Query 013999
Match_columns 432
No_of_seqs 210 out of 727
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 00:51:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013999.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013999hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2911 Uncharacterized conser 100.0 7.2E-68 1.6E-72 523.2 32.2 402 1-407 1-426 (439)
2 KOG2910 Uncharacterized conser 100.0 1E-31 2.2E-36 238.8 23.9 169 212-380 8-178 (209)
3 PTZ00446 vacuolar sorting prot 100.0 9E-31 2E-35 239.4 23.0 156 214-369 21-179 (191)
4 KOG1656 Protein involved in gl 100.0 1.9E-28 4E-33 220.3 21.5 156 214-371 16-177 (221)
5 PTZ00464 SNF-7-like protein; P 100.0 1.5E-26 3.3E-31 216.1 24.6 158 212-370 11-176 (211)
6 PF03357 Snf7: Snf7; InterPro 99.9 1.4E-24 3.1E-29 197.4 9.4 151 221-371 2-157 (171)
7 KOG1655 Protein involved in va 99.8 8.5E-18 1.8E-22 150.7 20.5 150 218-368 17-175 (218)
8 KOG4068 Uncharacterized conser 98.6 1.8E-07 3.9E-12 82.0 9.3 142 32-205 16-173 (174)
9 KOG3230 Vacuolar assembly/sort 98.3 0.00012 2.5E-09 66.7 19.9 143 228-370 24-169 (224)
10 KOG3232 Vacuolar assembly/sort 98.3 0.00056 1.2E-08 61.2 23.1 176 218-401 7-201 (203)
11 KOG3229 Vacuolar sorting prote 98.3 0.00017 3.6E-09 66.3 19.7 150 222-371 20-176 (227)
12 PF05871 ESCRT-II: ESCRT-II co 98.0 7.8E-06 1.7E-10 71.9 4.9 107 33-169 14-125 (139)
13 PF04012 PspA_IM30: PspA/IM30 98.0 0.00061 1.3E-08 64.7 18.1 150 214-365 38-203 (221)
14 PRK10698 phage shock protein P 97.9 0.0035 7.5E-08 59.8 20.9 129 216-344 41-185 (222)
15 TIGR02977 phageshock_pspA phag 97.7 0.01 2.3E-07 56.3 20.8 146 215-364 40-201 (219)
16 COG1842 PspA Phage shock prote 97.5 0.015 3.3E-07 55.4 19.5 148 217-365 42-205 (225)
17 KOG3231 Predicted assembly/vac 97.5 0.024 5.3E-07 50.5 18.9 177 225-401 20-207 (208)
18 PTZ00464 SNF-7-like protein; P 97.1 0.036 7.8E-07 52.3 16.2 92 223-315 14-109 (211)
19 KOG1655 Protein involved in va 96.0 0.26 5.6E-06 45.4 13.6 93 223-315 15-111 (218)
20 PTZ00446 vacuolar sorting prot 94.6 1.6 3.4E-05 40.6 14.5 76 224-304 24-104 (191)
21 PF03357 Snf7: Snf7; InterPro 91.6 0.63 1.4E-05 41.8 7.0 82 228-314 2-88 (171)
22 KOG3230 Vacuolar assembly/sort 91.1 13 0.00028 34.6 15.6 143 217-367 20-170 (224)
23 COG5491 VPS24 Conserved protei 90.8 15 0.00031 34.6 15.6 94 274-368 49-149 (204)
24 smart00685 DM14 Repeats in fly 88.2 2.2 4.7E-05 32.0 6.3 44 237-280 2-45 (59)
25 KOG2911 Uncharacterized conser 86.9 20 0.00044 37.2 14.4 84 214-302 219-308 (439)
26 PF04065 Not3: Not1 N-terminal 78.9 13 0.00029 35.7 8.9 94 217-336 119-212 (233)
27 COG5185 HEC1 Protein involved 78.4 79 0.0017 33.4 14.7 102 221-331 272-378 (622)
28 PRK11637 AmiB activator; Provi 77.2 83 0.0018 32.8 15.2 13 352-364 241-253 (428)
29 KOG0994 Extracellular matrix g 75.6 76 0.0017 37.2 14.7 134 214-351 1406-1541(1758)
30 PF10506 MCC-bdg_PDZ: PDZ doma 75.3 26 0.00056 27.0 7.9 64 224-287 2-66 (67)
31 PF03962 Mnd1: Mnd1 family; I 74.3 65 0.0014 29.8 12.0 81 159-253 10-95 (188)
32 PRK14127 cell division protein 70.4 20 0.00044 30.2 7.0 77 317-401 22-98 (109)
33 KOG3229 Vacuolar sorting prote 69.7 1E+02 0.0022 29.1 16.2 28 217-244 29-56 (227)
34 PF06160 EzrA: Septation ring 66.3 2E+02 0.0044 31.3 16.5 52 254-305 141-192 (560)
35 PRK04778 septation ring format 65.4 1E+02 0.0023 33.5 13.1 55 254-308 145-199 (569)
36 PRK04863 mukB cell division pr 65.3 3.3E+02 0.0072 33.4 18.6 31 216-246 303-333 (1486)
37 PF11068 YlqD: YlqD protein; 63.5 42 0.00091 29.3 7.8 65 230-294 23-87 (131)
38 COG3883 Uncharacterized protei 61.4 1.7E+02 0.0037 28.7 17.0 63 298-365 145-218 (265)
39 PF07743 HSCB_C: HSCB C-termin 61.2 70 0.0015 24.7 8.1 47 233-279 30-76 (78)
40 PRK11637 AmiB activator; Provi 58.9 2.3E+02 0.005 29.5 16.9 32 216-247 92-123 (428)
41 PRK11020 hypothetical protein; 58.4 84 0.0018 26.7 8.3 85 231-315 2-87 (118)
42 PRK10869 recombination and rep 57.6 2.4E+02 0.0052 30.7 14.1 25 127-151 105-129 (553)
43 TIGR00634 recN DNA repair prot 56.7 1.9E+02 0.0041 31.4 13.2 17 391-407 382-398 (563)
44 KOG0804 Cytoplasmic Zn-finger 55.5 2.8E+02 0.006 29.3 14.2 89 223-313 328-419 (493)
45 PF10158 LOH1CR12: Tumour supp 53.2 1.6E+02 0.0034 25.8 10.0 64 230-295 52-115 (131)
46 PF07106 TBPIP: Tat binding pr 53.2 1.7E+02 0.0037 26.2 12.4 96 143-251 3-103 (169)
47 COG5491 VPS24 Conserved protei 52.2 2.1E+02 0.0045 27.0 13.9 111 218-344 40-152 (204)
48 KOG2910 Uncharacterized conser 51.2 2.1E+02 0.0046 26.7 17.8 59 257-315 41-104 (209)
49 TIGR03687 pupylate_cterm ubiqu 49.9 22 0.00047 23.2 2.7 19 321-339 3-21 (33)
50 KOG3584 cAMP response element 49.8 45 0.00097 32.9 6.2 33 255-287 296-328 (348)
51 PF11285 DUF3086: Protein of u 49.6 1.2E+02 0.0026 29.5 8.9 70 219-288 3-72 (283)
52 PHA02562 46 endonuclease subun 49.5 3.6E+02 0.0077 28.9 14.8 26 320-345 298-323 (562)
53 PF02403 Seryl_tRNA_N: Seryl-t 48.4 1.5E+02 0.0033 24.3 9.1 37 221-257 30-66 (108)
54 PRK14143 heat shock protein Gr 48.4 1.9E+02 0.0041 27.9 10.3 73 218-293 65-137 (238)
55 COG5570 Uncharacterized small 48.0 63 0.0014 23.5 5.1 44 225-274 3-46 (57)
56 PRK03947 prefoldin subunit alp 47.8 1.9E+02 0.004 25.1 11.3 38 258-295 91-129 (140)
57 KOG1656 Protein involved in gl 47.6 2.5E+02 0.0054 26.5 14.3 45 271-315 79-123 (221)
58 PRK14162 heat shock protein Gr 46.6 2.5E+02 0.0054 26.2 11.7 72 217-292 36-108 (194)
59 smart00502 BBC B-Box C-termina 46.3 1.6E+02 0.0036 24.1 11.5 82 216-297 17-102 (127)
60 PF06148 COG2: COG (conserved 44.8 14 0.00029 32.1 1.7 46 201-252 56-101 (133)
61 KOG0994 Extracellular matrix g 44.5 4.5E+02 0.0096 31.4 13.5 79 255-342 1537-1615(1758)
62 PF05377 FlaC_arch: Flagella a 44.3 85 0.0019 23.2 5.5 40 215-254 2-41 (55)
63 PRK14159 heat shock protein Gr 44.3 1.5E+02 0.0033 27.2 8.6 66 219-294 29-94 (176)
64 PF03961 DUF342: Protein of un 43.5 98 0.0021 32.6 8.3 71 223-293 330-408 (451)
65 TIGR00606 rad50 rad50. This fa 42.8 6.9E+02 0.015 30.3 17.1 40 257-296 871-910 (1311)
66 PF12128 DUF3584: Protein of u 42.7 6.7E+02 0.015 30.1 17.6 30 313-342 763-792 (1201)
67 PLN02678 seryl-tRNA synthetase 42.4 3.8E+02 0.0082 28.4 12.3 43 258-300 14-56 (448)
68 PRK02224 chromosome segregatio 42.3 5.7E+02 0.012 29.2 17.2 13 222-234 484-496 (880)
69 PF04012 PspA_IM30: PspA/IM30 42.3 2.9E+02 0.0063 25.8 11.3 75 217-296 34-110 (221)
70 COG1196 Smc Chromosome segrega 41.7 6.8E+02 0.015 29.9 15.8 29 217-245 741-769 (1163)
71 KOG3231 Predicted assembly/vac 41.5 2.8E+02 0.006 25.3 11.3 25 222-246 24-48 (208)
72 PF06717 DUF1202: Protein of u 40.6 52 0.0011 32.4 5.1 45 213-257 138-182 (308)
73 PRK05560 DNA gyrase subunit A; 40.5 2.7E+02 0.0058 31.9 11.5 85 283-369 382-476 (805)
74 KOG1937 Uncharacterized conser 40.4 4.7E+02 0.01 27.7 12.9 130 219-350 292-432 (521)
75 PF10458 Val_tRNA-synt_C: Valy 39.8 1.5E+02 0.0032 22.4 6.6 23 227-249 4-26 (66)
76 PRK14146 heat shock protein Gr 39.8 2.2E+02 0.0047 27.1 9.1 22 271-292 102-123 (215)
77 PF12718 Tropomyosin_1: Tropom 39.7 2.7E+02 0.0058 24.6 10.9 32 262-293 75-106 (143)
78 PF05816 TelA: Toxic anion res 38.6 4.3E+02 0.0093 26.6 20.3 144 220-368 169-326 (333)
79 PRK14155 heat shock protein Gr 38.5 3.1E+02 0.0068 25.9 9.9 26 269-294 59-84 (208)
80 PF04100 Vps53_N: Vps53-like, 37.5 4.8E+02 0.01 26.9 15.6 111 214-335 58-171 (383)
81 TIGR00714 hscB Fe-S protein as 37.4 2.4E+02 0.0053 25.2 8.7 49 236-284 106-154 (157)
82 PRK14160 heat shock protein Gr 37.4 3.7E+02 0.0079 25.5 12.3 33 219-251 53-85 (211)
83 PF05667 DUF812: Protein of un 37.1 4.9E+02 0.011 28.7 12.4 33 217-249 391-423 (594)
84 COG1579 Zn-ribbon protein, pos 36.8 4E+02 0.0087 25.8 13.7 19 297-315 85-103 (239)
85 TIGR03185 DNA_S_dndD DNA sulfu 36.7 6.2E+02 0.013 28.0 17.5 26 321-346 391-416 (650)
86 TIGR01843 type_I_hlyD type I s 36.3 4.7E+02 0.01 26.5 16.9 21 221-241 82-102 (423)
87 TIGR02680 conserved hypothetic 35.8 8.4E+02 0.018 29.7 15.3 50 213-262 742-791 (1353)
88 cd04779 HTH_MerR-like_sg4 Heli 35.4 3E+02 0.0065 23.9 8.9 52 264-315 78-129 (134)
89 PRK05431 seryl-tRNA synthetase 35.2 3.2E+02 0.0069 28.6 10.4 36 221-256 29-64 (425)
90 TIGR01063 gyrA DNA gyrase, A s 35.1 3.4E+02 0.0075 31.0 11.3 85 282-368 378-472 (800)
91 TIGR01061 parC_Gpos DNA topois 34.8 3.7E+02 0.0081 30.4 11.4 88 280-369 376-473 (738)
92 PLN02943 aminoacyl-tRNA ligase 34.7 1.3E+02 0.0028 35.0 8.1 65 222-286 884-950 (958)
93 PRK01773 hscB co-chaperone Hsc 34.5 3.3E+02 0.0072 24.8 9.2 50 238-287 122-171 (173)
94 COG5124 Protein predicted to b 34.4 2.5E+02 0.0055 25.9 8.1 111 224-346 86-199 (209)
95 PRK03578 hscB co-chaperone Hsc 34.3 3.1E+02 0.0068 25.0 9.0 50 237-286 124-174 (176)
96 PF14712 Snapin_Pallidin: Snap 34.3 2.4E+02 0.0051 22.4 8.8 74 212-290 13-87 (92)
97 TIGR02302 aProt_lowcomp conser 34.2 6.3E+02 0.014 29.1 13.0 109 284-404 484-607 (851)
98 PRK14154 heat shock protein Gr 33.3 4.1E+02 0.0089 25.1 9.7 21 271-291 100-120 (208)
99 TIGR02168 SMC_prok_B chromosom 33.2 8.4E+02 0.018 28.4 15.3 8 36-43 534-541 (1179)
100 PRK14158 heat shock protein Gr 32.8 4.1E+02 0.009 24.8 11.1 74 215-291 35-108 (194)
101 PF05667 DUF812: Protein of un 32.7 7.1E+02 0.015 27.4 16.8 32 221-252 329-360 (594)
102 PF09340 NuA4: Histone acetylt 32.7 1.1E+02 0.0023 24.3 4.9 31 262-292 4-34 (80)
103 cd07637 BAR_ACAP3 The Bin/Amph 32.4 2.2E+02 0.0047 26.7 7.8 71 227-315 2-72 (200)
104 PTZ00419 valyl-tRNA synthetase 31.6 1.6E+02 0.0036 34.4 8.3 66 222-287 924-991 (995)
105 TIGR02680 conserved hypothetic 31.5 1E+03 0.022 29.0 17.8 92 212-303 214-309 (1353)
106 PRK05014 hscB co-chaperone Hsc 31.5 4E+02 0.0086 24.2 9.2 49 238-286 121-169 (171)
107 PF02388 FemAB: FemAB family; 31.1 1.6E+02 0.0035 30.5 7.5 50 40-91 80-134 (406)
108 COG4477 EzrA Negative regulato 31.0 7.2E+02 0.016 27.0 12.3 42 263-304 153-194 (570)
109 PF09440 eIF3_N: eIF3 subunit 30.6 2.8E+02 0.0062 24.2 7.7 50 279-328 74-128 (133)
110 PF06005 DUF904: Protein of un 30.4 2.6E+02 0.0057 21.7 8.2 19 277-295 53-71 (72)
111 PF08946 Osmo_CC: Osmosensory 30.0 1E+02 0.0022 21.8 3.8 25 225-249 10-34 (46)
112 PF10168 Nup88: Nuclear pore c 29.9 5E+02 0.011 29.3 11.4 16 287-302 596-611 (717)
113 PF10458 Val_tRNA-synt_C: Valy 29.6 1.3E+02 0.0028 22.7 4.8 30 218-247 2-31 (66)
114 PF06248 Zw10: Centromere/kine 29.6 7.6E+02 0.017 26.9 15.7 29 286-314 85-113 (593)
115 PF09006 Surfac_D-trimer: Lung 29.1 2E+02 0.0044 20.4 5.2 27 222-248 1-27 (46)
116 PF14282 FlxA: FlxA-like prote 28.1 3.5E+02 0.0076 22.5 8.1 27 266-292 50-76 (106)
117 KOG0804 Cytoplasmic Zn-finger 28.1 5.5E+02 0.012 27.2 10.3 10 336-345 400-409 (493)
118 COG0172 SerS Seryl-tRNA synthe 28.0 5E+02 0.011 27.4 10.2 72 221-293 30-101 (429)
119 PF08651 DASH_Duo1: DASH compl 27.9 3E+02 0.0066 21.7 9.6 61 272-345 3-63 (78)
120 PRK14163 heat shock protein Gr 27.6 5.4E+02 0.012 24.4 9.5 22 222-243 42-63 (214)
121 PF10929 DUF2811: Protein of u 27.2 41 0.00089 25.0 1.5 17 5-23 13-29 (57)
122 PF12958 DUF3847: Protein of u 27.1 3.4E+02 0.0073 22.0 8.8 53 224-276 5-57 (86)
123 PF10602 RPN7: 26S proteasome 27.1 4.7E+02 0.01 23.6 9.5 65 226-296 6-83 (177)
124 KOG0946 ER-Golgi vesicle-tethe 26.7 6.3E+02 0.014 28.9 11.0 50 318-367 904-955 (970)
125 PRK14140 heat shock protein Gr 26.5 5.3E+02 0.012 24.0 11.4 21 271-291 85-105 (191)
126 TIGR00414 serS seryl-tRNA synt 26.1 6.6E+02 0.014 26.2 10.9 38 220-257 30-67 (418)
127 PF04977 DivIC: Septum formati 26.1 2E+02 0.0044 21.8 5.5 29 218-246 22-50 (80)
128 KOG2912 Predicted DNA methylas 25.8 33 0.00072 34.6 1.1 101 2-111 174-290 (419)
129 PF12761 End3: Actin cytoskele 25.7 5.6E+02 0.012 24.0 11.0 84 215-309 91-185 (195)
130 PHA01750 hypothetical protein 25.6 1.4E+02 0.0031 22.8 4.2 26 224-249 46-71 (75)
131 TIGR00606 rad50 rad50. This fa 25.6 1.3E+03 0.027 28.1 17.8 29 220-248 695-723 (1311)
132 PRK05729 valS valyl-tRNA synth 25.6 2.3E+02 0.005 32.6 8.0 28 222-249 806-833 (874)
133 PRK09631 DNA topoisomerase IV 25.5 4.6E+02 0.01 29.1 9.9 48 317-369 400-447 (635)
134 COG1730 GIM5 Predicted prefold 25.3 2.6E+02 0.0056 24.9 6.6 39 217-255 91-129 (145)
135 PF03961 DUF342: Protein of un 25.3 4.9E+02 0.011 27.3 9.9 26 221-246 335-360 (451)
136 PRK10636 putative ABC transpor 25.3 4.1E+02 0.0089 29.3 9.7 67 228-294 564-632 (638)
137 PF05158 RNA_pol_Rpc34: RNA po 25.2 3.6E+02 0.0079 27.2 8.5 86 138-228 6-95 (327)
138 KOG0995 Centromere-associated 25.0 9.3E+02 0.02 26.3 18.3 80 262-344 260-355 (581)
139 cd00187 TOP4c DNA Topoisomeras 24.9 8.4E+02 0.018 25.8 11.6 30 317-346 401-430 (445)
140 TIGR02169 SMC_prok_A chromosom 24.9 1.2E+03 0.025 27.3 17.0 8 35-42 535-542 (1164)
141 PF07426 Dynactin_p22: Dynacti 24.6 5.4E+02 0.012 23.5 14.2 119 228-346 6-147 (174)
142 PF01519 DUF16: Protein of unk 24.4 4.2E+02 0.0091 22.1 8.5 39 213-251 37-77 (102)
143 PF09726 Macoilin: Transmembra 24.4 1E+03 0.023 26.7 15.3 32 265-296 543-574 (697)
144 COG1196 Smc Chromosome segrega 24.2 1.3E+03 0.028 27.6 17.3 28 221-248 696-723 (1163)
145 PF10359 Fmp27_WPPW: RNA pol I 23.7 3.2E+02 0.0069 29.1 8.2 68 226-296 162-229 (475)
146 PRK06771 hypothetical protein; 23.6 3.9E+02 0.0085 21.9 6.7 22 247-268 56-77 (93)
147 TIGR03279 cyano_FeS_chp putati 22.9 33 0.00073 36.0 0.6 24 9-32 92-122 (433)
148 KOG0981 DNA topoisomerase I [R 22.8 2.1E+02 0.0046 31.1 6.4 40 275-314 677-716 (759)
149 PF03522 KCl_Cotrans_1: K-Cl C 22.8 28 0.00061 22.2 -0.0 12 21-32 8-19 (30)
150 COG0576 GrpE Molecular chapero 22.7 6.2E+02 0.013 23.5 10.9 29 269-297 82-110 (193)
151 PF09728 Taxilin: Myosin-like 22.6 7.8E+02 0.017 24.6 14.3 83 260-344 50-133 (309)
152 PRK09343 prefoldin subunit bet 22.5 1.2E+02 0.0025 26.0 3.8 42 217-258 75-116 (121)
153 PF15456 Uds1: Up-regulated Du 22.4 5.1E+02 0.011 22.3 9.4 20 224-243 26-45 (124)
154 PF04508 Pox_A_type_inc: Viral 22.2 1.4E+02 0.003 18.1 2.9 19 229-247 3-21 (23)
155 PLN02678 seryl-tRNA synthetase 22.1 7.7E+02 0.017 26.1 10.5 33 220-252 33-65 (448)
156 PF01025 GrpE: GrpE; InterPro 22.1 2.7E+02 0.0059 24.6 6.3 20 273-292 61-80 (165)
157 PLN02381 valyl-tRNA synthetase 21.9 2.8E+02 0.0061 32.8 7.8 29 221-249 991-1019(1066)
158 TIGR02169 SMC_prok_A chromosom 21.7 1.3E+03 0.028 26.9 17.9 17 352-368 952-968 (1164)
159 PF06476 DUF1090: Protein of u 21.6 4.8E+02 0.01 22.1 7.3 46 230-277 66-111 (115)
160 PF13514 AAA_27: AAA domain 21.4 1.4E+03 0.03 27.1 20.9 35 221-255 737-771 (1111)
161 COG3078 Uncharacterized protei 21.3 1.8E+02 0.004 25.9 4.7 35 322-364 130-164 (169)
162 PF04065 Not3: Not1 N-terminal 21.1 7.5E+02 0.016 23.8 10.2 28 225-252 120-147 (233)
163 PF00521 DNA_topoisoIV: DNA gy 20.8 6.9E+02 0.015 26.1 9.9 31 316-346 386-416 (426)
164 PF06305 DUF1049: Protein of u 20.8 1.3E+02 0.0028 22.4 3.4 24 223-246 44-67 (68)
165 PRK14153 heat shock protein Gr 20.5 7E+02 0.015 23.3 10.8 20 272-291 82-101 (194)
166 PF09012 FeoC: FeoC like trans 20.4 2E+02 0.0044 21.6 4.4 35 159-193 13-48 (69)
167 PRK14141 heat shock protein Gr 20.4 4E+02 0.0086 25.2 7.2 20 272-291 80-99 (209)
168 PF03670 UPF0184: Uncharacteri 20.4 3.3E+02 0.0072 21.9 5.6 38 220-257 26-63 (83)
169 cd00632 Prefoldin_beta Prefold 20.4 4.8E+02 0.01 21.3 9.2 88 272-367 11-100 (105)
170 COG1842 PspA Phage shock prote 20.2 7.6E+02 0.017 23.5 9.8 32 217-248 103-134 (225)
171 KOG0964 Structural maintenance 20.0 1.5E+03 0.032 26.8 14.2 14 173-186 624-637 (1200)
No 1
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=7.2e-68 Score=523.24 Aligned_cols=402 Identities=26% Similarity=0.390 Sum_probs=334.1
Q ss_pred CCchhHHHHhhhcCCCCCchhhhhhhc-cCCCCCCCCcHHHHHHHHHHHHHHHHHCCceEEC-ccccchhhhhcCCCCCC
Q 013999 1 MSSTSVREFVLKEVPDWNDEVIATARF-KAFSGQRSDWEPKFQFWKNLILKIARHFSLAIIH-PSQVKNEWFNRGGLTPL 78 (432)
Q Consensus 1 ~~~~~~~~~i~~~~~~w~d~~Rl~sLy-sdF~~n~~gy~ani~fW~~lI~~~~~~~~~~~~~-~~~l~~~~f~r~~~~P~ 78 (432)
|+--..-+|+...||+|.|..||.++| +-|..||+||+|||.||+++|.+||+..|.++|+ ..+|+. +|.|+||+|+
T Consensus 1 ~~~~~~~~~~~~~~pew~d~~~~~~~f~~~r~~n~~gydak~~fWrdlI~~~s~~~g~~if~~lr~lq~-~F~r~~~vPl 79 (439)
T KOG2911|consen 1 MGKKAKVNAAEFLVPEWDDLTVLKALFSKLRHLNPEGYDAKMNFWRDLILKYSRKSGRRIFLVLRTLQE-LFSRGGGVPL 79 (439)
T ss_pred CCccccccccccCCCcchhHHHHHHHhhHhhhcChHhHHhHhhHHHHHHHHHhhhcCCeEeeHHHHHHH-HhccCCCcCc
Confidence 333445678999999997778999999 6677799999999999999999999999999999 666755 8999999999
Q ss_pred CHHHHHHHHHHCCCeeehhhhhc-ccCCchhHHHH----hhhhhccccC-CCcccccCccEeehHHHHHHHHHHH-HHHh
Q 013999 79 CFDDVLFVMYNEGDVVRSVDLVD-AASGRLTQLFR----KVRSLMARSA-ATPEILLKDHVILMEVLKDKADEVI-KLLS 151 (432)
Q Consensus 79 ~L~~Vi~emv~~g~li~~~ef~~-~~~gw~swl~~----~~~~~~~~~~-~~~~~l~~~~~V~~~~l~~~a~~i~-~~~~ 151 (432)
|||+||+.|+++|.++|.++|.+ +.+||++|+.| +...|.+++- ..+........+.++.|.+.+..++ ..++
T Consensus 80 sLd~Vi~~l~~~G~vir~sdf~~~~~sswigw~~~~~~~k~l~w~~~~~~~~~~~~l~e~l~~i~~l~eka~~~~~~ll~ 159 (439)
T KOG2911|consen 80 SLDTVIDYLIQEGDVIRISDFLDDPDSSWIGWLVGVSIFKPLRWSFSKLKNSASSILEERLPLIKLLKEKALDVYAELLH 159 (439)
T ss_pred cHHHHHHHHHhccCeeeHHHhhcCCCcccchhccceeeechhhhhhhhhccchhHHHHhhhHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999995 88999998644 3333333311 1222334667788888888888888 7789
Q ss_pred hccccC--ccccchhhHHhhhCC-----cchHHHHHHHHhccCccceeeeecCCceeEEEeeC-CCCcCCCCCchhHHHH
Q 013999 152 ESHWTS--SCIITMKKFQDKCGG-----QDEASAVLSFLTGRGKALYLSISKNEFTEGVKVSL-SPAAVSSISSLDYDVL 223 (432)
Q Consensus 152 ~~~~~s--d~v~s~~ef~~~~~~-----~~d~~vlL~yL~~~~~~k~v~~~~~~~~~~IKf~~-~~~~~~~Ite~D~~I~ 223 (432)
++++.+ ++|||+.+|++.|+. ..+++++|+||. ..+++++...++++.|||+. +...+.+||+.|.+|+
T Consensus 160 ~~~~~~~t~~Vvt~nef~tlc~~~~~~~~~t~~l~l~~l~---~~k~i~vg~~~g~k~~~f~~i~~~~~~~it~~D~~V~ 236 (439)
T KOG2911|consen 160 EEVLSECTGAVVTLNEFQTLCSNLGKPDEETKDLVLCWLA---YQKHIIVGESIGIKFLKFSQIPSQDASIITEIDGSVA 236 (439)
T ss_pred hhhhhccCceeeeHHHHHHHhccCCCCcHHHHHHHHHHHH---hhhheeeehhcceEEEeeccCCcccccCCccchhhHH
Confidence 888876 899999999999987 357899999997 44578888778888888874 3445778999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVS 303 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~ 303 (432)
+|++++.+|.+|++.|+++|+.++.++|++++.|+|+.|++|||+||++||.++++..+++||++++++|++|++|+.|+
T Consensus 237 ~L~~~~~~L~kqie~L~qeie~~~~~~r~~~k~g~K~iA~~ylr~rk~~eK~~er~~~~l~~l~~vl~~Id~s~~nkvvl 316 (439)
T KOG2911|consen 237 DLIQARAKLAKQIEFLEQEIEKSKEKLRQALKEGKKQIAITYLRARKLLEKDLERKVSSLNNLETVLSQIDNSQTNKVVL 316 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhcccHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHh---cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCCHHHHHHHHHHHHHHHhhcCCCCCCC
Q 013999 304 EAIQIGAQAIKK---NKISVEELQLCLEELEESIDLQKQAEKVIVPSY---TGIDDEDIEEEFKKLEQEVECERPKPTVS 377 (432)
Q Consensus 304 ~al~~g~~aLk~---~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~---~~~De~ELe~EL~~Le~E~~~~~~~~~~p 377 (432)
+||++|+.|||. .+.+.|+|+++||+|+|.++.++||+++|+.+. .+.+|++||+||+.|+.+.+....+ ..|
T Consensus 317 ~AyksGs~alK~il~~~~s~ekVed~Ldev~et~d~~~EV~~~la~~~~~~~d~~de~lEkEL~~L~~D~~k~e~~-~lp 395 (439)
T KOG2911|consen 317 QAYKSGSEALKAILAQGGSTEKVEDVLDEVNETLDRQEEVEDALASYNVNNIDFEDEDLEKELEDLEADEKKNEDL-VLP 395 (439)
T ss_pred HHHHHhHHHHHHHHhccCChhhHHHHHHHHHHHHhhHHHHHHHHhcCCCCCCccchHHHHHHHHHHHhccccCCcc-CCC
Confidence 999999999998 257999999999999999999999999996643 3678999999999999988774321 111
Q ss_pred CCCCCCCCCc-ccHHHHHHHhccCCcCCCCC
Q 013999 378 KTGVNEPAAS-ESAESLRVAFSTIGLNDGQA 407 (432)
Q Consensus 378 ~~~~~~~~~~-~~~~~l~~~L~~L~~~d~~~ 407 (432)
..+.+...+. .++.++...+..|+..+++.
T Consensus 396 ~~~~sr~~~~r~sd~el~~~~~~le~~~~~~ 426 (439)
T KOG2911|consen 396 LNSVSRDFLKRLSDLELLTNEDSLEKTEGPL 426 (439)
T ss_pred CCCchHHHhhhcchhhhccccchhhhhcCcc
Confidence 1221111221 44555666666666655443
No 2
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=100.00 E-value=1e-31 Score=238.84 Aligned_cols=169 Identities=27% Similarity=0.382 Sum_probs=161.5
Q ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 013999 212 VSSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 212 ~~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~ 291 (432)
.+.||+.|+||++||.++++|.++.+.+++.++..+..||.+++.|.|.+|+.+||+|+.+|..|.+..++|.||+++++
T Consensus 8 ~~~Itd~DrAIL~lK~QRdkl~qyqkR~e~~le~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvs 87 (209)
T KOG2910|consen 8 KSRITDQDRAILSLKTQRDKLKQYQKRLEKQLEAERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVS 87 (209)
T ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHhh
Q 013999 292 LIENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQEVEC 369 (432)
Q Consensus 292 ~Ie~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~E~~~ 369 (432)
.||.+..++.|++.|+.||.+||+ ..+++|+|+.+|||.+|++++|+||+++|++.++..|+++|.+||++|+.|...
T Consensus 88 diEft~vqk~V~~gLk~GN~~lkkl~~~~~ideV~rimddt~ea~~YQ~Ein~~L~~~ls~~dEddi~~EldaLese~~~ 167 (209)
T KOG2910|consen 88 DIEFTQVQKKVMEGLKQGNEALKKLQQEFDIDEVDRIMDDTQEAIEYQDEINAILSGSLSAEDEDDILAELDALESELEV 167 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999998 478999999999999999999999999999989999999999999999999877
Q ss_pred cCCCCCCCCCC
Q 013999 370 ERPKPTVSKTG 380 (432)
Q Consensus 370 ~~~~~~~p~~~ 380 (432)
+..+|.+|.+.
T Consensus 168 e~e~PevPs~e 178 (209)
T KOG2910|consen 168 EAELPEVPSTE 178 (209)
T ss_pred hhhcCCCCCCC
Confidence 65458888764
No 3
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=99.98 E-value=9e-31 Score=239.40 Aligned_cols=156 Identities=17% Similarity=0.221 Sum_probs=148.0
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 214 SISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
.-|....||++|+.+++.|+++...|+.+|+.+...||.++++|+|.+|+.|||+||++|++|++..+++.||++++..|
T Consensus 21 ~~~~~~~AIl~Lk~~~~~L~krq~~Le~kIe~e~~~Ak~~~~~~kk~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~~i 100 (191)
T PTZ00446 21 NNDEIYKAILKNREAIDALEKKQVQVEKKIKQLEIEAKQKVEQNQMSNAKILLKRKKLYEQEIENILNNRLTLEDNMINL 100 (191)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34668999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCC-CCCCCHHHHHHHHHHHHHHHhh
Q 013999 294 ENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPS-YTGIDDEDIEEEFKKLEQEVEC 369 (432)
Q Consensus 294 e~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~-~~~~De~ELe~EL~~Le~E~~~ 369 (432)
|+|+.|.+||.||+.|++|||. .+|++|+||++||+|+|+++.++||+++|+.+ ..++||+||++||++|++|.-.
T Consensus 101 E~a~~~~ev~~aLk~g~~aLK~~~k~~~idkVd~lmDei~E~~e~~~EIseaLs~~~~~~~DEdELe~ELe~Le~e~l~ 179 (191)
T PTZ00446 101 ENMHLHKIAVNALSYAANTHKKLNNEINTQKVEKIIDTIQENKDIQEEINQALSFNLLNNVDDDEIDKELDLLKEQTME 179 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998 48999999999999999999999999999875 3678999999999999986543
No 4
>KOG1656 consensus Protein involved in glucose derepression and pre-vacuolar endosome protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.96 E-value=1.9e-28 Score=220.27 Aligned_cols=156 Identities=20% Similarity=0.269 Sum_probs=143.5
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 214 SISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKS-ALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~-ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
+.| -+.+|.+|+.+++.|.++.+.|+++|...... |+.|..+ +|..|+.||||||.+|++|.++.+.+.+|+.++..
T Consensus 16 ~~t-~~eaI~kLrEteemL~KKqe~Le~ki~~e~e~~A~k~~tk-NKR~AlqaLkrKK~~E~qL~qidG~l~tie~Qr~a 93 (221)
T KOG1656|consen 16 KPT-PQEAIQKLRETEEMLEKKQEFLEKKIEQEVENNARKYGTK-NKRMALQALKRKKRYEKQLAQIDGTLSTIEFQREA 93 (221)
T ss_pred CCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 344 67899999999999999999999999998666 7777655 89999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCCHHHHHHHHHHHHHHH
Q 013999 293 IENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSY---TGIDDEDIEEEFKKLEQEV 367 (432)
Q Consensus 293 Ie~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~---~~~De~ELe~EL~~Le~E~ 367 (432)
||+|.+|.+|+++|..|++|||. .++++|+|+++||+|.|+.+..+||++||+.+. .++|||||.+||++|++|.
T Consensus 94 lEnA~~n~Evl~~m~~~A~AmK~~h~~mDiDkVdd~MdeI~eQqe~a~eIseAiS~Pvg~~a~~DEDEL~~ELdeLeqee 173 (221)
T KOG1656|consen 94 LENANTNTEVLDAMGSAAKAMKAAHKNMDIDKVDDLMDEIAEQQEVAEEISEAISAPVGFGADFDEDELMAELDELEQEE 173 (221)
T ss_pred HHcccccHHHHHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHhCccccccccCHHHHHHHHHHHHHHH
Confidence 99999999999999999999998 599999999999999999999999999998765 3799999999999999886
Q ss_pred hhcC
Q 013999 368 ECER 371 (432)
Q Consensus 368 ~~~~ 371 (432)
.+..
T Consensus 174 ld~~ 177 (221)
T KOG1656|consen 174 LDKE 177 (221)
T ss_pred HHHH
Confidence 6543
No 5
>PTZ00464 SNF-7-like protein; Provisional
Probab=99.95 E-value=1.5e-26 Score=216.09 Aligned_cols=158 Identities=16% Similarity=0.250 Sum_probs=137.6
Q ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 013999 212 VSSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASL---HSGNKTVALRHAKQLKLTKESREKCTSLLNRVEE 288 (432)
Q Consensus 212 ~~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~---~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~ 288 (432)
.+++| .+-+|-.|......|+++|..|+.++..++..++..- +.+.|++|+.|||+||++|++++++.+++.||++
T Consensus 11 ~p~~t-~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k~~~~~~~~~~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq 89 (211)
T PTZ00464 11 TPKPT-LEDASKRIGGRSEVVDARINKIDAELMKLKEQIQRTRGMTQSRHKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQ 89 (211)
T ss_pred CCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677 5555688999999999999888877777666554321 1225899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCCHHHHHHHHHHH
Q 013999 289 VLSLIENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSY---TGIDDEDIEEEFKKL 363 (432)
Q Consensus 289 ~l~~Ie~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~---~~~De~ELe~EL~~L 363 (432)
++..|+++++|..||+||+.|++|||. .+|++|+||++||+|+|+++.++||+++|++++ .++||+||++||++|
T Consensus 90 ~~~~ie~a~~~~~vv~amk~g~kaLK~~~k~i~id~Vd~l~Dei~E~~e~~~EI~e~Ls~~~~~~~~~DEdELe~ELe~L 169 (211)
T PTZ00464 90 LQFTTESVKDTKVQVDAMKQAAKTLKKQFKKLNVDKVEDLQDELADLYEDTQEIQEIMGRAYDVPDDIDEDEMLGELDAL 169 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH
Confidence 999999999999999999999999998 489999999999999999999999999998765 468999999999999
Q ss_pred HHHHhhc
Q 013999 364 EQEVECE 370 (432)
Q Consensus 364 e~E~~~~ 370 (432)
+.|...+
T Consensus 170 e~e~~~e 176 (211)
T PTZ00464 170 DFDMEKE 176 (211)
T ss_pred HHHHhcc
Confidence 9986543
No 6
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=99.91 E-value=1.4e-24 Score=197.39 Aligned_cols=151 Identities=28% Similarity=0.439 Sum_probs=128.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTK 300 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~ 300 (432)
+|++|+.++..|++++..|+.+|+.+..+|+.++++|++..|+.|||++|.+++.++++..++.+|+.++.+|+.|..+.
T Consensus 2 ai~~Lk~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~~~~~~ie~a~~~~ 81 (171)
T PF03357_consen 2 AILKLKKTIRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLESVLLQIETAQSNQ 81 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCCHHHHHHHHHHHHHHHhhcC
Q 013999 301 KVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSY---TGIDDEDIEEEFKKLEQEVECER 371 (432)
Q Consensus 301 ~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~---~~~De~ELe~EL~~Le~E~~~~~ 371 (432)
.|+.+|+.|+++|+. .++++++|+++|+++++.++.+++|+++|+..+ .++||+||++||++|+.|...+.
T Consensus 82 ~v~~al~~~~~~Lk~~~~~i~~~~v~~~~d~~~e~~e~~~ei~~~l~~~~~~~~~~dd~ele~eL~~l~~e~~~~~ 157 (171)
T PF03357_consen 82 QVVKALKQSSKALKKINKQINLDKVEKLMDDFQEEMEDQDEISEALSDSMDQVDDVDDEELEEELEQLEDEIEEEE 157 (171)
T ss_dssp HHSSS----SHHHHHHHHSTTSCCHHHHHHHHHHHHHHHTS----------------TTSTTCHHHHHHHCCCTTS
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHccccCCCCCCHHHHHHHHHHHHHHHhhhh
Confidence 999999999999998 489999999999999999999999999998766 56889999999999999876654
No 7
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.80 E-value=8.5e-18 Score=150.73 Aligned_cols=150 Identities=19% Similarity=0.296 Sum_probs=134.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSG-----NKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~-----~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
.--+|-.+-..-+.++++|.+|+.++-.++.+.+.- |.| -|++|++.||+||.||.+.+.+.++-.|+++.-..
T Consensus 17 L~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~-R~gpaq~~~KqrAlrVLkQKK~yE~q~d~L~~QsfNMeQa~~t 95 (218)
T KOG1655|consen 17 LQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKT-RPGPAQNALKQRALRVLKQKKMYENQKDSLDQQSFNMEQANFT 95 (218)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhc-CCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence 445777888888888888888888888888876542 555 47899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCC--CCCHHHHHHHHHHHHHHHh
Q 013999 293 IENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSYT--GIDDEDIEEEFKKLEQEVE 368 (432)
Q Consensus 293 Ie~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~--~~De~ELe~EL~~Le~E~~ 368 (432)
++.-+++..+|.||+.|++.||. ..|++|+|+++-|+|.+.++..+||+++|+.+++ ++||+||+.||++|-+|..
T Consensus 96 ~e~LKdtq~Tv~AmK~~~k~mK~~ykkvnId~IedlQDem~Dlmd~a~EiQE~Lgr~y~~peide~dL~aELdaL~~E~d 175 (218)
T KOG1655|consen 96 AESLKDTQATVAAMKDTNKEMKKQYKKVNIDKIEDLQDEMEDLMDQADEIQEVLGRNYNTPDIDEADLDAELDALGQELD 175 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHHHHHhHhh
Confidence 99999999999999999999998 5899999999999999999999999999988764 6899999999999977644
No 8
>KOG4068 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.63 E-value=1.8e-07 Score=82.02 Aligned_cols=142 Identities=20% Similarity=0.273 Sum_probs=98.6
Q ss_pred CCC--CCcHHHHHHHHHHHHHHHHHCCceEECccc-cchhhhhc----CCCCCCCHHHHHHHHHHCCCeeehhhhhcccC
Q 013999 32 GQR--SDWEPKFQFWKNLILKIARHFSLAIIHPSQ-VKNEWFNR----GGLTPLCFDDVLFVMYNEGDVVRSVDLVDAAS 104 (432)
Q Consensus 32 ~n~--~gy~ani~fW~~lI~~~~~~~~~~~~~~~~-l~~~~f~r----~~~~P~~L~~Vi~emv~~g~li~~~ef~~~~~ 104 (432)
.|| +.++..+.+|.++|.+||++++..++++++ ..+.+|.. ....|-++++|+.+|.++|.+-|.+ ..
T Consensus 16 ~Qpn~~Tr~qQl~aW~~lil~ycr~~k~~smsI~~~~~s~LfnN~~l~R~Ls~~~i~~Il~~l~k~g~~e~~D----k~- 90 (174)
T KOG4068|consen 16 RQPNSNTRQQQLAAWIDLILQYCRHNKIWSMSIDEAQESPLFNNEKLQRRLSQEFIDEILEELEKKGLAEPTD----KR- 90 (174)
T ss_pred ecCCchhHHHHHHHHHHHHHHHHHhcCeEEEEecchhcccccchHHHhccCCHHHHHHHHHHHHHccCCcccc----cC-
Confidence 355 789999999999999999999999998887 44456664 4456778999999999999665553 11
Q ss_pred CchhHHHHhhhhhccccCCCcccccCccEeehHHHHHHHHHHHHHHhhccccCccccchhhHHhh-------hCCcch--
Q 013999 105 GRLTQLFRKVRSLMARSAATPEILLKDHVILMEVLKDKADEVIKLLSESHWTSSCIITMKKFQDK-------CGGQDE-- 175 (432)
Q Consensus 105 gw~swl~~~~~~~~~~~~~~~~~l~~~~~V~~~~l~~~a~~i~~~~~~~~~~sd~v~s~~ef~~~-------~~~~~d-- 175 (432)
...-+|.|..+.+-|..|++++.++... ..|+|+.|+.+- |+.-++
T Consensus 91 ------------------------rt~f~I~Wrs~dewgnmIyqW~~dsg~~-nti~TlYElt~Gddt~~~efh~lde~l 145 (174)
T KOG4068|consen 91 ------------------------RTRFFIYWRSLDEWGNMIYQWVSDSGQL-NTICTLYELTEGDDTVNEEFHGLDEAL 145 (174)
T ss_pred ------------------------ceEEEEEEcCHHHHHHHHHHHHHHcCcC-CCceEEEEeccCCcccchhhcCccHHH
Confidence 1224566666677799999999986654 347776666532 111112
Q ss_pred HHHHHHHHhccCccceeeeecCCceeEEEe
Q 013999 176 ASAVLSFLTGRGKALYLSISKNEFTEGVKV 205 (432)
Q Consensus 176 ~~vlL~yL~~~~~~k~v~~~~~~~~~~IKf 205 (432)
+.-+|.-|...+|+..+.+ +++..+|||
T Consensus 146 L~~aL~~L~ek~raelm~~--~~~~~gvKf 173 (174)
T KOG4068|consen 146 LLKALKLLEEKGRAELMKD--SNKVIGVKF 173 (174)
T ss_pred HHHHHHHHHhcCceeEeec--CCCceeEEe
Confidence 3347777887777644432 235678888
No 9
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.34 E-value=0.00012 Score=66.74 Aligned_cols=143 Identities=16% Similarity=0.224 Sum_probs=98.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 228 TVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQ 307 (432)
Q Consensus 228 ~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~ 307 (432)
++..|+.....|+.+-..+-..+|.-.++|+-..++-.-|.--..-.++.+......+|+.+-.+|..-.++..+.++|+
T Consensus 24 a~ReleRer~~le~qeKklvaeIKk~AK~gq~~A~KimAkdLvRtR~~i~kf~~~kaqiqaVSl~iQtlkss~sma~aMk 103 (224)
T KOG3230|consen 24 ATRELERERQKLELQEKKLVAEIKKTAKQGQMDAVKIMAKDLVRTRRYIKKFQNMKAQIQAVSLRIQTLKSSTSMAQAMK 103 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 33344444445554444455555666678875544444443334445566778888999999999999999999999999
Q ss_pred HHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCC-CCHHHHHHHHHHHHHHHhhc
Q 013999 308 IGAQAIKK--NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTG-IDDEDIEEEFKKLEQEVECE 370 (432)
Q Consensus 308 ~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~-~De~ELe~EL~~Le~E~~~~ 370 (432)
-.+++|.. ..+++-.+.++|.+++-+-+..+-..++++....+ .+++|=|+|-++|...+-++
T Consensus 104 GaTkam~~MNrqmnlpq~qkIm~eFekQse~Mdm~~Emm~daIDdal~~~edEEEtd~lvnqVLDE 169 (224)
T KOG3230|consen 104 GATKAMAGMNRQMNLPQIQKIMQEFEKQSEIMDMKEEMMDDAIDDALGDDEDEEETDDLVNQVLDE 169 (224)
T ss_pred HHHHHHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHH
Confidence 99999998 48999999999999998888777766666543322 23444455555565554443
No 10
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.31 E-value=0.00056 Score=61.23 Aligned_cols=176 Identities=18% Similarity=0.284 Sum_probs=121.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALR----HAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~----~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
....+++||-+-..|+++-...+++-...+.+++.++.+|+.+.|+- ++|+|...-.. ...-.++..+..++
T Consensus 7 le~~lf~LkF~sk~L~r~a~kceKeEK~Ek~K~kkAi~kgN~dvArIyAeNAIRkkne~~n~----LrlssRvDAVaaRv 82 (203)
T KOG3232|consen 7 LENHLFDLKFTSKQLQRQAKKCEKEEKAEKAKLKKAIQKGNMDVARIYAENAIRKKNEAVNY----LRLSSRVDAVAARV 82 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence 55678999999999999999999888888899999999999877664 45665544333 33445678888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHH----HHHhhCCCCC-CCCHHHHHHHHHHHHHH
Q 013999 294 ENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQ----AEKVIVPSYT-GIDDEDIEEEFKKLEQE 366 (432)
Q Consensus 294 e~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~E----I~~~L~~~~~-~~De~ELe~EL~~Le~E 366 (432)
+.|.+-..|-..|..-.+.|-. ..+++++|-.+||..+-+-++.+= +..++++... ..+.++++. |.++
T Consensus 83 qTavtmr~Vt~sM~gVvK~md~alktmNLekis~~MDkFE~qFedldvqt~~me~~m~~st~l~tpq~~Vd~----Lmq~ 158 (203)
T KOG3232|consen 83 QTAVTMRKVTKSMAGVVKSMDSALKTMNLEKISQLMDKFEKQFEDLDVQTEVMEKAMSGSTALSTPQGDVDS----LMQQ 158 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhhhhHHHHHHHhccCcccccCChhHHHH----HHHH
Confidence 9999999999999988888887 589999999999999887776553 3444443221 334444433 3333
Q ss_pred HhhcC--------CCCCCCCCCCCCCCCcccHHHHHHHhccCC
Q 013999 367 VECER--------PKPTVSKTGVNEPAASESAESLRVAFSTIG 401 (432)
Q Consensus 367 ~~~~~--------~~~~~p~~~~~~~~~~~~~~~l~~~L~~L~ 401 (432)
..++. |.+-+|..+.........+++|.++|..|+
T Consensus 159 vADeaGlElnq~lp~~~~~a~~~~t~~~~~e~d~L~qRLaaLR 201 (203)
T KOG3232|consen 159 VADEAGLELNQELPQNVVPAISVKTSAVVDEEDDLTQRLAALR 201 (203)
T ss_pred HHHHhchhhhhcCCCCCCCCcCCCCccccchhhHHHHHHHHHh
Confidence 33322 222223332222222333488999998775
No 11
>KOG3229 consensus Vacuolar sorting protein VPS24 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.29 E-value=0.00017 Score=66.32 Aligned_cols=150 Identities=18% Similarity=0.209 Sum_probs=128.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKK 301 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~ 301 (432)
-..|++...+|..|+..|+..-.......|++.++|++..++.+-|.--..-+...+++...-+|..+..++..+-...-
T Consensus 20 q~kiRke~r~ldrqir~iqree~kv~~~iK~aAKknD~~t~~iLAKEiv~srk~v~Rly~sKAqlnSv~M~l~eqla~~r 99 (227)
T KOG3229|consen 20 QSKIRKEGRQLDRQIRDIQREEEKVQKSIKQAAKKNDKDTCRILAKEIVQSRKAVKRLYESKAQLNSVSMQLKEQLATLR 99 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHHHHHH
Confidence 45788888999999999999888888889999999999988888888888888899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHh-c-CCChHHHHHHHHHHHHHHHHHHHHHHhhCCCC----C-CCCHHHHHHHHHHHHHHHhhcC
Q 013999 302 VSEAIQIGAQAIKK-N-KISVEELQLCLEELEESIDLQKQAEKVIVPSY----T-GIDDEDIEEEFKKLEQEVECER 371 (432)
Q Consensus 302 v~~al~~g~~aLk~-~-~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~----~-~~De~ELe~EL~~Le~E~~~~~ 371 (432)
+...|+.|+++||. + =+.+-.+-.+|-++.-.|-+.-=|.+++.... + ...++|.++|.++..-+...+.
T Consensus 100 ~~G~lqkStevMk~v~sLvk~Pel~~TMrelSkEmmKaGIIEEmvdet~esv~d~eemeEe~deEVdkIL~~it~~~ 176 (227)
T KOG3229|consen 100 VAGSLQKSTEVMKAVNSLVKLPELAATMRELSKEMMKAGIIEEMVDETMESVEDSEEMEEEADEEVDKILTEITGEK 176 (227)
T ss_pred HHhhHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHhccc
Confidence 99999999999998 4 45888899999999999998887777773321 2 2257788888999988887765
No 12
>PF05871 ESCRT-II: ESCRT-II complex subunit; InterPro: IPR008570 This entry represents the vps25 subunit (vacuolar protein sorting-associated protein 25) of the endosome-associated complex ESCRT-II (Endosomal Sorting Complexes Required for Transport protein II). ESCRT (ESCRT-I, -II, -III) complexes orchestrate efficient sorting of ubiquitinated transmembrane receptors to lysosomes via multivesicular bodies (MVBs) []. ESCRT-II recruits the transport machinery for protein sorting at MVB []. In addition, the human ESCRT-II has been shown to form a complex with RNA polymerase II elongation factor ELL in order to exert transcriptional control activity. ESCRT-II transiently associates with the endosomal membrane and thereby initiates the formation of ESCRT-III, a membrane-associated protein complex that functions immediately downstream of ESCRT-II during sorting of MVB cargo. ESCRT-II in turn functions downstream of ESCRT-I, a protein complex that binds to ubiquitinated endosomal cargo []. ESCRT-II is a trilobal complex composed of two copies of vps25, one copy of vps22 and the C-terminal region of vps36. The crystal structure of vps25 revealed two winged-helix domains, the N-terminal domain of vps25 interacting with vps22 and vps35 [].; PDB: 1W7P_B 1U5T_D 1XB4_D 3HTU_E 3CUQ_C 2ZME_D.
Probab=97.99 E-value=7.8e-06 Score=71.95 Aligned_cols=107 Identities=18% Similarity=0.307 Sum_probs=77.8
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHCCceEECcccc-chhhhhc----CCCCCCCHHHHHHHHHHCCCeeehhhhhcccCCch
Q 013999 33 QRSDWEPKFQFWKNLILKIARHFSLAIIHPSQV-KNEWFNR----GGLTPLCFDDVLFVMYNEGDVVRSVDLVDAASGRL 107 (432)
Q Consensus 33 n~~gy~ani~fW~~lI~~~~~~~~~~~~~~~~l-~~~~f~r----~~~~P~~L~~Vi~emv~~g~li~~~ef~~~~~gw~ 107 (432)
|++-+...+..|++||++||++++...+++.+. ...+|.. +...|-++..|+++|++.|..... +.
T Consensus 14 n~~Tr~~Ql~~W~~lIl~y~~~~k~~~l~~~e~~~~~lF~N~~I~R~L~~e~~~~Il~~Lv~~g~aew~----~~----- 84 (139)
T PF05871_consen 14 NPETREKQLELWSDLILDYCRHHKIFRLSLSEALESPLFNNESINRRLSPEFIREILDELVQKGNAEWI----DK----- 84 (139)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHTT-SEEECHHHHCCCTTEETTTTEE--HHHHHHHHHHHHCTTSEEEC----ST-----
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhceeeeecccccCCCCccCccccCCCCHHHHHHHHHHHHhcCCeEEe----eC-----
Confidence 447899999999999999999999988887652 2345664 346788999999999999943332 10
Q ss_pred hHHHHhhhhhccccCCCcccccCccEeehHHHHHHHHHHHHHHhhccccCccccchhhHHhh
Q 013999 108 TQLFRKVRSLMARSAATPEILLKDHVILMEVLKDKADEVIKLLSESHWTSSCIITMKKFQDK 169 (432)
Q Consensus 108 swl~~~~~~~~~~~~~~~~~l~~~~~V~~~~l~~~a~~i~~~~~~~~~~sd~v~s~~ef~~~ 169 (432)
.+..-+|++..+++.|+.|++++.++... ..|+|+.|+.+-
T Consensus 85 --------------------~~~~~~I~Wrt~~eWa~~I~~Wv~~~G~~-gtV~TlyEL~~G 125 (139)
T PF05871_consen 85 --------------------SKTRCLIYWRTPEEWADLIYDWVESTGQL-GTVCTLYELTEG 125 (139)
T ss_dssp --------------------TSCEEEE-SS-HHHHHHHHHHHHHCCTTT-TSEEEHHHHHCT
T ss_pred --------------------CCCEEEEEeCCHHHHHHHHHHHHHhCCCC-CCeEEehhcccC
Confidence 12346788888888999999999886654 579998887653
No 13
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=97.98 E-value=0.00061 Score=64.71 Aligned_cols=150 Identities=21% Similarity=0.255 Sum_probs=117.4
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH-----
Q 013999 214 SISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEE----- 288 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~----- 288 (432)
.+.+...++..+......++++++.++..+.....+|..++..|+-+.|+.+|.+|+.++..+.....++..+..
T Consensus 38 ~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e~~~~~l~~~~~~~~~~~~~l 117 (221)
T PF04012_consen 38 QLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLEEQAERLEQQLDQAEAQVEKL 117 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788899999999999999999999999999999999999999999999999999999988888777665444
Q ss_pred ------HHHHHHHHHHHHHHHHHHHHHHHHHHh-----cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHH
Q 013999 289 ------VLSLIENAESTKKVSEAIQIGAQAIKK-----NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIE 357 (432)
Q Consensus 289 ------~l~~Ie~a~~n~~v~~al~~g~~aLk~-----~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe 357 (432)
+-.+|.........+.+-....++-+. .++++++....++.|++.++..+--.++...... +...++
T Consensus 118 ~~~l~~l~~kl~e~k~k~~~l~ar~~~a~a~~~~~~~~~~~~~~~a~~~~er~e~ki~~~ea~a~a~~el~~--~~~~~e 195 (221)
T PF04012_consen 118 KEQLEELEAKLEELKSKREELKARENAAKAQKKVNEALASFSVSSAMDSFERMEEKIEEMEARAEASAELAD--SDQDLE 195 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccchHHHHHHHHHHHHHHHHHHHHHHHhcc--CcccHH
Confidence 455666677777777777777777665 2667778888888888777777666666644221 222388
Q ss_pred HHHHHHHH
Q 013999 358 EEFKKLEQ 365 (432)
Q Consensus 358 ~EL~~Le~ 365 (432)
.+|+++..
T Consensus 196 ~~l~~~~~ 203 (221)
T PF04012_consen 196 AELEELER 203 (221)
T ss_pred HHHHHhcC
Confidence 88887753
No 14
>PRK10698 phage shock protein PspA; Provisional
Probab=97.87 E-value=0.0035 Score=59.76 Aligned_cols=129 Identities=9% Similarity=0.065 Sum_probs=100.6
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--------
Q 013999 216 SSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVE-------- 287 (432)
Q Consensus 216 te~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le-------- 287 (432)
.+.-.++..+......+++++..++..+.....+|+.++.+|+-..|+.+|.+|+.++..+..+..++....
T Consensus 41 ~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~ 120 (222)
T PRK10698 41 VEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKK 120 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355778899999999999999999999999999999999999999999999999999988777766655444
Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHHHHh-----cCCChHHHHHHHHHHHHHHHHHHHHHHhh
Q 013999 288 ---EVLSLIENAESTKKVSEAIQIGAQAIKK-----NKISVEELQLCLEELEESIDLQKQAEKVI 344 (432)
Q Consensus 288 ---~~l~~Ie~a~~n~~v~~al~~g~~aLk~-----~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L 344 (432)
.+-.+|+.+..-..++-|=..++.+-+. .+++.+..=.-++.+++-++..+-=.+++
T Consensus 121 ~l~~L~~ki~eak~k~~~L~aR~~~A~a~~~~~~~~~~~~~~~a~~~f~rmE~ki~~~Ea~aea~ 185 (222)
T PRK10698 121 EIGELENKLSETRARQQALMLRHQAASSSRDVRRQLDSGKLDEAMARFESFERRIDQMEAEAESH 185 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHhHh
Confidence 4456788888888888888888888776 25555544455555555555554444444
No 15
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=97.67 E-value=0.01 Score=56.34 Aligned_cols=146 Identities=16% Similarity=0.153 Sum_probs=104.1
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH------
Q 013999 215 ISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEE------ 288 (432)
Q Consensus 215 Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~------ 288 (432)
+.+.-.++..+......++++++.++..+.....+|+.++..|+-..|+.+|.+|+.++..+..+..++..+..
T Consensus 40 l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al~~k~~~~~~~~~l~~~~~~~~~~v~~l~ 119 (219)
T TIGR02977 40 LVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAALIEKQKAQELAEALERELAAVEETLAKLQ 119 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677788999999999999999999999999999999999999999999999999999998777766655544
Q ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHh-----cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHH
Q 013999 289 -----VLSLIENAESTKKVSEAIQIGAQAIKK-----NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEE 358 (432)
Q Consensus 289 -----~l~~Ie~a~~n~~v~~al~~g~~aLk~-----~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~ 358 (432)
+-.+|+.+......+-|=...+.+-+. .+++.+..-..++.|.+-++..+--.++... . +.+.|+.
T Consensus 120 ~~l~~L~~ki~~~k~k~~~l~ar~~~A~a~~~~~~~~~~~~~~~a~~~fer~e~ki~~~ea~aea~~~-~---~~~~l~~ 195 (219)
T TIGR02977 120 EDIAKLQAKLAEARARQKALAIRHQAASSRLDVRRQLDSGRSDEAMARFEQYERRVDELEAQAESYDL-G---RKPSLED 195 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHHHHHHHHHhhc-c---CCCCHHH
Confidence 444566666666655555555555443 2556666666666666554444433333321 1 1234777
Q ss_pred HHHHHH
Q 013999 359 EFKKLE 364 (432)
Q Consensus 359 EL~~Le 364 (432)
||.+|+
T Consensus 196 ~l~~l~ 201 (219)
T TIGR02977 196 EFAELE 201 (219)
T ss_pred HHHHhc
Confidence 777774
No 16
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=97.52 E-value=0.015 Score=55.38 Aligned_cols=148 Identities=18% Similarity=0.201 Sum_probs=111.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH------
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVL------ 290 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l------ 290 (432)
+.-.++.++......++.++..+..+++.+..+|+.++..|+-..|...|-++..+|+.+......+.++.+..
T Consensus 42 ~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LAr~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~ 121 (225)
T COG1842 42 KARQALAQAIARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLAREALEEKQSLEDLAKALEAELQQAEEQVEKLKKQ 121 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567888888889999999999999999999999999999999999999999999999988887776655544
Q ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHh-----cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHH
Q 013999 291 -----SLIENAESTKKVSEAIQIGAQAIKK-----NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEF 360 (432)
Q Consensus 291 -----~~Ie~a~~n~~v~~al~~g~~aLk~-----~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL 360 (432)
.+|......+..+.|=....++-+. .+++.+..-..++.|++-++..+.-.++.+. +.....+++++||
T Consensus 122 ~~~Le~Ki~e~~~~~~~l~ar~~~akA~~~v~~~~~~~s~~sa~~~fer~e~kiee~ea~a~~~~e-l~~~~~~dl~~e~ 200 (225)
T COG1842 122 LAALEQKIAELRAKKEALKARKAAAKAQEKVNRSLGGGSSSSAMAAFERMEEKIEEREARAEAAAE-LAEGSGDDLDKEF 200 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHHHHHHHHHHHHHHHHHHhHH-hhccCcccHHHHH
Confidence 3566666677777777666666664 2566667777777777777766666665553 1122445677777
Q ss_pred HHHHH
Q 013999 361 KKLEQ 365 (432)
Q Consensus 361 ~~Le~ 365 (432)
+++..
T Consensus 201 a~~~~ 205 (225)
T COG1842 201 AQAGA 205 (225)
T ss_pred HHhcc
Confidence 77754
No 17
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.50 E-value=0.024 Score=50.54 Aligned_cols=177 Identities=10% Similarity=0.125 Sum_probs=111.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 225 LIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSE 304 (432)
Q Consensus 225 Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~ 304 (432)
|+.+...++..-..++++-.++...+|.....|+++.++.+-++--.+-++-.+..+.-..+..+-.+-....++..+-.
T Consensus 20 LRkt~RdierdRr~me~~Ek~LElEIkk~Aa~GnndAcr~LAKQLV~lRkQKtrt~a~s~ki~s~~~QnK~M~s~~km~~ 99 (208)
T KOG3231|consen 20 LRKTQRDIERDRRAMEKQEKQLELEIKKMAAIGNNDACRVLAKQLVHLRKQKTRTFAVSSKITSMSTQNKVMNSQMKMAG 99 (208)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence 44444455554445555555555556666678988887777777667777777777777778877777777888889999
Q ss_pred HHHHHHHHHHh--cCCChHHHHHHHHHHHHHHHHHHH----HHHhhCCCCC-CCCHHHHHHHHHHHHHHHhhcCC--CCC
Q 013999 305 AIQIGAQAIKK--NKISVEELQLCLEELEESIDLQKQ----AEKVIVPSYT-GIDDEDIEEEFKKLEQEVECERP--KPT 375 (432)
Q Consensus 305 al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~~~~E----I~~~L~~~~~-~~De~ELe~EL~~Le~E~~~~~~--~~~ 375 (432)
||-+.+++|+. ..+.++++-..|.+++-...+.+= |++.|-.-++ ..|++|=.+=.++...|..-+.. ...
T Consensus 100 AMgTTaKTM~amNk~M~pek~~~tmr~FQ~anmKMemTeEMiNDTLDdild~sgDeeEs~aiVNqVLDEIGIEisgKma~ 179 (208)
T KOG3231|consen 100 AMGTTAKTMQAMNKKMDPEKTLQTMRNFQKANMKMEMTEEMINDTLDDILDGSGDEEESQAIVNQVLDEIGIEISGKMAK 179 (208)
T ss_pred HhchHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHHHhcCCCcHHHHHHHHHHHHHHhhhhhcchhcc
Confidence 99999999998 488999999999999876555433 3444421111 23555555555555555443321 123
Q ss_pred CCCC-CCCCC-CCcccHHHHHHHhccCC
Q 013999 376 VSKT-GVNEP-AASESAESLRVAFSTIG 401 (432)
Q Consensus 376 ~p~~-~~~~~-~~~~~~~~l~~~L~~L~ 401 (432)
+|.+ +.+.. +...+..+++.+|..|.
T Consensus 180 ~P~a~s~~~~st~kat~~Die~QLa~Lr 207 (208)
T KOG3231|consen 180 APSARSLPSASTSKATISDIERQLAALR 207 (208)
T ss_pred CCccCCCCccccCCCcHHHHHHHHHHhc
Confidence 3321 11111 11245556888887764
No 18
>PTZ00464 SNF-7-like protein; Provisional
Probab=97.06 E-value=0.036 Score=52.34 Aligned_cols=92 Identities=8% Similarity=0.052 Sum_probs=64.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhcCCHHHHHHHHHHH-HHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 013999 223 LHLIWTVEKLQLQLDIIDRHYEMSRKS---ALASLHSGNKTVALRHAKQL-KLTKESREKCTSLLNRVEEVLSLIENAES 298 (432)
Q Consensus 223 ~~Lk~~~~~L~~~i~~Le~~i~~~~~~---ak~~~~~~~k~~A~~~Lr~K-K~~ek~l~~~~~~l~~le~~l~~Ie~a~~ 298 (432)
..++.++..|..+++.|+++|..+... ||+++++++. .+....|++ +.+-+.-.....++.++...+.++++...
T Consensus 14 ~t~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k~~~~-~~~~~~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq~~~ 92 (211)
T PTZ00464 14 PTLEDASKRIGGRSEVVDARINKIDAELMKLKEQIQRTRG-MTQSRHKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQLQF 92 (211)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468889999999999999999888754 7777776654 444444443 22334444466778888888888888877
Q ss_pred HHHHHHHHHHHHHHHHh
Q 013999 299 TKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 299 n~~v~~al~~g~~aLk~ 315 (432)
..+-...=..-..+|+.
T Consensus 93 ~ie~a~~~~~vv~amk~ 109 (211)
T PTZ00464 93 TTESVKDTKVQVDAMKQ 109 (211)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 77666655555555554
No 19
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.95 E-value=0.26 Score=45.38 Aligned_cols=93 Identities=13% Similarity=0.066 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHH-HHHHHHHHhHHHHHHHHHHHHHHHHH
Q 013999 223 LHLIWTVEKLQLQLDIIDRHYEMSRKSALASLH---SGNKTVALRHAKQLKLT-KESREKCTSLLNRVEEVLSLIENAES 298 (432)
Q Consensus 223 ~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~---~~~k~~A~~~Lr~KK~~-ek~l~~~~~~l~~le~~l~~Ie~a~~ 298 (432)
-.|...+..+.++-+.++.+|..+......|-. +-+---|+..||+|-+- -++-.-..++..+|.++-...++|+.
T Consensus 15 psL~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~R~gpaq~~~KqrAlrVLkQKK~yE~q~d~L~~QsfNMeQa~~ 94 (218)
T KOG1655|consen 15 PSLQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKTRPGPAQNALKQRALRVLKQKKMYENQKDSLDQQSFNMEQANF 94 (218)
T ss_pred hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence 568899999999999999999999998776643 22334589999988763 34445566788888888888888888
Q ss_pred HHHHHHHHHHHHHHHHh
Q 013999 299 TKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 299 n~~v~~al~~g~~aLk~ 315 (432)
..+-+.--.+...|||.
T Consensus 95 t~e~LKdtq~Tv~AmK~ 111 (218)
T KOG1655|consen 95 TAESLKDTQATVAAMKD 111 (218)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 87777777777777775
No 20
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=94.57 E-value=1.6 Score=40.64 Aligned_cols=76 Identities=9% Similarity=0.043 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--HHHHHHH---HHhHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKL--TKESREK---CTSLLNRVEEVLSLIENAES 298 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~--~ek~l~~---~~~~l~~le~~l~~Ie~a~~ 298 (432)
..+.++.+|..+++.|+++...+..++-.. ...|+.++++.|. +-..|-+ ...++.++...+.++++...
T Consensus 24 ~~~~AIl~Lk~~~~~L~krq~~Le~kIe~e-----~~~Ak~~~~~~kk~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~ 98 (191)
T PTZ00446 24 EIYKAILKNREAIDALEKKQVQVEKKIKQL-----EIEAKQKVEQNQMSNAKILLKRKKLYEQEIENILNNRLTLEDNMI 98 (191)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 388999999999999999999999887543 2457777766553 3333333 34556666666666666555
Q ss_pred HHHHHH
Q 013999 299 TKKVSE 304 (432)
Q Consensus 299 n~~v~~ 304 (432)
+.+-..
T Consensus 99 ~iE~a~ 104 (191)
T PTZ00446 99 NLENMH 104 (191)
T ss_pred HHHHHH
Confidence 544444
No 21
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=91.58 E-value=0.63 Score=41.76 Aligned_cols=82 Identities=15% Similarity=0.152 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 013999 228 TVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLK-----LTKESREKCTSLLNRVEEVLSLIENAESTKKV 302 (432)
Q Consensus 228 ~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK-----~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v 302 (432)
++..|...+..|++++..+..+++.+ +..|+.++++.+ .+-+..-+...++.++...+.+++......+.
T Consensus 2 ai~~Lk~~~~~L~~~~~~le~~i~~~-----~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~~~~~~ie~ 76 (171)
T PF03357_consen 2 AILKLKKTIRRLEKQIKRLEKKIKKL-----EKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLESVLLQIET 76 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC-----HHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677777777777766665533 344555555432 23334444445555555555555555555544
Q ss_pred HHHHHHHHHHHH
Q 013999 303 SEAIQIGAQAIK 314 (432)
Q Consensus 303 ~~al~~g~~aLk 314 (432)
......-..+|+
T Consensus 77 a~~~~~v~~al~ 88 (171)
T PF03357_consen 77 AQSNQQVVKALK 88 (171)
T ss_dssp HHHHHHHSSS--
T ss_pred HHHHHHHHHHHH
Confidence 444444444444
No 22
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.12 E-value=13 Score=34.55 Aligned_cols=143 Identities=17% Similarity=0.182 Sum_probs=106.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH---HHHHhHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESR---EKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l---~~~~~~l~~le~~l~~I 293 (432)
..++++-.|...+..|+.|-++|=.+|.. .||.---..-|..|+.+.|.|....+.. .++.+--..++++.++-
T Consensus 20 al~~a~ReleRer~~le~qeKklvaeIKk---~AK~gq~~A~KimAkdLvRtR~~i~kf~~~kaqiqaVSl~iQtlkss~ 96 (224)
T KOG3230|consen 20 ALNKATRELERERQKLELQEKKLVAEIKK---TAKQGQMDAVKIMAKDLVRTRRYIKKFQNMKAQIQAVSLRIQTLKSST 96 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 45667778888888888888877666544 4554333335788999999888777654 45566677889999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh---cCC--ChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHH
Q 013999 294 ENAESTKKVSEAIQIGAQAIKK---NKI--SVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQEV 367 (432)
Q Consensus 294 e~a~~n~~v~~al~~g~~aLk~---~~i--~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~E~ 367 (432)
..++.=+-+-.||..=|+-|.- ..| ..++--++||--+|.|. +-|+++|+. +.||+|-++=-++-..|.
T Consensus 97 sma~aMkGaTkam~~MNrqmnlpq~qkIm~eFekQse~Mdm~~Emm~--daIDdal~~---~edEEEtd~lvnqVLDEi 170 (224)
T KOG3230|consen 97 SMAQAMKGATKAMAGMNRQMNLPQIQKIMQEFEKQSEIMDMKEEMMD--DAIDDALGD---DEDEEETDDLVNQVLDEI 170 (224)
T ss_pred HHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhcc---cchhHHHHHHHHHHHHHH
Confidence 9999999999999999999884 233 78999999999888776 468999964 446666665555555554
No 23
>COG5491 VPS24 Conserved protein implicated in secretion [Cell motility and secretion]
Probab=90.80 E-value=15 Score=34.63 Aligned_cols=94 Identities=18% Similarity=0.245 Sum_probs=45.4
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-c---CC--ChHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 013999 274 ESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKK-N---KI--SVEELQLCLEELEESIDLQKQAEKVIVPS 347 (432)
Q Consensus 274 k~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~-~---~i--~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~ 347 (432)
+...|+......|+++-..+........|..-|..++..+.. . .| .++.+...|+-++.-++...|..+...+
T Consensus 49 ~~~srL~~~~sRLqs~~~~~~e~~~m~~v~~~~~~a~~~mnel~~i~ri~~~~et~~~~mE~~~~~le~m~e~~~v~~~- 127 (204)
T COG5491 49 KARSRLDASISRLQSLDTMLFEKVVMRQVSGDMAKAAMYMNELESIRRIMQLFETQFLALELVQLRLETMDELMDVVVG- 127 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc-
Confidence 344555555556666555566666666666666666666653 1 11 2333333333333322333333332222
Q ss_pred CC-CCCHHHHHHHHHHHHHHHh
Q 013999 348 YT-GIDDEDIEEEFKKLEQEVE 368 (432)
Q Consensus 348 ~~-~~De~ELe~EL~~Le~E~~ 368 (432)
.. ..+.++++++++.+.-|..
T Consensus 128 ~~v~~~l~~lde~v~~v~pEi~ 149 (204)
T COG5491 128 DPVLEDLEELDELVNKVLPEIG 149 (204)
T ss_pred chhhhhHHHHHHHHHhhchhhh
Confidence 11 2346666666666654433
No 24
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=88.24 E-value=2.2 Score=31.97 Aligned_cols=44 Identities=18% Similarity=0.300 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 013999 237 DIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCT 280 (432)
Q Consensus 237 ~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~ 280 (432)
+.|+.+...++..|.++-++|+-..|+.++|.=|.++..+....
T Consensus 2 ~~L~~R~~~yk~Aa~~AK~~gd~~kAr~~~R~~K~~~~~I~~~~ 45 (59)
T smart00685 2 ALLQQRQEQYKQAALQAKRAGDEEKARRHLRIAKQFDDAIKAAR 45 (59)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhhHHHHHHHHH
Confidence 56888999999999999999999999999999999999887653
No 25
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.91 E-value=20 Score=37.19 Aligned_cols=84 Identities=17% Similarity=0.073 Sum_probs=54.5
Q ss_pred CCCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH--HHHHHHHH---HHHHhHHHHHH
Q 013999 214 SISSLDYD-VLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQ--LKLTKESR---EKCTSLLNRVE 287 (432)
Q Consensus 214 ~Ite~D~~-I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~--KK~~ek~l---~~~~~~l~~le 287 (432)
.|+..|-+ |-.+-..+..|.+-+..|.++|+.+.+++.++ ++.|+.++|. |+++...| .....-+....
T Consensus 219 ~i~~~~~~~it~~D~~V~~L~~~~~~L~kqie~L~qeie~~-----~~~~r~~~k~g~K~iA~~ylr~rk~~eK~~er~~ 293 (439)
T KOG2911|consen 219 QIPSQDASIITEIDGSVADLIQARAKLAKQIEFLEQEIEKS-----KEKLRQALKEGKKQIAITYLRARKLLEKDLERKV 293 (439)
T ss_pred cCCcccccCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhcchHHHHHHHHHHHHHHhhHHHHH
Confidence 44444444 88999999999999999999999999998754 4556666664 33333333 33334455555
Q ss_pred HHHHHHHHHHHHHHH
Q 013999 288 EVLSLIENAESTKKV 302 (432)
Q Consensus 288 ~~l~~Ie~a~~n~~v 302 (432)
..+.+++.-.++..-
T Consensus 294 ~~l~~l~~vl~~Id~ 308 (439)
T KOG2911|consen 294 SSLNNLETVLSQIDN 308 (439)
T ss_pred HHHHHHHHHHHHHHh
Confidence 555555555554443
No 26
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=78.93 E-value=13 Score=35.69 Aligned_cols=94 Identities=11% Similarity=0.173 Sum_probs=57.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENA 296 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a 296 (432)
+-..++-=|+.+++.|..|++.++.+++.+...-+.- +.+. .--.+.-.++..+++..-.+.+|+.++
T Consensus 119 ek~e~~~wl~~~Id~L~~QiE~~E~E~E~L~~~~kKk-k~~~-----~~~~r~~~l~~~ierhk~Hi~kLE~lL------ 186 (233)
T PF04065_consen 119 EKEEARDWLKDSIDELNRQIEQLEAEIESLSSQKKKK-KKDS-----TKQERIEELESRIERHKFHIEKLELLL------ 186 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-ccCc-----cchhHHHHHHHHHHHHHHHHHHHHHHH------
Confidence 3445677889999999999999999998877643211 0011 111122234444444444444444444
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 013999 297 ESTKKVSEAIQIGAQAIKKNKISVEELQLCLEELEESIDL 336 (432)
Q Consensus 297 ~~n~~v~~al~~g~~aLk~~~i~~e~Ve~~~ddi~E~~~~ 336 (432)
..|.+..++++.|+++-++|.--++.
T Consensus 187 --------------R~L~N~~l~~e~V~~ikedieyYve~ 212 (233)
T PF04065_consen 187 --------------RLLDNDELDPEQVEDIKEDIEYYVES 212 (233)
T ss_pred --------------HHHHcCCCCHHHHHHHHHHHHHHHHc
Confidence 34444577899999988888866654
No 27
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=78.42 E-value=79 Score=33.41 Aligned_cols=102 Identities=21% Similarity=0.141 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLD---IIDRHYEMSRKSALASLHSG-NKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENA 296 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~---~Le~~i~~~~~~ak~~~~~~-~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a 296 (432)
.|.+||.+-++|..+|+ .+...|+.++++-|+.-..- +-+.+...|+.|+. .+..-++.+...|+.-
T Consensus 272 ~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~---------~~~g~l~kl~~eie~k 342 (622)
T COG5185 272 DIANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQ---------EWPGKLEKLKSEIELK 342 (622)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH---------hcchHHHHHHHHHHHH
Confidence 45566666666666554 44555555555544333222 33555666666542 3334445555555555
Q ss_pred HHHHHHHHHHHHHHHHH-HhcCCChHHHHHHHHHHH
Q 013999 297 ESTKKVSEAIQIGAQAI-KKNKISVEELQLCLEELE 331 (432)
Q Consensus 297 ~~n~~v~~al~~g~~aL-k~~~i~~e~Ve~~~ddi~ 331 (432)
......+++=..|-.+. .+.+|++++++.+..+=.
T Consensus 343 Eeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere 378 (622)
T COG5185 343 EEEIKALQSNIDELHKQLRKQGISTEQFELMNQERE 378 (622)
T ss_pred HHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 55444333333332222 225889998887765544
No 28
>PRK11637 AmiB activator; Provisional
Probab=77.22 E-value=83 Score=32.83 Aligned_cols=13 Identities=8% Similarity=0.427 Sum_probs=6.4
Q ss_pred CHHHHHHHHHHHH
Q 013999 352 DDEDIEEEFKKLE 364 (432)
Q Consensus 352 De~ELe~EL~~Le 364 (432)
++..|..+++++.
T Consensus 241 ~~~~L~~~I~~l~ 253 (428)
T PRK11637 241 NESRLRDSIARAE 253 (428)
T ss_pred HHHHHHHHHHHHH
Confidence 3444555555544
No 29
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=75.59 E-value=76 Score=37.20 Aligned_cols=134 Identities=13% Similarity=0.191 Sum_probs=76.1
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-H
Q 013999 214 SISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLS-L 292 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~-~ 292 (432)
.+|-.+.|...-+.+...|.......++-+....+.-+.+ ..-++.|.+.|-+-+..-.+.++...-+.||-+.+. -
T Consensus 1406 a~t~A~~A~~~A~~~~~~l~~~~ae~eq~~~~v~ea~~~a--seA~~~Aq~~~~~a~as~~q~~~s~~el~~Li~~v~~F 1483 (1758)
T KOG0994|consen 1406 AVTRAGGALLMAGDADTQLRSKLAEAEQTLSMVREAKLSA--SEAQQSAQRALEQANASRSQMEESNRELRNLIQQVRDF 1483 (1758)
T ss_pred hhcccchHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566655555555555555555555444443321111 123455665555544444444444444444333222 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCC
Q 013999 293 IENAESTKKVSEAIQIGAQAIKK-NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGI 351 (432)
Q Consensus 293 Ie~a~~n~~v~~al~~g~~aLk~-~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~ 351 (432)
+.+-..+..-++. .+.++|+. ..++.+.|..++++|+|..+....|..+|.....++
T Consensus 1484 lt~~~adp~si~~--vA~~vL~l~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~~T~~di 1541 (1758)
T KOG0994|consen 1484 LTQPDADPDSIEE--VAEEVLALELPLTPEQIQQLTGEIQERVASLPNVDAILSRTKGDI 1541 (1758)
T ss_pred hcCCCCCHHHHHH--HHHHHHhccCCCCHHHHHHHHHHHHHHHHhcccHHHHHHhhhhhH
Confidence 2222333343433 35677776 688999999999999999999999999996644443
No 30
>PF10506 MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for Usher syndrome; InterPro: IPR019536 The entry represents a protein that has a high homology to the tumour suppressor Usher syndrome type-1C protein-binding protein 1, or known as MCC2 (mutated in colon cancer). MCC2 protein binds the first PDZ domain of AIE-75 with its C-terminal amino acids -DTFL. A possible role of MCC2 as a tumour suppressor has been put forward. The carboxyl terminus of the predicted protein was DTFL which matched the consensus motif X-S/T-X-phi (phi: hydrophobic amino acid residue) for binding to the PDZ domain of AIE-75 [, ].
Probab=75.32 E-value=26 Score=26.97 Aligned_cols=64 Identities=14% Similarity=0.131 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKSA-LASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVE 287 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~a-k~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le 287 (432)
.|+..++.|.-+.+.|..-.+.++..+ .-.+.-|+.+.+..+||-++.+.....+...++..|.
T Consensus 2 rL~~~ie~L~~~n~~L~~~le~~k~~se~Ls~~lgk~es~~~alrlal~ys~r~~e~~~~llal~ 66 (67)
T PF10506_consen 2 RLKRRIEELKSQNEMLSSTLEERKQQSEELSMDLGKYESNATALRLALKYSERCKEAYEVLLALV 66 (67)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 467777888888888888887777763 3455677889999999999999998888888877653
No 31
>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=74.29 E-value=65 Score=29.82 Aligned_cols=81 Identities=16% Similarity=0.129 Sum_probs=44.5
Q ss_pred cccchhhHHhhhCC-----cchHHHHHHHHhccCccceeeeecCCceeEEEeeCCCCcCCCCCchhHHHHHHHHHHHHHH
Q 013999 159 CIITMKKFQDKCGG-----QDEASAVLSFLTGRGKALYLSISKNEFTEGVKVSLSPAAVSSISSLDYDVLHLIWTVEKLQ 233 (432)
Q Consensus 159 ~v~s~~ef~~~~~~-----~~d~~vlL~yL~~~~~~k~v~~~~~~~~~~IKf~~~~~~~~~Ite~D~~I~~Lk~~~~~L~ 233 (432)
.+|++.++-.++.. ..-+.=+|.-|..+|. |.+-+ =|.--+-.+.|+ .+...++.....|+
T Consensus 10 ~~y~lKELEK~~pK~~gI~~~~VKdvlq~LvDDgl---V~~EK-iGssn~YWsFps----------~~~~~~~~~~~~l~ 75 (188)
T PF03962_consen 10 DFYTLKELEKLAPKEKGIVSMSVKDVLQSLVDDGL---VHVEK-IGSSNYYWSFPS----------QAKQKRQNKLEKLQ 75 (188)
T ss_pred CcccHHHHHHHcccccCCchhhHHHHHHHHhcccc---chhhh-ccCeeEEEecCh----------HHHHHHHHHHHHHH
Confidence 37899999887654 2233336666765553 32211 111112334431 13346666677777
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 013999 234 LQLDIIDRHYEMSRKSALAS 253 (432)
Q Consensus 234 ~~i~~Le~~i~~~~~~ak~~ 253 (432)
++++.++.+|..+....-..
T Consensus 76 ~~~~~~~~~i~~l~~~i~~~ 95 (188)
T PF03962_consen 76 KEIEELEKKIEELEEKIEEA 95 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 77777777777766665444
No 32
>PRK14127 cell division protein GpsB; Provisional
Probab=70.41 E-value=20 Score=30.25 Aligned_cols=77 Identities=10% Similarity=0.241 Sum_probs=40.6
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCcccHHHHHHH
Q 013999 317 KISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQEVECERPKPTVSKTGVNEPAASESAESLRVA 396 (432)
Q Consensus 317 ~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~E~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~ 396 (432)
|.+.++||..+|+|.+..+....-...|.. .-..|+++|+++......-. ..+......+....+.=+++.+
T Consensus 22 GYd~~EVD~FLd~V~~dye~l~~e~~~Lk~-----e~~~l~~~l~e~~~~~~~~~---~~~~~~~~~~~~~~tn~DiLKR 93 (109)
T PRK14127 22 GYDQDEVDKFLDDVIKDYEAFQKEIEELQQ-----ENARLKAQVDELTKQVSVGA---SSSSVATTQPSSSATNYDILKR 93 (109)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhhcccc---ccccccccCCCCCcchHHHHHH
Confidence 889999999999999766655433333322 22345555555554433211 0100000011113455567888
Q ss_pred hccCC
Q 013999 397 FSTIG 401 (432)
Q Consensus 397 L~~L~ 401 (432)
|++|.
T Consensus 94 ls~LE 98 (109)
T PRK14127 94 LSNLE 98 (109)
T ss_pred HHHHH
Confidence 88774
No 33
>KOG3229 consensus Vacuolar sorting protein VPS24 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.72 E-value=1e+02 Score=29.08 Aligned_cols=28 Identities=18% Similarity=0.251 Sum_probs=22.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYE 244 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~ 244 (432)
..|+.|.+|+.-..+.++.|+..-++-+
T Consensus 29 ~ldrqir~iqree~kv~~~iK~aAKknD 56 (227)
T KOG3229|consen 29 QLDRQIRDIQREEEKVQKSIKQAAKKND 56 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5789999999999998888887766643
No 34
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=66.25 E-value=2e+02 Score=31.27 Aligned_cols=52 Identities=17% Similarity=0.089 Sum_probs=38.0
Q ss_pred HhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 254 LHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEA 305 (432)
Q Consensus 254 ~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~a 305 (432)
++..-+..-+.+|..+..+-..++.+...|.+++......+....+..-++|
T Consensus 141 l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A 192 (560)
T PF06160_consen 141 LKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEA 192 (560)
T ss_pred HHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence 3444455566777777788888888888888888888888888777554444
No 35
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=65.44 E-value=1e+02 Score=33.51 Aligned_cols=55 Identities=15% Similarity=0.052 Sum_probs=37.3
Q ss_pred HhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 254 LHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQI 308 (432)
Q Consensus 254 ~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~ 308 (432)
++..-+..-+..|-.+..+-..+..+...|.+++....+.+....+...++|-..
T Consensus 145 l~~~y~~~rk~ll~~~~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~ 199 (569)
T PRK04778 145 LKDLYRELRKSLLANRFSFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREI 199 (569)
T ss_pred HHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence 3444455556666667777777778888888888888877777777665555443
No 36
>PRK04863 mukB cell division protein MukB; Provisional
Probab=65.28 E-value=3.3e+02 Score=33.44 Aligned_cols=31 Identities=10% Similarity=0.303 Sum_probs=15.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 216 SSLDYDVLHLIWTVEKLQLQLDIIDRHYEMS 246 (432)
Q Consensus 216 te~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~ 246 (432)
...+..+..+...+..|..++..|+.+++..
T Consensus 303 e~tE~nL~rI~diL~ELe~rL~kLEkQaEkA 333 (1486)
T PRK04863 303 AAEQYRLVEMARELAELNEAESDLEQDYQAA 333 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555555555554443
No 37
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=63.48 E-value=42 Score=29.33 Aligned_cols=65 Identities=12% Similarity=0.114 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 013999 230 EKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIE 294 (432)
Q Consensus 230 ~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie 294 (432)
..|+.++..++.++..+...++..+....++.+-..=.-+..+++...++..+..+|...+.+++
T Consensus 23 ~~l~~~i~~~d~el~QLefq~kr~~~e~~~~~~~~~~~i~~q~~~e~~~r~e~k~~l~~ql~qv~ 87 (131)
T PF11068_consen 23 QELQEQIQQLDQELQQLEFQGKRMIKEIKKQNAQQIQSIQQQFEQEKQERLEQKNQLLQQLEQVQ 87 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555566666666666666666555443332222333334566666666666666665555544
No 38
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.45 E-value=1.7e+02 Score=28.73 Aligned_cols=63 Identities=16% Similarity=0.188 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCC-----------ChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHH
Q 013999 298 STKKVSEAIQIGAQAIKKNKI-----------SVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQ 365 (432)
Q Consensus 298 ~n~~v~~al~~g~~aLk~~~i-----------~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~ 365 (432)
.|+.+++..+.--..|+.... -.-+.+..+++|+.+....+-+-..+.. ++.....|...|+.
T Consensus 145 aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~qk~e~~~l~~~~aa-----~~a~~~~e~a~l~~ 218 (265)
T COG3883 145 ADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNSQKAEKNALIAALAA-----KEASALGEKAALEE 218 (265)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHhHHHHHHHHH
Confidence 456666666666666664211 2233445555555544444433333333 55666666666663
No 39
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=61.16 E-value=70 Score=24.74 Aligned_cols=47 Identities=13% Similarity=0.051 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Q 013999 233 QLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKC 279 (432)
Q Consensus 233 ~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~ 279 (432)
..=...++.++..+......++..++-..|...+++-+.+.+.++.+
T Consensus 30 ~~l~~~~~~~~~~~~~~l~~~f~~~d~~~A~~~~~kLky~~kl~~~i 76 (78)
T PF07743_consen 30 EELKKEIEERIKELIKELAEAFDAKDWEEAKEALRKLKYLQKLLEEI 76 (78)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHHHHh
Confidence 33344566667777777777888999999999999999998887764
No 40
>PRK11637 AmiB activator; Provisional
Probab=58.89 E-value=2.3e+02 Score=29.50 Aligned_cols=32 Identities=6% Similarity=0.142 Sum_probs=14.1
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 216 SSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSR 247 (432)
Q Consensus 216 te~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~ 247 (432)
.+....|-.+...+..++.+|..++.+++...
T Consensus 92 ~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~ 123 (428)
T PRK11637 92 RETQNTLNQLNKQIDELNASIAKLEQQQAAQE 123 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444433
No 41
>PRK11020 hypothetical protein; Provisional
Probab=58.36 E-value=84 Score=26.69 Aligned_cols=85 Identities=8% Similarity=0.090 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 231 KLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLN-RVEEVLSLIENAESTKKVSEAIQIG 309 (432)
Q Consensus 231 ~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~-~le~~l~~Ie~a~~n~~v~~al~~g 309 (432)
++.+.|+.|..+++.++.+.-.+...|+...-..+.+.+--+++.++++-.... .|..--..+-.--.+..+-.+=++-
T Consensus 2 ~~K~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~~~~~~lske~~~l~~lpF~R~iTK~EQAD 81 (118)
T PRK11020 2 VEKNEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIARLKEVQSQKLSKEAQKLMKLPFSRAITKKEQAD 81 (118)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchhccHHHHHh
Confidence 356677888888888888877788899999888888888888888877655432 2333333333333344444444444
Q ss_pred HHHHHh
Q 013999 310 AQAIKK 315 (432)
Q Consensus 310 ~~aLk~ 315 (432)
-..||.
T Consensus 82 MGkLKK 87 (118)
T PRK11020 82 MGKLKK 87 (118)
T ss_pred HHHHhh
Confidence 444443
No 42
>PRK10869 recombination and repair protein; Provisional
Probab=57.62 E-value=2.4e+02 Score=30.66 Aligned_cols=25 Identities=8% Similarity=0.214 Sum_probs=18.4
Q ss_pred cccCccEeehHHHHHHHHHHHHHHh
Q 013999 127 ILLKDHVILMEVLKDKADEVIKLLS 151 (432)
Q Consensus 127 ~l~~~~~V~~~~l~~~a~~i~~~~~ 151 (432)
+-.+++-|-...|++++..++....
T Consensus 105 ~~INg~~v~~~~l~~l~~~li~ihg 129 (553)
T PRK10869 105 GFINGTPVPLSQLRELGQLLIQIHG 129 (553)
T ss_pred EEECCeeccHHHHHHHHHhhhheeC
Confidence 4457777888888888888776543
No 43
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=56.73 E-value=1.9e+02 Score=31.43 Aligned_cols=17 Identities=0% Similarity=0.233 Sum_probs=10.4
Q ss_pred HHHHHHhccCCcCCCCC
Q 013999 391 ESLRVAFSTIGLNDGQA 407 (432)
Q Consensus 391 ~~l~~~L~~L~~~d~~~ 407 (432)
+.....|..|.++....
T Consensus 382 ~~v~~~l~~L~m~~~~f 398 (563)
T TIGR00634 382 KRVEQELKALAMEKAEF 398 (563)
T ss_pred HHHHHHHHhCCCCCcEE
Confidence 44556777777766443
No 44
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=55.50 E-value=2.8e+02 Score=29.33 Aligned_cols=89 Identities=10% Similarity=0.060 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 013999 223 LHLIWTVEKLQLQLDIIDR-HYEMSRKSALASLHSG--NKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAEST 299 (432)
Q Consensus 223 ~~Lk~~~~~L~~~i~~Le~-~i~~~~~~ak~~~~~~--~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n 299 (432)
.+|..++.-.+..+..+++ +++..++.....+... -+..-......||..|+.+.++...+..++.-+..+. ..|
T Consensus 328 sqleSqr~y~e~~~~e~~qsqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~~--E~n 405 (493)
T KOG0804|consen 328 SQLESQRKYYEQIMSEYEQSQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKEER--EEN 405 (493)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH
Confidence 3555555555555555555 5555444444333322 1334455667788889999888888888888877766 445
Q ss_pred HHHHHHHHHHHHHH
Q 013999 300 KKVSEAIQIGAQAI 313 (432)
Q Consensus 300 ~~v~~al~~g~~aL 313 (432)
+.+.+-...=..-+
T Consensus 406 ~~l~knq~vw~~kl 419 (493)
T KOG0804|consen 406 KKLIKNQDVWRGKL 419 (493)
T ss_pred HHHHhhHHHHHHHH
Confidence 55544444333333
No 45
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=53.24 E-value=1.6e+02 Score=25.78 Aligned_cols=64 Identities=11% Similarity=0.193 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 013999 230 EKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIEN 295 (432)
Q Consensus 230 ~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~ 295 (432)
..|.++++..+..+......+.+ ++++-...-.+|.+-..+...|.++...++.+-..+.+|.+
T Consensus 52 ~~L~~riKevd~~~~~l~~~~~e--rqk~~~k~ae~L~kv~els~~L~~~~~lL~~~v~~ie~LN~ 115 (131)
T PF10158_consen 52 NALAKRIKEVDQEIAKLLQQMVE--RQKRFAKFAEQLEKVNELSQQLSRCQSLLNQTVPSIETLNE 115 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444444444444444333322 12222333456666666666666666666666666665554
No 46
>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=53.23 E-value=1.7e+02 Score=26.24 Aligned_cols=96 Identities=13% Similarity=0.190 Sum_probs=44.4
Q ss_pred HHHHHHHHhh--ccccCccccchhhHHhhhCC---cchHHHHHHHHhccCccceeeeecCCceeEEEeeCCCCcCCCCCc
Q 013999 143 ADEVIKLLSE--SHWTSSCIITMKKFQDKCGG---QDEASAVLSFLTGRGKALYLSISKNEFTEGVKVSLSPAAVSSISS 217 (432)
Q Consensus 143 a~~i~~~~~~--~~~~sd~v~s~~ef~~~~~~---~~d~~vlL~yL~~~~~~k~v~~~~~~~~~~IKf~~~~~~~~~Ite 217 (432)
.+.|++++.. .+++ ...+..-++. ..-+.-+|.-|...|+ + +.+.-|...|.|+.. ...+..|+
T Consensus 3 e~~Il~y~~~qNRPys------~~di~~nL~~~~~K~~v~k~Ld~L~~~g~---i-~~K~~GKqkiY~~~Q-~~~~~~s~ 71 (169)
T PF07106_consen 3 EDAILEYMKEQNRPYS------AQDIFDNLHNKVGKTAVQKALDSLVEEGK---I-VEKEYGKQKIYFANQ-DELEVPSP 71 (169)
T ss_pred HHHHHHHHHHcCCCCc------HHHHHHHHHhhccHHHHHHHHHHHHhCCC---e-eeeeecceEEEeeCc-cccCCCCc
Confidence 4566777665 3333 2233332322 2345557777876664 3 333344455666642 11122232
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSAL 251 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak 251 (432)
.+ +..|...+..|..++..|...+..+....+
T Consensus 72 ee--l~~ld~ei~~L~~el~~l~~~~k~l~~eL~ 103 (169)
T PF07106_consen 72 EE--LAELDAEIKELREELAELKKEVKSLEAELA 103 (169)
T ss_pred hh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 22 333333355555555555555554444433
No 47
>COG5491 VPS24 Conserved protein implicated in secretion [Cell motility and secretion]
Probab=52.24 E-value=2.1e+02 Score=26.98 Aligned_cols=111 Identities=15% Similarity=0.137 Sum_probs=59.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAE 297 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~ 297 (432)
.=..++++..+..+|...+..|+..-.....+.....-.|....|..+++.--.+.+--.....+..-++.+...|+...
T Consensus 40 l~~~~~~~~~~~srL~~~~sRLqs~~~~~~e~~~m~~v~~~~~~a~~~mnel~~i~ri~~~~et~~~~mE~~~~~le~m~ 119 (204)
T COG5491 40 LAEELYKLRKARSRLDASISRLQSLDTMLFEKVVMRQVSGDMAKAAMYMNELESIRRIMQLFETQFLALELVQLRLETMD 119 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777888888888777777765555555555556677777777766433333333333333333333333333222
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCh-HHHHHHHHHHHHHHH-HHHHHHHhh
Q 013999 298 STKKVSEAIQIGAQAIKKNKISV-EELQLCLEELEESID-LQKQAEKVI 344 (432)
Q Consensus 298 ~n~~v~~al~~g~~aLk~~~i~~-e~Ve~~~ddi~E~~~-~~~EI~~~L 344 (432)
.. .++.+ +.|.....++.|.+. -..||+-.|
T Consensus 120 e~----------------~~v~~~~~v~~~l~~lde~v~~v~pEi~lel 152 (204)
T COG5491 120 EL----------------MDVVVGDPVLEDLEELDELVNKVLPEIGLEL 152 (204)
T ss_pred HH----------------hccCccchhhhhHHHHHHHHHhhchhhhhhh
Confidence 11 23322 456666666666555 344554444
No 48
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=51.15 E-value=2.1e+02 Score=26.68 Aligned_cols=59 Identities=14% Similarity=0.168 Sum_probs=38.2
Q ss_pred CCHHHHHHHHHHHH-----HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013999 257 GNKTVALRHAKQLK-----LTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 257 ~~k~~A~~~Lr~KK-----~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~ 315 (432)
..|+.|+.|+|... ++-+.---....+.+....+.+||+..++.+.-..-+.-..-||+
T Consensus 41 ~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~ 104 (209)
T KOG2910|consen 41 AERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQ 104 (209)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888542 222222223456677778888888888888877666666666664
No 49
>TIGR03687 pupylate_cterm ubiquitin-like protein Pup. Members of this protein family are Pup, a small protein whose ligation to target proteins steers them toward degradation. This protein family occurs in a number of bacteria, especially Actinobacteria such as Mycobacterium tuberculosis, that possess an archeal-type proteasome. All members of this protein family known during model construction end with the C-terminal motif [FY][VI]QKGG[QE]. Ligation is thought to occur between the C-terminal COOH of Pup and an epsilon-amino group of a Lys on the target protein. The N-terminal half of this protein is poorly conserved and not represented in the seed alignment.
Probab=49.91 E-value=22 Score=23.23 Aligned_cols=19 Identities=16% Similarity=0.342 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 013999 321 EELQLCLEELEESIDLQKQ 339 (432)
Q Consensus 321 e~Ve~~~ddi~E~~~~~~E 339 (432)
+++|+++|+|.+.++..-|
T Consensus 3 ~~~D~lLDeId~vLe~NAe 21 (33)
T TIGR03687 3 EGVDDLLDEIDGVLESNAE 21 (33)
T ss_pred chHHHHHHHHHHHHHHhHH
Confidence 5789999999988876543
No 50
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=49.81 E-value=45 Score=32.91 Aligned_cols=33 Identities=15% Similarity=0.088 Sum_probs=29.0
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 013999 255 HSGNKTVALRHAKQLKLTKESREKCTSLLNRVE 287 (432)
Q Consensus 255 ~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le 287 (432)
-.++|+.|+.|=|+||.|-|=|+++.+-|.|=.
T Consensus 296 LmKNREAARECRRKKKEYVKCLENRVAVLENQN 328 (348)
T KOG3584|consen 296 LMKNREAARECRRKKKEYVKCLENRVAVLENQN 328 (348)
T ss_pred HHhhHHHHHHHHHhHhHHHHHHHhHHHHHhccc
Confidence 356899999999999999999999999888743
No 51
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=49.55 E-value=1.2e+02 Score=29.55 Aligned_cols=70 Identities=16% Similarity=0.146 Sum_probs=54.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 013999 219 DYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEE 288 (432)
Q Consensus 219 D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~ 288 (432)
..+...|.+....|+..|+.||++-+.++++.+....-..-..|.+.--=|..+...|..+...-.+|+=
T Consensus 3 ~~~L~eL~qrk~~Lq~eIe~LerR~~ri~~EmrtsFaG~Sq~lA~RVqGFkdYLvGsLQDLa~saEqLeL 72 (283)
T PF11285_consen 3 QEALKELEQRKQALQIEIEQLERRRERIEKEMRTSFAGQSQDLAIRVQGFKDYLVGSLQDLAQSAEQLEL 72 (283)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHhhhHHHHHHHHHHHHHHHHhhcc
Confidence 4577889999999999999999999999999998766556777877766666766666666665555543
No 52
>PHA02562 46 endonuclease subunit; Provisional
Probab=49.54 E-value=3.6e+02 Score=28.86 Aligned_cols=26 Identities=12% Similarity=0.127 Sum_probs=16.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhC
Q 013999 320 VEELQLCLEELEESIDLQKQAEKVIV 345 (432)
Q Consensus 320 ~e~Ve~~~ddi~E~~~~~~EI~~~L~ 345 (432)
.+.+..+.|.+.+.....+++.+.+.
T Consensus 298 ~~~~~~l~d~i~~l~~~l~~l~~~i~ 323 (562)
T PHA02562 298 PDRITKIKDKLKELQHSLEKLDTAID 323 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666666666664
No 53
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=48.44 E-value=1.5e+02 Score=24.30 Aligned_cols=37 Identities=16% Similarity=0.144 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSG 257 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~ 257 (432)
.|+.|-.....+..+++.|..+-..+........++|
T Consensus 30 ~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~ 66 (108)
T PF02403_consen 30 EIIELDQERRELQQELEELRAERNELSKEIGKLKKAG 66 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCc
Confidence 4677777778888888888888777777776666665
No 54
>PRK14143 heat shock protein GrpE; Provisional
Probab=48.38 E-value=1.9e+02 Score=27.91 Aligned_cols=73 Identities=11% Similarity=0.105 Sum_probs=35.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
.+..+-.|+..+..|+++++.+..++-.+.....-|-+.-.|++ ---++...++.+..+..-++||+..+..+
T Consensus 65 ~~~~~~~l~~el~~l~~e~~elkd~~lR~~AdfeN~RKR~~kE~---e~~~~~a~~~~~~~lLpV~DnLerAl~~~ 137 (238)
T PRK14143 65 NAARLAQLEQELESLKQELEELNSQYMRIAADFDNFRKRTSREQ---EDLRLQLKCNTLSEILPVVDNFERARQQL 137 (238)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhHHHHHHhcc
Confidence 33345566666666666666555554433333322222111111 11233455666666666666666665543
No 55
>COG5570 Uncharacterized small protein [Function unknown]
Probab=47.96 E-value=63 Score=23.54 Aligned_cols=44 Identities=16% Similarity=0.239 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 013999 225 LIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKE 274 (432)
Q Consensus 225 Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek 274 (432)
|...+..|+++-..|+++|.+... .-+.-+.++.-||+||+.-|
T Consensus 3 ieshl~eL~kkHg~le~ei~ea~n------~Ps~dd~~i~eLKRrKL~lK 46 (57)
T COG5570 3 IESHLAELEKKHGNLEREIQEAMN------SPSSDDLAIRELKRRKLRLK 46 (57)
T ss_pred HHHHHHHHHHhhchHHHHHHHHhc------CCCcchHHHHHHHHHHHHHH
Confidence 456677788888888888877553 33456788888988887644
No 56
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=47.80 E-value=1.9e+02 Score=25.07 Aligned_cols=38 Identities=11% Similarity=0.143 Sum_probs=26.4
Q ss_pred CHHHHHHHHH-HHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 013999 258 NKTVALRHAK-QLKLTKESREKCTSLLNRVEEVLSLIEN 295 (432)
Q Consensus 258 ~k~~A~~~Lr-~KK~~ek~l~~~~~~l~~le~~l~~Ie~ 295 (432)
....|+.+|. +.+.+++.++++...+..+...+..|..
T Consensus 91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~ 129 (140)
T PRK03947 91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQ 129 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5567777776 5667777777777777777776666654
No 57
>KOG1656 consensus Protein involved in glucose derepression and pre-vacuolar endosome protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.56 E-value=2.5e+02 Score=26.48 Aligned_cols=45 Identities=7% Similarity=0.025 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013999 271 LTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 271 ~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~ 315 (432)
.+...+.++..|+..|+..-...|.-..=..--+||++..+.|--
T Consensus 79 qidG~l~tie~Qr~alEnA~~n~Evl~~m~~~A~AmK~~h~~mDi 123 (221)
T KOG1656|consen 79 QIDGTLSTIEFQREALENANTNTEVLDAMGSAAKAMKAAHKNMDI 123 (221)
T ss_pred HHhhHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHhccCh
Confidence 455555566666665555555555444444455555555555543
No 58
>PRK14162 heat shock protein GrpE; Provisional
Probab=46.64 E-value=2.5e+02 Score=26.24 Aligned_cols=72 Identities=13% Similarity=0.076 Sum_probs=35.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH-HHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHA-KQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~L-r~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
+.+..+-.|+..+..|+.+++.+..++-.+....--|- |..++..- .++-..++.+..+...++||+-.+..
T Consensus 36 ~~~~e~~~l~~~l~~l~~e~~elkd~~lR~~AEfeN~r----kR~~kE~e~~~~~a~~~~~~~LLpV~DnLerAl~~ 108 (194)
T PRK14162 36 EKQNPVEDLEKEIADLKAKNKDLEDKYLRSQAEIQNMQ----NRYAKERAQLIKYESQSLAKDVLPAMDNLERALAV 108 (194)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhc
Confidence 34445555666666666666655555444333332221 22222211 12233555566666666666666554
No 59
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=46.30 E-value=1.6e+02 Score=24.07 Aligned_cols=82 Identities=13% Similarity=0.209 Sum_probs=39.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH----HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 013999 216 SSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKT----VALRHAKQLKLTKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 216 te~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~----~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~ 291 (432)
.....++-.|......++.+.+....+|...-.....++..-.+. .-..+-.+.+.+...+.++...+..+...+.
T Consensus 17 ~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~~~ 96 (127)
T smart00502 17 AELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEKLSHAIN 96 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666666666666666655555555554322111 1112222233444444455555555555544
Q ss_pred HHHHHH
Q 013999 292 LIENAE 297 (432)
Q Consensus 292 ~Ie~a~ 297 (432)
.++.+-
T Consensus 97 ~~e~~l 102 (127)
T smart00502 97 FTEEAL 102 (127)
T ss_pred HHHHHH
Confidence 444443
No 60
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=44.85 E-value=14 Score=32.10 Aligned_cols=46 Identities=9% Similarity=0.172 Sum_probs=17.7
Q ss_pred eEEEeeCCCCcCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 201 EGVKVSLSPAAVSSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALA 252 (432)
Q Consensus 201 ~~IKf~~~~~~~~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~ 252 (432)
.+|.++. .+...|..|-.|+.-+..+..++......+......+..
T Consensus 56 dFv~Ls~------~L~g~~~~i~~l~~~L~~~~~~v~~~~~~l~~~~~~i~~ 101 (133)
T PF06148_consen 56 DFVSLST------NLVGMDEKIEELRKPLSQFREEVESVRDELDNTQEEIED 101 (133)
T ss_dssp ------------------------HHHHHHHHHHHHHHHHHS-STTHHHHHH
T ss_pred HHHHHHH------HHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566664 344566677777777777777777766666655554443
No 61
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=44.50 E-value=4.5e+02 Score=31.38 Aligned_cols=79 Identities=15% Similarity=0.140 Sum_probs=40.6
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 013999 255 HSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKKNKISVEELQLCLEELEESI 334 (432)
Q Consensus 255 ~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~~~i~~e~Ve~~~ddi~E~~ 334 (432)
.+++..+|-+++-.-+..-+.-+....+.+.+. ..++.|. .|+..+.+||+...-++....++++.+++.+
T Consensus 1537 T~~di~ra~~L~s~A~~a~~~A~~v~~~ae~V~---eaL~~Ad------~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t 1607 (1758)
T KOG0994|consen 1537 TKGDIARAENLQSEAERARSRAEDVKGQAEDVV---EALEEAD------VAQGEAQDAIQGADRDIRLAQQLLAKVQEET 1607 (1758)
T ss_pred hhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHH---HHHHHHH------HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 456777777776655555544444444443333 3333332 2233334444444445555666666666666
Q ss_pred HHHHHHHH
Q 013999 335 DLQKQAEK 342 (432)
Q Consensus 335 ~~~~EI~~ 342 (432)
+-.+.--.
T Consensus 1608 ~~aE~~~~ 1615 (1758)
T KOG0994|consen 1608 AAAEKLAT 1615 (1758)
T ss_pred HHHHHHHH
Confidence 65554433
No 62
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=44.34 E-value=85 Score=23.19 Aligned_cols=40 Identities=13% Similarity=0.179 Sum_probs=27.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 215 ISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASL 254 (432)
Q Consensus 215 Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~ 254 (432)
|++..--+-++..++..++++++.+...++.+++..+..+
T Consensus 2 i~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 2 IDELENELPRIESSINTVKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556667777777777777777777777777665443
No 63
>PRK14159 heat shock protein GrpE; Provisional
Probab=44.27 E-value=1.5e+02 Score=27.16 Aligned_cols=66 Identities=12% Similarity=0.073 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 013999 219 DYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIE 294 (432)
Q Consensus 219 D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie 294 (432)
|..|-.++.....+..+.-.+....+.++.++..- +.. .++-..++.+..+...++||+-.+....
T Consensus 29 ~~~i~~l~~e~~elkd~~lR~~AdfeN~rkR~~rE-----~e~-----~~~~a~~~~~~~LLpV~DnlerAl~~~~ 94 (176)
T PRK14159 29 DVEQNKLQKDYDELKDKYMRANAEFENIKKRMEKE-----KLS-----AMAYANESFAKDLLDVLDALEAAVNVEC 94 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHH-----HHHHHHHHHHHHHhhHHhHHHHHHhccc
Confidence 44555666666666655555555555555443211 111 1233556666777777777777665443
No 64
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=43.52 E-value=98 Score=32.58 Aligned_cols=71 Identities=18% Similarity=0.116 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 223 LHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHS--------GNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 223 ~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~--------~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
..++..+..|..++..+..+++.++.......+. ..+.....+.+.++.+.+.+.++...+..|+..+...
T Consensus 330 ~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~ 408 (451)
T PF03961_consen 330 PELKEKLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEELERS 408 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5566666666666666666666666654433321 1334555556666666666666666666555555443
No 65
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.78 E-value=6.9e+02 Score=30.26 Aligned_cols=40 Identities=5% Similarity=-0.035 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 013999 257 GNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENA 296 (432)
Q Consensus 257 ~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a 296 (432)
+.+...-..+.++..++..|+.+...+..+.+-+..++..
T Consensus 871 ~~klkl~~~l~~r~~le~~L~el~~el~~l~~~~~~~~~~ 910 (1311)
T TIGR00606 871 SEKLQIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQ 910 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444577788889999988888887776666655444
No 66
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=42.69 E-value=6.7e+02 Score=30.08 Aligned_cols=30 Identities=20% Similarity=0.230 Sum_probs=20.3
Q ss_pred HHhcCCChHHHHHHHHHHHHHHHHHHHHHH
Q 013999 313 IKKNKISVEELQLCLEELEESIDLQKQAEK 342 (432)
Q Consensus 313 Lk~~~i~~e~Ve~~~ddi~E~~~~~~EI~~ 342 (432)
|+..|++.+.|..+-..|.......+.|..
T Consensus 763 L~~~GvD~~~I~~l~~~i~~L~~~l~~ie~ 792 (1201)
T PF12128_consen 763 LAGKGVDPERIQQLKQEIEQLEKELKRIEE 792 (1201)
T ss_pred HHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333689888888887777766665555544
No 67
>PLN02678 seryl-tRNA synthetase
Probab=42.41 E-value=3.8e+02 Score=28.40 Aligned_cols=43 Identities=5% Similarity=-0.034 Sum_probs=20.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 013999 258 NKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTK 300 (432)
Q Consensus 258 ~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~ 300 (432)
+.+.-+..|++|..-...++++...-....+++.+++..+...
T Consensus 14 ~~~~v~~~l~~R~~~~~~id~il~ld~~~r~l~~~~e~lr~er 56 (448)
T PLN02678 14 DPELIRESQRRRFASVELVDEVIALDKEWRQRQFELDSLRKEF 56 (448)
T ss_pred CHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555554312234555555555555555555554443
No 68
>PRK02224 chromosome segregation protein; Provisional
Probab=42.32 E-value=5.7e+02 Score=29.17 Aligned_cols=13 Identities=23% Similarity=0.136 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQL 234 (432)
Q Consensus 222 I~~Lk~~~~~L~~ 234 (432)
+-.|...+..+..
T Consensus 484 ~~~le~~l~~~~~ 496 (880)
T PRK02224 484 LEDLEEEVEEVEE 496 (880)
T ss_pred HHHHHHHHHHHHH
Confidence 3334433333333
No 69
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=42.30 E-value=2.9e+02 Score=25.76 Aligned_cols=75 Identities=11% Similarity=0.131 Sum_probs=33.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH--HHHHHHHHHHHHhHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQ--LKLTKESREKCTSLLNRVEEVLSLIE 294 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~--KK~~ek~l~~~~~~l~~le~~l~~Ie 294 (432)
+....+.+++............++++++.+...+..+ ...|..+|+. --+...-|.+....-..+..+...++
T Consensus 34 d~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~-----~~~A~~Al~~g~edLAr~al~~k~~~e~~~~~l~~~~~ 108 (221)
T PF04012_consen 34 DMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKW-----EKQAELALAAGREDLAREALQRKADLEEQAERLEQQLD 108 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444445555555555544332 2345555543 22334444444444444444444444
Q ss_pred HH
Q 013999 295 NA 296 (432)
Q Consensus 295 ~a 296 (432)
.+
T Consensus 109 ~~ 110 (221)
T PF04012_consen 109 QA 110 (221)
T ss_pred HH
Confidence 43
No 70
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=41.75 E-value=6.8e+02 Score=29.88 Aligned_cols=29 Identities=24% Similarity=0.320 Sum_probs=11.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEM 245 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~ 245 (432)
..+..+-.+...+..++.++..++.++..
T Consensus 741 ~l~~~~~~~~~~~~~~~~~~~~~~~~l~~ 769 (1163)
T COG1196 741 ELEEELEELEEELEELQERLEELEEELES 769 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33343444444444444444444444333
No 71
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.52 E-value=2.8e+02 Score=25.28 Aligned_cols=25 Identities=4% Similarity=-0.057 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMS 246 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~ 246 (432)
--.|..-+..++++...||.+|...
T Consensus 24 ~RdierdRr~me~~Ek~LElEIkk~ 48 (208)
T KOG3231|consen 24 QRDIERDRRAMEKQEKQLELEIKKM 48 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677778888888888888664
No 72
>PF06717 DUF1202: Protein of unknown function (DUF1202); InterPro: IPR009592 This family consists of several hypothetical bacterial proteins of around 335 residues in length. Members of this family are found exclusively in Escherichia coli and Salmonella species and are often referred to as YggM proteins. The function of this family is unknown.
Probab=40.60 E-value=52 Score=32.40 Aligned_cols=45 Identities=9% Similarity=0.034 Sum_probs=40.9
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 013999 213 SSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSG 257 (432)
Q Consensus 213 ~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~ 257 (432)
..|+..+-++..-|.++..|++|+..|+++|....+++..|...+
T Consensus 138 ~rf~~Ied~~~~kK~~I~~L~~qisaLdkqi~ai~Kkid~yWgkd 182 (308)
T PF06717_consen 138 YRFNQIEDEYNRKKNKIPGLNKQISALDKQIVAINKKIDRYWGKD 182 (308)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 367788899999999999999999999999999999999998655
No 73
>PRK05560 DNA gyrase subunit A; Validated
Probab=40.52 E-value=2.7e+02 Score=31.87 Aligned_cols=85 Identities=21% Similarity=0.273 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHh---cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCC
Q 013999 283 LNRVEEVLSLIENAESTKKVSEAIQI-------GAQAIKK---NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGID 352 (432)
Q Consensus 283 l~~le~~l~~Ie~a~~n~~v~~al~~-------g~~aLk~---~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~D 352 (432)
+.++..++.-|..+.+..++...|.. .++++=. ..++-.+++++..++.+.....++....|+... .=
T Consensus 382 ~~~~d~vI~iir~s~~~~~~~~~L~~~f~~~~~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ei~~l~~iL~~~~--~l 459 (805)
T PRK05560 382 LDNIDEVIALIRASPTPAEAKEGLMERFGLSEIQAQAILDMRLQRLTGLERDKIEDEYKELLALIADLKDILASPE--RL 459 (805)
T ss_pred HHhhHHHHHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCHH--HH
Confidence 55556666666666666656555544 2333333 377888899999999999999999999996510 01
Q ss_pred HHHHHHHHHHHHHHHhh
Q 013999 353 DEDIEEEFKKLEQEVEC 369 (432)
Q Consensus 353 e~ELe~EL~~Le~E~~~ 369 (432)
..-+-+||.++.+.-..
T Consensus 460 ~~~i~~EL~~ikkkfg~ 476 (805)
T PRK05560 460 LEIIKEELLEIKEKFGD 476 (805)
T ss_pred HHHHHHHHHHHHHHhCC
Confidence 23456788777766443
No 74
>KOG1937 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.38 E-value=4.7e+02 Score=27.68 Aligned_cols=130 Identities=14% Similarity=0.193 Sum_probs=70.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhc---CCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 219 DYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALA---SLHS---GNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 219 D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~---~~~~---~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
..-+.+|...+..+.+++..|.++|+..+.-..+ .++. ..--.+.. +++-..+|..|.-.......=+.+.-+
T Consensus 292 eayLaKL~~~l~~~~~~~~~ltqqwed~R~pll~kkl~Lr~~l~~~e~e~~e-~~~IqeleqdL~a~~eei~~~eel~~~ 370 (521)
T KOG1937|consen 292 EAYLAKLMGKLAELNKQMEELTQQWEDTRQPLLQKKLQLREELKNLETEDEE-IRRIQELEQDLEAVDEEIESNEELAEK 370 (521)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccchHHH-HHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 3456777778888888888888888776543211 0110 11112333 444444555544444433322222222
Q ss_pred HHH----HHHHHHHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCC
Q 013999 293 IEN----AESTKKVSEAIQIGAQAIKKN-KISVEELQLCLEELEESIDLQKQAEKVIVPSYTG 350 (432)
Q Consensus 293 Ie~----a~~n~~v~~al~~g~~aLk~~-~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~ 350 (432)
+-+ --.++. ..+|-.+.+-+-.+ --.-.+|-++++|.++..-.-+-+++.|..+++.
T Consensus 371 Lrsele~lp~dv~-rk~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsfav 432 (521)
T KOG1937|consen 371 LRSELEKLPDDVQ-RKVYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSFAV 432 (521)
T ss_pred HHHHHhcCCchhH-HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 111 111222 44455554444432 2245678899999999888888889998775543
No 75
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=39.83 E-value=1.5e+02 Score=22.35 Aligned_cols=23 Identities=22% Similarity=0.393 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 013999 227 WTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 227 ~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
.-+.+|+++++.++..|+....+
T Consensus 4 ~E~~rL~Kel~kl~~~i~~~~~k 26 (66)
T PF10458_consen 4 AEIERLEKELEKLEKEIERLEKK 26 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555443
No 76
>PRK14146 heat shock protein GrpE; Provisional
Probab=39.83 E-value=2.2e+02 Score=27.09 Aligned_cols=22 Identities=14% Similarity=0.057 Sum_probs=13.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHH
Q 013999 271 LTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 271 ~~ek~l~~~~~~l~~le~~l~~ 292 (432)
..++.+..+...++||+-.+..
T Consensus 102 a~e~~~~~lLpv~DnlerAl~~ 123 (215)
T PRK14146 102 AVKSLVSGFLNPIDNLERVGAT 123 (215)
T ss_pred HHHHHHHHHhhHHhHHHHHHhc
Confidence 4556666666667777665543
No 77
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=39.69 E-value=2.7e+02 Score=24.57 Aligned_cols=32 Identities=22% Similarity=0.244 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 262 ALRHAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 262 A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
+-.+=|+-.++|..|++....|....+-+..+
T Consensus 75 ~E~l~rriq~LEeele~ae~~L~e~~ekl~e~ 106 (143)
T PF12718_consen 75 AEQLNRRIQLLEEELEEAEKKLKETTEKLREA 106 (143)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777777776665444444333
No 78
>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins. TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].
Probab=38.57 E-value=4.3e+02 Score=26.63 Aligned_cols=144 Identities=13% Similarity=0.218 Sum_probs=89.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 013999 220 YDVLHLIWTVEKLQLQLDIIDRHYEMSRKSAL--ASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAE 297 (432)
Q Consensus 220 ~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak--~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~ 297 (432)
..+..+......|++++..|..........+- ..++++++..+..+=+..-..--.+.........|......++..+
T Consensus 169 q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pqir~iq~nN~~Li~ki~~a~~~TIP~~k~~~~ial~l~~Qk~a~~~~~ 248 (333)
T PF05816_consen 169 QELADLEQALFRLEQRIQDLQLSRQVAIQTAPQIRMIQNNNRELIEKIQSAITTTIPAWKNQLAIALALQRQKKALDAQQ 248 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788899999999999988887766655533 4667777776665555555544444444444444444443333221
Q ss_pred -HHHHHHHHHHHHHHHHHh-----------cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHH
Q 013999 298 -STKKVSEAIQIGAQAIKK-----------NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQ 365 (432)
Q Consensus 298 -~n~~v~~al~~g~~aLk~-----------~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~ 365 (432)
.+..+-+-|...++.|+. .-+++|.++.+-+++-+.++....|.+--.. .-.+.+.+|.+|+.
T Consensus 249 av~~tTnell~~nAe~lk~~~~~iak~~~~~~vdiEtL~~~~~~li~ti~e~~~i~~e~~~-----~r~~~~~~l~~l~~ 323 (333)
T PF05816_consen 249 AVNDTTNELLRRNAEMLKQNSVEIAKEAERPVVDIETLKKAFQNLIETIEETDQIQEEGRE-----KRAQAEQELEQLEE 323 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence 122222334444455553 1459999999999999888888888764422 34456677777776
Q ss_pred HHh
Q 013999 366 EVE 368 (432)
Q Consensus 366 E~~ 368 (432)
+..
T Consensus 324 ~lk 326 (333)
T PF05816_consen 324 ELK 326 (333)
T ss_pred HHH
Confidence 654
No 79
>PRK14155 heat shock protein GrpE; Provisional
Probab=38.51 E-value=3.1e+02 Score=25.87 Aligned_cols=26 Identities=0% Similarity=-0.118 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHH
Q 013999 269 LKLTKESREKCTSLLNRVEEVLSLIE 294 (432)
Q Consensus 269 KK~~ek~l~~~~~~l~~le~~l~~Ie 294 (432)
+-..++.+..+..-++||+..+..+.
T Consensus 59 ~~a~~~~~~~LLpV~DnLerAl~~~~ 84 (208)
T PRK14155 59 AYAIQKFARDLLGAADNLGRATAASP 84 (208)
T ss_pred HHHHHHHHHHHhhHHhhHHHHHhccc
Confidence 33455666666666677766665543
No 80
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=37.54 E-value=4.8e+02 Score=26.92 Aligned_cols=111 Identities=8% Similarity=0.127 Sum_probs=57.4
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 214 SISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASL-HSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~-~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
.+.+...+|.+|-..+..++.+-+.-|.-|..+...++.+= .+++-......|++=+++- ..+.+|+.++.+
T Consensus 58 ~l~~a~~~i~~L~~~i~~ik~kA~~sE~~V~~it~dIk~LD~AKrNLT~SIT~LkrL~MLv-------~a~~qL~~~~~~ 130 (383)
T PF04100_consen 58 DLEEAQEAIQELFEKISEIKSKAEESEQMVQEITRDIKQLDNAKRNLTQSITTLKRLQMLV-------TAVEQLKELAKK 130 (383)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHc
Confidence 34445555555555555555555555555555555544321 1223333444444433333 333333333322
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh--cCCChHHHHHHHHHHHHHHH
Q 013999 293 IENAESTKKVSEAIQIGAQAIKK--NKISVEELQLCLEELEESID 335 (432)
Q Consensus 293 Ie~a~~n~~v~~al~~g~~aLk~--~~i~~e~Ve~~~ddi~E~~~ 335 (432)
..=.++...|++-...+.. ...+++.|..+...+.....
T Consensus 131 ----r~Y~e~a~~L~av~~L~~~F~~yksi~~I~~L~~~i~~l~~ 171 (383)
T PF04100_consen 131 ----RQYKEIASLLQAVKELLEHFKPYKSIPQIAELSKRIDQLQN 171 (383)
T ss_pred ----CCHHHHHHHHHHHHHHHHHHHcccCcHHHHHHHHHHHHHHH
Confidence 3345666666666666654 24588888877777776443
No 81
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=37.42 E-value=2.4e+02 Score=25.18 Aligned_cols=49 Identities=10% Similarity=0.226 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 013999 236 LDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLN 284 (432)
Q Consensus 236 i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~ 284 (432)
...++.++..+.....+++..++-..|..++++-|.+.+..+.+.....
T Consensus 106 ~~~~~~~~~~~~~~l~~~~~~~d~~~A~~~~~kLky~~kl~~~i~~~~~ 154 (157)
T TIGR00714 106 IKRVKKMFQTRHQLLVEQLDNQTWAAAADYTRKLRFLDKLRSSAEQLEE 154 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666677777888999999999999999888877765544
No 82
>PRK14160 heat shock protein GrpE; Provisional
Probab=37.37 E-value=3.7e+02 Score=25.50 Aligned_cols=33 Identities=15% Similarity=0.143 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 219 DYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSAL 251 (432)
Q Consensus 219 D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak 251 (432)
+..+..++..+..|+.++..|+.++..++.+..
T Consensus 53 ~~~~~~l~~e~~~l~~~l~~l~~e~~elkd~~l 85 (211)
T PRK14160 53 EVKIEELKDENNKLKEENKKLENELEALKDRLL 85 (211)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344667777777788888888888877766644
No 83
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=37.08 E-value=4.9e+02 Score=28.69 Aligned_cols=33 Identities=18% Similarity=0.221 Sum_probs=21.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
+-+..|.+|+..++.-..++..|..+++..+.-
T Consensus 391 d~e~ni~kL~~~v~~s~~rl~~L~~qWe~~R~p 423 (594)
T PF05667_consen 391 DAEENIAKLQALVEASEQRLVELAQQWEKHRAP 423 (594)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 445566677776666666777777776665543
No 84
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=36.78 E-value=4e+02 Score=25.77 Aligned_cols=19 Identities=21% Similarity=0.218 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 013999 297 ESTKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 297 ~~n~~v~~al~~g~~aLk~ 315 (432)
.++..-++||..--.+++.
T Consensus 85 v~~~~e~~aL~~E~~~ak~ 103 (239)
T COG1579 85 VKDERELRALNIEIQIAKE 103 (239)
T ss_pred cccHHHHHHHHHHHHHHHH
Confidence 3344445555555555553
No 85
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=36.71 E-value=6.2e+02 Score=27.96 Aligned_cols=26 Identities=23% Similarity=0.216 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCC
Q 013999 321 EELQLCLEELEESIDLQKQAEKVIVP 346 (432)
Q Consensus 321 e~Ve~~~ddi~E~~~~~~EI~~~L~~ 346 (432)
..+..+.+++.+..+..++|+.-|+.
T Consensus 391 ~~~~~~~~~~~~~e~el~~l~~~l~~ 416 (650)
T TIGR03185 391 DAKSQLLKELRELEEELAEVDKKIST 416 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34555666666666677777777754
No 86
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=36.28 E-value=4.7e+02 Score=26.48 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDR 241 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~ 241 (432)
.+..++..+..++.++..|+.
T Consensus 82 ~l~~l~~~~~~l~a~~~~l~~ 102 (423)
T TIGR01843 82 DAAELESQVLRLEAEVARLRA 102 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555544443
No 87
>TIGR02680 conserved hypothetical protein TIGR02680. Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.
Probab=35.84 E-value=8.4e+02 Score=29.75 Aligned_cols=50 Identities=12% Similarity=0.062 Sum_probs=34.1
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Q 013999 213 SSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVA 262 (432)
Q Consensus 213 ~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A 262 (432)
-.|.+.+..|..|...+..+..++..++.++..+............-..|
T Consensus 742 ~ri~el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~~~Ps~~dL~~A 791 (1353)
T TIGR02680 742 RRIAELDARLAAVDDELAELARELRALGARQRALADELAGAPSDRSLRAA 791 (1353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchHHHHH
Confidence 35777788888888888888888888888877777665544443333333
No 88
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=35.40 E-value=3e+02 Score=23.94 Aligned_cols=52 Identities=17% Similarity=0.174 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013999 264 RHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKK 315 (432)
Q Consensus 264 ~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~ 315 (432)
.+.++...+++.+..+...+..|...+..++.+.-+....+....|..++.+
T Consensus 78 ~~~~~~~~l~~~i~~Le~~l~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 129 (134)
T cd04779 78 EVAQEVQLVCDQIDGLEHRLKQLKPIASQTDRAQRMKMTKELSQQVLTLIQS 129 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHhHHHHHH
Confidence 4556677889999999999999999999999999999999888888777664
No 89
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=35.24 E-value=3.2e+02 Score=28.62 Aligned_cols=36 Identities=17% Similarity=0.120 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHS 256 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~ 256 (432)
.|+.|-.....+..+++.|..+...+.++++...+.
T Consensus 29 ~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~ 64 (425)
T PRK05431 29 ELLELDEERRELQTELEELQAERNALSKEIGQAKRK 64 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 567777777777888888887777777766553333
No 90
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=35.08 E-value=3.4e+02 Score=30.97 Aligned_cols=85 Identities=24% Similarity=0.335 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHh---cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCC
Q 013999 282 LLNRVEEVLSLIENAESTKKVSEAIQI-------GAQAIKK---NKISVEELQLCLEELEESIDLQKQAEKVIVPSYTGI 351 (432)
Q Consensus 282 ~l~~le~~l~~Ie~a~~n~~v~~al~~-------g~~aLk~---~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~ 351 (432)
.+.++..++.-|-.+.+..++...|.. .++++=+ ..++-.+++++..++.+..+..+++...|+.. ..
T Consensus 378 ~~~~~d~vi~~ir~~~~~~~~~~~L~~~~~~~~~qa~~il~m~L~~Lt~~e~~kl~~e~~~l~~ei~~l~~iL~~~--~~ 455 (800)
T TIGR01063 378 ALDNIDEVIALIRASQNTEEAKTRLVERFSLSEIQAQAILDMRLQRLTGLEREKLQEEYKELLELIADLEDILASE--ER 455 (800)
T ss_pred HHHhhhHHHHHHHhCCCHHHHHHHHHHhcCCCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHcCH--HH
Confidence 344555555555555555555555543 2333333 36788889999999999999999999999651 00
Q ss_pred CHHHHHHHHHHHHHHHh
Q 013999 352 DDEDIEEEFKKLEQEVE 368 (432)
Q Consensus 352 De~ELe~EL~~Le~E~~ 368 (432)
=..-|-+||.++-++-.
T Consensus 456 l~~vi~~EL~eikkkfg 472 (800)
T TIGR01063 456 VLEIIREELEEIKEQFG 472 (800)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 12346678877776544
No 91
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=34.77 E-value=3.7e+02 Score=30.39 Aligned_cols=88 Identities=15% Similarity=0.228 Sum_probs=57.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHh---cCCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCC
Q 013999 280 TSLLNRVEEVLSLIENAESTKKVSEAIQI-------GAQAIKK---NKISVEELQLCLEELEESIDLQKQAEKVIVPSYT 349 (432)
Q Consensus 280 ~~~l~~le~~l~~Ie~a~~n~~v~~al~~-------g~~aLk~---~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~ 349 (432)
...+.++.+++.-|..+.+..++.+.|.. -++++=. ..++-.+++++..++.+.....+++...|+...
T Consensus 376 ~~~~~~id~~i~iir~~~~~~~~~~~l~~~f~~~~~q~~~il~m~l~~lt~~e~~kl~~e~~~l~~~i~~l~~iL~~~~- 454 (738)
T TIGR01061 376 IKAISIIDEIIKLIRSSEDKSDAKENLIDNFKFTENQAEAIVSLRLYRLTNTDIFELKEEQNELEKKIISLEQIIASEK- 454 (738)
T ss_pred HHHHHhhhhHhHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCHH-
Confidence 34444666666666666655555555444 2333333 377888899999999999999999999996511
Q ss_pred CCCHHHHHHHHHHHHHHHhh
Q 013999 350 GIDDEDIEEEFKKLEQEVEC 369 (432)
Q Consensus 350 ~~De~ELe~EL~~Le~E~~~ 369 (432)
.=..-+-+||.++..+-..
T Consensus 455 -~~~~~i~~el~~ik~kfg~ 473 (738)
T TIGR01061 455 -ARNKLLKKQLEEYKKQFAQ 473 (738)
T ss_pred -HHHHHHHHHHHHHHHHhCC
Confidence 1134566788887766543
No 92
>PLN02943 aminoacyl-tRNA ligase
Probab=34.71 E-value=1.3e+02 Score=35.03 Aligned_cols=65 Identities=12% Similarity=0.117 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMSRKSAL--ASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRV 286 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak--~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~l 286 (432)
++++...+.+|+++++.++.+|+.+..+.- .++.+.....-..-.++...++..++++...+.+|
T Consensus 884 ~iD~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l 950 (958)
T PLN02943 884 MVDISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFL 950 (958)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666667777777777777776665533 23333333333333333334444444444444443
No 93
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=34.50 E-value=3.3e+02 Score=24.82 Aligned_cols=50 Identities=12% Similarity=0.047 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 013999 238 IIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVE 287 (432)
Q Consensus 238 ~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le 287 (432)
.+..++..+.....+++..++-..|+..+++-+.+.+..+.+......|.
T Consensus 122 ~v~~~~~~~~~~l~~~~~~~d~~~A~~~~~rL~y~~kl~~ei~~~~~~l~ 171 (173)
T PRK01773 122 EIKQEQQAILTELSTALNSQQWQQASQINDRLRFIKKLIIEIERVEEKLF 171 (173)
T ss_pred HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44445555556666677788999999999999999999888777666554
No 94
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=34.40 E-value=2.5e+02 Score=25.87 Aligned_cols=111 Identities=10% Similarity=0.096 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVAL-RHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKV 302 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~-~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v 302 (432)
.|+..++.+.+.|..+...|+.....-+..-..|++..-. .+|-.||.-...+.+-.+.++.. +...
T Consensus 86 ~l~~~~~~~kqdi~t~~e~i~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~eqd~~k~~l~~l~~~------------~pi~ 153 (209)
T COG5124 86 LLKKKIQEVKQDIATYKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKKLNSLQKI------------EPIR 153 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhcccccc------------Cchh
Confidence 4455555555555555555555544433333444443222 22233333334444444444333 3444
Q ss_pred HHHHHHHHHHHHh-cCCChHHHHHHHH-HHHHHHHHHHHHHHhhCC
Q 013999 303 SEAIQIGAQAIKK-NKISVEELQLCLE-ELEESIDLQKQAEKVIVP 346 (432)
Q Consensus 303 ~~al~~g~~aLk~-~~i~~e~Ve~~~d-di~E~~~~~~EI~~~L~~ 346 (432)
+++...-.+-++. .....|+|+-+.| =-..--...++|..-.+-
T Consensus 154 ~d~~~~~~kk~~~~~n~~tDnI~ilidy~c~kf~~~~~qir~~fgI 199 (209)
T COG5124 154 WDAAKIQEKKKKVHLNKTTDNIEILIDYLCKKFFLKPEQIRKEFGI 199 (209)
T ss_pred HHHHhhhHHHHHHHHHhhhhhHHHHHHHHHHHcCCCHHHHHHhcCC
Confidence 4444444444444 2556777777766 233333456677766654
No 95
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=34.35 E-value=3.1e+02 Score=25.02 Aligned_cols=50 Identities=16% Similarity=0.172 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 013999 237 DIIDRHYEMSRKSALASLHS-GNKTVALRHAKQLKLTKESREKCTSLLNRV 286 (432)
Q Consensus 237 ~~Le~~i~~~~~~ak~~~~~-~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~l 286 (432)
..++.++..+.....+++.. ++...|...+++-+.+.+....+......|
T Consensus 124 ~e~~~~~~~~~~~l~~~~~~~~d~~~A~~~~~kL~y~~kl~~ei~~~~~~l 174 (176)
T PRK03578 124 AELRDERRERYAELGALLDSRGDDQAAAEAVRQLMFIEKLAQEIGAAIERL 174 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35566666666666677766 678999999999999988888776665554
No 96
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=34.34 E-value=2.4e+02 Score=22.42 Aligned_cols=74 Identities=15% Similarity=0.152 Sum_probs=45.4
Q ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 013999 212 VSSISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKS-ALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVL 290 (432)
Q Consensus 212 ~~~Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~-ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l 290 (432)
.|+|...|..+..+......|..+++.+..++..+.+. .-.. ....+. |..+=..+.+.+..+...+.+++.=+
T Consensus 13 ~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~----~~~~~~-y~~KL~~ikkrm~~l~~~l~~lk~R~ 87 (92)
T PF14712_consen 13 EPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINE----PFDLDP-YVKKLVNIKKRMSNLHERLQKLKKRA 87 (92)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh----HHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888889999999888888888888888776652 1110 122333 44444444455555555555444433
No 97
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=34.22 E-value=6.3e+02 Score=29.12 Aligned_cols=109 Identities=12% Similarity=0.207 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCChHHHHHHHHHHHHHHHHH-HHHHHhhCCC-----------C
Q 013999 284 NRVEEVLSLIENAESTKKVSEAIQIGAQAIKK---NKISVEELQLCLEELEESIDLQ-KQAEKVIVPS-----------Y 348 (432)
Q Consensus 284 ~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~---~~i~~e~Ve~~~ddi~E~~~~~-~EI~~~L~~~-----------~ 348 (432)
..|=.+-..||+-. =...-+.|+.+-++|+. .+-+-++|+++|+++++.|++- ++..+-.... .
T Consensus 484 ~~LW~lAl~iEdG~-ls~A~~~Lr~AQ~aL~eAL~~gAsdeEI~~Lm~eLR~Am~~ym~~LAeq~~~~~~~~~~~~~~~~ 562 (851)
T TIGR02302 484 DNLWSLALGIEDGD-LSDAERRLRAAQDALKDALERGASDEEIKQLTDKLRAAMQTYMRQLAQQLRNNPQQLARPLDPNT 562 (851)
T ss_pred HHHHHHHHHhhcCC-HHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCcccccccCCccc
Confidence 33334455566532 24556778888888887 5889999999999999988654 3333322110 1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCcccHHHHHHHhccCCcCC
Q 013999 349 TGIDDEDIEEEFKKLEQEVECERPKPTVSKTGVNEPAASESAESLRVAFSTIGLND 404 (432)
Q Consensus 349 ~~~De~ELe~EL~~Le~E~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~L~~L~~~d 404 (432)
..+..++|++=++.|+.-...-.. . ....--++|.++|+||++.-
T Consensus 563 ~~l~~~dLq~Mmd~ieela~~G~~-~----------~A~qlL~qlq~mmenlq~~q 607 (851)
T TIGR02302 563 KVLRQQDLQNMMDQIENLARSGDR-D----------QAKQLLSQLQQMMNNLQMGQ 607 (851)
T ss_pred cccCHHHHHHHHHHHHHHHHcCCH-H----------HHHHHHHHHHHHHHHHhccC
Confidence 135677788777777643332110 0 00123356677778888743
No 98
>PRK14154 heat shock protein GrpE; Provisional
Probab=33.29 E-value=4.1e+02 Score=25.12 Aligned_cols=21 Identities=10% Similarity=-0.021 Sum_probs=11.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHH
Q 013999 271 LTKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 271 ~~ek~l~~~~~~l~~le~~l~ 291 (432)
..++.+..+...++||+-.+.
T Consensus 100 a~e~~~~~LLpVlDnLeRAL~ 120 (208)
T PRK14154 100 GSKQLITDLLPVADSLIHGLE 120 (208)
T ss_pred HHHHHHHHHhhHHhHHHHHHh
Confidence 344555555556666655554
No 99
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=33.15 E-value=8.4e+02 Score=28.41 Aligned_cols=8 Identities=13% Similarity=0.339 Sum_probs=3.3
Q ss_pred CcHHHHHH
Q 013999 36 DWEPKFQF 43 (432)
Q Consensus 36 gy~ani~f 43 (432)
.|..-+.+
T Consensus 534 ~~~~a~~~ 541 (1179)
T TIGR02168 534 GYEAAIEA 541 (1179)
T ss_pred hHHHHHHH
Confidence 34444443
No 100
>PRK14158 heat shock protein GrpE; Provisional
Probab=32.79 E-value=4.1e+02 Score=24.77 Aligned_cols=74 Identities=8% Similarity=-0.097 Sum_probs=35.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 013999 215 ISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 215 Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~ 291 (432)
-++.+..+-.|+..+..++.++..+..+.-......--|-+.-.|+. ---++-..++.+..+..-++||+..+.
T Consensus 35 ~~~~~~~~~~le~~l~~le~e~~el~d~~lR~~AefeN~RkR~~kE~---e~~~~~a~~~~~~~lLpV~DnLerAl~ 108 (194)
T PRK14158 35 PVAAADRIKELEEALAAKEAEAAANWDKYLRERADLENYRKRVQKEK---EELLKYGNESLILEILPAVDNMERALD 108 (194)
T ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhHHhHHHHHHh
Confidence 44555667777777666666666666555444333322221111111 111222344455555555555555443
No 101
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=32.66 E-value=7.1e+02 Score=27.44 Aligned_cols=32 Identities=16% Similarity=0.254 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALA 252 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~ 252 (432)
-+-.|+..++.|..++..++..++.+....++
T Consensus 329 el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q 360 (594)
T PF05667_consen 329 ELEELQEQLDELESQIEELEAEIKMLKSSLKQ 360 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666666655544
No 102
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=32.65 E-value=1.1e+02 Score=24.34 Aligned_cols=31 Identities=6% Similarity=-0.116 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 262 ALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 262 A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
-..++.+|+.+++.|..+..+...+|+-...
T Consensus 4 L~~l~~~k~~Le~~L~~lE~qIy~~Et~YL~ 34 (80)
T PF09340_consen 4 LKELLQKKKKLEKDLAALEKQIYDKETSYLE 34 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478899999999999999999999998877
No 103
>cd07637 BAR_ACAP3 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP3 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3), also called centaurin beta-5, is presumed to be an Arf GTPase activating protein (GAP) based on its similarity to the Arf6-specific GAPs ACAP1 and ACAP2. The specific function of ACAP3 is still unknown. ACAP3 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=32.37 E-value=2.2e+02 Score=26.66 Aligned_cols=71 Identities=13% Similarity=0.178 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 227 WTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAI 306 (432)
Q Consensus 227 ~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al 306 (432)
.++..++.-+..|+.+++.+.+.++.++..|+ .|...-+.+-..|. .+.. .+..+..|-++|
T Consensus 2 ~~~~~~E~~~~~le~~l~kl~K~~~~~~d~g~-----~~~~a~~~F~~~l~-------d~~~------~~~gd~~i~~~L 63 (200)
T cd07637 2 ATIDEVETDVVEIEAKLDKLVKLCSGMIEAGK-----AYATTNKLFVSGIR-------DLSQ------QCKKDEMISECL 63 (200)
T ss_pred chHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH-------HHHH------HcCCchHHHHHH
Confidence 35677888888888888888888888887763 22222222222222 1111 245566666777
Q ss_pred HHHHHHHHh
Q 013999 307 QIGAQAIKK 315 (432)
Q Consensus 307 ~~g~~aLk~ 315 (432)
+.=+.+|+.
T Consensus 64 ~kF~~~l~e 72 (200)
T cd07637 64 DKFGDSLQE 72 (200)
T ss_pred HHHHHHHHH
Confidence 777777775
No 104
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=31.58 E-value=1.6e+02 Score=34.36 Aligned_cols=66 Identities=12% Similarity=0.109 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMSRKSAL--ASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVE 287 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak--~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le 287 (432)
++++...+.+|+++++.++.+|+.+..+.- .++.+.....-...-++...++..++++...+.+|.
T Consensus 924 ~id~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 991 (995)
T PTZ00419 924 FIDLKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELK 991 (995)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666666666666655432 222223333222222223344445555555554444
No 105
>TIGR02680 conserved hypothetical protein TIGR02680. Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.
Probab=31.54 E-value=1e+03 Score=28.99 Aligned_cols=92 Identities=7% Similarity=0.005 Sum_probs=58.5
Q ss_pred CCCCCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 013999 212 VSSISSLDYD-VLHLIWTVEKLQLQLDIIDRHYEMSRKSALA---SLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVE 287 (432)
Q Consensus 212 ~~~Ite~D~~-I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~---~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le 287 (432)
.+|.++.+.. +..-..+++.++..++.++.++..+..-... |.+...+..|..++..+..++..-.+....-..++
T Consensus 214 l~~l~~~~i~~l~e~~~~~~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 (1353)
T TIGR02680 214 LPPLDDDELTDVADALEQLDEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGRARDELE 293 (1353)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777743 2333444555566667777777666554443 44444566777888888887777777777777777
Q ss_pred HHHHHHHHHHHHHHHH
Q 013999 288 EVLSLIENAESTKKVS 303 (432)
Q Consensus 288 ~~l~~Ie~a~~n~~v~ 303 (432)
.....++.+.......
T Consensus 294 ~~~~~~~~~~~~~~~l 309 (1353)
T TIGR02680 294 TAREEERELDARTEAL 309 (1353)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7777776666655444
No 106
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=31.53 E-value=4e+02 Score=24.16 Aligned_cols=49 Identities=12% Similarity=0.239 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 013999 238 IIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRV 286 (432)
Q Consensus 238 ~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~l 286 (432)
.+..++..+......++..++-..|..++++-|.+.+....+......|
T Consensus 121 ~~~~~~~~~~~~l~~~~~~~d~~~A~~~~~~Lky~~kl~~ei~~~~~~l 169 (171)
T PRK05014 121 RVKKMFKTRLQQMVEQLDNEAWDAAADTVRKLKFLDKLRSEVEQLEEKL 169 (171)
T ss_pred HHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444555556667777889999999999999999888777666554
No 107
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=31.14 E-value=1.6e+02 Score=30.51 Aligned_cols=50 Identities=12% Similarity=0.120 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHCCceEECcc--ccchhhhhcCCCCCC---CHHHHHHHHHHCC
Q 013999 40 KFQFWKNLILKIARHFSLAIIHPS--QVKNEWFNRGGLTPL---CFDDVLFVMYNEG 91 (432)
Q Consensus 40 ni~fW~~lI~~~~~~~~~~~~~~~--~l~~~~f~r~~~~P~---~L~~Vi~emv~~g 91 (432)
-+.+.-..|..+++.++.+.+.++ -... .+. ..|.|. .-..+++.|...|
T Consensus 80 ll~~f~~~Lk~~akk~~a~~lridP~~~~~-~~~-~~g~~~~~~~~~~~~~~l~~~G 134 (406)
T PF02388_consen 80 LLEFFLEELKKYAKKKRALFLRIDPNVIYQ-ERD-EDGEPIEGEENDELIENLKALG 134 (406)
T ss_dssp HHHHHHHHHHHHHCTTTEEEEEE--S-EEE-CE--TTS-EEEE-S-THHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHCCEEEEEEeCchhhh-hcc-cccccccCcchHHHHHHHHhcC
Confidence 467777888888887776554433 2211 111 233332 4456666666666
No 108
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=31.00 E-value=7.2e+02 Score=26.98 Aligned_cols=42 Identities=19% Similarity=0.084 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 263 LRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSE 304 (432)
Q Consensus 263 ~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~ 304 (432)
+..|-.+..+=..+.-+...|.++++-+.+.+.-.....-++
T Consensus 153 ~~vl~n~~~~Ge~~~~lEk~Le~i~~~l~qf~~lt~~Gd~ie 194 (570)
T COG4477 153 RDVLANRHQYGEAAPELEKKLENIEEELSQFVELTSSGDYIE 194 (570)
T ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHhccCCChhH
Confidence 344445555555566666666666666666665554444433
No 109
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=30.55 E-value=2.8e+02 Score=24.17 Aligned_cols=50 Identities=12% Similarity=0.145 Sum_probs=30.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHh-cCCChHHHHHHHH
Q 013999 279 CTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQ----AIKK-NKISVEELQLCLE 328 (432)
Q Consensus 279 ~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~----aLk~-~~i~~e~Ve~~~d 328 (432)
....+..+++-...|-..-.|.+|+..+++-.. .|++ .|+++|.|+.+.+
T Consensus 74 Vl~~l~~l~~~~~~v~~~~~~~ev~~~l~~dk~~nl~~L~~~h~it~e~id~LY~ 128 (133)
T PF09440_consen 74 VLAELKELEEETEPVLELLEDPEVVKNLRSDKKQNLEYLEENHGITPEMIDALYK 128 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHcCHHHHHHHHccHHHHHHHHHHhcCCCHHHHHHHHH
Confidence 333444445555555555566677777765333 3333 6999999988764
No 110
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=30.40 E-value=2.6e+02 Score=21.71 Aligned_cols=19 Identities=16% Similarity=0.342 Sum_probs=13.4
Q ss_pred HHHHhHHHHHHHHHHHHHH
Q 013999 277 EKCTSLLNRVEEVLSLIEN 295 (432)
Q Consensus 277 ~~~~~~l~~le~~l~~Ie~ 295 (432)
....++...|..++.+|+.
T Consensus 53 ~e~~~~~~rl~~LL~kl~~ 71 (72)
T PF06005_consen 53 QERNAWQERLRSLLGKLEE 71 (72)
T ss_dssp HHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHhhhc
Confidence 6667777777777777763
No 111
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=30.01 E-value=1e+02 Score=21.78 Aligned_cols=25 Identities=12% Similarity=0.157 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 225 LIWTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 225 Lk~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
|+...++++++|+.++.+|..+..+
T Consensus 10 Lqe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 10 LQEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp -----THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHhHHHHHHHHHHHHHH
Confidence 5666777888888888888776654
No 112
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=29.91 E-value=5e+02 Score=29.30 Aligned_cols=16 Identities=19% Similarity=0.260 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 013999 287 EEVLSLIENAESTKKV 302 (432)
Q Consensus 287 e~~l~~Ie~a~~n~~v 302 (432)
+.+-.+++.+....+.
T Consensus 596 e~LaeR~e~a~d~Qe~ 611 (717)
T PF10168_consen 596 EKLAERYEEAKDKQEK 611 (717)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344556666554443
No 113
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=29.65 E-value=1.3e+02 Score=22.70 Aligned_cols=30 Identities=13% Similarity=0.312 Sum_probs=23.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMSR 247 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~ 247 (432)
.+.-+..|...+..+++++..++.++..-.
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~ 31 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKKLSNEN 31 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence 456678888888889999998888887533
No 114
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=29.65 E-value=7.6e+02 Score=26.87 Aligned_cols=29 Identities=21% Similarity=0.227 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 286 VEEVLSLIENAESTKKVSEAIQIGAQAIK 314 (432)
Q Consensus 286 le~~l~~Ie~a~~n~~v~~al~~g~~aLk 314 (432)
+..+...++.+..-..+++.+..-...|+
T Consensus 85 ~~~L~~eL~~~~~~l~~L~~L~~i~~~l~ 113 (593)
T PF06248_consen 85 LQELKRELEENEQLLEVLEQLQEIDELLE 113 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444444444444433
No 115
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=29.09 E-value=2e+02 Score=20.40 Aligned_cols=27 Identities=26% Similarity=0.257 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMSRK 248 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~~~ 248 (432)
|..|+++...|+.|+..|+.....++.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~fs~yKK 27 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAFSQYKK 27 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788888888888888877777664
No 116
>PF14282 FlxA: FlxA-like protein
Probab=28.14 E-value=3.5e+02 Score=22.46 Aligned_cols=27 Identities=7% Similarity=0.180 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 266 AKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 266 Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
-.+.+++...+..+..++..++.....
T Consensus 50 ~~q~q~Lq~QI~~LqaQI~qlq~q~~~ 76 (106)
T PF14282_consen 50 QQQIQLLQAQIQQLQAQIAQLQSQQAE 76 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677778888777777766655543
No 117
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=28.08 E-value=5.5e+02 Score=27.17 Aligned_cols=10 Identities=10% Similarity=0.388 Sum_probs=5.2
Q ss_pred HHHHHHHhhC
Q 013999 336 LQKQAEKVIV 345 (432)
Q Consensus 336 ~~~EI~~~L~ 345 (432)
...|++..|.
T Consensus 400 ~~~E~n~~l~ 409 (493)
T KOG0804|consen 400 EEREENKKLI 409 (493)
T ss_pred HHHHHHHHHH
Confidence 3346666663
No 118
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.98 E-value=5e+02 Score=27.39 Aligned_cols=72 Identities=21% Similarity=0.176 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLI 293 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~I 293 (432)
.++.|......+..+.+.|..+.....+..-....+|.+ -|..++...+-+-..++.+...+..++.-+..+
T Consensus 30 ~~~~ld~~~r~~~~~~e~l~~~rn~~sk~ig~~~~~~~~-~~~~l~~e~~~l~~~l~~~e~~~~~~~~~l~~~ 101 (429)
T COG0172 30 KLLELDEERRKLLRELEELQAERNELSKEIGRALKRGED-DAEELIAEVKELKEKLKELEAALDELEAELDTL 101 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccch-hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 466677777777777777777666666655544444444 455555555666666666555555554444333
No 119
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=27.94 E-value=3e+02 Score=21.68 Aligned_cols=61 Identities=11% Similarity=0.227 Sum_probs=39.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHhhC
Q 013999 272 TKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKKNKISVEELQLCLEELEESIDLQKQAEKVIV 345 (432)
Q Consensus 272 ~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~ 345 (432)
+++.|+.+...-..++.+...|+.|..|...|.. +++..+.+||.--.-+.+++-..++|.
T Consensus 3 L~kEL~~Lr~IN~~ie~~~~~L~~a~~~~~~v~~-------------~~~~t~~LLd~w~~IlSQte~~~~Ll~ 63 (78)
T PF08651_consen 3 LEKELEQLRKINPVIEGLIETLRSAKSNMNRVQE-------------TVESTNTLLDKWIRILSQTEHTQRLLL 63 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 5666776666666677777777777666554433 344556666666666777777788774
No 120
>PRK14163 heat shock protein GrpE; Provisional
Probab=27.59 E-value=5.4e+02 Score=24.44 Aligned_cols=22 Identities=9% Similarity=0.060 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHY 243 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i 243 (432)
+-.|+..+..|++++..+..++
T Consensus 42 ~~~l~~~l~~l~~e~~el~d~~ 63 (214)
T PRK14163 42 TAGLTAQLDQVRTALGERTADL 63 (214)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3445554444444444444333
No 121
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=27.21 E-value=41 Score=25.01 Aligned_cols=17 Identities=24% Similarity=0.815 Sum_probs=13.6
Q ss_pred hHHHHhhhcCCCCCchhhh
Q 013999 5 SVREFVLKEVPDWNDEVIA 23 (432)
Q Consensus 5 ~~~~~i~~~~~~w~d~~Rl 23 (432)
.+..||+.+ |.| |..|+
T Consensus 13 ~m~~fie~h-P~W-DQ~Rl 29 (57)
T PF10929_consen 13 AMKDFIETH-PNW-DQYRL 29 (57)
T ss_pred HHHHHHHcC-CCc-hHHHH
Confidence 478999998 779 57776
No 122
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=27.12 E-value=3.4e+02 Score=21.95 Aligned_cols=53 Identities=11% Similarity=0.033 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESR 276 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l 276 (432)
.|+..+...++++...+.++..+.++.+...+...|.+.-++..+=-.+|..+
T Consensus 5 ~l~~e~e~~~~kl~q~e~~~k~L~nr~k~l~k~eRK~RtHRLi~rGa~lEsi~ 57 (86)
T PF12958_consen 5 ELQAEIEKAEKKLEQAEHKIKQLENRKKKLEKKERKERTHRLIERGAILESIF 57 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHh
Confidence 45556666666666666666666666555554334444444444444444333
No 123
>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=27.11 E-value=4.7e+02 Score=23.65 Aligned_cols=65 Identities=22% Similarity=0.216 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 013999 226 IWTVEKLQLQLDIIDRHYEMSRK-------------SALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 226 k~~~~~L~~~i~~Le~~i~~~~~-------------~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~ 292 (432)
..+...-..+++.|+.++...+. .+.=|.+-|+++.|+.+.. +.++.+.+.-+.+.-.+..
T Consensus 6 ~~~~~~~~~~~~~Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~------~~~~~~~~~~~~id~~l~~ 79 (177)
T PF10602_consen 6 EETKAKNAEELEKLEAELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYS------RARDYCTSPGHKIDMCLNV 79 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHH------HHhhhcCCHHHHHHHHHHH
Confidence 34455556666666666665332 2333556666666665444 4555565555555555555
Q ss_pred HHHH
Q 013999 293 IENA 296 (432)
Q Consensus 293 Ie~a 296 (432)
|.-+
T Consensus 80 irv~ 83 (177)
T PF10602_consen 80 IRVA 83 (177)
T ss_pred HHHH
Confidence 5544
No 124
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.72 E-value=6.3e+02 Score=28.87 Aligned_cols=50 Identities=20% Similarity=0.124 Sum_probs=28.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCC--CCHHHHHHHHHHHHHHH
Q 013999 318 ISVEELQLCLEELEESIDLQKQAEKVIVPSYTG--IDDEDIEEEFKKLEQEV 367 (432)
Q Consensus 318 i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~--~De~ELe~EL~~Le~E~ 367 (432)
+.+....+=-+++.=..+.+++.-.+|...+.+ --.+|+|.|+...-.|.
T Consensus 904 lki~s~kqeqee~~v~~~~~~~~i~alk~~l~dL~q~~eeie~e~~s~~~e~ 955 (970)
T KOG0946|consen 904 LKIVSNKQEQEELLVLLADQKEKIQALKEALEDLNQPVEEIEDEKVSIIGEQ 955 (970)
T ss_pred hcccchhhhHHHHHHHHhhHHHHHHHHHHHHHHhCCChhhHHhhhhcccchh
Confidence 344444445555555666777777777443322 23557777776665443
No 125
>PRK14140 heat shock protein GrpE; Provisional
Probab=26.46 E-value=5.3e+02 Score=23.99 Aligned_cols=21 Identities=14% Similarity=0.151 Sum_probs=10.3
Q ss_pred HHHHHHHHHHhHHHHHHHHHH
Q 013999 271 LTKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 271 ~~ek~l~~~~~~l~~le~~l~ 291 (432)
..++.+..+...++||+-.+.
T Consensus 85 a~~~~~~~LLpvlDnLerAl~ 105 (191)
T PRK14140 85 RAQSLASDLLPALDNFERALQ 105 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 344445555555555554443
No 126
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=26.13 E-value=6.6e+02 Score=26.21 Aligned_cols=38 Identities=11% Similarity=-0.026 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 013999 220 YDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSG 257 (432)
Q Consensus 220 ~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~ 257 (432)
..|+.+-.....+..+++.|..+.....++.+...+.+
T Consensus 30 d~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~~~~~~ 67 (418)
T TIGR00414 30 EKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQK 67 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 45777788888888888888888777777766543333
No 127
>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=26.11 E-value=2e+02 Score=21.79 Aligned_cols=29 Identities=17% Similarity=0.245 Sum_probs=12.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 218 LDYDVLHLIWTVEKLQLQLDIIDRHYEMS 246 (432)
Q Consensus 218 ~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~ 246 (432)
....+..|+..+..++++++.|+.+++.+
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33334444444444444444444444443
No 128
>KOG2912 consensus Predicted DNA methylase [Function unknown]
Probab=25.83 E-value=33 Score=34.58 Aligned_cols=101 Identities=13% Similarity=0.121 Sum_probs=54.8
Q ss_pred CchhHHHHhhhcCCCCCc--hhhhhhhccCCCCCC-----CCcHHHH------HHHHHHHHHHHHHCCceEECccccchh
Q 013999 2 SSTSVREFVLKEVPDWND--EVIATARFKAFSGQR-----SDWEPKF------QFWKNLILKIARHFSLAIIHPSQVKNE 68 (432)
Q Consensus 2 ~~~~~~~~i~~~~~~w~d--~~Rl~sLysdF~~n~-----~gy~ani------~fW~~lI~~~~~~~~~~~~~~~~l~~~ 68 (432)
++..+-+|--.+||.|+. +.-.+---|.|+.-| -||.+-+ .|=..+|...... -+. -+
T Consensus 174 ~~e~~ydFcMcNPPFfe~~~Ea~~n~~~s~~rtpp~~vc~gg~~e~v~eggev~fvnRiitds~~l----r~~-----Ir 244 (419)
T KOG2912|consen 174 ESEIIYDFCMCNPPFFENQLEAKGNNSRSPRRTPPSSVCTGGSQEFVSEGGEVSFVNRIITDSFVL----RKR-----IR 244 (419)
T ss_pred CccceeeEEecCCchhhchhhhccccccCCCCCCcccccccchhHHHhhccHHHHHHHHHHHHHHh----hhc-----ce
Confidence 344566888999999974 333333334444433 2454322 1211111111110 000 01
Q ss_pred hhhcCCCCCCCHHHHHHHHHHCCC-eeehhhhh-cccCCc-hhHHH
Q 013999 69 WFNRGGLTPLCFDDVLFVMYNEGD-VVRSVDLV-DAASGR-LTQLF 111 (432)
Q Consensus 69 ~f~r~~~~P~~L~~Vi~emv~~g~-li~~~ef~-~~~~gw-~swl~ 111 (432)
|.+---|.-.+|..+++.|...|. .+..++|. ..+..| +.|.|
T Consensus 245 wYT~MlGKKsslk~l~~kL~e~gv~kv~itel~qGkTkRW~LaWSF 290 (419)
T KOG2912|consen 245 WYTCMLGKKSSLKPLISKLREQGVTKVKITELVQGKTKRWGLAWSF 290 (419)
T ss_pred EEeeecccccccHHHHHHHHHcCCceEEEEEeeccccceeeEEeee
Confidence 223345888899999999999996 57778887 345555 45543
No 129
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=25.74 E-value=5.6e+02 Score=23.99 Aligned_cols=84 Identities=11% Similarity=0.086 Sum_probs=47.6
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHH-----------
Q 013999 215 ISSLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLL----------- 283 (432)
Q Consensus 215 Ite~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l----------- 283 (432)
....|--+..|+..+..|+.++...+...+.. .+........+ |+.+|+.|+=...+|
T Consensus 91 ~~~~dwEevrLkrELa~Le~~l~~~~~~~~~~---------~~~~~~~~~lv--k~e~EqLL~YK~~ql~~~~~~~~~~~ 159 (195)
T PF12761_consen 91 TEGTDWEEVRLKRELAELEEKLSKVEQAAESR---------RSDTDSKPALV--KREFEQLLDYKERQLRELEEGRSKSG 159 (195)
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHhc---------ccCCcchHHHH--HHHHHHHHHHHHHHHHhhhccCCCCC
Confidence 55778888888888777777777766665542 11111111111 224455554333333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 284 NRVEEVLSLIENAESTKKVSEAIQIG 309 (432)
Q Consensus 284 ~~le~~l~~Ie~a~~n~~v~~al~~g 309 (432)
.+|..+-..|+....++.+++.|-.+
T Consensus 160 ~~l~~v~~Dl~~ie~QV~~Le~~L~~ 185 (195)
T PF12761_consen 160 KNLKSVREDLDTIEEQVDGLESHLSS 185 (195)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777777777777766543
No 130
>PHA01750 hypothetical protein
Probab=25.62 E-value=1.4e+02 Score=22.78 Aligned_cols=26 Identities=23% Similarity=0.399 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
+|+..+..+..+++.|++++.+++.+
T Consensus 46 NL~~ei~~~kikqDnl~~qv~eik~k 71 (75)
T PHA01750 46 NLKTEIEELKIKQDELSRQVEEIKRK 71 (75)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 55666666666666666666655543
No 131
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.57 E-value=1.3e+03 Score=28.06 Aligned_cols=29 Identities=10% Similarity=-0.023 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 220 YDVLHLIWTVEKLQLQLDIIDRHYEMSRK 248 (432)
Q Consensus 220 ~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~ 248 (432)
.-+-+|+..+..+-...+.++..+.....
T Consensus 695 ~f~~~L~~~~~~~p~~~~~~~~~~~~~~~ 723 (1311)
T TIGR00606 695 EFISDLQSKLRLAPDKLKSTESELKKKEK 723 (1311)
T ss_pred HHHHHHHHHHhcchhhHHHHHHHHHHHHH
Confidence 33445666555554455555555554443
No 132
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=25.55 E-value=2.3e+02 Score=32.63 Aligned_cols=28 Identities=14% Similarity=0.291 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 222 VLHLIWTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 222 I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
++++.....+|+++++.++.+++.+..+
T Consensus 806 ~id~~~e~~rL~K~l~kl~~ei~~~~~k 833 (874)
T PRK05729 806 LIDVEAELARLEKELAKLEKEIERVEKK 833 (874)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445566666777777777776666654
No 133
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=25.53 E-value=4.6e+02 Score=29.12 Aligned_cols=48 Identities=17% Similarity=0.028 Sum_probs=32.3
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHhh
Q 013999 317 KISVEELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLEQEVEC 369 (432)
Q Consensus 317 ~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le~E~~~ 369 (432)
.++--+++++..++++..+...++...|+. =-+=+-+||.+|...-..
T Consensus 400 rlt~~e~~k~~~e~~~l~~~i~~~~~~L~~-----~~~~~~~el~~l~~kyg~ 447 (635)
T PRK09631 400 RISLFDIDKNQKEIRILNKELKSVEKNLKS-----IKGYAINFIDKLLAKYSK 447 (635)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHhCC
Confidence 455556677777777777777788888755 223466788888766544
No 134
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=25.35 E-value=2.6e+02 Score=24.89 Aligned_cols=39 Identities=13% Similarity=0.082 Sum_probs=29.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLH 255 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~ 255 (432)
+.|.+|--|+..++.|.+-++.++..|..+...+....+
T Consensus 91 ~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~ 129 (145)
T COG1730 91 SADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQ 129 (145)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888888888888888888888877777766554443
No 135
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=25.30 E-value=4.9e+02 Score=27.34 Aligned_cols=26 Identities=15% Similarity=0.224 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMS 246 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~ 246 (432)
.+-.|+..+..+..++..++..+..+
T Consensus 335 ~~~~l~~~~~~~~~~l~~l~~~l~~l 360 (451)
T PF03961_consen 335 KLEELEEELEELKEELEKLKKNLKKL 360 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33444444444444444444444333
No 136
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=25.27 E-value=4.1e+02 Score=29.31 Aligned_cols=67 Identities=15% Similarity=0.193 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-H-hcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 013999 228 TVEKLQLQLDIIDRHYEMSRKSALAS-L-HSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIE 294 (432)
Q Consensus 228 ~~~~L~~~i~~Le~~i~~~~~~ak~~-~-~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie 294 (432)
.+..|+++|+.|+.++..+....-.. . ..+....+....+....+++.++.+......|+..+..++
T Consensus 564 ~~~~~e~~i~~le~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~w~~l~~~~~~~~ 632 (638)
T PRK10636 564 EIARLEKEMEKLNAQLAQAEEKLGDSELYDQSRKAELTACLQQQASAKSGLEECEMAWLEAQEQLEQML 632 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCchhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34456666666666665555543211 1 1122334566667777888888888888888887665554
No 137
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=25.18 E-value=3.6e+02 Score=27.21 Aligned_cols=86 Identities=17% Similarity=0.134 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHhhccccCccccchhhHHhhhCC--cchHHHHHHHHhccCccceeeeecCCceeEEEeeCC--CCcCC
Q 013999 138 VLKDKADEVIKLLSESHWTSSCIITMKKFQDKCGG--QDEASAVLSFLTGRGKALYLSISKNEFTEGVKVSLS--PAAVS 213 (432)
Q Consensus 138 ~l~~~a~~i~~~~~~~~~~sd~v~s~~ef~~~~~~--~~d~~vlL~yL~~~~~~k~v~~~~~~~~~~IKf~~~--~~~~~ 213 (432)
-+.++.++|+..+..+ .+...|+.+++...+.. ..++..++..|...++. .+.++++..+-|.... ..+..
T Consensus 6 ~~~~~~~~l~~~~~~~--~~~~~~~~~~L~~~~~~~~~~~~~~~in~Ll~~~~~---~~~~~~~~l~~~~~~~~~a~k~~ 80 (327)
T PF05158_consen 6 KLSELEKKLLELCREN--PSPKGFSQEDLQQLIPGLDLQELVKAINELLSSGLL---KLLKKGGGLSYKAVSEEEAKKLK 80 (327)
T ss_dssp -HHHHHHHHHHHHHH-----SS-EEHHHHHHH-TTS-HHHHHHHHHHHHHHTSE---EEEE-SSSEEEEE--SSS-----
T ss_pred hHHHHHHHHHHHHHHh--cCCCCcCHHHHHhhcCCCCHHHHHHHHHHHHhCCCE---EEEEcCCEEEEEEeCHHHHhhhc
Confidence 4677888999888776 22468999999999765 34566678888866653 3333333323343322 33466
Q ss_pred CCCchhHHHHHHHHH
Q 013999 214 SISSLDYDVLHLIWT 228 (432)
Q Consensus 214 ~Ite~D~~I~~Lk~~ 228 (432)
.+++.+.-||++-..
T Consensus 81 ~l~~~e~lvy~~I~~ 95 (327)
T PF05158_consen 81 GLSDEERLVYQLIEE 95 (327)
T ss_dssp SSSCCHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 789999999988765
No 138
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=25.03 E-value=9.3e+02 Score=26.32 Aligned_cols=80 Identities=18% Similarity=0.154 Sum_probs=51.0
Q ss_pred HHHHHHHHHH-HHHHHHHHHhHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHh----cCCChHHHHH
Q 013999 262 ALRHAKQLKL-TKESREKCTSLLNRVEEV-----------LSLIENAESTKKVSEAIQIGAQAIKK----NKISVEELQL 325 (432)
Q Consensus 262 A~~~Lr~KK~-~ek~l~~~~~~l~~le~~-----------l~~Ie~a~~n~~v~~al~~g~~aLk~----~~i~~e~Ve~ 325 (432)
+...||+++. ++.-+.+..+++.++... ...|+.-... .++++.-++-||. .++++++|+.
T Consensus 260 ~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE---~e~lq~~~d~Lk~~Ie~Q~iS~~dve~ 336 (581)
T KOG0995|consen 260 KEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEE---IEKLQKENDELKKQIELQGISGEDVER 336 (581)
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhcCCCHHHHHH
Confidence 4555666655 555555555555554433 3333333333 3455666666765 4999999999
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 013999 326 CLEELEESIDLQKQAEKVI 344 (432)
Q Consensus 326 ~~ddi~E~~~~~~EI~~~L 344 (432)
+--+-++.....+.|+-.+
T Consensus 337 mn~Er~~l~r~l~~i~~~~ 355 (581)
T KOG0995|consen 337 MNLERNKLKRELNKIQSEL 355 (581)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999888877777777766
No 139
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=24.89 E-value=8.4e+02 Score=25.79 Aligned_cols=30 Identities=23% Similarity=0.267 Sum_probs=23.9
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 013999 317 KISVEELQLCLEELEESIDLQKQAEKVIVP 346 (432)
Q Consensus 317 ~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~ 346 (432)
.++-++++++..+..+..+..++....++.
T Consensus 401 ~LT~~e~~kL~~E~~~l~~ei~~l~~~l~~ 430 (445)
T cd00187 401 RLTKLEREKLLKELKELEAEIEDLEKILAS 430 (445)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 678888888888888888888888777754
No 140
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=24.86 E-value=1.2e+03 Score=27.35 Aligned_cols=8 Identities=0% Similarity=0.268 Sum_probs=3.4
Q ss_pred CCcHHHHH
Q 013999 35 SDWEPKFQ 42 (432)
Q Consensus 35 ~gy~ani~ 42 (432)
.+|..-|.
T Consensus 535 ~~y~~Aie 542 (1164)
T TIGR02169 535 ERYATAIE 542 (1164)
T ss_pred HHHHHHHH
Confidence 34444433
No 141
>PF07426 Dynactin_p22: Dynactin subunit p22; InterPro: IPR009991 This family contains p22, the smallest subunit of dynactin, a complex that binds to cytoplasmic dynein and is a required activator for cytoplasmic dynein-mediated vesicular transport. Dynactin localises to the cleavage furrow and to the midbodies of dividing cells, suggesting that it may function in cytokinesis [].
Probab=24.56 E-value=5.4e+02 Score=23.47 Aligned_cols=119 Identities=15% Similarity=0.154 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHHHHH--------------HHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHHHHH-hHH-----HH
Q 013999 228 TVEKLQLQLDIIDRHYEM--------------SRKSALASLH--SGNKTVALRHAKQLKLTKESREKCT-SLL-----NR 285 (432)
Q Consensus 228 ~~~~L~~~i~~Le~~i~~--------------~~~~ak~~~~--~~~k~~A~~~Lr~KK~~ek~l~~~~-~~l-----~~ 285 (432)
.++.|++||+.||.++-- .-..+...+. ...|.+-+.++++-.-+++.|+=.. ... ..
T Consensus 6 ~l~~Le~Ri~~LE~~v~G~~~~~~~~~~~v~~~L~~~~~~L~~~~s~re~i~~l~k~~~eL~~YLDP~~~e~~~l~~~~K 85 (174)
T PF07426_consen 6 ALDILEKRIEELERRVYGENGSKEGQPEKVIDSLLSVQSALNSAASKRERIKELFKRIEELNKYLDPNFIEEIQLPDSAK 85 (174)
T ss_pred HHHHHHHHHHHHHHHHcCCCccccCCchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcCchhhhhcccchHHH
Confidence 456777777777777710 0111222221 2356666677777777777665321 111 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 013999 286 VEEVLSLIENAESTKKVSEAIQIGAQAIKKNKI-SVEELQLCLEELEESIDLQKQAEKVIVP 346 (432)
Q Consensus 286 le~~l~~Ie~a~~n~~v~~al~~g~~aLk~~~i-~~e~Ve~~~ddi~E~~~~~~EI~~~L~~ 346 (432)
++-++..=+.-..+...++-++.-..+|-...+ ++-...+-+..+......|.|..+.|+.
T Consensus 86 ~~~ILa~e~~i~~~~~~Leki~~L~pvL~se~i~~vp~~~~kL~~L~~~~~~Q~e~~~~ls~ 147 (174)
T PF07426_consen 86 LQIILAEEDEIKSTAELLEKIKSLEPVLDSESIRNVPELCDKLQKLSQIHLEQQEESEELSE 147 (174)
T ss_pred HHHHHHccHHHHHHHHHHHHHHHhhhhcCcHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444445566666666666666665334 4444445555555555555555554433
No 142
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=24.44 E-value=4.2e+02 Score=22.13 Aligned_cols=39 Identities=8% Similarity=0.035 Sum_probs=21.2
Q ss_pred CCCCchhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 213 SSISSLDYDVL--HLIWTVEKLQLQLDIIDRHYEMSRKSAL 251 (432)
Q Consensus 213 ~~Ite~D~~I~--~Lk~~~~~L~~~i~~Le~~i~~~~~~ak 251 (432)
..++..+-.+. ..-.++..|...++....+|..+..+.+
T Consensus 37 q~L~kiE~~~~~l~qgeqI~kL~e~V~~QGEqIkel~~e~k 77 (102)
T PF01519_consen 37 QRLTKIENKLDQLAQGEQINKLTEKVDKQGEQIKELQVEQK 77 (102)
T ss_dssp TB-BHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666666 4445555555555556666665555444
No 143
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=24.44 E-value=1e+03 Score=26.71 Aligned_cols=32 Identities=16% Similarity=0.160 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 013999 265 HAKQLKLTKESREKCTSLLNRVEEVLSLIENA 296 (432)
Q Consensus 265 ~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a 296 (432)
|-.+++.+|..+.++...|-.-++.+...+.-
T Consensus 543 ~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~ 574 (697)
T PF09726_consen 543 CRQRRRQLESELKKLRRELKQKEEQIRELESE 574 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44467778888877777777777766666553
No 144
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=24.19 E-value=1.3e+03 Score=27.62 Aligned_cols=28 Identities=25% Similarity=0.356 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRK 248 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~ 248 (432)
.+-++...+..+..++..+..+++.+..
T Consensus 696 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 723 (1163)
T COG1196 696 ELRSLEDLLEELRRQLEELERQLEELKR 723 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444333
No 145
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=23.70 E-value=3.2e+02 Score=29.07 Aligned_cols=68 Identities=12% Similarity=0.079 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 013999 226 IWTVEKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENA 296 (432)
Q Consensus 226 k~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a 296 (432)
..++..++.|+..|+.+|..+......+-. + ...-....+.+.+++.+..+...+..|+.++..++..
T Consensus 162 ~vQ~~L~~~Rl~~L~~qi~~~~~~l~~~~~-~--~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~l~~l~~~ 229 (475)
T PF10359_consen 162 RVQIELIQERLDELEEQIEKHEEKLGELEL-N--PDDPELKSDIEELERHISSLKERIEFLENMLEDLEDS 229 (475)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhcccc-c--cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 345566777777777777777766544322 1 1111222445555566666666666666666555543
No 146
>PRK06771 hypothetical protein; Provisional
Probab=23.64 E-value=3.9e+02 Score=21.93 Aligned_cols=22 Identities=14% Similarity=0.317 Sum_probs=18.5
Q ss_pred HHHHHHHHhcCCHHHHHHHHHH
Q 013999 247 RKSALASLHSGNKTVALRHAKQ 268 (432)
Q Consensus 247 ~~~ak~~~~~~~k~~A~~~Lr~ 268 (432)
.++.+.+++.|++-.|....|.
T Consensus 56 ~~e~~~Li~~Gkki~AIK~~Re 77 (93)
T PRK06771 56 NKELRQLMEEGQTVTAVKRVRE 77 (93)
T ss_pred cHHHHHHHHcCCchHHHHHHHH
Confidence 4568889999999999888775
No 147
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=22.85 E-value=33 Score=35.96 Aligned_cols=24 Identities=13% Similarity=0.261 Sum_probs=20.3
Q ss_pred HhhhcCCCCC-------chhhhhhhccCCCC
Q 013999 9 FVLKEVPDWN-------DEVIATARFKAFSG 32 (432)
Q Consensus 9 ~i~~~~~~w~-------d~~Rl~sLysdF~~ 32 (432)
||..+||.-+ ||.||+|||-+|-.
T Consensus 92 FidQlP~gmR~sLY~KDDDyRLSFL~GnyiT 122 (433)
T TIGR03279 92 FIDQQPPGKRESLYLKDDDYRLSFLYGSYLT 122 (433)
T ss_pred eccCCCCCCcCcceeccCcchhhhhccceee
Confidence 7778888765 77999999999976
No 148
>KOG0981 consensus DNA topoisomerase I [Replication, recombination and repair]
Probab=22.83 E-value=2.1e+02 Score=31.13 Aligned_cols=40 Identities=25% Similarity=0.358 Sum_probs=26.5
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 275 SREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIK 314 (432)
Q Consensus 275 ~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk 314 (432)
..++...+++.|++.|.+++-..++++=..+...|+.-|.
T Consensus 677 ~~Ek~~k~~~~l~eqi~kl~~q~~dkeenK~vALGTSKiN 716 (759)
T KOG0981|consen 677 EVEKKEKKLERLEEQLKKLEIQMTDKEENKQVALGTSKLN 716 (759)
T ss_pred cHHHHHHHHHHHHHHHHHHhhhccchhhcceeeccccccc
Confidence 5556666666677777777777677766666666666554
No 149
>PF03522 KCl_Cotrans_1: K-Cl Co-transporter type 1 (KCC1); InterPro: IPR018491 The K-Cl co-transporter (KCC) mediates the coupled movement of K+ and Cl- ions across the plasma membrane of many animal cells. This transport is involved in the regulatory volume decrease in response to cell swelling in red blood cells, and has been proposed to play a role in the vectorial movement of Cl- across kidney epithelia. The transport process involves one for one electroneutral movement of K+ together with Cl-, and, in all known mammalian cells, the net movement is outward []. In neurones, it appears to play a unique role in maintaining low intracellular Cl-concentration, which is required for the functioning of Cl- dependent fast synaptic inhibition, mediated by certain neurotransmitters, such as gamma-aminobutyric acid (GABA) and glycine. Three isoforms of the K-Cl co-transporter have been described, termed KCC1 KCC2, and KCC3, containing 1085, 1116 and 1150 amino acids, respectively. They are predicted to have 12 transmembrane (TM) regions in a central hydrophobic domain, together with hydrophilic N- and C-termini that are likely cytoplasmic. Comparison of their sequences with those of other ion-tranporting membrane proteins reveals that they are part of a new superfamily of cation-chloride co-transporters, which includes the Na-Cl and Na-K-2Cl co-transporters. KCC1 and KCC3 are widely expressed in human tissues, while KCC2 is are expressed only in brain neurones, making it likely that this is the isoform responsible for maintaining low Cl- concentration in neurones [, , ]. KCC1 is widely expressed in human tissues, and when heterologously expressed, possesses the functional characteristics of the well-studied red blood cell K-Cl co-transporter, including stimulation by both swelling and N-ethylmaleimide. Several splice variants have also been identified. KCC3 is widely expressed in human tissues and, like KCC1, is stimulated by both swelling and N-ethylmaleimide. The induction of KCC3 is up-regulated by vascular endothelial growth factor and down-regulated by tumour necrosis factor. Defects in KCC3 are linked to agenesis of the corpus callosum with peripheral neuropathy []. This disorder is characterised by severe progressive sensorimotor neuropathy, mental retardation, dysmorphic features and complete or partial agenesis of the corpus callosum.; GO: 0005215 transporter activity, 0006811 ion transport, 0016020 membrane
Probab=22.76 E-value=28 Score=22.22 Aligned_cols=12 Identities=0% Similarity=-0.069 Sum_probs=9.3
Q ss_pred hhhhhhccCCCC
Q 013999 21 VIATARFKAFSG 32 (432)
Q Consensus 21 ~Rl~sLysdF~~ 32 (432)
-||.|||||=-.
T Consensus 8 lrl~SlySDeee 19 (30)
T PF03522_consen 8 LRLESLYSDEEE 19 (30)
T ss_pred eeeeccccCccc
Confidence 589999998554
No 150
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=22.71 E-value=6.2e+02 Score=23.46 Aligned_cols=29 Identities=10% Similarity=0.165 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 013999 269 LKLTKESREKCTSLLNRVEEVLSLIENAE 297 (432)
Q Consensus 269 KK~~ek~l~~~~~~l~~le~~l~~Ie~a~ 297 (432)
|..+++.+..+...++||+..+..+....
T Consensus 82 k~a~e~~~~dlLpviDnlerAl~~~~~~~ 110 (193)
T COG0576 82 KYAIEKFAKDLLPVIDNLERALEAAEDDK 110 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 56788888888889999988888777663
No 151
>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed. It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].
Probab=22.59 E-value=7.8e+02 Score=24.59 Aligned_cols=83 Identities=14% Similarity=0.170 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHH
Q 013999 260 TVALRHAKQLKLTKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKKN-KISVEELQLCLEELEESIDLQK 338 (432)
Q Consensus 260 ~~A~~~Lr~KK~~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~~-~i~~e~Ve~~~ddi~E~~~~~~ 338 (432)
..+....+.+..+...+.+.......|+++---+.. .|..+.+-...-...-... .--.++.+..+.+|+..++.++
T Consensus 50 Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk--~Nk~lkeE~~~~~~eee~kR~el~~kFq~~L~dIq~~~ee~~ 127 (309)
T PF09728_consen 50 KKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQK--QNKKLKEESKRRAREEEEKRKELSEKFQATLKDIQAQMEEQS 127 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344556666667777777777777777776544433 2344443333333333321 2234566666666666666665
Q ss_pred HHHHhh
Q 013999 339 QAEKVI 344 (432)
Q Consensus 339 EI~~~L 344 (432)
+-+..+
T Consensus 128 ~~~~k~ 133 (309)
T PF09728_consen 128 ERNIKL 133 (309)
T ss_pred chhHHH
Confidence 554443
No 152
>PRK09343 prefoldin subunit beta; Provisional
Probab=22.46 E-value=1.2e+02 Score=26.00 Aligned_cols=42 Identities=12% Similarity=-0.059 Sum_probs=21.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSGN 258 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~~ 258 (432)
++...+=-+...+..|+++.+.|+.++.......++++..+.
T Consensus 75 ~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~~ 116 (121)
T PRK09343 75 ELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKYY 116 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 334444444445555555555555555555555555555543
No 153
>PF15456 Uds1: Up-regulated During Septation
Probab=22.42 E-value=5.1e+02 Score=22.34 Aligned_cols=20 Identities=20% Similarity=0.320 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 013999 224 HLIWTVEKLQLQLDIIDRHY 243 (432)
Q Consensus 224 ~Lk~~~~~L~~~i~~Le~~i 243 (432)
.||.....|..+++.+.+++
T Consensus 26 ~LKkEl~~L~~R~~~lr~kl 45 (124)
T PF15456_consen 26 ELKKELRSLDSRLEYLRRKL 45 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443
No 154
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=22.20 E-value=1.4e+02 Score=18.07 Aligned_cols=19 Identities=16% Similarity=0.406 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 013999 229 VEKLQLQLDIIDRHYEMSR 247 (432)
Q Consensus 229 ~~~L~~~i~~Le~~i~~~~ 247 (432)
++.+..+|..|++++..|.
T Consensus 3 ~~rlr~rI~dLer~L~~C~ 21 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSECR 21 (23)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4567778888888877764
No 155
>PLN02678 seryl-tRNA synthetase
Probab=22.09 E-value=7.7e+02 Score=26.12 Aligned_cols=33 Identities=18% Similarity=0.230 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 220 YDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALA 252 (432)
Q Consensus 220 ~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~ 252 (432)
-.|+.|-.....+..+++.|..+.......+..
T Consensus 33 d~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~ 65 (448)
T PLN02678 33 DEVIALDKEWRQRQFELDSLRKEFNKLNKEVAK 65 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357778888888888888888888777776654
No 156
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=22.08 E-value=2.7e+02 Score=24.60 Aligned_cols=20 Identities=15% Similarity=0.233 Sum_probs=8.7
Q ss_pred HHHHHHHHhHHHHHHHHHHH
Q 013999 273 KESREKCTSLLNRVEEVLSL 292 (432)
Q Consensus 273 ek~l~~~~~~l~~le~~l~~ 292 (432)
+..+..+...+++|+..+..
T Consensus 61 ~~~~~~ll~v~D~l~~a~~~ 80 (165)
T PF01025_consen 61 EKFLKDLLPVLDNLERALEA 80 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 33344444444444444433
No 157
>PLN02381 valyl-tRNA synthetase
Probab=21.87 E-value=2.8e+02 Score=32.80 Aligned_cols=29 Identities=24% Similarity=0.276 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKS 249 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ 249 (432)
+++++.....+|+++++.++.+|+.+..+
T Consensus 991 ~~iD~~~E~~rL~K~l~klekei~~~~~k 1019 (1066)
T PLN02381 991 GAVNAEAELEKLRNKMDEIQKQQEKLEKK 1019 (1066)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34456666677777777777777666554
No 158
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=21.67 E-value=1.3e+03 Score=26.87 Aligned_cols=17 Identities=29% Similarity=0.659 Sum_probs=8.7
Q ss_pred CHHHHHHHHHHHHHHHh
Q 013999 352 DDEDIEEEFKKLEQEVE 368 (432)
Q Consensus 352 De~ELe~EL~~Le~E~~ 368 (432)
+.+++..+++.|..+..
T Consensus 952 ~~~~l~~~l~~l~~~i~ 968 (1164)
T TIGR02169 952 SLEDVQAELQRVEEEIR 968 (1164)
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 34455555555555443
No 159
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=21.58 E-value=4.8e+02 Score=22.14 Aligned_cols=46 Identities=13% Similarity=0.099 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 013999 230 EKLQLQLDIIDRHYEMSRKSALASLHSGNKTVALRHAKQLKLTKESRE 277 (432)
Q Consensus 230 ~~L~~~i~~Le~~i~~~~~~ak~~~~~~~k~~A~~~Lr~KK~~ek~l~ 277 (432)
...+.+|...+.++.+.....+++...|+.+ +-.-|++|+.|...+
T Consensus 66 ~e~q~ki~~~~~kV~ere~eL~eA~~~G~~~--KI~K~~~KL~ea~~e 111 (115)
T PF06476_consen 66 AERQQKIAEKQQKVAEREAELKEAQAKGDSD--KIAKRQKKLAEAKAE 111 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCHH--HHHHHHHHHHHHHHH
Confidence 4556678888888888888888888889774 666777787776543
No 160
>PF13514 AAA_27: AAA domain
Probab=21.41 E-value=1.4e+03 Score=27.08 Aligned_cols=35 Identities=6% Similarity=0.149 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013999 221 DVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLH 255 (432)
Q Consensus 221 ~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~ 255 (432)
.+......+..+..++..++..+.....++...+.
T Consensus 737 ~l~~~~~~~~~~~~ri~~~~~~~~~f~~~~~~L~~ 771 (1111)
T PF13514_consen 737 ELREALAEIRELRRRIEQMEADLAAFEEQVAALAE 771 (1111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777888888888888888887776654
No 161
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.28 E-value=1.8e+02 Score=25.91 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHH
Q 013999 322 ELQLCLEELEESIDLQKQAEKVIVPSYTGIDDEDIEEEFKKLE 364 (432)
Q Consensus 322 ~Ve~~~ddi~E~~~~~~EI~~~L~~~~~~~De~ELe~EL~~Le 364 (432)
-||..+|.|.+.|+. |+-.+ +.||++|+.+++++.
T Consensus 130 ~VD~~LDRI~~LMe~-------LGl~~-dddEdDl~~~~~q~D 164 (169)
T COG3078 130 WVDAKLDRIDELMEK-------LGLSY-DDDEDDLERDEKQED 164 (169)
T ss_pred HHHHHHHHHHHHHHH-------hCCcc-CCchHHHHHHHHHHH
Confidence 377777777766654 33322 446888888887653
No 162
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.09 E-value=7.5e+02 Score=23.79 Aligned_cols=28 Identities=14% Similarity=0.045 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 225 LIWTVEKLQLQLDIIDRHYEMSRKSALA 252 (432)
Q Consensus 225 Lk~~~~~L~~~i~~Le~~i~~~~~~ak~ 252 (432)
=..+..-|...|+.|..+|+.+....-.
T Consensus 120 k~e~~~wl~~~Id~L~~QiE~~E~E~E~ 147 (233)
T PF04065_consen 120 KEEARDWLKDSIDELNRQIEQLEAEIES 147 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566777777777777777766543
No 163
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=20.84 E-value=6.9e+02 Score=26.09 Aligned_cols=31 Identities=19% Similarity=0.297 Sum_probs=26.6
Q ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 013999 316 NKISVEELQLCLEELEESIDLQKQAEKVIVP 346 (432)
Q Consensus 316 ~~i~~e~Ve~~~ddi~E~~~~~~EI~~~L~~ 346 (432)
..++-++++++..++++.....++....++.
T Consensus 386 ~~LT~~e~~kL~~e~~~l~~ei~~l~~~~~~ 416 (426)
T PF00521_consen 386 RRLTKEEIEKLQKEIKELEKEIEELEKILPK 416 (426)
T ss_dssp GGGSHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3789999999999999998888888887744
No 164
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.76 E-value=1.3e+02 Score=22.36 Aligned_cols=24 Identities=21% Similarity=0.379 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 223 LHLIWTVEKLQLQLDIIDRHYEMS 246 (432)
Q Consensus 223 ~~Lk~~~~~L~~~i~~Le~~i~~~ 246 (432)
..++....+++++++.++++++..
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566777777777777777776653
No 165
>PRK14153 heat shock protein GrpE; Provisional
Probab=20.46 E-value=7e+02 Score=23.25 Aligned_cols=20 Identities=10% Similarity=0.084 Sum_probs=9.8
Q ss_pred HHHHHHHHHhHHHHHHHHHH
Q 013999 272 TKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 272 ~ek~l~~~~~~l~~le~~l~ 291 (432)
.++.+..+..-++||+..+.
T Consensus 82 ~~~~~~~LLpv~DnLerAl~ 101 (194)
T PRK14153 82 LEQVLLDLLEVTDNFERALE 101 (194)
T ss_pred HHHHHHHHhhHHhHHHHHHh
Confidence 34444455555555555443
No 166
>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=20.43 E-value=2e+02 Score=21.55 Aligned_cols=35 Identities=14% Similarity=0.221 Sum_probs=27.3
Q ss_pred cccchhhHHhhhCC-cchHHHHHHHHhccCccceee
Q 013999 159 CIITMKKFQDKCGG-QDEASAVLSFLTGRGKALYLS 193 (432)
Q Consensus 159 ~v~s~~ef~~~~~~-~~d~~vlL~yL~~~~~~k~v~ 193 (432)
..+|..++...|+. +..++.+|.+|.+.|+.+.+.
T Consensus 13 ~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~ 48 (69)
T PF09012_consen 13 GRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVD 48 (69)
T ss_dssp -SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEE
T ss_pred CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEec
Confidence 36788999999987 567889999999999866553
No 167
>PRK14141 heat shock protein GrpE; Provisional
Probab=20.40 E-value=4e+02 Score=25.21 Aligned_cols=20 Identities=10% Similarity=0.087 Sum_probs=8.7
Q ss_pred HHHHHHHHHhHHHHHHHHHH
Q 013999 272 TKESREKCTSLLNRVEEVLS 291 (432)
Q Consensus 272 ~ek~l~~~~~~l~~le~~l~ 291 (432)
.++.+..+..-+++|+..+.
T Consensus 80 ~~~~~~dLLpViDnLerAl~ 99 (209)
T PRK14141 80 IAGFARDMLSVSDNLRRALD 99 (209)
T ss_pred HHHHHHHHhhhHhHHHHHHh
Confidence 33444444444444444443
No 168
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=20.38 E-value=3.3e+02 Score=21.87 Aligned_cols=38 Identities=13% Similarity=0.122 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 013999 220 YDVLHLIWTVEKLQLQLDIIDRHYEMSRKSALASLHSG 257 (432)
Q Consensus 220 ~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~~ak~~~~~~ 257 (432)
.-+..|-.+++.|...++.||.+-+.+..+.++++.++
T Consensus 26 ~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesn 63 (83)
T PF03670_consen 26 EEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESN 63 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 34778889999999999999999999999888888765
No 169
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=20.36 E-value=4.8e+02 Score=21.31 Aligned_cols=88 Identities=19% Similarity=0.231 Sum_probs=39.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CC-ChHHHHHHHHHHHHHHHHHHHHHHhhCCCCC
Q 013999 272 TKESREKCTSLLNRVEEVLSLIENAESTKKVSEAIQIGAQAIKKN-KI-SVEELQLCLEELEESIDLQKQAEKVIVPSYT 349 (432)
Q Consensus 272 ~ek~l~~~~~~l~~le~~l~~Ie~a~~n~~v~~al~~g~~aLk~~-~i-~~e~Ve~~~ddi~E~~~~~~EI~~~L~~~~~ 349 (432)
+.+.+..+..++..|+..+.-.+.+.... ..+..+..+.+.. ++ =.-+++++...+.+.++..+.--..+..
T Consensus 11 l~~~~~~l~~~~~~l~~~~~E~~~v~~EL---~~l~~d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~--- 84 (105)
T cd00632 11 LQQQLQAYIVQRQKVEAQLNENKKALEEL---EKLADDAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLER--- 84 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HcCCCcchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence 33344444444444444444333333322 2222455555542 11 1223455555555544444433333332
Q ss_pred CCCHHHHHHHHHHHHHHH
Q 013999 350 GIDDEDIEEEFKKLEQEV 367 (432)
Q Consensus 350 ~~De~ELe~EL~~Le~E~ 367 (432)
..+++++++.++..+.
T Consensus 85 --~~~~l~~~~~elk~~l 100 (105)
T cd00632 85 --QEEDLQEKLKELQEKI 100 (105)
T ss_pred --HHHHHHHHHHHHHHHH
Confidence 3456777777766554
No 170
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=20.17 E-value=7.6e+02 Score=23.53 Aligned_cols=32 Identities=25% Similarity=0.291 Sum_probs=16.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013999 217 SLDYDVLHLIWTVEKLQLQLDIIDRHYEMSRK 248 (432)
Q Consensus 217 e~D~~I~~Lk~~~~~L~~~i~~Le~~i~~~~~ 248 (432)
..+..+-.+..+...|..++..|+.+|..++.
T Consensus 103 ~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~ 134 (225)
T COG1842 103 ALEAELQQAEEQVEKLKKQLAALEQKIAELRA 134 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555555555555555443
No 171
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=20.02 E-value=1.5e+03 Score=26.77 Aligned_cols=14 Identities=7% Similarity=0.076 Sum_probs=8.7
Q ss_pred cchHHHHHHHHhcc
Q 013999 173 QDEASAVLSFLTGR 186 (432)
Q Consensus 173 ~~d~~vlL~yL~~~ 186 (432)
+.|++..+.+....
T Consensus 624 crdl~qa~~~ak~~ 637 (1200)
T KOG0964|consen 624 CRDLEQALRLAKKH 637 (1200)
T ss_pred eccHHHHHHHHHhc
Confidence 46777777766433
Done!