)
T ss_pred HHHHHHHHHHHhcCcHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cchHHHHH
Confidence 445567788889999999989998864433 1 2345788999999999999999999877776554332 22245679
Q ss_pred HHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh----ccHHHHHHHHHH-----hcCCHHHHHHHHHHcccccccccch
Q 014453 218 AYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN----FSQPYMELVNTY-----NTGKIVELETYVQTNREKFESDNNL 288 (424)
Q Consensus 218 a~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~----~~~~Y~~L~~a~-----~~gdl~~~~~~l~~~~~~f~~Dgn~ 288 (424)
|+|+.+.+.+|+ + |-| .+|.+++..+|. .++.|.-+.+.| ++.++..|...+..|+..=..||..
T Consensus 224 aL~~a~~CtlLA-~----~gp-qrsr~Latlfkder~~~l~~y~ileKmyl~riI~k~el~ef~~~L~pHQka~~~dgss 297 (399)
T KOG1497|consen 224 ALKKALQCTLLA-S----AGP-QRSRMLATLFKDERCQKLPAYGILEKMYLERIIRKEELQEFEAFLQPHQKAHTMDGSS 297 (399)
T ss_pred HHHHhHhheeec-C----CCh-HHHHHHHHHhcCcccccccchHHHHHHHHHHHhcchhHHHHHHHhcchhhhcccCcch
Confidence 999977666655 2 333 489999988873 467787666655 5678999999999999887777754
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHH
Q 014453 289 GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEM 368 (424)
Q Consensus 289 ~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~ 368 (424)
- +-..+++|||..+++-|..||.+.+++.++++ ++.||.+.++||..|+++|.||+.+|+|+|.+. ++
T Consensus 298 i----l~ra~~EhNlls~Skly~nisf~~Lg~ll~i~-~ekaekiaa~MI~qeRmng~IDQ~egiihFe~~-------e~ 365 (399)
T KOG1497|consen 298 I----LDRAVIEHNLLSASKLYNNISFEELGALLKID-AEKAEKIAAQMITQERMNGSIDQIEGIIHFEDR-------EE 365 (399)
T ss_pred h----hhhHHHHHhHHHHHHHHHhccHHHHHHHhCCC-HHHHHHHHHHHHhHHHhccchHhhcceEeecch-------hh
Confidence 3 35788999999999999999999999999998 899999999999999999999999999999862 45
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014453 369 IEHIDSSIQRIMSLSKKL 386 (424)
Q Consensus 369 ~~~~~~~i~~~~~L~~~~ 386 (424)
...|+++|+.+..-.+.+
T Consensus 366 l~~wdkqi~sl~~qvNki 383 (399)
T KOG1497|consen 366 LPQWDKQIQSLCNQVNKI 383 (399)
T ss_pred hhhhhHHHHHHHHHHHHH
Confidence 677999998655554444
No 8
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=2.1e-16 Score=150.58 Aligned_cols=233 Identities=12% Similarity=0.173 Sum_probs=173.5
Q ss_pred HHHHHHHHHHHccChHHHHhcccccccc--c--cC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHH
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYE--I--NL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAV 216 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~--~--~~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ 216 (424)
..++++|||+..++|.+| .+..++|.. + +. ....+.||-..-.|..+.+.|-+|+.+|..++.+-+....+
T Consensus 173 fiLEQ~rL~vl~~Dy~~A-~~~~kKI~KK~Fe~~d~~slKlkyYeL~V~i~Lh~R~Yl~v~~y~~~vY~t~~~~~d~--- 248 (439)
T COG5071 173 FILEQVRLFLLRSDYYMA-STYTKKINKKFFEKEDVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVYDTAVVQEDP--- 248 (439)
T ss_pred HHHHHHHHHHhccchHHH-HHHHHHHHHHHhccccHHHHHHHHHHHhheeecccHHHHHHHHHHHHHHHHHHhccCc---
Confidence 467899999999999999 777776643 1 11 23455555555566667789999999999999754432221
Q ss_pred HHHHHHHHHHHH-hcCCCCCCCCcccCHHHhhhhh----hccHHHHHHHHHHhcCCHHHHHHHHHHcccccc-------c
Q 014453 217 EAYKKYILVSLI-HHGQFSSTLPKYTSSAAQRNLK----NFSQPYMELVNTYNTGKIVELETYVQTNREKFE-------S 284 (424)
Q Consensus 217 ea~Kk~iLv~LL-~~G~~~~p~p~~~s~~~~~~~k----~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~-------~ 284 (424)
| |...+++-+ ..--+. |..+.+..++.+.-. ..+..-.+++..|....+.+|.-+-+.+++... .
T Consensus 249 -A-kwk~VLS~~v~F~iLt-py~neq~dlvhKi~~d~kl~sl~~~~~lVk~f~vNelmrwp~V~~~y~~~l~~~~faF~~ 325 (439)
T COG5071 249 -A-KWKEVLSNVVCFALLT-PYDNEQADLLHKINADHKLNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFND 325 (439)
T ss_pred -c-cccchhhcceeeEEec-ccccHHHHHHHHhhhhhhhccchhhhhHHHHHHHHHHHhhhHHHHHhHHHHHhhhhhhcc
Confidence 2 222222211 111122 777777777766422 123456789999999899988877777655543 4
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccC
Q 014453 285 DNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYK 364 (424)
Q Consensus 285 Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~ 364 (424)
|.+--.|..++.++++||+|.|+..||+|++.+|...++++ ++++|..++.|+..|-+.|+|+++.|+|.|..+.+
T Consensus 326 e~~~~~w~DL~krviEHN~RvI~~yYSrI~~~rl~~lld~~-~s~te~~ISdlVN~G~~yaKiNrpa~Ii~FEK~~n--- 401 (439)
T COG5071 326 EKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSRLGVLLDMS-PSETEQFISDLVNKGHFYAKINRPAQIISFEKSQN--- 401 (439)
T ss_pred chhhhhHHHHHHHHHHhhHhHHHHHhhhhhHHHHHHHHcCC-HHHHHHHHHHHHhcCcEEEEecCccceEEeecccc---
Confidence 44556799999999999999999999999999999999998 89999999999999999999999999999998876
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 014453 365 TCEMIEHIDSSIQRIMSLSKK 385 (424)
Q Consensus 365 ~~~~~~~~~~~i~~~~~L~~~ 385 (424)
..+.+++|..++..+++--+.
T Consensus 402 ~~~~lneW~~NV~ellgklek 422 (439)
T COG5071 402 VQEQLNEWGSNVTELLGKLEK 422 (439)
T ss_pred HHHHHHHhcccHHHHHHHHHH
Confidence 567888999988777664443
No 9
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=99.66 E-value=7.5e-16 Score=153.80 Aligned_cols=206 Identities=15% Similarity=0.170 Sum_probs=171.3
Q ss_pred HHHHHHHHHHccChHHHHhcccccccccc-----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHH
Q 014453 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEIN-----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAV 216 (424)
Q Consensus 143 h~~l~rlcL~~~~y~~Al~il~~~i~~~~-----~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ 216 (424)
-..+.+++.+.+++.-+.+++.......+ +-.++..|+||.|+..+...+|..|...|..|++ ||...... +.
T Consensus 166 ~n~lf~Iyfri~~~~L~k~l~ra~~~~~~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af~~cp~~~~~n-~~ 244 (394)
T KOG2688|consen 166 VNQLFQIYFRIEKLLLCKNLIRAFDQSGSDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAFRLCPDLLLKN-KR 244 (394)
T ss_pred HHHHHHHHHHHhhHHHhHHHHHHhhccccchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHHHhCcHHHHhh-hh
Confidence 35666777777777666665544322211 1257999999999999999999999999999999 99864332 23
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHH
Q 014453 217 EAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVS 296 (424)
Q Consensus 217 ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~ 296 (424)
-...++|.+.++. |.+| +..++.+. .+..|..++++++.||+..|+..+++++..|.+-|.+..+..+..
T Consensus 245 ~iliylip~~~ll-g~~P------t~~lL~~~---~~~~~~~lv~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l~l 314 (394)
T KOG2688|consen 245 LILIYLIPTGLLL-GRIP------TKELLDFY---TLDKYSPLVQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKLPL 314 (394)
T ss_pred hHHHHHhHHHHHh-ccCc------chhhHhHh---hHHhHHHHHHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhhhH
Confidence 5678899999986 9988 35565553 267899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhh---hcccHHHHHHHhCCCC-----HHHHHHHHHHhHHcCceEEEEecCCCEEEEecC
Q 014453 297 SMYKRNIQRLTQTY---LTLSLQDIANTVQLNS-----SKEAEMHVLQMIQDGEIFATINQKDGMVRFLED 359 (424)
Q Consensus 297 ~v~r~~I~~l~~~Y---s~Isl~~Ia~~l~l~~-----~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~ 359 (424)
.+.|+.++++.+.. ++++++.+...++..+ .+|+|++++++|..|.|+|+|+|....++|+..
T Consensus 315 v~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~lI~~G~ikgYish~~~~~V~sK~ 385 (394)
T KOG2688|consen 315 VVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILANLIDLGRIKGYISHQLQTLVFSKK 385 (394)
T ss_pred HHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHhhhhhccccchhchhhheEEEecC
Confidence 99999999999999 9999999999987754 799999999999999999999999877777754
No 10
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=99.52 E-value=2e-13 Score=133.93 Aligned_cols=209 Identities=19% Similarity=0.246 Sum_probs=153.7
Q ss_pred HHHHHHHHHHHccChHHHHhccccc-cccc-c----CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc-cccH
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDD-IYEI-N----LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS-SINA 213 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~-i~~~-~----~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~-~~s~ 213 (424)
+-..++.++++-++.+-+..++..- +... | +-.+++.|+||.|++|+.+.++.+|..+|..|+. ||.. +.+
T Consensus 179 iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~~~~~sq~v~f~YYLG~~~l~~en~heA~~~L~~aFl~c~~l~~~n- 257 (413)
T COG5600 179 IANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVFHYYLGIYYLLNENFHEAFLHLNEAFLQCPWLITRN- 257 (413)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeehhhHHHHHHHHHHhHHHHHHHHHHHHHhChhhhhcc-
Confidence 3467788888888887775454431 1111 1 1257899999999999999999999999999998 9983 322
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchh-HHH
Q 014453 214 IAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLG-LVK 292 (424)
Q Consensus 214 i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~-Lv~ 292 (424)
+....-.||..+||.++..| +-+++.| ++. +..|.-|+++++.||++.|+..+++++..|.+-|.+- +..
T Consensus 258 -~~rIl~~~ipt~Llv~~~~P------tk~~L~r-~~~-~s~~~~LvkavrsGni~~~~~~l~~ner~~~~~~l~ltl~~ 328 (413)
T COG5600 258 -RKRILPYYIPTSLLVNKFPP------TKDLLER-FKR-CSVYSPLVKAVRSGNIEDFDLALSRNERKFAKRGLYLTLLA 328 (413)
T ss_pred -hheehhHHhhHHHHhCCCCC------chHHHHh-ccc-cchhHHHHHHHHcCCHHHHHHHHHHhHHHHHHcchHHHHHh
Confidence 22344578999999854444 2346565 344 7889999999999999999999999999999998764 444
Q ss_pred HHHHHHHHHHHHHHHhh---hhcccHH--HHHHHhCCCC----HHHHHHHHHHhHHcCceEEEEecCCCEEEEecCC
Q 014453 293 QVVSSMYKRNIQRLTQT---YLTLSLQ--DIANTVQLNS----SKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDP 360 (424)
Q Consensus 293 ~l~~~v~r~~I~~l~~~---Ys~Isl~--~Ia~~l~l~~----~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~ 360 (424)
.+...+.|..+|++-.. =+++|++ .++.++...+ .+++|++++.||..|.++|+|.|....|+|+..+
T Consensus 329 ~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~tlI~~G~lrgYis~s~~~vV~sk~~ 405 (413)
T COG5600 329 HYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILVTLIGLGLLRGYISHSRRTVVFSKKD 405 (413)
T ss_pred hccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHHHHHhhhhhhheecccceEEEEecCC
Confidence 45555666666643322 2564555 4455554333 7899999999999999999999999999998653
No 11
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.6e-12 Score=123.69 Aligned_cols=187 Identities=13% Similarity=0.290 Sum_probs=150.0
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCc-cccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhh---
Q 014453 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMS-SINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRN--- 248 (424)
Q Consensus 173 ~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~-~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~--- 248 (424)
|..+.......|+.++-.++|..|..+|..|+.-.+. ....-....+|+++|-.+++ ..+. .+ -+.+..++
T Consensus 202 pqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMl-N~~~-ev---k~vl~~K~t~~ 276 (421)
T COG5159 202 PQLQAQLDLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIML-NRRE-EV---KAVLRNKNTLK 276 (421)
T ss_pred HHHHHHHHHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHH-hhHH-HH---HHHHccchhHh
Confidence 4568888999999999999999999999999995443 33333456777766655444 3333 11 12222222
Q ss_pred -hh-hccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCC
Q 014453 249 -LK-NFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLN 325 (424)
Q Consensus 249 -~k-~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~ 325 (424)
|. +.+......++||.++++..|...+.+|.+++..|... .-..-+...+.+.|+.++..+|+++.++.||+.+|++
T Consensus 277 ~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~Nl~kiiEPfs~VeishIa~viGld 356 (421)
T COG5159 277 HYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEKNLVKIIEPFSVVEISHIADVIGLD 356 (421)
T ss_pred hhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHhhhhhhcCcceeeehhHHHHHhccc
Confidence 22 23567889999999999999999999999999988854 4677789999999999999999999999999999998
Q ss_pred CHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccCh
Q 014453 326 SSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKT 365 (424)
Q Consensus 326 ~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~ 365 (424)
...+|.-+++||.|....|.+||.+|++...+.+..-.+
T Consensus 357 -t~qvEgKLsqMILDKifyG~LDqg~gcLivy~ep~qd~t 395 (421)
T COG5159 357 -TNQVEGKLSQMILDKIFYGTLDQGDGCLIVYGEPAQDNT 395 (421)
T ss_pred -HHHHHHHHHHHHHHHHHHhhhccCCceEEEeCCccccch
Confidence 899999999999999999999999999999887765433
No 12
>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=99.26 E-value=4.7e-11 Score=96.26 Aligned_cols=73 Identities=34% Similarity=0.495 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCcc
Q 014453 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQY 363 (424)
Q Consensus 290 Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~ 363 (424)
.++.+...++++++..++++|++|++++|++.++++ .+++|..|.+||.+|.|.|+||+.+|+|.|..+...+
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~ 74 (88)
T smart00088 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR 74 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh
Confidence 467889999999999999999999999999999998 6899999999999999999999999999999876543
No 13
>smart00753 PAM PCI/PINT associated module.
Probab=99.26 E-value=4.7e-11 Score=96.26 Aligned_cols=73 Identities=34% Similarity=0.495 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCcc
Q 014453 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQY 363 (424)
Q Consensus 290 Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~ 363 (424)
.++.+...++++++..++++|++|++++|++.++++ .+++|..|.+||.+|.|.|+||+.+|+|.|..+...+
T Consensus 2 ~~~~l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l~-~~~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~~r~ 74 (88)
T smart00753 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLS-VPEVEKLVSKAIRDGEISAKIDQVNGIVEFEEVDPRR 74 (88)
T ss_pred hHHHHHHHHHHHHHHHHhHHhceeeHHHHHHHhCcC-HHHHHHHHHHHHHCCCeEEEEcCcCCEEEECCCchhh
Confidence 467889999999999999999999999999999998 6899999999999999999999999999999876543
No 14
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=1.4e-08 Score=98.97 Aligned_cols=266 Identities=15% Similarity=0.171 Sum_probs=178.9
Q ss_pred hccHHHHHHHHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCC--CcchHHHHHHHHHHH
Q 014453 75 ANTLVPIIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTE--HLTTLHPEFLQLCLL 152 (424)
Q Consensus 75 ~~~l~~~~~~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~--~lT~~h~~l~rlcL~ 152 (424)
++.+++...+|+..|-+.=+.+ .+|+.....+...+...+++..|..-+..++...+ ..--+|++..|+.|.
T Consensus 54 ~~~~l~lY~NFvsefe~kINpl------slvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~ 127 (380)
T KOG2908|consen 54 GDLLLQLYLNFVSEFETKINPL------SLVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLE 127 (380)
T ss_pred chHHHHHHHHHHHHHhhccChH------HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHh
Confidence 3456788888888886554443 34555555555566677788888777777765444 566789999999999
Q ss_pred ccChHHHHhccccccccccC-----chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccC-c--cccHHHHHHHHHHHH
Q 014453 153 AKCYKAGLSVLEDDIYEINL-----PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPM-S--SINAIAVEAYKKYIL 224 (424)
Q Consensus 153 ~~~y~~Al~il~~~i~~~~~-----~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~-~--~~s~i~~ea~Kk~iL 224 (424)
.++-..+.++|+..--.++. ++-...||-.+...|=..++|..++++-..=+.|-. . +.+..+..|+ -+.+
T Consensus 128 i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~YL~~~d~~~l~~se~~~lA~-~L~~ 206 (380)
T KOG2908|consen 128 INDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHALLYLGCSDIDDLSESEKQDLAF-DLSL 206 (380)
T ss_pred cccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHhccccccccCHHHHHHHHH-HHHH
Confidence 99999998887763221211 345667777777777777888887776655555442 1 3333334454 3455
Q ss_pred HHHHhcCCCCCCCCcccCHHHhhhhhhc----cHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHH
Q 014453 225 VSLIHHGQFSSTLPKYTSSAAQRNLKNF----SQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYK 300 (424)
Q Consensus 225 v~LL~~G~~~~p~p~~~s~~~~~~~k~~----~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r 300 (424)
..||..| +- +..--+.++.+++. -..-.++..||..||+.+|+.....+.+ ..| |.+. ....+
T Consensus 207 aALLGe~-iy----NfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~~--~p~----L~~~--e~~L~ 273 (380)
T KOG2908|consen 207 AALLGEN-IY----NFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVWGK--QPD----LASN--EDFLL 273 (380)
T ss_pred HHHhccc-cc----cHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhcc--Cch----HHHH--HHHHH
Confidence 5655322 22 23334445555532 2456789999999999999998876655 111 2222 22233
Q ss_pred HHHHHHHh---hhhc------ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCC
Q 014453 301 RNIQRLTQ---TYLT------LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPE 361 (424)
Q Consensus 301 ~~I~~l~~---~Ys~------Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~ 361 (424)
..|+-++. +|++ ||+++||+++.++ .+|||.+|.+++.-|.|.|.||+.+|.|.+....+
T Consensus 274 qKI~LmaLiEi~F~rpa~~R~lsf~~Ia~~tkip-~~eVE~LVMKAlslgLikG~Idqv~~~v~~swvqP 342 (380)
T KOG2908|consen 274 QKIRLLALIEITFSRPANERTLSFKEIAEATKIP-NKEVELLVMKALSLGLIKGSIDQVEGVVYMSWVQP 342 (380)
T ss_pred HHHHHHHHHHHHhcCcchhccccHHHHHHHhCCC-HHHHHHHHHHHHhccceeeeecccccEEEEecccc
Confidence 33333332 4654 9999999999999 79999999999999999999999999999987654
No 15
>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=98.34 E-value=9e-05 Score=75.69 Aligned_cols=177 Identities=19% Similarity=0.258 Sum_probs=115.5
Q ss_pred HHHHHHHHHccChHHHHhccccccccc-----cCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccC--c----cc-
Q 014453 144 PEFLQLCLLAKCYKAGLSVLEDDIYEI-----NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPM--S----SI- 211 (424)
Q Consensus 144 ~~l~rlcL~~~~y~~Al~il~~~i~~~-----~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~--~----~~- 211 (424)
.-++|+-...|+|..|+++++.--+.- ..+...++.+||.|-.|+.+++|.+|.+.|..++..=. . +-
T Consensus 126 igLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~~~ 205 (404)
T PF10255_consen 126 IGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQRS 205 (404)
T ss_pred HHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccc
Confidence 346788888999999999988632211 11678899999999999999999999999999986211 1 11
Q ss_pred ---cHHH---HHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccc
Q 014453 212 ---NAIA---VEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESD 285 (424)
Q Consensus 212 ---s~i~---~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~D 285 (424)
+.+. -..|--+.+ ++.+. |..+| ..+...++. -|.+=.....+||++.|++........|...
T Consensus 206 ~q~d~i~K~~eqMyaLlAi-c~~l~---p~~ld----e~i~~~lke---ky~ek~~kmq~gd~~~f~elF~~acPKFIsp 274 (404)
T PF10255_consen 206 YQYDQINKKNEQMYALLAI-CLSLC---PQRLD----ESISSQLKE---KYGEKMEKMQRGDEEAFEELFSFACPKFISP 274 (404)
T ss_pred chhhHHHhHHHHHHHHHHH-HHHhC---CCCCC----HHHHHHHHH---HHHHHHHHHHccCHHHHHHHHHhhCCCccCC
Confidence 1111 222222222 22221 21122 223333332 2666555677899999999999888888642
Q ss_pred c----------ch---h-------HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHH
Q 014453 286 N----------NL---G-------LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (424)
Q Consensus 286 g----------n~---~-------Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~ 332 (424)
. +. . ..+++.....-..||..-|-|++|+++.+|..++++ +++...
T Consensus 275 ~~pp~~~~~~~~~~~e~~~~Ql~~Fl~eV~~q~~l~~lRSyLKLYtti~l~KLA~fl~vd-~~~lr~ 340 (404)
T PF10255_consen 275 VSPPDYDGPSQNKNKEPYRRQLKLFLDEVKQQQKLPTLRSYLKLYTTIPLEKLASFLDVD-EEELRS 340 (404)
T ss_pred CCCCCcccccchhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcCCCHHHHHHHcCCC-HHHHHH
Confidence 2 11 0 133444444455689999999999999999999997 665544
No 16
>KOG1076 consensus Translation initiation factor 3, subunit c (eIF-3c) [Translation, ribosomal structure and biogenesis]
Probab=98.29 E-value=4e-05 Score=81.12 Aligned_cols=101 Identities=15% Similarity=0.261 Sum_probs=82.3
Q ss_pred HHHHHHhcCCHHHHHHHHHHcccccc----cccchh-HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHH
Q 014453 258 ELVNTYNTGKIVELETYVQTNREKFE----SDNNLG-LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (424)
Q Consensus 258 ~L~~a~~~gdl~~~~~~l~~~~~~f~----~Dgn~~-Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~ 332 (424)
.-++|...||+......+-.+.++|. .|...+ |.+++..--.|+-+-..+.+|.+||++.+|++..|+ +..|-.
T Consensus 659 aAsKAm~~Gnw~~c~~fi~nn~KvW~Lfpn~d~V~~Ml~~rIqEEsLRTYLftYss~Y~SvSl~~LA~mFdLp-~~~Vhs 737 (843)
T KOG1076|consen 659 AASKAMQKGNWQKCFEFIVNNIKVWDLFPNADTVLDMLTERIQEESLRTYLFTYSSVYDSVSLAKLADMFDLP-EPKVHS 737 (843)
T ss_pred HHHHHHhcCCHHHHHHHHHhhhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHhCCC-chhHHH
Confidence 34578889999987775555666664 333332 556666666777777888899999999999999998 789999
Q ss_pred HHHHhHHcCceEEEEecCCCEEEEecC
Q 014453 333 HVLQMIQDGEIFATINQKDGMVRFLED 359 (424)
Q Consensus 333 ~v~~mI~~G~I~A~Id~~~g~v~F~~~ 359 (424)
+|++||-..+|.|++|++.++|.|+..
T Consensus 738 IiSkmiineEl~AslDqpt~~iv~hrv 764 (843)
T KOG1076|consen 738 IISKMIINEELHASLDQPTQCIVMHRV 764 (843)
T ss_pred HHHHHHHHHHhhhccCCCcceEEEeec
Confidence 999999999999999999999999974
No 17
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=0.00033 Score=67.74 Aligned_cols=259 Identities=20% Similarity=0.165 Sum_probs=159.7
Q ss_pred cchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcccc--ccccccC-
Q 014453 96 YVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED--DIYEINL- 172 (424)
Q Consensus 96 ~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~--~i~~~~~- 172 (424)
.-.+.+..++++|.+.+... +|+..++..+.+ ..+++.---+..+-+|+.+-.++-.-..+.|+. ++++-..
T Consensus 113 e~~ea~~n~aeyY~qi~D~~----ng~~~~~~~~~~-a~stg~KiDv~l~kiRlg~~y~d~~vV~e~lE~~~~~iEkGgD 187 (412)
T COG5187 113 EGSEADRNIAEYYCQIMDIQ----NGFEWMRRLMRD-AMSTGLKIDVFLCKIRLGLIYGDRKVVEESLEVADDIIEKGGD 187 (412)
T ss_pred HHHHHHHHHHHHHHHHhhhh----hHHHHHHHHHHH-HHhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCC
Confidence 34567888999999877643 355444444322 112222223455667788777775433333332 2332110
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHHHHHhcCCCCCCCCcc-cCHHHhhhhhh
Q 014453 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKY-TSSAAQRNLKN 251 (424)
Q Consensus 173 ~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~-~s~~~~~~~k~ 251 (424)
=+-.=+|.-|.|+-.+..++|.+|...|..++.+..++.-----.+..+.+..+++...+.. --.+- .|+.+-....+
T Consensus 188 WeRrNRyK~Y~Gi~~m~~RnFkeAa~Ll~d~l~tF~S~El~sY~~~vrYa~~~Gl~~leR~d-iktki~dspevl~vi~~ 266 (412)
T COG5187 188 WERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLRLERRD-IKTKILDSPEVLDVIGS 266 (412)
T ss_pred HHhhhhHHHHHHHHHHHHHhhHHHHHHHHHHhccccccccccHHHHHHHHHHhhhheeehhh-hhhhhcCCHHHHHhccc
Confidence 12245799999999999999999999999999865542110012344566777776422111 00000 11211111110
Q ss_pred --ccHHHHHHHHHHhcCCHH-HHHHHHHHcccccccccchhH-HHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCH
Q 014453 252 --FSQPYMELVNTYNTGKIV-ELETYVQTNREKFESDNNLGL-VKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSS 327 (424)
Q Consensus 252 --~~~~Y~~L~~a~~~gdl~-~~~~~l~~~~~~f~~Dgn~~L-v~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~ 327 (424)
.+..-.+++...=.-|.. -|...+..+.+.++.|.-.+. +.-...-++|+.--.+-.+|..+||..+|+..|++ +
T Consensus 267 ~e~l~sl~~l~~SLy~cdY~~~F~~ll~~~~n~L~~d~fl~rh~d~fvREMRrrvYaQlLESYr~lsl~sMA~tFgVS-V 345 (412)
T COG5187 267 SEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDVFLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVS-V 345 (412)
T ss_pred hhhhhhHHHHHHHHHHhccchhhHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhCcc-H
Confidence 112223333332222333 577788888888888876553 44445555666667788899999999999999998 8
Q ss_pred HHHHHHHHHhHHcCceEEEEecCCCEEEEecCCC
Q 014453 328 KEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPE 361 (424)
Q Consensus 328 ~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~ 361 (424)
+=++.=+++-|-+|.+++.||+.+|+|.-..+.+
T Consensus 346 ~yvdrDLg~FIp~~~LncvIDRvnGvVetnrpde 379 (412)
T COG5187 346 EYVDRDLGEFIPEGRLNCVIDRVNGVVETNRPDE 379 (412)
T ss_pred HHHhhhHHhhCCCCceeeeeecccceEeccCcch
Confidence 9999999999999999999999999998876544
No 18
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=0.00019 Score=70.25 Aligned_cols=248 Identities=16% Similarity=0.176 Sum_probs=152.5
Q ss_pred chHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcccc--ccccccC-c
Q 014453 97 VPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLED--DIYEINL-P 173 (424)
Q Consensus 97 ~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~--~i~~~~~-~ 173 (424)
..+.+..++++|.+..... .|+..++....+= -+.++---+-...+|+.+-..+.+-..+.+++ ++++-.- =
T Consensus 103 v~ea~~~kaeYycqigDke----na~~~~~~t~~kt-vs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDW 177 (393)
T KOG0687|consen 103 VREAMLRKAEYYCQIGDKE----NALEALRKTYEKT-VSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDW 177 (393)
T ss_pred HHHHHHHHHHHHHHhccHH----HHHHHHHHHHHHH-hhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCh
Confidence 3456777888887765432 2444443333221 11121112334556777766665544444443 2222110 0
Q ss_pred hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHH-H-HHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh
Q 014453 174 RDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIA-V-EAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN 251 (424)
Q Consensus 174 ~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~-~-ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~ 251 (424)
.-.=+|.-|.|+-.++.++|.+|...|..++++.++.. ++ - ..-.+.|+++++. ++ +.++-+|..+.
T Consensus 178 eRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~E--l~~Y~~~v~Ytv~~g~i~-------le--R~dlktKVi~~ 246 (393)
T KOG0687|consen 178 ERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYE--LMSYETFVRYTVITGLIA-------LE--RVDLKTKVIKC 246 (393)
T ss_pred hhhhhHHHHHHHHHHHHHhHHHHHHHHHHHccccccee--cccHHHHHHHHHHHhhhe-------ec--cchHHhhhcCc
Confidence 12346888999999999999999999999998766532 11 1 1223445666654 22 34444554431
Q ss_pred --------ccHHHHHHHHHHhcCCHHHHHHHH-HHcccccccccchh-HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHH
Q 014453 252 --------FSQPYMELVNTYNTGKIVELETYV-QTNREKFESDNNLG-LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANT 321 (424)
Q Consensus 252 --------~~~~Y~~L~~a~~~gdl~~~~~~l-~~~~~~f~~Dgn~~-Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~ 321 (424)
.+++-.+++...=.-+...|-..+ .-..+.+..|.-.+ .+.--..-++++.--.+-.+|.++++.-+|+.
T Consensus 247 ~Evl~vl~~l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~a 326 (393)
T KOG0687|consen 247 PEVLEVLHKLPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKA 326 (393)
T ss_pred HHHHHHhhcCchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 133444555544444555544444 34466677776543 23333344445555667789999999999999
Q ss_pred hCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCC
Q 014453 322 VQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPE 361 (424)
Q Consensus 322 l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~ 361 (424)
.|++ .+=++.-+++-|..|.++++||+.+|+|.-..+.+
T Consensus 327 FgVS-VefiDreL~rFI~~grL~ckIDrVnGVVEtNrpD~ 365 (393)
T KOG0687|consen 327 FGVS-VEFIDRELGRFIAAGRLHCKIDRVNGVVETNRPDE 365 (393)
T ss_pred hCch-HHHHHhHHHHhhccCceeeeeecccceeecCCccc
Confidence 9998 89999999999999999999999999999876544
No 19
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=98.06 E-value=0.00061 Score=68.60 Aligned_cols=216 Identities=12% Similarity=0.151 Sum_probs=148.5
Q ss_pred hCCCCCCcchHHHHHHHHHHHccChHHHHhcccccccccc----C-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcc
Q 014453 132 IQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN----L-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (424)
Q Consensus 132 l~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~----~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~ 206 (424)
+..+..+.--+...++++.+-.++|..-+.++++..-.-+ . .+--.+-.-+.|...+.+++|..|..+|-.+-..
T Consensus 179 YCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl~C~agLa~L~lkkyk~aa~~fL~~~~~ 258 (466)
T KOG0686|consen 179 YCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKLKCAAGLANLLLKKYKSAAKYFLLAEFD 258 (466)
T ss_pred hhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 3344444445566788999999999998888888654311 0 1122346678999999999999999999888752
Q ss_pred cCc---cccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHh--------hhhhhccHHHHHHHHHHhcCCHHHHHHHH
Q 014453 207 PMS---SINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQ--------RNLKNFSQPYMELVNTYNTGKIVELETYV 275 (424)
Q Consensus 207 P~~---~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~--------~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l 275 (424)
... -+++.-+.+| ...+-|. ++++ ..+.. +.|-...+.-.++...|-++.....-+.+
T Consensus 259 ~~d~~~ivtpsdv~iY---ggLcALA------tfdr--~~Lk~~vi~n~~Fk~flel~Pqlr~il~~fy~sky~~cl~~L 327 (466)
T KOG0686|consen 259 HCDYPEIVTPSDVAIY---GGLCALA------TFDR--QDLKLNVIKNESFKLFLELEPQLREILFKFYSSKYASCLELL 327 (466)
T ss_pred ccCccceecchhhHHH---HhhHhhc------cCCH--HHHHHHHHcchhhhhHHhcChHHHHHHHHHhhhhHHHHHHHH
Confidence 221 1222223333 3334444 4543 22211 11112223355677777777777777777
Q ss_pred HHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEE
Q 014453 276 QTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMV 354 (424)
Q Consensus 276 ~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v 354 (424)
.+.+..+.=|--. .-|..|..-++.+.+.+....|+++.++.+|..++.+ +...|.-|.++|.+|.|+|+||.-.++|
T Consensus 328 ~~~k~~llLD~yLaphVd~Ly~~IR~r~llqy~~py~s~~m~~mA~af~~s-v~~le~~l~~LI~~~~i~~rIDs~~ki~ 406 (466)
T KOG0686|consen 328 REIKPRLLLDMYLAPHVDNLYSLIRNRALLQYLSPYSSADMSKMAEAFNTS-VAILESELLELILEGKISGRIDSHNKIL 406 (466)
T ss_pred HHhccceeechhcchhHHHHHHHHHHhhHHHhcCccccchHHHHHHHhccc-HHHHHHHHHHHHHccchheeecccccee
Confidence 6665555444321 3477778888888899999999999999999999987 8999999999999999999999999999
Q ss_pred EEecC
Q 014453 355 RFLED 359 (424)
Q Consensus 355 ~F~~~ 359 (424)
.-.+.
T Consensus 407 ~~~~~ 411 (466)
T KOG0686|consen 407 YARDA 411 (466)
T ss_pred eeccc
Confidence 88755
No 20
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=97.82 E-value=0.0057 Score=66.21 Aligned_cols=73 Identities=15% Similarity=0.252 Sum_probs=68.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEec
Q 014453 286 NNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 286 gn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
++..-|..|....+.+.++.++++|.+||++.+.+...+-+.-++|+++.+....|.+..+|||..+.|.|..
T Consensus 421 ~~~QYI~sLq~v~~~RllqQvSqiY~sIs~~~l~~La~F~~~~~lEk~~v~a~k~~~v~iriDH~~~~v~Fgs 493 (988)
T KOG2072|consen 421 DKSQYIPSLQDVIILRLLQQVSQIYESISFERLYKLAPFFSAFELEKLLVEAAKHNDVSIRIDHESNSVSFGS 493 (988)
T ss_pred CccccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcCHHHHHHHHHHHHhccceeEEeccccceeeecc
Confidence 3466788999999999999999999999999999999887799999999999999999999999999999984
No 21
>PF08375 Rpn3_C: Proteasome regulatory subunit C-terminal; InterPro: IPR013586 Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome is a self-compartmentalising protease responsible for the regulated degradation of intracellular proteins in eukaryotes [, ]. This giant intracellular protease is formed by several subunits arranged into two 19S polar caps, where protein recognition and ATP-dependent unfolding occur, flanking a 20S central barrel-shaped structure with an inner proteolytic chamber. This overall structure is highly conserved among eukaryotes and is essential for cell viability. Proteins targeted to the 26S proteasome are conjugated with a polyubiquitin chain by an enzymatic cascade before delivery to the 26S proteasome for degradation into oligopeptides. The 19S component is divided into a "base" subunit containing six ATPases (Rpt proteins) and two non-ATPases (Rpn1, Rpn2), and a "lid" subunit composed of eight stoichiometric proteins (Rpn3, Rpn5, Rpn6, Rpn7, Rpn8, Rpn9, Rpn11, Rpn12) []. Additional non-essential and species specific proteins may also be present. The 19S unit performs several essential functions including binding the specific protein substrates, unfolding them, cleaving the attached ubiquitin chains, opening the 20S subunit, and driving the unfolded polypeptide into the proteolytic chamber for degradation. The 26s proteasome and 19S regulator are of medical interest due to their involvement in burn rehabilitation []. This eukaryotic domain is found at the C terminus of 26S proteasome regulatory subunits such as the non-ATPase Rpn3 subunit which is essential for proteasomal function []. It occurs together with the PCI/PINT domain (IPR000717 from INTERPRO). ; GO: 0030234 enzyme regulator activity, 0042176 regulation of protein catabolic process, 0000502 proteasome complex
Probab=97.70 E-value=5.2e-05 Score=57.86 Aligned_cols=43 Identities=23% Similarity=0.176 Sum_probs=35.4
Q ss_pred CccChHHHHHHHHHHHHHHHHHHH-HHHHHhHHhhcCHHHHHHh
Q 014453 361 EQYKTCEMIEHIDSSIQRIMSLSK-KLTAMDELISCDPLYLGKA 403 (424)
Q Consensus 361 ~~~~~~~~~~~~~~~i~~~~~L~~-~~~~~d~~l~~~~~yi~~~ 403 (424)
++|+|.+|+.+|++||++|++|++ .|++|...-...+.=.++.
T Consensus 1 DvYsT~ePq~aF~~RI~FCL~lHneaVkAMRyP~~~~~~~~~~~ 44 (68)
T PF08375_consen 1 DVYSTNEPQEAFHQRIAFCLQLHNEAVKAMRYPPDAHKKELESA 44 (68)
T ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCccchhhhhH
Confidence 579999999999999999999986 9999987766665444433
No 22
>KOG2758 consensus Translation initiation factor 3, subunit e (eIF-3e) [Translation, ribosomal structure and biogenesis]
Probab=97.04 E-value=0.12 Score=50.94 Aligned_cols=130 Identities=16% Similarity=0.219 Sum_probs=84.9
Q ss_pred HHHHHHH-HHhcCCHHHHHHHHHHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHH
Q 014453 255 PYMELVN-TYNTGKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (424)
Q Consensus 255 ~Y~~L~~-a~~~gdl~~~~~~l~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~ 332 (424)
|-.+|.. .|.+-|.+.-+..+.+-+++..+|--. .+....+++.+.-..-...++-.+|+++-+|.+|+++ ++|||+
T Consensus 290 PiteFl~clyvn~DFdgAq~kl~eCeeVl~nDfFLva~l~~F~E~ARl~ifEtfCRIHqcIti~mLA~kLnm~-~eeaEr 368 (432)
T KOG2758|consen 290 PITEFLECLYVNYDFDGAQKKLRECEEVLVNDFFLVALLDEFLENARLLIFETFCRIHQCITIDMLADKLNMD-PEEAER 368 (432)
T ss_pred cHHHHHHHHhhccchHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHheeHHHHHHHhcCC-HHHHHH
Confidence 3344444 345667777677777777777777642 2333334444333334444444678999999999998 899999
Q ss_pred HHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHHHHHHHhHHh
Q 014453 333 HVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSKKLTAMDELI 393 (424)
Q Consensus 333 ~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~~~~~~d~~l 393 (424)
-+.++|++..|.|+||.+-|-|....++- + + .++-|.+...|.-.-+.+...|
T Consensus 369 wivnlIr~~rl~AkidSklg~Vvmg~~~~--s---~---~qQ~ie~tksLS~rsq~la~~l 421 (432)
T KOG2758|consen 369 WIVNLIRTARLDAKIDSKLGHVVMGHPTV--S---P---HQQLIEKTKSLSFRSQNLAQQL 421 (432)
T ss_pred HHHHHHHHhhhhhhhccccCceeecCCCC--C---H---HHHHHHhccccchhHHHHHHHH
Confidence 99999999999999999999988875432 1 1 3444555555543333333333
No 23
>KOG2753 consensus Uncharacterized conserved protein, contains PCI domain [General function prediction only]
Probab=96.93 E-value=0.5 Score=46.87 Aligned_cols=257 Identities=16% Similarity=0.184 Sum_probs=138.5
Q ss_pred hHHHHHHHHHHHHHHHH-hhcc--ccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHH---hcccccccccc
Q 014453 98 PEKFINVCKRYKDQVLL-LEAP--IRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGL---SVLEDDIYEIN 171 (424)
Q Consensus 98 ~~~~~~l~~~~~~~~~~-~~~~--~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al---~il~~~i~~~~ 171 (424)
|+....++..+..-... .+++ ...+..|-+.-.-++.....--.+-..++.+|-..+....-. +-++.-+-+-+
T Consensus 79 ~e~~e~~v~a~~ekva~q~n~~~~~l~L~vLsnLfn~~d~~~~aR~~Vy~~lv~la~~~~~~~~i~~~lk~~~~~lkew~ 158 (378)
T KOG2753|consen 79 PEKVEEMVKAICEKVAKQPNDKTASLRLQVLSNLFNGVDKPTPARYQVYMSLVTLAASCKLIEYIVPNLKQLDDWLKEWN 158 (378)
T ss_pred HHHhHHHHHHHHHHHhcCccCCCcccHHHHHHHHHhccCCCchHHHHHHHHHHHHHhhcceeeeecccHHHHHHHHHhCC
Confidence 55555555544443322 2222 223334444333233221111134456677777766543322 22222111111
Q ss_pred C-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCcc-ccHHHHHHHHHHHHHHHHhcCCCCCCCCcc-cCHHHhhh
Q 014453 172 L-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSS-INAIAVEAYKKYILVSLIHHGQFSSTLPKY-TSSAAQRN 248 (424)
Q Consensus 172 ~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~-~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~-~s~~~~~~ 248 (424)
. .++.-.++-......-..+.-.++...+..-+.+.+.. .+.-+.+|.+ .|. .-+..-++. -++.- +-+- -+.
T Consensus 159 ~~vedqrel~r~v~~al~~~k~~~~s~kvmt~lLgtyt~dnas~AredA~r-cV~-~av~dP~~F-~fD~Ll~L~p-V~q 234 (378)
T KOG2753|consen 159 ISVEDQRELLRAVHKALKDNKSVDESSKVMTELLGTYTEDNASEAREDAMR-CVV-EAVKDPKIF-LFDHLLTLPP-VKQ 234 (378)
T ss_pred CCHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHhcccchhHHHHHHHH-HHH-HHHcCCcee-ccchhccCch-HHH
Confidence 1 23444444443444444444556777777777655532 2333445543 222 222211111 11100 0000 112
Q ss_pred hhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHH---HHHHHhhhhcccHHHHHHHhCCC
Q 014453 249 LKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRN---IQRLTQTYLTLSLQDIANTVQLN 325 (424)
Q Consensus 249 ~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~---I~~l~~~Ys~Isl~~Ia~~l~l~ 325 (424)
++. .+.++|...|.+|-+..+.+..+.+......- |++.+ .++.|-. +-.++..-..||+.++++.|++.
T Consensus 235 LE~--d~i~qLL~IF~s~~L~aYveF~~~N~~Fvqs~---gl~~E--~~~~KMRLLTlm~LA~es~eisy~~l~k~LqI~ 307 (378)
T KOG2753|consen 235 LEG--DLIHQLLKIFVSGKLDAYVEFVAANSGFVQSQ---GLVHE--QNMAKMRLLTLMSLAEESNEISYDTLAKELQIN 307 (378)
T ss_pred hcc--chHHHHHHHHHhcchHHHHHHHHhChHHHHHh---cccHH--HHHHHHHHHHHHHHhccCCCCCHHHHHHHhccC
Confidence 222 34788999999999999999998877665443 45443 3333333 44555567799999999999998
Q ss_pred CHHHHHHHHHHhHHcCceEEEEecCCCEEEEecC-CCccChH
Q 014453 326 SSKEAEMHVLQMIQDGEIFATINQKDGMVRFLED-PEQYKTC 366 (424)
Q Consensus 326 ~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~-~~~~~~~ 366 (424)
++|+|..|-+.|..|.+.|+||+-+..|.-+.. ...+++.
T Consensus 308 -edeVE~fVIdaI~aklV~~kidq~~~~viVs~~~hR~FG~~ 348 (378)
T KOG2753|consen 308 -EDEVELFVIDAIRAKLVEGKIDQMNRTVIVSSSTHRTFGKQ 348 (378)
T ss_pred -HHHHHHHHHHHHHHHHHHhhHHhhcceEEeehhhhhhcccH
Confidence 899999999999999999999998766666543 3345444
No 24
>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=96.38 E-value=0.0078 Score=52.89 Aligned_cols=81 Identities=16% Similarity=0.237 Sum_probs=58.0
Q ss_pred cHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHH
Q 014453 253 SQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEM 332 (424)
Q Consensus 253 ~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~ 332 (424)
+..-..+.++..+|+..+|=..++.+ .|. +....+|..+...+++..+..++++|++|+++++++.||++ ++|++.
T Consensus 41 i~~i~~l~~~L~~~~~~~~~~~~~~~--~~~-~~~~~~v~~~~~~iR~~i~~~i~~aY~sIs~~~la~~Lg~~-~~el~~ 116 (143)
T PF10075_consen 41 IKAIWSLGQALWEGDYSKFWQALRSN--PWS-PDYKPFVPGFEDTIRERIAHLISKAYSSISLSDLAEMLGLS-EEELEK 116 (143)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHS-TT-------HHHHTSTTHHHHHHHHHHHHHHHH-SEE-HHHHHHHTTS--HHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhc--cch-HHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHhCCC-HHHHHH
Confidence 34445788888899888777666432 332 23345677789999999999999999999999999999999 888888
Q ss_pred HHHHh
Q 014453 333 HVLQM 337 (424)
Q Consensus 333 ~v~~m 337 (424)
++.+-
T Consensus 117 ~~~~~ 121 (143)
T PF10075_consen 117 FIKSR 121 (143)
T ss_dssp HHHHH
T ss_pred HHHHc
Confidence 87765
No 25
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=95.78 E-value=0.027 Score=41.84 Aligned_cols=61 Identities=18% Similarity=0.226 Sum_probs=49.9
Q ss_pred HHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 146 FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 146 l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+.+..+..|+|+.|...++.-+-..+ +.....|..|.++..+++|.+|..+|+.++. .|..
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~l~~~P---~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~ 64 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQALKQDP---DNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN 64 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHCCST---THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 45678899999999999888654322 3778888999999999999999999999998 7753
No 26
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=95.64 E-value=0.088 Score=46.16 Aligned_cols=106 Identities=11% Similarity=0.019 Sum_probs=78.6
Q ss_pred hhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCc
Q 014453 94 IRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLP 173 (424)
Q Consensus 94 ~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~ 173 (424)
++.-|+.+..+ ...+...+..-.++..++.|+ +++|.. ...|..+-.+|...++|+.|+....+.+-- +
T Consensus 20 l~~~p~~~~~~----g~~~~~~g~~~~A~~~~~~al-~~~P~~---~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l-~-- 88 (144)
T PRK15359 20 LSVDPETVYAS----GYASWQEGDYSRAVIDFSWLV-MAQPWS---WRAHIALAGTWMMLKEYTTAINFYGHALML-D-- 88 (144)
T ss_pred HHcCHHHHHHH----HHHHHHcCCHHHHHHHHHHHH-HcCCCc---HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-C--
Confidence 44455544332 223345566666788888876 456653 467888999999999999999998886642 2
Q ss_pred hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 174 RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 174 ~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
.+....+|..|.++...+++.+|...|..|+. .|...
T Consensus 89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~ 126 (144)
T PRK15359 89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADA 126 (144)
T ss_pred CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCh
Confidence 23667888999999999999999999999999 78763
No 27
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=95.61 E-value=0.17 Score=42.97 Aligned_cols=90 Identities=8% Similarity=-0.014 Sum_probs=66.6
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..++...++..+..++. ++|.. +..+..+...+...++|+.|.+.+.+.+-. + .+....+|+.|.++...++|
T Consensus 29 ~~~~~~~A~~~~~~~~~-~~p~~---~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~--p~~~~~~~~la~~~~~~g~~ 101 (135)
T TIGR02552 29 QQGRYDEALKLFQLLAA-YDPYN---SRYWLGLAACCQMLKEYEEAIDAYALAAAL-D--PDDPRPYFHAAECLLALGEP 101 (135)
T ss_pred HcccHHHHHHHHHHHHH-hCCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-C--CCChHHHHHHHHHHHHcCCH
Confidence 44455556666666653 34442 466778888888999999999988875432 1 22456678899999999999
Q ss_pred HHHHHHHHHHhc-ccCcc
Q 014453 194 RKALELLHNVVT-APMSS 210 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~~ 210 (424)
.+|..+|..++. .|...
T Consensus 102 ~~A~~~~~~al~~~p~~~ 119 (135)
T TIGR02552 102 ESALKALDLAIEICGENP 119 (135)
T ss_pred HHHHHHHHHHHHhccccc
Confidence 999999999999 77654
No 28
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=95.54 E-value=0.049 Score=47.60 Aligned_cols=89 Identities=12% Similarity=0.051 Sum_probs=67.4
Q ss_pred HHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhh
Q 014453 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (424)
Q Consensus 111 ~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~ 190 (424)
...+.+..-.++..|..++..- |++..-...+..+.++++..+.|+.|+..|+.... +...-.+....|.|+...
T Consensus 57 ~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~----~~~~~~~~~~~Gdi~~~~ 131 (145)
T PF09976_consen 57 AAYEQGDYDEAKAALEKALANA-PDPELKPLARLRLARILLQQGQYDEALATLQQIPD----EAFKALAAELLGDIYLAQ 131 (145)
T ss_pred HHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccC----cchHHHHHHHHHHHHHHC
Confidence 3345566666788888887653 55544445677889999999999999999976211 233455778899999999
Q ss_pred hcHHHHHHHHHHHh
Q 014453 191 KRFRKALELLHNVV 204 (424)
Q Consensus 191 ~~y~~A~~~~~~a~ 204 (424)
++|.+|...|+.|+
T Consensus 132 g~~~~A~~~y~~Al 145 (145)
T PF09976_consen 132 GDYDEARAAYQKAL 145 (145)
T ss_pred CCHHHHHHHHHHhC
Confidence 99999999999875
No 29
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=95.29 E-value=0.032 Score=42.31 Aligned_cols=59 Identities=24% Similarity=0.222 Sum_probs=49.2
Q ss_pred HHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 148 QLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 148 rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
..++..++|+.|+.++++-+.--| +....++..|.++...++|.+|.+.|+.++. .|..
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p---~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~ 62 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDP---DDPELWLQRARCLFQLGRYEEALEDLERALELSPDD 62 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCc---ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence 567889999999999999764322 2556667889999999999999999999998 8864
No 30
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.12 E-value=0.25 Score=48.25 Aligned_cols=167 Identities=15% Similarity=0.177 Sum_probs=101.4
Q ss_pred HhhccccchHHHHHHHHhhCCCC--CCcchHHHHHHHHHHHc-cChHHHHhccccccc--cc-cCchhhHHHHHHHHHHH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSST--EHLTTLHPEFLQLCLLA-KCYKAGLSVLEDDIY--EI-NLPRDFFLYCYYGGMIF 187 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~--~~lT~~h~~l~rlcL~~-~~y~~Al~il~~~i~--~~-~~~~~~l~Y~YY~G~I~ 187 (424)
...+|-.++..+..|+.-+...+ ......+..+.+++-.. ++|+.|+....+-+- .- +.+......+--.|.++
T Consensus 86 k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~ 165 (282)
T PF14938_consen 86 KKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLY 165 (282)
T ss_dssp HHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHH
Confidence 34467778888999987775443 23334566666666666 788888888777432 21 12345566666788999
Q ss_pred HhhhcHHHHHHHHHHHhcccC-ccccHHH-HHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhh------hh--hccHHHH
Q 014453 188 IGQKRFRKALELLHNVVTAPM-SSINAIA-VEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRN------LK--NFSQPYM 257 (424)
Q Consensus 188 ~~~~~y~~A~~~~~~a~~~P~-~~~s~i~-~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~------~k--~~~~~Y~ 257 (424)
+..++|.+|...|+.+...+. ....... .+.+=+.+|+.|.. |++. . ....+.+. |. +.+.--.
T Consensus 166 ~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~-~D~v-~----A~~~~~~~~~~~~~F~~s~E~~~~~ 239 (282)
T PF14938_consen 166 ARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAM-GDYV-A----ARKALERYCSQDPSFASSREYKFLE 239 (282)
T ss_dssp HHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHT-T-HH-H----HHHHHHHHGTTSTTSTTSHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHc-CCHH-H----HHHHHHHHHhhCCCCCCcHHHHHHH
Confidence 999999999999999998443 2222222 23444556766664 6543 1 11122221 11 1123345
Q ss_pred HHHHHHhcCCHHHHHHHHHHccccccccc
Q 014453 258 ELVNTYNTGKIVELETYVQTNREKFESDN 286 (424)
Q Consensus 258 ~L~~a~~~gdl~~~~~~l~~~~~~f~~Dg 286 (424)
.|++||..||.+.|...+..+...=.=|+
T Consensus 240 ~l~~A~~~~D~e~f~~av~~~d~~~~ld~ 268 (282)
T PF14938_consen 240 DLLEAYEEGDVEAFTEAVAEYDSISRLDN 268 (282)
T ss_dssp HHHHHHHTT-CCCHHHHCHHHTTSS---H
T ss_pred HHHHHHHhCCHHHHHHHHHHHcccCccHH
Confidence 89999999999999999998877755554
No 31
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=95.07 E-value=0.046 Score=34.88 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
.++|+.|.++..+++|.+|.++|+.++. .|.
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~ 33 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPN 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence 5789999999999999999999999998 675
No 32
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=95.04 E-value=0.19 Score=41.14 Aligned_cols=94 Identities=12% Similarity=-0.024 Sum_probs=68.8
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.++.-.++..+..++.. .|+.......+..+.++....++|+.|...+.+-+...+........++..|.++...+++.
T Consensus 15 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~ 93 (119)
T TIGR02795 15 AGDYADAIQAFQAFLKK-YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKE 93 (119)
T ss_pred cCCHHHHHHHHHHHHHH-CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChH
Confidence 44455567777777654 44433334567788999999999999999988755322222233456788999999999999
Q ss_pred HHHHHHHHHhc-ccCc
Q 014453 195 KALELLHNVVT-APMS 209 (424)
Q Consensus 195 ~A~~~~~~a~~-~P~~ 209 (424)
+|..+|..++. .|.+
T Consensus 94 ~A~~~~~~~~~~~p~~ 109 (119)
T TIGR02795 94 KAKATLQQVIKRYPGS 109 (119)
T ss_pred HHHHHHHHHHHHCcCC
Confidence 99999999998 6764
No 33
>PRK12370 invasion protein regulator; Provisional
Probab=94.91 E-value=1.3 Score=47.59 Aligned_cols=205 Identities=10% Similarity=0.045 Sum_probs=111.9
Q ss_pred ccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHH
Q 014453 119 IRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALE 198 (424)
Q Consensus 119 ~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~ 198 (424)
..++..++.|+ .++|+. ...|..+-.++...++++.|...+++-+- .+ |. ....+|+.|.++...++|++|..
T Consensus 321 ~~A~~~~~~Al-~ldP~~---~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-l~-P~-~~~a~~~lg~~l~~~G~~~eAi~ 393 (553)
T PRK12370 321 IKAKEHAIKAT-ELDHNN---PQALGLLGLINTIHSEYIVGSLLFKQANL-LS-PI-SADIKYYYGWNLFMAGQLEEALQ 393 (553)
T ss_pred HHHHHHHHHHH-hcCCCC---HHHHHHHHHHHHHccCHHHHHHHHHHHHH-hC-CC-CHHHHHHHHHHHHHCCCHHHHHH
Confidence 45667778776 456654 35677888888899999999999988543 22 22 33456778999999999999999
Q ss_pred HHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhh----ccHHHHHHHHHH-hcCCHHHHH
Q 014453 199 LLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKN----FSQPYMELVNTY-NTGKIVELE 272 (424)
Q Consensus 199 ~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~----~~~~Y~~L~~a~-~~gdl~~~~ 272 (424)
+|+.++. .|...... +.+ ..+ +...|+..+ .-....+..+. ....+..++.++ ..|+.++-.
T Consensus 394 ~~~~Al~l~P~~~~~~-----~~~-~~~-~~~~g~~ee-----A~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~ 461 (553)
T PRK12370 394 TINECLKLDPTRAAAG-----ITK-LWI-TYYHTGIDD-----AIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELAR 461 (553)
T ss_pred HHHHHHhcCCCChhhH-----HHH-HHH-HHhccCHHH-----HHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHH
Confidence 9999999 78753111 111 111 222355331 11122222211 112245566665 567777655
Q ss_pred HHHHHcccccccccchhHHHHHHHH------HHHHHHHHHHhhhhc--ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 273 TYVQTNREKFESDNNLGLVKQVVSS------MYKRNIQRLTQTYLT--LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 273 ~~l~~~~~~f~~Dgn~~Lv~~l~~~------v~r~~I~~l~~~Ys~--Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
..+.+.......+- .....+-.. --...++++-+.+.+ +....++....+-++.+.+.+..+++.+|.++
T Consensus 462 ~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 539 (553)
T PRK12370 462 KLTKEISTQEITGL--IAVNLLYAEYCQNSERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMWNKFKNEDNIW 539 (553)
T ss_pred HHHHHhhhccchhH--HHHHHHHHHHhccHHHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHHHHhhccchHh
Confidence 55544333322211 111111111 111112223332221 22333444444434567777779999988764
No 34
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=94.78 E-value=0.079 Score=41.60 Aligned_cols=77 Identities=8% Similarity=0.142 Sum_probs=51.8
Q ss_pred chHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHH
Q 014453 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELL 200 (424)
Q Consensus 121 ~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~ 200 (424)
++.....++. .+|+.. -......+.+++...++|..|..++++ ...+ .......|..|+++..+++|++|...|
T Consensus 8 Ai~~~~k~~~-~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~--~~~~--~~~~~~~~l~a~~~~~l~~y~eAi~~l 81 (84)
T PF12895_consen 8 AIKYYEKLLE-LDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK--LKLD--PSNPDIHYLLARCLLKLGKYEEAIKAL 81 (84)
T ss_dssp HHHHHHHHHH-HHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC--HTHH--HCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred HHHHHHHHHH-HCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH--hCCC--CCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 4444444443 344311 222344478899999999999999988 2222 234566667799999999999999999
Q ss_pred HHH
Q 014453 201 HNV 203 (424)
Q Consensus 201 ~~a 203 (424)
+.+
T Consensus 82 ~~~ 84 (84)
T PF12895_consen 82 EKA 84 (84)
T ss_dssp HHH
T ss_pred hcC
Confidence 865
No 35
>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=94.55 E-value=0.095 Score=39.20 Aligned_cols=63 Identities=14% Similarity=0.217 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhh-cHHHHHHHHHHHhc-cc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK-RFRKALELLHNVVT-AP 207 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~-~y~~A~~~~~~a~~-~P 207 (424)
.+...-......++|+.|+...++.|-. + .+....+|..|.++..++ +|.+|..+|..|+. .|
T Consensus 5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~-~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 5 AWYNLGQIYFQQGDYEEAIEYFEKAIEL-D--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHHHHTTHHHHHHHHHHHHHHH-S--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHc-C--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 3556667788889999999888886542 2 235668888999999998 89999999999987 55
No 36
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=93.73 E-value=0.37 Score=48.92 Aligned_cols=90 Identities=14% Similarity=0.148 Sum_probs=69.4
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..+....++..++.|+ +++|+. ...+..+..+++..++|+.|+..+++.+- ++ | +....++..|.++..+++|
T Consensus 14 ~~~~~~~Ai~~~~~Al-~~~P~~---~~a~~~~a~~~~~~g~~~eAl~~~~~Al~-l~-P-~~~~a~~~lg~~~~~lg~~ 86 (356)
T PLN03088 14 VDDDFALAVDLYTQAI-DLDPNN---AELYADRAQANIKLGNFTEAVADANKAIE-LD-P-SLAKAYLRKGTACMKLEEY 86 (356)
T ss_pred HcCCHHHHHHHHHHHH-HhCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hC-c-CCHHHHHHHHHHHHHhCCH
Confidence 3444556778888887 456653 45678888899999999999999888653 22 2 2455677889999999999
Q ss_pred HHHHHHHHHHhc-ccCcc
Q 014453 194 RKALELLHNVVT-APMSS 210 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~~ 210 (424)
.+|..+|+.++. .|...
T Consensus 87 ~eA~~~~~~al~l~P~~~ 104 (356)
T PLN03088 87 QTAKAALEKGASLAPGDS 104 (356)
T ss_pred HHHHHHHHHHHHhCCCCH
Confidence 999999999999 78764
No 37
>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=93.49 E-value=0.15 Score=32.63 Aligned_cols=31 Identities=19% Similarity=0.286 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
+-+|..|.++..+++|.+|..+|+.|++ .|.
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD 33 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence 4578899999999999999999999998 664
No 38
>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=93.19 E-value=0.71 Score=34.30 Aligned_cols=86 Identities=14% Similarity=0.132 Sum_probs=55.2
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.+....++..++.++. ..|... ..+..+...+...++++.|...+.+.+-.. +. ....++..|.++...++|.
T Consensus 13 ~~~~~~A~~~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~ 85 (100)
T cd00189 13 LGDYDEALEYYEKALE-LDPDNA---DAYYNLAAAYYKLGKYEEALEDYEKALELD--PD-NAKAYYNLGLAYYKLGKYE 85 (100)
T ss_pred HhcHHHHHHHHHHHHh-cCCccH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--Cc-chhHHHHHHHHHHHHHhHH
Confidence 3444455666666653 333321 456667777777788888888777654321 11 1145667788888888888
Q ss_pred HHHHHHHHHhc-cc
Q 014453 195 KALELLHNVVT-AP 207 (424)
Q Consensus 195 ~A~~~~~~a~~-~P 207 (424)
+|..+|..++. .|
T Consensus 86 ~a~~~~~~~~~~~~ 99 (100)
T cd00189 86 EALEAYEKALELDP 99 (100)
T ss_pred HHHHHHHHHHccCC
Confidence 88888888876 44
No 39
>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=92.94 E-value=0.29 Score=37.34 Aligned_cols=47 Identities=19% Similarity=0.220 Sum_probs=37.8
Q ss_pred HHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 302 ~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
.|+.+-+--.++|+.+||..++++ ++.+|.++..+|..|.|.-.-..
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~s-~~~ve~mL~~l~~kG~I~~~~~~ 50 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGIS-PEAVEAMLEQLIRKGYIRKVDMS 50 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT---HHHHHHHHHHHHCCTSCEEEEEE
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCcEEEecCC
Confidence 456666777899999999999998 99999999999999999855443
No 40
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=92.23 E-value=1.3 Score=41.06 Aligned_cols=90 Identities=10% Similarity=0.008 Sum_probs=63.2
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHH-HHHHccC--hHHHHhccccccccccCchhhHHHHHHHHHHHHhh
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQ-LCLLAKC--YKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~r-lcL~~~~--y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~ 190 (424)
..+..-.++..++.|+ +++|+. ..++..+.. ++...+. +..|..++++.+-.-+ .....++..|.+++..
T Consensus 85 ~~g~~~~A~~a~~~Al-~l~P~~---~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP---~~~~al~~LA~~~~~~ 157 (198)
T PRK10370 85 WRNDYDNALLAYRQAL-QLRGEN---AELYAALATVLYYQAGQHMTPQTREMIDKALALDA---NEVTALMLLASDAFMQ 157 (198)
T ss_pred HCCCHHHHHHHHHHHH-HhCCCC---HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC---CChhHHHHHHHHHHHc
Confidence 3455566778888886 566654 234555555 3456666 5889888888654222 2556778889999999
Q ss_pred hcHHHHHHHHHHHhc-ccCcc
Q 014453 191 KRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 191 ~~y~~A~~~~~~a~~-~P~~~ 210 (424)
++|.+|..+|+.++. .|...
T Consensus 158 g~~~~Ai~~~~~aL~l~~~~~ 178 (198)
T PRK10370 158 ADYAQAIELWQKVLDLNSPRV 178 (198)
T ss_pred CCHHHHHHHHHHHHhhCCCCc
Confidence 999999999999998 66543
No 41
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=91.77 E-value=1.1 Score=43.48 Aligned_cols=94 Identities=10% Similarity=-0.010 Sum_probs=70.3
Q ss_pred hccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHH
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRK 195 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~ 195 (424)
+..-.++..+...+.++ |++..-...|-.+-.+.+..|+|+.|.....+-+-..+.....-.-.|..|.++...+++.+
T Consensus 157 ~~y~~Ai~af~~fl~~y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~ 235 (263)
T PRK10803 157 SRQDDAIVAFQNFVKKY-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAK 235 (263)
T ss_pred CCHHHHHHHHHHHHHHC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHH
Confidence 34456677787777665 55444445788888999999999999988887664443323344456678999999999999
Q ss_pred HHHHHHHHhc-ccCcc
Q 014453 196 ALELLHNVVT-APMSS 210 (424)
Q Consensus 196 A~~~~~~a~~-~P~~~ 210 (424)
|...|+.++. .|.+.
T Consensus 236 A~~~~~~vi~~yP~s~ 251 (263)
T PRK10803 236 AKAVYQQVIKKYPGTD 251 (263)
T ss_pred HHHHHHHHHHHCcCCH
Confidence 9999999998 78764
No 42
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=91.63 E-value=1.8 Score=40.38 Aligned_cols=110 Identities=12% Similarity=0.028 Sum_probs=72.1
Q ss_pred cchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchh
Q 014453 96 YVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRD 175 (424)
Q Consensus 96 ~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~ 175 (424)
..++.+..++..+. ..++.-.++..+..++. ..|++......+..+.......++|+.|...+++-+-..+....
T Consensus 31 ~~~~~~~~~g~~~~----~~~~~~~A~~~~~~~~~-~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~ 105 (235)
T TIGR03302 31 WPAEELYEEAKEAL----DSGDYTEAIKYFEALES-RYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD 105 (235)
T ss_pred CCHHHHHHHHHHHH----HcCCHHHHHHHHHHHHH-hCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc
Confidence 44444444444332 23444556777777754 44544333345677788888999999999998886543332222
Q ss_pred hHHHHHHHHHHHHhh--------hcHHHHHHHHHHHhc-ccCcc
Q 014453 176 FFLYCYYGGMIFIGQ--------KRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 176 ~l~Y~YY~G~I~~~~--------~~y~~A~~~~~~a~~-~P~~~ 210 (424)
...-+|..|.++... +++.+|.+.|..++. .|...
T Consensus 106 ~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~ 149 (235)
T TIGR03302 106 ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSE 149 (235)
T ss_pred hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCCh
Confidence 223467788888876 899999999999998 77753
No 43
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=91.38 E-value=0.35 Score=30.35 Aligned_cols=30 Identities=17% Similarity=0.290 Sum_probs=26.8
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.|..|+++...++|.+|...|+.++. .|.+
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s 33 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS 33 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence 46889999999999999999999998 7753
No 44
>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=90.99 E-value=0.37 Score=30.65 Aligned_cols=30 Identities=23% Similarity=0.369 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhc-cc
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P 207 (424)
+.++..|.++..++++++|..+|..|++ .|
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKALELNP 32 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 4678899999999999999999999998 55
No 45
>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=90.84 E-value=1.3 Score=45.72 Aligned_cols=81 Identities=17% Similarity=0.215 Sum_probs=62.3
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.+....+|..+..++... |.. ..+-..+++.|+..+.|+.|+++..+.+.-- | +..+..|+.+.+|+..++|+
T Consensus 213 ~~~E~~AI~ll~~aL~~~-p~d---~~LL~~Qa~fLl~k~~~~lAL~iAk~av~ls--P-~~f~~W~~La~~Yi~~~d~e 285 (395)
T PF09295_consen 213 MNEEVEAIRLLNEALKEN-PQD---SELLNLQAEFLLSKKKYELALEIAKKAVELS--P-SEFETWYQLAECYIQLGDFE 285 (395)
T ss_pred cCcHHHHHHHHHHHHHhC-CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--c-hhHHHHHHHHHHHHhcCCHH
Confidence 455678899999998543 322 5566788999999999999999998876421 2 24556677899999999999
Q ss_pred HHHHHHHH
Q 014453 195 KALELLHN 202 (424)
Q Consensus 195 ~A~~~~~~ 202 (424)
+|.-.+..
T Consensus 286 ~ALlaLNs 293 (395)
T PF09295_consen 286 NALLALNS 293 (395)
T ss_pred HHHHHHhc
Confidence 99976663
No 46
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=90.76 E-value=0.23 Score=40.84 Aligned_cols=37 Identities=19% Similarity=0.423 Sum_probs=34.0
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
=+++.+|+++++++ .++++..|..|+.+|.|+.+||.
T Consensus 65 Gv~v~~I~~~l~~~-~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 65 GVHVDEIAQQLGMS-ENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TEEHHHHHHHSTS--HHHHHHHHHHHHHTTSEEESSST
T ss_pred cccHHHHHHHhCcC-HHHHHHHHHHHHhCCeEecccCC
Confidence 48999999999998 89999999999999999999984
No 47
>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=90.35 E-value=0.54 Score=36.00 Aligned_cols=64 Identities=13% Similarity=0.038 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccc---cC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEI---NL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~---~~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
....+..++...++|+.|++..++.+--. +. ..+.+.-++-.|.++...++|++|..+|+.|+.
T Consensus 7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~ 74 (78)
T PF13424_consen 7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD 74 (78)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 34566778888999999999988864221 11 235688889999999999999999999999986
No 48
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=90.23 E-value=11 Score=38.75 Aligned_cols=233 Identities=17% Similarity=0.206 Sum_probs=123.9
Q ss_pred HHHHHHHHccChHHHHhccccccccc--cCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhccc--------Cc----c
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDDIYEI--NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAP--------MS----S 210 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~i~~~--~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P--------~~----~ 210 (424)
=++|.-...|+|...+.+++-.=-++ ..|...++ ||.|-.|+..++|.+|.+.|..++..= .. .
T Consensus 240 GLlR~H~lLgDhQat~q~idi~pk~iy~t~p~c~VT--Y~VGFayLmmrryadai~~F~niLlyIqrtks~~~~~~y~~d 317 (525)
T KOG3677|consen 240 GLLRMHILLGDHQATSQILDIMPKEIYGTEPMCRVT--YQVGFAYLMMRRYADAIRVFLNILLYIQRTKSMFSRTTYQYD 317 (525)
T ss_pred HHHHHHHHhhhhHhhhhhhhcCchhhcCcccceeEe--eehhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhhHh
Confidence 35677777888666555544321111 01455666 899999999999999999999988631 11 0
Q ss_pred ccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHccccccc------
Q 014453 211 INAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFES------ 284 (424)
Q Consensus 211 ~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~------ 284 (424)
.+.-.-|-.-.+.=.++-++ |-......+..+.. -|.+=.--..+||...|+....-....|..
T Consensus 318 ~inKq~eqm~~llai~l~~y-------Pq~iDESi~s~l~E---k~~d~ml~mqng~~q~~ks~f~y~cpkflsp~~~~~ 387 (525)
T KOG3677|consen 318 MINKQNEQMHHLLAICLSMY-------PQMIDESIHSQLAE---KYGDKMLPMQNGDPQVFKSLFSYLCPKFLSPVVPNY 387 (525)
T ss_pred hhhhhHHHHHHHHHHHHHhC-------chhhhHHHHHHHHH---HhcchhhhhhcCChHHHHHHHHHcCccccCCCCccc
Confidence 01111111111111122221 21111111111111 122211122459999999988877777752
Q ss_pred ccchh------HHHH-------HHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHH-----HHhH------Hc
Q 014453 285 DNNLG------LVKQ-------VVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHV-----LQMI------QD 340 (424)
Q Consensus 285 Dgn~~------Lv~~-------l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v-----~~mI------~~ 340 (424)
||... +..| +.+...--.+|..-+-|++.+.+.+|.-+.+++ +|-.+.+ -+++ .+
T Consensus 388 dgv~~~y~kePl~~qlq~fld~v~qq~dl~~~rsylklyTt~P~kkla~F~D~~d-~~~dk~li~Ll~~khkm~nlv~~s 466 (525)
T KOG3677|consen 388 DGVLPNYHKEPLLQQLQVFLDEVSQQADLPTIRSYLKLYTTLPVKKLASFLDLTD-QERDKFLIQLLVFKHKMKNLVWTS 466 (525)
T ss_pred ccccccccccHHHHHHHHHhHHHhhhccchHHHHHHHHHHhccHHHhhhccCCch-hhhhhhHHHHHHHHHHHHHHHHhc
Confidence 33221 2222 222222334778888899999999999999873 4422222 2222 24
Q ss_pred CceEEEEe-cCCCEEEEecCCCcc---C---hHHHHHHHHHHHHHHHHHHHHHHHHh
Q 014453 341 GEIFATIN-QKDGMVRFLEDPEQY---K---TCEMIEHIDSSIQRIMSLSKKLTAMD 390 (424)
Q Consensus 341 G~I~A~Id-~~~g~v~F~~~~~~~---~---~~~~~~~~~~~i~~~~~L~~~~~~~d 390 (424)
|.+...++ .+...|-|--+.|.. + ..+...-+-..|.+..+++..++.++
T Consensus 467 g~s~~d~~f~~~s~idfyid~dmi~iaDtkv~r~~gd~fir~i~kf~El~~vLK~i~ 523 (525)
T KOG3677|consen 467 GPSDLDDAFFSRSEIDFYIDKDMIHIADTKVARRYGDIFIRQIHKFEELNRVLKLIT 523 (525)
T ss_pred CCccccccccCcceeeEEechhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 55554544 234566665333321 1 22444556667777777777776654
No 49
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=89.26 E-value=13 Score=40.37 Aligned_cols=63 Identities=13% Similarity=0.163 Sum_probs=34.9
Q ss_pred HHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 143 h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
|..+..++...++|+.|+..+++.+-.. |. ....+++.|.++...++|.+|...|..|+. .|.
T Consensus 436 ~~~la~~~~~~g~~~eA~~~~~~al~~~--P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~ 499 (615)
T TIGR00990 436 HIQLGVTQYKEGSIASSMATFRRCKKNF--PE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKE 499 (615)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCc
Confidence 4444455555555555555555433211 11 223344557777777777777777777776 454
No 50
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=88.92 E-value=3.4 Score=36.01 Aligned_cols=76 Identities=5% Similarity=-0.063 Sum_probs=58.2
Q ss_pred HHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHh
Q 014453 125 MLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (424)
Q Consensus 125 L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~ 204 (424)
+..|+ +++|+. +..........|.|+.|.....+-+.. + -....+++-.|.++...++|.+|..+|..++
T Consensus 16 ~~~al-~~~p~~------~~~~g~~~~~~g~~~~A~~~~~~al~~-~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al 85 (144)
T PRK15359 16 LKQLL-SVDPET------VYASGYASWQEGDYSRAVIDFSWLVMA-Q--PWSWRAHIALAGTWMMLKEYTTAINFYGHAL 85 (144)
T ss_pred HHHHH-HcCHHH------HHHHHHHHHHcCCHHHHHHHHHHHHHc-C--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 45554 566653 445677888999999998888775432 1 2356788889999999999999999999999
Q ss_pred c-ccCcc
Q 014453 205 T-APMSS 210 (424)
Q Consensus 205 ~-~P~~~ 210 (424)
. .|...
T Consensus 86 ~l~p~~~ 92 (144)
T PRK15359 86 MLDASHP 92 (144)
T ss_pred hcCCCCc
Confidence 9 77654
No 51
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=88.43 E-value=3.9 Score=41.96 Aligned_cols=88 Identities=10% Similarity=0.065 Sum_probs=61.3
Q ss_pred hHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC----------------------------c
Q 014453 122 VGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----------------------------P 173 (424)
Q Consensus 122 i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~----------------------------~ 173 (424)
...+......+...-.....+|..+.+..+..|+++.|..++.+..-.-+. .
T Consensus 245 ~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~ 324 (398)
T PRK10747 245 SEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQH 324 (398)
T ss_pred HHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhC
Confidence 344555444442222233567888888888888888888887765431100 1
Q ss_pred hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 174 RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 174 ~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.+...+++..|++++..++|.+|.++|+.++. .|+.
T Consensus 325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~ 361 (398)
T PRK10747 325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA 361 (398)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH
Confidence 13456788999999999999999999999999 6764
No 52
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=88.18 E-value=0.51 Score=34.94 Aligned_cols=56 Identities=20% Similarity=0.227 Sum_probs=40.7
Q ss_pred HHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 151 LLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 151 L~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+..|+|+.|+.++.+-+-..| +.....+..|.+++..++|.+|...|..+.. .|..
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p---~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~ 58 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNP---DNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDN 58 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTT---TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTH
T ss_pred hhccCHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCH
Confidence 567888888888887543222 2445555778899999999999999998887 6663
No 53
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=87.90 E-value=1.6 Score=31.71 Aligned_cols=32 Identities=16% Similarity=0.173 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.|.||.+.-+...++|.+|.++...++. -|.+
T Consensus 2 d~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N 34 (53)
T PF14853_consen 2 DCLYYLAIGHYKLGEYEKARRYCDALLEIEPDN 34 (53)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-
T ss_pred hhHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCc
Confidence 4789999999999999999999999999 7876
No 54
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.76 E-value=3 Score=44.99 Aligned_cols=108 Identities=11% Similarity=0.162 Sum_probs=68.7
Q ss_pred hhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcccccccccc
Q 014453 92 EQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN 171 (424)
Q Consensus 92 ~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~ 171 (424)
.+.|..|..|.++...|.-. +.--.+|.....|++ ++|. ++-.|+.+=.-......|+.|.+-..+.+- ++
T Consensus 415 ~~~~~sPesWca~GNcfSLQ----kdh~~Aik~f~RAiQ-ldp~---faYayTLlGhE~~~~ee~d~a~~~fr~Al~-~~ 485 (638)
T KOG1126|consen 415 DTDPNSPESWCALGNCFSLQ----KDHDTAIKCFKRAIQ-LDPR---FAYAYTLLGHESIATEEFDKAMKSFRKALG-VD 485 (638)
T ss_pred hhCCCCcHHHHHhcchhhhh----hHHHHHHHHHHHhhc-cCCc---cchhhhhcCChhhhhHHHHhHHHHHHhhhc-CC
Confidence 44567777777766665432 112346666677763 3443 344455555555566666666555444332 11
Q ss_pred CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 172 LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 172 ~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
-...+=.|=.||||+.+++|+.|..+|..|+. .|.+.
T Consensus 486 --~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~ns 523 (638)
T KOG1126|consen 486 --PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNS 523 (638)
T ss_pred --chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccch
Confidence 12444567789999999999999999999999 89864
No 55
>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=87.73 E-value=2.2 Score=29.72 Aligned_cols=41 Identities=10% Similarity=0.171 Sum_probs=31.9
Q ss_pred HHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 303 I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
|...-.-=..+|..+||+.+|++ ..-+-.++.+|+..|.|.
T Consensus 8 Il~~l~~~~~~t~~ela~~~~is-~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 8 ILNYLRENPRITQKELAEKLGIS-RSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHCTTS-HHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHcCCCCHHHHHHHhCCC-HHHHHHHHHHHHHCcCcC
Confidence 33333335669999999999998 899999999999999874
No 56
>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=87.39 E-value=2.4 Score=35.64 Aligned_cols=79 Identities=10% Similarity=0.012 Sum_probs=57.9
Q ss_pred HHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHH
Q 014453 124 PMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNV 203 (424)
Q Consensus 124 ~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a 203 (424)
.+..++ +++|+. ......+...++..++|..|...+.+-+- .+ | +....++..|.++...++|.+|..+|..+
T Consensus 5 ~~~~~l-~~~p~~---~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~~-p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~ 77 (135)
T TIGR02552 5 TLKDLL-GLDSEQ---LEQIYALAYNLYQQGRYDEALKLFQLLAA-YD-P-YNSRYWLGLAACCQMLKEYEEAIDAYALA 77 (135)
T ss_pred hHHHHH-cCChhh---HHHHHHHHHHHHHcccHHHHHHHHHHHHH-hC-C-CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355554 345543 34567788889999999999988877432 11 1 24566678899999999999999999999
Q ss_pred hc-ccCc
Q 014453 204 VT-APMS 209 (424)
Q Consensus 204 ~~-~P~~ 209 (424)
+. .|..
T Consensus 78 ~~~~p~~ 84 (135)
T TIGR02552 78 AALDPDD 84 (135)
T ss_pred HhcCCCC
Confidence 98 5554
No 57
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=86.94 E-value=42 Score=36.39 Aligned_cols=89 Identities=10% Similarity=0.050 Sum_probs=66.5
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..+..-.++..+..|+. ++|. ....|..+..++...++|+.|+..+++-+- .+ | +....+|..|.++...++|
T Consensus 343 ~~g~~~eA~~~~~kal~-l~P~---~~~~~~~la~~~~~~g~~~eA~~~~~~al~-~~-p-~~~~~~~~lg~~~~~~g~~ 415 (615)
T TIGR00990 343 LKGKHLEALADLSKSIE-LDPR---VTQSYIKRASMNLELGDPDKAEEDFDKALK-LN-S-EDPDIYYHRAQLHFIKGEF 415 (615)
T ss_pred HcCCHHHHHHHHHHHHH-cCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hC-C-CCHHHHHHHHHHHHHcCCH
Confidence 34555667777888763 4553 244677888888899999999998887543 22 2 2345677889999999999
Q ss_pred HHHHHHHHHHhc-ccCc
Q 014453 194 RKALELLHNVVT-APMS 209 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~ 209 (424)
.+|..+|+.++. .|..
T Consensus 416 ~~A~~~~~kal~l~P~~ 432 (615)
T TIGR00990 416 AQAGKDYQKSIDLDPDF 432 (615)
T ss_pred HHHHHHHHHHHHcCccC
Confidence 999999999998 6764
No 58
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=86.79 E-value=3 Score=40.59 Aligned_cols=73 Identities=15% Similarity=0.033 Sum_probs=51.5
Q ss_pred HHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHH
Q 014453 149 LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYIL 224 (424)
Q Consensus 149 lcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iL 224 (424)
+.+..++|+.|...+.+-+-..|.....-.-+|+.|.+|...++|.+|..+|..++. .|.+.. .-+++-++..
T Consensus 152 l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~---~~dAl~klg~ 225 (263)
T PRK10803 152 LVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPK---AADAMFKVGV 225 (263)
T ss_pred HHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcc---hhHHHHHHHH
Confidence 445568999998887775543333222234568999999999999999999999998 676532 2256555443
No 59
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=86.62 E-value=14 Score=40.58 Aligned_cols=89 Identities=12% Similarity=0.137 Sum_probs=66.7
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..+.+-.++..+..++. .+|.. ...+..+.++.+..++|+.|..++++.+-. + | .....+++.|.++...++|
T Consensus 137 ~~~~~~~A~~~~~~a~~-~~~~~---~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~-~-~~~~~~~~~~~~~~~~g~~ 209 (899)
T TIGR02917 137 GLGQLELAQKSYEQALA-IDPRS---LYAKLGLAQLALAENRFDEARALIDEVLTA-D-P-GNVDALLLKGDLLLSLGNI 209 (899)
T ss_pred HcCCHHHHHHHHHHHHh-cCCCC---hhhHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-C-CChHHHHHHHHHHHhcCCH
Confidence 45556677777887764 45543 345778888999999999999998885432 1 2 2345667889999999999
Q ss_pred HHHHHHHHHHhc-ccCc
Q 014453 194 RKALELLHNVVT-APMS 209 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~ 209 (424)
.+|..+|..++. .|..
T Consensus 210 ~~A~~~~~~a~~~~p~~ 226 (899)
T TIGR02917 210 ELALAAYRKAIALRPNN 226 (899)
T ss_pred HHHHHHHHHHHhhCCCC
Confidence 999999999998 6754
No 60
>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=86.03 E-value=9.7 Score=34.65 Aligned_cols=120 Identities=14% Similarity=0.107 Sum_probs=77.2
Q ss_pred HHHHHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHH
Q 014453 81 IIARFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGL 160 (424)
Q Consensus 81 ~~~~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al 160 (424)
.+...-.+...+-+|.+. ..++.+|.+... --.|+..+..+ +-...++.+.--+...++|+++..++|..+.
T Consensus 22 elk~~~~n~~kesir~~~---~~l~~~~~~~Gd----~~~A~k~y~~~-~~~~~~~~~~id~~l~~irv~i~~~d~~~v~ 93 (177)
T PF10602_consen 22 ELKDAKSNLGKESIRMAL---EDLADHYCKIGD----LEEALKAYSRA-RDYCTSPGHKIDMCLNVIRVAIFFGDWSHVE 93 (177)
T ss_pred HHHHHHhccchHHHHHHH---HHHHHHHHHhhh----HHHHHHHHHHH-hhhcCCHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 333333444445555544 445556655432 12244444443 2233345555567789999999999999998
Q ss_pred hccccccccccC---chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccC
Q 014453 161 SVLEDDIYEINL---PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPM 208 (424)
Q Consensus 161 ~il~~~i~~~~~---~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~ 208 (424)
..+++.-..+.. ..-.-++.-|.|+.++..++|.+|.+.|..+..+.+
T Consensus 94 ~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~ 144 (177)
T PF10602_consen 94 KYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSLSTFT 144 (177)
T ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcCCC
Confidence 888874222221 233456788999999999999999999999987543
No 61
>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=85.88 E-value=3.2 Score=30.53 Aligned_cols=63 Identities=16% Similarity=0.149 Sum_probs=47.1
Q ss_pred HHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 144 ~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
..+.......++++.|.+.+.+-+-.. |.. ...++..|.++...++|.+|..+|..++. .|..
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~ 67 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALELD--PDN-ADAYYNLAAAYYKLGKYEEALEDYEKALELDPDN 67 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHhcC--Ccc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 345566677899999988887754321 222 25677899999999999999999999998 5554
No 62
>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=85.11 E-value=2 Score=25.05 Aligned_cols=29 Identities=21% Similarity=0.369 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHHhc-cc
Q 014453 179 YCYYGGMIFIGQKRFRKALELLHNVVT-AP 207 (424)
Q Consensus 179 Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P 207 (424)
.++..|.++...++|++|..+|..++. .|
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence 456789999999999999999999987 44
No 63
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=85.10 E-value=4.9 Score=35.65 Aligned_cols=91 Identities=10% Similarity=0.010 Sum_probs=57.7
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC----chhhHHHHHHHHHHHHh
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----PRDFFLYCYYGGMIFIG 189 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~----~~~~l~Y~YY~G~I~~~ 189 (424)
..+....++..++.|+. +.+++......|..+-.++...+.++.|+..+.+.+-.-+. .......++..|..+..
T Consensus 47 ~~g~~~~A~~~~~~al~-l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~ 125 (168)
T CHL00033 47 SEGEYAEALQNYYEAMR-LEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIE 125 (168)
T ss_pred HcCCHHHHHHHHHHHHh-ccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHH
Confidence 44556667777888864 34444334457888888999999999999888775432111 11234445555566667
Q ss_pred hhcHHHHHHHHHHHhc
Q 014453 190 QKRFRKALELLHNVVT 205 (424)
Q Consensus 190 ~~~y~~A~~~~~~a~~ 205 (424)
.++|.+|..+|..++.
T Consensus 126 ~g~~~~A~~~~~~a~~ 141 (168)
T CHL00033 126 QGDSEIAEAWFDQAAE 141 (168)
T ss_pred cccHHHHHHHHHHHHH
Confidence 8888766666655543
No 64
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=84.64 E-value=23 Score=38.86 Aligned_cols=60 Identities=20% Similarity=0.210 Sum_probs=30.4
Q ss_pred HHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 146 FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 146 l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
+...+...|+++.|...+.+-+-.. | +....++..|.++...++|.+|..+|..++. .|.
T Consensus 742 l~~~~~~~g~~~~A~~~~~~~l~~~--~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~ 802 (899)
T TIGR02917 742 LHRALLASGNTAEAVKTLEAWLKTH--P-NDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPD 802 (899)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhC--C-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCC
Confidence 4444455555555555444432211 1 1234445556666666666666666666665 443
No 65
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=84.38 E-value=47 Score=33.16 Aligned_cols=90 Identities=14% Similarity=0.177 Sum_probs=64.3
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC-chhhHHHHHHHHHHHHhhhcH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-~~~~l~Y~YY~G~I~~~~~~y 193 (424)
.++.-.++..+..++. .+|+. ...+..+..++...++|+.|..++++-+-.-+. +......++..|.++...++|
T Consensus 48 ~~~~~~A~~~~~~al~-~~p~~---~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~ 123 (389)
T PRK11788 48 NEQPDKAIDLFIEMLK-VDPET---VELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL 123 (389)
T ss_pred cCChHHHHHHHHHHHh-cCccc---HHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence 3444557777888864 45543 346788889999999999999887764431111 122345567779999999999
Q ss_pred HHHHHHHHHHhc-ccC
Q 014453 194 RKALELLHNVVT-APM 208 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~ 208 (424)
.+|..+|..++. .|.
T Consensus 124 ~~A~~~~~~~l~~~~~ 139 (389)
T PRK11788 124 DRAEELFLQLVDEGDF 139 (389)
T ss_pred HHHHHHHHHHHcCCcc
Confidence 999999999998 443
No 66
>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=84.15 E-value=3.4 Score=38.54 Aligned_cols=74 Identities=9% Similarity=-0.037 Sum_probs=56.4
Q ss_pred CCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 137 ~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
..-...+..+...++..++|+.|...+++-+-..+.......-+|..|.++...++|.+|...|..+++ .|...
T Consensus 30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~ 104 (235)
T TIGR03302 30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHP 104 (235)
T ss_pred cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCC
Confidence 333456778888899999999999988875432221122334567889999999999999999999998 88754
No 67
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=84.02 E-value=30 Score=30.70 Aligned_cols=87 Identities=6% Similarity=-0.053 Sum_probs=62.3
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.++.-.++..+..++. .+|+. ...+..+..++...++++.|...+.+.+-..+ . ....++..|.++...++|.
T Consensus 44 ~~~~~~A~~~~~~~l~-~~p~~---~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~--~-~~~~~~~~~~~~~~~g~~~ 116 (234)
T TIGR02521 44 QGDLEVAKENLDKALE-HDPDD---YLAYLALALYYQQLGELEKAEDSFRRALTLNP--N-NGDVLNNYGTFLCQQGKYE 116 (234)
T ss_pred CCCHHHHHHHHHHHHH-hCccc---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--C-CHHHHHHHHHHHHHcccHH
Confidence 4445556666777653 34432 35677888899999999999988887543212 1 2345566789999999999
Q ss_pred HHHHHHHHHhcccC
Q 014453 195 KALELLHNVVTAPM 208 (424)
Q Consensus 195 ~A~~~~~~a~~~P~ 208 (424)
+|..+|..++..|.
T Consensus 117 ~A~~~~~~~~~~~~ 130 (234)
T TIGR02521 117 QAMQQFEQAIEDPL 130 (234)
T ss_pred HHHHHHHHHHhccc
Confidence 99999999998654
No 68
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=83.71 E-value=6.5 Score=42.04 Aligned_cols=61 Identities=11% Similarity=0.030 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
.+-.+.+..-..|+|+.|+..+++.|-+-|. .+.+++.-|+|+-+.|++.+|.++++.|-.
T Consensus 196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt---~~ely~~KarilKh~G~~~~Aa~~~~~Ar~ 256 (517)
T PF12569_consen 196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPT---LVELYMTKARILKHAGDLKEAAEAMDEARE 256 (517)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 3455567777889999999999998875443 788999999999999999999999999988
No 69
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=82.91 E-value=4.3 Score=30.84 Aligned_cols=44 Identities=14% Similarity=0.203 Sum_probs=34.8
Q ss_pred HHHHHHHhhhhc--ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 301 RNIQRLTQTYLT--LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 301 ~~I~~l~~~Ys~--Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
..|..+-+.-.. ++..+||+.+|++ ...+..++..|..+|.|.-
T Consensus 9 ~~IL~~L~~~g~~~~ta~eLa~~lgl~-~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 9 EKILEFLENSGDETSTALQLAKNLGLP-KKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEe
Confidence 334444444444 9999999999998 6799999999999999864
No 70
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=82.85 E-value=2.1 Score=41.39 Aligned_cols=92 Identities=13% Similarity=0.078 Sum_probs=63.4
Q ss_pred HHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhh
Q 014453 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (424)
Q Consensus 111 ~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~ 190 (424)
.....|++-.++..++.|+ +++|+. +.+...++.+.+..++++.+..++..-.-..+. .-.+...-|.++..+
T Consensus 155 ~~~~~G~~~~A~~~~~~al-~~~P~~---~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~---~~~~~~~la~~~~~l 227 (280)
T PF13429_consen 155 IYEQLGDPDKALRDYRKAL-ELDPDD---PDARNALAWLLIDMGDYDEAREALKRLLKAAPD---DPDLWDALAAAYLQL 227 (280)
T ss_dssp HHHHCCHHHHHHHHHHHHH-HH-TT----HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HT---SCCHCHHHHHHHHHH
T ss_pred HHHHcCCHHHHHHHHHHHH-HcCCCC---HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcC---HHHHHHHHHHHhccc
Confidence 3345677788899999997 456764 345777888888999999877776653221111 112444559999999
Q ss_pred hcHHHHHHHHHHHhc-ccCc
Q 014453 191 KRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 191 ~~y~~A~~~~~~a~~-~P~~ 209 (424)
+++++|..+|+.++. .|..
T Consensus 228 g~~~~Al~~~~~~~~~~p~d 247 (280)
T PF13429_consen 228 GRYEEALEYLEKALKLNPDD 247 (280)
T ss_dssp T-HHHHHHHHHHHHHHSTT-
T ss_pred cccccccccccccccccccc
Confidence 999999999999998 6654
No 71
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=82.82 E-value=3.3 Score=33.53 Aligned_cols=65 Identities=18% Similarity=0.175 Sum_probs=47.7
Q ss_pred HHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.+....+..++|+.|...+.+-+-..+.......-.|..|.++...++|.+|..+|..++. .|..
T Consensus 7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~ 72 (119)
T TIGR02795 7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS 72 (119)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC
Confidence 4456677889999998888776532221111234456789999999999999999999998 6764
No 72
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=82.81 E-value=7.8 Score=44.80 Aligned_cols=46 Identities=13% Similarity=0.078 Sum_probs=22.3
Q ss_pred hccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccc
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD 166 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~ 166 (424)
+..-.++..++.|+ .++|+ ...|..+..++...+.++.|+..+.+.
T Consensus 590 Gr~~eAl~~~~~AL-~l~P~----~~a~~~LA~~l~~lG~~deA~~~l~~A 635 (987)
T PRK09782 590 GQPELALNDLTRSL-NIAPS----ANAYVARATIYRQRHNVPAAVSDLRAA 635 (987)
T ss_pred CCHHHHHHHHHHHH-HhCCC----HHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 44444455555554 23342 234445555555555555555555543
No 73
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=82.41 E-value=1.9 Score=28.13 Aligned_cols=25 Identities=24% Similarity=0.345 Sum_probs=21.2
Q ss_pred HHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 181 YYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 181 YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
...|.+|...++|++|.++|+.++.
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQALA 27 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4579999999999999999999764
No 74
>PRK11189 lipoprotein NlpI; Provisional
Probab=82.36 E-value=9.3 Score=37.49 Aligned_cols=88 Identities=11% Similarity=0.106 Sum_probs=66.2
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.+....++..+..|+. ++|+. ...|..+-.++...++|+.|....++.+- ++ |. ....++..|.++...++|.
T Consensus 77 ~g~~~~A~~~~~~Al~-l~P~~---~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-l~-P~-~~~a~~~lg~~l~~~g~~~ 149 (296)
T PRK11189 77 LGLRALARNDFSQALA-LRPDM---ADAYNYLGIYLTQAGNFDAAYEAFDSVLE-LD-PT-YNYAYLNRGIALYYGGRYE 149 (296)
T ss_pred CCCHHHHHHHHHHHHH-cCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hC-CC-CHHHHHHHHHHHHHCCCHH
Confidence 3445566777888864 56653 45678888899999999999988887642 22 22 3345567899999999999
Q ss_pred HHHHHHHHHhc-ccCc
Q 014453 195 KALELLHNVVT-APMS 209 (424)
Q Consensus 195 ~A~~~~~~a~~-~P~~ 209 (424)
+|...|..++. .|..
T Consensus 150 eA~~~~~~al~~~P~~ 165 (296)
T PRK11189 150 LAQDDLLAFYQDDPND 165 (296)
T ss_pred HHHHHHHHHHHhCCCC
Confidence 99999999998 7765
No 75
>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=82.14 E-value=3.4 Score=38.11 Aligned_cols=49 Identities=14% Similarity=0.318 Sum_probs=34.1
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEec
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
.=.-+.|.|+|..+|+. .+++-..|..+..+|.|.|.||..+++|..++
T Consensus 110 ~~Kvv~ledla~~f~l~-t~~~i~ri~~L~~~g~ltGv~DdrGkfIyIs~ 158 (188)
T PF09756_consen 110 EHKVVNLEDLAAEFGLR-TQDVINRIQELEAEGRLTGVIDDRGKFIYISE 158 (188)
T ss_dssp H-SEE-HHHHHHHH-S--HHHHHHHHHHHHHHSSS-EEE-TT--EEE---
T ss_pred HcceeeHHHHHHHcCCC-HHHHHHHHHHHHHCCCceeeEcCCCCeEEecH
Confidence 33458899999999998 78999999999999999999998777776653
No 76
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=81.72 E-value=8.2 Score=32.90 Aligned_cols=93 Identities=14% Similarity=0.025 Sum_probs=61.4
Q ss_pred HHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhh
Q 014453 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (424)
Q Consensus 112 ~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~ 191 (424)
....+.+-.+|...+.|+.. ..++....-.-..+-..+-..|.++.|+.++++.+-.++.+...-...+..++.....+
T Consensus 11 ~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~g 89 (120)
T PF12688_consen 11 HDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLG 89 (120)
T ss_pred HHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCC
Confidence 34567788899999999753 22332222222223333445579999999999877655432222233345678999999
Q ss_pred cHHHHHHHHHHHhc
Q 014453 192 RFRKALELLHNVVT 205 (424)
Q Consensus 192 ~y~~A~~~~~~a~~ 205 (424)
++.+|..++..++.
T Consensus 90 r~~eAl~~~l~~la 103 (120)
T PF12688_consen 90 RPKEALEWLLEALA 103 (120)
T ss_pred CHHHHHHHHHHHHH
Confidence 99999999988885
No 77
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=81.60 E-value=10 Score=41.75 Aligned_cols=92 Identities=5% Similarity=0.018 Sum_probs=60.4
Q ss_pred HHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc
Q 014453 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 113 ~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~ 192 (424)
...+..-.++..++.|+ .++|+. ...|..+...+...++|+.|+..+.+-+-. + |. ...+.++.|.++...++
T Consensus 295 ~~~g~~~eA~~~l~~al-~l~P~~---~~a~~~La~~l~~~G~~~eA~~~l~~al~~-~-P~-~~~~~~~~a~al~~~G~ 367 (656)
T PRK15174 295 IRTGQNEKAIPLLQQSL-ATHPDL---PYVRAMYARALRQVGQYTAASDEFVQLARE-K-GV-TSKWNRYAAAALLQAGK 367 (656)
T ss_pred HHCCCHHHHHHHHHHHH-HhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C-cc-chHHHHHHHHHHHHCCC
Confidence 34444555666677765 345543 234666777777788888887777654321 1 22 23456667888888999
Q ss_pred HHHHHHHHHHHhc-ccCccc
Q 014453 193 FRKALELLHNVVT-APMSSI 211 (424)
Q Consensus 193 y~~A~~~~~~a~~-~P~~~~ 211 (424)
+.+|..+|..++. .|....
T Consensus 368 ~deA~~~l~~al~~~P~~~~ 387 (656)
T PRK15174 368 TSEAESVFEHYIQARASHLP 387 (656)
T ss_pred HHHHHHHHHHHHHhChhhch
Confidence 9999999999998 676543
No 78
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=81.10 E-value=7.8 Score=34.71 Aligned_cols=94 Identities=11% Similarity=0.032 Sum_probs=62.6
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHH
Q 014453 106 KRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGM 185 (424)
Q Consensus 106 ~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~ 185 (424)
+.|.....+.++---+....+.+ .+++|.. ..-+--|--.|-..++|..|+..-++.+.- ..+.-+-++|.|.
T Consensus 39 Y~~A~~ly~~G~l~~A~~~f~~L-~~~Dp~~---~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L---~~ddp~~~~~ag~ 111 (157)
T PRK15363 39 YRYAMQLMEVKEFAGAARLFQLL-TIYDAWS---FDYWFRLGECCQAQKHWGEAIYAYGRAAQI---KIDAPQAPWAAAE 111 (157)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH-HHhCccc---HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCchHHHHHHH
Confidence 33444444444444444444444 4677764 234556666777888999998877775431 1235566788999
Q ss_pred HHHhhhcHHHHHHHHHHHhc-c
Q 014453 186 IFIGQKRFRKALELLHNVVT-A 206 (424)
Q Consensus 186 I~~~~~~y~~A~~~~~~a~~-~ 206 (424)
+++..++-..|...|..|+. |
T Consensus 112 c~L~lG~~~~A~~aF~~Ai~~~ 133 (157)
T PRK15363 112 CYLACDNVCYAIKALKAVVRIC 133 (157)
T ss_pred HHHHcCCHHHHHHHHHHHHHHh
Confidence 99999999999999999998 5
No 79
>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=80.94 E-value=2.5 Score=31.29 Aligned_cols=34 Identities=21% Similarity=0.380 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 177 l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
...++..|.+++..++|.+|..+|+.++. .|...
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~ 37 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNA 37 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH
Confidence 45677889999999999999999999999 77753
No 80
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=80.71 E-value=10 Score=34.72 Aligned_cols=63 Identities=16% Similarity=0.274 Sum_probs=44.4
Q ss_pred HHHHHHhcCCHHHHHHHHHHcccccccccc-hhHHHHHHHHHHHHHHHHHHhhhhc-ccHHHHHHHhCC
Q 014453 258 ELVNTYNTGKIVELETYVQTNREKFESDNN-LGLVKQVVSSMYKRNIQRLTQTYLT-LSLQDIANTVQL 324 (424)
Q Consensus 258 ~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn-~~Lv~~l~~~v~r~~I~~l~~~Ys~-Isl~~Ia~~l~l 324 (424)
++..++..||..+|-+.+++.. .... ..++......++.+.++.++++|.. |+++.+++.|+.
T Consensus 140 ~l~~a~~~gny~~ff~l~~~~~----~~~l~~~l~~~~~~~iR~~al~~i~~ay~~~i~l~~l~~~L~F 204 (204)
T PF03399_consen 140 ELCRALMEGNYVRFFRLYRSKS----APYLFACLMERFFNRIRLRALQSISKAYRSSIPLSFLAELLGF 204 (204)
T ss_dssp HHHHHH--TTHHHHHHHHT-TT----S-HHHHHHHGGGHHHHHHHHHHHHHHHS-T-EEHHHHHHHTT-
T ss_pred HHHHHHHcCCHHHHHHHHhccC----CChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHcCC
Confidence 6778999999888877772211 1111 1245567889999999999999999 999999998873
No 81
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=80.69 E-value=11 Score=33.64 Aligned_cols=74 Identities=5% Similarity=-0.059 Sum_probs=46.5
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~ 192 (424)
.+..-.++..++.|+. ..|++......+..+..++...++|+.|...+.+.+-.. |. ....++..|.++...++
T Consensus 48 ~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~-~~~~~~~lg~~~~~~g~ 121 (172)
T PRK02603 48 DGEYAEALENYEEALK-LEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--PK-QPSALNNIAVIYHKRGE 121 (172)
T ss_pred cCCHHHHHHHHHHHHH-HhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cc-cHHHHHHHHHHHHHcCC
Confidence 3445567777777764 344433234567788888899999999998888765421 11 23344455677766555
No 82
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=80.63 E-value=4.4 Score=36.21 Aligned_cols=68 Identities=21% Similarity=0.191 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.+..+...+...++|+.|.....+.+-.-+.+.+...+++..|.++...++|++|..+|..++. .|..
T Consensus 37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~ 105 (172)
T PRK02603 37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQ 105 (172)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccc
Confidence 3456667788889999999888876531111223456788889999999999999999999999 6654
No 83
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=79.70 E-value=5.2 Score=35.24 Aligned_cols=44 Identities=20% Similarity=0.280 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHH
Q 014453 290 LVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHV 334 (424)
Q Consensus 290 Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v 334 (424)
.+.-++....|+...-+.+.|++|...|+|..+|++ ++++-..|
T Consensus 110 imaAf~D~~~kR~FaLl~qAYssI~~~D~A~FlGl~-~ddAtk~i 153 (197)
T KOG4414|consen 110 IMAAFRDATRKRAFALLLQAYSSIIADDFAAFLGLP-EDDATKGI 153 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-HHHHHHHH
Confidence 566678888999999999999999999999999999 66665544
No 84
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=79.52 E-value=5.6 Score=35.24 Aligned_cols=72 Identities=17% Similarity=0.038 Sum_probs=53.5
Q ss_pred CcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcc-cCc
Q 014453 138 HLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTA-PMS 209 (424)
Q Consensus 138 ~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~-P~~ 209 (424)
.....+.....++...+.|+.|+..+.+.+-..+.+.+...-++..|.++...+++.+|..+|+.|++. |..
T Consensus 33 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~ 105 (168)
T CHL00033 33 KEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFL 105 (168)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCc
Confidence 345566777888888999999999888764322222333445677899999999999999999999984 443
No 85
>KOG3250 consensus COP9 signalosome, subunit CSN7 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=79.35 E-value=17 Score=34.28 Aligned_cols=95 Identities=11% Similarity=0.162 Sum_probs=65.9
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHH
Q 014453 254 QPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMH 333 (424)
Q Consensus 254 ~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~ 333 (424)
..|..+.+.|-.|+...+...... |.+ ..+.+... +....|-.++..-..|+-..+-..+.+.+.-++|.+
T Consensus 60 sa~lrlL~lFa~Gt~~Dy~aea~r----lp~---Ls~~q~~k--Lk~ltV~slas~~k~lpy~~Ll~~l~~~nvrelEd~ 130 (258)
T KOG3250|consen 60 SAYLRLLELFAYGTYRDYSAEALR----LPK---LSLAQLNK--LKHLTVVSLASFEKCLPYLVLLRLLPSRNVRELEDL 130 (258)
T ss_pred HHHHHHHHHHhcCchhhhhhhhhc----CCC---CCHHHHHh--hhcceehhhhhhchhhhHHHHHhhccCCchhHHHHH
Confidence 579999999999998877654421 211 11111110 111123444555567888888888888889999999
Q ss_pred HHHhHHcCceEEEEecCCCEEEEe
Q 014453 334 VLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 334 v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
|.+++..|.+.|+||+.+..++-.
T Consensus 131 iieamya~IlrGkldqr~q~leV~ 154 (258)
T KOG3250|consen 131 IIEAMYADILRGKLDQRNQTLEVD 154 (258)
T ss_pred HHHHHHHHHHHhhHHhhcceEeec
Confidence 999999999999999988776543
No 86
>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=79.14 E-value=10 Score=27.46 Aligned_cols=38 Identities=13% Similarity=0.213 Sum_probs=32.5
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD 351 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~ 351 (424)
++..+|++.++++ ..-+-.+|..|+..|.|.-.-+..+
T Consensus 22 ~t~~~la~~l~~~-~~~vs~~v~~L~~~Glv~r~~~~~D 59 (62)
T PF12802_consen 22 LTQSELAERLGIS-KSTVSRIVKRLEKKGLVERERDPGD 59 (62)
T ss_dssp EEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEEE-SSS
T ss_pred cCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEEeCCCCC
Confidence 9999999999998 7899999999999999987766544
No 87
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=79.13 E-value=9.8 Score=27.39 Aligned_cols=51 Identities=12% Similarity=0.154 Sum_probs=40.3
Q ss_pred HHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC
Q 014453 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD 351 (424)
Q Consensus 300 r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~ 351 (424)
++.+..+-..+-.++..+||+.++++ ..-+-.++.+|+..|.|.-..+..+
T Consensus 5 q~~iL~~l~~~~~~~~~~la~~~~~~-~~~~t~~i~~L~~~g~I~r~~~~~D 55 (59)
T PF01047_consen 5 QFRILRILYENGGITQSELAEKLGIS-RSTVTRIIKRLEKKGLIERERDPDD 55 (59)
T ss_dssp HHHHHHHHHHHSSEEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEEEETTE
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHCCC-hhHHHHHHHHHHHCCCEEeccCCCC
Confidence 34444444567789999999999998 7888899999999999988877653
No 88
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=78.85 E-value=2.7 Score=40.54 Aligned_cols=91 Identities=16% Similarity=0.036 Sum_probs=45.8
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..+.|-.++..+..+..+. +++..+ ...+.++...+.|+.+..++++-.- .........|++..|.++...|++
T Consensus 89 ~~~~~~~A~~~~~~~~~~~-~~~~~l----~~~l~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~a~~~~~~G~~ 162 (280)
T PF13429_consen 89 QDGDPEEALKLAEKAYERD-GDPRYL----LSALQLYYRLGDYDEAEELLEKLEE-LPAAPDSARFWLALAEIYEQLGDP 162 (280)
T ss_dssp ----------------------------------H-HHHTT-HHHHHHHHHHHHH--T---T-HHHHHHHHHHHHHCCHH
T ss_pred ccccccccccccccccccc-cccchh----hHHHHHHHHHhHHHHHHHHHHHHHh-ccCCCCCHHHHHHHHHHHHHcCCH
Confidence 4566777777777776553 444333 3466778899999999999888331 121245678888999999999999
Q ss_pred HHHHHHHHHHhc-ccCcc
Q 014453 194 RKALELLHNVVT-APMSS 210 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~~ 210 (424)
.+|.++|..|+. .|.+.
T Consensus 163 ~~A~~~~~~al~~~P~~~ 180 (280)
T PF13429_consen 163 DKALRDYRKALELDPDDP 180 (280)
T ss_dssp HHHHHHHHHHHHH-TT-H
T ss_pred HHHHHHHHHHHHcCCCCH
Confidence 999999999999 88753
No 89
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=77.76 E-value=22 Score=36.43 Aligned_cols=105 Identities=16% Similarity=0.070 Sum_probs=72.6
Q ss_pred chhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccc
Q 014453 91 AEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEI 170 (424)
Q Consensus 91 ~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~ 170 (424)
|.-.|.-|....+.+..+..+ +..--+.+.++.++.+- .++. .+..--|+.-+++.+=++.+++-+...
T Consensus 256 pr~lr~~p~l~~~~a~~li~l----~~~~~A~~~i~~~Lk~~-~D~~------L~~~~~~l~~~d~~~l~k~~e~~l~~h 324 (400)
T COG3071 256 PRKLRNDPELVVAYAERLIRL----GDHDEAQEIIEDALKRQ-WDPR------LCRLIPRLRPGDPEPLIKAAEKWLKQH 324 (400)
T ss_pred cHHhhcChhHHHHHHHHHHHc----CChHHHHHHHHHHHHhc-cChh------HHHHHhhcCCCCchHHHHHHHHHHHhC
Confidence 666777788877777665543 33344667788887542 2332 444445777888888777777755432
Q ss_pred cCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 171 NLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 171 ~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+ ++- ..+++.|+.+..++.|.+|..+|+.|+. -|+.
T Consensus 325 ~--~~p-~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~ 361 (400)
T COG3071 325 P--EDP-LLLSTLGRLALKNKLWGKASEALEAALKLRPSA 361 (400)
T ss_pred C--CCh-hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCCh
Confidence 2 112 5677899999999999999999999998 5653
No 90
>PLN03218 maturation of RBCL 1; Provisional
Probab=77.75 E-value=43 Score=39.17 Aligned_cols=17 Identities=18% Similarity=0.059 Sum_probs=12.3
Q ss_pred CHHHHHHHHHHhHHcCc
Q 014453 326 SSKEAEMHVLQMIQDGE 342 (424)
Q Consensus 326 ~~~eaE~~v~~mI~~G~ 342 (424)
..+++..+...|+..|.
T Consensus 769 ~le~A~~l~~~M~k~Gi 785 (1060)
T PLN03218 769 DADVGLDLLSQAKEDGI 785 (1060)
T ss_pred CHHHHHHHHHHHHHcCC
Confidence 46777778888877764
No 91
>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=77.68 E-value=13 Score=29.08 Aligned_cols=51 Identities=18% Similarity=0.264 Sum_probs=38.6
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccC
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYK 364 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~ 364 (424)
.++..+||+.++++ +..++.++.++...|.|..+= .++|-.....+++..+
T Consensus 25 ~~s~~eiA~~~~i~-~~~l~kil~~L~~~Gli~s~~-G~~GGy~L~~~~~~It 75 (83)
T PF02082_consen 25 PVSSKEIAERLGIS-PSYLRKILQKLKKAGLIESSR-GRGGGYRLARPPEEIT 75 (83)
T ss_dssp -BEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEET-STTSEEEESS-CCGSB
T ss_pred CCCHHHHHHHHCcC-HHHHHHHHHHHhhCCeeEecC-CCCCceeecCCHHHCC
Confidence 39999999999998 899999999999999986543 3356666666665444
No 92
>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=77.60 E-value=15 Score=32.74 Aligned_cols=91 Identities=12% Similarity=0.081 Sum_probs=64.8
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..+..-.++..+..++.. .|.. ...+..+..++...++|+.|...+.+.+...+ ........+..|.++...+++
T Consensus 77 ~~~~~~~A~~~~~~al~~-~~~~---~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~ 151 (234)
T TIGR02521 77 QLGELEKAEDSFRRALTL-NPNN---GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL-YPQPARSLENAGLCALKAGDF 151 (234)
T ss_pred HcCCHHHHHHHHHHHHhh-CCCC---HHHHHHHHHHHHHcccHHHHHHHHHHHHhccc-cccchHHHHHHHHHHHHcCCH
Confidence 455566677778888743 3432 24567778888999999999998888653211 112334455679999999999
Q ss_pred HHHHHHHHHHhc-ccCc
Q 014453 194 RKALELLHNVVT-APMS 209 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~ 209 (424)
.+|..+|..++. .|..
T Consensus 152 ~~A~~~~~~~~~~~~~~ 168 (234)
T TIGR02521 152 DKAEKYLTRALQIDPQR 168 (234)
T ss_pred HHHHHHHHHHHHhCcCC
Confidence 999999999998 5553
No 93
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=76.94 E-value=6.6 Score=40.21 Aligned_cols=70 Identities=14% Similarity=0.170 Sum_probs=55.9
Q ss_pred CcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 138 HLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 138 ~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
...+.|+.+.-.+++.+.|..|+.--++.. +.+++ .+.=.|=.|++++..++|+.|...|..|+. -|.+.
T Consensus 255 ~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvL-e~~~~--N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nk 325 (397)
T KOG0543|consen 255 LKLACHLNLAACYLKLKEYKEAIESCNKVL-ELDPN--NVKALYRRGQALLALGEYDLARDDFQKALKLEPSNK 325 (397)
T ss_pred HHHHHhhHHHHHHHhhhhHHHHHHHHHHHH-hcCCC--chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcH
Confidence 345679999999999999999987766643 23323 444556899999999999999999999999 89873
No 94
>PRK15331 chaperone protein SicA; Provisional
Probab=76.74 E-value=32 Score=31.05 Aligned_cols=127 Identities=7% Similarity=0.045 Sum_probs=74.1
Q ss_pred ccHHHHHHHHHhh-CCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHcc
Q 014453 76 NTLVPIIARFITS-CSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAK 154 (424)
Q Consensus 76 ~~l~~~~~~fl~~-fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~ 154 (424)
+.+.+.+.+++.. -....++=.++.--.-++.+.-..+..++..-|....+- +..++|.... .+.-|.-.|...+
T Consensus 10 ~~~~~~i~~al~~G~tlk~l~gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~-L~~~d~~n~~---Y~~GLaa~~Q~~k 85 (165)
T PRK15331 10 ERVAEMIWDAVSEGATLKDVHGIPQDMMDGLYAHAYEFYNQGRLDEAETFFRF-LCIYDFYNPD---YTMGLAAVCQLKK 85 (165)
T ss_pred HHHHHHHHHHHHCCCCHHHHhCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHH-HHHhCcCcHH---HHHHHHHHHHHHH
Confidence 3445555555542 223334433333333333333333334443333333333 3346765432 3566777888889
Q ss_pred ChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCc
Q 014453 155 CYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMS 209 (424)
Q Consensus 155 ~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~ 209 (424)
+|..|+..-.-...- ..+.-+-.||.|..++..++-..|..+|+.|+..|..
T Consensus 86 ~y~~Ai~~Y~~A~~l---~~~dp~p~f~agqC~l~l~~~~~A~~~f~~a~~~~~~ 137 (165)
T PRK15331 86 QFQKACDLYAVAFTL---LKNDYRPVFFTGQCQLLMRKAAKARQCFELVNERTED 137 (165)
T ss_pred HHHHHHHHHHHHHHc---ccCCCCccchHHHHHHHhCCHHHHHHHHHHHHhCcch
Confidence 999998775543221 0112233789999999999999999999999997774
No 95
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=76.69 E-value=4 Score=27.80 Aligned_cols=31 Identities=13% Similarity=0.052 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
++..|..+...|++.+|...|+.+++ .|...
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~ 35 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDDP 35 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 34568999999999999999999999 88864
No 96
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=76.38 E-value=7.9 Score=34.20 Aligned_cols=38 Identities=18% Similarity=0.249 Sum_probs=34.4
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE---EEEec
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF---ATINQ 349 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~---A~Id~ 349 (424)
.|+|.++||+.+|++ +..+..-+.+|..+|.|. |.+|+
T Consensus 22 ~R~s~~eiA~~lglS-~~tV~~Ri~rL~~~GvI~~~~~~v~~ 62 (153)
T PRK11179 22 ARTPYAELAKQFGVS-PGTIHVRVEKMKQAGIITGTRVDVNP 62 (153)
T ss_pred CCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeeeEEEEECH
Confidence 899999999999998 899999999999999997 35565
No 97
>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=76.31 E-value=31 Score=34.05 Aligned_cols=114 Identities=11% Similarity=0.046 Sum_probs=74.5
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC-chhhHHHHHHHHHHHHhhhc
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-~~~~l~Y~YY~G~I~~~~~~ 192 (424)
+.+..-.++..++.++.. .|+. ...|..+..++...|.++.|...+.+-+-..+. +......++..|.++...++
T Consensus 126 ~~G~~~~A~~~~~~al~~-~p~~---~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~ 201 (355)
T cd05804 126 EAGQYDRAEEAARRALEL-NPDD---AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGD 201 (355)
T ss_pred HcCCHHHHHHHHHHHHhh-CCCC---cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCC
Confidence 455566677888888754 4543 345778888999999999999998885432221 22234455678899999999
Q ss_pred HHHHHHHHHHHhc-ccCccccHHHHHHHHH-HHHHHHHhcCCCC
Q 014453 193 FRKALELLHNVVT-APMSSINAIAVEAYKK-YILVSLIHHGQFS 234 (424)
Q Consensus 193 y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk-~iLv~LL~~G~~~ 234 (424)
+.+|...|..++. .|.. . ...+.+.. +.+..+.+.|...
T Consensus 202 ~~~A~~~~~~~~~~~~~~-~--~~~~~~~~~~~l~~~~~~g~~~ 242 (355)
T cd05804 202 YEAALAIYDTHIAPSAES-D--PALDLLDAASLLWRLELAGHVD 242 (355)
T ss_pred HHHHHHHHHHHhccccCC-C--hHHHHhhHHHHHHHHHhcCCCC
Confidence 9999999999875 3321 1 11222233 4455555556544
No 98
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=76.27 E-value=6.7 Score=35.10 Aligned_cols=49 Identities=22% Similarity=0.201 Sum_probs=40.2
Q ss_pred HHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE---EEec
Q 014453 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA---TINQ 349 (424)
Q Consensus 300 r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A---~Id~ 349 (424)
.+.|..+-+--.|+|.++||+++|++ +..+-.-+.+|..+|.|.+ .+|+
T Consensus 16 D~~IL~~Lq~d~R~s~~eiA~~lglS-~~tv~~Ri~rL~~~GvI~~~~~~v~p 67 (164)
T PRK11169 16 DRNILNELQKDGRISNVELSKRVGLS-PTPCLERVRRLERQGFIQGYTALLNP 67 (164)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeEEEEEEECH
Confidence 44455566667899999999999998 7889999999999999964 4564
No 99
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=76.24 E-value=86 Score=31.20 Aligned_cols=91 Identities=11% Similarity=0.028 Sum_probs=60.8
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCc--hhhHHHHHHHHHHHHhhhc
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLP--RDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~--~~~l~Y~YY~G~I~~~~~~ 192 (424)
.+..-.++..+..++.. +|. ....+..+..++...++|+.|...+.+-+..-+.+ .....|++-.|.++...++
T Consensus 120 ~g~~~~A~~~~~~~l~~-~~~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~ 195 (389)
T PRK11788 120 AGLLDRAEELFLQLVDE-GDF---AEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD 195 (389)
T ss_pred CCCHHHHHHHHHHHHcC-Ccc---hHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence 34445566666666532 222 24567788889999999999988877644321111 1234455567888888999
Q ss_pred HHHHHHHHHHHhc-ccCc
Q 014453 193 FRKALELLHNVVT-APMS 209 (424)
Q Consensus 193 y~~A~~~~~~a~~-~P~~ 209 (424)
+.+|..+|..++. .|..
T Consensus 196 ~~~A~~~~~~al~~~p~~ 213 (389)
T PRK11788 196 LDAARALLKKALAADPQC 213 (389)
T ss_pred HHHHHHHHHHHHhHCcCC
Confidence 9999999999998 5653
No 100
>PLN03218 maturation of RBCL 1; Provisional
Probab=75.94 E-value=18 Score=42.17 Aligned_cols=24 Identities=17% Similarity=0.258 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHccChHHHHhcccc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLED 165 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~ 165 (424)
....++..|...++++.|..++..
T Consensus 439 Tyn~LL~a~~k~g~~e~A~~lf~~ 462 (1060)
T PLN03218 439 TFNMLMSVCASSQDIDGALRVLRL 462 (1060)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHH
Confidence 356677777777777777776654
No 101
>PRK11189 lipoprotein NlpI; Provisional
Probab=75.88 E-value=8.3 Score=37.85 Aligned_cols=83 Identities=16% Similarity=0.104 Sum_probs=58.0
Q ss_pred HHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHh
Q 014453 125 MLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVV 204 (424)
Q Consensus 125 L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~ 204 (424)
+..++.+...++......|...-.+....+.++.|...+.+.+-. + |. ....++..|.++...++|.+|...|..++
T Consensus 49 ~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l-~-P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al 125 (296)
T PRK11189 49 LNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL-R-PD-MADAYNYLGIYLTQAGNFDAAYEAFDSVL 125 (296)
T ss_pred HHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-C-CC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333443323333444456777777888889999998777665432 2 22 35566788999999999999999999999
Q ss_pred c-ccCcc
Q 014453 205 T-APMSS 210 (424)
Q Consensus 205 ~-~P~~~ 210 (424)
. .|...
T Consensus 126 ~l~P~~~ 132 (296)
T PRK11189 126 ELDPTYN 132 (296)
T ss_pred HhCCCCH
Confidence 9 67753
No 102
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=75.15 E-value=46 Score=30.63 Aligned_cols=96 Identities=15% Similarity=0.070 Sum_probs=60.7
Q ss_pred HHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhh-
Q 014453 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK- 191 (424)
Q Consensus 113 ~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~- 191 (424)
.+.++...++..+...+.++ |.+.........+...+...++|..|....++-+-..|.....-.=.|..|+.++...
T Consensus 16 ~~~g~y~~Ai~~f~~l~~~~-P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~ 94 (203)
T PF13525_consen 16 LQQGDYEEAIKLFEKLIDRY-PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIP 94 (203)
T ss_dssp HHCT-HHHHHHHHHHHHHH--TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHH
T ss_pred HHCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCc
Confidence 35556677788888877775 5555666677888888999999999988888755544432222222456777766542
Q ss_pred ----------cHHHHHHHHHHHhc-ccCc
Q 014453 192 ----------RFRKALELLHNVVT-APMS 209 (424)
Q Consensus 192 ----------~y~~A~~~~~~a~~-~P~~ 209 (424)
...+|...|+..+. -|.+
T Consensus 95 ~~~~~~~D~~~~~~A~~~~~~li~~yP~S 123 (203)
T PF13525_consen 95 GILRSDRDQTSTRKAIEEFEELIKRYPNS 123 (203)
T ss_dssp HHH-TT---HHHHHHHHHHHHHHHH-TTS
T ss_pred cchhcccChHHHHHHHHHHHHHHHHCcCc
Confidence 34577778888777 6665
No 103
>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=75.11 E-value=4.8 Score=30.54 Aligned_cols=32 Identities=13% Similarity=0.112 Sum_probs=27.8
Q ss_pred hhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcc
Q 014453 175 DFFLYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (424)
Q Consensus 175 ~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~ 206 (424)
+.+..+...|.++..+++|.+|..+|+.|+..
T Consensus 3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~ 34 (78)
T PF13424_consen 3 DTANAYNNLARVYRELGRYDEALDYYEKALDI 34 (78)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 45677888999999999999999999999985
No 104
>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=74.65 E-value=5.9 Score=29.97 Aligned_cols=32 Identities=22% Similarity=0.364 Sum_probs=28.7
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
-|+.+||+.+|+.|..-|..+|..|...|.|.
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 58999999999999999999999999999886
No 105
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=74.32 E-value=82 Score=30.04 Aligned_cols=66 Identities=11% Similarity=-0.047 Sum_probs=49.8
Q ss_pred HHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
.....++..++|+.|...+++-+-..+.+.....=.|..|.++...++|.+|..+|+..+. .|.+.
T Consensus 37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~ 103 (243)
T PRK10866 37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHP 103 (243)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCC
Confidence 5667788899999999888875443332222222256889999999999999999999998 78864
No 106
>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=73.82 E-value=12 Score=27.33 Aligned_cols=34 Identities=24% Similarity=0.338 Sum_probs=30.8
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
..++.++||+.+|++ ...+..++..|..+|.|..
T Consensus 24 ~~~s~~ela~~~g~s-~~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 24 LPLTRQEIADYLGLT-RETVSRTLKELEEEGLISR 57 (67)
T ss_pred CCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEe
Confidence 358999999999997 8999999999999999974
No 107
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=73.78 E-value=9.3 Score=39.84 Aligned_cols=78 Identities=18% Similarity=0.276 Sum_probs=50.6
Q ss_pred HHHHHHhhCCCC---CCcchHHHHHHHHHHHccChHHHHhcccccccc-ccCchhhHHHHHHHHHHHHhhhcHHHHHHHH
Q 014453 125 MLTAIRKIQSST---EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYE-INLPRDFFLYCYYGGMIFIGQKRFRKALELL 200 (424)
Q Consensus 125 L~~A~~rl~~~~---~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~-~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~ 200 (424)
+...+-||++++ ..+.+.|..+||.|+..+.++.|+.+|..++.. +- | |...|++.. -.++..++|..|.+-.
T Consensus 85 ~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF-~-D~~s~n~Lm-d~fl~~~~~~~A~~V~ 161 (429)
T PF10037_consen 85 VEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIF-P-DNFSFNLLM-DHFLKKGNYKSAAKVA 161 (429)
T ss_pred HHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccC-C-ChhhHHHHH-HHHhhcccHHHHHHHH
Confidence 445555665553 244567779999999999999999999987541 10 0 122222211 2245668999998887
Q ss_pred HHHhc
Q 014453 201 HNVVT 205 (424)
Q Consensus 201 ~~a~~ 205 (424)
...+-
T Consensus 162 ~~~~l 166 (429)
T PF10037_consen 162 TEMML 166 (429)
T ss_pred HHHHH
Confidence 76664
No 108
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=73.28 E-value=30 Score=32.49 Aligned_cols=39 Identities=15% Similarity=0.071 Sum_probs=34.8
Q ss_pred chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccc
Q 014453 173 PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSI 211 (424)
Q Consensus 173 ~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~ 211 (424)
+.+..+..|+.|-++...|++.+|.++|..++..|..+.
T Consensus 161 ~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~ 199 (214)
T PF09986_consen 161 GMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASK 199 (214)
T ss_pred CchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence 446788899999999999999999999999999988654
No 109
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=73.20 E-value=11 Score=32.87 Aligned_cols=47 Identities=21% Similarity=0.289 Sum_probs=38.0
Q ss_pred HHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE---EEec
Q 014453 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA---TINQ 349 (424)
Q Consensus 302 ~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A---~Id~ 349 (424)
.|.++-+-=.++|+++||+++|++ +..+-..+-+|..+|.|.+ .+|+
T Consensus 12 ~IL~~L~~d~r~~~~eia~~lglS-~~~v~~Ri~~L~~~GiI~~~~~~v~~ 61 (154)
T COG1522 12 RILRLLQEDARISNAELAERVGLS-PSTVLRRIKRLEEEGVIKGYTAVLDP 61 (154)
T ss_pred HHHHHHHHhCCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCceeeEEEEECH
Confidence 344455555679999999999998 8899999999999999965 4554
No 110
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=73.18 E-value=26 Score=39.32 Aligned_cols=93 Identities=9% Similarity=-0.043 Sum_probs=71.6
Q ss_pred HHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhh
Q 014453 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (424)
Q Consensus 111 ~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~ 190 (424)
.....+..-.|+..+..++.. .|+. ..++..+..+....+.++.|+..+++-+-..| +...+.|..|++++..
T Consensus 368 ~l~~~g~~~eA~~~l~~al~~-~P~n---~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P---d~~~l~~~~a~~al~~ 440 (765)
T PRK10049 368 VAKYSNDLPQAEMRARELAYN-APGN---QGLRIDYASVLQARGWPRAAENELKKAEVLEP---RNINLEVEQAWTALDL 440 (765)
T ss_pred HHHHcCCHHHHHHHHHHHHHh-CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC---CChHHHHHHHHHHHHh
Confidence 334455666677788888643 4543 46788899999999999999999998654222 2455888999999999
Q ss_pred hcHHHHHHHHHHHhc-ccCcc
Q 014453 191 KRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 191 ~~y~~A~~~~~~a~~-~P~~~ 210 (424)
++|.+|...+..++. .|...
T Consensus 441 ~~~~~A~~~~~~ll~~~Pd~~ 461 (765)
T PRK10049 441 QEWRQMDVLTDDVVAREPQDP 461 (765)
T ss_pred CCHHHHHHHHHHHHHhCCCCH
Confidence 999999999999998 78764
No 111
>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=72.83 E-value=16 Score=37.63 Aligned_cols=93 Identities=8% Similarity=0.061 Sum_probs=53.3
Q ss_pred HHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHH--HHccChHHHHhccccccccccCchh-hHHHHHHHHHHH
Q 014453 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLC--LLAKCYKAGLSVLEDDIYEINLPRD-FFLYCYYGGMIF 187 (424)
Q Consensus 111 ~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlc--L~~~~y~~Al~il~~~i~~~~~~~~-~l~Y~YY~G~I~ 187 (424)
.....+..-.++..+..++.+ .|+..... +. +++.+ +..++.+.+++.+++-.-.. |.+ .+.+....|.++
T Consensus 272 ~l~~~g~~~~A~~~l~~~l~~-~pd~~~~~--~~-~l~~~~~l~~~~~~~~~~~~e~~lk~~--p~~~~~~ll~sLg~l~ 345 (409)
T TIGR00540 272 HLIDCDDHDSAQEIIFDGLKK-LGDDRAIS--LP-LCLPIPRLKPEDNEKLEKLIEKQAKNV--DDKPKCCINRALGQLL 345 (409)
T ss_pred HHHHCCChHHHHHHHHHHHhh-CCCcccch--hH-HHHHhhhcCCCChHHHHHHHHHHHHhC--CCChhHHHHHHHHHHH
Confidence 333455556666667777644 33332111 11 22222 22345556655555532211 211 147788889999
Q ss_pred HhhhcHHHHHHHHH--HHhc-ccCc
Q 014453 188 IGQKRFRKALELLH--NVVT-APMS 209 (424)
Q Consensus 188 ~~~~~y~~A~~~~~--~a~~-~P~~ 209 (424)
...++|.+|.++|+ .+++ .|..
T Consensus 346 ~~~~~~~~A~~~le~a~a~~~~p~~ 370 (409)
T TIGR00540 346 MKHGEFIEAADAFKNVAACKEQLDA 370 (409)
T ss_pred HHcccHHHHHHHHHHhHHhhcCCCH
Confidence 99999999999999 5776 5653
No 112
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=72.58 E-value=4.7 Score=31.30 Aligned_cols=49 Identities=18% Similarity=0.229 Sum_probs=37.4
Q ss_pred ccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHH
Q 014453 153 AKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHN 202 (424)
Q Consensus 153 ~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~ 202 (424)
.++|+.|+.+.++-+-.-+. +..-.|.|..|.+++..++|.+|...+..
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~-~~~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPT-NPNSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCG-THHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred CccHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 47899999888885532221 11556888899999999999999999988
No 113
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=72.33 E-value=17 Score=32.56 Aligned_cols=88 Identities=15% Similarity=0.022 Sum_probs=59.1
Q ss_pred CCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHH
Q 014453 136 TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAI 214 (424)
Q Consensus 136 ~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i 214 (424)
++++..+... .-+-...|.|+.|..+..--.. ++ -....|+|=.|+++=.+++|.+|...|..|+. .|...
T Consensus 32 ~~~l~~lY~~-A~~ly~~G~l~~A~~~f~~L~~-~D--p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp---- 103 (157)
T PRK15363 32 TQPLNTLYRY-AMQLMEVKEFAGAARLFQLLTI-YD--AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAP---- 103 (157)
T ss_pred HHHHHHHHHH-HHHHHHCCCHHHHHHHHHHHHH-hC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCc----
Confidence 3445544433 3345677999999766554322 22 24788999999999999999999999999999 67543
Q ss_pred HHHHHHHHHHHHHHhcCCCC
Q 014453 215 AVEAYKKYILVSLIHHGQFS 234 (424)
Q Consensus 215 ~~ea~Kk~iLv~LL~~G~~~ 234 (424)
+++-..-.+.| .-|+++
T Consensus 104 --~~~~~ag~c~L-~lG~~~ 120 (157)
T PRK15363 104 --QAPWAAAECYL-ACDNVC 120 (157)
T ss_pred --hHHHHHHHHHH-HcCCHH
Confidence 23334444344 347766
No 114
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=72.16 E-value=32 Score=33.41 Aligned_cols=97 Identities=8% Similarity=0.013 Sum_probs=69.4
Q ss_pred hccccchHHHHHHHHhhCCCCC--CcchHHHHHHHHHHHccChHHHHhccccccccc-cC--ch-hhHHHHHHHHHHHHh
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTE--HLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEI-NL--PR-DFFLYCYYGGMIFIG 189 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~--~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~-~~--~~-~~l~Y~YY~G~I~~~ 189 (424)
+.+-.++.....|+.-+..++. ...........++...++|+.|..+.++-+... .. .+ ..=.|+.-.+++++.
T Consensus 129 ~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~ 208 (282)
T PF14938_consen 129 GDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLA 208 (282)
T ss_dssp --HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHH
Confidence 4667889999999887765543 334556677888999999999999988855422 11 12 233577889999999
Q ss_pred hhcHHHHHHHHHHHhc-ccCcccc
Q 014453 190 QKRFRKALELLHNVVT-APMSSIN 212 (424)
Q Consensus 190 ~~~y~~A~~~~~~a~~-~P~~~~s 212 (424)
.+|+..|.+.|..... .|+-..|
T Consensus 209 ~~D~v~A~~~~~~~~~~~~~F~~s 232 (282)
T PF14938_consen 209 MGDYVAARKALERYCSQDPSFASS 232 (282)
T ss_dssp TT-HHHHHHHHHHHGTTSTTSTTS
T ss_pred cCCHHHHHHHHHHHHhhCCCCCCc
Confidence 9999999999999997 7875444
No 115
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=71.79 E-value=37 Score=36.35 Aligned_cols=65 Identities=11% Similarity=0.071 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
-.|..+.-.++..++++.|...+++.+- .. | ....+++.|+++...|++++|.++|+.|+. .|..
T Consensus 421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~-L~-p--s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~ 486 (517)
T PRK10153 421 RIYEILAVQALVKGKTDEAYQAINKAID-LE-M--SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE 486 (517)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHH-cC-C--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence 4577776777788999999999998653 22 2 345788889999999999999999999998 7775
No 116
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=71.72 E-value=25 Score=40.72 Aligned_cols=92 Identities=11% Similarity=-0.018 Sum_probs=61.8
Q ss_pred HHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHh
Q 014453 110 DQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIG 189 (424)
Q Consensus 110 ~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~ 189 (424)
..+.+.+..-.++..++.|+. .+|+. ..+...+.......++|+.|+..+.+-+- .+ |. ...++-.|.++..
T Consensus 550 ~all~~Gd~~eA~~~l~qAL~-l~P~~---~~l~~~La~~l~~~Gr~~eAl~~~~~AL~-l~-P~--~~a~~~LA~~l~~ 621 (987)
T PRK09782 550 NTAQAAGNGAARDRWLQQAEQ-RGLGD---NALYWWLHAQRYIPGQPELALNDLTRSLN-IA-PS--ANAYVARATIYRQ 621 (987)
T ss_pred HHHHHCCCHHHHHHHHHHHHh-cCCcc---HHHHHHHHHHHHhCCCHHHHHHHHHHHHH-hC-CC--HHHHHHHHHHHHH
Confidence 344456666667888888864 45443 12222222223344999999999888653 22 32 4455677899999
Q ss_pred hhcHHHHHHHHHHHhc-ccCc
Q 014453 190 QKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 190 ~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.+++.+|..+|..++. .|..
T Consensus 622 lG~~deA~~~l~~AL~l~Pd~ 642 (987)
T PRK09782 622 RHNVPAAVSDLRAALELEPNN 642 (987)
T ss_pred CCCHHHHHHHHHHHHHhCCCC
Confidence 9999999999999998 7875
No 117
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=71.33 E-value=8.5 Score=26.17 Aligned_cols=32 Identities=22% Similarity=0.312 Sum_probs=29.4
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
.++..+||+.++++ ...+...+..|...|.|.
T Consensus 8 ~~s~~~la~~l~~s-~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 8 PLTRQEIAELLGLT-RETVSRTLKRLEKEGLIS 39 (48)
T ss_pred ccCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 47899999999998 889999999999999996
No 118
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=71.16 E-value=15 Score=37.16 Aligned_cols=61 Identities=8% Similarity=-0.012 Sum_probs=49.4
Q ss_pred HHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 146 FLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 146 l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
....++..++|..|+..+.+.+-.-+ +...+++..|.++...++|.+|...+..|+. .|..
T Consensus 8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P---~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~ 69 (356)
T PLN03088 8 KAKEAFVDDDFALAVDLYTQAIDLDP---NNAELYADRAQANIKLGNFTEAVADANKAIELDPSL 69 (356)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence 34667888999999999888764222 2456778889999999999999999999999 7764
No 119
>PRK12370 invasion protein regulator; Provisional
Probab=71.13 E-value=14 Score=39.61 Aligned_cols=85 Identities=11% Similarity=0.026 Sum_probs=60.0
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
..++.-.++..++.|+ +++|+. ...|..+..++...|.++.|+..+.+.+- .+ |.+ ..+.++.+.++...++|
T Consensus 350 ~~g~~~~A~~~~~~Al-~l~P~~---~~a~~~lg~~l~~~G~~~eAi~~~~~Al~-l~-P~~-~~~~~~~~~~~~~~g~~ 422 (553)
T PRK12370 350 IHSEYIVGSLLFKQAN-LLSPIS---ADIKYYYGWNLFMAGQLEEALQTINECLK-LD-PTR-AAAGITKLWITYYHTGI 422 (553)
T ss_pred HccCHHHHHHHHHHHH-HhCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHh-cC-CCC-hhhHHHHHHHHHhccCH
Confidence 3455566778888886 567764 34688888899999999999999888543 22 221 22233445556668899
Q ss_pred HHHHHHHHHHhc
Q 014453 194 RKALELLHNVVT 205 (424)
Q Consensus 194 ~~A~~~~~~a~~ 205 (424)
++|..++..++.
T Consensus 423 eeA~~~~~~~l~ 434 (553)
T PRK12370 423 DDAIRLGDELRS 434 (553)
T ss_pred HHHHHHHHHHHH
Confidence 999999999987
No 120
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=70.40 E-value=1e+02 Score=34.68 Aligned_cols=97 Identities=13% Similarity=0.105 Sum_probs=65.0
Q ss_pred HHhhccccchHHHHHHHHhhCCCC-CCcchHHHHHHHHHHHccChHHHHhcccccccccc-----------Cch-hhHHH
Q 014453 113 LLLEAPIRGVGPMLTAIRKIQSST-EHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN-----------LPR-DFFLY 179 (424)
Q Consensus 113 ~~~~~~~~~i~~L~~A~~rl~~~~-~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~-----------~~~-~~l~Y 179 (424)
...+++-.++..++.++ ..+|.. ...-..+..+....+..+.|+.|...+++-.-..+ .|+ +....
T Consensus 283 l~~g~~e~A~~~l~~~l-~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a 361 (765)
T PRK10049 283 LKLHQPEKAQSILTELF-YHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQG 361 (765)
T ss_pred HhcCCcHHHHHHHHHHh-hcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHH
Confidence 34556666777777765 334432 11123455666677888999999888665322111 133 45677
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
.+..|.++...+++.+|...|+.++. .|...
T Consensus 362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~ 393 (765)
T PRK10049 362 QSLLSQVAKYSNDLPQAEMRARELAYNAPGNQ 393 (765)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence 78889999999999999999999998 88763
No 121
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=70.13 E-value=19 Score=35.50 Aligned_cols=48 Identities=19% Similarity=0.236 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCCCC
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFS 234 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~ 234 (424)
..-.+..++.+++|++|...+..|+. -|... +++-.+|.++.++ |+.+
T Consensus 204 lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~------d~LaNliv~~~~~-gk~~ 252 (290)
T PF04733_consen 204 LNGLAVCHLQLGHYEEAEELLEEALEKDPNDP------DTLANLIVCSLHL-GKPT 252 (290)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHH------HHHHHHHHHHHHT-T-TC
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHhccCCH------HHHHHHHHHHHHh-CCCh
Confidence 34556677788888888888888886 44431 3444566667664 7754
No 122
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=69.99 E-value=14 Score=29.13 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=38.5
Q ss_pred HHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEe
Q 014453 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATIN 348 (424)
Q Consensus 302 ~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id 348 (424)
.||..-.-+-+.++.+|+..++.+ ++-+|.++..++..|.|. +|+
T Consensus 6 qlRd~l~~~gr~s~~~Ls~~~~~p-~~~VeaMLe~l~~kGkve-rv~ 50 (78)
T PRK15431 6 QVRDLLALRGRMEAAQISQTLNTP-QPMINAMLQQLESMGKAV-RIQ 50 (78)
T ss_pred HHHHHHHHcCcccHHHHHHHHCcC-HHHHHHHHHHHHHCCCeE-eec
Confidence 355566667899999999999998 899999999999999998 444
No 123
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=69.80 E-value=14 Score=38.19 Aligned_cols=67 Identities=21% Similarity=0.154 Sum_probs=55.0
Q ss_pred chHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 140 T~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
++.-..+..||+.-+-|.-+.++|.+....++ .+..+--.|-++.+..+|++|.++|..|++ -|.+.
T Consensus 438 ~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~----D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~ 505 (564)
T KOG1174|consen 438 TPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP----DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK 505 (564)
T ss_pred HHHHHHHHHHHHhhCccchHHHHHHHHHhhcc----ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch
Confidence 56667888899999999999999998654322 344566789999999999999999999999 88875
No 124
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=69.80 E-value=1.2e+02 Score=33.39 Aligned_cols=59 Identities=7% Similarity=0.025 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
.....++..+.+.++++.|.++++.-.- | +...| ......+...+++.+|.+.|.....
T Consensus 159 ~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~-~~~t~-n~li~~~~~~g~~~~A~~lf~~M~~ 217 (697)
T PLN03081 159 YMMNRVLLMHVKCGMLIDARRLFDEMPE----R-NLASW-GTIIGGLVDAGNYREAFALFREMWE 217 (697)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHhcCCC----C-CeeeH-HHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 4567888999999999999988876321 1 22333 2333456667899999999999876
No 125
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.70 E-value=13 Score=36.06 Aligned_cols=71 Identities=17% Similarity=0.097 Sum_probs=47.1
Q ss_pred HHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHH
Q 014453 151 LLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYIL 224 (424)
Q Consensus 151 L~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iL 224 (424)
+++|+|..|..-...-|-.+|...-.-.=+|+.|-.+..+++|.+|...|..+++ .|.+.-.+ +++=|+-+
T Consensus 152 ~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KAp---dallKlg~ 223 (262)
T COG1729 152 YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAP---DALLKLGV 223 (262)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCCh---HHHHHHHH
Confidence 4455677776555554444443222333456889999999999999999999998 88764322 45545433
No 126
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=68.64 E-value=24 Score=32.58 Aligned_cols=83 Identities=8% Similarity=0.129 Sum_probs=58.0
Q ss_pred chHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc--HHHHHH
Q 014453 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR--FRKALE 198 (424)
Q Consensus 121 ~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~--y~~A~~ 198 (424)
.+..+++++ +.+|+. ...|..+-++++..++|+.|+..+.+.+--. |.+.-.+..|+...+...++ +.+|..
T Consensus 58 ~i~~l~~~L-~~~P~~---~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~~A~~ 131 (198)
T PRK10370 58 QLQALQDKI-RANPQN---SEQWALLGEYYLWRNDYDNALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTPQTRE 131 (198)
T ss_pred HHHHHHHHH-HHCCCC---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence 345566665 445554 4579999999999999999999998865321 33333334444444566666 699999
Q ss_pred HHHHHhc-ccCc
Q 014453 199 LLHNVVT-APMS 209 (424)
Q Consensus 199 ~~~~a~~-~P~~ 209 (424)
.|..++. .|..
T Consensus 132 ~l~~al~~dP~~ 143 (198)
T PRK10370 132 MIDKALALDANE 143 (198)
T ss_pred HHHHHHHhCCCC
Confidence 9999999 7775
No 127
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=68.19 E-value=1.2e+02 Score=33.33 Aligned_cols=55 Identities=13% Similarity=0.015 Sum_probs=26.2
Q ss_pred HHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 148 QLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 148 rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
..++..++++.|+..+++-+- .+ | +...+++..|.++...+++.+|...|..++.
T Consensus 84 ~~~l~~g~~~~A~~~l~~~l~-~~-P-~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~ 138 (656)
T PRK15174 84 ISPLASSQPDAVLQVVNKLLA-VN-V-CQPEDVLLVASVLLKSKQYATVADLAEQAWL 138 (656)
T ss_pred hhHhhcCCHHHHHHHHHHHHH-hC-C-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 444445555555555554322 11 1 1123344445555555555555555555555
No 128
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=67.76 E-value=17 Score=29.67 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=31.6
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
-.++|.++||+.+|++ ...+-..+.+|..+|.|.
T Consensus 15 ~~~~~~~~la~~l~~s-~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 15 DARISLAELAKKVGLS-PSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred hCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCee
Confidence 4689999999999998 899999999999999987
No 129
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=66.65 E-value=39 Score=29.09 Aligned_cols=70 Identities=16% Similarity=0.088 Sum_probs=49.3
Q ss_pred CCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHH
Q 014453 133 QSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHN 202 (424)
Q Consensus 133 ~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~ 202 (424)
.|++..-......+...+...++|+.|...+.+-+-.-+.+.-.-.-.+..+.+++..++|.+|...+..
T Consensus 41 ~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 41 YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQ 110 (145)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 3444333455666788899999999999998886543322222222344678999999999999999966
No 130
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=66.58 E-value=18 Score=25.68 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=34.9
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEE
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMV 354 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v 354 (424)
-..+++.+|++.++++ ...+-..+..|...|.+...-+...++.
T Consensus 8 ~~~~~~~~i~~~l~is-~~~v~~~l~~L~~~g~i~~~~~~~~~~~ 51 (66)
T smart00418 8 EGELCVCELAEILGLS-QSTVSHHLKKLREAGLVESRREGKRVYY 51 (66)
T ss_pred cCCccHHHHHHHHCCC-HHHHHHHHHHHHHCCCeeeeecCCEEEE
Confidence 3568999999999997 7889999999999999985544333343
No 131
>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=66.50 E-value=36 Score=24.75 Aligned_cols=45 Identities=11% Similarity=0.237 Sum_probs=37.0
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEec
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
++.++|++.++++ ...+...+..|...|.|...-+...+...+.+
T Consensus 21 ~~~~ei~~~~~i~-~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 21 LTVSELAERLGLS-QSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred cCHHHHHHHHCcC-HhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 9999999999997 78899999999999999987665444554443
No 132
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=66.34 E-value=1.7e+02 Score=31.40 Aligned_cols=90 Identities=12% Similarity=0.052 Sum_probs=62.3
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcccccccc-ccC-----chhhHHHHHHHHHHHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYE-INL-----PRDFFLYCYYGGMIFI 188 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~-~~~-----~~~~l~Y~YY~G~I~~ 188 (424)
.|....|...+..| +.+|...-. +-+-.++..|++|.++.|..+++.=.-+ .++ ..+.+=|..-.|..|.
T Consensus 241 ~G~~~~Aa~~~~~A-r~LD~~DRy---iNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~ 316 (517)
T PF12569_consen 241 AGDLKEAAEAMDEA-RELDLADRY---INSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYL 316 (517)
T ss_pred CCCHHHHHHHHHHH-HhCChhhHH---HHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHH
Confidence 34444455555555 566765432 3466788999999999998876652111 121 1356677788999999
Q ss_pred hhhcHHHHHHHHHHHhcccC
Q 014453 189 GQKRFRKALELLHNVVTAPM 208 (424)
Q Consensus 189 ~~~~y~~A~~~~~~a~~~P~ 208 (424)
..++|..|...|..+.....
T Consensus 317 r~~~~~~ALk~~~~v~k~f~ 336 (517)
T PF12569_consen 317 RQGDYGLALKRFHAVLKHFD 336 (517)
T ss_pred HHhhHHHHHHHHHHHHHHHH
Confidence 99999999999999998654
No 133
>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=66.31 E-value=13 Score=24.12 Aligned_cols=31 Identities=23% Similarity=0.328 Sum_probs=25.1
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCce
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEI 343 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I 343 (424)
.++-.|||..+|+. .+-+-..+.++-.+|.|
T Consensus 2 ~mtr~diA~~lG~t-~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGLT-RETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS--HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCCc-HHHHHHHHHHHHHcCCC
Confidence 46778999999998 88999999999999876
No 134
>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=66.16 E-value=16 Score=31.55 Aligned_cols=61 Identities=15% Similarity=0.236 Sum_probs=45.0
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHH
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDS 374 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~ 374 (424)
.++.++||+.++++ ...+++++.++...|.|..+=-. +|-.....+++..+-.+..+.++.
T Consensus 25 ~~s~~~ia~~~~ip-~~~l~kil~~L~~~glv~s~~G~-~Ggy~l~~~~~~Itl~dv~~a~eg 85 (135)
T TIGR02010 25 PVTLADISERQGIS-LSYLEQLFAKLRKAGLVKSVRGP-GGGYQLGRPAEDISVADIIDAVDE 85 (135)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCceEEEeCC-CCCEeccCCHHHCcHHHHHHHhCC
Confidence 59999999999998 89999999999999999864333 343445555555554455555543
No 135
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=65.40 E-value=16 Score=27.45 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=30.3
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
..-++-.|||+.+|++ .-.|..++..+..+|.|.
T Consensus 13 ~~p~~T~eiA~~~gls-~~~aR~yL~~Le~eG~V~ 46 (62)
T PF04703_consen 13 NGPLKTREIADALGLS-IYQARYYLEKLEKEGKVE 46 (62)
T ss_dssp TS-EEHHHHHHHHTS--HHHHHHHHHHHHHCTSEE
T ss_pred CCCCCHHHHHHHhCCC-HHHHHHHHHHHHHCCCEE
Confidence 7779999999999998 899999999999999996
No 136
>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=65.17 E-value=11 Score=26.77 Aligned_cols=38 Identities=18% Similarity=0.297 Sum_probs=31.4
Q ss_pred HHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 306 LTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 306 l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
++..=..+++++|++.+|++ ..-+-.++..|...|.+.
T Consensus 12 l~~~~~~~t~~eia~~~gl~-~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 12 LAESGGPLTLSEIARALGLP-KSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp HHCTBSCEEHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred HHcCCCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCcCee
Confidence 34444568999999999998 789999999999999875
No 137
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=65.12 E-value=33 Score=38.20 Aligned_cols=128 Identities=9% Similarity=0.002 Sum_probs=85.0
Q ss_pred hhccHHHHHHHHHhhCCchhhh-cchHHHHHHHHHHHHHHH----------HhhccccchHHHHHHHHhhCCCCCCcchH
Q 014453 74 RANTLVPIIARFITSCSAEQIR-YVPEKFINVCKRYKDQVL----------LLEAPIRGVGPMLTAIRKIQSSTEHLTTL 142 (424)
Q Consensus 74 ~~~~l~~~~~~fl~~fd~~Q~r-~~~~~~~~l~~~~~~~~~----------~~~~~~~~i~~L~~A~~rl~~~~~~lT~~ 142 (424)
.+..+.++...-++.--..|+- -++-...+++..|...+. +.+..--+...+++++ -+.|+. ...
T Consensus 47 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~-~~~Pd~---~~a 122 (694)
T PRK15179 47 AGRELLQQARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIH-QRFPDS---SEA 122 (694)
T ss_pred HHHHHHHHHHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHH-hhCCCc---HHH
Confidence 4557778887777766666653 344445555555443211 1222223344455554 456654 456
Q ss_pred HHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 143 h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
+..+.+.+...+.++.|+....+-.-. .-+....++-.|+.....++|++|...|+.++. .|.
T Consensus 123 ~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~ 186 (694)
T PRK15179 123 FILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHPE 186 (694)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCC
Confidence 778888888889999988777764321 224678888999999999999999999999997 554
No 138
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=64.73 E-value=12 Score=24.31 Aligned_cols=28 Identities=25% Similarity=0.277 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHHhcc
Q 014453 179 YCYYGGMIFIGQKRFRKALELLHNVVTA 206 (424)
Q Consensus 179 Y~YY~G~I~~~~~~y~~A~~~~~~a~~~ 206 (424)
-..-.|.++...++|.+|..+++.++..
T Consensus 4 ~~~~la~~~~~~g~~~~A~~~~~~al~~ 31 (42)
T PF13374_consen 4 ALNNLANAYRAQGRYEEALELLEEALEI 31 (42)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence 3456789999999999999999999873
No 139
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=63.49 E-value=96 Score=34.11 Aligned_cols=93 Identities=14% Similarity=0.156 Sum_probs=70.5
Q ss_pred ccccchHHHHHHHHhhCCC--CCCcchHHHHHHHHHHHccChHHHHhcccccc-ccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 117 APIRGVGPMLTAIRKIQSS--TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDI-YEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 117 ~~~~~i~~L~~A~~rl~~~--~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i-~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
+|...|.....|+++.+|. .+.+..++..+.+++-..++.+.|-.+.++.+ .++..-++...-.---|-+.+..+++
T Consensus 362 ~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~ 441 (835)
T KOG2047|consen 362 NAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENF 441 (835)
T ss_pred ChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhH
Confidence 3566788899999999986 46677889999999999999999977777753 22322233333333335777788999
Q ss_pred HHHHHHHHHHhcccCc
Q 014453 194 RKALELLHNVVTAPMS 209 (424)
Q Consensus 194 ~~A~~~~~~a~~~P~~ 209 (424)
+.|...++.|...|+.
T Consensus 442 ~~Al~lm~~A~~vP~~ 457 (835)
T KOG2047|consen 442 EAALKLMRRATHVPTN 457 (835)
T ss_pred HHHHHHHHhhhcCCCc
Confidence 9999999999998875
No 140
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.84 E-value=36 Score=32.57 Aligned_cols=49 Identities=10% Similarity=0.327 Sum_probs=41.9
Q ss_pred hhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 308 QTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 308 ~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
+.-..+.|.|+|..+||. .+++-.-+.+++.+|.|.|.||.-.++|..+
T Consensus 210 k~nKvV~ledLas~f~Lr-tqd~inriq~~l~eg~ltGVmDDRGKfIYIS 258 (299)
T KOG3054|consen 210 KKNKVVPLEDLASEFGLR-TQDSINRIQELLAEGLLTGVMDDRGKFIYIS 258 (299)
T ss_pred HhcCeeeHHHHHHHhCcc-HHHHHHHHHHHHHhhhheeeecCCCceEEec
Confidence 444678999999999998 5677778999999999999999878887765
No 141
>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=61.78 E-value=58 Score=32.05 Aligned_cols=66 Identities=14% Similarity=-0.007 Sum_probs=49.4
Q ss_pred chHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 140 T~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
...+..+...+...|+|+.|.....+.+-- . |.+ ...++..|.++...++|++|..++..++. .|.
T Consensus 114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~-~-p~~-~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~ 180 (355)
T cd05804 114 WYLLGMLAFGLEEAGQYDRAEEAARRALEL-N-PDD-AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC 180 (355)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-C-CCC-cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC
Confidence 344556667888899999998888876532 1 222 34456669999999999999999999998 554
No 142
>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=61.39 E-value=22 Score=25.62 Aligned_cols=32 Identities=9% Similarity=0.205 Sum_probs=28.5
Q ss_pred ccc-HHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 312 TLS-LQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 312 ~Is-l~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
.++ ..+||+.++++ ...+...+.+|...|.|.
T Consensus 24 ~~~~~~~la~~~~is-~~~v~~~l~~L~~~G~i~ 56 (66)
T cd07377 24 RLPSERELAEELGVS-RTTVREALRELEAEGLVE 56 (66)
T ss_pred CCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 444 99999999997 899999999999999875
No 143
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=61.28 E-value=22 Score=25.75 Aligned_cols=29 Identities=14% Similarity=0.244 Sum_probs=25.5
Q ss_pred HHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 181 YYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 181 YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
|-.|+.++..++|.+|...|+.++. .|..
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~ 30 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDPDN 30 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCSTTH
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence 4568999999999999999999999 6664
No 144
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=61.27 E-value=1.8e+02 Score=32.40 Aligned_cols=162 Identities=10% Similarity=-0.003 Sum_probs=95.0
Q ss_pred HHHHHHhHHHHhhhc--cccccccccc----CcchhhHHHHHHHhhccccccchhhhccHHHHHHHHHhhCCchhhhcch
Q 014453 25 KDYLKAAEDLLRSES--TRLLSFLDQL----DPSKHSLGYLYFLEPCMYCSITKERANTLVPIIARFITSCSAEQIRYVP 98 (424)
Q Consensus 25 ~~~l~~~~~~l~~~~--~~~~~~L~~l----dp~~~sl~~l~ll~~~~~~~~~~~~~~~l~~~~~~fl~~fd~~Q~r~~~ 98 (424)
.+++.+..+++.++. ......|+++ --|.|.-...++|..-....+.-++...+|..+ +..+|
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~-----------~~~~P 117 (694)
T PRK15179 49 RELLQQARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGI-----------HQRFP 117 (694)
T ss_pred HHHHHHHHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHH-----------HhhCC
Confidence 444444556665554 2233334433 334454333444333333333223556677777 44456
Q ss_pred HHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC-chhhH
Q 014453 99 EKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFF 177 (424)
Q Consensus 99 ~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-~~~~l 177 (424)
|...+...+-. .+.+.+..-.|+...+.++.+ +|+. . ..|..+..++...+.|++|..+.++-+-.-+. ++-.+
T Consensus 118 d~~~a~~~~a~-~L~~~~~~eeA~~~~~~~l~~-~p~~--~-~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~ 192 (694)
T PRK15179 118 DSSEAFILMLR-GVKRQQGIEAGRAEIELYFSG-GSSS--A-REILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYV 192 (694)
T ss_pred CcHHHHHHHHH-HHHHhccHHHHHHHHHHHhhc-CCCC--H-HHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHH
Confidence 66555554333 333444455555566666432 3433 2 35778888889999999999999887652211 22333
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhcc
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~ 206 (424)
--|..+...|+..+|...|+.|+..
T Consensus 193 ----~~a~~l~~~G~~~~A~~~~~~a~~~ 217 (694)
T PRK15179 193 ----GWAQSLTRRGALWRARDVLQAGLDA 217 (694)
T ss_pred ----HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3488899999999999999999984
No 145
>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=61.26 E-value=40 Score=24.57 Aligned_cols=47 Identities=15% Similarity=0.262 Sum_probs=37.9
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEE
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFAT 346 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~ 346 (424)
.|..|.+.-..-...+..+|++.+|++ ...+-..+..|...|.|...
T Consensus 11 ~R~~Il~~L~~~~~~t~~ela~~l~~~-~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 11 TRLRILRLLASNGPMTVSELAEELGIS-QSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHHHHHHHHHCSTBEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCeEEe
Confidence 344454444777899999999999998 78899999999999998754
No 146
>PRK14574 hmsH outer membrane protein; Provisional
Probab=60.75 E-value=49 Score=37.57 Aligned_cols=86 Identities=14% Similarity=0.110 Sum_probs=58.3
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHH--HHHHHhhhc
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYG--GMIFIGQKR 192 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~--G~I~~~~~~ 192 (424)
.++...++..|+.++ +.+|... ..++ .++.+....|++..|+..+++-+.+- ...|.-.. |+++..+++
T Consensus 47 ~Gd~~~Al~~L~qaL-~~~P~~~--~av~-dll~l~~~~G~~~~A~~~~eka~~p~-----n~~~~~llalA~ly~~~gd 117 (822)
T PRK14574 47 AGDTAPVLDYLQEES-KAGPLQS--GQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-----NISSRGLASAARAYRNEKR 117 (822)
T ss_pred CCCHHHHHHHHHHHH-hhCccch--hhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-----CCCHHHHHHHHHHHHHcCC
Confidence 333445666677775 4455431 1233 77888888899999999888877311 22233334 668888899
Q ss_pred HHHHHHHHHHHhc-ccCc
Q 014453 193 FRKALELLHNVVT-APMS 209 (424)
Q Consensus 193 y~~A~~~~~~a~~-~P~~ 209 (424)
|.+|.+.|+.++. .|..
T Consensus 118 yd~Aiely~kaL~~dP~n 135 (822)
T PRK14574 118 WDQALALWQSSLKKDPTN 135 (822)
T ss_pred HHHHHHHHHHHHhhCCCC
Confidence 9999999999998 7776
No 147
>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=60.04 E-value=33 Score=24.86 Aligned_cols=51 Identities=12% Similarity=0.047 Sum_probs=37.9
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccc
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIY 168 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~ 168 (424)
+.++.-.++..+..++.+ +|+. ......+.++++..|+|+.|..++++-+.
T Consensus 3 ~~~~~~~A~~~~~~~l~~-~p~~---~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQR-NPDN---PEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HTTHHHHHHHHHHHHHHH-TTTS---HHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred hccCHHHHHHHHHHHHHH-CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344555677888888755 4543 45677899999999999999999998654
No 148
>PRK09954 putative kinase; Provisional
Probab=59.90 E-value=26 Score=35.22 Aligned_cols=54 Identities=15% Similarity=0.306 Sum_probs=41.7
Q ss_pred HHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE---EEecCCCEEEEe
Q 014453 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA---TINQKDGMVRFL 357 (424)
Q Consensus 303 I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A---~Id~~~g~v~F~ 357 (424)
|.++-+--.++|.++||+.|+++ ...+...+.+|..+|.|.+ .++++..++.+.
T Consensus 8 il~~l~~~~~~s~~~la~~l~~s-~~~v~~~i~~L~~~g~i~~~~~~l~~~~~v~viG 64 (362)
T PRK09954 8 ILAILRRNPLIQQNEIADILQIS-RSRVAAHIMDLMRKGRIKGKGYILTEQEYCVVVG 64 (362)
T ss_pred HHHHHHHCCCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCcCCcEEEEcCCccEEEEE
Confidence 44444555799999999999998 8999999999999999954 445555555543
No 149
>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=59.12 E-value=27 Score=25.35 Aligned_cols=43 Identities=14% Similarity=0.194 Sum_probs=35.7
Q ss_pred HHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 301 ~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
..|..+-+.-..++++++|+.++++ ..-+..-+..+-..|.|.
T Consensus 3 ~~Il~~l~~~~~~s~~ela~~~~VS-~~TiRRDl~~L~~~g~i~ 45 (57)
T PF08220_consen 3 QQILELLKEKGKVSVKELAEEFGVS-EMTIRRDLNKLEKQGLIK 45 (57)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCcC-HHHHHHHHHHHHHCCCEE
Confidence 3455555667899999999999998 889999999999999753
No 150
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=58.63 E-value=80 Score=27.82 Aligned_cols=89 Identities=13% Similarity=0.153 Sum_probs=59.1
Q ss_pred ccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHH-HHHHHHHHHhhhc-----
Q 014453 119 IRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLY-CYYGGMIFIGQKR----- 192 (424)
Q Consensus 119 ~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y-~YY~G~I~~~~~~----- 192 (424)
..++..+...-.|+ |.+..-...-+.+.-.....++|..|...+++=|- ..+....+-| +|..|++++.+.+
T Consensus 27 ~~A~~~le~L~~ry-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir-LhP~hp~vdYa~Y~~gL~~~~~~~~~~~~ 104 (142)
T PF13512_consen 27 EEAIKQLEALDTRY-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR-LHPTHPNVDYAYYMRGLSYYEQDEGSLQS 104 (142)
T ss_pred HHHHHHHHHHHhcC-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH-hCCCCCCccHHHHHHHHHHHHHhhhHHhh
Confidence 44555566655565 55556666778888889999999999888887432 2211123334 3467888888876
Q ss_pred ----------HHHHHHHHHHHhc-ccCc
Q 014453 193 ----------FRKALELLHNVVT-APMS 209 (424)
Q Consensus 193 ----------y~~A~~~~~~a~~-~P~~ 209 (424)
..+|...|+..++ .|.+
T Consensus 105 ~~~~drD~~~~~~A~~~f~~lv~~yP~S 132 (142)
T PF13512_consen 105 FFRSDRDPTPARQAFRDFEQLVRRYPNS 132 (142)
T ss_pred hcccccCcHHHHHHHHHHHHHHHHCcCC
Confidence 6777777777776 6654
No 151
>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=58.59 E-value=33 Score=25.32 Aligned_cols=41 Identities=15% Similarity=0.192 Sum_probs=32.5
Q ss_pred HHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 303 I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
|-.+..-=..++..+||+.++++ +.-|-..+.++..+|.+.
T Consensus 13 Iy~l~~~~~~v~~~~iA~~L~vs-~~tvt~ml~~L~~~GlV~ 53 (60)
T PF01325_consen 13 IYELSEEGGPVRTKDIAERLGVS-PPTVTEMLKRLAEKGLVE 53 (60)
T ss_dssp HHHHHHCTSSBBHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHcCCCCccHHHHHHHHCCC-hHHHHHHHHHHHHCCCEE
Confidence 33344445789999999999998 788888999999999875
No 152
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=58.04 E-value=33 Score=38.57 Aligned_cols=66 Identities=17% Similarity=0.171 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+-..+.++....+.|+.|+++++.-+.... -...-++|-.|.+++.+++|++|.++|+.++. .|.+
T Consensus 416 L~~d~a~al~~~~~~~~Al~~l~~i~~~~~--~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~ 482 (895)
T KOG2076|consen 416 LYLDLADALTNIGKYKEALRLLSPITNREG--YQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDN 482 (895)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHhcCcc--ccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCc
Confidence 445666777888889999888877443211 12355778889999999999999999999998 8875
No 153
>PHA03249 DNA packaging tegument protein UL25; Provisional
Probab=58.00 E-value=95 Score=33.57 Aligned_cols=281 Identities=13% Similarity=0.138 Sum_probs=137.5
Q ss_pred hCCchhhhcchHHHHHHHHHHHHHHHHhhc-cccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccc
Q 014453 88 SCSAEQIRYVPEKFINVCKRYKDQVLLLEA-PIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD 166 (424)
Q Consensus 88 ~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~-~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~ 166 (424)
.|++..+++.-+.+..-+...+..+...-+ |.-.+..|..-+.|.. ...--.+---.+|+|+..+.|-.+...+..-
T Consensus 207 VLS~e~v~fIkd~L~~~~~~~Va~lNscIPMP~y~LEaLldpiiK~~--~~R~RdLlrpVIRlaVlINyYynGk~~Lr~M 284 (653)
T PHA03249 207 VVSPPNVEFLKFVLYDFSVQHITRVNQCIPMPAFALTSLVDPVAKNV--SPGERDLTRGIVTHAVLINYYYQAKAKARHM 284 (653)
T ss_pred cCCHHHHHHHHHHhccccHHHHHHHhcCCCCcHHHHHHHHHHHHhhh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677777766665554433322111 2222333333332221 1122345567789999999987775555443
Q ss_pred cccc------cCchhh---------------HHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHH
Q 014453 167 IYEI------NLPRDF---------------FLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILV 225 (424)
Q Consensus 167 i~~~------~~~~~~---------------l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv 225 (424)
+... +.-+.. +-+++..|.-..-.+.|..+.+.+...+..-....++...+.|.++-..
T Consensus 285 ~~~l~~l~~g~t~rr~l~~L~gl~R~~RAaaL~lHll~~~~dLtdgqy~~~Lr~L~~~Lrs~~~~~sp~~~~~YetLr~y 364 (653)
T PHA03249 285 QCALNATIHGQTVRNIAAYVTNQTRGGRAAALALHFLMSQKAVTDGQYQACLRRLDEELRKRGTTESPSLTEVYETLRDY 364 (653)
T ss_pred HHHHHHHhcChHHHHHHHhhhccCcchhhhhhhHhhhcccCCCcHHHHHHHHHHHHHHHHhcCCCCChhHHHHHHHHhhc
Confidence 2211 100111 2222222444445578999999998888633333444445677777777
Q ss_pred HHHhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHH-HHHHHHHHHHH
Q 014453 226 SLIHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQ-VVSSMYKRNIQ 304 (424)
Q Consensus 226 ~LL~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~-l~~~v~r~~I~ 304 (424)
++|. +.|+|++.-..-.|.+++ .+|.+.. ++.+. +....+-..+.+.+|=.+.|--+ .+.+ .++.++
T Consensus 365 NlLF------~~P~yTt~EAV~LY~eNL---qdLT~~~-q~pLr-LLSs~k~skdhvLNDllFLLSl~nMI~~-f~raLr 432 (653)
T PHA03249 365 NVLF------PIAHYTNRGALYLYRQNL---QKLNNGH-RGVLK-LLSSEKLNEEHTLNDLAFLVGVELMLVH-FERTIR 432 (653)
T ss_pred cccc------cCcccccHHHHHHHHHHH---HHHhhhc-cCCce-eeccccCchhHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 7775 456677766554444333 2233331 22222 11111122334445544433222 2222 233344
Q ss_pred HHHhhhhcccHHHHHHHh-----CCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHH
Q 014453 305 RLTQTYLTLSLQDIANTV-----QLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRI 379 (424)
Q Consensus 305 ~l~~~Ys~Isl~~Ia~~l-----~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~ 379 (424)
.|. .|..-.+..+.+.+ ++++..+.=.-|+.+| ..+..+ +++...+. -...+
T Consensus 433 ~LR-~wI~~qLn~L~E~lYlAYtQlPelR~tyl~La~~i--~~~tSr----------~~d~plF~----------p~~~L 489 (653)
T PHA03249 433 VLR-CYIQHQLQNLSELIYIIYVQLPSLRGDYIQLTEAI--YWATSS----------HGDEPLFQ----------STTAL 489 (653)
T ss_pred HHH-HHHHHHHHHHHHHHHHHhhcCcchHHHHHHHHHHH--HHHHhc----------CCCCcccc----------cHHHH
Confidence 443 34445577777664 5554333322334444 222221 11111111 12446
Q ss_pred HHHHHHHHHHhHHhhcCHHHHHHhhhhh
Q 014453 380 MSLSKKLTAMDELISCDPLYLGKAGRER 407 (424)
Q Consensus 380 ~~L~~~~~~~d~~l~~~~~yi~~~~~~~ 407 (424)
+.+..++ .|..+-++|.|+..++|.-
T Consensus 490 l~FLRqv--~dAdVyvcP~Yvr~ALR~~ 515 (653)
T PHA03249 490 FDFLRAV--RNQDAFICTDYVMCALRLW 515 (653)
T ss_pred HHHHHHH--HhCCeeeChHHHHHHHHHH
Confidence 6666666 5667889999999998843
No 154
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=57.97 E-value=61 Score=35.78 Aligned_cols=58 Identities=7% Similarity=-0.063 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
....++..+.+.++++.|..+++.-. +.+...|. -....|...+++++|.+.|.....
T Consensus 261 ~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~~~vt~n-~li~~y~~~g~~~eA~~lf~~M~~ 318 (697)
T PLN03081 261 VSCALIDMYSKCGDIEDARCVFDGMP-----EKTTVAWN-SMLAGYALHGYSEEALCLYYEMRD 318 (697)
T ss_pred eHHHHHHHHHHCCCHHHHHHHHHhCC-----CCChhHHH-HHHHHHHhCCCHHHHHHHHHHHHH
Confidence 35667788888888888888876531 22333332 233446667899999999988865
No 155
>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=57.88 E-value=23 Score=30.11 Aligned_cols=36 Identities=19% Similarity=0.171 Sum_probs=32.5
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATI 347 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~I 347 (424)
..++..+||++++++ ..-+..++..|...|.|.+.-
T Consensus 24 ~~~s~~eia~~l~is-~~~v~~~l~~L~~~Gli~~~~ 59 (130)
T TIGR02944 24 QPYSAAEIAEQTGLN-APTVSKILKQLSLAGIVTSKR 59 (130)
T ss_pred CCccHHHHHHHHCcC-HHHHHHHHHHHHHCCcEEecC
Confidence 368999999999998 899999999999999997753
No 156
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=57.39 E-value=30 Score=32.76 Aligned_cols=50 Identities=14% Similarity=0.191 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
.|..|..+-+.=..+|..+||+.||++ ...|..++-+++.+|.+....-+
T Consensus 12 tr~~il~lL~~~g~~sa~elA~~Lgis-~~avR~HL~~Le~~Glv~~~~~~ 61 (218)
T COG2345 12 TRERILELLKKSGPVSADELAEELGIS-PMAVRRHLDDLEAEGLVEVERQQ 61 (218)
T ss_pred HHHHHHHHHhccCCccHHHHHHHhCCC-HHHHHHHHHHHHhCcceeeeecc
Confidence 345566666667789999999999998 89999999999999999998544
No 157
>PRK11906 transcriptional regulator; Provisional
Probab=57.37 E-value=1.8e+02 Score=30.72 Aligned_cols=81 Identities=11% Similarity=0.127 Sum_probs=58.7
Q ss_pred hHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHH
Q 014453 122 VGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLH 201 (424)
Q Consensus 122 i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~ 201 (424)
+...+.|+ .++|+.. -.|..+-.+....+.++.|...+++...- .-....=+||.|.+.+..++.++|.++++
T Consensus 324 ~~~A~rAv-eld~~Da---~a~~~~g~~~~~~~~~~~a~~~f~rA~~L---~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~ 396 (458)
T PRK11906 324 LELLDYVS-DITTVDG---KILAIMGLITGLSGQAKVSHILFEQAKIH---STDIASLYYYRALVHFHNEKIEEARICID 396 (458)
T ss_pred HHHHHHHH-hcCCCCH---HHHHHHHHHHHhhcchhhHHHHHHHHhhc---CCccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 34445554 3455432 34666666666677799999999986542 12356667899999999999999999999
Q ss_pred HHhc-ccCc
Q 014453 202 NVVT-APMS 209 (424)
Q Consensus 202 ~a~~-~P~~ 209 (424)
.|++ .|..
T Consensus 397 ~alrLsP~~ 405 (458)
T PRK11906 397 KSLQLEPRR 405 (458)
T ss_pred HHhccCchh
Confidence 9999 8875
No 158
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=57.34 E-value=1e+02 Score=34.08 Aligned_cols=104 Identities=19% Similarity=0.177 Sum_probs=71.1
Q ss_pred cccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC--------------c----------
Q 014453 118 PIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL--------------P---------- 173 (424)
Q Consensus 118 ~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~--------------~---------- 173 (424)
+.++=..|..|-+| .|... -++.+.+|.=++.++.++|..++.+..-+.+. |
T Consensus 735 ~~rAR~ildrarlk-NPk~~---~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DAL 810 (913)
T KOG0495|consen 735 LVRARSILDRARLK-NPKNA---LLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDAL 810 (913)
T ss_pred hhhHHHHHHHHHhc-CCCcc---hhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHH
Confidence 33333345555433 34432 46899999999999999998888886554432 1
Q ss_pred ---hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCC
Q 014453 174 ---RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQ 232 (424)
Q Consensus 174 ---~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~ 232 (424)
+..-.-..-.|+.+-..+.|++|..||..|+. +|..+ +++-.+.=..+.+ |.
T Consensus 811 kkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~G------D~wa~fykfel~h-G~ 866 (913)
T KOG0495|consen 811 KKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNG------DAWAWFYKFELRH-GT 866 (913)
T ss_pred HhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccc------hHHHHHHHHHHHh-CC
Confidence 11223445678899999999999999999999 88875 4555555556654 64
No 159
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=57.23 E-value=43 Score=34.31 Aligned_cols=88 Identities=10% Similarity=0.047 Sum_probs=59.7
Q ss_pred HHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc
Q 014453 113 LLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 113 ~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~ 192 (424)
...+++-.+...+..|. +.+|+.. ........++++..|+|+.|+..+++-.-.-| + .....+..+.+|+..++
T Consensus 129 ~~~g~~~~A~~~l~~A~-~~~~~~~--~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P--~-~~~al~ll~~~~~~~gd 202 (398)
T PRK10747 129 QQRGDEARANQHLERAA-ELADNDQ--LPVEITRVRIQLARNENHAARHGVDKLLEVAP--R-HPEVLRLAEQAYIRTGA 202 (398)
T ss_pred HHCCCHHHHHHHHHHHH-hcCCcch--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--C-CHHHHHHHHHHHHHHHh
Confidence 56666777777787775 3344331 22333457899999999999888877432212 1 23445567888899999
Q ss_pred HHHHHHHHHHHhcc
Q 014453 193 FRKALELLHNVVTA 206 (424)
Q Consensus 193 y~~A~~~~~~a~~~ 206 (424)
|.+|.+.+......
T Consensus 203 w~~a~~~l~~l~k~ 216 (398)
T PRK10747 203 WSSLLDILPSMAKA 216 (398)
T ss_pred HHHHHHHHHHHHHc
Confidence 99999888888873
No 160
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=57.13 E-value=71 Score=37.68 Aligned_cols=58 Identities=10% Similarity=0.031 Sum_probs=35.4
Q ss_pred HHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 149 LCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 149 lcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
.++..++|+.|+..+.+.+-. + |. ...-++..|.++...++|.+|..+|+.++. .|..
T Consensus 360 ~~~~~g~~~eA~~~~~~Al~~-~-P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~ 418 (1157)
T PRK11447 360 AALKANNLAQAERLYQQARQV-D-NT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGN 418 (1157)
T ss_pred HHHHCCCHHHHHHHHHHHHHh-C-CC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 344455555555554443221 1 11 122344568888889999999999999998 5664
No 161
>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=57.08 E-value=44 Score=34.32 Aligned_cols=90 Identities=10% Similarity=0.033 Sum_probs=62.1
Q ss_pred HHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhh
Q 014453 111 QVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ 190 (424)
Q Consensus 111 ~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~ 190 (424)
.+.+.+++-.+...+..|..+. |+.. ..+.....++.+..++|+.|+..+++-.-.- |++. .-.+..|.++...
T Consensus 127 aa~~~g~~~~A~~~l~~a~~~~-p~~~--l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~-~~l~ll~~~~~~~ 200 (409)
T TIGR00540 127 AAQQRGDEARANQHLEEAAELA-GNDN--ILVEIARTRILLAQNELHAARHGVDKLLEMA--PRHK-EVLKLAEEAYIRS 200 (409)
T ss_pred HHHHCCCHHHHHHHHHHHHHhC-CcCc--hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCH-HHHHHHHHHHHHH
Confidence 3445566677777788876443 4432 1235556889999999999988877643221 2222 3355788999999
Q ss_pred hcHHHHHHHHHHHhcc
Q 014453 191 KRFRKALELLHNVVTA 206 (424)
Q Consensus 191 ~~y~~A~~~~~~a~~~ 206 (424)
++|.+|.+.+......
T Consensus 201 ~d~~~a~~~l~~l~k~ 216 (409)
T TIGR00540 201 GAWQALDDIIDNMAKA 216 (409)
T ss_pred hhHHHHHHHHHHHHHc
Confidence 9999999999998874
No 162
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=56.91 E-value=25 Score=32.41 Aligned_cols=62 Identities=13% Similarity=0.103 Sum_probs=44.5
Q ss_pred HHHHHHccChHHHHhccccccccccCc--hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 147 LQLCLLAKCYKAGLSVLEDDIYEINLP--RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 147 ~rlcL~~~~y~~Al~il~~~i~~~~~~--~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
...++..|+|..|...+++-+...+.+ ..... +..|..+...++|.+|...|..-++ .|.+.
T Consensus 12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~--l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~ 76 (203)
T PF13525_consen 12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQ--LMLAYAYYKQGDYEEAIAAYERFIKLYPNSP 76 (203)
T ss_dssp HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHH--HHHHHHHHHTT-HHHHHHHHHHHHHH-TT-T
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc
Confidence 456788999999999988865544432 23343 4778999999999999999999998 88864
No 163
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=56.86 E-value=1.3e+02 Score=28.91 Aligned_cols=50 Identities=12% Similarity=0.206 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHhhh-hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 295 VSSMYKRNIQRLTQTY-LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 295 ~~~v~r~~I~~l~~~Y-s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
+....+.+|......| -+++.++||+.+|+. .+.+-.++-+||.+|.|.-
T Consensus 7 kk~~t~fqIL~ei~~~qp~v~q~eIA~~lgiT-~QaVsehiK~Lv~eG~i~~ 57 (260)
T COG1497 7 KKNLTRFQILSEIAVRQPRVKQKEIAKKLGIT-LQAVSEHIKELVKEGLIEK 57 (260)
T ss_pred cccchHHHHHHHHHHhCCCCCHHHHHHHcCCC-HHHHHHHHHHHHhccceee
Confidence 4556777777777777 689999999999998 8999999999999999874
No 164
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=56.80 E-value=44 Score=30.45 Aligned_cols=67 Identities=13% Similarity=0.115 Sum_probs=49.7
Q ss_pred HHHHHHHHHHhHHcCceEE-EEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHHHHHHHhHHhhcCHHHHHHhh
Q 014453 327 SKEAEMHVLQMIQDGEIFA-TINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSKKLTAMDELISCDPLYLGKAG 404 (424)
Q Consensus 327 ~~eaE~~v~~mI~~G~I~A-~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~~~~~~d~~l~~~~~yi~~~~ 404 (424)
..-+..++++||.||.+.+ ++-..+=+-.|.. +.+.++-.+|..|.+.++++...+.+-++||.+..
T Consensus 42 l~tVKd~lQqlVDDgvV~~EK~GtsN~YWsF~s-----------~~~qk~~~~~~~l~~~~~~~kqdi~t~~e~i~~ek 109 (209)
T COG5124 42 LMTVKDLLQQLVDDGVVSVEKCGTSNIYWSFKS-----------QTLQKLYDSSELLKKKIQEVKQDIATYKEEIDKEK 109 (209)
T ss_pred HHHHHHHHHHHhhcCceeeeeeccceeEEecch-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 4567789999999999987 4433333444432 23566667788889999999999999999998875
No 165
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=56.47 E-value=31 Score=23.56 Aligned_cols=27 Identities=11% Similarity=0.145 Sum_probs=20.0
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHh
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQM 337 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~m 337 (424)
=.+.|..+||+.+|++ +..+-.-+.+|
T Consensus 15 d~r~s~~~la~~lglS-~~~v~~Ri~rL 41 (42)
T PF13404_consen 15 DGRRSYAELAEELGLS-ESTVRRRIRRL 41 (42)
T ss_dssp -TTS-HHHHHHHHTS--HHHHHHHHHHH
T ss_pred cCCccHHHHHHHHCcC-HHHHHHHHHHh
Confidence 3899999999999998 77776666554
No 166
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=55.79 E-value=48 Score=39.12 Aligned_cols=61 Identities=11% Similarity=-0.063 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
.+..+..+....++|+.|+..+.+-+- .+ |. ...-.+..|.++...++|.+|...|..++.
T Consensus 605 ~~~~La~~~~~~g~~~~A~~~y~~al~-~~-P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~ 665 (1157)
T PRK11447 605 IDLTLADWAQQRGDYAAARAAYQRVLT-RE-PG-NADARLGLIEVDIAQGDLAAARAQLAKLPA 665 (1157)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH-hC-CC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 455666666666666666666655432 11 11 122334556666666666666666666665
No 167
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=55.59 E-value=62 Score=21.95 Aligned_cols=34 Identities=9% Similarity=0.178 Sum_probs=30.5
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
..++..+|++.++++ ...+...+..|...|.|..
T Consensus 13 ~~~s~~~l~~~l~~s-~~tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 13 GKVSVEELAELLGVS-EMTIRRDLNKLEEQGLLTR 46 (53)
T ss_pred CCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEE
Confidence 458999999999997 8899999999999999864
No 168
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=55.54 E-value=36 Score=35.62 Aligned_cols=66 Identities=14% Similarity=0.043 Sum_probs=52.4
Q ss_pred cchHHHHHHHHHHHccChHHHHhccccccccccCchhh-H-HHHHHHHHHHHhhhcHHHHHHHHHHHhcc
Q 014453 139 LTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDF-F-LYCYYGGMIFIGQKRFRKALELLHNVVTA 206 (424)
Q Consensus 139 lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~-l-~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~ 206 (424)
....|..+--.+...+.|+.|+...++.+- ++ |.+. . --+|..|++|..++++++|..+|..|+..
T Consensus 74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe-L~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 74 TAEDAVNLGLSLFSKGRVKDALAQFETALE-LN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 446788888888999999999999988653 22 2221 1 23688999999999999999999999984
No 169
>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=55.21 E-value=24 Score=27.45 Aligned_cols=42 Identities=12% Similarity=0.151 Sum_probs=33.3
Q ss_pred HHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCce
Q 014453 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEI 343 (424)
Q Consensus 301 ~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I 343 (424)
..+-.+++.+.-.|.++||+.+|++ +.-+...+..+...|.+
T Consensus 21 r~af~L~R~~eGlS~kEIAe~LGIS-~~TVk~~l~~~~~~~~~ 62 (73)
T TIGR03879 21 EAAAALAREEAGKTASEIAEELGRT-EQTVRNHLKGETKAGGL 62 (73)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcC-HHHHHHHHhcCcccchH
Confidence 3455566777999999999999998 78888888877776654
No 170
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=54.79 E-value=86 Score=34.28 Aligned_cols=91 Identities=11% Similarity=0.149 Sum_probs=54.9
Q ss_pred HHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhh
Q 014453 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQK 191 (424)
Q Consensus 112 ~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~ 191 (424)
++|.++--.|+..+..-+.++..+++++.---. -||.. +.-..|...+...+- .+ ++..+.++-| |.++=..+
T Consensus 17 ~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL---~L~~l-g~~~ea~~~vr~glr-~d-~~S~vCwHv~-gl~~R~dK 89 (700)
T KOG1156|consen 17 CYETKQYKKGLKLIKQILKKFPEHGESLAMKGL---TLNCL-GKKEEAYELVRLGLR-ND-LKSHVCWHVL-GLLQRSDK 89 (700)
T ss_pred HHHHHHHHhHHHHHHHHHHhCCccchhHHhccc---hhhcc-cchHHHHHHHHHHhc-cC-cccchhHHHH-HHHHhhhh
Confidence 567778888888887777766555554431111 11111 233444444443322 11 2334444444 78888999
Q ss_pred cHHHHHHHHHHHhc-ccCc
Q 014453 192 RFRKALELLHNVVT-APMS 209 (424)
Q Consensus 192 ~y~~A~~~~~~a~~-~P~~ 209 (424)
+|.+|..||..|+. -|.+
T Consensus 90 ~Y~eaiKcy~nAl~~~~dN 108 (700)
T KOG1156|consen 90 KYDEAIKCYRNALKIEKDN 108 (700)
T ss_pred hHHHHHHHHHHHHhcCCCc
Confidence 99999999999999 5665
No 171
>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi. It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].
Probab=54.48 E-value=2.9e+02 Score=30.08 Aligned_cols=130 Identities=16% Similarity=0.185 Sum_probs=78.9
Q ss_pred HHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHH--ccChHHHHhccccccccc---cCchhhHHH
Q 014453 105 CKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLL--AKCYKAGLSVLEDDIYEI---NLPRDFFLY 179 (424)
Q Consensus 105 ~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~--~~~y~~Al~il~~~i~~~---~~~~~~l~Y 179 (424)
|.+....+....+|..+...++.+|.-....+...-..+-.|++..+. .+++..|+..+.+-+.-- ..+.-.+.+
T Consensus 102 ~~~ll~~i~~~~~~~~a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~ 181 (608)
T PF10345_consen 102 CQFLLARIYFKTNPKAALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLA 181 (608)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHH
Confidence 334444444555555588889999877766443333445555544443 578999998887743321 124567788
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc---ccCccc--cHHHHHHHHHHH-HHHHHhcCCCC
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT---APMSSI--NAIAVEAYKKYI-LVSLIHHGQFS 234 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~---~P~~~~--s~i~~ea~Kk~i-Lv~LL~~G~~~ 234 (424)
.++.|++....+...++.+.+..|.. .++-.. ..-++.++.-++ +++.|..|++.
T Consensus 182 ~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~ 242 (608)
T PF10345_consen 182 SLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVK 242 (608)
T ss_pred HHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHH
Confidence 88999999988888888888887744 332222 233345554433 44455555543
No 172
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=54.27 E-value=1.4e+02 Score=25.66 Aligned_cols=39 Identities=15% Similarity=0.168 Sum_probs=32.1
Q ss_pred HHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 305 RLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 305 ~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
.+...-..+++++||+.++++ ...+-..|.+|...|.|.
T Consensus 15 ~l~~~~~~~~~~ela~~l~vs-~~svs~~l~~L~~~Gli~ 53 (142)
T PRK03902 15 LLIEEKGYARVSDIAEALSVH-PSSVTKMVQKLDKDEYLI 53 (142)
T ss_pred HHHhcCCCcCHHHHHHHhCCC-hhHHHHHHHHHHHCCCEE
Confidence 344444567899999999997 788888999999999986
No 173
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=53.63 E-value=22 Score=35.86 Aligned_cols=86 Identities=16% Similarity=0.161 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHH
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYK 220 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~K 220 (424)
+...+--+|+-+++|+-+++-+.+......++..-..-.|-.|.|...-+|+.-|.++|..|++ -|.++ |+|.
T Consensus 360 Lf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~------ealn 433 (478)
T KOG1129|consen 360 LFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHG------EALN 433 (478)
T ss_pred HHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchH------HHHH
Confidence 4555666788999999999888876554444556677788899999999999999999999998 56654 6777
Q ss_pred HHHHHHHHhcCCCC
Q 014453 221 KYILVSLIHHGQFS 234 (424)
Q Consensus 221 k~iLv~LL~~G~~~ 234 (424)
.+-++..= .|++-
T Consensus 434 NLavL~~r-~G~i~ 446 (478)
T KOG1129|consen 434 NLAVLAAR-SGDIL 446 (478)
T ss_pred hHHHHHhh-cCchH
Confidence 76655543 57776
No 174
>PLN03077 Protein ECB2; Provisional
Probab=53.17 E-value=97 Score=35.10 Aligned_cols=56 Identities=14% Similarity=0.216 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHH--HHhhhcHHHHHHHHHHHhc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMI--FIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I--~~~~~~y~~A~~~~~~a~~ 205 (424)
....++..+.+.++++.|..+.++-. ..+...| ..+| |...+++.+|.+.|.....
T Consensus 224 ~~n~Li~~y~k~g~~~~A~~lf~~m~-----~~d~~s~---n~li~~~~~~g~~~eAl~lf~~M~~ 281 (857)
T PLN03077 224 VVNALITMYVKCGDVVSARLVFDRMP-----RRDCISW---NAMISGYFENGECLEGLELFFTMRE 281 (857)
T ss_pred hHhHHHHHHhcCCCHHHHHHHHhcCC-----CCCcchh---HHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 35667788888888998888877632 1223333 3333 4456799999999998876
No 175
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=52.88 E-value=1.9e+02 Score=31.08 Aligned_cols=188 Identities=12% Similarity=0.059 Sum_probs=0.0
Q ss_pred HHHHHHHHhhcCCCcccHHHHHHHHHHhHHHHhhhcccccccccccCcchhhHHHHHHHhhccccccchhhhccHHHHHH
Q 014453 4 IENLVTQIQGLSSNASDITALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSITKERANTLVPIIA 83 (424)
Q Consensus 4 l~~~~~~i~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~l~ll~~~~~~~~~~~~~~~l~~~~~ 83 (424)
+..++......+.-+ .+..=....+.+.+.+.+... ---+.+-+....+|.+|.-..+..... .+...+.
T Consensus 199 ~~~~~~La~~y~~~g-~~e~A~~l~k~Al~~l~k~~G---~~hl~va~~l~~~a~~y~~~~k~~eAv------~ly~~AL 268 (508)
T KOG1840|consen 199 LRTLRNLAEMYAVQG-RLEKAEPLCKQALRILEKTSG---LKHLVVASMLNILALVYRSLGKYDEAV------NLYEEAL 268 (508)
T ss_pred HHHHHHHHHHHHHhc-cHHHHHHHHHHHHHHHHHccC---ccCHHHHHHHHHHHHHHHHhccHHHHH------HHHHHHH
Q ss_pred HHHhhCCchhhhcchHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCC----CCCCcchHHHHHHHHHHHccChHHH
Q 014453 84 RFITSCSAEQIRYVPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQS----STEHLTTLHPEFLQLCLLAKCYKAG 159 (424)
Q Consensus 84 ~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~----~~~~lT~~h~~l~rlcL~~~~y~~A 159 (424)
.-.+.+=+.-.-.+.-.+..|+.-| ...++-..+=.+...|+.-... +...+-..++.+.-+|...+.|++|
T Consensus 269 ~i~e~~~G~~h~~va~~l~nLa~ly----~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea 344 (508)
T KOG1840|consen 269 TIREEVFGEDHPAVAATLNNLAVLY----YKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEA 344 (508)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHH----hccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHH
Q ss_pred Hhcccc--cccc--ccCch-hhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 160 LSVLED--DIYE--INLPR-DFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 160 l~il~~--~i~~--~~~~~-~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
..++.+ .|.. +.... ....++==.|..|...|+|.+|.++|..|++
T Consensus 345 ~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~ 395 (508)
T KOG1840|consen 345 KKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ 395 (508)
T ss_pred HHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
No 176
>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=52.86 E-value=85 Score=22.87 Aligned_cols=43 Identities=9% Similarity=0.169 Sum_probs=32.3
Q ss_pred HHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 306 LTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 306 l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
|......+++++|++.++++ ...+-..|.+|+..|.|.=.-|.
T Consensus 12 l~~~~~~~t~~~l~~~~~~~-~~~vs~~i~~L~~~glv~~~~~~ 54 (68)
T PF13463_consen 12 LAHSDGPMTQSDLAERLGIS-KSTVSRIIKKLEEKGLVEKERDP 54 (68)
T ss_dssp HT--TS-BEHHHHHHHTT---HHHHHHHHHHHHHTTSEEEEEES
T ss_pred HHccCCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEecCCC
Confidence 33466889999999999998 78888999999999999655554
No 177
>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=52.77 E-value=27 Score=29.59 Aligned_cols=60 Identities=15% Similarity=0.281 Sum_probs=42.7
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHH
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHID 373 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~ 373 (424)
.++.++||+.++++ ...+..++..|...|.|...-....| .....+++..+-.+....++
T Consensus 25 ~~s~~eia~~~~i~-~~~v~~il~~L~~~gli~~~~g~~gg-y~l~~~~~~itl~~I~~~~e 84 (132)
T TIGR00738 25 PVSVKEIAERQGIS-RSYLEKILRTLRRAGLVESVRGPGGG-YRLARPPEEITVGDVVRAVE 84 (132)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCcEEeccCCCCC-ccCCCCHHHCCHHHHHHHHc
Confidence 68999999999998 89999999999999998764333334 33444555444444444443
No 178
>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=52.71 E-value=27 Score=26.34 Aligned_cols=42 Identities=17% Similarity=0.350 Sum_probs=34.3
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEec
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
.++..+||..+|++ .+.+-.++..|..+|.|. +. .+.+...+
T Consensus 28 ~lt~~~iA~~~g~s-r~tv~r~l~~l~~~g~I~--~~--~~~i~I~d 69 (76)
T PF13545_consen 28 PLTQEEIADMLGVS-RETVSRILKRLKDEGIIE--VK--RGKIIILD 69 (76)
T ss_dssp ESSHHHHHHHHTSC-HHHHHHHHHHHHHTTSEE--EE--TTEEEESS
T ss_pred cCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE--Ec--CCEEEECC
Confidence 57899999999998 889999999999999987 33 44555543
No 179
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=52.42 E-value=31 Score=29.20 Aligned_cols=44 Identities=20% Similarity=0.225 Sum_probs=36.5
Q ss_pred HHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEe
Q 014453 302 NIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATIN 348 (424)
Q Consensus 302 ~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id 348 (424)
.|..+... .+|+++||..++++ ..-+.-++++|+..|.|...--
T Consensus 47 ~Il~lC~~--~~SVAEiAA~L~lP-lgVvrVLvsDL~~~G~v~v~~p 90 (114)
T PF05331_consen 47 AILELCRR--PLSVAEIAARLGLP-LGVVRVLVSDLADAGLVRVRAP 90 (114)
T ss_pred HHHHHHCC--CccHHHHHHhhCCC-chhhhhhHHHHHhCCCEEEeCC
Confidence 45555555 89999999999998 7888889999999999987543
No 180
>PHA02943 hypothetical protein; Provisional
Probab=52.36 E-value=1.3e+02 Score=26.88 Aligned_cols=49 Identities=14% Similarity=0.230 Sum_probs=38.6
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecC
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLED 359 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~ 359 (424)
....-+.++||+.+|++ ..+|+.++--+=++|.|. ++.++...+-+-++
T Consensus 21 k~G~~TtseIAkaLGlS-~~qa~~~LyvLErEG~Vk-rV~~G~~tyw~l~~ 69 (165)
T PHA02943 21 ADGCKTTSRIANKLGVS-HSMARNALYQLAKEGMVL-KVEIGRAAIWCLDE 69 (165)
T ss_pred hcCCccHHHHHHHHCCC-HHHHHHHHHHHHHcCceE-EEeecceEEEEECh
Confidence 45567899999999998 899999999999999997 36565555555443
No 181
>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=52.09 E-value=99 Score=28.49 Aligned_cols=45 Identities=11% Similarity=0.137 Sum_probs=37.2
Q ss_pred HHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEE
Q 014453 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFAT 346 (424)
Q Consensus 301 ~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~ 346 (424)
..|...-.....++..+||+.++++ ..-+-.++..|..+|.|.-.
T Consensus 4 ~~IL~~L~~~~~~t~~eLA~~lgis-~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 4 EDILSYLLKQGQATAAALAEALAIS-PQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeEEe
Confidence 3444444455779999999999998 88999999999999999765
No 182
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=51.05 E-value=1.8e+02 Score=27.21 Aligned_cols=61 Identities=20% Similarity=0.261 Sum_probs=45.0
Q ss_pred HHHHHHHHHccChHHHHhccccccccccC----chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINL----PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 144 ~~l~rlcL~~~~y~~Al~il~~~i~~~~~----~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+-+.+--...+.+..|.+.|++- ++.++ |...+.| |+.+...++|.+|...|+.+++ .|.-
T Consensus 128 LglA~Aqfa~~~~A~a~~tLe~l-~e~~pa~r~pd~~Ll~----aR~laa~g~~a~Aesafe~a~~~ypg~ 193 (251)
T COG4700 128 LGLAQAQFAIQEFAAAQQTLEDL-MEYNPAFRSPDGHLLF----ARTLAAQGKYADAESAFEVAISYYPGP 193 (251)
T ss_pred HHHHHHHHhhccHHHHHHHHHHH-hhcCCccCCCCchHHH----HHHHHhcCCchhHHHHHHHHHHhCCCH
Confidence 34445556678888998888873 33332 4455655 8999999999999999999999 5553
No 183
>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=50.92 E-value=84 Score=30.75 Aligned_cols=94 Identities=15% Similarity=0.223 Sum_probs=62.8
Q ss_pred HHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHH
Q 014453 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSL 382 (424)
Q Consensus 303 I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L 382 (424)
|++|.+-+.++..++-+++|. +..+-.+|.+||..|.|+ |.|.-++..|-|.+ .+.+.|+.-+..
T Consensus 2 i~~L~~~~q~~Q~~~~~~rLS---ErnciEiv~kL~~~~~ld---------li~T~dGkeyiT~~---~L~~EI~~el~~ 66 (272)
T PF09743_consen 2 IEELQADFQRAQLASSSQRLS---ERNCIEIVNKLIEKKLLD---------LIHTTDGKEYITPE---QLEKEIKDELYV 66 (272)
T ss_pred HHHHHHHHHHHHHHhhhhhcc---hhhHHHHHHHHHHcCCee---------EEEECCCCEEECHH---HHHHHHHHHHHH
Confidence 456666677777777777663 556666999999999887 44444555566653 355555533322
Q ss_pred HH---HHHHHhHHhhcCHHHHHHhhhhhccCC
Q 014453 383 SK---KLTAMDELISCDPLYLGKAGRERQRFD 411 (424)
Q Consensus 383 ~~---~~~~~d~~l~~~~~yi~~~~~~~~~~~ 411 (424)
+. .+-++-..|..+..+|++.+++--+.|
T Consensus 67 ~gGRv~~~dL~~~LnVd~~~ie~~~~~i~~~~ 98 (272)
T PF09743_consen 67 HGGRVNLVDLAQALNVDLDHIERRAQEIVKSD 98 (272)
T ss_pred cCCceEHHHHHHhcCcCHHHHHHHHHHHHhCC
Confidence 21 445566788999999999988866655
No 184
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=50.82 E-value=38 Score=23.82 Aligned_cols=32 Identities=13% Similarity=0.228 Sum_probs=29.1
Q ss_pred cc-cHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 312 TL-SLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 312 ~I-sl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
++ |..++|+.++++ ..-+...+..|..+|.|.
T Consensus 19 ~l~s~~~la~~~~vs-~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 19 KLPSERELAAQLGVS-RTTVREALSRLEAEGLVQ 51 (60)
T ss_pred cCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 46 899999999997 899999999999999886
No 185
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=50.75 E-value=34 Score=30.80 Aligned_cols=60 Identities=17% Similarity=0.218 Sum_probs=42.3
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHH
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHID 373 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~ 373 (424)
.+++++||+.++++ ..-+++++..+...|.+...--...| .....+++..+-.+..+.++
T Consensus 25 ~vs~~eIA~~~~ip-~~~l~kIl~~L~~aGLv~s~rG~~GG-y~Lar~p~~Itl~dIl~aie 84 (164)
T PRK10857 25 PVPLADISERQGIS-LSYLEQLFSRLRKNGLVSSVRGPGGG-YLLGKDASSIAVGEVISAVD 84 (164)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEeCCCCCCC-eeccCCHHHCCHHHHHHHHc
Confidence 59999999999998 89999999999999999874333334 44444444333334444443
No 186
>KOG2316 consensus Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=50.71 E-value=26 Score=33.17 Aligned_cols=45 Identities=20% Similarity=0.320 Sum_probs=35.9
Q ss_pred HHHHhhhhcccHHHHHHHhCCCC-----HHHHHHHHHHhHHcCceEEEEec
Q 014453 304 QRLTQTYLTLSLQDIANTVQLNS-----SKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 304 ~~l~~~Ys~Isl~~Ia~~l~l~~-----~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
-.|-..|.|+..+.++++|+|.+ ..+-|.++.+||..| ++|.|-.
T Consensus 114 GAIlS~YQr~RVEnVC~RL~L~~Ls~LW~rdQ~~LL~eMi~~g-~~AiiiK 163 (277)
T KOG2316|consen 114 GAILSDYQRTRVENVCSRLGLVSLSYLWQRDQEELLQEMILSG-LDAIIIK 163 (277)
T ss_pred hhhHhHHHHHHHHHHHhhhCceeehHHHhccHHHHHHHHHHcC-CCeEEEE
Confidence 45677899999999999999864 244566999999999 7887754
No 187
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=50.44 E-value=1.1e+02 Score=32.92 Aligned_cols=119 Identities=13% Similarity=0.155 Sum_probs=72.4
Q ss_pred hhcchHHHHHHHHH-HHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHc---cChHHHHhcccccccc
Q 014453 94 IRYVPEKFINVCKR-YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLA---KCYKAGLSVLEDDIYE 169 (424)
Q Consensus 94 ~r~~~~~~~~l~~~-~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~---~~y~~Al~il~~~i~~ 169 (424)
+..-|+.+.+.++- .++. +..+-.++|..|+.++ .++|+. ++ .++-|+... +.=..|++.|++-|..
T Consensus 312 VkqdP~haeAW~~LG~~qa--ENE~E~~ai~AL~rcl-~LdP~N--le----aLmaLAVSytNeg~q~~Al~~L~~Wi~~ 382 (579)
T KOG1125|consen 312 VKQDPQHAEAWQKLGITQA--ENENEQNAISALRRCL-ELDPTN--LE----ALMALAVSYTNEGLQNQALKMLDKWIRN 382 (579)
T ss_pred HhhChHHHHHHHHhhhHhh--hccchHHHHHHHHHHH-hcCCcc--HH----HHHHHHHHHhhhhhHHHHHHHHHHHHHh
Confidence 45556666665542 2222 4566788999999985 688865 22 233333222 2234677777765421
Q ss_pred ccC---------------------------------------c-hhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 170 INL---------------------------------------P-RDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 170 ~~~---------------------------------------~-~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
-++ | ...-.-.-..|.+|-..++|.+|..||+.|++ -|.
T Consensus 383 ~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pn 462 (579)
T KOG1125|consen 383 KPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPN 462 (579)
T ss_pred CccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCc
Confidence 100 1 01223344568888899999999999999999 785
Q ss_pred c--------------cccHHHHHHHHH
Q 014453 209 S--------------SINAIAVEAYKK 221 (424)
Q Consensus 209 ~--------------~~s~i~~ea~Kk 221 (424)
. .-|.-.|+||.+
T Consensus 463 d~~lWNRLGAtLAN~~~s~EAIsAY~r 489 (579)
T KOG1125|consen 463 DYLLWNRLGATLANGNRSEEAISAYNR 489 (579)
T ss_pred hHHHHHHhhHHhcCCcccHHHHHHHHH
Confidence 3 124556788877
No 188
>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=50.25 E-value=1.2e+02 Score=31.38 Aligned_cols=64 Identities=19% Similarity=0.295 Sum_probs=35.9
Q ss_pred HHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 143 HPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 143 h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
...++++++..+....|..++.+.+... |++ ..-.-..+..++..++|+.|......|+. .|..
T Consensus 203 ~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d-~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~ 267 (395)
T PF09295_consen 203 AVLLARVYLLMNEEVEAIRLLNEALKEN--PQD-SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE 267 (395)
T ss_pred HHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh
Confidence 3445666666666666666666655322 122 22222445556666677777777777776 5654
No 189
>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=50.06 E-value=62 Score=22.29 Aligned_cols=33 Identities=15% Similarity=0.292 Sum_probs=29.4
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
...+..+|++.++++ ...+-..+..|...|.|.
T Consensus 14 ~~~~~~el~~~l~~s-~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 14 GPLTVSELAEELGLS-QSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp SSEEHHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred CCCchhhHHHhcccc-chHHHHHHHHHHHCcCee
Confidence 778899999999998 889999999999999875
No 190
>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=49.77 E-value=72 Score=28.69 Aligned_cols=62 Identities=18% Similarity=0.157 Sum_probs=38.8
Q ss_pred HHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCc
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMS 209 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~ 209 (424)
..+.+.+..+..+.+..+|+.-=.--| .......+.|++++..++|.+|.+.|+.+...+..
T Consensus 15 e~~~~al~~~~~~D~e~lL~ALrvLRP---~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~ 76 (160)
T PF09613_consen 15 EVLSVALRLGDPDDAEALLDALRVLRP---EFPELDLFDGWLHIVRGDWDDALRLLRELEERAPG 76 (160)
T ss_pred HHHHHHHccCChHHHHHHHHHHHHhCC---CchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC
Confidence 344455555555555555544211001 13445568899999999999999999998874443
No 191
>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=49.57 E-value=58 Score=24.18 Aligned_cols=39 Identities=8% Similarity=0.058 Sum_probs=34.4
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEe
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATIN 348 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id 348 (424)
.....+..+||+.+|++ ...+-..+.+|...|.|.-.-.
T Consensus 19 ~~~~~t~~eIa~~l~i~-~~~v~~~L~~L~~~GlV~~~~~ 57 (68)
T PF01978_consen 19 KNGPATAEEIAEELGIS-RSTVYRALKSLEEKGLVEREEG 57 (68)
T ss_dssp HHCHEEHHHHHHHHTSS-HHHHHHHHHHHHHTTSEEEEEE
T ss_pred HcCCCCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEEEcC
Confidence 56678999999999998 8999999999999999976553
No 192
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=49.29 E-value=36 Score=29.92 Aligned_cols=53 Identities=21% Similarity=0.322 Sum_probs=39.8
Q ss_pred hHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 156 YKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 156 y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
..+.+.++..-. +-..|...-.|.||.+.-+...|+|++|.++....++ -|.+
T Consensus 51 v~~GI~iLe~l~-~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n 104 (149)
T KOG3364|consen 51 VQEGIVILEDLL-KSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNN 104 (149)
T ss_pred HHHhHHHHHHHh-hhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCc
Confidence 345555555422 2223677888999999999999999999999999998 4554
No 193
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=48.74 E-value=1.1e+02 Score=30.92 Aligned_cols=86 Identities=14% Similarity=0.169 Sum_probs=59.6
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.+-|-++-.-|++++..+ |.+.+ ...+-+.+..-++...|+.++...+-.++- .++|..-.++|+-++++++
T Consensus 236 Lgm~r~AekqlqssL~q~-~~~dT----fllLskvY~ridQP~~AL~~~~~gld~fP~---~VT~l~g~ARi~eam~~~~ 307 (478)
T KOG1129|consen 236 LGMPRRAEKQLQSSLTQF-PHPDT----FLLLSKVYQRIDQPERALLVIGEGLDSFPF---DVTYLLGQARIHEAMEQQE 307 (478)
T ss_pred hcChhhhHHHHHHHhhcC-CchhH----HHHHHHHHHHhccHHHHHHHHhhhhhcCCc---hhhhhhhhHHHHHHHHhHH
Confidence 333445555566666443 22322 456677777778888888887764432222 5678878888999999999
Q ss_pred HHHHHHHHHhc-ccC
Q 014453 195 KALELLHNVVT-APM 208 (424)
Q Consensus 195 ~A~~~~~~a~~-~P~ 208 (424)
+|.++|..++. .|.
T Consensus 308 ~a~~lYk~vlk~~~~ 322 (478)
T KOG1129|consen 308 DALQLYKLVLKLHPI 322 (478)
T ss_pred HHHHHHHHHHhcCCc
Confidence 99999999998 554
No 194
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=48.31 E-value=1.2e+02 Score=33.87 Aligned_cols=119 Identities=13% Similarity=0.092 Sum_probs=71.6
Q ss_pred HHHHhhCCchhhhcchHHHHHHHHHHHHHHHH-------hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccC
Q 014453 83 ARFITSCSAEQIRYVPEKFINVCKRYKDQVLL-------LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKC 155 (424)
Q Consensus 83 ~~fl~~fd~~Q~r~~~~~~~~l~~~~~~~~~~-------~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~ 155 (424)
.-|...-++.+.+-+...-...+..-++..+. .++-.-|...+..|+ -++|+. ++.-..+..+.+..|+
T Consensus 658 ~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al-~ldP~h---v~s~~Ala~~lle~G~ 733 (799)
T KOG4162|consen 658 DLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL-ALDPDH---VPSMTALAELLLELGS 733 (799)
T ss_pred HHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH-hcCCCC---cHHHHHHHHHHHHhCC
Confidence 33555555666665555544444333322222 222233444555664 356653 3445567778888887
Q ss_pred hHHHHh--ccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 156 YKAGLS--VLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 156 y~~Al~--il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
-.-|.+ ++.. ...+++ ..-.-.||.|+++..+|+..+|.++|..|+. .++
T Consensus 734 ~~la~~~~~L~d-alr~dp--~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S 786 (799)
T KOG4162|consen 734 PRLAEKRSLLSD-ALRLDP--LNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEES 786 (799)
T ss_pred cchHHHHHHHHH-HHhhCC--CCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence 766655 4433 333332 2445678999999999999999999999997 444
No 195
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=48.24 E-value=3.6e+02 Score=28.47 Aligned_cols=101 Identities=12% Similarity=0.056 Sum_probs=66.9
Q ss_pred HHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC-chhhHHHHHHHHHHHHhhhcHHHHHHHHH
Q 014453 123 GPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKRFRKALELLH 201 (424)
Q Consensus 123 ~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~ 201 (424)
..|.....|+ |++. -....--|++...++.+.|+..+++.+..-+. ++-....+|=.|..++.+.+|++|.++|.
T Consensus 254 ~lL~~~~~~y-P~s~---lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~ 329 (468)
T PF10300_consen 254 ELLEEMLKRY-PNSA---LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFL 329 (468)
T ss_pred HHHHHHHHhC-CCcH---HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHH
Confidence 3355555555 4442 12445568999999999999999987631111 22233446677899999999999999999
Q ss_pred HHhcc-cCccccHHHHHHHHHHHHHHHHhcCCC
Q 014453 202 NVVTA-PMSSINAIAVEAYKKYILVSLIHHGQF 233 (424)
Q Consensus 202 ~a~~~-P~~~~s~i~~ea~Kk~iLv~LL~~G~~ 233 (424)
..... ..+ . .-|.+..=+++++.|+.
T Consensus 330 ~L~~~s~WS---k---a~Y~Y~~a~c~~~l~~~ 356 (468)
T PF10300_consen 330 RLLKESKWS---K---AFYAYLAAACLLMLGRE 356 (468)
T ss_pred HHHhccccH---H---HHHHHHHHHHHHhhccc
Confidence 99983 332 1 34555556666666665
No 196
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.57 E-value=87 Score=29.25 Aligned_cols=87 Identities=14% Similarity=0.073 Sum_probs=66.0
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcch-HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTT-LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~-~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~ 192 (424)
+.++--.++..|+.++. .+..+.|.+ +-..+.|+-+..+.|+.|++.|+.+.- +....++.-..|-|++..++
T Consensus 101 e~~~~d~A~aqL~~~l~--~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~----~~w~~~~~elrGDill~kg~ 174 (207)
T COG2976 101 EANNLDKAEAQLKQALA--QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKE----ESWAAIVAELRGDILLAKGD 174 (207)
T ss_pred hhccHHHHHHHHHHHHc--cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc----ccHHHHHHHHhhhHHHHcCc
Confidence 34444445666777652 244455554 456788899999999999999998643 34466778889999999999
Q ss_pred HHHHHHHHHHHhcc
Q 014453 193 FRKALELLHNVVTA 206 (424)
Q Consensus 193 y~~A~~~~~~a~~~ 206 (424)
=.+|...|+.++..
T Consensus 175 k~~Ar~ay~kAl~~ 188 (207)
T COG2976 175 KQEARAAYEKALES 188 (207)
T ss_pred hHHHHHHHHHHHHc
Confidence 99999999999985
No 197
>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=47.44 E-value=1.6e+02 Score=24.27 Aligned_cols=42 Identities=12% Similarity=0.118 Sum_probs=35.7
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD 351 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~ 351 (424)
....++.++|++.++++ ...+-..|.+|..+|.|.-.-+..+
T Consensus 39 ~~~~~t~~ela~~~~~~-~~tvs~~l~~Le~~GlI~r~~~~~D 80 (118)
T TIGR02337 39 EQGSMEFTQLANQACIL-RPSLTGILARLERDGLVTRLKASND 80 (118)
T ss_pred HcCCcCHHHHHHHhCCC-chhHHHHHHHHHHCCCEEeccCCCC
Confidence 35678999999999998 5678889999999999998877654
No 198
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=46.98 E-value=2.3e+02 Score=25.85 Aligned_cols=64 Identities=8% Similarity=0.040 Sum_probs=43.8
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecC--CCEEEEecCCCccChHHHHHHHHHHHHH
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQK--DGMVRFLEDPEQYKTCEMIEHIDSSIQR 378 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~--~g~v~F~~~~~~~~~~~~~~~~~~~i~~ 378 (424)
..++-++||+.+|++ ..++..++.++-.+|.+..+-.+. .|..++.... +.++....+..++..
T Consensus 35 g~~tdeeLA~~Lgi~-~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l---~~~~i~d~ik~~~~~ 100 (178)
T PRK06266 35 GEVTDEEIAEQTGIK-LNTVRKILYKLYDARLADYKREKDEETNWYTYTWKP---ELEKLPEIIKKKKME 100 (178)
T ss_pred CCcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEe---CHHHHHHHHHHHHHH
Confidence 459999999999998 899999999999999998644333 4545543322 133444444444433
No 199
>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=46.51 E-value=53 Score=24.15 Aligned_cols=33 Identities=15% Similarity=0.154 Sum_probs=28.5
Q ss_pred hcc-cHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 311 LTL-SLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 311 s~I-sl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
.++ +..+|++.++++ ..-+..-+..+..+|.|.
T Consensus 22 ~~lps~~~la~~~~vs-r~tvr~al~~L~~~g~i~ 55 (64)
T PF00392_consen 22 DRLPSERELAERYGVS-RTTVREALRRLEAEGLIE 55 (64)
T ss_dssp SBE--HHHHHHHHTS--HHHHHHHHHHHHHTTSEE
T ss_pred CEeCCHHHHHHHhccC-CcHHHHHHHHHHHCCcEE
Confidence 589 999999999998 888999999999999986
No 200
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=45.54 E-value=1.8e+02 Score=28.22 Aligned_cols=59 Identities=12% Similarity=0.211 Sum_probs=44.7
Q ss_pred HHHHHccChHHHHhccccccc-c--ccC--chhhHHHHHHHHHHHHhhh-cHHHHHHHHHHHhcc
Q 014453 148 QLCLLAKCYKAGLSVLEDDIY-E--INL--PRDFFLYCYYGGMIFIGQK-RFRKALELLHNVVTA 206 (424)
Q Consensus 148 rlcL~~~~y~~Al~il~~~i~-~--~~~--~~~~l~Y~YY~G~I~~~~~-~y~~A~~~~~~a~~~ 206 (424)
+++...++++.|...++|--. . .++ .....+-+|-.|.-....+ +|++|..|+++|+..
T Consensus 1 ~~A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~ 65 (278)
T PF08631_consen 1 ELAWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDI 65 (278)
T ss_pred CcchhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 356778888888777777321 1 121 2467778888899999999 999999999999984
No 201
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=45.01 E-value=83 Score=27.82 Aligned_cols=48 Identities=13% Similarity=0.117 Sum_probs=37.1
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCC
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPE 361 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~ 361 (424)
.++.++||+..+++ ..-++++++.|...|.|...-=. +|=.....+++
T Consensus 24 ~~s~~eIA~~~~is-~~~L~kIl~~L~~aGlv~S~rG~-~GGy~La~~p~ 71 (153)
T PRK11920 24 LSRIPEIARAYGVS-ELFLFKILQPLVEAGLVETVRGR-NGGVRLGRPAA 71 (153)
T ss_pred cCcHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEeecCC-CCCeeecCCHH
Confidence 47999999999998 89999999999999999876543 33334443333
No 202
>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=44.53 E-value=58 Score=27.76 Aligned_cols=54 Identities=9% Similarity=0.041 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcc
Q 014453 106 KRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVL 163 (424)
Q Consensus 106 ~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il 163 (424)
........+.+.+-.++..++.++ .++|.. ...|..+++.+...|++..|+.+.
T Consensus 66 ~~l~~~~~~~~~~~~a~~~~~~~l-~~dP~~---E~~~~~lm~~~~~~g~~~~A~~~Y 119 (146)
T PF03704_consen 66 ERLAEALLEAGDYEEALRLLQRAL-ALDPYD---EEAYRLLMRALAAQGRRAEALRVY 119 (146)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHH-HHSTT----HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred HHHHHHHHhccCHHHHHHHHHHHH-hcCCCC---HHHHHHHHHHHHHCcCHHHHHHHH
Confidence 333333334444555555555554 344443 245666666666666666664443
No 203
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.24 E-value=60 Score=31.79 Aligned_cols=44 Identities=18% Similarity=0.303 Sum_probs=32.9
Q ss_pred HHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCCCC
Q 014453 184 GMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFS 234 (424)
Q Consensus 184 G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~ 234 (424)
+.+.+.+++|++|...++.++. -|... +++-.+|...+. .|+-+
T Consensus 214 Av~~l~~~~~eeAe~lL~eaL~kd~~dp------etL~Nliv~a~~-~Gkd~ 258 (299)
T KOG3081|consen 214 AVCHLQLGRYEEAESLLEEALDKDAKDP------ETLANLIVLALH-LGKDA 258 (299)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhccCCCH------HHHHHHHHHHHH-hCCCh
Confidence 3466778999999999999998 44431 566677776665 59876
No 204
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=43.86 E-value=93 Score=29.40 Aligned_cols=48 Identities=25% Similarity=0.288 Sum_probs=39.6
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEec
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLE 358 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~ 358 (424)
...||.++||+.++++ ..-+-..|.+|.+.|.|.-..+.....|...+
T Consensus 19 ~~~IS~~eLA~~L~iS-~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTe 66 (217)
T PRK14165 19 TVKISSSEFANHTGTS-SKTAARILKQLEDEGYITRTIVPRGQLITITE 66 (217)
T ss_pred CCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEEEEcCCceEEEECH
Confidence 3469999999999998 78888999999999999988876555555544
No 205
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=43.81 E-value=73 Score=28.14 Aligned_cols=53 Identities=13% Similarity=0.071 Sum_probs=40.7
Q ss_pred HHHHHHhhhh--cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEE
Q 014453 302 NIQRLTQTYL--TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVR 355 (424)
Q Consensus 302 ~I~~l~~~Ys--~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~ 355 (424)
.+.-++.-.. .+++++||++.+++ +.-.+++++.+.+.|.+...-=...|+.-
T Consensus 13 ~L~~LA~~~~~~~~s~~~IA~~~~is-~~~L~kil~~L~kaGlV~S~rG~~GGy~L 67 (150)
T COG1959 13 ALLYLALLPGGGPVSSAEIAERQGIS-PSYLEKILSKLRKAGLVKSVRGKGGGYRL 67 (150)
T ss_pred HHHHHHhCCCCCcccHHHHHHHhCcC-HHHHHHHHHHHHHcCCEEeecCCCCCccC
Confidence 3444555444 68899999999998 89999999999999999876554444443
No 206
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=43.73 E-value=1.8e+02 Score=28.02 Aligned_cols=123 Identities=14% Similarity=0.110 Sum_probs=77.1
Q ss_pred chHHHHHHHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhh
Q 014453 97 VPEKFINVCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDF 176 (424)
Q Consensus 97 ~~~~~~~l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~ 176 (424)
+.+.-..|...|.+ .+++..+-.+|..|+ +.||+. .+ .|......+-.-+..+.|-+--.+.+..-+...++
T Consensus 34 aa~arlqLal~YL~----~gd~~~A~~nlekAL-~~DPs~-~~--a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdV 105 (250)
T COG3063 34 AAKARLQLALGYLQ----QGDYAQAKKNLEKAL-EHDPSY-YL--AHLVRAHYYQKLGENDLADESYRKALSLAPNNGDV 105 (250)
T ss_pred HHHHHHHHHHHHHH----CCCHHHHHHHHHHHH-HhCccc-HH--HHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccch
Confidence 33444455555543 566777888899997 457763 33 37777888888887666654444433211112234
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHHHHHhcCCCC
Q 014453 177 FLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFS 234 (424)
Q Consensus 177 l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~ 234 (424)
+.= || --.+.+++|++|..+|+.|+..|.-..-. .+|..+.++.+=+ |+..
T Consensus 106 LNN--YG-~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s---~t~eN~G~Cal~~-gq~~ 156 (250)
T COG3063 106 LNN--YG-AFLCAQGRPEEAMQQFERALADPAYGEPS---DTLENLGLCALKA-GQFD 156 (250)
T ss_pred hhh--hh-HHHHhCCChHHHHHHHHHHHhCCCCCCcc---hhhhhhHHHHhhc-CCch
Confidence 332 44 44567889999999999999998842211 4667778877654 6654
No 207
>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=43.37 E-value=1.4e+02 Score=24.10 Aligned_cols=46 Identities=15% Similarity=0.112 Sum_probs=35.8
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
.-..||-++||+.+|++ .+-+-..|.++...|.|.- ....|.+.-.
T Consensus 44 ~~~~is~~eLa~~~g~s-r~tVsr~L~~Le~~GlI~r--~~~~~~~~~n 89 (95)
T TIGR01610 44 KQDRVTATVIAELTGLS-RTHVSDAIKSLARRRIIFR--QGMMGIVGVN 89 (95)
T ss_pred cCCccCHHHHHHHHCcC-HHHHHHHHHHHHHCCCeee--ecCCceeecC
Confidence 45678999999999997 7889999999999999972 3334444433
No 208
>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=43.30 E-value=68 Score=21.43 Aligned_cols=38 Identities=21% Similarity=0.325 Sum_probs=28.3
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
+++.++|+.+|++ .. .+-+++.+|.|.+... ++...|.
T Consensus 2 lt~~e~a~~lgis-~~----ti~~~~~~g~i~~~~~--g~~~~~~ 39 (49)
T TIGR01764 2 LTVEEAAEYLGVS-KD----TVYRLIHEGELPAYRV--GRHYRIP 39 (49)
T ss_pred CCHHHHHHHHCCC-HH----HHHHHHHcCCCCeEEe--CCeEEEe
Confidence 5789999999997 33 4677889999988654 3555564
No 209
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=43.17 E-value=60 Score=29.70 Aligned_cols=36 Identities=31% Similarity=0.338 Sum_probs=31.7
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEe
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATIN 348 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id 348 (424)
.+.++||+.+|++|..-+...+..|..+|.|...=.
T Consensus 26 ~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~~ 61 (199)
T TIGR00498 26 PSIREIARAVGLRSPSAAEEHLKALERKGYIERDPG 61 (199)
T ss_pred CcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCCC
Confidence 889999999999877889999999999999876533
No 210
>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=42.89 E-value=84 Score=25.90 Aligned_cols=32 Identities=22% Similarity=0.267 Sum_probs=30.1
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCce
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEI 343 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I 343 (424)
-+||.+.++++.|++ ...+...+..+|+.|.|
T Consensus 53 d~Is~sq~~e~tg~~-~~~V~~al~~Li~~~vI 84 (100)
T PF04492_consen 53 DRISNSQIAEMTGLS-RDHVSKALNELIRRGVI 84 (100)
T ss_pred ceeeHHHHHHHHCcC-HHHHHHHHHHHHHCCCE
Confidence 489999999999998 88999999999999999
No 211
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=42.85 E-value=1.6e+02 Score=27.99 Aligned_cols=105 Identities=10% Similarity=0.073 Sum_probs=65.1
Q ss_pred hccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHH-HHHHHHHHHhhh---
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLY-CYYGGMIFIGQK--- 191 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y-~YY~G~I~~~~~--- 191 (424)
++--.++..+...+.+ .|.+.........+....+..++|..|....++-|-..|. ...+.| +|..|+.+....
T Consensus 46 g~y~~Ai~~f~~l~~~-yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~-~~~~~~a~Y~~g~~~~~~~~~~ 123 (243)
T PRK10866 46 GNWKQAITQLEALDNR-YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT-HPNIDYVLYMRGLTNMALDDSA 123 (243)
T ss_pred CCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcC-CCchHHHHHHHHHhhhhcchhh
Confidence 3344566677776654 4665555556677888899999999999888886543332 122333 345666643321
Q ss_pred ------------c---HHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHH
Q 014453 192 ------------R---FRKALELLHNVVT-APMSSINAIAVEAYKKYILV 225 (424)
Q Consensus 192 ------------~---y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv 225 (424)
| -.+|...|+..+. -|.+. ...+|-+++..+
T Consensus 124 ~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~---ya~~A~~rl~~l 170 (243)
T PRK10866 124 LQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQ---YTTDATKRLVFL 170 (243)
T ss_pred hhhccCCCccccCHHHHHHHHHHHHHHHHHCcCCh---hHHHHHHHHHHH
Confidence 2 2467788888888 77653 334666665543
No 212
>PF13730 HTH_36: Helix-turn-helix domain
Probab=42.48 E-value=38 Score=23.91 Aligned_cols=30 Identities=13% Similarity=0.268 Sum_probs=27.0
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCce
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEI 343 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I 343 (424)
-|.+.||+.+|++ ..-+...+..++..|.|
T Consensus 26 pS~~~la~~~g~s-~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 26 PSQETLAKDLGVS-RRTVQRAIKELEEKGLI 55 (55)
T ss_pred cCHHHHHHHHCcC-HHHHHHHHHHHHHCcCC
Confidence 3899999999998 89999999999998865
No 213
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=42.18 E-value=1.3e+02 Score=26.58 Aligned_cols=64 Identities=13% Similarity=0.083 Sum_probs=46.0
Q ss_pred HHHHHHHHccChHHHHhccccccccccC--chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDDIYEINL--PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~i~~~~~--~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
.-..-.+..|+|..|.+.++.-...++. .....++ -.|-.|...++|.+|...++.=++ .|++.
T Consensus 15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL--~l~yayy~~~~y~~A~a~~~rFirLhP~hp 81 (142)
T PF13512_consen 15 QEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQL--DLAYAYYKQGDYEEAIAAYDRFIRLHPTHP 81 (142)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHH--HHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence 3445688999999998888875443332 2333333 345567788999999999999999 88863
No 214
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=42.08 E-value=3.2e+02 Score=31.51 Aligned_cols=73 Identities=10% Similarity=0.148 Sum_probs=54.1
Q ss_pred HHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 126 LTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 126 ~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
|.++..++|+. ......++.++...++|+.|..++...+-. +...++++||.|+++...+++.+|... .++.
T Consensus 20 r~~~~~~~p~n---~~a~~~Li~~~~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~ 91 (906)
T PRK14720 20 RADANNYSLSK---FKELDDLIDAYKSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL--NLID 91 (906)
T ss_pred hcccccCCcch---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh--hhhh
Confidence 44444555543 234667888888999999999998865443 234788999999999999999998777 6666
Q ss_pred c
Q 014453 206 A 206 (424)
Q Consensus 206 ~ 206 (424)
.
T Consensus 92 ~ 92 (906)
T PRK14720 92 S 92 (906)
T ss_pred h
Confidence 3
No 215
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=41.68 E-value=1.1e+02 Score=31.55 Aligned_cols=92 Identities=10% Similarity=-0.038 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHH
Q 014453 104 VCKRYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYG 183 (424)
Q Consensus 104 l~~~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~ 183 (424)
+|..|.+. ..++|..-+..+...+.+...++ -++..+=+||+..|.|..|...+...+-.-+ ...=+-+.
T Consensus 298 L~~~~~~l--~~~d~~~l~k~~e~~l~~h~~~p----~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~----s~~~~~~l 367 (400)
T COG3071 298 LCRLIPRL--RPGDPEPLIKAAEKWLKQHPEDP----LLLSTLGRLALKNKLWGKASEALEAALKLRP----SASDYAEL 367 (400)
T ss_pred HHHHHhhc--CCCCchHHHHHHHHHHHhCCCCh----hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCC----ChhhHHHH
Confidence 44444433 33344444555666665543333 5788899999999999999999987665222 23334467
Q ss_pred HHHHHhhhcHHHHHHHHHHHhc
Q 014453 184 GMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 184 G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
|..+...++-.+|.+.++.++.
T Consensus 368 a~~~~~~g~~~~A~~~r~e~L~ 389 (400)
T COG3071 368 ADALDQLGEPEEAEQVRREALL 389 (400)
T ss_pred HHHHHHcCChHHHHHHHHHHHH
Confidence 8999999999999999999986
No 216
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=41.40 E-value=57 Score=37.17 Aligned_cols=66 Identities=15% Similarity=0.081 Sum_probs=47.2
Q ss_pred HHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 144 PEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 144 ~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
..+..-....++|..+..+-...|..-........=||..|+.|-++|+|++|..+|..+.. .|.+
T Consensus 274 ~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~ 340 (1018)
T KOG2002|consen 274 NHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN 340 (1018)
T ss_pred HHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC
Confidence 34556667788888877776655432111123456688999999999999999999999998 6654
No 217
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=41.40 E-value=2.2e+02 Score=24.10 Aligned_cols=43 Identities=12% Similarity=0.243 Sum_probs=35.9
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
..+..+|++.++++ ..-+-.++..|...|.|..+-+. ..+.+.
T Consensus 30 ~~~v~ela~~l~ls-qstvS~HL~~L~~AGLV~~~r~G--r~~~Y~ 72 (117)
T PRK10141 30 ELCVCDLCTALDQS-QPKISRHLALLRESGLLLDRKQG--KWVHYR 72 (117)
T ss_pred CcCHHHHHHHHCcC-HHHHHHHHHHHHHCCceEEEEEc--CEEEEE
Confidence 58899999999998 78899999999999999988874 344444
No 218
>PRK14574 hmsH outer membrane protein; Provisional
Probab=40.97 E-value=1.3e+02 Score=34.23 Aligned_cols=95 Identities=6% Similarity=-0.046 Sum_probs=67.2
Q ss_pred hhccccchHHHHHHHHhhCCC--CCCcch-HHHHHHHHHHHccChHHHHhcccccccccc------------CchhhHHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSS--TEHLTT-LHPEFLQLCLLAKCYKAGLSVLEDDIYEIN------------LPRDFFLY 179 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~--~~~lT~-~h~~l~rlcL~~~~y~~Al~il~~~i~~~~------------~~~~~l~Y 179 (424)
..+|.++...+++++.- .+. ....+. .+..|+--.+.+..|+.|..++++-.-..+ +..++.++
T Consensus 340 ~~~P~kA~~l~~~~~~~-~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~ 418 (822)
T PRK14574 340 RRLPEKAAPILSSLYYS-DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEG 418 (822)
T ss_pred cCCcHHHHHHHHHHhhc-cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHH
Confidence 34466666666666421 111 011111 145788889999999999999887433111 13478999
Q ss_pred HHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 180 CYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
+...+++++..+++.+|.+.++..+. +|.+.
T Consensus 419 ~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~ 450 (822)
T PRK14574 419 QTLLVQSLVALNDLPTAQKKLEDLSSTAPANQ 450 (822)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence 99999999999999999999999998 99874
No 219
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=40.59 E-value=91 Score=27.81 Aligned_cols=59 Identities=14% Similarity=0.243 Sum_probs=36.8
Q ss_pred HHHHHHHHccChHHHHhccccc-cccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhccc
Q 014453 145 EFLQLCLLAKCYKAGLSVLEDD-IYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAP 207 (424)
Q Consensus 145 ~l~rlcL~~~~y~~Al~il~~~-i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P 207 (424)
..+...+.....+.+..+|+.- +. .| .......+-|++++..++|.+|.+.|....+-+
T Consensus 15 ~~~~~aL~~~d~~D~e~lLdALrvL-rP---~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~ 74 (153)
T TIGR02561 15 EVLMYALRSADPYDAQAMLDALRVL-RP---NLKELDMFDGWLLIARGNYDEAARILRELLSSA 74 (153)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHh-CC---CccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence 3344555556665555555542 11 11 123344578999999999999999999888744
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=40.54 E-value=54 Score=24.99 Aligned_cols=36 Identities=11% Similarity=0.212 Sum_probs=27.9
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
.=++..+.|+++.+.-..+.++..++..||.+|.+.
T Consensus 16 ~KskfYfkD~~k~~pd~k~R~vKKi~~~LV~Eg~l~ 51 (67)
T PF08679_consen 16 KKSKFYFKDFYKAFPDAKPREVKKIVNELVNEGKLE 51 (67)
T ss_dssp HSS-EEHHHHHHH-TTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCceeHHHHHHHCCCcCHHHHHHHHHHHHhhCeEE
Confidence 346788999999765445899999999999999875
No 221
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=40.50 E-value=1.7e+02 Score=31.55 Aligned_cols=105 Identities=14% Similarity=0.047 Sum_probs=71.5
Q ss_pred hHHHHHHHHhhCCC---CCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHH
Q 014453 122 VGPMLTAIRKIQSS---TEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALE 198 (424)
Q Consensus 122 i~~L~~A~~rl~~~---~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~ 198 (424)
+..++.++.+...- ...-.|+...+=..|-..+.|..|+....+.+.-.++ ..+++--.|.||..+|+...|.+
T Consensus 434 ~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k---~~~~~asig~iy~llgnld~Aid 510 (611)
T KOG1173|consen 434 LKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK---DASTHASIGYIYHLLGNLDKAID 510 (611)
T ss_pred HHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC---chhHHHHHHHHHHHhcChHHHHH
Confidence 34466666444221 1122355666666777788899998888877654333 67777888999999999999999
Q ss_pred HHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCC
Q 014453 199 LLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQ 232 (424)
Q Consensus 199 ~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~ 232 (424)
+|..|+- .|... +..+.+|+.|=-+-...|.
T Consensus 511 ~fhKaL~l~p~n~---~~~~lL~~aie~~~~~~~~ 542 (611)
T KOG1173|consen 511 HFHKALALKPDNI---FISELLKLAIEDSECKSGV 542 (611)
T ss_pred HHHHHHhcCCccH---HHHHHHHHHHHhhhhhccc
Confidence 9999998 78763 2346777766544444454
No 222
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=40.11 E-value=88 Score=26.96 Aligned_cols=44 Identities=9% Similarity=0.283 Sum_probs=37.0
Q ss_pred HHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 300 KRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 300 r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
+..|..+.+-=-++++.++...+|++ -.-++.++-+++..|.|.
T Consensus 14 k~rIvElVRe~GRiTi~ql~~~TGas-R~Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 14 KARIVELVREHGRITIKQLVAKTGAS-RNTVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHHHHHHcCCccHHHHHHHHCCC-HHHHHHHHHHHHHcCCeE
Confidence 34455555666799999999999998 899999999999999886
No 223
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=38.87 E-value=2e+02 Score=27.66 Aligned_cols=43 Identities=16% Similarity=0.257 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHH
Q 014453 294 VVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQ 336 (424)
Q Consensus 294 l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~ 336 (424)
+...++..---.+-|+|..|++++.+++|.++++++.+....+
T Consensus 174 l~~tiRdEIA~c~EKsYd~l~~s~a~~~L~f~~~~e~~~~~~~ 216 (260)
T KOG3151|consen 174 LLDTIRDEIAGCIEKSYDKLSASDATQMLLFNNDKELKKFATE 216 (260)
T ss_pred HHHHHHHHHHHHHHHHHhhcCHHHHHHHHhcCChHHHHHHHHh
Confidence 3444444445678899999999999999999987887765543
No 224
>KOG1861 consensus Leucine permease transcriptional regulator [Transcription]
Probab=38.30 E-value=3.1e+02 Score=29.06 Aligned_cols=190 Identities=13% Similarity=0.114 Sum_probs=105.9
Q ss_pred HHHHHHhh--CCCCCCcchHHHHHHHHHHHccChHH------HH---hccccccc--cccCchhhHHHHHHHHHHHHhhh
Q 014453 125 MLTAIRKI--QSSTEHLTTLHPEFLQLCLLAKCYKA------GL---SVLEDDIY--EINLPRDFFLYCYYGGMIFIGQK 191 (424)
Q Consensus 125 L~~A~~rl--~~~~~~lT~~h~~l~rlcL~~~~y~~------Al---~il~~~i~--~~~~~~~~l~Y~YY~G~I~~~~~ 191 (424)
|..--+|| -|+|++.-|+-.+---||+....|.. +- +-|..+.. .|. .+--++-|=--++|.+..+
T Consensus 284 lEKsyLRLTsAPdPstVRP~~VL~ksL~~vkdk~k~~~~Y~y~CdQ~KSiRQDLTVQ~Ir-neFTveVYEtHARIALEkG 362 (540)
T KOG1861|consen 284 LEKSYLRLTSAPDPSTVRPLEVLKKSLCLVKDKWKAKANYAYLCDQFKSIRQDLTVQRIR-NEFTVEVYETHARIALEKG 362 (540)
T ss_pred HHHhHhhhccCCCccccCCHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhhheec-cceeeeeehhhhHHHHhcC
Confidence 44444555 47888888888888888888766641 11 11111111 000 1111222333467788888
Q ss_pred cHHHHHHHHHHHhc--ccCccccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHhh---hhhhc--cHHHHHHHHHHh
Q 014453 192 RFRKALELLHNVVT--APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQR---NLKNF--SQPYMELVNTYN 264 (424)
Q Consensus 192 ~y~~A~~~~~~a~~--~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~~---~~k~~--~~~Y~~L~~a~~ 264 (424)
|.+|=-+|-.+... .+..-.. ..|=.-+-||..++.. ..++ ...++.. -.|.. ...=.++-.|+.
T Consensus 363 D~~EfNQCQtQLk~LY~egipg~--~~EF~AYriLY~i~tk-N~~d-----i~sll~~lt~E~ked~~V~hAL~vR~A~~ 434 (540)
T KOG1861|consen 363 DLEEFNQCQTQLKALYSEGIPGA--YLEFTAYRILYYIFTK-NYPD-----ILSLLRDLTEEDKEDEAVAHALEVRSAVT 434 (540)
T ss_pred CHHHHHHHHHHHHHHHccCCCCc--hhhHHHHHHHHHHHhc-CchH-----HHHHHHhccHhhccCHHHHHHHHHHHHHH
Confidence 87777777666655 3332111 1122223366666652 2221 1111111 11111 222345667778
Q ss_pred cCCHHHHHHHHHHcccccccccch--hHHHHHHHHHHHHHHHHHHhhhh-cccHHHHHHHhCCCCHHHH
Q 014453 265 TGKIVELETYVQTNREKFESDNNL--GLVKQVVSSMYKRNIQRLTQTYL-TLSLQDIANTVQLNSSKEA 330 (424)
Q Consensus 265 ~gdl~~~~~~l~~~~~~f~~Dgn~--~Lv~~l~~~v~r~~I~~l~~~Ys-~Isl~~Ia~~l~l~~~~ea 330 (424)
.||...|=..-. .-.++ -|+...+++-++..+..|+|+|. +|++.-|++-+.+++.++.
T Consensus 435 ~GNY~kFFrLY~-------~AP~M~~yLmdlF~erER~~Al~ii~KsyrP~i~~~fi~~~laf~~~e~c 496 (540)
T KOG1861|consen 435 LGNYHKFFRLYL-------TAPNMSGYLMDLFLERERKKALTIICKSYRPTITVDFIASELAFDSMEDC 496 (540)
T ss_pred hccHHHHHHHHh-------hcccchhHHHHHHHHHHHHHHHHHHHHHcCCCccHHHHhhhhhhchHHHH
Confidence 888777544331 22222 27888888999999999999999 9999999999988754443
No 225
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=38.25 E-value=57 Score=28.21 Aligned_cols=45 Identities=11% Similarity=0.122 Sum_probs=37.8
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
.+|.++||+.+|++ ..-+++++..+...|.|..+=-...|+....
T Consensus 25 ~~s~~~ia~~~~is-~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~ 69 (141)
T PRK11014 25 MTSISEVTEVYGVS-RNHMVKIINQLSRAGYVTAVRGKNGGIRLGK 69 (141)
T ss_pred ccCHHHHHHHHCcC-HHHHHHHHHHHHhCCEEEEecCCCCCeeecC
Confidence 68999999999998 8999999999999999987766555655544
No 226
>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=37.77 E-value=41 Score=20.07 Aligned_cols=22 Identities=18% Similarity=0.025 Sum_probs=16.6
Q ss_pred HHHHHHHHHhhhcHHHHHHHHH
Q 014453 180 CYYGGMIFIGQKRFRKALELLH 201 (424)
Q Consensus 180 ~YY~G~I~~~~~~y~~A~~~~~ 201 (424)
.+..|.++...|++.+|...++
T Consensus 4 ~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 4 RLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHcCCHHHHHHHHh
Confidence 4567788888888888887765
No 227
>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=37.70 E-value=1.4e+02 Score=20.85 Aligned_cols=30 Identities=7% Similarity=0.235 Sum_probs=26.2
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcC
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDG 341 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G 341 (424)
..+|.++||+.++++ ..-+...+..+-..|
T Consensus 14 ~~it~~eLa~~l~vS-~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 14 EPITAKELAEELGVS-RRTIRRDIKELREWG 43 (55)
T ss_dssp TSBEHHHHHHHCTS--HHHHHHHHHHHHHTT
T ss_pred CCcCHHHHHHHhCCC-HHHHHHHHHHHHHCC
Confidence 349999999999997 889999999998888
No 228
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=37.32 E-value=1.6e+02 Score=31.05 Aligned_cols=89 Identities=15% Similarity=0.147 Sum_probs=45.5
Q ss_pred HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcH
Q 014453 114 LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRF 193 (424)
Q Consensus 114 ~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y 193 (424)
-+..|..+|+.+..|..-...++..|+ -+..|+=.-++-.+|-..--...-.++..-..+ -+.|-.|+...-|
T Consensus 570 ~led~aqaie~~~q~~slip~dp~ils----kl~dlydqegdksqafq~~ydsyryfp~nie~i---ewl~ayyidtqf~ 642 (840)
T KOG2003|consen 570 LLEDPAQAIELLMQANSLIPNDPAILS----KLADLYDQEGDKSQAFQCHYDSYRYFPCNIETI---EWLAAYYIDTQFS 642 (840)
T ss_pred HhhCHHHHHHHHHHhcccCCCCHHHHH----HHHHHhhcccchhhhhhhhhhcccccCcchHHH---HHHHHHHHhhHHH
Confidence 355678888888777654444444333 334455555555555433222111112111111 1234445666677
Q ss_pred HHHHHHHHHHhc-ccCc
Q 014453 194 RKALELLHNVVT-APMS 209 (424)
Q Consensus 194 ~~A~~~~~~a~~-~P~~ 209 (424)
++|..+|+.|-- -|..
T Consensus 643 ekai~y~ekaaliqp~~ 659 (840)
T KOG2003|consen 643 EKAINYFEKAALIQPNQ 659 (840)
T ss_pred HHHHHHHHHHHhcCccH
Confidence 788888877665 5553
No 229
>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=37.28 E-value=2e+02 Score=26.05 Aligned_cols=70 Identities=6% Similarity=-0.073 Sum_probs=56.5
Q ss_pred hHHHHHHHHHHHccChHHHHhcccccccccc-CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccCccc
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN-LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPMSSI 211 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~-~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~ 211 (424)
..|..+....+..|+++.|++...+. .+.. .+.+.+..++..-++.+..++|..+..+...|-..+....
T Consensus 37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~-~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~ 107 (177)
T PF10602_consen 37 MALEDLADHYCKIGDLEEALKAYSRA-RDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGG 107 (177)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHH-hhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccc
Confidence 34778888899999999999888873 2222 2678888888999999999999999999999998776643
No 230
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=37.25 E-value=99 Score=23.43 Aligned_cols=39 Identities=26% Similarity=0.430 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHhhcCHHHHHHhhhhh
Q 014453 369 IEHIDSSIQRIMSLSKKLTAMDELISCDPLYLGKAGRER 407 (424)
Q Consensus 369 ~~~~~~~i~~~~~L~~~~~~~d~~l~~~~~yi~~~~~~~ 407 (424)
.+++..++..+..-.+.++.--..+..||+||.+..|++
T Consensus 26 i~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~ 64 (80)
T PF04977_consen 26 IAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREK 64 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 344555555555555555555566657999999999865
No 231
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=37.05 E-value=2.5e+02 Score=23.58 Aligned_cols=50 Identities=20% Similarity=0.341 Sum_probs=40.7
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecC---CCEEEEecCCC
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQK---DGMVRFLEDPE 361 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~---~g~v~F~~~~~ 361 (424)
..++|++||..+..+ ...|..++.+|...|-|.=+=-.. .+.++|..+++
T Consensus 18 ~~vtl~elA~~l~cS-~Rn~r~lLkkm~~~gWi~W~pg~GRG~~S~L~~l~~~~ 70 (115)
T PF12793_consen 18 VEVTLDELAELLFCS-RRNARTLLKKMQEEGWITWQPGRGRGNRSQLTFLKSPE 70 (115)
T ss_pred cceeHHHHHHHhCCC-HHHHHHHHHHHHHCCCeeeeCCCCCCCCCeeEEeeCHH
Confidence 478999999999987 899999999999999996444332 46888886654
No 232
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=36.86 E-value=2.2e+02 Score=24.30 Aligned_cols=40 Identities=15% Similarity=0.114 Sum_probs=34.5
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCC
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDG 352 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g 352 (424)
.++.++||+.++++ ..-+-..|.+|...|.|.-.-|..++
T Consensus 46 ~~t~~eLa~~l~~~-~~tvt~~v~~Le~~GlV~r~~~~~Dr 85 (144)
T PRK03573 46 EQSQIQLAKAIGIE-QPSLVRTLDQLEEKGLISRQTCASDR 85 (144)
T ss_pred CCCHHHHHHHhCCC-hhhHHHHHHHHHHCCCEeeecCCCCc
Confidence 47889999999998 67888999999999999988876543
No 233
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=36.48 E-value=2.4e+02 Score=27.40 Aligned_cols=34 Identities=6% Similarity=-0.029 Sum_probs=27.1
Q ss_pred hhHHHHHHHHHHHHhhhcHHHHHHHHHHHhcccC
Q 014453 175 DFFLYCYYGGMIFIGQKRFRKALELLHNVVTAPM 208 (424)
Q Consensus 175 ~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P~ 208 (424)
....+-+.-|+-|...+.|..|..-++.++..+.
T Consensus 165 ~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~ 198 (254)
T COG4105 165 ALAGHEMAIARYYLKRGAYVAAINRFEEVLENYP 198 (254)
T ss_pred HHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccc
Confidence 3566778888888888899999888888888443
No 234
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=36.01 E-value=1.2e+02 Score=26.17 Aligned_cols=41 Identities=7% Similarity=0.096 Sum_probs=36.0
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCC
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDG 352 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g 352 (424)
..++.++||+.++++ ..-+-..|.+|+..|.|.=.-|..++
T Consensus 53 ~~~t~~eLa~~l~i~-~~tvsr~l~~Le~~GlI~R~~~~~Dr 93 (144)
T PRK11512 53 ACITPVELKKVLSVD-LGALTRMLDRLVCKGWVERLPNPNDK 93 (144)
T ss_pred CCCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEeccCcccC
Confidence 469999999999998 78888999999999999988876543
No 235
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=35.97 E-value=1.2e+02 Score=27.82 Aligned_cols=34 Identities=15% Similarity=0.297 Sum_probs=25.0
Q ss_pred ccHHHHHHH----hCCCCHHHHHHHHHHhHHcCceEE-EE
Q 014453 313 LSLQDIANT----VQLNSSKEAEMHVLQMIQDGEIFA-TI 347 (424)
Q Consensus 313 Isl~~Ia~~----l~l~~~~eaE~~v~~mI~~G~I~A-~I 347 (424)
-++.+|-+. .|+. ...|..+|..||.||.|.. +|
T Consensus 12 y~lKELEK~~pK~~gI~-~~~VKdvlq~LvDDglV~~EKi 50 (188)
T PF03962_consen 12 YTLKELEKLAPKEKGIV-SMSVKDVLQSLVDDGLVHVEKI 50 (188)
T ss_pred ccHHHHHHHcccccCCc-hhhHHHHHHHHhccccchhhhc
Confidence 345555443 4777 6889999999999998865 44
No 236
>PF09999 DUF2240: Uncharacterized protein conserved in archaea (DUF2240); InterPro: IPR018716 This family of various hypothetical archaeal proteins has no known function.
Probab=35.90 E-value=2.3e+02 Score=25.01 Aligned_cols=89 Identities=20% Similarity=0.257 Sum_probs=53.9
Q ss_pred CCCCHHHHHHHHHHhHHcCceEEEEecCCCEEE--Ee----cCCCccC-------hHHHHHHHHHHHHHH-----HHHHH
Q 014453 323 QLNSSKEAEMHVLQMIQDGEIFATINQKDGMVR--FL----EDPEQYK-------TCEMIEHIDSSIQRI-----MSLSK 384 (424)
Q Consensus 323 ~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~--F~----~~~~~~~-------~~~~~~~~~~~i~~~-----~~L~~ 384 (424)
++-|+++|..++...+.+|.|.- ++|.+. |. +-|..|. ...+..++-..|... .+...
T Consensus 32 ~WmspdqAk~li~~A~~eGLl~~----~~~~l~~~Fd~~~v~iP~~FkP~~~~l~e~~~fe~ild~ia~~~g~~~~evv~ 107 (144)
T PF09999_consen 32 KWMSPDQAKRLIDEAIEEGLLEE----EGGYLVPNFDPSEVEIPLGFKPDEEILQERDPFERILDYIAAKTGIEKQEVVA 107 (144)
T ss_pred CCCCHHHHHHHHHHHHHCCCeee----cCCEEEEecCccccccCCCCCCcHHHHhcccHHHHHHHHHHHhcCCCHHHHHH
Confidence 44479999999999999998864 244443 32 1122222 223333333333331 22455
Q ss_pred HHHHHhHHhh--cCHHHHHHhhhhhccCCCCCC
Q 014453 385 KLTAMDELIS--CDPLYLGKAGRERQRFDFDDF 415 (424)
Q Consensus 385 ~~~~~d~~l~--~~~~yi~~~~~~~~~~~~~~~ 415 (424)
.++.+-++++ ++++=+--..-.++.-|.+||
T Consensus 108 ~in~~q~~~~~~l~~e~aall~ake~Gvdv~~~ 140 (144)
T PF09999_consen 108 EINELQEELGGLLDPEAAALLYAKEKGVDVSDF 140 (144)
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHhCCCHHHH
Confidence 6777888888 888877766666666676665
No 237
>PF12070 DUF3550: Protein of unknown function (DUF3550/UPF0682); InterPro: IPR022709 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 249 to 606 amino acids in length.
Probab=35.83 E-value=1.2e+02 Score=32.43 Aligned_cols=99 Identities=15% Similarity=0.302 Sum_probs=52.0
Q ss_pred hHHHHHHHHHHHHhhhcH-HHHHHHHHHHhc--ccC--cc--ccH-----HHHHHHHHHHHHHHHhcCCCCCCCCcccCH
Q 014453 176 FFLYCYYGGMIFIGQKRF-RKALELLHNVVT--APM--SS--INA-----IAVEAYKKYILVSLIHHGQFSSTLPKYTSS 243 (424)
Q Consensus 176 ~l~Y~YY~G~I~~~~~~y-~~A~~~~~~a~~--~P~--~~--~s~-----i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~ 243 (424)
++-|+|| +....-+| .+|..+|+.+.+ ... .. .+. -+..-|-++|+|+||++ +.- ....
T Consensus 70 QLYyhyY---LRTse~~yL~Ea~~FY~AI~~R~Yf~~~~~~~~~dl~~~~K~LR~~ARFivVcLlLn-r~~-----~V~~ 140 (513)
T PF12070_consen 70 QLYYHYY---LRTSETNYLNEAYIFYEAIRSRGYFKDASKEEKPDLMVPNKQLRYYARFIVVCLLLN-RME-----MVKD 140 (513)
T ss_pred HHHHHHH---HHhccccHHHHHHHHHHHHHhhhhccccccccccccchhHHHHHHHHHHHHHHHHhh-hHH-----HHHH
Confidence 7778888 56666665 467777755543 221 11 112 23466778899999983 322 1111
Q ss_pred HHhhhhhhccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccc
Q 014453 244 AAQRNLKNFSQPYMELVNTYNTGKIVELETYVQTNREKFESDNN 287 (424)
Q Consensus 244 ~~~~~~k~~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn 287 (424)
++. -++..+. +-...|...|..+|.-+++.-......|..
T Consensus 141 Lv~-el~~~v~---dy~~~~~~~d~~EW~lVlqEI~~Fl~Ad~~ 180 (513)
T PF12070_consen 141 LVR-ELSKLVD---DYTSTYQESDQKEWSLVLQEIKRFLKADSA 180 (513)
T ss_pred HHH-HHHHHHH---HHHhcCCCcCcccHHHHHHHHHHHHhCccc
Confidence 211 1122222 223455566777777776665444444443
No 238
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=35.73 E-value=2.1e+02 Score=31.40 Aligned_cols=107 Identities=18% Similarity=0.187 Sum_probs=66.2
Q ss_pred hhcchHHHHHHHHHHHHHHH--HhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhcccccccccc
Q 014453 94 IRYVPEKFINVCKRYKDQVL--LLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEIN 171 (424)
Q Consensus 94 ~r~~~~~~~~l~~~~~~~~~--~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~ 171 (424)
++.-|+..++ +|+-... ..++-..|-..++.|+ ...|...+ +-....+.....|..+.|+.++++.+. .+
T Consensus 482 l~~~~rhYnA---wYGlG~vy~Kqek~e~Ae~~fqkA~-~INP~nsv---i~~~~g~~~~~~k~~d~AL~~~~~A~~-ld 553 (638)
T KOG1126|consen 482 LGVDPRHYNA---WYGLGTVYLKQEKLEFAEFHFQKAV-EINPSNSV---ILCHIGRIQHQLKRKDKALQLYEKAIH-LD 553 (638)
T ss_pred hcCCchhhHH---HHhhhhheeccchhhHHHHHHHhhh-cCCccchh---HHhhhhHHHHHhhhhhHHHHHHHHHHh-cC
Confidence 4555666665 3333322 2222334555567775 34555433 345555667777888889888888754 22
Q ss_pred CchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 172 LPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 172 ~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
|++.+ =.|+.|.|+...++|.+|...|+..-. +|+.+
T Consensus 554 -~kn~l-~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es 591 (638)
T KOG1126|consen 554 -PKNPL-CKYHRASILFSLGRYVEALQELEELKELVPQES 591 (638)
T ss_pred -CCCch-hHHHHHHHHHhhcchHHHHHHHHHHHHhCcchH
Confidence 22222 234788888888888888888888887 88763
No 239
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=35.65 E-value=53 Score=33.08 Aligned_cols=66 Identities=17% Similarity=0.206 Sum_probs=44.8
Q ss_pred chHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 140 TTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 140 T~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
.-.-+++....+..++.+.|...+.|..-. ....++=---.|.|++..|+|+.|.+.++.+.+ .|.
T Consensus 180 AqfyCELAq~~~~~~~~d~A~~~l~kAlqa---~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~ 246 (389)
T COG2956 180 AQFYCELAQQALASSDVDRARELLKKALQA---DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPE 246 (389)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHhh---CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChH
Confidence 344566677777777888887777775432 112333344668888888888888888888887 665
No 240
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=35.39 E-value=1e+02 Score=23.95 Aligned_cols=34 Identities=18% Similarity=0.175 Sum_probs=30.8
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
..+++++|++.++++ ..-+..++..|...|.|.-
T Consensus 19 ~~~t~~~ia~~l~i~-~~tv~r~l~~L~~~g~l~~ 52 (91)
T smart00346 19 GGLTLAELAERLGLS-KSTAHRLLNTLQELGYVEQ 52 (91)
T ss_pred CCcCHHHHHHHhCCC-HHHHHHHHHHHHHCCCeee
Confidence 369999999999998 7899999999999999974
No 241
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=34.89 E-value=2.3e+02 Score=28.22 Aligned_cols=85 Identities=12% Similarity=0.146 Sum_probs=59.2
Q ss_pred ccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHH
Q 014453 119 IRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALE 198 (424)
Q Consensus 119 ~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~ 198 (424)
..+|.....|| .|+|... ..|..=...+...+.|+.|.+=-.+.|. +++ ...+=|-=.|+.|..+++|.+|.+
T Consensus 98 ~eAv~kY~~AI-~l~P~nA---VyycNRAAAy~~Lg~~~~AVkDce~Al~-iDp--~yskay~RLG~A~~~~gk~~~A~~ 170 (304)
T KOG0553|consen 98 QEAVDKYTEAI-ELDPTNA---VYYCNRAAAYSKLGEYEDAVKDCESALS-IDP--HYSKAYGRLGLAYLALGKYEEAIE 170 (304)
T ss_pred HHHHHHHHHHH-hcCCCcc---hHHHHHHHHHHHhcchHHHHHHHHHHHh-cCh--HHHHHHHHHHHHHHccCcHHHHHH
Confidence 44566666776 5677654 3466666777888999998766555442 231 223333345999999999999999
Q ss_pred HHHHHhc-ccCcc
Q 014453 199 LLHNVVT-APMSS 210 (424)
Q Consensus 199 ~~~~a~~-~P~~~ 210 (424)
.|..|+. -|...
T Consensus 171 aykKaLeldP~Ne 183 (304)
T KOG0553|consen 171 AYKKALELDPDNE 183 (304)
T ss_pred HHHhhhccCCCcH
Confidence 9999999 77763
No 242
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=34.44 E-value=2.8e+02 Score=30.50 Aligned_cols=81 Identities=12% Similarity=0.126 Sum_probs=58.4
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHH--HHH
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSK--KLT 387 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~--~~~ 387 (424)
+..-.++++++.++++ ..++..++..|+..|.+. ++++ +.|-+.+...+..+.+....+-.. .+.
T Consensus 504 ~~p~~~~~~~~~l~~~-~~~~~~~l~~l~~~g~lv-~l~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 570 (614)
T PRK10512 504 DEPWWVRDLAKETGTD-EQAMRLTLRQAAQQGIIT-AIVK-----------DRYYRNDRIVQFANMIRELDQECGSTCAA 570 (614)
T ss_pred cCCCCHHHHHHHhCCC-HHHHHHHHHHHHHCCCEE-EecC-----------CEEECHHHHHHHHHHHHHHHhhCCcEeHH
Confidence 5777889999999998 788899999999999876 5553 223333444455555555544322 678
Q ss_pred HHhHHhhcCHHHHHHh
Q 014453 388 AMDELISCDPLYLGKA 403 (424)
Q Consensus 388 ~~d~~l~~~~~yi~~~ 403 (424)
++.+.+++|+.|+--.
T Consensus 571 ~~r~~~g~sRK~~i~l 586 (614)
T PRK10512 571 DFRDRLGVGRKLAIQI 586 (614)
T ss_pred HHHHHhCccHHHHHHH
Confidence 8899999999877554
No 243
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=33.96 E-value=3.9e+02 Score=27.18 Aligned_cols=149 Identities=13% Similarity=0.233 Sum_probs=0.0
Q ss_pred HHHHHHHhcCCHHHHHHHHHHccccc-----------------ccccchhHHHHHHH----------HHHHHHHHHHHhh
Q 014453 257 MELVNTYNTGKIVELETYVQTNREKF-----------------ESDNNLGLVKQVVS----------SMYKRNIQRLTQT 309 (424)
Q Consensus 257 ~~L~~a~~~gdl~~~~~~l~~~~~~f-----------------~~Dgn~~Lv~~l~~----------~v~r~~I~~l~~~ 309 (424)
.+|+..+..||...+...++.|.... ..+|+.||++.+.. .+..|.|+.-..-
T Consensus 117 ~~L~~~~~~Gd~~A~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~ 196 (367)
T PRK09210 117 IELAKRIEEGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITR 196 (367)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHH
Q ss_pred hh-------cc--------------------------cHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCC--EE
Q 014453 310 YL-------TL--------------------------SLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDG--MV 354 (424)
Q Consensus 310 Ys-------~I--------------------------sl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g--~v 354 (424)
|. +| +..+||+.+|++ .++++.++...-....+...+..+++ ..
T Consensus 197 ~i~~~~r~irip~~~~~~~~~~~~~~~~l~~~lgr~pt~~EiA~~l~~~-~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~ 275 (367)
T PRK09210 197 AIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMP-PEKVREILKIAQEPVSLETPIGEEDDSHLG 275 (367)
T ss_pred HHHHcCCceeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcC-HHHHHHHHHHhcCCCCcCCCCCCCCcchhh
Q ss_pred EEecCCCccChHHHH-------------HHHHHHHHHHHHHH--------HHHHHHhHHhhcCHHHHHHhhhh
Q 014453 355 RFLEDPEQYKTCEMI-------------EHIDSSIQRIMSLS--------KKLTAMDELISCDPLYLGKAGRE 406 (424)
Q Consensus 355 ~F~~~~~~~~~~~~~-------------~~~~~~i~~~~~L~--------~~~~~~d~~l~~~~~yi~~~~~~ 406 (424)
.|-.+.+..+..+.. ..+..+-+.++.+. -.++.+-..++++++-|+...+.
T Consensus 276 d~i~d~~~~~p~~~~~~~~~~~~l~~~l~~L~~rEr~Vl~lrygl~~~~~~tl~EIa~~lgvs~erVrQi~~~ 348 (367)
T PRK09210 276 DFIEDQDATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 348 (367)
T ss_pred hhccCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCccHHHHHHHHCCCHHHHHHHHHH
No 244
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.69 E-value=2.1e+02 Score=27.85 Aligned_cols=84 Identities=11% Similarity=0.053 Sum_probs=60.0
Q ss_pred HHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC----chhhHHHHHHHHHHHHhhhcHHHHHH
Q 014453 123 GPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL----PRDFFLYCYYGGMIFIGQKRFRKALE 198 (424)
Q Consensus 123 ~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~----~~~~l~Y~YY~G~I~~~~~~y~~A~~ 198 (424)
...+.-+.++ |++...--.|=-|-...+..++|..|..+..+.+-..+. |.-.+ =.|++...+++-.+|+.
T Consensus 162 ~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall----Klg~~~~~l~~~d~A~a 236 (262)
T COG1729 162 QAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL----KLGVSLGRLGNTDEACA 236 (262)
T ss_pred HHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH----HHHHHHHHhcCHHHHHH
Confidence 3455556665 443333344556677888999999998887776655543 33333 45999999999999999
Q ss_pred HHHHHhc-ccCccc
Q 014453 199 LLHNVVT-APMSSI 211 (424)
Q Consensus 199 ~~~~a~~-~P~~~~ 211 (424)
.|.+++. .|.+..
T Consensus 237 tl~qv~k~YP~t~a 250 (262)
T COG1729 237 TLQQVIKRYPGTDA 250 (262)
T ss_pred HHHHHHHHCCCCHH
Confidence 9999998 888654
No 245
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=33.63 E-value=1.7e+02 Score=31.28 Aligned_cols=97 Identities=19% Similarity=0.226 Sum_probs=61.4
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHH
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
.++..-+|..+..||.| +|+..++ -+.-.-..+..+.|..|+.=-.+.|- . ...+.+=+..-|.++.++++|.
T Consensus 371 ~gdy~~Av~~YteAIkr-~P~Da~l---YsNRAac~~kL~~~~~aL~Da~~~ie-L--~p~~~kgy~RKg~al~~mk~yd 443 (539)
T KOG0548|consen 371 KGDYPEAVKHYTEAIKR-DPEDARL---YSNRAACYLKLGEYPEALKDAKKCIE-L--DPNFIKAYLRKGAALRAMKEYD 443 (539)
T ss_pred ccCHHHHHHHHHHHHhc-CCchhHH---HHHHHHHHHHHhhHHHHHHHHHHHHh-c--CchHHHHHHHHHHHHHHHHHHH
Confidence 33455678888888755 5665332 22223344455666666554333332 1 2346777778899999999999
Q ss_pred HHHHHHHHHhc-ccCccccHHHHHHHHH
Q 014453 195 KALELLHNVVT-APMSSINAIAVEAYKK 221 (424)
Q Consensus 195 ~A~~~~~~a~~-~P~~~~s~i~~ea~Kk 221 (424)
+|.+.|..++. .|... -..+.|++
T Consensus 444 kAleay~eale~dp~~~---e~~~~~~r 468 (539)
T KOG0548|consen 444 KALEAYQEALELDPSNA---EAIDGYRR 468 (539)
T ss_pred HHHHHHHHHHhcCchhH---HHHHHHHH
Confidence 99999999998 67653 12345555
No 246
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=32.90 E-value=3.5e+02 Score=24.01 Aligned_cols=82 Identities=16% Similarity=0.299 Sum_probs=47.8
Q ss_pred hhcccHHHHHHHhC--CCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCc-cChHHHHHHHHHHHHH----HHHH
Q 014453 310 YLTLSLQDIANTVQ--LNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQ-YKTCEMIEHIDSSIQR----IMSL 382 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~--l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~-~~~~~~~~~~~~~i~~----~~~L 382 (424)
|..-|..||..-|+ ++ -..+...+-.++.+|.|.++.- ++..|.|-..... -.+.+-...++..|.. +..|
T Consensus 14 NRPys~~di~~nL~~~~~-K~~v~k~Ld~L~~~g~i~~K~~-GKqkiY~~~Q~~~~~~s~eel~~ld~ei~~L~~el~~l 91 (169)
T PF07106_consen 14 NRPYSAQDIFDNLHNKVG-KTAVQKALDSLVEEGKIVEKEY-GKQKIYFANQDELEVPSPEELAELDAEIKELREELAEL 91 (169)
T ss_pred CCCCcHHHHHHHHHhhcc-HHHHHHHHHHHHhCCCeeeeee-cceEEEeeCccccCCCCchhHHHHHHHHHHHHHHHHHH
Confidence 33445677777774 44 6789999999999999999975 4556666532211 1123334445544433 3444
Q ss_pred HHHHHHHhHHh
Q 014453 383 SKKLTAMDELI 393 (424)
Q Consensus 383 ~~~~~~~d~~l 393 (424)
...++.+..+|
T Consensus 92 ~~~~k~l~~eL 102 (169)
T PF07106_consen 92 KKEVKSLEAEL 102 (169)
T ss_pred HHHHHHHHHHH
Confidence 44444444433
No 247
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=32.80 E-value=1.8e+02 Score=32.39 Aligned_cols=34 Identities=18% Similarity=0.201 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 177 FLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 177 l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
..=+|-.|......++|+.|..+|..|++ .|.+.
T Consensus 519 ~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~ 553 (777)
T KOG1128|consen 519 LGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNA 553 (777)
T ss_pred hhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCch
Confidence 33445667888888999999999999998 88764
No 248
>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]
Probab=32.78 E-value=67 Score=34.90 Aligned_cols=88 Identities=10% Similarity=0.030 Sum_probs=57.0
Q ss_pred hccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHH
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRK 195 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~ 195 (424)
++|-.++..|..|.. +.|.. .+-| -..+..+.+..+....|-++|.....-. + ..=.++|-.|..+..+++-..
T Consensus 621 gn~~~a~~cl~~a~~-~~p~~-~~v~-~v~la~~~~~~~~~~da~~~l~q~l~~~--~-sepl~~~~~g~~~l~l~~i~~ 694 (886)
T KOG4507|consen 621 GNSTFAIACLQRALN-LAPLQ-QDVP-LVNLANLLIHYGLHLDATKLLLQALAIN--S-SEPLTFLSLGNAYLALKNISG 694 (886)
T ss_pred CCcHHHHHHHHHHhc-cChhh-hccc-HHHHHHHHHHhhhhccHHHHHHHHHhhc--c-cCchHHHhcchhHHHHhhhHH
Confidence 334455667777752 23332 2222 3566777788877766666665532110 0 122478889999999999999
Q ss_pred HHHHHHHHhc-ccCc
Q 014453 196 ALELLHNVVT-APMS 209 (424)
Q Consensus 196 A~~~~~~a~~-~P~~ 209 (424)
|.++|..|+. .|..
T Consensus 695 a~~~~~~a~~~~~~~ 709 (886)
T KOG4507|consen 695 ALEAFRQALKLTTKC 709 (886)
T ss_pred HHHHHHHHHhcCCCC
Confidence 9999999998 5553
No 249
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=32.23 E-value=1e+02 Score=29.70 Aligned_cols=45 Identities=11% Similarity=0.155 Sum_probs=39.8
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
++..|..+-+...+++++++|+.++++ ..-+.+-+..|-..|.|.
T Consensus 6 R~~~Il~~L~~~~~v~v~eLa~~l~VS-~~TIRRDL~~Le~~g~l~ 50 (256)
T PRK10434 6 RQAAILEYLQKQGKTSVEELAQYFDTT-GTTIRKDLVILEHAGTVI 50 (256)
T ss_pred HHHHHHHHHHHcCCEEHHHHHHHHCCC-HHHHHHHHHHHHHCCCEE
Confidence 566788888889999999999999998 788999999999999774
No 250
>PHA02992 hypothetical protein; Provisional
Probab=31.94 E-value=1.8e+02 Score=32.20 Aligned_cols=119 Identities=16% Similarity=0.243 Sum_probs=72.2
Q ss_pred HHHHHHH---HHHHHhcCCCCCCCCcccCHHHhhh-------hhhccHHHHHHHHHH-hcCCHHHHHHHHHHcccccccc
Q 014453 217 EAYKKYI---LVSLIHHGQFSSTLPKYTSSAAQRN-------LKNFSQPYMELVNTY-NTGKIVELETYVQTNREKFESD 285 (424)
Q Consensus 217 ea~Kk~i---Lv~LL~~G~~~~p~p~~~s~~~~~~-------~k~~~~~Y~~L~~a~-~~gdl~~~~~~l~~~~~~f~~D 285 (424)
+|++++- -+.|+..|--|..+|+--=.-+.+. ||+.-.++.+|.... +..|++.|.+.++-|.....+.
T Consensus 21 ~aF~~L~i~da~~Li~~G~hP~~LPkk~Y~~v~~~~P~kLyLFkPkhV~f~DLi~~i~~~~nve~ya~HI~fhk~~ilq~ 100 (728)
T PHA02992 21 KAFKKLRIDDAMRLIISGLHPTSLPKKWYNEVVETLPEKLYLFKPKHVLFIDLISVITKQKNVELYASHINFHKNEILQK 100 (728)
T ss_pred HHHHhcCHHHHHHHHHcCCCCccCCHHHHHHHHHhCCceEEEeccCcCCHHHHHHHHHHhccHHHHHHHHHHhHHHHHHh
Confidence 5666653 4567778888856665321222221 334445677777655 5689999999999999999999
Q ss_pred cchhHHHHHHHHHH--HHHHHHHHhhhhcccHHHHHHHhCCC---------CHHHHHHHHH
Q 014453 286 NNLGLVKQVVSSMY--KRNIQRLTQTYLTLSLQDIANTVQLN---------SSKEAEMHVL 335 (424)
Q Consensus 286 gn~~Lv~~l~~~v~--r~~I~~l~~~Ys~Isl~~Ia~~l~l~---------~~~eaE~~v~ 335 (424)
++..++.+|..-+. .--||-|..-|..-.+.+|--.++-. |++.+|.++.
T Consensus 101 ~~~~li~kCi~yM~i~DDDiR~L~~RF~~~~vd~iL~~iN~~Si~~isy~FSd~~~E~i~~ 161 (728)
T PHA02992 101 CDKSLIAKCIPYMTISDDDIRCLRSRFYNNSVDYILSFINKESIYRMSYQFSESLTEKIFI 161 (728)
T ss_pred cCHHHHHHHhhhcccccchHHHHHHHhcchhHHHHHHhcchhhhhhhhhhccHHHHHHHHH
Confidence 99999888875443 22245554444433333333333211 3566666554
No 251
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.82 E-value=2.7e+02 Score=29.07 Aligned_cols=92 Identities=14% Similarity=0.150 Sum_probs=56.3
Q ss_pred HHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccC--hHHHHHHHHHHHHHHHHHHHHHHHHhHHhh
Q 014453 317 DIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYK--TCEMIEHIDSSIQRIMSLSKKLTAMDELIS 394 (424)
Q Consensus 317 ~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~--~~~~~~~~~~~i~~~~~L~~~~~~~d~~l~ 394 (424)
+.+.-.+.++.+.-...+..|-..+.|.---.-....|.|.+.+.... -++....+..-++....|..++..++.++.
T Consensus 178 tlc~~~~~~~~~t~~l~l~~l~~~k~i~vg~~~g~k~~~f~~i~~~~~~~it~~D~~V~~L~~~~~~L~kqie~L~qeie 257 (439)
T KOG2911|consen 178 TLCSNLGKPDEETKDLVLCWLAYQKHIIVGESIGIKFLKFSQIPSQDASIITEIDGSVADLIQARAKLAKQIEFLEQEIE 257 (439)
T ss_pred HHhccCCCCcHHHHHHHHHHHHhhhheeeehhcceEEEeeccCCcccccCCccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333555555555555556555555322222345777876554422 124445566677777888899999999999
Q ss_pred cCHHHHHHhhhhhc
Q 014453 395 CDPLYLGKAGRERQ 408 (424)
Q Consensus 395 ~~~~yi~~~~~~~~ 408 (424)
.+.+=+....|+.+
T Consensus 258 ~~~~~~r~~~k~g~ 271 (439)
T KOG2911|consen 258 KSKEKLRQALKEGK 271 (439)
T ss_pred HHHHHHHHHHHhcc
Confidence 99887777666543
No 252
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=31.28 E-value=2.6e+02 Score=27.77 Aligned_cols=153 Identities=13% Similarity=0.183 Sum_probs=86.3
Q ss_pred HHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHHhcCCCCCCCCcccCHHHh--hhhhhccHH
Q 014453 179 YCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIHHGQFSSTLPKYTSSAAQ--RNLKNFSQP 255 (424)
Q Consensus 179 Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~~p~p~~~s~~~~--~~~k~~~~~ 255 (424)
=.=..|-=.+..++|++|...|+.||. .|..++-- +.+-.++.+| |+.. +- ..+... +.-....+.
T Consensus 83 ~LK~eGN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyy----cNRAAAy~~L---g~~~-~A---VkDce~Al~iDp~yska 151 (304)
T KOG0553|consen 83 SLKNEGNKLMKNKDYQEAVDKYTEAIELDPTNAVYY----CNRAAAYSKL---GEYE-DA---VKDCESALSIDPHYSKA 151 (304)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcchHH----HHHHHHHHHh---cchH-HH---HHHHHHHHhcChHHHHH
Confidence 334668888999999999999999999 89886421 2122222222 3332 10 000000 000123467
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCC-C---------
Q 014453 256 YMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQL-N--------- 325 (424)
Q Consensus 256 Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l-~--------- 325 (424)
|..|..|+...+ ++...++.|++.+.=|.+..-++.=+... +..++.-..+=.++.-.|++..+|. +
T Consensus 152 y~RLG~A~~~~g--k~~~A~~aykKaLeldP~Ne~~K~nL~~A-e~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~s~~~~~ 228 (304)
T KOG0553|consen 152 YGRLGLAYLALG--KYEEAIEAYKKALELDPDNESYKSNLKIA-EQKLNEPKSSAQASGSFDMAGLIGAFPDSRSMFNGD 228 (304)
T ss_pred HHHHHHHHHccC--cHHHHHHHHHhhhccCCCcHHHHHHHHHH-HHHhcCCCcccccccchhhhhhccCCccchhhhccc
Confidence 888988988755 67777888888888777765433222111 1112222223356667777777765 1
Q ss_pred --CHHHHHHHHHHhHHcCceEE
Q 014453 326 --SSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 326 --~~~eaE~~v~~mI~~G~I~A 345 (424)
+...+-.....|+.+|.+.+
T Consensus 229 l~nnp~l~~~~~~m~~~~~~~~ 250 (304)
T KOG0553|consen 229 LMNNPQLMQLASQMMKDGALNG 250 (304)
T ss_pred cccCHHHHHHHHHHhhcccccC
Confidence 23344455667777655544
No 253
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=31.18 E-value=1.5e+02 Score=29.58 Aligned_cols=47 Identities=21% Similarity=0.250 Sum_probs=40.3
Q ss_pred HHHHHhhh--hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecC
Q 014453 303 IQRLTQTY--LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQK 350 (424)
Q Consensus 303 I~~l~~~Y--s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~ 350 (424)
+.++++.| .-.+=++||+++|++ --.+-+++.++.+.|.++-+|+++
T Consensus 18 ~~~vA~lYY~~g~tQ~eIA~~lgiS-R~~VsRlL~~Ar~~GiV~I~I~~~ 66 (318)
T PRK15418 18 VARIAWFYYHDGLTQSEIGERLGLT-RLKVSRLLEKGRQSGIIRVQINSR 66 (318)
T ss_pred HHHHHHHHHhcCCCHHHHHHHhCCC-HHHHHHHHHHHHHcCcEEEEEeCC
Confidence 44555554 579999999999998 889999999999999999999875
No 254
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=30.92 E-value=2.7e+02 Score=29.48 Aligned_cols=108 Identities=10% Similarity=-0.010 Sum_probs=67.5
Q ss_pred chhhhcchHHHHHHHHH----------HHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHH
Q 014453 91 AEQIRYVPEKFINVCKR----------YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGL 160 (424)
Q Consensus 91 ~~Q~r~~~~~~~~l~~~----------~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al 160 (424)
..|...+...+..|... -.....+.|++-.+++.++.|+ +++|+. -.+...+.+..+..+.+..|.
T Consensus 319 ~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal-~l~P~~---~~l~~~~a~all~~g~~~eai 394 (484)
T COG4783 319 AGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKAL-ALDPNS---PLLQLNLAQALLKGGKPQEAI 394 (484)
T ss_pred hcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH-hcCCCc---cHHHHHHHHHHHhcCChHHHH
Confidence 44455555555555431 2234446677777888888886 456654 345566777788888888888
Q ss_pred hccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 161 SVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 161 ~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
++|.+.....+ +.-..++|.+..|..+++-.+|....-....
T Consensus 395 ~~L~~~~~~~p---~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~ 436 (484)
T COG4783 395 RILNRYLFNDP---EDPNGWDLLAQAYAELGNRAEALLARAEGYA 436 (484)
T ss_pred HHHHHHhhcCC---CCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence 88888766432 2344556667777777777766666555443
No 255
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=30.36 E-value=2.4e+02 Score=32.47 Aligned_cols=70 Identities=11% Similarity=0.127 Sum_probs=49.6
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccc
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSI 211 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~ 211 (424)
..+.-+..+|+..++|..|..+-++..-.+. +++...-.-|.|+++...+.|.+|.+++..|.. .|....
T Consensus 681 dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~-~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~ 751 (1018)
T KOG2002|consen 681 DVWLNLAHCYVEQGQYRLAIQMYENCLKKFY-KKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTS 751 (1018)
T ss_pred ceeeeHHHHHHHHHHHHHHHHHHHHHHHHhc-ccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccch
Confidence 4466667788888888888877776543322 233344445778888888889999999998888 887643
No 256
>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=30.05 E-value=3e+02 Score=26.88 Aligned_cols=84 Identities=13% Similarity=0.198 Sum_probs=57.6
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecCCCccChHHHHHHHHHHHHHHHHHHH--HHH
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLEDPEQYKTCEMIEHIDSSIQRIMSLSK--KLT 387 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~~~~L~~--~~~ 387 (424)
=-||++-|+++.++++ ...+|..+.+++.+.. .-.+.. | + .-+.+....+...|+..++-.. .+.
T Consensus 68 gGRv~~~dL~~~LnVd-~~~ie~~~~~i~~~~~-~~~l~~--g--------e-lit~~Yld~l~~Eine~Lqe~G~vsi~ 134 (272)
T PF09743_consen 68 GGRVNLVDLAQALNVD-LDHIERRAQEIVKSDK-SLQLVQ--G--------E-LITDSYLDSLAEEINEKLQESGQVSIS 134 (272)
T ss_pred CCceEHHHHHHhcCcC-HHHHHHHHHHHHhCCC-cEEEEC--C--------E-EccHHHHHHHHHHHHHHHHHcCeEeHH
Confidence 3789999999999998 8999999999998765 222221 1 1 2244556666666666555433 455
Q ss_pred HHhHHhhcCHHHHH-Hhhhh
Q 014453 388 AMDELISCDPLYLG-KAGRE 406 (424)
Q Consensus 388 ~~d~~l~~~~~yi~-~~~~~ 406 (424)
.+-.+..++.+|++ ..+..
T Consensus 135 eLa~~~~Lp~efl~~~li~~ 154 (272)
T PF09743_consen 135 ELAKQYDLPSEFLKEELISK 154 (272)
T ss_pred HHHHhcCCcHHHHHHHHhhh
Confidence 55567788889999 54444
No 257
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.95 E-value=1.8e+02 Score=28.42 Aligned_cols=85 Identities=13% Similarity=0.160 Sum_probs=44.0
Q ss_pred hccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC-chhhHH---HHHHHHHHHHhhh
Q 014453 116 EAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-PRDFFL---YCYYGGMIFIGQK 191 (424)
Q Consensus 116 ~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-~~~~l~---Y~YY~G~I~~~~~ 191 (424)
+++..+|..|-.-+..|-.+. -.+.++..+++.-++|..|.-.++.-+..-|. |..+.+ -+|+.|- ..
T Consensus 134 GK~l~aIk~ln~YL~~F~~D~----EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg----~e 205 (289)
T KOG3060|consen 134 GKNLEAIKELNEYLDKFMNDQ----EAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGG----AE 205 (289)
T ss_pred CCcHHHHHHHHHHHHHhcCcH----HHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhh----HH
Confidence 334444444444444443332 24667777777777777775555554332111 222222 2333332 55
Q ss_pred cHHHHHHHHHHHhc-ccC
Q 014453 192 RFRKALELLHNVVT-APM 208 (424)
Q Consensus 192 ~y~~A~~~~~~a~~-~P~ 208 (424)
++.-|..+|..++. +|.
T Consensus 206 N~~~arkyy~~alkl~~~ 223 (289)
T KOG3060|consen 206 NLELARKYYERALKLNPK 223 (289)
T ss_pred HHHHHHHHHHHHHHhChH
Confidence 77777777777777 664
No 258
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=29.92 E-value=1.1e+02 Score=27.28 Aligned_cols=55 Identities=16% Similarity=0.108 Sum_probs=39.6
Q ss_pred HHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEecC
Q 014453 301 RNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFLED 359 (424)
Q Consensus 301 ~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~~~ 359 (424)
+.|..+...-..+...|||+.|+++ +.-|-.++.+|...|.+. ++ +.+.+...+.
T Consensus 13 ~~Iy~l~~~~~~~~~~diA~~L~Vs-p~sVt~ml~rL~~~GlV~-~~--~y~gi~LT~~ 67 (154)
T COG1321 13 ETIYELLEEKGFARTKDIAERLKVS-PPSVTEMLKRLERLGLVE-YE--PYGGVTLTEK 67 (154)
T ss_pred HHHHHHHhccCcccHHHHHHHhCCC-cHHHHHHHHHHHHCCCeE-Ee--cCCCeEEChh
Confidence 3455555556678999999999998 677877899999998775 22 2445555543
No 259
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=29.80 E-value=3.1e+02 Score=22.37 Aligned_cols=40 Identities=13% Similarity=0.221 Sum_probs=34.6
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD 351 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~ 351 (424)
..++.++|+..++++ ...+-..|.+|...|.|.=.-|..+
T Consensus 42 ~~~t~~eL~~~l~~~-~stvs~~i~~Le~kg~I~r~~~~~D 81 (109)
T TIGR01889 42 GKLTLKEIIKEILIK-QSALVKIIKKLSKKGYLSKERSEDD 81 (109)
T ss_pred CcCcHHHHHHHHCCC-HHHHHHHHHHHHHCCCEeccCCccc
Confidence 469999999999998 7888999999999999986666554
No 260
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=29.66 E-value=1.5e+02 Score=27.33 Aligned_cols=46 Identities=11% Similarity=0.093 Sum_probs=38.5
Q ss_pred HHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecC
Q 014453 304 QRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQK 350 (424)
Q Consensus 304 ~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~ 350 (424)
+-+..-+.-.+.++||+.++++ +.-++.++..+...|.+...+...
T Consensus 169 ~~~~~g~~g~s~~eIa~~l~iS-~~Tv~~~~~~~~~~~~~~~~~~~~ 214 (225)
T PRK10046 169 KLFKEPGVQHTAETVAQALTIS-RTTARRYLEYCASRHLIIAEIVHG 214 (225)
T ss_pred HHHHcCCCCcCHHHHHHHhCcc-HHHHHHHHHHHHhCCeEEEEeecC
Confidence 3344444457899999999998 899999999999999999999874
No 261
>PF12728 HTH_17: Helix-turn-helix domain
Probab=29.64 E-value=1.2e+02 Score=20.96 Aligned_cols=38 Identities=18% Similarity=0.243 Sum_probs=27.6
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
++.+++|+.||++ .. -+-+++..|.|.+.- .++-..|.
T Consensus 2 lt~~e~a~~l~is-~~----tv~~~~~~g~i~~~~--~g~~~~~~ 39 (51)
T PF12728_consen 2 LTVKEAAELLGIS-RS----TVYRWIRQGKIPPFK--IGRKWRIP 39 (51)
T ss_pred CCHHHHHHHHCcC-HH----HHHHHHHcCCCCeEE--eCCEEEEe
Confidence 5789999999997 33 367888999997762 34445554
No 262
>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=29.53 E-value=4e+02 Score=23.63 Aligned_cols=63 Identities=6% Similarity=0.124 Sum_probs=42.2
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEE--ecCCCEEEEecCCCccChHHHHHHHHHHHHH
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATI--NQKDGMVRFLEDPEQYKTCEMIEHIDSSIQR 378 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~I--d~~~g~v~F~~~~~~~~~~~~~~~~~~~i~~ 378 (424)
-++-.+||+.+|++ ..++..++.++-.+|.+.-+- +.+.|...+....+ ..+....+..++..
T Consensus 28 ~~tdEeLa~~Lgi~-~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~---~~~i~d~Ik~~~~~ 92 (158)
T TIGR00373 28 EFTDEEISLELGIK-LNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRIN---YEKALDVLKRKLEE 92 (158)
T ss_pred CCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeC---HHHHHHHHHHHHHH
Confidence 48999999999998 899999999999999985222 22345555443222 23444445555444
No 263
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=29.33 E-value=1.2e+02 Score=29.07 Aligned_cols=45 Identities=9% Similarity=0.178 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF 344 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~ 344 (424)
++..|..+-+...++++.++++.++++ .+.+.+-+..+-..|.|.
T Consensus 6 R~~~Il~~l~~~~~~~~~ela~~l~vS-~~TiRRdL~~Le~~g~l~ 50 (252)
T PRK10906 6 RHDAIIELVKQQGYVSTEELVEHFSVS-PQTIRRDLNDLAEQNKIL 50 (252)
T ss_pred HHHHHHHHHHHcCCEeHHHHHHHhCCC-HHHHHHHHHHHHHCCCEE
Confidence 566677777889999999999999998 888999999999999874
No 264
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=29.23 E-value=2.6e+02 Score=21.40 Aligned_cols=33 Identities=15% Similarity=0.088 Sum_probs=27.2
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCce
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEI 343 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I 343 (424)
....+.++|+...+++ ...+..++..++..|.|
T Consensus 17 ~~~~~~t~i~~~~~L~-~~~~~~yL~~L~~~gLI 49 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLN-YSTLKKYLKELEEKGLI 49 (77)
T ss_dssp TT-B-HHHHHTTST---HHHHHHHHHHHHHTTSE
T ss_pred cCCCCHHHHHHHhCcC-HHHHHHHHHHHHHCcCe
Confidence 5778899999999998 89999999999999999
No 265
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.23 E-value=3.6e+02 Score=28.86 Aligned_cols=72 Identities=11% Similarity=0.096 Sum_probs=46.6
Q ss_pred hhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 131 KIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 131 rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
+|+|+. .+ -|.++..+.++.+.+..+.+..+..+-.+|. ..=-|- |-|-|..-+.+|.+|.+.|..|+. .|.
T Consensus 422 ~L~pe~-~~--~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~--~~Evy~-~fAeiLtDqqqFd~A~k~YD~ai~LE~~ 494 (606)
T KOG0547|consen 422 SLDPEN-AY--AYIQLCCALYRQHKIAESMKTFEEAKKKFPN--CPEVYN-LFAEILTDQQQFDKAVKQYDKAIELEPR 494 (606)
T ss_pred hcChhh-hH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC--CchHHH-HHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence 566653 11 2444444445556667776766666555543 122233 447899999999999999999999 776
No 266
>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=29.18 E-value=1e+02 Score=21.32 Aligned_cols=29 Identities=14% Similarity=0.322 Sum_probs=23.3
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHH
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQ 339 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~ 339 (424)
|...|+++||+.+|++ ...+..+..+++.
T Consensus 18 ~~~~t~~eIa~~lg~s-~~~V~~~~~~al~ 46 (50)
T PF04545_consen 18 FEGLTLEEIAERLGIS-RSTVRRILKRALK 46 (50)
T ss_dssp TST-SHHHHHHHHTSC-HHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCc-HHHHHHHHHHHHH
Confidence 6889999999999997 7888777766654
No 267
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=29.05 E-value=7.7e+02 Score=26.72 Aligned_cols=207 Identities=13% Similarity=0.079 Sum_probs=117.0
Q ss_pred HHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhh-
Q 014453 112 VLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQ- 190 (424)
Q Consensus 112 ~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~- 190 (424)
+++.+++.++...|+..-.-|.+ ..-----+...++.+..+++..|+..+.+.-.---.+.++.+| |.+++-+..
T Consensus 73 l~~e~k~~qA~~Ll~ql~~~Ltd--~Q~~~~~LL~ael~la~~q~~~Al~~L~~~~~~~ls~~Qq~Ry--~q~~a~a~ea 148 (604)
T COG3107 73 LVEEGKTAQAQALLNQLPQELTD--AQRAEKSLLAAELALAQKQPAAALQQLAKLLPADLSQNQQARY--YQARADALEA 148 (604)
T ss_pred HHHcCChHHHHHHHHhccccCCH--HHHHHHHHHHHHHHHhccChHHHHHHHhhcchhhcCHHHHHHH--HHHHHHHHhc
Confidence 44566666665555443211111 1111224566789999999999999999864321113567777 555555544
Q ss_pred -hcHHHHHH---HHHHHhcccCccccHHHHHHHHHHHHHHH-HhcCCCCCCCCcccCHHHhhhhhhccHHHHHHHHHHhc
Q 014453 191 -KRFRKALE---LLHNVVTAPMSSINAIAVEAYKKYILVSL-IHHGQFSSTLPKYTSSAAQRNLKNFSQPYMELVNTYNT 265 (424)
Q Consensus 191 -~~y~~A~~---~~~~a~~~P~~~~s~i~~ea~Kk~iLv~L-L~~G~~~~p~p~~~s~~~~~~~k~~~~~Y~~L~~a~~~ 265 (424)
++--+|.+ .++..++.+... -.+=|-|-+++- +-.|.+. +- ... -.-.+.-|..|++.+.+
T Consensus 149 ~~~~~~a~rari~~~~lL~~k~~q-----~nid~tW~ll~~~~~~~VIn-~s----a~e----~~~~L~GWL~L~rv~~~ 214 (604)
T COG3107 149 RGDSIDAARARIAQDPLLSGKAKQ-----ANIDKTWQLLSEQANTGVIN-NS----ADE----GNAALQGWLDLARVYKD 214 (604)
T ss_pred ccchHHHHHHHHHhhhhccchhHH-----HhHHHHHHHhhhhcccccee-cc----cCC----cccccchHHHHHHHHHh
Confidence 44444433 333333333321 123367777772 3344444 11 100 00134568889988854
Q ss_pred --CCHHHHHHHHHHcccccccccch-hHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCc
Q 014453 266 --GKIVELETYVQTNREKFESDNNL-GLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGE 342 (424)
Q Consensus 266 --gdl~~~~~~l~~~~~~f~~Dgn~-~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~ 342 (424)
.++..+.+-++++....-...-. .+=+.+. + -+.|+.-+.+.||-.|.+++.-. +++.-|.+|-
T Consensus 215 ~~~~p~qlk~~i~~Wq~~yPqhPaA~~~P~~l~---------~-l~~f~~~~~skiALLLPLtG~~a---~~a~~IqdGF 281 (604)
T COG3107 215 NGSDPPQLKAGIEDWQKRYPQHPAAKMLPTALT---------N-LKNFSQASPSKIALLLPLTGQAA---VFARTIQDGF 281 (604)
T ss_pred cccCHHHHHHHHHHHHhcCCCCchhhhChHHHH---------h-hhhcccCCchheeEEeccCChhH---HHHHHHHHHH
Confidence 36778888888776666443321 1111111 1 13577888999999999875322 5789999999
Q ss_pred eEEEEec
Q 014453 343 IFATINQ 349 (424)
Q Consensus 343 I~A~Id~ 349 (424)
..|+-+.
T Consensus 282 ~aA~~~~ 288 (604)
T COG3107 282 LAAKNAP 288 (604)
T ss_pred HHhccCc
Confidence 9998843
No 268
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.89 E-value=4e+02 Score=28.55 Aligned_cols=106 Identities=14% Similarity=0.229 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHHh-cCCCCCCCCcccCHHHhhhhhhccHH
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLIH-HGQFSSTLPKYTSSAAQRNLKNFSQP 255 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL~-~G~~~~p~p~~~s~~~~~~~k~~~~~ 255 (424)
.-||..|.+++.+.+|++|...|+.|++ .|.+.-.-++. ++++. .+++. ..-+ +-.-..+-|.+....
T Consensus 395 dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQl--------~~a~Yr~~k~~-~~m~-~Fee~kkkFP~~~Ev 464 (606)
T KOG0547|consen 395 DVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQL--------CCALYRQHKIA-ESMK-TFEEAKKKFPNCPEV 464 (606)
T ss_pred chhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHHH--------HHHHHHHHHHH-HHHH-HHHHHHHhCCCCchH
Confidence 3578999999999999999999999999 78775443332 12111 11221 0000 000111222233455
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHccc--ccccc------cchhHHHHHH
Q 014453 256 YMELVNTYNTGKIVELETYVQTNRE--KFESD------NNLGLVKQVV 295 (424)
Q Consensus 256 Y~~L~~a~~~gdl~~~~~~l~~~~~--~f~~D------gn~~Lv~~l~ 295 (424)
|.-++++.. |-..|...++.|.. .++.+ |-..||.+..
T Consensus 465 y~~fAeiLt--DqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~ 510 (606)
T KOG0547|consen 465 YNLFAEILT--DQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKAL 510 (606)
T ss_pred HHHHHHHHh--hHHhHHHHHHHHHHHHhhccccccccccchhhhhhhH
Confidence 777776665 44577777777643 34444 4444555444
No 269
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=28.55 E-value=1.8e+02 Score=23.08 Aligned_cols=62 Identities=13% Similarity=0.094 Sum_probs=42.0
Q ss_pred HHHHHHHccChHHHHhccccccccccC----ch--hhHHH-HHHHHHHHHhhhcHHHHHHHHHHHhcccC
Q 014453 146 FLQLCLLAKCYKAGLSVLEDDIYEINL----PR--DFFLY-CYYGGMIFIGQKRFRKALELLHNVVTAPM 208 (424)
Q Consensus 146 l~rlcL~~~~y~~Al~il~~~i~~~~~----~~--~~l~Y-~YY~G~I~~~~~~y~~A~~~~~~a~~~P~ 208 (424)
-.-.++..++|..|.+-+.+.. .... +. ....| ....|.++...|++++|...++.|++.-.
T Consensus 4 ~~~~~~~~~dy~~A~d~L~~~f-D~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Ar 72 (94)
T PF12862_consen 4 RYLNALRSGDYSEALDALHRYF-DYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLAR 72 (94)
T ss_pred HHHHHHHcCCHHHHHHHHHHHH-HHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 3456889999999988777632 1110 11 12222 23467788888999999999999999443
No 270
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=28.34 E-value=3e+02 Score=26.76 Aligned_cols=65 Identities=15% Similarity=0.043 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccC
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APM 208 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~ 208 (424)
.+|..+-+.....++|..|+..+.+-...-+ +.-+.+--.|.++.-.++...|...|.+++. .|.
T Consensus 101 ~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p---~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~ 166 (257)
T COG5010 101 ELLAAQGKNQIRNGNFGEAVSVLRKAARLAP---TDWEAWNLLGAALDQLGRFDEARRAYRQALELAPN 166 (257)
T ss_pred HHHHHHHHHHHHhcchHHHHHHHHHHhccCC---CChhhhhHHHHHHHHccChhHHHHHHHHHHHhccC
Confidence 3555577888888888888777777543211 1334444556666666777777777777776 444
No 271
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=28.33 E-value=1.4e+02 Score=28.66 Aligned_cols=46 Identities=7% Similarity=0.153 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
++..|..+-+....++++++++.++++ ..-+..-+..|-..|.|.-
T Consensus 6 R~~~Il~~l~~~~~~~~~ela~~l~vS-~~TirRdL~~Le~~g~i~r 51 (251)
T PRK13509 6 RHQILLELLAQLGFVTVEKVIERLGIS-PATARRDINKLDESGKLKK 51 (251)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEE
Confidence 455577777788999999999999997 7889999999999998853
No 272
>PRK10870 transcriptional repressor MprA; Provisional
Probab=28.33 E-value=3.5e+02 Score=24.28 Aligned_cols=39 Identities=10% Similarity=0.104 Sum_probs=34.2
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD 351 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~ 351 (424)
.++.++||+.++++ ..-+-.+|.+|+..|.|.=.-+..+
T Consensus 71 ~it~~eLa~~l~l~-~~tvsr~v~rLe~kGlV~R~~~~~D 109 (176)
T PRK10870 71 SIQPSELSCALGSS-RTNATRIADELEKRGWIERRESDND 109 (176)
T ss_pred CcCHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEecCCCCC
Confidence 58889999999998 6888889999999999987777655
No 273
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=28.27 E-value=1e+02 Score=24.22 Aligned_cols=32 Identities=13% Similarity=0.360 Sum_probs=26.5
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
||+.+++...|++ ++ .|..++..|.|......
T Consensus 1 is~~e~~~~~~i~-~~----~l~~lve~Gli~p~~~~ 32 (84)
T PF13591_consen 1 ISLEEFCEACGIE-PE----FLRELVEEGLIEPEGEE 32 (84)
T ss_pred CCHHHHHHHHCcC-HH----HHHHHHHCCCeeecCCC
Confidence 7899999999997 32 67789999999987665
No 274
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=27.76 E-value=1.5e+02 Score=27.27 Aligned_cols=35 Identities=14% Similarity=0.153 Sum_probs=31.3
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFAT 346 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~ 346 (424)
..+++++||+.++++ ..-+...+..|...|.|.-.
T Consensus 156 g~~s~~eia~~l~is-~stv~r~L~~Le~~GlI~r~ 190 (203)
T TIGR01884 156 GEKSVKNIAKKLGKS-LSTISRHLRELEKKGLVEQK 190 (203)
T ss_pred CCcCHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEEE
Confidence 579999999999997 78889999999999999754
No 275
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=27.45 E-value=4e+02 Score=22.95 Aligned_cols=50 Identities=12% Similarity=0.203 Sum_probs=37.4
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceE-EEEecC-CCEEEEecCC
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIF-ATINQK-DGMVRFLEDP 360 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~-A~Id~~-~g~v~F~~~~ 360 (424)
=...+..+||+.++.+ ..-|..-|.+++.-|.|. -+.+-+ .|+...-.+.
T Consensus 40 ~~~~tvdelae~lnr~-rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i 91 (126)
T COG3355 40 NGPLTVDELAEILNRS-RSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPI 91 (126)
T ss_pred cCCcCHHHHHHHHCcc-HHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecC
Confidence 3457899999999998 889999999999999994 355533 4555444443
No 276
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=27.27 E-value=2.2e+02 Score=23.28 Aligned_cols=68 Identities=12% Similarity=0.152 Sum_probs=40.6
Q ss_pred ccHHHHHHHHhhcCCCcccHHHHHHHHHHhHHHHhhhcccccccccccCcchhhHHHHHHHhhcccccc
Q 014453 2 QSIENLVTQIQGLSSNASDITALKDYLKAAEDLLRSESTRLLSFLDQLDPSKHSLGYLYFLEPCMYCSI 70 (424)
Q Consensus 2 ~~l~~~~~~i~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~L~~ldp~~~sl~~l~ll~~~~~~~~ 70 (424)
...++++..++++..|.++..+|......+...-..-......-+... |..|-|+.|||++.-.....
T Consensus 2 ~~~~~~l~~L~~~~~S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~-~~~~KL~~LYL~dsIvkn~~ 69 (114)
T cd03562 2 FDYNALLEKLTFNKNSQPSIQTLTKLAIENRKHAKEIVEIIEKHIKKC-PPEQKLPLLYLLDSIVKNVG 69 (114)
T ss_pred ccHHHHHHHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CcccchHHHHHHHHHHHHcc
Confidence 455677777787766776777776666553321111111222223333 34888999999998886544
No 277
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=27.23 E-value=2.4e+02 Score=27.25 Aligned_cols=36 Identities=17% Similarity=0.078 Sum_probs=31.5
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATI 347 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~I 347 (424)
.+++-.+||+++|++ ..-+..-+.++-..|.|..+=
T Consensus 197 grlse~eLAerlGVS-Rs~ireAlrkLE~aGvIe~r~ 232 (251)
T TIGR02787 197 GLLVASKIADRVGIT-RSVIVNALRKLESAGVIESRS 232 (251)
T ss_pred ccccHHHHHHHHCCC-HHHHHHHHHHHHHCCCEEecc
Confidence 489999999999998 777777899999999998754
No 278
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=26.84 E-value=2.6e+02 Score=22.86 Aligned_cols=42 Identities=12% Similarity=0.115 Sum_probs=30.4
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
-.++++.++++..|++ ++ .|..+|.-|.|......+ +--.|.
T Consensus 5 ~~~lt~~Elc~~~gi~-~~----~l~eLve~GlIep~~~~~-~~~~F~ 46 (101)
T PRK10265 5 TVTFTITEFCLHTGVS-EE----ELNEIVGLGVIEPREIQE-TTWVFD 46 (101)
T ss_pred EEEeeHHHHHHHHCcC-HH----HHHHHHHCCCeecCCCCc-ccceEC
Confidence 4579999999999997 33 577899999998644433 334444
No 279
>KOG3252 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.83 E-value=4.2e+02 Score=24.59 Aligned_cols=86 Identities=19% Similarity=0.195 Sum_probs=60.3
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHcccccccccchhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHH
Q 014453 254 QPYMELVNTYNTGKIVELETYVQTNREKFESDNNLGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMH 333 (424)
Q Consensus 254 ~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~ 333 (424)
..-.+|....++++...|=...+.+.+.++. ..| ...++++-.-+.++-+|.+|.=.=+|+.+|-.++.++|..
T Consensus 99 r~ii~L~~~LEt~~Fq~FW~~~~~N~~mle~--itG----Fedsvr~yachvv~iTyQkI~k~lLaellG~~sDs~le~~ 172 (217)
T KOG3252|consen 99 RSIIDLGDYLETCRFQQFWQEADENRDMLEG--ITG----FEDSVRKYACHVVGITYQKIDKWLLAELLGGLSDSQLEVW 172 (217)
T ss_pred hHHHhHHHHHhhchHHHHhhhhccchHHhcC--CCc----HHHHHHHHHHHheechHhhchHHHHHHhhCcccHHHHHHH
Confidence 3345677778888888877777666665542 222 2566677777889999999999999999987667787754
Q ss_pred HHHhHHcCceEEEEecCCC
Q 014453 334 VLQMIQDGEIFATINQKDG 352 (424)
Q Consensus 334 v~~mI~~G~I~A~Id~~~g 352 (424)
+. +.| -+..+.|
T Consensus 173 ~~---~~G----W~a~e~G 184 (217)
T KOG3252|consen 173 MT---KYG----WIADESG 184 (217)
T ss_pred HH---Hcc----ceecCCc
Confidence 44 333 4445566
No 280
>PHA02695 hypothetical protein; Provisional
Probab=26.81 E-value=2.2e+02 Score=31.41 Aligned_cols=104 Identities=11% Similarity=0.157 Sum_probs=66.9
Q ss_pred HHHHHHH---HHHHHhcCCCCCCCCcccCHHHhhh-------hhhccHHHHHHHHHH-hcCCHHHHHHHHHHcccccccc
Q 014453 217 EAYKKYI---LVSLIHHGQFSSTLPKYTSSAAQRN-------LKNFSQPYMELVNTY-NTGKIVELETYVQTNREKFESD 285 (424)
Q Consensus 217 ea~Kk~i---Lv~LL~~G~~~~p~p~~~s~~~~~~-------~k~~~~~Y~~L~~a~-~~gdl~~~~~~l~~~~~~f~~D 285 (424)
+|++++- -+.|+..|--|..+|+--=.-+.+. +|+.-.++.+|.... +..|++.|.+.++-|.....+.
T Consensus 20 ~aF~~L~i~da~~li~~G~hP~~LPkkwY~~v~~~~P~kLyLFkPkhV~~~DLi~~i~~~~nve~y~~HI~f~K~~ilq~ 99 (725)
T PHA02695 20 RAFAALSTSEAMSLMLDGVHPKHLPRRLYAPVSAEHPTHLHLFRPQHVTPEDLLEELSRRRCGALFARHIEFHTPYLVQF 99 (725)
T ss_pred HHHHhcCHHHHHHHHHcCCCCccCCHHHHHHHHHhCCceEEEeccCcCCHHHHHHHHHHhccHHHHHHHHHHhHHHHHHh
Confidence 5777653 4577888887756665321112211 234445567766555 6689999999999999999999
Q ss_pred cchhHHHHHHHHHH--HHHHHHHHhhhhcccHHHHHHH
Q 014453 286 NNLGLVKQVVSSMY--KRNIQRLTQTYLTLSLQDIANT 321 (424)
Q Consensus 286 gn~~Lv~~l~~~v~--r~~I~~l~~~Ys~Isl~~Ia~~ 321 (424)
++..++.+|..-+. .--||-|..-| ...+++|-..
T Consensus 100 ~~~~li~kCi~yM~i~DDDiR~l~~rF-~~~vd~iL~~ 136 (725)
T PHA02695 100 ADYALLCRCIPYMNITEDDVRLIEERF-PDDVDDILLH 136 (725)
T ss_pred cCHHHHHHHhhhcccccchHHHHHHHh-cchHHHHHHh
Confidence 99999888876544 22355555555 4444444333
No 281
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=25.97 E-value=2e+02 Score=21.31 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=26.2
Q ss_pred hhcccHHHHHHHhCC---------CCHHHHHHHHHHhHHcCceEEE
Q 014453 310 YLTLSLQDIANTVQL---------NSSKEAEMHVLQMIQDGEIFAT 346 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l---------~~~~eaE~~v~~mI~~G~I~A~ 346 (424)
...+++++|...+.+ .+.+|.+.++.+++++|.+...
T Consensus 9 ~gsl~l~RIh~mLkmf~~~~~~~~~s~~eL~~fL~~lv~e~~L~~~ 54 (60)
T PF08672_consen 9 LGSLPLDRIHSMLKMFPKDPGGYDISLEELQEFLDRLVEEGKLECS 54 (60)
T ss_dssp H-SEEHHHHHHHHHHH-GGG--TT--HHHHHHHHHHHHHTTSEE--
T ss_pred CCCCCHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHCCcEEec
Confidence 345777887777633 1478999999999999998754
No 282
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=24.95 E-value=1.7e+02 Score=27.78 Aligned_cols=46 Identities=13% Similarity=0.252 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 299 YKRNIQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 299 ~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
++..|..+-+-...++.++|++.++++ +.-+.+.+..|...|.|..
T Consensus 5 R~~~Il~~l~~~~~~~~~eLa~~l~VS-~~TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 5 RQQAIVDLLLNHTSLTTEALAEQLNVS-KETIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHCcC-HHHHHHHHHHHHHCCCEEE
Confidence 344466666667899999999999998 7889999999999888864
No 283
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=24.52 E-value=3.6e+02 Score=29.30 Aligned_cols=42 Identities=24% Similarity=0.247 Sum_probs=30.5
Q ss_pred hhcHHHHHHHHHHHhcccCccccHHH-HHHHHHHHHHHHHhcCC
Q 014453 190 QKRFRKALELLHNVVTAPMSSINAIA-VEAYKKYILVSLIHHGQ 232 (424)
Q Consensus 190 ~~~y~~A~~~~~~a~~~P~~~~s~i~-~ea~Kk~iLv~LL~~G~ 232 (424)
.-||.+|...++.+.++-+.+-++|. +|-.+|++=|...+ |.
T Consensus 219 d~D~~d~~ksLe~I~~aA~HsNaai~k~E~~~kLlevqe~L-G~ 261 (623)
T KOG4424|consen 219 DPDYKDLKKSLELISTAASHSNAAITKMERLQKLLEVQEQL-GN 261 (623)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CC
Confidence 34899999999999986554434554 68889988766665 44
No 284
>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=24.39 E-value=3e+02 Score=20.34 Aligned_cols=37 Identities=19% Similarity=0.250 Sum_probs=29.9
Q ss_pred hhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEE
Q 014453 308 QTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFA 345 (424)
Q Consensus 308 ~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A 345 (424)
..+.+.++.+|.+..+++ ..++..-+.-||.-|.+..
T Consensus 23 l~~G~ltl~~i~~~t~l~-~~~Vk~~L~~LiQh~~v~y 59 (62)
T PF08221_consen 23 LSRGRLTLREIVRRTGLS-PKQVKKALVVLIQHNLVQY 59 (62)
T ss_dssp HHC-SEEHHHHHHHHT---HHHHHHHHHHHHHTTSEEE
T ss_pred HHcCCcCHHHHHHHhCCC-HHHHHHHHHHHHHcCCeee
Confidence 346799999999999998 8999999999999887754
No 285
>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=23.93 E-value=1.2e+02 Score=21.94 Aligned_cols=26 Identities=12% Similarity=0.323 Sum_probs=19.5
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhH
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMI 338 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI 338 (424)
.+++.+||+.+|++ ..-+...+-+..
T Consensus 23 ~~tl~elA~~lgis-~st~~~~LRrae 48 (53)
T PF04967_consen 23 RITLEELAEELGIS-KSTVSEHLRRAE 48 (53)
T ss_pred cCCHHHHHHHhCCC-HHHHHHHHHHHH
Confidence 79999999999998 555555555443
No 286
>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones [].; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.
Probab=23.89 E-value=1.7e+02 Score=19.22 Aligned_cols=24 Identities=17% Similarity=0.357 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhhhcHHHHHHHHH
Q 014453 178 LYCYYGGMIFIGQKRFRKALELLH 201 (424)
Q Consensus 178 ~Y~YY~G~I~~~~~~y~~A~~~~~ 201 (424)
.|.|--|-.+-..|+|++|.+.|.
T Consensus 2 e~~y~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 2 EYLYGLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred cHHHHHHHHHHHHhhHHHHHHHHH
Confidence 466677888889999999999955
No 287
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.62 E-value=6.4e+02 Score=24.74 Aligned_cols=69 Identities=14% Similarity=0.105 Sum_probs=46.4
Q ss_pred CCcchHHHHHHHHHHHccChHHHHhccccc--cccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCcc
Q 014453 137 EHLTTLHPEFLQLCLLAKCYKAGLSVLEDD--IYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSS 210 (424)
Q Consensus 137 ~~lT~~h~~l~rlcL~~~~y~~Al~il~~~--i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~ 210 (424)
.+-|+.|-.=+-+.-..|.-..|++-|.+- +| +.|. .=..+..-||+..++|.+|..|++.++- .|.+.
T Consensus 117 pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F----~~D~-EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~ 188 (289)
T KOG3060|consen 117 PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF----MNDQ-EAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNP 188 (289)
T ss_pred cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh----cCcH-HHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcH
Confidence 455677775444445555555666666552 33 2222 2334668899999999999999999997 78763
No 288
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=23.59 E-value=2.2e+02 Score=18.68 Aligned_cols=43 Identities=12% Similarity=0.231 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhhh-hcccHHHHHHHhCCCCHHHHHHHHHHh
Q 014453 294 VVSSMYKRNIQRLTQTY-LTLSLQDIANTVQLNSSKEAEMHVLQM 337 (424)
Q Consensus 294 l~~~v~r~~I~~l~~~Y-s~Isl~~Ia~~l~l~~~~eaE~~v~~m 337 (424)
+...+....-..+...| .-.+..+||+.+|++ ...+...+...
T Consensus 7 ~~~~l~~~~~~~~~~~~~~~~~~~~ia~~~~~s-~~~i~~~~~~~ 50 (55)
T cd06171 7 ALDKLPEREREVILLRFGEGLSYEEIAEILGIS-RSTVRQRLHRA 50 (55)
T ss_pred HHHhCCHHHHHHHHHHHhcCCCHHHHHHHHCcC-HHHHHHHHHHH
Confidence 33333333334444555 889999999999997 66666555544
No 289
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=23.58 E-value=2.4e+02 Score=21.22 Aligned_cols=38 Identities=16% Similarity=0.168 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhh-hcccHHHHHHHhCCCCHHHHHHHHHHh
Q 014453 299 YKRNIQRLTQTY-LTLSLQDIANTVQLNSSKEAEMHVLQM 337 (424)
Q Consensus 299 ~r~~I~~l~~~Y-s~Isl~~Ia~~l~l~~~~eaE~~v~~m 337 (424)
+++..+.+.+.+ ..-+..+||+.+|++ .+++..++...
T Consensus 6 i~~a~~~L~~~lgr~Pt~eEiA~~lgis-~~~v~~~l~~~ 44 (78)
T PF04539_consen 6 IERARRELEQELGREPTDEEIAEELGIS-VEEVRELLQAS 44 (78)
T ss_dssp HHHHHHHHHHHHSS--BHHHHHHHHTS--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHccc-HHHHHHHHHhC
Confidence 445556666666 457899999999998 89999877643
No 290
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=23.48 E-value=6.9e+02 Score=24.28 Aligned_cols=114 Identities=13% Similarity=0.073 Sum_probs=69.2
Q ss_pred HHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHH
Q 014453 108 YKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIF 187 (424)
Q Consensus 108 ~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~ 187 (424)
+.......++-..++.+++.|. +++|+.. ..|..+--.|...+..+.|-.-+.+-. ++. ++ .-.+.==.||.+
T Consensus 106 ~gk~~~~~g~~~~A~~~~rkA~-~l~p~d~---~~~~~lgaaldq~Gr~~~Ar~ay~qAl-~L~-~~-~p~~~nNlgms~ 178 (257)
T COG5010 106 QGKNQIRNGNFGEAVSVLRKAA-RLAPTDW---EAWNLLGAALDQLGRFDEARRAYRQAL-ELA-PN-EPSIANNLGMSL 178 (257)
T ss_pred HHHHHHHhcchHHHHHHHHHHh-ccCCCCh---hhhhHHHHHHHHccChhHHHHHHHHHH-Hhc-cC-CchhhhhHHHHH
Confidence 4444445667778899999986 5666542 356677777778888766632222211 111 00 001222358889
Q ss_pred HhhhcHHHHHHHHHHHhcccCccccHHHHHHHHHHHHHHHHhcCCCC
Q 014453 188 IGQKRFRKALELLHNVVTAPMSSINAIAVEAYKKYILVSLIHHGQFS 234 (424)
Q Consensus 188 ~~~~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~iLv~LL~~G~~~ 234 (424)
+..+++++|..++..+...|.... .+. ..+.++.-+ .|.++
T Consensus 179 ~L~gd~~~A~~lll~a~l~~~ad~---~v~--~NLAl~~~~-~g~~~ 219 (257)
T COG5010 179 LLRGDLEDAETLLLPAYLSPAADS---RVR--QNLALVVGL-QGDFR 219 (257)
T ss_pred HHcCCHHHHHHHHHHHHhCCCCch---HHH--HHHHHHHhh-cCChH
Confidence 999999999999999999776421 222 345555444 36665
No 291
>PF14493 HTH_40: Helix-turn-helix domain
Probab=23.45 E-value=1.1e+02 Score=24.27 Aligned_cols=31 Identities=29% Similarity=0.424 Sum_probs=28.5
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCc
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGE 342 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~ 342 (424)
.-.|+++||+.-+|. ..-++.++++++..|.
T Consensus 12 ~G~si~eIA~~R~L~-~sTI~~HL~~~~~~g~ 42 (91)
T PF14493_consen 12 KGLSIEEIAKIRGLK-ESTIYGHLAELIESGE 42 (91)
T ss_pred cCCCHHHHHHHcCCC-HHHHHHHHHHHHHhCC
Confidence 368999999999998 8899999999999997
No 292
>COG5625 Predicted transcription regulator containing HTH domain [Transcription]
Probab=23.38 E-value=1.5e+02 Score=24.63 Aligned_cols=68 Identities=19% Similarity=0.389 Sum_probs=46.4
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCC--CEEEEecCCCccChHHHHHHHHHHHHH-HHHHHHHH
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKD--GMVRFLEDPEQYKTCEMIEHIDSSIQR-IMSLSKKL 386 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~--g~v~F~~~~~~~~~~~~~~~~~~~i~~-~~~L~~~~ 386 (424)
+.+.+|+..++++ .--+...|+.+-..|.+.-.|-+.. |++....+|. ++.+++.+.|.. +-.|...+
T Consensus 37 mri~ei~rEl~is-~rtvr~~v~~l~rrGll~relvqkgWvGYiya~~~P~-----k~leei~~~i~keiEelEk~~ 107 (113)
T COG5625 37 MRIREIQRELGIS-ERTVRAAVAVLLRRGLLARELVQKGWVGYIYATTPPP-----KPLEEIEEEIMKEIEELEKEF 107 (113)
T ss_pred chHHHHHHHHhHH-HHHHHHHHHHHHHhhHHHHHHHhccceeeEecCCCCc-----hHHHHHHHHHHHHHHHHHHHH
Confidence 7789999999987 6777888888888887765555532 5555554443 678888877665 33344433
No 293
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=23.37 E-value=9.3e+02 Score=25.74 Aligned_cols=110 Identities=16% Similarity=0.157 Sum_probs=67.9
Q ss_pred cchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccc--ccccc--------C-----chh-hHHH----
Q 014453 120 RGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDD--IYEIN--------L-----PRD-FFLY---- 179 (424)
Q Consensus 120 ~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~--i~~~~--------~-----~~~-~l~Y---- 179 (424)
.+|...+.|+ +|+|.. ++.|+..=.-.+.-++-..|..--.+. |.+.| + .-. .+.|
T Consensus 348 KAv~YFkRAL-kLNp~~---~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqk 423 (559)
T KOG1155|consen 348 KAVMYFKRAL-KLNPKY---LSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQK 423 (559)
T ss_pred HHHHHHHHHH-hcCcch---hHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHH
Confidence 4577788885 788764 567888888888888766665443332 22211 1 001 1111
Q ss_pred -----------HHHHHHHHHhhhcHHHHHHHHHHHhcccCccc---------------cHHHHHHHHHHHHHHHHhcCCC
Q 014453 180 -----------CYYGGMIFIGQKRFRKALELLHNVVTAPMSSI---------------NAIAVEAYKKYILVSLIHHGQF 233 (424)
Q Consensus 180 -----------~YY~G~I~~~~~~y~~A~~~~~~a~~~P~~~~---------------s~i~~ea~Kk~iLv~LL~~G~~ 233 (424)
.--.|-+|....+-.+|..+|..|+.+-++.. +.-....|.|.|-+..+ .|.+
T Consensus 424 A~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~-eg~~ 502 (559)
T KOG1155|consen 424 ALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSEL-EGEI 502 (559)
T ss_pred HHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh-hccc
Confidence 12357788888889999999999988554311 22234567777777755 4776
Q ss_pred C
Q 014453 234 S 234 (424)
Q Consensus 234 ~ 234 (424)
.
T Consensus 503 ~ 503 (559)
T KOG1155|consen 503 D 503 (559)
T ss_pred c
Confidence 6
No 294
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=23.22 E-value=2.9e+02 Score=29.94 Aligned_cols=80 Identities=14% Similarity=0.211 Sum_probs=50.1
Q ss_pred HHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccC--------------------------------
Q 014453 125 MLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINL-------------------------------- 172 (424)
Q Consensus 125 L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~-------------------------------- 172 (424)
|-.-+-+..|+. -+| +-..-..++.-+.|++|-..++|... +++
T Consensus 300 lsh~LV~~yP~~-a~s--W~aVg~YYl~i~k~seARry~SKat~-lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl 375 (611)
T KOG1173|consen 300 LSHKLVDLYPSK-ALS--WFAVGCYYLMIGKYSEARRYFSKATT-LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL 375 (611)
T ss_pred HHHHHHHhCCCC-Ccc--hhhHHHHHHHhcCcHHHHHHHHHHhh-cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh
Confidence 333333445553 233 33444455566899999999998643 111
Q ss_pred -chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 173 -PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 173 -~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
+...+= +.|.||=|+..++++-|.++|.+|+. +|..
T Consensus 376 ~~G~hlP-~LYlgmey~~t~n~kLAe~Ff~~A~ai~P~D 413 (611)
T KOG1173|consen 376 MPGCHLP-SLYLGMEYMRTNNLKLAEKFFKQALAIAPSD 413 (611)
T ss_pred ccCCcch-HHHHHHHHHHhccHHHHHHHHHHHHhcCCCc
Confidence 111222 35678888888888899999988887 8863
No 295
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=23.17 E-value=1.5e+02 Score=19.47 Aligned_cols=39 Identities=18% Similarity=0.344 Sum_probs=26.8
Q ss_pred ccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEEe
Q 014453 313 LSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRFL 357 (424)
Q Consensus 313 Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F~ 357 (424)
+++.++|+.+|++ .. .|.+++..|.+.+.-. +.|...|.
T Consensus 1 ~s~~e~a~~lgvs-~~----tl~~~~~~g~~~~~~~-~~~~~~~~ 39 (49)
T cd04762 1 LTTKEAAELLGVS-PS----TLRRWVKEGKLKAIRT-PGGHRRFP 39 (49)
T ss_pred CCHHHHHHHHCcC-HH----HHHHHHHcCCCCceeC-CCCceecC
Confidence 3688999999997 33 5667888898876432 34555554
No 296
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=23.16 E-value=86 Score=19.04 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHccChHHHHhcccc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLED 165 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~ 165 (424)
....+++.|.+.++++.|..+++.
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~ 26 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDE 26 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHH
Confidence 356777888888888888776654
No 297
>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=22.78 E-value=2.4e+02 Score=23.89 Aligned_cols=62 Identities=15% Similarity=0.034 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc
Q 014453 141 TLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT 205 (424)
Q Consensus 141 ~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~ 205 (424)
.....++..++..++|+.|+.+..+-+- .++.. =..+...-.++...|++.+|.+.|..+.+
T Consensus 63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~-~dP~~--E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~ 124 (146)
T PF03704_consen 63 DALERLAEALLEAGDYEEALRLLQRALA-LDPYD--EEAYRLLMRALAAQGRRAEALRVYERYRR 124 (146)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHH-HSTT---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHh-cCCCC--HHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 3456677788889999999888887543 22211 11223344566677777777777776655
No 298
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=22.75 E-value=4.3e+02 Score=25.53 Aligned_cols=69 Identities=17% Similarity=0.261 Sum_probs=33.3
Q ss_pred ccChHHHHhccccccccccC-chhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc-ccCccccHHHHHHHHHHHHHHHH
Q 014453 153 AKCYKAGLSVLEDDIYEINL-PRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT-APMSSINAIAVEAYKKYILVSLI 228 (424)
Q Consensus 153 ~~~y~~Al~il~~~i~~~~~-~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~-~P~~~~s~i~~ea~Kk~iLv~LL 228 (424)
.++...|.+|.++-+-.++. +.-++.|.-| .+..++...|...|+.+++ .|.... +...|++|+=..--
T Consensus 49 ~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~----l~~~~d~~~aR~lfer~i~~l~~~~~---~~~iw~~~i~fE~~ 119 (280)
T PF05843_consen 49 NKDPKRARKIFERGLKKFPSDPDFWLEYLDF----LIKLNDINNARALFERAISSLPKEKQ---SKKIWKKFIEFESK 119 (280)
T ss_dssp CS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH----HHHTT-HHHHHHHHHHHCCTSSCHHH---CHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH----HHHhCcHHHHHHHHHHHHHhcCchhH---HHHHHHHHHHHHHH
Confidence 45556666666664433322 2233333322 2344566777777777776 333221 22456666655544
No 299
>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=22.67 E-value=3.3e+02 Score=21.09 Aligned_cols=41 Identities=10% Similarity=0.195 Sum_probs=33.9
Q ss_pred HHHHHhhhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEE
Q 014453 303 IQRLTQTYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFAT 346 (424)
Q Consensus 303 I~~l~~~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~ 346 (424)
+..+++- .++++++-+..|++ ..++--.+.+|-..|.|.=.
T Consensus 11 L~~ls~~--c~TLeeL~ekTgi~-k~~LlV~LsrL~k~GiI~Rk 51 (72)
T PF05584_consen 11 LIILSKR--CCTLEELEEKTGIS-KNTLLVYLSRLAKRGIIERK 51 (72)
T ss_pred HHHHHhc--cCCHHHHHHHHCCC-HHHHHHHHHHHHHCCCeeee
Confidence 3344444 99999999999998 78999999999999998543
No 300
>PF10884 DUF2683: Protein of unknown function (DUF2683); InterPro: IPR020271 This entry contains proteins with no known function.
Probab=22.45 E-value=65 Score=25.39 Aligned_cols=25 Identities=20% Similarity=0.223 Sum_probs=20.0
Q ss_pred hcCHHHHHHhhhhhccCCCCCCCCC
Q 014453 394 SCDPLYLGKAGRERQRFDFDDFDSV 418 (424)
Q Consensus 394 ~~~~~yi~~~~~~~~~~~~~~~~~~ 418 (424)
.++||||+++.+--++..+-+|.+|
T Consensus 47 ElkPEfVeki~~i~k~~~~i~i~sv 71 (80)
T PF10884_consen 47 ELKPEFVEKIKKIMKGKKFIPIGSV 71 (80)
T ss_pred ccCHHHHHHHHHHHhcccCcCcCcH
Confidence 7899999999887777777666654
No 301
>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=22.44 E-value=2.5e+02 Score=19.41 Aligned_cols=45 Identities=11% Similarity=0.193 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHh-hhhcccHHHHHHHhCCCCHHHHHHHHHHhH
Q 014453 293 QVVSSMYKRNIQRLTQ-TYLTLSLQDIANTVQLNSSKEAEMHVLQMI 338 (424)
Q Consensus 293 ~l~~~v~r~~I~~l~~-~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI 338 (424)
++...+....=..+.. .+.-.|..+||+.+|++ +..+...+.+..
T Consensus 6 ~~l~~L~~~~r~i~~l~~~~g~s~~eIa~~l~~s-~~~v~~~l~ra~ 51 (54)
T PF08281_consen 6 QALAQLPERQREIFLLRYFQGMSYAEIAEILGIS-ESTVKRRLRRAR 51 (54)
T ss_dssp HHHHCS-HHHHHHHHHHHTS---HHHHHHHCTS--HHHHHHHHHHHH
T ss_pred HHHHCCCHHHHHHHHHHHHHCcCHHHHHHHHCcC-HHHHHHHHHHHH
Confidence 3333343333333333 45789999999999998 788887776654
No 302
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=22.42 E-value=2.5e+02 Score=30.83 Aligned_cols=56 Identities=13% Similarity=0.046 Sum_probs=46.4
Q ss_pred HHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhc--ccC
Q 014453 150 CLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVT--APM 208 (424)
Q Consensus 150 cL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~--~P~ 208 (424)
....++|+.|+..|+..|-+-| ...+.|.--|+|+-+.|++.+|..++..|-. .|.
T Consensus 381 ~D~~g~~~~A~~yId~AIdHTP---TliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aD 438 (700)
T KOG1156|consen 381 YDKLGDYEVALEYIDLAIDHTP---TLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTAD 438 (700)
T ss_pred HHHcccHHHHHHHHHHHhccCc---hHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchh
Confidence 3445788999999999876533 3788888899999999999999999999987 454
No 303
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=22.34 E-value=89 Score=22.83 Aligned_cols=26 Identities=27% Similarity=0.542 Sum_probs=22.6
Q ss_pred HHHHHhhhcHHHHHHHHHHHhc-ccCc
Q 014453 184 GMIFIGQKRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 184 G~I~~~~~~y~~A~~~~~~a~~-~P~~ 209 (424)
..+++..++|.+|..+++.++. .|..
T Consensus 2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~ 28 (73)
T PF13371_consen 2 KQIYLQQEDYEEALEVLERALELDPDD 28 (73)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHhCccc
Confidence 3578899999999999999999 6764
No 304
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.22 E-value=7.3e+02 Score=24.13 Aligned_cols=160 Identities=16% Similarity=0.150 Sum_probs=80.7
Q ss_pred HHHHHccChHHHHhcccccccccc-C--chhhHHHHHHHHHHHHhh-hcHHHHHHHHHHHhcccCccccHHHHHHHHHHH
Q 014453 148 QLCLLAKCYKAGLSVLEDDIYEIN-L--PRDFFLYCYYGGMIFIGQ-KRFRKALELLHNVVTAPMSSINAIAVEAYKKYI 223 (424)
Q Consensus 148 rlcL~~~~y~~Al~il~~~i~~~~-~--~~~~l~Y~YY~G~I~~~~-~~y~~A~~~~~~a~~~P~~~~s~i~~ea~Kk~i 223 (424)
-.|.+..+...|...|.+.|--+. . -+.-.+|+.--|-||=.. .+++.|..+|++|-.......+. -.|.|.++
T Consensus 81 ~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~--ssANKC~l 158 (288)
T KOG1586|consen 81 ANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESV--SSANKCLL 158 (288)
T ss_pred HHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhh--hhHHHHHH
Confidence 356677777777777777542111 1 123455666666666655 68888888888887744321100 01222222
Q ss_pred HHHHHh--cCCCCCCCCcc----cCHHHhhhhhhccHHHHHHHHHH--hcCCHHHHHHHHHHcccc---cccccchhHHH
Q 014453 224 LVSLIH--HGQFSSTLPKY----TSSAAQRNLKNFSQPYMELVNTY--NTGKIVELETYVQTNREK---FESDNNLGLVK 292 (424)
Q Consensus 224 Lv~LL~--~G~~~~p~p~~----~s~~~~~~~k~~~~~Y~~L~~a~--~~gdl~~~~~~l~~~~~~---f~~Dgn~~Lv~ 292 (424)
=|.-+. .|+....+..| ++.+-++.+|-..+.|.-=+-.+ -++|...-...++++++. |.......+++
T Consensus 159 KvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~dsREckflk 238 (288)
T KOG1586|consen 159 KVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDSRECKFLK 238 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccccHHHHHHH
Confidence 111110 01111000000 11222233333444554222222 345666777777777654 44455566788
Q ss_pred HHHHHHHHHHHHHHHhh
Q 014453 293 QVVSSMYKRNIQRLTQT 309 (424)
Q Consensus 293 ~l~~~v~r~~I~~l~~~ 309 (424)
.|..++-+..+-+.+..
T Consensus 239 ~L~~aieE~d~e~fte~ 255 (288)
T KOG1586|consen 239 DLLDAIEEQDIEKFTEV 255 (288)
T ss_pred HHHHHHhhhhHHHHHHH
Confidence 88888888877766543
No 305
>PLN02789 farnesyltranstransferase
Probab=21.55 E-value=8.1e+02 Score=24.38 Aligned_cols=87 Identities=17% Similarity=0.163 Sum_probs=41.7
Q ss_pred hhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHc--cChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhc
Q 014453 115 LEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLA--KCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKR 192 (424)
Q Consensus 115 ~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~--~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~ 192 (424)
.+...+++.....+| .++|. .-|.-|.. +.++.. +.+..|+.++++-+-.-+ + ...-.++.|.+....++
T Consensus 50 ~e~serAL~lt~~aI-~lnP~--~ytaW~~R--~~iL~~L~~~l~eeL~~~~~~i~~np--k-nyqaW~~R~~~l~~l~~ 121 (320)
T PLN02789 50 DERSPRALDLTADVI-RLNPG--NYTVWHFR--RLCLEALDADLEEELDFAEDVAEDNP--K-NYQIWHHRRWLAEKLGP 121 (320)
T ss_pred CCCCHHHHHHHHHHH-HHCch--hHHHHHHH--HHHHHHcchhHHHHHHHHHHHHHHCC--c-chHHhHHHHHHHHHcCc
Confidence 444556666666665 34443 33433322 222222 246777777766443211 1 11123444544444443
Q ss_pred --HHHHHHHHHHHhc-ccCc
Q 014453 193 --FRKALELLHNVVT-APMS 209 (424)
Q Consensus 193 --y~~A~~~~~~a~~-~P~~ 209 (424)
+.++..++..++. -|.+
T Consensus 122 ~~~~~el~~~~kal~~dpkN 141 (320)
T PLN02789 122 DAANKELEFTRKILSLDAKN 141 (320)
T ss_pred hhhHHHHHHHHHHHHhCccc
Confidence 3566666666666 4443
No 306
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.52 E-value=2.9e+02 Score=30.16 Aligned_cols=63 Identities=19% Similarity=0.286 Sum_probs=47.1
Q ss_pred HHHHHHHHHHccChHHHHhcccccc----ccccC------------------------chhhHHHHHHHHHHHHhhhcHH
Q 014453 143 HPEFLQLCLLAKCYKAGLSVLEDDI----YEINL------------------------PRDFFLYCYYGGMIFIGQKRFR 194 (424)
Q Consensus 143 h~~l~rlcL~~~~y~~Al~il~~~i----~~~~~------------------------~~~~l~Y~YY~G~I~~~~~~y~ 194 (424)
--.-.+.|++.+.|+.|+.+-..-+ -+.+. +.+...-+|-.+++++..++|.
T Consensus 113 l~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~ 192 (652)
T KOG2376|consen 113 LELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYN 192 (652)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHH
Confidence 3455788999999999988754421 11110 3445667889999999999999
Q ss_pred HHHHHHHHHhc
Q 014453 195 KALELLHNVVT 205 (424)
Q Consensus 195 ~A~~~~~~a~~ 205 (424)
+|.+.++.|.+
T Consensus 193 qA~elL~kA~~ 203 (652)
T KOG2376|consen 193 QAIELLEKALR 203 (652)
T ss_pred HHHHHHHHHHH
Confidence 99999999955
No 307
>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=21.52 E-value=7.4e+02 Score=23.93 Aligned_cols=103 Identities=8% Similarity=-0.028 Sum_probs=63.9
Q ss_pred HHHHHHHHhhccccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccc-ccc--------------
Q 014453 107 RYKDQVLLLEAPIRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIY-EIN-------------- 171 (424)
Q Consensus 107 ~~~~~~~~~~~~~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~-~~~-------------- 171 (424)
.+...+...+..-.+...|..+..-..+.......+..+.+++....+.-..|+..|..-+- ...
T Consensus 151 ~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~~~~~~~ 230 (352)
T PF02259_consen 151 KFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISNAELKSG 230 (352)
T ss_pred HHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccHHHHhhc
Confidence 45555555555555555555553221122222556777888899999888888877654333 000
Q ss_pred ----------------CchhhHHHHHHHHHHHHhh------hcHHHHHHHHHHHhc-ccCc
Q 014453 172 ----------------LPRDFFLYCYYGGMIFIGQ------KRFRKALELLHNVVT-APMS 209 (424)
Q Consensus 172 ----------------~~~~~l~Y~YY~G~I~~~~------~~y~~A~~~~~~a~~-~P~~ 209 (424)
......+.++..|...... .++.++...|..|+. +|..
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~ 291 (352)
T PF02259_consen 231 LLESLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSW 291 (352)
T ss_pred cccccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhH
Confidence 0234556667777776666 788888899999988 6654
No 308
>PRK00215 LexA repressor; Validated
Probab=21.44 E-value=2.5e+02 Score=25.69 Aligned_cols=37 Identities=22% Similarity=0.234 Sum_probs=31.2
Q ss_pred cccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEe
Q 014453 312 TLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATIN 348 (424)
Q Consensus 312 ~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id 348 (424)
.+++++||+.+|+.+..-+-.++..|...|.|.-.-+
T Consensus 23 ~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~~ 59 (205)
T PRK00215 23 PPSRREIADALGLRSPSAVHEHLKALERKGFIRRDPG 59 (205)
T ss_pred CCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCCC
Confidence 4799999999999337889999999999999965443
No 309
>PF15015 NYD-SP12_N: Spermatogenesis-associated, N-terminal
Probab=21.34 E-value=9.8e+02 Score=25.28 Aligned_cols=63 Identities=11% Similarity=0.036 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHHHHHHHhccc
Q 014453 142 LHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALELLHNVVTAP 207 (424)
Q Consensus 142 ~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~~~~~a~~~P 207 (424)
+-..++-++|..+..+.|+.-.-+.|.--+. ..+=+...+.++=.+.+|.+|.+.+..|.-..
T Consensus 230 Ietklv~CYL~~rkpdlALnh~hrsI~lnP~---~frnHLrqAavfR~LeRy~eAarSamia~ymy 292 (569)
T PF15015_consen 230 IETKLVTCYLRMRKPDLALNHSHRSINLNPS---YFRNHLRQAAVFRRLERYSEAARSAMIADYMY 292 (569)
T ss_pred HHHHHHHhhhhcCCCchHHHHHhhhhhcCcc---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888889999998877777653221 23334455666777778888877777666543
No 310
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=21.17 E-value=4.4e+02 Score=21.16 Aligned_cols=40 Identities=8% Similarity=0.045 Sum_probs=35.1
Q ss_pred hhhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEec
Q 014453 309 TYLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQ 349 (424)
Q Consensus 309 ~Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~ 349 (424)
.|.-|+.+-|++++++. ..-|...+..+-..|.|.-..-|
T Consensus 38 ~~K~ITps~lserlkI~-~SlAr~~Lr~L~~kG~Ik~V~~~ 77 (86)
T PRK09334 38 KEKIVTPYTLASKYGIK-ISVAKKVLRELEKRGVLVLYSKN 77 (86)
T ss_pred cCcEEcHHHHHHHhcch-HHHHHHHHHHHHHCCCEEEEecC
Confidence 38899999999999998 78899999999999999866444
No 311
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=21.04 E-value=1.8e+02 Score=27.03 Aligned_cols=41 Identities=20% Similarity=0.355 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhhh--------cccHHHHHHHhCCCCHHHHHHHHHHhH
Q 014453 297 SMYKRNIQRLTQTYL--------TLSLQDIANTVQLNSSKEAEMHVLQMI 338 (424)
Q Consensus 297 ~v~r~~I~~l~~~Ys--------~Isl~~Ia~~l~l~~~~eaE~~v~~mI 338 (424)
.+..++.+.|...|. ++++.+||+.+|++ ..-+..+|.++.
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGIS-kst~~ehLRrAe 203 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGIS-KSTLSEHLRRAE 203 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCC-HHHHHHHHHHHH
Confidence 456667777777764 89999999999998 566666665543
No 312
>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=21.01 E-value=2.3e+02 Score=21.43 Aligned_cols=44 Identities=16% Similarity=0.222 Sum_probs=33.6
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEEecCCCEEEE
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATINQKDGMVRF 356 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~Id~~~g~v~F 356 (424)
-..+|+++|++..+++ ++++-.-+.=+.++|.|.. ++.++.+.+
T Consensus 20 ~~~~s~~el~k~~~l~-~~~~~~AiGWLarE~KI~~--~~~~~~~~v 63 (65)
T PF10771_consen 20 NGEWSVSELKKATGLS-DKEVYLAIGWLARENKIEF--EEKNGELYV 63 (65)
T ss_dssp SSSEEHHHHHHHCT-S-CHHHHHHHHHHHCTTSEEE--EEETTEEEE
T ss_pred CCCcCHHHHHHHhCcC-HHHHHHHHHHHhccCceeE--EeeCCEEEE
Confidence 4579999999999997 6888888888999999964 444555554
No 313
>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=21.00 E-value=3.7e+02 Score=29.27 Aligned_cols=48 Identities=10% Similarity=0.156 Sum_probs=35.6
Q ss_pred chHHHHHHHHhhCCCCCCcchHHHHHHHHHH-HccChHHHHhccccccc
Q 014453 121 GVGPMLTAIRKIQSSTEHLTTLHPEFLQLCL-LAKCYKAGLSVLEDDIY 168 (424)
Q Consensus 121 ~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL-~~~~y~~Al~il~~~i~ 168 (424)
||..|+.++....+++..=..+|..+.++.+ .+.+++.|...|+|.+.
T Consensus 40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~ 88 (608)
T PF10345_consen 40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAIL 88 (608)
T ss_pred HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 6777777776666666555667888888877 78888888888887654
No 314
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=20.73 E-value=2.6e+02 Score=24.68 Aligned_cols=65 Identities=11% Similarity=0.209 Sum_probs=42.3
Q ss_pred ccHHHHHHHHHHhcCCHHHHHHHHHHcccccccccc-hhHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHhCCCCHHHH
Q 014453 252 FSQPYMELVNTYNTGKIVELETYVQTNREKFESDNN-LGLVKQVVSSMYKRNIQRLTQTYLTLSLQDIANTVQLNSSKEA 330 (424)
Q Consensus 252 ~~~~Y~~L~~a~~~gdl~~~~~~l~~~~~~f~~Dgn-~~Lv~~l~~~v~r~~I~~l~~~Ys~Isl~~Ia~~l~l~~~~ea 330 (424)
-++-|..+++.=..|..+.|-+.+. +|-++|| +-...++|+.+ ..+.+++ + ++|+
T Consensus 71 fLpm~q~vaknk~q~t~edfvegLr----vFDkeg~G~i~~aeLRhvL-----------------ttlGekl--~-eeEV 126 (152)
T KOG0030|consen 71 FLPMYQQVAKNKDQGTYEDFVEGLR----VFDKEGNGTIMGAELRHVL-----------------TTLGEKL--T-EEEV 126 (152)
T ss_pred HHHHHHHHHhccccCcHHHHHHHHH----hhcccCCcceeHHHHHHHH-----------------HHHHhhc--c-HHHH
Confidence 3566778887766677777777664 7888887 33444555433 2334444 3 7999
Q ss_pred HHHHHHhHHc
Q 014453 331 EMHVLQMIQD 340 (424)
Q Consensus 331 E~~v~~mI~~ 340 (424)
+.+++....+
T Consensus 127 e~Llag~eD~ 136 (152)
T KOG0030|consen 127 EELLAGQEDS 136 (152)
T ss_pred HHHHcccccc
Confidence 9999887654
No 315
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=20.40 E-value=2.2e+02 Score=23.15 Aligned_cols=36 Identities=22% Similarity=0.282 Sum_probs=27.4
Q ss_pred hcccHHHHHHHhCCCCHHHHHHHHHHhHHcCceEEEE
Q 014453 311 LTLSLQDIANTVQLNSSKEAEMHVLQMIQDGEIFATI 347 (424)
Q Consensus 311 s~Isl~~Ia~~l~l~~~~eaE~~v~~mI~~G~I~A~I 347 (424)
..++=++||+.++++ ..++..++..+-.+|.|...-
T Consensus 26 ~~l~de~la~~~~l~-~~~vRkiL~~L~~~~lv~~~~ 61 (105)
T PF02002_consen 26 GELTDEDLAKKLGLK-PKEVRKILYKLYEDGLVSYRR 61 (105)
T ss_dssp --B-HHHHHHTT-S--HHHHHHHHHHHHHHSS-EEEE
T ss_pred CCcCHHHHHHHhCCC-HHHHHHHHHHHHHCCCeEEEE
Confidence 457889999999998 899999999999999996653
No 316
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=20.31 E-value=2.5e+02 Score=32.67 Aligned_cols=81 Identities=12% Similarity=0.153 Sum_probs=60.8
Q ss_pred ccchHHHHHHHHhhCCCCCCcchHHHHHHHHHHHccChHHHHhccccccccccCchhhHHHHHHHHHHHHhhhcHHHHHH
Q 014453 119 IRGVGPMLTAIRKIQSSTEHLTTLHPEFLQLCLLAKCYKAGLSVLEDDIYEINLPRDFFLYCYYGGMIFIGQKRFRKALE 198 (424)
Q Consensus 119 ~~~i~~L~~A~~rl~~~~~~lT~~h~~l~rlcL~~~~y~~Al~il~~~i~~~~~~~~~l~Y~YY~G~I~~~~~~y~~A~~ 198 (424)
..+|.-+++|+ |.+|.. +-.+.-+...+..+|-|..|+++.+|.+. +++.....+| ..+.+....|+|.+|..
T Consensus 579 h~aV~~fQsAL-R~dPkD---~n~W~gLGeAY~~sGry~~AlKvF~kAs~-LrP~s~y~~f--k~A~~ecd~GkYkeald 651 (1238)
T KOG1127|consen 579 HGAVCEFQSAL-RTDPKD---YNLWLGLGEAYPESGRYSHALKVFTKASL-LRPLSKYGRF--KEAVMECDNGKYKEALD 651 (1238)
T ss_pred hhHHHHHHHHh-cCCchh---HHHHHHHHHHHHhcCceehHHHhhhhhHh-cCcHhHHHHH--HHHHHHHHhhhHHHHHH
Confidence 34456677775 556654 45688899999999999999999988543 2222234454 67889999999999999
Q ss_pred HHHHHhcc
Q 014453 199 LLHNVVTA 206 (424)
Q Consensus 199 ~~~~a~~~ 206 (424)
.+..++..
T Consensus 652 ~l~~ii~~ 659 (1238)
T KOG1127|consen 652 ALGLIIYA 659 (1238)
T ss_pred HHHHHHHH
Confidence 99998864
No 317
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.18 E-value=1.2e+02 Score=24.45 Aligned_cols=25 Identities=20% Similarity=0.185 Sum_probs=21.3
Q ss_pred hhcccHHHHHHHhCCCCHHHHHHHHH
Q 014453 310 YLTLSLQDIANTVQLNSSKEAEMHVL 335 (424)
Q Consensus 310 Ys~Isl~~Ia~~l~l~~~~eaE~~v~ 335 (424)
-+++|.+.||..|+.+ +..+|++++
T Consensus 21 l~~LS~~~iA~~Ln~t-~~~lekil~ 45 (97)
T COG4367 21 LCPLSDEEIATALNWT-EVKLEKILQ 45 (97)
T ss_pred hccccHHHHHHHhCCC-HHHHHHHHH
Confidence 4789999999999998 788888663
Done!