Query 020560
Match_columns 324
No_of_seqs 281 out of 453
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:21:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020560.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020560hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0944 Ubiquitin-specific pro 100.0 5.3E-32 1.1E-36 276.8 6.8 157 3-170 438-627 (763)
2 COG5207 UBP14 Isopeptidase T [ 99.9 1.9E-28 4.1E-33 245.2 7.8 156 3-169 429-613 (749)
3 KOG2689 Predicted ubiquitin re 99.9 4.9E-26 1.1E-30 213.7 17.7 151 118-269 4-178 (290)
4 KOG2699 Predicted ubiquitin re 99.4 2.1E-13 4.6E-18 135.1 5.5 284 20-320 4-305 (407)
5 KOG2507 Ubiquitin regulatory p 99.2 7.8E-12 1.7E-16 124.2 6.1 98 184-281 197-297 (506)
6 PF00627 UBA: UBA/TS-N domain; 99.0 7.1E-10 1.5E-14 75.3 4.2 37 113-150 1-37 (37)
7 cd00194 UBA Ubiquitin Associat 98.8 1E-08 2.2E-13 69.3 5.3 38 114-152 1-38 (38)
8 smart00165 UBA Ubiquitin assoc 98.8 8.8E-09 1.9E-13 69.3 4.9 37 114-151 1-37 (37)
9 KOG0944 Ubiquitin-specific pro 98.5 9.7E-08 2.1E-12 99.7 5.1 49 112-161 633-681 (763)
10 cd02664 Peptidase_C19H A subfa 97.9 4E-06 8.6E-11 80.8 0.7 90 4-101 109-213 (327)
11 cd02668 Peptidase_C19L A subfa 97.8 3.9E-06 8.5E-11 80.4 0.1 53 42-101 176-235 (324)
12 cd02660 Peptidase_C19D A subfa 97.8 4.8E-06 1E-10 79.1 0.1 52 43-101 196-253 (328)
13 cd02667 Peptidase_C19K A subfa 97.8 6.2E-06 1.4E-10 77.5 0.4 49 43-101 132-186 (279)
14 cd02663 Peptidase_C19G A subfa 97.6 1.6E-05 3.4E-10 75.5 0.6 53 42-101 167-226 (300)
15 cd02657 Peptidase_C19A A subfa 97.6 2.2E-05 4.8E-10 73.9 1.3 52 42-100 175-233 (305)
16 cd02658 Peptidase_C19B A subfa 97.6 1.8E-05 4E-10 74.8 0.2 43 40-89 192-237 (311)
17 cd02661 Peptidase_C19E A subfa 97.5 2.7E-05 5.8E-10 72.3 0.5 89 5-101 135-237 (304)
18 cd02659 peptidase_C19C A subfa 97.4 3E-05 6.6E-10 73.8 0.1 53 42-101 171-230 (334)
19 cd02674 Peptidase_C19R A subfa 97.4 4.9E-05 1.1E-09 68.2 0.5 53 41-100 103-161 (230)
20 cd02673 Peptidase_C19Q A subfa 97.3 8.4E-05 1.8E-09 69.7 0.7 38 40-85 124-161 (245)
21 TIGR00601 rad23 UV excision re 97.0 0.00078 1.7E-08 67.5 5.1 41 114-155 156-196 (378)
22 KOG1865 Ubiquitin carboxyl-ter 96.9 0.00047 1E-08 71.4 1.9 90 5-101 239-341 (545)
23 cd02671 Peptidase_C19O A subfa 96.8 0.00054 1.2E-08 66.9 1.6 53 42-101 200-263 (332)
24 COG5207 UBP14 Isopeptidase T [ 96.6 0.00078 1.7E-08 69.6 1.6 53 111-165 618-670 (749)
25 cd02662 Peptidase_C19F A subfa 95.8 0.0015 3.2E-08 60.4 -1.3 43 39-96 110-158 (240)
26 KOG2561 Adaptor protein NUB1, 95.8 0.023 5.1E-07 58.2 6.8 48 110-158 425-472 (568)
27 TIGR00601 rad23 UV excision re 95.5 0.02 4.3E-07 57.5 5.4 44 112-156 335-378 (378)
28 COG5533 UBP5 Ubiquitin C-termi 95.5 0.0022 4.8E-08 63.0 -1.5 41 42-89 284-326 (415)
29 cd02672 Peptidase_C19P A subfa 95.2 0.0066 1.4E-07 57.7 0.5 40 38-84 130-173 (268)
30 KOG4598 Putative ubiquitin-spe 95.1 0.0056 1.2E-07 65.4 -0.3 55 40-101 232-293 (1203)
31 KOG0011 Nucleotide excision re 94.9 0.037 8.1E-07 54.6 5.0 40 114-154 298-337 (340)
32 cd02257 Peptidase_C19 Peptidas 94.9 0.013 2.9E-07 50.8 1.6 55 38-99 112-174 (255)
33 KOG0011 Nucleotide excision re 94.4 0.05 1.1E-06 53.7 4.4 41 113-154 134-174 (340)
34 PF09288 UBA_3: Fungal ubiquit 93.8 0.062 1.3E-06 40.2 2.9 29 112-140 7-35 (55)
35 cd02669 Peptidase_C19M A subfa 93.8 0.022 4.9E-07 57.6 0.8 57 38-101 307-369 (440)
36 KOG2561 Adaptor protein NUB1, 93.7 0.21 4.5E-06 51.5 7.5 40 112-152 301-340 (568)
37 KOG1866 Ubiquitin carboxyl-ter 93.7 0.014 3.1E-07 62.7 -0.9 53 42-101 266-325 (944)
38 PTZ00266 NIMA-related protein 92.3 2 4.3E-05 48.6 13.1 17 249-266 508-524 (1021)
39 KOG0163 Myosin class VI heavy 91.8 3.1 6.7E-05 45.7 13.2 82 182-266 924-1012(1259)
40 smart00546 CUE Domain that may 91.6 0.36 7.9E-06 33.4 4.3 37 114-152 2-41 (43)
41 COG5560 UBP12 Ubiquitin C-term 91.4 0.053 1.2E-06 57.7 -0.2 54 41-101 694-753 (823)
42 PF00443 UCH: Ubiquitin carbox 90.7 0.056 1.2E-06 48.0 -0.7 49 41-101 141-197 (269)
43 PF14555 UBA_4: UBA-like domai 89.4 1.1 2.3E-05 31.2 5.0 40 117-157 3-43 (43)
44 KOG2412 Nuclear-export-signal 88.7 5.6 0.00012 42.1 11.8 25 289-313 316-341 (591)
45 COG1773 Rubredoxin [Energy pro 87.4 0.13 2.7E-06 38.6 -0.8 42 5-50 3-44 (55)
46 PF07499 RuvA_C: RuvA, C-termi 86.7 1.7 3.7E-05 30.9 4.8 32 114-145 3-37 (47)
47 cd02670 Peptidase_C19N A subfa 86.4 0.26 5.7E-06 46.5 0.6 42 60-101 88-134 (241)
48 PF08882 Acetone_carb_G: Aceto 86.2 0.29 6.4E-06 41.5 0.7 45 5-51 24-83 (112)
49 KOG0418 Ubiquitin-protein liga 86.1 0.79 1.7E-05 42.3 3.5 39 113-152 161-199 (200)
50 PF12756 zf-C2H2_2: C2H2 type 85.9 0.17 3.8E-06 39.2 -0.7 65 7-72 1-80 (100)
51 KOG1868 Ubiquitin C-terminal h 85.7 0.28 6.2E-06 52.6 0.5 36 43-85 518-555 (653)
52 cd00730 rubredoxin Rubredoxin; 85.5 0.14 3E-06 37.5 -1.3 42 6-51 2-43 (50)
53 KOG0163 Myosin class VI heavy 85.4 12 0.00026 41.4 12.2 55 208-263 941-995 (1259)
54 KOG1029 Endocytic adaptor prot 85.3 9.9 0.00021 42.0 11.6 31 126-156 212-242 (1118)
55 cd00350 rubredoxin_like Rubred 85.2 0.39 8.5E-06 31.8 0.8 25 6-51 2-26 (33)
56 KOG1029 Endocytic adaptor prot 84.0 20 0.00043 39.8 13.1 19 114-132 214-232 (1118)
57 PF02845 CUE: CUE domain; Int 83.4 3.8 8.2E-05 28.2 5.2 38 115-153 2-41 (42)
58 PF11600 CAF-1_p150: Chromatin 81.4 45 0.00097 30.8 13.1 9 286-294 200-208 (216)
59 PRK12332 tsf elongation factor 81.2 2.9 6.3E-05 38.6 5.1 41 113-154 3-44 (198)
60 KOG1144 Translation initiation 79.7 17 0.00036 40.4 10.8 28 187-214 216-243 (1064)
61 PRK09377 tsf elongation factor 79.4 3.3 7.2E-05 40.4 5.1 41 113-154 4-45 (290)
62 PF02148 zf-UBP: Zn-finger in 79.4 0.94 2E-05 33.9 1.1 44 5-50 11-57 (63)
63 TIGR00116 tsf translation elon 79.1 3.5 7.5E-05 40.3 5.1 41 113-154 3-44 (290)
64 PF00301 Rubredoxin: Rubredoxi 79.1 0.53 1.1E-05 34.0 -0.4 43 5-51 1-43 (47)
65 KOG1863 Ubiquitin carboxyl-ter 77.7 0.85 1.8E-05 51.7 0.6 67 28-101 323-396 (1093)
66 PF15236 CCDC66: Coiled-coil d 77.7 54 0.0012 29.5 12.0 6 177-182 40-45 (157)
67 KOG1870 Ubiquitin C-terminal h 77.5 0.47 1E-05 52.3 -1.5 54 41-101 715-774 (842)
68 cd02665 Peptidase_C19I A subfa 76.8 0.85 1.8E-05 42.8 0.2 30 60-89 118-149 (228)
69 KOG0010 Ubiquitin-like protein 76.6 3.5 7.7E-05 42.9 4.6 37 115-152 455-492 (493)
70 PRK03824 hypA hydrogenase nick 76.3 1.2 2.5E-05 38.6 0.9 47 4-51 69-116 (135)
71 PF09862 DUF2089: Protein of u 74.0 3.1 6.8E-05 35.4 2.9 27 40-72 10-36 (113)
72 PTZ00121 MAEBL; Provisional 73.9 50 0.0011 39.3 12.8 6 46-51 881-886 (2084)
73 CHL00098 tsf elongation factor 73.8 7 0.00015 36.2 5.4 38 116-154 3-41 (200)
74 PRK06369 nac nascent polypepti 71.2 9.7 0.00021 32.6 5.2 41 111-152 73-114 (115)
75 PF14599 zinc_ribbon_6: Zinc-r 70.8 1.8 3.9E-05 33.0 0.7 28 4-50 29-56 (61)
76 PHA00732 hypothetical protein 70.6 4.9 0.00011 31.9 3.1 35 7-52 3-37 (79)
77 PTZ00121 MAEBL; Provisional 69.7 75 0.0016 37.9 13.0 16 253-268 1254-1269(2084)
78 cd00729 rubredoxin_SM Rubredox 68.5 2.5 5.4E-05 28.3 0.9 26 5-51 2-27 (34)
79 PF12171 zf-C2H2_jaz: Zinc-fin 66.9 1.2 2.7E-05 27.7 -0.8 20 7-26 3-22 (27)
80 PHA02768 hypothetical protein; 66.8 5.5 0.00012 29.8 2.5 36 5-51 5-40 (55)
81 smart00531 TFIIE Transcription 66.5 4.7 0.0001 35.1 2.5 37 2-51 96-132 (147)
82 PF11626 Rap1_C: TRF2-interact 66.2 9.6 0.00021 30.3 4.0 37 119-156 2-38 (87)
83 PF07946 DUF1682: Protein of u 66.0 17 0.00038 35.5 6.6 7 94-100 143-149 (321)
84 PF07946 DUF1682: Protein of u 65.1 28 0.00061 34.1 7.9 8 28-35 42-49 (321)
85 TIGR00373 conserved hypothetic 64.9 5.4 0.00012 35.3 2.5 30 4-51 108-137 (158)
86 PRK12380 hydrogenase nickel in 62.3 4.2 9.2E-05 34.1 1.3 10 42-51 86-95 (113)
87 PRK00409 recombination and DNA 62.1 2.1E+02 0.0045 31.8 14.5 26 114-139 487-512 (782)
88 PF12756 zf-C2H2_2: C2H2 type 61.6 9 0.0002 29.4 3.1 32 5-36 50-81 (100)
89 COG5077 Ubiquitin carboxyl-ter 61.4 3.3 7.2E-05 45.5 0.7 43 59-101 367-416 (1089)
90 TIGR00264 alpha-NAC-related pr 59.2 21 0.00045 30.6 5.0 39 112-151 76-115 (116)
91 PRK00398 rpoP DNA-directed RNA 59.1 6.5 0.00014 27.6 1.6 28 5-51 3-30 (46)
92 smart00290 ZnF_UBP Ubiquitin C 59.1 5.4 0.00012 27.9 1.2 31 5-35 11-44 (50)
93 TIGR00100 hypA hydrogenase nic 58.7 5 0.00011 33.8 1.2 27 4-51 69-95 (115)
94 PF15236 CCDC66: Coiled-coil d 58.6 1.4E+02 0.003 26.9 12.8 6 177-182 43-48 (157)
95 PRK03681 hypA hydrogenase nick 57.1 5.9 0.00013 33.3 1.3 10 4-13 69-78 (114)
96 PRK06266 transcription initiat 56.3 9.8 0.00021 34.5 2.7 30 4-51 116-145 (178)
97 PF14353 CpXC: CpXC protein 56.1 6.3 0.00014 33.1 1.4 12 40-51 36-47 (128)
98 PF00096 zf-C2H2: Zinc finger, 55.8 9.5 0.00021 22.3 1.8 20 7-26 2-21 (23)
99 COG0264 Tsf Translation elonga 55.0 22 0.00047 35.0 5.0 40 113-153 4-44 (296)
100 PF13423 UCH_1: Ubiquitin carb 54.7 6.7 0.00015 37.1 1.5 88 5-101 133-237 (295)
101 smart00834 CxxC_CXXC_SSSS Puta 53.4 11 0.00024 25.1 2.0 16 1-16 1-16 (41)
102 COG4416 Com Mu-like prophage p 53.2 4.4 9.5E-05 30.5 -0.0 30 4-50 3-32 (60)
103 TIGR01069 mutS2 MutS2 family p 53.0 2.7E+02 0.0058 30.9 13.5 37 114-152 482-518 (771)
104 PF10122 Mu-like_Com: Mu-like 52.9 7.4 0.00016 28.8 1.1 29 5-50 4-32 (51)
105 PF07754 DUF1610: Domain of un 52.9 6 0.00013 24.9 0.5 11 40-50 14-24 (24)
106 TIGR00310 ZPR1_znf ZPR1 zinc f 52.6 2.9 6.3E-05 38.5 -1.3 38 6-51 1-39 (192)
107 PF09723 Zn-ribbon_8: Zinc rib 52.6 10 0.00022 26.3 1.7 33 2-50 2-34 (42)
108 KOG2072 Translation initiation 50.4 3E+02 0.0065 31.2 13.0 23 233-255 832-854 (988)
109 PRK00564 hypA hydrogenase nick 50.4 7.9 0.00017 32.7 1.1 12 4-15 70-81 (117)
110 PRK00247 putative inner membra 49.9 3.2E+02 0.0069 28.4 14.2 8 29-36 99-106 (429)
111 smart00709 Zpr1 Duplicated dom 48.8 3.9 8.5E-05 36.5 -1.1 36 7-51 2-38 (160)
112 PRK14605 ruvA Holliday junctio 48.5 41 0.00089 30.8 5.5 39 114-152 148-189 (194)
113 PRK00247 putative inner membra 48.1 2.4E+02 0.0053 29.2 11.5 8 257-264 373-380 (429)
114 KOG1864 Ubiquitin-specific pro 47.8 9 0.0002 40.9 1.3 52 40-98 439-497 (587)
115 PF05907 DUF866: Eukaryotic pr 47.6 3.7 8E-05 36.7 -1.4 41 3-51 28-73 (161)
116 PF11372 DUF3173: Domain of un 46.4 7.6 0.00017 29.5 0.3 20 119-138 7-26 (59)
117 PRK14601 ruvA Holliday junctio 46.3 48 0.001 30.3 5.6 32 114-145 142-173 (183)
118 PHA00733 hypothetical protein 45.3 16 0.00034 31.3 2.2 35 6-51 74-108 (128)
119 COG0375 HybF Zn finger protein 45.2 13 0.00028 31.8 1.6 12 40-51 84-95 (115)
120 PF01927 Mut7-C: Mut7-C RNAse 45.1 9.3 0.0002 33.2 0.7 44 4-51 90-133 (147)
121 PF05672 MAP7: MAP7 (E-MAP-115 44.8 2.5E+02 0.0054 25.7 14.7 25 177-201 18-42 (171)
122 KOG2412 Nuclear-export-signal 44.6 4E+02 0.0087 28.8 12.5 16 63-78 19-34 (591)
123 COG1656 Uncharacterized conser 44.5 12 0.00026 33.9 1.3 40 5-51 97-139 (165)
124 PF12874 zf-met: Zinc-finger o 44.2 16 0.00035 21.8 1.5 21 6-26 1-21 (25)
125 PF13894 zf-C2H2_4: C2H2-type 43.9 21 0.00045 20.2 1.9 20 7-26 2-21 (24)
126 KOG3080 Nucleolar protein-like 43.8 1.5E+02 0.0034 29.5 8.8 55 187-241 182-236 (328)
127 TIGR00084 ruvA Holliday juncti 43.7 31 0.00067 31.5 3.9 25 114-138 147-171 (191)
128 TIGR02605 CxxC_CxxC_SSSS putat 43.6 18 0.00039 25.6 1.9 16 1-16 1-16 (52)
129 KOG2072 Translation initiation 42.6 4.1E+02 0.0089 30.2 12.6 25 222-246 802-826 (988)
130 PF11547 E3_UbLigase_EDD: E3 u 42.5 1E+02 0.0023 22.8 5.6 45 111-156 6-52 (53)
131 KOG1144 Translation initiation 42.4 3.8E+02 0.0083 30.4 12.2 9 207-215 243-251 (1064)
132 KOG3654 Uncharacterized CH dom 42.1 1.9E+02 0.0042 30.9 9.7 38 221-258 414-451 (708)
133 PF05262 Borrelia_P83: Borreli 41.8 3.1E+02 0.0067 29.0 11.3 14 123-136 95-109 (489)
134 PF01155 HypA: Hydrogenase exp 41.3 14 0.00031 30.8 1.3 12 4-15 69-80 (113)
135 PF05835 Synaphin: Synaphin pr 41.1 61 0.0013 28.6 5.2 19 248-273 59-77 (139)
136 PRK00116 ruvA Holliday junctio 41.0 49 0.0011 30.1 4.8 26 115-140 150-175 (192)
137 PF04615 Utp14: Utp14 protein; 40.7 1.8E+02 0.0039 31.8 9.8 25 246-270 300-324 (735)
138 KOG3634 Troponin [Cytoskeleton 40.6 1.5E+02 0.0033 29.9 8.3 12 235-246 130-141 (361)
139 PRK14606 ruvA Holliday junctio 40.5 68 0.0015 29.3 5.6 24 115-138 144-167 (188)
140 PRK14600 ruvA Holliday junctio 40.5 67 0.0015 29.3 5.6 37 114-150 145-182 (186)
141 PRK14602 ruvA Holliday junctio 39.9 70 0.0015 29.5 5.7 25 114-138 155-179 (203)
142 KOG0435 Leucyl-tRNA synthetase 39.8 22 0.00048 39.0 2.6 77 5-89 436-516 (876)
143 PF10827 DUF2552: Protein of u 39.6 20 0.00043 28.4 1.7 17 141-157 59-75 (79)
144 COG5134 Uncharacterized conser 39.6 13 0.00028 35.3 0.8 50 2-51 39-88 (272)
145 KOG2462 C2H2-type Zn-finger pr 38.3 13 0.00028 36.3 0.6 57 4-66 129-185 (279)
146 KOG2907 RNA polymerase I trans 38.1 9.7 0.00021 32.6 -0.2 24 38-66 70-93 (116)
147 PRK00762 hypA hydrogenase nick 38.1 19 0.0004 30.7 1.5 9 43-51 93-101 (124)
148 COG1996 RPC10 DNA-directed RNA 36.8 19 0.00041 26.4 1.1 30 3-51 4-33 (49)
149 PF05191 ADK_lid: Adenylate ki 36.7 26 0.00056 23.8 1.7 30 5-51 1-30 (36)
150 COG4008 Predicted metal-bindin 36.5 1E+02 0.0022 27.2 5.7 40 111-152 111-150 (153)
151 COG1675 TFA1 Transcription ini 36.3 29 0.00063 31.7 2.5 11 41-51 131-141 (176)
152 PRK14603 ruvA Holliday junctio 36.3 82 0.0018 29.0 5.5 24 115-138 153-176 (197)
153 PRK08475 F0F1 ATP synthase sub 36.1 3.1E+02 0.0067 24.3 13.0 20 245-264 130-149 (167)
154 PRK05978 hypothetical protein; 35.9 20 0.00043 31.9 1.4 48 3-78 31-78 (148)
155 KOG0608 Warts/lats-like serine 35.6 23 0.00049 39.0 1.9 42 109-150 84-125 (1034)
156 PF02029 Caldesmon: Caldesmon; 35.6 3.4E+02 0.0074 28.7 10.4 52 248-308 311-366 (492)
157 PRK14604 ruvA Holliday junctio 35.4 1E+02 0.0022 28.3 6.0 24 115-138 150-173 (195)
158 COG1308 EGD2 Transcription fac 35.3 48 0.001 28.7 3.5 38 112-150 82-120 (122)
159 PF05890 Ebp2: Eukaryotic rRNA 34.9 2.8E+02 0.0061 26.9 9.1 53 188-240 121-173 (271)
160 PRK06231 F0F1 ATP synthase sub 34.5 3.7E+02 0.008 24.7 12.6 11 248-258 159-169 (205)
161 smart00659 RPOLCX RNA polymera 34.3 26 0.00056 24.9 1.5 18 42-66 19-36 (44)
162 PF10367 Vps39_2: Vacuolar sor 34.2 17 0.00036 28.8 0.5 27 43-79 79-105 (109)
163 PF14205 Cys_rich_KTR: Cystein 33.9 22 0.00047 26.8 1.0 26 43-73 5-30 (55)
164 PF08938 HBS1_N: HBS1 N-termin 33.8 22 0.00047 27.9 1.2 27 127-154 45-71 (79)
165 PF14690 zf-ISL3: zinc-finger 33.7 19 0.00041 24.8 0.7 40 43-82 3-43 (47)
166 KOG3993 Transcription factor ( 32.5 11 0.00025 38.8 -0.8 19 43-61 357-375 (500)
167 PF06107 DUF951: Bacterial pro 32.0 24 0.00052 26.7 1.0 14 2-15 28-41 (57)
168 PLN03086 PRLI-interacting fact 31.6 3.7E+02 0.0081 28.9 10.1 11 253-263 56-66 (567)
169 PF07767 Nop53: Nop53 (60S rib 31.6 5.1E+02 0.011 25.9 10.7 16 297-312 359-374 (387)
170 KOG4031 Vesicle coat protein c 31.3 4.6E+02 0.01 24.9 11.4 15 299-313 198-212 (216)
171 KOG2505 Ankyrin repeat protein 31.2 3.9E+02 0.0084 28.7 9.8 46 115-160 404-459 (591)
172 PF05605 zf-Di19: Drought indu 31.1 54 0.0012 23.5 2.8 38 5-50 2-39 (54)
173 PLN03086 PRLI-interacting fact 31.0 2.6E+02 0.0056 30.1 8.8 18 244-261 53-70 (567)
174 KOG0804 Cytoplasmic Zn-finger 30.4 25 0.00055 36.6 1.2 31 6-36 241-274 (493)
175 KOG2703 C4-type Zn-finger prot 30.3 20 0.00043 36.9 0.5 27 8-51 42-77 (460)
176 COG1545 Predicted nucleic-acid 29.8 31 0.00067 30.0 1.5 17 29-51 36-52 (140)
177 PF10083 DUF2321: Uncharacteri 29.8 8.5 0.00018 34.6 -2.0 39 6-52 40-78 (158)
178 PTZ00172 40S ribosomal protein 29.7 37 0.0008 28.8 1.9 45 5-49 20-78 (108)
179 PRK06568 F0F1 ATP synthase sub 29.5 4.1E+02 0.0088 23.7 12.6 9 249-257 116-124 (154)
180 PF05262 Borrelia_P83: Borreli 29.4 6.2E+02 0.013 26.8 11.1 8 71-78 49-56 (489)
181 PRK13901 ruvA Holliday junctio 29.2 64 0.0014 29.9 3.5 24 115-138 145-168 (196)
182 COG1198 PriA Primosomal protei 29.0 17 0.00037 39.9 -0.2 29 122-151 628-656 (730)
183 PRK14890 putative Zn-ribbon RN 28.9 10 0.00022 28.9 -1.4 13 6-18 8-20 (59)
184 PF10058 DUF2296: Predicted in 28.8 33 0.0007 25.4 1.3 31 3-50 20-52 (54)
185 COG3937 Uncharacterized conser 28.4 3.7E+02 0.0081 22.9 7.8 27 175-201 36-62 (108)
186 KOG1071 Mitochondrial translat 28.2 1.1E+02 0.0024 30.7 5.2 40 113-153 45-85 (340)
187 KOG4722 Zn-finger protein [Gen 28.1 3.7E+02 0.008 28.3 9.0 20 180-199 249-268 (672)
188 PF06936 Selenoprotein_S: Sele 27.9 2E+02 0.0043 26.6 6.5 26 222-247 87-112 (190)
189 PF02146 SIR2: Sir2 family; I 27.9 60 0.0013 28.6 3.1 14 4-17 104-117 (178)
190 KOG1363 Predicted regulator of 27.8 4.9E+02 0.011 27.3 10.0 6 269-274 371-376 (460)
191 PF07553 Lipoprotein_Ltp: Host 27.6 80 0.0017 22.9 3.1 22 115-136 22-46 (48)
192 PRK14474 F0F1 ATP synthase sub 27.3 5.4E+02 0.012 24.4 12.6 9 301-309 192-200 (250)
193 PRK08222 hydrogenase 4 subunit 27.2 45 0.00098 30.0 2.2 47 5-51 114-163 (181)
194 PF03811 Zn_Tnp_IS1: InsA N-te 27.0 32 0.00069 23.5 0.9 12 40-51 3-14 (36)
195 PF03801 Ndc80_HEC: HEC/Ndc80p 26.9 71 0.0015 28.3 3.3 41 112-152 92-137 (157)
196 cd02669 Peptidase_C19M A subfa 26.6 28 0.0006 35.4 0.8 42 7-50 30-74 (440)
197 KOG2891 Surface glycoprotein [ 26.0 6.8E+02 0.015 25.1 10.3 73 183-255 324-398 (445)
198 PLN00186 ribosomal protein S26 26.0 55 0.0012 27.8 2.3 42 5-49 20-78 (109)
199 PRK11546 zraP zinc resistance 25.9 4.7E+02 0.01 23.2 8.2 62 176-237 42-115 (143)
200 smart00355 ZnF_C2H2 zinc finge 25.7 61 0.0013 18.3 1.9 20 7-26 2-21 (26)
201 PF03879 Cgr1: Cgr1 family; I 25.4 4.2E+02 0.0091 22.5 10.1 12 175-186 27-38 (108)
202 COG0423 GRS1 Glycyl-tRNA synth 25.4 78 0.0017 33.8 3.8 49 4-53 87-140 (558)
203 KOG0742 AAA+-type ATPase [Post 25.4 8.5E+02 0.018 26.0 11.1 26 125-150 72-101 (630)
204 PRK09335 30S ribosomal protein 25.4 50 0.0011 27.4 1.9 41 5-49 20-74 (95)
205 PF12898 Stc1: Stc1 domain; I 25.3 57 0.0012 26.0 2.2 27 38-68 46-72 (84)
206 KOG2357 Uncharacterized conser 25.1 1.9E+02 0.0041 30.0 6.3 9 93-101 242-250 (440)
207 CHL00118 atpG ATP synthase CF0 25.1 4.5E+02 0.0099 22.7 12.6 15 181-195 52-66 (156)
208 PF06676 DUF1178: Protein of u 25.0 74 0.0016 28.3 3.1 9 43-51 33-41 (148)
209 COG3024 Uncharacterized protei 24.7 43 0.00093 26.0 1.3 11 41-51 6-16 (65)
210 TIGR00340 zpr1_rel ZPR1-relate 24.6 15 0.00031 33.1 -1.5 37 8-51 1-37 (163)
211 PRK11639 zinc uptake transcrip 24.6 40 0.00086 30.0 1.3 45 5-51 100-149 (169)
212 KOG0971 Microtubule-associated 24.3 1.2E+03 0.025 27.2 14.1 80 177-257 223-306 (1243)
213 PF13717 zinc_ribbon_4: zinc-r 24.3 44 0.00096 22.5 1.2 13 3-15 23-35 (36)
214 PF10147 CR6_interact: Growth 24.1 6.2E+02 0.013 24.0 12.4 84 179-275 83-178 (217)
215 PF07223 DUF1421: Protein of u 23.7 74 0.0016 32.2 3.1 21 115-135 322-342 (358)
216 COG4481 Uncharacterized protei 23.6 41 0.00089 25.5 1.0 14 2-15 31-44 (60)
217 PRK00418 DNA gyrase inhibitor; 23.6 49 0.0011 25.4 1.4 9 43-51 7-15 (62)
218 COG2868 Predicted ribosomal pr 23.5 28 0.0006 29.6 0.1 19 27-48 18-36 (109)
219 COG1645 Uncharacterized Zn-fin 23.2 38 0.00083 29.6 0.9 13 39-51 25-37 (131)
220 PRK14475 F0F1 ATP synthase sub 23.0 5.2E+02 0.011 22.7 12.6 7 182-188 41-47 (167)
221 PRK09174 F0F1 ATP synthase sub 23.0 6E+02 0.013 23.4 13.0 14 181-194 83-96 (204)
222 PRK02292 V-type ATP synthase s 22.8 5.4E+02 0.012 22.7 12.9 19 181-199 12-30 (188)
223 KOG2002 TPR-containing nuclear 22.6 9.5E+02 0.021 27.8 11.5 22 133-156 724-745 (1018)
224 PF14490 HHH_4: Helix-hairpin- 22.6 1.7E+02 0.0037 23.3 4.5 35 115-153 9-43 (94)
225 PF01283 Ribosomal_S26e: Ribos 22.4 22 0.00047 30.4 -0.8 46 4-49 19-78 (113)
226 KOG1265 Phospholipase C [Lipid 22.2 5E+02 0.011 29.9 9.2 10 251-260 1156-1165(1189)
227 PRK07352 F0F1 ATP synthase sub 22.0 5.5E+02 0.012 22.6 12.2 10 248-257 130-139 (174)
228 PRK05759 F0F1 ATP synthase sub 21.5 5.1E+02 0.011 22.0 12.6 15 245-259 112-126 (156)
229 PF09805 Nop25: Nucleolar prot 21.2 3.3E+02 0.0072 23.6 6.3 20 230-249 45-64 (137)
230 COG0735 Fur Fe2+/Zn2+ uptake r 21.1 47 0.001 28.8 1.1 45 5-51 93-142 (145)
231 PF14803 Nudix_N_2: Nudix N-te 21.0 53 0.0011 22.2 1.0 13 3-15 20-32 (34)
232 COG4049 Uncharacterized protei 21.0 50 0.0011 25.2 1.0 28 4-32 16-43 (65)
233 PRK00464 nrdR transcriptional 20.9 46 0.001 29.6 1.0 9 43-51 1-9 (154)
234 PRK14472 F0F1 ATP synthase sub 20.3 6E+02 0.013 22.4 13.7 14 246-259 127-140 (175)
235 PRK09173 F0F1 ATP synthase sub 20.3 5.6E+02 0.012 22.1 12.5 14 246-259 111-124 (159)
236 PF13912 zf-C2H2_6: C2H2-type 20.2 87 0.0019 18.8 1.9 21 6-26 2-22 (27)
No 1
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=5.3e-32 Score=276.76 Aligned_cols=157 Identities=29% Similarity=0.443 Sum_probs=132.5
Q ss_pred CceeecccCcccccchHHHH----------------HHHHHcccCCCCchhhhhhhcccCCCCCCCCCcccccccccccc
Q 020560 3 GVSLKCGDCGALLRSVQEAQ----------------EHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTG 66 (324)
Q Consensus 3 ~~~L~C~~C~~v~~~~~eaq----------------~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~ 66 (324)
.-|++|..|++|.++...-+ ..-+ ...++|.. .|++|+|++||.| .+|+|+|+
T Consensus 438 e~Rv~C~~c~kVrYs~~~~~~i~lpv~~~~~v~~~v~~~~-cleaff~p---q~~df~s~ac~~K-------~~a~kt~~ 506 (763)
T KOG0944|consen 438 EDRVSCLGCRKVRYSYESEYLIQLPVPMTNEVREKVPISA-CLEAFFEP---QVDDFWSTACGEK-------KGATKTTR 506 (763)
T ss_pred hhhhhhhccccccccchhheeeEeeccccccccccCCHHH-HHHHhcCC---cchhhhhHhhcCc-------cccccccc
Confidence 45899999999996554422 1111 23334444 4789999999998 89999999
Q ss_pred ccccccchhhccccccccc--Cccc---cCCccccccCCC---CC-CCCCc--------cccccCHHHHHHHHhCCCCHH
Q 020560 67 HTDFVDKTSEAAKPISLEV--PKAT---ADSEEAIDVDMS---GS-QPEEM--------VEPEVDKELLKELEAMGFPVA 129 (324)
Q Consensus 67 f~tFPd~L~v~~~r~~l~~--p~K~---~~~~~~lDl~~~---g~-~~Ee~--------~~~~vd~~~l~~L~~MGF~~~ 129 (324)
|+|||+||+||+.||.|.+ |+|+ +.+|+.|||+.| |+ |+|+. +.+.+|+.++.||++||||.+
T Consensus 507 ~ksfP~yLiiqv~rf~~~dw~pkKld~~iempe~ldls~~rs~g~~p~ee~lpde~~~~~~~~~d~s~i~qL~~MGFp~e 586 (763)
T KOG0944|consen 507 FKSFPDYLIIQVGRFTLQDWVPKKLDVSIEMPEELDLSSYRSKGLQPGEEALPDEAPETSEFAADRSVISQLVEMGFPEE 586 (763)
T ss_pred cccCCceEEEEeeEEEecCceeeeeccceecchhhchhhhhhcCCCCcccccCCcCcccCccchhHHHHHHHHHcCCCHH
Confidence 9999999999999999977 9999 779999999988 65 66632 345589999999999999999
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 020560 130 RATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGG 170 (324)
Q Consensus 130 ~a~kAL~~Tgn~~~E~A~~WL~~H~dD~didep~~~~~~~~ 170 (324)
+|.|||++|||+++|+|+||||+||+||||++|+.+|+++.
T Consensus 587 ac~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp~~~~ 627 (763)
T KOG0944|consen 587 ACRRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVPGNSP 627 (763)
T ss_pred HHHHHHhhhcCccHHHHHHHHHHhccCcccCCceecCCCCC
Confidence 99999999999999999999999999999999999988654
No 2
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=1.9e-28 Score=245.24 Aligned_cols=156 Identities=22% Similarity=0.363 Sum_probs=135.4
Q ss_pred CceeecccCcccc-------------cchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccc
Q 020560 3 GVSLKCGDCGALL-------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTD 69 (324)
Q Consensus 3 ~~~L~C~~C~~v~-------------~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~t 69 (324)
+.||.|..|+.|. .++.++|+.-+ ...++|... .++|+|.+|+.+ .+|+++++|+|
T Consensus 429 e~rlsC~~C~~v~ySye~~~~i~i~le~n~E~~di~~-~v~a~f~pd---tiE~~CenCk~K-------~~a~~k~~~ks 497 (749)
T COG5207 429 ERRLSCSGCMDVSYSYESMLMICIFLEGNDEPQDIRK-SVEAFFLPD---TIEWSCENCKGK-------KKASRKPFIKS 497 (749)
T ss_pred cceecccccccccccccceEEEEeecccCcchhhHHH-HHHheECcc---ceeeehhhhcCc-------ccccccchhhc
Confidence 5689999999998 67788999888 888999888 789999999987 89999999999
Q ss_pred cccchhhccccccccc--Cccc-----cCCccccccCCC-C--CCCCCc------cccccCHHHHHHHHhCCCCHHHHHH
Q 020560 70 FVDKTSEAAKPISLEV--PKAT-----ADSEEAIDVDMS-G--SQPEEM------VEPEVDKELLKELEAMGFPVARATR 133 (324)
Q Consensus 70 FPd~L~v~~~r~~l~~--p~K~-----~~~~~~lDl~~~-g--~~~Ee~------~~~~vd~~~l~~L~~MGF~~~~a~k 133 (324)
||.||++|+.||.|.| ..|+ ++.++.++++.| . .|..|. .....|+.++.||++||||.++|.|
T Consensus 498 lPk~LIlq~~R~~lqny~v~kls~pi~~~~D~m~~~~s~msk~~PqtEn~LPdedE~~t~Nqs~I~qL~~mGfp~~~~~r 577 (749)
T COG5207 498 LPKYLILQVGRYSLQNYKVEKLSDPIEMRSDDMIKLGSFMSKFDPQTENLLPDEDEAFTDNQSLIRQLVDMGFPEEDAAR 577 (749)
T ss_pred cCceeEEecceeeccceeehhccCceEEccccccchhhHhhccCCcccccCCccccccCchHHHHHHHHHcCCCHHHHHH
Confidence 9999999999999998 5566 345677888877 2 133322 2355789999999999999999999
Q ss_pred HHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 020560 134 ALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169 (324)
Q Consensus 134 AL~~Tgn~~~E~A~~WL~~H~dD~didep~~~~~~~ 169 (324)
||..|||.+.|.||||||+||||||+++|+.+|.+.
T Consensus 578 AL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~~~v 613 (749)
T COG5207 578 ALGITGNQDAESAMNWLFQHMDDPDLNDPFVPPPNV 613 (749)
T ss_pred HHhhccCcchHHHHHHHHhhccCcccCCCCCCCCCC
Confidence 999999999999999999999999999999888764
No 3
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=4.9e-26 Score=213.68 Aligned_cols=151 Identities=35% Similarity=0.573 Sum_probs=134.5
Q ss_pred HHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH-HHhcCCCCCCCCCCCCCC--------------------CCCCCCCC
Q 020560 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWV-VEHENDPDIDEMPMVPVS--------------------GGGGASKS 176 (324)
Q Consensus 118 l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL-~~H~dD~didep~~~~~~--------------------~~~e~~k~ 176 (324)
+++|++|||+..++.+||..|||.++|.||+|| .+|.+||. |.|...|.. +..+..++
T Consensus 4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~-~ap~~~p~~~~~~~~~~~~~sg~~~~s~~se~~e~ik 82 (290)
T KOG2689|consen 4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI-DAPLSTPLAADLGRLPTSFESGKLSDSGYSESEEEIK 82 (290)
T ss_pred HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc-cccccccchhhhhcccchhcCCCcCCchhhhhhhhcc
Confidence 489999999999999999999999999999999 89999985 777665431 00123689
Q ss_pred CCCHHHHHHHHHHHHHHHHHh---hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHH
Q 020560 177 SLTPEEIKLKAQELRERARKK---KEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKI 253 (324)
Q Consensus 177 ~lT~EEk~~k~~el~~k~r~k---r~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkrEK~Ee~~AReri 253 (324)
.||+||++++...|++++..+ +++-+.++..++++.|+++|++|..+++.+++.++.+++++||++|.++..||+||
T Consensus 83 ~ls~eE~~~~~~~i~ekik~k~~k~~e~e~~E~~~~~k~~~ks~~~~~~a~~r~q~~e~~~~~qkRrreK~e~~eaRqRV 162 (290)
T KOG2689|consen 83 LLSEEEKKAQTKRILEKIKQKQIKREELELREALEREKQRRKSGDEMSAAKRRLQDDEMRRAAQKRRREKAEDEEARQRV 162 (290)
T ss_pred ccChHHHHHHHHHHHHHhcchhHHHHHHHHHHhhhhHHhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 999999999999999998555 45667888889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcC
Q 020560 254 RQKLEEDKAERRRRLG 269 (324)
Q Consensus 254 r~qIe~Dk~eR~~k~~ 269 (324)
+.||++||++|+++++
T Consensus 163 ~~~Ie~DKaeRka~~e 178 (290)
T KOG2689|consen 163 LRQIERDKAERKAKYE 178 (290)
T ss_pred HHHHHHhHHHHHHHhc
Confidence 9999999999999987
No 4
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=2.1e-13 Score=135.08 Aligned_cols=284 Identities=30% Similarity=0.344 Sum_probs=208.6
Q ss_pred HHHHHHHHcccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccccccchhhcccccccccCccccCC--ccccc
Q 020560 20 EAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADS--EEAID 97 (324)
Q Consensus 20 eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~p~K~~~~--~~~lD 97 (324)
-.+.|.+-+.|.+|..+. |+.++ .+++++...++.+.|+.-.- .....+. ..+.+. ...+-
T Consensus 4 ~k~~~~ef~~~~~~~ss~----------~~~~~---~e~~~~~~~~s~~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~ 66 (407)
T KOG2699|consen 4 VKYNFQEFKCKVNLASSL----------NDVKH---QESVGEQAHTSSTDQSLPHL--PVTLDTP--WPLLNPAPKVNLL 66 (407)
T ss_pred HHHHHHHHhhcccccccc----------cchhh---hHHHHHHhhccCCCCCCCCC--Ccccccc--hhhhccCCCCccc
Confidence 456778888888888773 33332 15688888888888776444 3323333 222110 00111
Q ss_pred cCC---CCCCCCCccccccCHHHHHHHHhCCCCH-HHHHHHHHHhCCCCHHH-HHHHHHHhcCCCCCCCCCCCCCC---C
Q 020560 98 VDM---SGSQPEEMVEPEVDKELLKELEAMGFPV-ARATRALHYSGNANVEA-AVNWVVEHENDPDIDEMPMVPVS---G 169 (324)
Q Consensus 98 l~~---~g~~~Ee~~~~~vd~~~l~~L~~MGF~~-~~a~kAL~~Tgn~~~E~-A~~WL~~H~dD~didep~~~~~~---~ 169 (324)
++. +|.-...+..+.+....+.-...|||+. .+...+++..|+...++ |.+|...|..+......+..+.+ +
T Consensus 67 ~~k~~s~gqa~~~~~~~~~~~~i~~~~~~~g~~e~~~t~~~~~~~g~a~~~a~~~~~~~p~~~~~~~~~~~~~e~~~l~~ 146 (407)
T KOG2699|consen 67 LSKSSSSGQAAKTNRRNIVFNTILARFDIMGRPEAARTSPALHPSGNQSLEAPAVNFKIPFTSEIQRFKMPKGETNTLES 146 (407)
T ss_pred cccccccchhhhcccCCcccchhhccccccCCccccccccCcccchhhhhcCCCCcccccccccchhhccccCCcccccc
Confidence 221 2332223445556677788888999999 77888899999988888 99999999888765444444433 2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhhHHHHHHHHH--HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHH
Q 020560 170 GGGASKSSLTPEEIKLKAQELRERARKKKEEEEKRMER--EREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEK 247 (324)
Q Consensus 170 ~~e~~k~~lT~EEk~~k~~el~~k~r~kr~eeek~~~~--ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkrEK~Ee~ 247 (324)
+....++.+|...-..+.+++.+..+.-+.++++..++ ++|++|++.|+++.+.+..-....++..+..+..+++|+.
T Consensus 147 s~~~~~ss~~~~~~~~k~~e~se~~~d~~~kqe~~~~~~pE~ek~R~rl~~el~~~~v~g~he~le~v~~~~~ae~eEe~ 226 (407)
T KOG2699|consen 147 SGDPEPSSLTKIFVNTKAKELSESGRDIRQKQEQNTERNPEREKERKRLGNELLKEKVLGCHEPLEAVLVLRPAEDEEEY 226 (407)
T ss_pred cCCcCchhhhhccccccchhhhhhhhhhHHHhhhhhccchhhhhhhhccccchhhcccccccchHHHHHHhcccccHHHH
Confidence 23345677888888889999999999999999988888 9999999999999998887677777777888999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCCcC----CCCCCCchhhhh--cccCCCCCccHHHHHHHHHHHHhhccccCCC
Q 020560 248 RAREKIRQKLEEDKAERRRRLGLPPEDPAT----TKSSAPVVEEKK--SMLPIRPATKVEQMRECLRSLKQNHKVNLIS 320 (324)
Q Consensus 248 ~ARerir~qIe~Dk~eR~~k~~~~~~~~~~----~~~~~~~~~~~~--~~~~~~p~~~~e~~r~~l~~lk~~~k~~~~~ 320 (324)
.+++.++.+.+.++.+|++.+|.|+..... ..++.+...... .++|.+++.....||+|++.+.++|+..++-
T Consensus 227 ~~~e~~l~k~~s~~ser~~~l~~P~~tk~~Re~~~~~~~~la~~~~l~v~f~~~~i~~~~~~r~e~i~~~q~l~~~~~~ 305 (407)
T KOG2699|consen 227 ELVEKTLRKLQSLKSERKRLLGAPPVTKADRESAANPSLPLAPAIELPVKFPDREIKQEAFLRSELIELLQNLVSSDLK 305 (407)
T ss_pred HHHHHHHHHHHHHhhhhhhhhcCCccchhHHHHhhccCccccccceeeeecChHHHHHHHHhhHHHHHHHHHhhhhhhc
Confidence 999999999999999999999999885544 122233333333 6788888999999999999999999887653
No 5
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=99.24 E-value=7.8e-12 Score=124.22 Aligned_cols=98 Identities=31% Similarity=0.391 Sum_probs=85.1
Q ss_pred HHHHHHHHHHH---HHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHH
Q 020560 184 KLKAQELRERA---RKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEED 260 (324)
Q Consensus 184 ~~k~~el~~k~---r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkrEK~Ee~~ARerir~qIe~D 260 (324)
-.++.+|.+++ +..+.+++.+.++++|..||+.|||++.-+....+...++++++|+|||.++..+|+||++||++|
T Consensus 197 ~~rl~~ltk~leqkr~Ek~kee~~hekeee~~rr~agkE~~~~~a~~~ee~tkrm~eqrkrer~e~~aareRI~aqiaad 276 (506)
T KOG2507|consen 197 PSRLCDLTKNLEQKRVEKTKEEVEHEKEEEPLRRQAGKEPIRPTAPGTEENTKRMREQRKRERKEGTAARERILAQIAAD 276 (506)
T ss_pred hhHHHHHHhhccccchhhhHHHHHHHhhhhhHhhhhcccccccccccchHHHHHHHHHHHHHHHhhHHHHHHHHHHhhcc
Confidence 35555555554 555667788888999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCcCCCCC
Q 020560 261 KAERRRRLGLPPEDPATTKSS 281 (324)
Q Consensus 261 k~eR~~k~~~~~~~~~~~~~~ 281 (324)
|++|+.||+.+.....+.+++
T Consensus 277 raera~rf~k~v~t~et~k~a 297 (506)
T KOG2507|consen 277 RAERAIRFTKSVDTKETMKPA 297 (506)
T ss_pred HHHHHhhhcCccchhhhcchh
Confidence 999999999888777666554
No 6
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=98.96 E-value=7.1e-10 Score=75.29 Aligned_cols=37 Identities=41% Similarity=0.701 Sum_probs=34.1
Q ss_pred cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH
Q 020560 113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWV 150 (324)
Q Consensus 113 vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL 150 (324)
+|++.|.+|++|||+.+.|.+||..+|| |++.|++||
T Consensus 1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~-nve~A~~~L 37 (37)
T PF00627_consen 1 IDEEKVQQLMEMGFSREQAREALRACNG-NVERAVDWL 37 (37)
T ss_dssp SHHHHHHHHHHHTS-HHHHHHHHHHTTT-SHHHHHHHH
T ss_pred CCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHhC
Confidence 4688999999999999999999999998 999999998
No 7
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=98.80 E-value=1e-08 Score=69.28 Aligned_cols=38 Identities=47% Similarity=0.754 Sum_probs=35.1
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
+++.+++|++|||+.+.|..||..++| |++.|++|||+
T Consensus 1 ~~~~v~~L~~mGf~~~~~~~AL~~~~~-d~~~A~~~L~~ 38 (38)
T cd00194 1 DEEKLEQLLEMGFSREEARKALRATNN-NVERAVEWLLE 38 (38)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHhC
Confidence 357899999999999999999999998 99999999984
No 8
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=98.80 E-value=8.8e-09 Score=69.33 Aligned_cols=37 Identities=35% Similarity=0.560 Sum_probs=34.4
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVV 151 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~ 151 (324)
+++.+++|++|||+++.|..||+.++| +++.|++|||
T Consensus 1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~-d~~~A~~~L~ 37 (37)
T smart00165 1 DEEKIDQLLEMGFSREEALKALRAANG-NVERAAEYLL 37 (37)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHC
Confidence 357899999999999999999999998 8999999996
No 9
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=9.7e-08 Score=99.72 Aligned_cols=49 Identities=41% Similarity=0.649 Sum_probs=44.6
Q ss_pred ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCC
Q 020560 112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDE 161 (324)
Q Consensus 112 ~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD~dide 161 (324)
+++++.|.++++|||+++.|.+||..|+| |||.|+||||+|+|++-.|.
T Consensus 633 ~~~e~~v~si~smGf~~~qa~~aL~~~n~-nveravDWif~h~d~~~ed~ 681 (763)
T KOG0944|consen 633 EVDEESVASIVSMGFSRNQAIKALKATNN-NVERAVDWIFSHMDIPVEDA 681 (763)
T ss_pred CCChhHheeeeeecCcHHHHHHHHHhcCc-cHHHHHHHHHhccccccccc
Confidence 68999999999999999999999999976 99999999999999764443
No 10
>cd02664 Peptidase_C19H A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.86 E-value=4e-06 Score=80.77 Aligned_cols=90 Identities=10% Similarity=0.139 Sum_probs=60.3
Q ss_pred ceeecccCcccccchHHHH-------HHHHHcccCCCCch-hhhhhhcccCCCCCCCCCccccccccccccccccccchh
Q 020560 4 VSLKCGDCGALLRSVQEAQ-------EHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTS 75 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq-------~hae~TgH~~F~E~-~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~ 75 (324)
-.++|..|+.+-...+.-- ...+ .....|... -+....|.|+.|+++ ..+.|++.|.++|++|+
T Consensus 109 ~~i~C~~C~~~s~~~e~f~~l~L~i~sl~~-~l~~~~~~E~l~g~n~~~C~~C~~~-------~~a~k~~~i~~lP~vLi 180 (327)
T cd02664 109 TTIRCLNCNSTSARTERFRDLDLSFPSVQD-LLNYFLSPEKLTGDNQYYCEKCASL-------QDAEKEMKVTGAPEYLI 180 (327)
T ss_pred eEEEcCCCCCEecccccceeeecCCCCHHH-HHHHhcCeeEccCCCceeCCccCCc-------cceeEEEEcccCChhhE
Confidence 3589999997652221100 1111 122233322 111234999999987 68999999999999999
Q ss_pred hccccccccc----Cccc---cCCccccccCCC
Q 020560 76 EAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 76 v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
|+.+||.++. ..|+ +..|..|||+.+
T Consensus 181 i~LkRF~~~~~~~~~~Ki~~~v~fp~~ldl~~~ 213 (327)
T cd02664 181 LTLLRFSYDQKTHVREKIMDNVSINEVLSLPVR 213 (327)
T ss_pred EEeeeeEEccccCcceecCceEecCCEEecCcc
Confidence 9999999874 5677 557888888755
No 11
>cd02668 Peptidase_C19L A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.83 E-value=3.9e-06 Score=80.37 Aligned_cols=53 Identities=13% Similarity=0.163 Sum_probs=46.2
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
.|.|+.|+++ ..+.|++.|.++|++|+|+.+||.++. +.|+ +..|..|||+.|
T Consensus 176 ~~~C~~C~~~-------~~a~k~~~i~~lP~iLii~LkRf~~d~~~~~~~Ki~~~v~fp~~Ldl~~~ 235 (324)
T cd02668 176 QYFCESCNSK-------TDATRRIRLTTLPPTLNFQLLRFVFDRKTGAKKKLNASISFPEILDMGEY 235 (324)
T ss_pred cccCCCCCce-------eeeEEEEEecCCCCeEEEEEEcceeecccCcceeCCcEEECCCeEechhh
Confidence 3899999987 778999999999999999999999874 6777 667888998866
No 12
>cd02660 Peptidase_C19D A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.80 E-value=4.8e-06 Score=79.06 Aligned_cols=52 Identities=10% Similarity=0.141 Sum_probs=45.6
Q ss_pred cccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccCCC
Q 020560 43 LVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~---p~K~---~~~~~~lDl~~~ 101 (324)
|.|+.||.+ ..+.|++.|.++|++|+|+++||..+. +.|+ +..|..|||+.|
T Consensus 196 ~~C~~C~~~-------~~~~~~~~i~~lP~~Lii~lkRf~~~~~~~~~K~~~~v~fp~~Ldl~~~ 253 (328)
T cd02660 196 YKCSGCGST-------QEATKQLSIKKLPPVLCFQLKRFEHSLNKTSRKIDTYVQFPLELNMTPY 253 (328)
T ss_pred ccCCCCCCc-------cceEEEEEecCCCceeEEEEEeEEecCCCCCcCCCcEEeCCCEechhhh
Confidence 689999987 688999999999999999999999985 6776 567788998866
No 13
>cd02667 Peptidase_C19K A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.77 E-value=6.2e-06 Score=77.51 Aligned_cols=49 Identities=14% Similarity=0.151 Sum_probs=43.4
Q ss_pred cccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccCCC
Q 020560 43 LVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~---p~K~---~~~~~~lDl~~~ 101 (324)
|.|+.|++ ++|++.|.++|++|+|+.+||.++. +.|+ +..|..|||+.|
T Consensus 132 ~~C~~C~~----------a~k~~~i~~~P~~Lii~LkRF~~~~~~~~~Ki~~~v~fP~~Ldl~~~ 186 (279)
T cd02667 132 FACENCTK----------AKKQYLISKLPPVLVIHLKRFQQPRSANLRKVSRHVSFPEILDLAPF 186 (279)
T ss_pred ccCCccCc----------eeeEeEhhhCCCeEEEEEeccccCcccCceecCceEeCCCccchhhc
Confidence 89999985 6899999999999999999999994 6787 667889999876
No 14
>cd02663 Peptidase_C19G A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.61 E-value=1.6e-05 Score=75.47 Aligned_cols=53 Identities=9% Similarity=0.024 Sum_probs=44.5
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
.|.|+.|+++ ..++|++.|..+|++|+|+.+||.++. ..|+ +..|..||+..+
T Consensus 167 ~~~C~~C~~~-------~~a~k~~~i~~lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fp~~L~~~~~ 226 (300)
T cd02663 167 KFYCDECCSL-------QEAEKRMKIKKLPKILALHLKRFKYDEQLNRYIKLFYRVVFPLELRLFNT 226 (300)
T ss_pred cEECCCCCCc-------eeEEEEEEeccCCceeEEEEEeEEeecccCCceecCceEecCcEEecccc
Confidence 4899999987 688999999999999999999999874 5676 556777787643
No 15
>cd02657 Peptidase_C19A A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.59 E-value=2.2e-05 Score=73.90 Aligned_cols=52 Identities=8% Similarity=-0.037 Sum_probs=42.6
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM 100 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~ 100 (324)
...|+.||.. ..++|++.|.++|++|+|+.+||.+++ ..|+ +..|..||++.
T Consensus 175 ~~~~~~~~~~-------~~~~k~~~i~~lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fP~~Ldl~~ 233 (305)
T cd02657 175 EKHSPTLGRD-------AIYTKTSRISRLPKYLTVQFVRFFWKRDIQKKAKILRKVKFPFELDLYE 233 (305)
T ss_pred hhcCcccCCC-------ceEEEEEEeccCCcEEEEEEECCccccccCceeecCcEEECCceEeccc
Confidence 3589999875 678999999999999999999999874 3454 55778888864
No 16
>cd02658 Peptidase_C19B A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.56 E-value=1.8e-05 Score=74.79 Aligned_cols=43 Identities=28% Similarity=0.382 Sum_probs=38.5
Q ss_pred hhhcccCCCCCCCCCccccccccccccccccccchhhcccccccc-c--Cccc
Q 020560 40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLE-V--PKAT 89 (324)
Q Consensus 40 v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~-~--p~K~ 89 (324)
.+++.|+.||++ ..+.|++.+.++|++|+|+.+||... + |+|+
T Consensus 192 ~i~~~C~~C~~~-------~~a~k~~~i~~lP~vLii~LkRF~~~~~~~~~Ki 237 (311)
T cd02658 192 TIEDFCSTCKEK-------TTATKTTGFKTFPDYLVINMKRFQLLENWVPKKL 237 (311)
T ss_pred cccccccCCCCc-------ccEEEEEEeecCCceEEEEeEEEEecCCCceEee
Confidence 567899999987 78999999999999999999999994 3 8887
No 17
>cd02661 Peptidase_C19E A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.50 E-value=2.7e-05 Score=72.35 Aligned_cols=89 Identities=15% Similarity=0.094 Sum_probs=59.2
Q ss_pred eeecccCcccccchHH----------HHHHHHHcccCCCCch-hhhhhhcccCCCCCCCCCccccccccccccccccccc
Q 020560 5 SLKCGDCGALLRSVQE----------AQEHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDK 73 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~e----------aq~hae~TgH~~F~E~-~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~ 73 (324)
.++|..|+.+....+. .... .......|... .+....|.|+.||++ ..+.+++.|.++|++
T Consensus 135 ~~~C~~C~~~s~~~e~~~~l~l~i~~~~~l-~~~l~~~~~~e~~~~~~~~~C~~C~~~-------~~~~~~~~i~~~P~i 206 (304)
T cd02661 135 QVKCLNCKHVSNTYDPFLDLSLDIKGADSL-EDALEQFTKPEQLDGENKYKCERCKKK-------VKASKQLTIHRAPNV 206 (304)
T ss_pred eEEeCCCCCCcCccccceeeeeecCCCCcH-HHHHHHhcCceeeCCCCCeeCCCCCCc-------cceEEEEEEecCCcE
Confidence 5789999977643211 1111 11222333322 122223899999987 678899999999999
Q ss_pred hhhcccccccccCccc---cCCccccccCCC
Q 020560 74 TSEAAKPISLEVPKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 74 L~v~~~r~~l~~p~K~---~~~~~~lDl~~~ 101 (324)
|+|+++||.++...|+ +..|..|||+.|
T Consensus 207 L~i~l~Rf~~~~~~Ki~~~v~f~~~L~l~~~ 237 (304)
T cd02661 207 LTIHLKRFSNFRGGKINKQISFPETLDLSPY 237 (304)
T ss_pred EEEEEeccccCCccccCCeEecCCeechhhc
Confidence 9999999999855555 456777888754
No 18
>cd02659 peptidase_C19C A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.44 E-value=3e-05 Score=73.78 Aligned_cols=53 Identities=13% Similarity=0.169 Sum_probs=45.0
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
.|.|+.|+++ ..+.|+..|.++|++|+|+.+||.++. .+|+ +..|..||++.+
T Consensus 171 ~~~C~~C~~~-------~~~~k~~~i~~lP~vLii~l~Rf~~~~~~~~~~K~~~~v~fp~~Ldl~~~ 230 (334)
T cd02659 171 KYFCEKCGKK-------VDAEKGVCFKKLPPVLTLQLKRFEFDFETMMRIKINDRFEFPLELDMEPY 230 (334)
T ss_pred cEecCcCCCc-------ccEEEEEEeecCCCEEEEEeeeeEEccccCcceeCCceEeCCceecCccc
Confidence 3999999987 678999999999999999999999863 5665 556788888765
No 19
>cd02674 Peptidase_C19R A subfamily of peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.37 E-value=4.9e-05 Score=68.20 Aligned_cols=53 Identities=13% Similarity=0.132 Sum_probs=42.6
Q ss_pred hhcccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCc-cccccCC
Q 020560 41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSE-EAIDVDM 100 (324)
Q Consensus 41 ~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~---~~~~-~~lDl~~ 100 (324)
..+.|+.||.. ..+.++..|.++|++|+|+++||...+ ..|+ +..| +.+|++.
T Consensus 103 ~~~~C~~C~~~-------~~~~~~~~i~~lP~iLii~l~R~~~~~~~~~K~~~~v~~~~~~l~l~~ 161 (230)
T cd02674 103 NAWKCPKCKKK-------RKATKKLTISRLPKVLIIHLKRFSFSRGSTRKLTTPVTFPLNDLDLTP 161 (230)
T ss_pred CceeCCCCCCc-------cceEEEEEEecCChhhEeEhhheecCCCCcccCCceEecccccccccc
Confidence 45899999987 778899999999999999999999985 6665 3334 4567654
No 20
>cd02673 Peptidase_C19Q A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.26 E-value=8.4e-05 Score=69.74 Aligned_cols=38 Identities=16% Similarity=0.176 Sum_probs=33.2
Q ss_pred hhhcccCCCCCCCCCccccccccccccccccccchhhccccccccc
Q 020560 40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV 85 (324)
Q Consensus 40 v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~ 85 (324)
.+++.|+.|+.. .++|+++|.+||++|+|+.+||.+..
T Consensus 124 ~~e~~C~~C~~~--------~a~k~~~i~~~P~vL~i~lkRf~~~~ 161 (245)
T cd02673 124 PIEKDCSSCKCE--------SAISSERIMTFPECLSINLKRYKLRI 161 (245)
T ss_pred ccCccCCCCCCc--------cceeechhhhCChhhEEeeEeeeecc
Confidence 567999999874 67888999999999999999998764
No 21
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.04 E-value=0.00078 Score=67.48 Aligned_cols=41 Identities=24% Similarity=0.362 Sum_probs=37.2
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN 155 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~d 155 (324)
-+..|+.|++|||+++.+.+||++.-| |.+.|++||+...-
T Consensus 156 ~e~~I~~i~eMGf~R~qV~~ALRAafN-NPdRAVEYL~tGIP 196 (378)
T TIGR00601 156 RETTIEEIMEMGYEREEVERALRAAFN-NPDRAVEYLLTGIP 196 (378)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHhC-CHHHHHHHHHhCCC
Confidence 477899999999999999999999987 89999999998633
No 22
>KOG1865 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00047 Score=71.36 Aligned_cols=90 Identities=14% Similarity=0.146 Sum_probs=66.3
Q ss_pred eeecccCcccc----------cchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccccccch
Q 020560 5 SLKCGDCGALL----------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKT 74 (324)
Q Consensus 5 ~L~C~~C~~v~----------~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L 74 (324)
.|+|.+|..+- .+..+|+.+.++--+-.=.|..|-..-|+|..|.++ +.|.|+..+..-|.+|
T Consensus 239 ~vkC~~C~~vS~tyE~~~dltvei~d~~sl~~AL~qFt~~E~L~gen~Y~C~~Ck~~-------v~A~K~lti~raPnVL 311 (545)
T KOG1865|consen 239 QIKCLHCKGVSDTYEPYLDLTLEIQDASSLQQALEQFTKPEKLDGENAYHCGRCKQK-------VPASKQLTIHRAPNVL 311 (545)
T ss_pred ceecccCCCcccccccccceEEEeccchhHHHHHHHhhhHHhhCCccccccchhhhh-------CcccceeeeecCCceE
Confidence 58999999886 233355555543222111222222234999999987 8999999999999999
Q ss_pred hhcccccccccCccc---cCCccccccCCC
Q 020560 75 SEAAKPISLEVPKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 75 ~v~~~r~~l~~p~K~---~~~~~~lDl~~~ 101 (324)
.|+.+||+.+.--|+ |..|+.|||..|
T Consensus 312 Ti~LKRF~~~~~gKI~K~I~fPE~LDl~Py 341 (545)
T KOG1865|consen 312 TLHLKRFSNGTGGKISKPVSFPETLDLQPY 341 (545)
T ss_pred EEeeehhccCcccccccccCCccccccccc
Confidence 999999999876665 778999999987
No 23
>cd02671 Peptidase_C19O A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=96.79 E-value=0.00054 Score=66.88 Aligned_cols=53 Identities=6% Similarity=0.021 Sum_probs=41.9
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc--------Cccc---cCCccccccCCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--------PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--------p~K~---~~~~~~lDl~~~ 101 (324)
.|.|+.|+.+ ..|+|++.|.++|++|+|+.+||.+.. ..|+ +..|..||+..+
T Consensus 200 ~y~C~~C~~~-------~~a~k~~~~~~~P~vL~i~LkRF~~~~~~~~~~~~~~Ki~~~v~fp~~L~~~~~ 263 (332)
T cd02671 200 KYFCENCHHY-------TEAERSLLFDKLPEVITIHLKCFAANGSEFDCYGGLSKVNTPLLTPLKLSLEEW 263 (332)
T ss_pred CeeCCCCCCc-------eeEEEEEEEecCCCEEEEEeeeeccccccccccCCceecCccccCccccccccc
Confidence 4999999987 789999999999999999999999752 3455 444556666543
No 24
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=96.65 E-value=0.00078 Score=69.60 Aligned_cols=53 Identities=19% Similarity=0.292 Sum_probs=44.8
Q ss_pred cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCC
Q 020560 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMV 165 (324)
Q Consensus 111 ~~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD~didep~~~ 165 (324)
.+||+..+..|.+|||.++.|++||..+++ +++.+++|++.|.|.. +++|...
T Consensus 618 keVdE~~~~Slle~Gln~n~~Rkal~~~n~-d~~r~V~w~~N~~D~t-F~EP~v~ 670 (749)
T COG5207 618 KEVDESKARSLLENGLNPNLCRKALMDMNT-DSKRRVVWCINDDDGT-FPEPEVP 670 (749)
T ss_pred ccccHHHHHHHHHcCCCHHHHHHHHHHccC-CchheEEEEEeCCCCC-CCCCCCC
Confidence 368999999999999999999999988765 9999999999965543 6777543
No 25
>cd02662 Peptidase_C19F A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=95.85 E-value=0.0015 Score=60.42 Aligned_cols=43 Identities=9% Similarity=0.111 Sum_probs=33.1
Q ss_pred hhhhcccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCcccc
Q 020560 39 AVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAI 96 (324)
Q Consensus 39 ~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~---p~K~---~~~~~~l 96 (324)
.+.+|.|+.| ++.|.++|++|+|+.+||.++. +.|+ +..|+.|
T Consensus 110 ~l~~~~C~~C---------------~~~i~~lP~vLii~LkRF~~~~~~~~~K~~~~v~fp~~l 158 (240)
T cd02662 110 IIDDYKCDRC---------------QTVIVRLPQILCIHLSRSVFDGRGTSTKNSCKVSFPERL 158 (240)
T ss_pred cccCcCCCCC---------------eEEeecCCcEEEEEEEEEEEcCCCceeeeccEEECCCcc
Confidence 3446999999 4569999999999999999885 6676 4445544
No 26
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=95.77 E-value=0.023 Score=58.18 Aligned_cols=48 Identities=31% Similarity=0.385 Sum_probs=42.6
Q ss_pred ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 020560 110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD 158 (324)
Q Consensus 110 ~~~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD~d 158 (324)
++.||...|++|+.|||+...|.-||..+|| +.+.|+..|......+.
T Consensus 425 p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gn-n~~~a~~~L~~s~~n~~ 472 (568)
T KOG2561|consen 425 PEQVDGISLAELVSMGFEEGKARSALEAGGN-NEDTAQRLLSASVANEG 472 (568)
T ss_pred CcccchhhHHHHHHhccccchHHHHHHhcCC-cHHHHHHHHHHhCCCCc
Confidence 4558999999999999999999999999888 89999999987776653
No 27
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.55 E-value=0.02 Score=57.54 Aligned_cols=44 Identities=27% Similarity=0.371 Sum_probs=39.5
Q ss_pred ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 020560 112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND 156 (324)
Q Consensus 112 ~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD 156 (324)
.-+.++++.|.+|||+++.+.-|-++++ +|.|.|.||||+|..|
T Consensus 335 ~eE~~AIeRL~~LGF~r~~viqaY~ACd-KNEelAAn~Lf~~~~~ 378 (378)
T TIGR00601 335 PEEKEAIERLCALGFDRGLVIQAYFACD-KNEELAANYLLSQNFD 378 (378)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHhcC-CcHHHHHHHHHhhcCC
Confidence 3478899999999999999999998886 5999999999998765
No 28
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.0022 Score=63.01 Aligned_cols=41 Identities=22% Similarity=0.309 Sum_probs=35.5
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT 89 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~ 89 (324)
-..||.||++ ..+.|+....-.|++|+||++||.+-. |+|+
T Consensus 284 ~W~CpkC~~k-------~ss~K~~~I~~lP~~LII~i~RF~i~V~~~~ki 326 (415)
T COG5533 284 AWRCPKCGRK-------ESSRKRMEILVLPDVLIIHISRFHISVMGRKKI 326 (415)
T ss_pred cccCchhccc-------ccchheEEEEecCceEEEEeeeeeEEeeccccc
Confidence 3799999998 678899999999999999999999654 7665
No 29
>cd02672 Peptidase_C19P A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=95.16 E-value=0.0066 Score=57.74 Aligned_cols=40 Identities=23% Similarity=0.164 Sum_probs=35.5
Q ss_pred hhhhhcccCCCCCCCCCcccccccccccccccccc----chhhcccccccc
Q 020560 38 EAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD----KTSEAAKPISLE 84 (324)
Q Consensus 38 e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd----~L~v~~~r~~l~ 84 (324)
|.+..+.|+.|+++ ..++|++.+.+||+ +|+||.+||..+
T Consensus 130 E~~~~~~C~~C~~~-------~~a~k~~~i~~lP~~L~~VL~i~lkrf~~~ 173 (268)
T cd02672 130 EKVTKAWCDTCCKY-------QPLEQTTSIRHLPDILLLVLVINLSVTNGE 173 (268)
T ss_pred hhcccccccccCcc-------cccEEEEEeecCCCcccceEEEEEeccChh
Confidence 44557999999987 78999999999999 999999999854
No 30
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.05 E-value=0.0056 Score=65.45 Aligned_cols=55 Identities=13% Similarity=0.112 Sum_probs=47.1
Q ss_pred hhhcccCCCCCCCCCccccccccccccccccccchhhcccccccc-c---Cccc---cCCccccccCCC
Q 020560 40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLE-V---PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 40 v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~-~---p~K~---~~~~~~lDl~~~ 101 (324)
..-|-|..|+++| -|.|--+|++||=.|.++.+||.|+ | -+|| +..|+.|||+.|
T Consensus 232 ~nqy~ce~ck~k~-------dahkgl~~~~fpy~lt~~lkrfdfdy~tmhriklnd~~tfp~~l~ln~~ 293 (1203)
T KOG4598|consen 232 SNQYMCENCKSKQ-------DAHKGLRITQFPYLLTIQLKRFDFDYNTMHRIKLNDKMTFPDVLDLNDY 293 (1203)
T ss_pred ccHHHHhhhhhhh-------hhhcCceeeccceeeEEeeecccccchheeeeeecccccCcccccHHHh
Confidence 3459999999985 6789999999999999999999999 3 7787 557999999855
No 31
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=94.91 E-value=0.037 Score=54.56 Aligned_cols=40 Identities=38% Similarity=0.588 Sum_probs=36.9
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
+.++++-|..|||++..+.-|.++.. +|-|.|.||||+|+
T Consensus 298 e~eAIeRL~alGF~ralViqayfACd-KNEelAAN~Ll~~~ 337 (340)
T KOG0011|consen 298 EKEAIERLEALGFPRALVIQAYFACD-KNEELAANYLLSHS 337 (340)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHhcC-ccHHHHHHHHHhhc
Confidence 67889999999999999999988874 69999999999999
No 32
>cd02257 Peptidase_C19 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=94.86 E-value=0.013 Score=50.81 Aligned_cols=55 Identities=16% Similarity=0.120 Sum_probs=43.1
Q ss_pred hhhhhcccCCCC--CCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccC
Q 020560 38 EAVLNLVCATCG--KPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVD 99 (324)
Q Consensus 38 e~v~e~~C~~Cg--~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~---p~K~---~~~~~~lDl~ 99 (324)
+.+..+.|..|+ +. ..+.++..|.++|++|+|+..||..+. +.|+ +..++.+++.
T Consensus 112 e~~~~~~~~~c~~~~~-------~~~~~~~~i~~lP~~L~i~l~R~~~~~~~~~~k~~~~v~~~~~l~~~ 174 (255)
T cd02257 112 EILEGDNCYKCEKKKK-------QEATKRLKIKKLPPVLIIHLKRFSFNEDGTKEKLNTKVSFPLELDLS 174 (255)
T ss_pred hccCCCCcccCCCCcc-------cceeEEEecccCCceeEEEeeceeeccccccccCCCeEeCCCcccCc
Confidence 456668899998 33 678899999999999999999999875 6666 4456666653
No 33
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=94.39 E-value=0.05 Score=53.69 Aligned_cols=41 Identities=24% Similarity=0.341 Sum_probs=36.8
Q ss_pred cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 113 vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
..+..+.+|++|||.+....+||++.=| |.+.|++||+...
T Consensus 134 ~~e~~V~~Im~MGy~re~V~~AlRAafN-NPeRAVEYLl~GI 174 (340)
T KOG0011|consen 134 EYEQTVQQIMEMGYDREEVERALRAAFN-NPERAVEYLLNGI 174 (340)
T ss_pred hhHHHHHHHHHhCccHHHHHHHHHHhhC-ChhhhHHHHhcCC
Confidence 4677899999999999999999999887 8999999998743
No 34
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=93.82 E-value=0.062 Score=40.20 Aligned_cols=29 Identities=31% Similarity=0.565 Sum_probs=22.2
Q ss_pred ccCHHHHHHHHhCCCCHHHHHHHHHHhCC
Q 020560 112 EVDKELLKELEAMGFPVARATRALHYSGN 140 (324)
Q Consensus 112 ~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn 140 (324)
-+|.++|+++.+|||+.+++..||+..|=
T Consensus 7 Gi~~~lVd~F~~mGF~~dkVvevlrrlgi 35 (55)
T PF09288_consen 7 GIDKDLVDQFENMGFERDKVVEVLRRLGI 35 (55)
T ss_dssp --SHHHHHHHHHHT--HHHHHHHHHHS--
T ss_pred CCCHHHHHHHHHcCCcHHHHHHHHHHhCC
Confidence 46899999999999999999999998763
No 35
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=93.82 E-value=0.022 Score=57.58 Aligned_cols=57 Identities=11% Similarity=-0.106 Sum_probs=44.1
Q ss_pred hhhhhcccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCccc-cccCCC
Q 020560 38 EAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEA-IDVDMS 101 (324)
Q Consensus 38 e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~---~~~~~~-lDl~~~ 101 (324)
|-...|.|+.|... ..++|+..+...|++|+||.+||...+ ..|. +..|.. |||+.|
T Consensus 307 e~L~ky~~~~c~~~-------~~a~k~~~I~~LP~vLiihLKRF~~~~~~~~K~~t~V~FP~~~LDm~~y 369 (440)
T cd02669 307 QLLKKYDGKTETEL-------KDSLKRYLISRLPKYLIFHIKRFSKNNFFKEKNPTIVNFPIKNLDLSDY 369 (440)
T ss_pred HHHHhcCCccceec-------ccceEEEEEeeCCcEEEEEEecccCCCCccccCCCEEECCCCccchhhh
Confidence 33455999999875 567999999999999999999999875 3344 445654 788766
No 36
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=93.74 E-value=0.21 Score=51.49 Aligned_cols=40 Identities=33% Similarity=0.541 Sum_probs=35.4
Q ss_pred ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 112 ~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
.++.+-++.|++|||-+..|+.||+...+ +|+.|++||.+
T Consensus 301 ki~d~~lsllv~mGfeesdaRlaLRsc~g-~Vd~AvqfI~e 340 (568)
T KOG2561|consen 301 KINDETLSLLVGMGFEESDARLALRSCNG-DVDSAVQFIIE 340 (568)
T ss_pred eccchHHHHHHHcCCCchHHHHHHHhccc-cHHHHHHHHHH
Confidence 36888899999999999999999998765 89999999843
No 37
>KOG1866 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=93.69 E-value=0.014 Score=62.69 Aligned_cols=53 Identities=13% Similarity=0.098 Sum_probs=45.6
Q ss_pred hcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCCC
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
-|.|..|.++ +.-+|+|.|+..|.+|+|+.+||.++- -.|- +..|-.||+..|
T Consensus 266 AYhCeKCdeK-------~~TvkRt~ik~LPsvl~IqLkRF~yD~e~~~~iK~n~~frFP~~ldMePY 325 (944)
T KOG1866|consen 266 AYHCEKCDEK-------VDTVKRTCIKKLPSVLAIQLKRFDYDWERECAIKFNDYFRFPRELDMEPY 325 (944)
T ss_pred hhhhhhhhhh-------hHhHHHHHHhhCChhheehhhhccchhhhccccccchhcccchhhcCCce
Confidence 4999999988 788999999999999999999999982 6665 446778888866
No 38
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=92.33 E-value=2 Score=48.56 Aligned_cols=17 Identities=41% Similarity=0.806 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 020560 249 AREKIRQKLEEDKAERRR 266 (324)
Q Consensus 249 ARerir~qIe~Dk~eR~~ 266 (324)
.|+|++ .++.++.+|++
T Consensus 508 e~er~~-r~e~e~~e~~r 524 (1021)
T PTZ00266 508 ERERVD-RLERDRLEKAR 524 (1021)
T ss_pred HHHHHH-HHHHHHHHHHH
Confidence 444443 34555555555
No 39
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=91.79 E-value=3.1 Score=45.74 Aligned_cols=82 Identities=34% Similarity=0.426 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH------cHHHHHHHH-HHHH
Q 020560 182 EIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKA------EKEEEKRAR-EKIR 254 (324)
Q Consensus 182 Ek~~k~~el~~k~r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkr------EK~Ee~~AR-erir 254 (324)
|+..+++|+.+.-|+.|+.+|++...+-|+ +..+.-+++|++++|.++++.-+.-++ ++.+..... .+-+
T Consensus 924 er~rk~qE~~E~ER~rrEaeek~rre~ee~---k~~k~e~e~kRK~eEeqr~~qee~e~~l~~e~q~qla~e~eee~k~q 1000 (1259)
T KOG0163|consen 924 ERLRKIQELAEAERKRREAEEKRRREEEEK---KRAKAEMETKRKAEEEQRKAQEEEERRLALELQEQLAKEAEEEAKRQ 1000 (1259)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555567777777777776655544333333 334445567777777776654333322 111111111 1334
Q ss_pred HHHHHHHHHHHH
Q 020560 255 QKLEEDKAERRR 266 (324)
Q Consensus 255 ~qIe~Dk~eR~~ 266 (324)
+|++++|+.+.-
T Consensus 1001 ~~~Eqer~D~~l 1012 (1259)
T KOG0163|consen 1001 NQLEQERRDHEL 1012 (1259)
T ss_pred hHHHHHHHHHHH
Confidence 567777766654
No 40
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=91.62 E-value=0.36 Score=33.36 Aligned_cols=37 Identities=35% Similarity=0.532 Sum_probs=30.2
Q ss_pred CHHHHHHHHhCCCCH---HHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 114 DKELLKELEAMGFPV---ARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 114 d~~~l~~L~~MGF~~---~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
+.+.+.+|.+| ||. ..+++.|...+| +++.|++-|++
T Consensus 2 ~~~~v~~L~~m-FP~l~~~~I~~~L~~~~g-~ve~~i~~LL~ 41 (43)
T smart00546 2 NDEALHDLKDM-FPNLDEEVIKAVLEANNG-NVEATINNLLE 41 (43)
T ss_pred hHHHHHHHHHH-CCCCCHHHHHHHHHHcCC-CHHHHHHHHHc
Confidence 46789999999 765 778888886665 89999999875
No 41
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=91.45 E-value=0.053 Score=57.68 Aligned_cols=54 Identities=11% Similarity=0.014 Sum_probs=44.4
Q ss_pred hhcccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cC-CccccccCCC
Q 020560 41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---AD-SEEAIDVDMS 101 (324)
Q Consensus 41 ~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~---~~-~~~~lDl~~~ 101 (324)
.-.+||+|+.. -.|+|+.-+-..|++|+||.+||.-++ +.|. ++ +-+.|||+.+
T Consensus 694 DswyCpgCkef-------rqasKqmelwrlP~iLiihLkRFss~rsfrdKiddlVeyPiddldLs~~ 753 (823)
T COG5560 694 DSWYCPGCKEF-------RQASKQMELWRLPMILIIHLKRFSSVRSFRDKIDDLVEYPIDDLDLSGV 753 (823)
T ss_pred ccccCCchHhh-------hhhhhhhhhhcCChheeeehhhhhhcccchhhhhhhhccccccccccce
Confidence 44799999865 789999999999999999999999997 8887 33 3345777744
No 42
>PF00443 UCH: Ubiquitin carboxyl-terminal hydrolase; InterPro: IPR001394 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C19 (ubiquitin-specific protease family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. Predicted active site residues for members of this family and family C1 occur in the same order in the sequence: N/Q, C, H. The type example is human ubiquitin-specific protease 14. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa, IPR001578 from INTERPRO, and 100-200 kDa) []: this family are the 100-200 kDa peptides which includes the Ubp1 ubiquitin peptidase from yeast. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process; PDB: 2LBC_A 3MHH_A 3MHS_A 3M99_A 2Y6E_D 2VHF_A 2HD5_A 3NHE_A 2IBI_A 1NBF_B ....
Probab=90.71 E-value=0.056 Score=47.96 Aligned_cols=49 Identities=12% Similarity=0.253 Sum_probs=36.1
Q ss_pred hhcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCc-cccccCCC
Q 020560 41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSE-EAIDVDMS 101 (324)
Q Consensus 41 ~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~-~~lDl~~~ 101 (324)
..+.|..|+.. ...|.++|++|+|+.+||.+.. ..|. +..| +.|||+.+
T Consensus 141 ~~~~c~~c~~~------------~~~~~~~P~~L~i~l~R~~~~~~~~~~~K~~~~v~~~~~~l~l~~~ 197 (269)
T PF00443_consen 141 SSIKCSSCKNS------------QSSISSLPPILIIQLKRFEFDQETGRSKKINNPVEFPLEELDLSPY 197 (269)
T ss_dssp EEEEETTTTCE------------EEEEEEBBSEEEEEEE-EEEESTSSEEEE--CEEB--SSEEEGGGG
T ss_pred ccccccccccc------------ccccccccceeeeccccceeccccccccccccccccCchhhhhhhh
Confidence 34789999873 8889999999999999996653 5666 5567 68999866
No 43
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=89.42 E-value=1.1 Score=31.22 Aligned_cols=40 Identities=23% Similarity=0.223 Sum_probs=29.1
Q ss_pred HHHHHH-hCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 020560 117 LLKELE-AMGFPVARATRALHYSGNANVEAAVNWVVEHENDP 157 (324)
Q Consensus 117 ~l~~L~-~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD~ 157 (324)
.|.+++ -.|.+...|..-|..+++ +++.|++-.|++.++|
T Consensus 3 ~i~~F~~iTg~~~~~A~~~L~~~~w-dle~Av~~y~~~~~~~ 43 (43)
T PF14555_consen 3 KIAQFMSITGADEDVAIQYLEANNW-DLEAAVNAYFDDGEAP 43 (43)
T ss_dssp HHHHHHHHH-SSHHHHHHHHHHTTT--HHHHHHHHHHSS-S-
T ss_pred HHHHHHHHHCcCHHHHHHHHHHcCC-CHHHHHHHHHhCCCCC
Confidence 444444 358999999999998876 8999999999987765
No 44
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=88.75 E-value=5.6 Score=42.06 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=16.1
Q ss_pred hcccCCCCCccH-HHHHHHHHHHHhh
Q 020560 289 KSMLPIRPATKV-EQMRECLRSLKQN 313 (324)
Q Consensus 289 ~~~~~~~p~~~~-e~~r~~l~~lk~~ 313 (324)
++.--|.|..+. ++++...-++|++
T Consensus 316 ~k~d~v~pi~~kd~~lk~~~~~~kr~ 341 (591)
T KOG2412|consen 316 SKLDLVNPILKKDEELKNYNQSLKRA 341 (591)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHhh
Confidence 444556775444 4588888888775
No 45
>COG1773 Rubredoxin [Energy production and conversion]
Probab=87.38 E-value=0.13 Score=38.58 Aligned_cols=42 Identities=19% Similarity=0.467 Sum_probs=32.6
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
+-+|.+||+|.........+.-.-| +-|.+. -.+..||-||-
T Consensus 3 ~~~C~~CG~vYd~e~Gdp~~gi~pg-T~fedl---Pd~w~CP~Cg~ 44 (55)
T COG1773 3 RWRCSVCGYVYDPEKGDPRCGIAPG-TPFEDL---PDDWVCPECGV 44 (55)
T ss_pred ceEecCCceEeccccCCccCCCCCC-CchhhC---CCccCCCCCCC
Confidence 5799999999988877777666334 448777 66799999994
No 46
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=86.71 E-value=1.7 Score=30.86 Aligned_cols=32 Identities=25% Similarity=0.361 Sum_probs=23.9
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHh---CCCCHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYS---GNANVEA 145 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~T---gn~~~E~ 145 (324)
-++++..|+++||++..+.+|+... .+.+++.
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~~~~~~~~~e~ 37 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKLLEKPGMDVEE 37 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHHHHSTTS-HHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhcCCCCCHHH
Confidence 3678999999999999999998765 3345554
No 47
>cd02670 Peptidase_C19N A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=86.38 E-value=0.26 Score=46.53 Aligned_cols=42 Identities=7% Similarity=-0.156 Sum_probs=34.5
Q ss_pred cccccccccccccchhhccccccccc--Cccc---cCCccccccCCC
Q 020560 60 LHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 60 ~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~---~~~~~~lDl~~~ 101 (324)
.+.+...|..+|++|+|+.+||.... +.|+ |..|..|||+.|
T Consensus 88 ~~~~~e~i~~lP~vLiIhLKRF~~~~~~~~Kl~~~I~fP~~Ldl~~~ 134 (241)
T cd02670 88 QYFNNSVFAKAPSCLIICLKRYGKTEGKAQKMFKKILIPDEIDIPDF 134 (241)
T ss_pred HHhchhhhhhCCCeEEEEEEccccCCCcceeCCcEECCCCcCCchhh
Confidence 34444449999999999999999975 7788 778889999877
No 48
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=86.19 E-value=0.29 Score=41.46 Aligned_cols=45 Identities=24% Similarity=0.575 Sum_probs=29.6
Q ss_pred eeecccCcccccchHH------------H-HHHHHHcccCCCCchh--hhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQE------------A-QEHAELTSHSNFSEST--EAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~e------------a-q~hae~TgH~~F~E~~--e~v~e~~C~~Cg~~ 51 (324)
.++| .||..+-+-.+ + ..|.+ ..-..|+... ..+.||.||.||..
T Consensus 24 ~vkc-~CGh~f~d~r~NwK~~alv~vRd~~E~~~~-iYp~~~aPdp~w~~irEyyCP~Cgt~ 83 (112)
T PF08882_consen 24 VVKC-DCGHEFCDARENWKLGALVYVRDPEEIHPE-IYPFTMAPDPEWQVIREYYCPGCGTQ 83 (112)
T ss_pred eeec-cCCCeecChhcChhhCcEEEecChHHhhhh-hcccccCCCCCcEEEEEEECCCCcce
Confidence 5788 89999833332 3 33333 4555666542 66889999999964
No 49
>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.15 E-value=0.79 Score=42.26 Aligned_cols=39 Identities=28% Similarity=0.273 Sum_probs=33.2
Q ss_pred cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 113 vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
.+...++.|.+|||+++.+..+|...+ -+++.|.+.+++
T Consensus 161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~-w~~~~a~~~~~s 199 (200)
T KOG0418|consen 161 WDKKKVDSLIEMGFSELEAILVLSGSD-WNLADATEQLLS 199 (200)
T ss_pred hhHHHHHHHHHhcccHHHHHHHhhccc-cchhhhhHhhcc
Confidence 477889999999999999999997765 478888887765
No 50
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=85.95 E-value=0.17 Score=39.24 Aligned_cols=65 Identities=22% Similarity=0.430 Sum_probs=24.2
Q ss_pred ecccCcccccchHHHHHHHHHcccC-CCCch-------------hhhhhh-cccCCCCCCCCCccccccccccccccccc
Q 020560 7 KCGDCGALLRSVQEAQEHAELTSHS-NFSES-------------TEAVLN-LVCATCGKPCRSKTETDLHRKRTGHTDFV 71 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae~TgH~-~F~E~-------------~e~v~e-~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP 71 (324)
+|..|+....+...-..|.. .-|. ++... ...+.+ +.|..|++.+.+......|..+.+|..+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~-~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~ 79 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMK-KKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSKHHKKRN 79 (100)
T ss_dssp -------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred Cccccccccccccccccccc-cccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence 69999999999999999997 4444 33321 133344 89999999998888888899888888764
Q ss_pred c
Q 020560 72 D 72 (324)
Q Consensus 72 d 72 (324)
.
T Consensus 80 ~ 80 (100)
T PF12756_consen 80 S 80 (100)
T ss_dssp -
T ss_pred c
Confidence 4
No 51
>KOG1868 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=85.73 E-value=0.28 Score=52.61 Aligned_cols=36 Identities=14% Similarity=0.137 Sum_probs=31.3
Q ss_pred cccCCCCCCCCCccccccc--cccccccccccchhhccccccccc
Q 020560 43 LVCATCGKPCRSKTETDLH--RKRTGHTDFVDKTSEAAKPISLEV 85 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a--~K~t~f~tFPd~L~v~~~r~~l~~ 85 (324)
+.||.|+.+ ... +|+.-|-.||++|+|+++||..+.
T Consensus 518 w~Cp~c~~~-------~~~~~lK~~~i~~lp~iLiihL~Rf~~~~ 555 (653)
T KOG1868|consen 518 WLCPRCKHK-------ESSKTLKKLTILRLPKILIIHLKRFSSDG 555 (653)
T ss_pred cCCccccCc-------ccccccceeeeecCCHHHHHHHHHhccCc
Confidence 899999986 222 599999999999999999999994
No 52
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=85.53 E-value=0.14 Score=37.45 Aligned_cols=42 Identities=19% Similarity=0.491 Sum_probs=26.6
Q ss_pred eecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
-+|.+||+|-....+-..+.-..| +.|.+. -.+++||.||.+
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pG-t~f~~L---p~~w~CP~C~a~ 43 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPG-TPFEDL---PDDWVCPVCGAG 43 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCC-CCHhHC---CCCCCCCCCCCc
Confidence 589999999876544333332223 234443 557999999965
No 53
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=85.44 E-value=12 Score=41.45 Aligned_cols=55 Identities=35% Similarity=0.401 Sum_probs=35.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHH
Q 020560 208 EREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAE 263 (324)
Q Consensus 208 ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkrEK~Ee~~ARerir~qIe~Dk~e 263 (324)
+.|..||+.--+-..++.+++ -.||.+-++++++++++.+.--.|.+|++...++
T Consensus 941 Eaeek~rre~ee~k~~k~e~e-~kRK~eEeqr~~qee~e~~l~~e~q~qla~e~ee 995 (1259)
T KOG0163|consen 941 EAEEKRRREEEEKKRAKAEME-TKRKAEEEQRKAQEEEERRLALELQEQLAKEAEE 995 (1259)
T ss_pred hhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 334445544444455555544 3455566677778888888888888888877665
No 54
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=85.30 E-value=9.9 Score=42.03 Aligned_cols=31 Identities=23% Similarity=0.275 Sum_probs=20.5
Q ss_pred CCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 020560 126 FPVARATRALHYSGNANVEAAVNWVVEHEND 156 (324)
Q Consensus 126 F~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD 156 (324)
.+-..|+-||-.+|=....-|-=|-++..|-
T Consensus 212 Lsg~qaR~aL~qS~Lpq~~LA~IW~LsDvd~ 242 (1118)
T KOG1029|consen 212 LSGQQARSALGQSGLPQNQLAHIWTLSDVDG 242 (1118)
T ss_pred cccHHHHHHHHhcCCchhhHhhheeeeccCC
Confidence 4556777788777655566777777665543
No 55
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=85.21 E-value=0.39 Score=31.82 Aligned_cols=25 Identities=32% Similarity=0.821 Sum_probs=19.3
Q ss_pred eecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
-+|.+||.+..+.. ....||.||.+
T Consensus 2 ~~C~~CGy~y~~~~---------------------~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEE---------------------APWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCc---------------------CCCcCcCCCCc
Confidence 47999998876543 45799999975
No 56
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=84.04 E-value=20 Score=39.83 Aligned_cols=19 Identities=16% Similarity=0.298 Sum_probs=12.6
Q ss_pred CHHHHHHHHhCCCCHHHHH
Q 020560 114 DKELLKELEAMGFPVARAT 132 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~ 132 (324)
.+.+-..|+--|.|.+.-.
T Consensus 214 g~qaR~aL~qS~Lpq~~LA 232 (1118)
T KOG1029|consen 214 GQQARSALGQSGLPQNQLA 232 (1118)
T ss_pred cHHHHHHHHhcCCchhhHh
Confidence 4455677777888876543
No 57
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=83.39 E-value=3.8 Score=28.18 Aligned_cols=38 Identities=24% Similarity=0.395 Sum_probs=30.3
Q ss_pred HHHHHHHHhC--CCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAM--GFPVARATRALHYSGNANVEAAVNWVVEH 153 (324)
Q Consensus 115 ~~~l~~L~~M--GF~~~~a~kAL~~Tgn~~~E~A~~WL~~H 153 (324)
++.+.+|.+| .++......+|..+++ +++.|++.|++.
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~-~ve~ai~~LL~~ 41 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNG-DVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTT-THHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCC-CHHHHHHHHHcC
Confidence 5678899998 3567888899977766 899999999874
No 58
>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair [].P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].
Probab=81.37 E-value=45 Score=30.81 Aligned_cols=9 Identities=33% Similarity=0.693 Sum_probs=4.0
Q ss_pred hhhhcccCC
Q 020560 286 EEKKSMLPI 294 (324)
Q Consensus 286 ~~~~~~~~~ 294 (324)
++-..|+|.
T Consensus 200 ~~~~~f~pF 208 (216)
T PF11600_consen 200 DYEKKFLPF 208 (216)
T ss_pred hhhccccCc
Confidence 343445553
No 59
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=81.20 E-value=2.9 Score=38.62 Aligned_cols=41 Identities=27% Similarity=0.519 Sum_probs=35.2
Q ss_pred cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 113 vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
++..++..|-+ -|.+.-.|.+||..++| |++.|++||-...
T Consensus 3 i~a~~ik~LR~~tga~~~~ck~AL~~~~g-d~~~A~~~lr~~g 44 (198)
T PRK12332 3 ITAKLVKELREKTGAGMMDCKKALEEANG-DMEKAIEWLREKG 44 (198)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhh
Confidence 56678888875 58999999999999987 9999999998754
No 60
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=79.65 E-value=17 Score=40.38 Aligned_cols=28 Identities=32% Similarity=0.504 Sum_probs=11.2
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 020560 187 AQELRERARKKKEEEEKRMEREREKERI 214 (324)
Q Consensus 187 ~~el~~k~r~kr~eeek~~~~ekE~~Rr 214 (324)
+..|++.+.++++++|.+...+.|+.||
T Consensus 216 v~~~qe~La~~qe~eE~qkreeEE~~r~ 243 (1064)
T KOG1144|consen 216 VRAMQEALAKRQEEEERQKREEEERLRR 243 (1064)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444333333333333333
No 61
>PRK09377 tsf elongation factor Ts; Provisional
Probab=79.44 E-value=3.3 Score=40.43 Aligned_cols=41 Identities=24% Similarity=0.494 Sum_probs=35.7
Q ss_pred cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 113 vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
++..++..|-+ -|.+.-.|++||..++| |++.|++||-...
T Consensus 4 is~~~IK~LR~~Tgagm~dCKkAL~e~~g-D~ekAi~~Lrk~G 45 (290)
T PRK09377 4 ITAALVKELRERTGAGMMDCKKALTEADG-DIEKAIEWLRKKG 45 (290)
T ss_pred cCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhc
Confidence 56778888874 59999999999999987 9999999998754
No 62
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=79.39 E-value=0.94 Score=33.89 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=31.1
Q ss_pred eeecccCcccccc---hHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 5 SLKCGDCGALLRS---VQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 5 ~L~C~~C~~v~~~---~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
...|..||.++=+ ..-|+.|++.+||..|-..... ...|-.|+.
T Consensus 11 lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~~--~i~C~~C~~ 57 (63)
T PF02148_consen 11 LWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLSTG--SIWCYACDD 57 (63)
T ss_dssp EEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTTT--CEEETTTTE
T ss_pred eEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCCC--eEEEcCCCc
Confidence 4569999999955 4779999999999999776322 257877763
No 63
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=79.12 E-value=3.5 Score=40.32 Aligned_cols=41 Identities=24% Similarity=0.353 Sum_probs=35.6
Q ss_pred cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 113 vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
++..++..|-+ -|.+.-.|++||..++| |++.|++||-.+.
T Consensus 3 isa~~IK~LRe~Tgagm~dCKkAL~e~~g-DiekAi~~LRkkG 44 (290)
T TIGR00116 3 ITAQLVKELRERTGAGMMDCKKALTEANG-DFEKAIKNLRESG 44 (290)
T ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhc
Confidence 56778888875 58999999999999987 9999999998754
No 64
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=79.09 E-value=0.53 Score=34.04 Aligned_cols=43 Identities=23% Similarity=0.551 Sum_probs=23.3
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
+-+|.+||+|-....+=-.+.- .--+-|.+. -.+++||.|+..
T Consensus 1 ky~C~~CgyvYd~~~Gd~~~~i-~pGt~F~~L---p~~w~CP~C~a~ 43 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDPENGI-PPGTPFEDL---PDDWVCPVCGAP 43 (47)
T ss_dssp EEEETTTSBEEETTTBBGGGTB--TT--GGGS----TT-B-TTTSSB
T ss_pred CcCCCCCCEEEcCCcCCcccCc-CCCCCHHHC---CCCCcCcCCCCc
Confidence 4689999999855443222211 122446665 566999999863
No 65
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=77.71 E-value=0.85 Score=51.69 Aligned_cols=67 Identities=13% Similarity=-0.031 Sum_probs=50.8
Q ss_pred cccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 020560 28 TSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM 100 (324)
Q Consensus 28 TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~ 100 (324)
.-|.+|+..+-.-.+-.|..|... ..|.|-..|.+||.+|.+++.||.++. ++|+ ...|..||++.
T Consensus 323 sf~~y~~~E~l~gdn~~~~~~~~~-------~~a~k~~~f~~lPpvl~~qL~Rf~~~~~~~~~~Ki~d~~~fp~~i~~d~ 395 (1093)
T KOG1863|consen 323 SLHLYFEAEILLGDNKYDAECHGL-------QDAKKGVLFDSLPPVLFIQLMRFEYDFSTGQKIKINDKFEFPLIIDMDR 395 (1093)
T ss_pred HHHHhhhHHHhcCCccccccccch-------hhhhcceeeccCCchhhhhhhheeeeccCCceeehhhccCCccccccch
Confidence 778888754322222389999875 677888999999999999999999984 8887 33577777776
Q ss_pred C
Q 020560 101 S 101 (324)
Q Consensus 101 ~ 101 (324)
|
T Consensus 396 ~ 396 (1093)
T KOG1863|consen 396 Y 396 (1093)
T ss_pred h
Confidence 6
No 66
>PF15236 CCDC66: Coiled-coil domain-containing protein 66
Probab=77.66 E-value=54 Score=29.53 Aligned_cols=6 Identities=33% Similarity=0.623 Sum_probs=2.9
Q ss_pred CCCHHH
Q 020560 177 SLTPEE 182 (324)
Q Consensus 177 ~lT~EE 182 (324)
+|+|.+
T Consensus 40 llDpa~ 45 (157)
T PF15236_consen 40 LLDPAQ 45 (157)
T ss_pred cCCHHH
Confidence 455543
No 67
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=77.52 E-value=0.47 Score=52.28 Aligned_cols=54 Identities=9% Similarity=0.078 Sum_probs=43.4
Q ss_pred hhcccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cC-CccccccCCC
Q 020560 41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---AD-SEEAIDVDMS 101 (324)
Q Consensus 41 ~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~---~~-~~~~lDl~~~ 101 (324)
..+.|+.|.+. ..|+|..-.-..|++||||.+||.+.+ .-|+ ++ +...||++.|
T Consensus 715 ~~w~C~~Cke~-------~~A~Kk~~lwrlPeiLiihLKrF~~~r~~~~k~~~~v~fPi~~ld~s~~ 774 (842)
T KOG1870|consen 715 DRWYCPQCKEL-------RQATKKLDLWRLPEILIIHLKRFQYSRESSSKVKTKVEFPLGSLDLSEF 774 (842)
T ss_pred ccccChHHHHH-------HHHhhhhhhhhCCceEEEEeecceeechhhhhhCccccCCCcCCCcchh
Confidence 34899999875 889999999999999999999999997 4444 22 4556777766
No 68
>cd02665 Peptidase_C19I A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=76.75 E-value=0.85 Score=42.77 Aligned_cols=30 Identities=7% Similarity=0.025 Sum_probs=25.6
Q ss_pred cccccccccccccchhhccccccccc--Cccc
Q 020560 60 LHRKRTGHTDFVDKTSEAAKPISLEV--PKAT 89 (324)
Q Consensus 60 ~a~K~t~f~tFPd~L~v~~~r~~l~~--p~K~ 89 (324)
.+.|+..|..+|++|+|+.+||.+.. ..|+
T Consensus 118 ~~~~~~~i~~lP~vL~i~LkRF~~~~~~~~Ki 149 (228)
T cd02665 118 KSGQERWFTELPPVLTFELSRFEFNQGRPEKI 149 (228)
T ss_pred hhhhhhhhhhCChhhEEEeEeeEEcCCccEEC
Confidence 46778889999999999999999974 5665
No 69
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=76.61 E-value=3.5 Score=42.93 Aligned_cols=37 Identities=30% Similarity=0.502 Sum_probs=31.7
Q ss_pred HHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 115 KELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 115 ~~~l~~L~~MGF-~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
+.-+.||-+||| ++++...||..||+ ++.+|++-|+.
T Consensus 455 q~QLeQL~~MGF~nre~nlqAL~atgG-di~aAverll~ 492 (493)
T KOG0010|consen 455 QTQLEQLNDMGFLDREANLQALRATGG-DINAAVERLLG 492 (493)
T ss_pred HHHHHHHHhcCCccHHHHHHHHHHhcC-cHHHHHHHHhc
Confidence 345899999996 57889999999998 99999998863
No 70
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=76.31 E-value=1.2 Score=38.64 Aligned_cols=47 Identities=26% Similarity=0.427 Sum_probs=26.7
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhh-hhcccCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAV-LNLVCATCGKP 51 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v-~e~~C~~Cg~~ 51 (324)
....|.+||......+..+++.. +-++.|.=..+.+ ..+.||.||+.
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDE-EIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred eEEECCCCCCEEecccccccccc-cccccccccccccccCcCCcCCCCC
Confidence 56899999987655433333322 3344333222222 22679999975
No 71
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=74.05 E-value=3.1 Score=35.38 Aligned_cols=27 Identities=19% Similarity=0.325 Sum_probs=15.5
Q ss_pred hhhcccCCCCCCCCCcccccccccccccccccc
Q 020560 40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD 72 (324)
Q Consensus 40 v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd 72 (324)
|..+.|++|+.. +.+...-..|...++
T Consensus 10 vt~l~C~~C~t~------i~G~F~l~~~~~L~~ 36 (113)
T PF09862_consen 10 VTRLKCPSCGTE------IEGEFELPWFARLSP 36 (113)
T ss_pred EEEEEcCCCCCE------EEeeeccchhhcCCH
Confidence 556899999864 444444444444433
No 72
>PTZ00121 MAEBL; Provisional
Probab=73.94 E-value=50 Score=39.28 Aligned_cols=6 Identities=17% Similarity=0.368 Sum_probs=2.9
Q ss_pred CCCCCC
Q 020560 46 ATCGKP 51 (324)
Q Consensus 46 ~~Cg~~ 51 (324)
|.|..|
T Consensus 881 p~Cf~p 886 (2084)
T PTZ00121 881 PNCQII 886 (2084)
T ss_pred Cccccc
Confidence 455543
No 73
>CHL00098 tsf elongation factor Ts
Probab=73.79 E-value=7 Score=36.22 Aligned_cols=38 Identities=26% Similarity=0.367 Sum_probs=31.8
Q ss_pred HHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 116 ELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 116 ~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
.++..|-+ -|.+.-.|.+||..++| |++.|++||-.+.
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~g-d~~~A~~~Lr~~g 41 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANG-DFEKALESLRQKG 41 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhh
Confidence 45666654 58999999999999988 9999999998754
No 74
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=71.22 E-value=9.7 Score=32.57 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=35.7
Q ss_pred cccCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 111 PEVDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 111 ~~vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
..++++.++.+++ -|.|++.|.+||..++| ++-.|+-||.+
T Consensus 73 ~~i~~edI~lv~~q~gvs~~~A~~AL~~~~g-Dl~~AI~~L~~ 114 (115)
T PRK06369 73 VEIPEEDIELVAEQTGVSEEEARKALEEANG-DLAEAILKLSS 114 (115)
T ss_pred CCCCHHHHHHHHHHHCcCHHHHHHHHHHcCC-cHHHHHHHHhc
Confidence 5688999988875 68999999999999987 89999999864
No 75
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=70.80 E-value=1.8 Score=32.96 Aligned_cols=28 Identities=39% Similarity=0.841 Sum_probs=14.9
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
..|.|++|+. ++.+.|. ++-.+|+.||+
T Consensus 29 v~IlCNDC~~--------------~s~v~fH-----~lg~KC~~C~S 56 (61)
T PF14599_consen 29 VWILCNDCNA--------------KSEVPFH-----FLGHKCSHCGS 56 (61)
T ss_dssp EEEEESSS----------------EEEEE-------TT----TTTS-
T ss_pred EEEECCCCCC--------------ccceeee-----HhhhcCCCCCC
Confidence 4678999986 5666676 56789999996
No 76
>PHA00732 hypothetical protein
Probab=70.64 E-value=4.9 Score=31.85 Aligned_cols=35 Identities=29% Similarity=0.582 Sum_probs=29.1
Q ss_pred ecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCC
Q 020560 7 KCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC 52 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~ 52 (324)
+|..||..+.....-+.|.. +.|.. +.|+.||+.+
T Consensus 3 ~C~~Cgk~F~s~s~Lk~H~r-~~H~~----------~~C~~CgKsF 37 (79)
T PHA00732 3 KCPICGFTTVTLFALKQHAR-RNHTL----------TKCPVCNKSY 37 (79)
T ss_pred cCCCCCCccCCHHHHHHHhh-cccCC----------CccCCCCCEe
Confidence 69999999999999999987 44653 3699999864
No 77
>PTZ00121 MAEBL; Provisional
Probab=69.71 E-value=75 Score=37.94 Aligned_cols=16 Identities=38% Similarity=0.268 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHhc
Q 020560 253 IRQKLEEDKAERRRRL 268 (324)
Q Consensus 253 ir~qIe~Dk~eR~~k~ 268 (324)
+|..=+++.+++++|.
T Consensus 1254 ~Rk~Eear~a~~A~r~ 1269 (2084)
T PTZ00121 1254 IRKFEEARMAHFARRQ 1269 (2084)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4444444444444444
No 78
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=68.54 E-value=2.5 Score=28.34 Aligned_cols=26 Identities=27% Similarity=0.653 Sum_probs=18.9
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.-+|.+||.+..|.. .-..||.||.+
T Consensus 2 ~~~C~~CG~i~~g~~---------------------~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEE---------------------APEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCc---------------------CCCcCcCCCCc
Confidence 358999998876642 11399999976
No 79
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=66.95 E-value=1.2 Score=27.68 Aligned_cols=20 Identities=20% Similarity=0.557 Sum_probs=10.1
Q ss_pred ecccCcccccchHHHHHHHH
Q 020560 7 KCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae 26 (324)
-|..|+..+.+....+.|..
T Consensus 3 ~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCTT
T ss_pred CcccCCCCcCCHHHHHHHHc
Confidence 35555555555555555444
No 80
>PHA02768 hypothetical protein; Provisional
Probab=66.84 E-value=5.5 Score=29.83 Aligned_cols=36 Identities=22% Similarity=0.472 Sum_probs=30.1
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
--+|..||..+.-...=+.|.. .|. ..|+|..||+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r--~H~---------k~~kc~~C~k~ 40 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLR--KHN---------TNLKLSNCKRI 40 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHH--hcC---------CcccCCcccce
Confidence 3489999999999999999998 376 14799999985
No 81
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=66.54 E-value=4.7 Score=35.08 Aligned_cols=37 Identities=22% Similarity=0.541 Sum_probs=24.3
Q ss_pred CCceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 2 ~~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
+.....|..||.... ..+|..+.. +. ..|.||.||..
T Consensus 96 ~~~~Y~Cp~C~~~y~-~~ea~~~~d------~~------~~f~Cp~Cg~~ 132 (147)
T smart00531 96 NNAYYKCPNCQSKYT-FLEANQLLD------MD------GTFTCPRCGEE 132 (147)
T ss_pred CCcEEECcCCCCEee-HHHHHHhcC------CC------CcEECCCCCCE
Confidence 356788999996655 455554432 11 23899999975
No 82
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=66.19 E-value=9.6 Score=30.34 Aligned_cols=37 Identities=24% Similarity=0.318 Sum_probs=30.9
Q ss_pred HHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 020560 119 KELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND 156 (324)
Q Consensus 119 ~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD 156 (324)
..+.+.||+...+..||++|.+ ++..|..+|..+...
T Consensus 2 ~~~~~~g~~~~~v~~aL~~tSg-d~~~a~~~vl~~l~~ 38 (87)
T PF11626_consen 2 KHYEELGYSREFVTHALYATSG-DPELARRFVLNFLQA 38 (87)
T ss_dssp HHHHHHTB-HHHHHHHHHHTTT-BHHHHHHHHHHCHCH
T ss_pred chHHHhCCCHHHHHHHHHHhCC-CHHHHHHHHHHHHHc
Confidence 3477899999999999999976 899999999887543
No 83
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=66.00 E-value=17 Score=35.53 Aligned_cols=7 Identities=14% Similarity=0.548 Sum_probs=3.6
Q ss_pred cccccCC
Q 020560 94 EAIDVDM 100 (324)
Q Consensus 94 ~~lDl~~ 100 (324)
+..||+-
T Consensus 143 ~~~dLs~ 149 (321)
T PF07946_consen 143 DNYDLSL 149 (321)
T ss_pred hCcchhh
Confidence 3456654
No 84
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=65.07 E-value=28 Score=34.07 Aligned_cols=8 Identities=38% Similarity=0.347 Sum_probs=3.8
Q ss_pred cccCCCCc
Q 020560 28 TSHSNFSE 35 (324)
Q Consensus 28 TgH~~F~E 35 (324)
.-+.||+-
T Consensus 42 ~L~~~Fa~ 49 (321)
T PF07946_consen 42 LLESNFAL 49 (321)
T ss_pred HHHhhccc
Confidence 34455543
No 85
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=64.87 E-value=5.4 Score=35.35 Aligned_cols=30 Identities=30% Similarity=0.577 Sum_probs=21.9
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.--.|..|+ ...+..+|.+ .+|.||.||..
T Consensus 108 ~~Y~Cp~c~-~r~tf~eA~~-----------------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMC-VRFTFNEAME-----------------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCC-cEeeHHHHHH-----------------cCCcCCCCCCE
Confidence 345688888 6666677764 26999999975
No 86
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=62.25 E-value=4.2 Score=34.12 Aligned_cols=10 Identities=20% Similarity=0.650 Sum_probs=8.0
Q ss_pred hcccCCCCCC
Q 020560 42 NLVCATCGKP 51 (324)
Q Consensus 42 e~~C~~Cg~~ 51 (324)
.+.||.||+.
T Consensus 86 ~~~CP~Cgs~ 95 (113)
T PRK12380 86 DAQCPHCHGE 95 (113)
T ss_pred CccCcCCCCC
Confidence 3579999975
No 87
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=62.13 E-value=2.1e+02 Score=31.76 Aligned_cols=26 Identities=15% Similarity=0.256 Sum_probs=21.0
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhC
Q 020560 114 DKELLKELEAMGFPVARATRALHYSG 139 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tg 139 (324)
...++....-+|||.....+|-...+
T Consensus 487 ~S~a~~iA~~~Glp~~ii~~A~~~~~ 512 (782)
T PRK00409 487 KSNAFEIAKRLGLPENIIEEAKKLIG 512 (782)
T ss_pred CcHHHHHHHHhCcCHHHHHHHHHHHh
Confidence 45778888889999999998876654
No 88
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=61.63 E-value=9 Score=29.44 Aligned_cols=32 Identities=28% Similarity=0.484 Sum_probs=26.4
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCch
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSES 36 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~ 36 (324)
.+.|..|+..+.+...-+.|+...||..+...
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~~ 81 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKHHKKRNSE 81 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTTTTC-S--
T ss_pred CCCCCccCCCCcCHHHHHHHHcCccCCCcccc
Confidence 48999999999999999999999999998653
No 89
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=61.45 E-value=3.3 Score=45.53 Aligned_cols=43 Identities=9% Similarity=-0.107 Sum_probs=35.5
Q ss_pred ccccccccccccccchhhccccccccc----Cccc---cCCccccccCCC
Q 020560 59 DLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 59 ~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl~~~ 101 (324)
.-|.|---|.|||++|-++.+||..+. -+|+ -..|..+||..|
T Consensus 367 qdAkKGViFeSlPpVlhlqLKRFeyDfe~d~mvKINDryEFP~eiDl~pf 416 (1089)
T COG5077 367 QDAKKGVIFESLPPVLHLQLKRFEYDFERDMMVKINDRYEFPLEIDLLPF 416 (1089)
T ss_pred hhhccceeeccCchHHHHHHHHhccccccCceeeecccccCcchhccccc
Confidence 467888999999999999999999984 5665 336888888765
No 90
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=59.16 E-value=21 Score=30.63 Aligned_cols=39 Identities=18% Similarity=0.239 Sum_probs=34.1
Q ss_pred ccCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 020560 112 EVDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVV 151 (324)
Q Consensus 112 ~vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~ 151 (324)
.++++.++.+++ -|.|+..|.+||..++| ++-.|+-||.
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~~~g-Dl~~AI~~L~ 115 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEECGG-DLAEAIMKLE 115 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHHcCC-CHHHHHHHhh
Confidence 588888888875 68999999999999987 8999998884
No 91
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=59.09 E-value=6.5 Score=27.58 Aligned_cols=28 Identities=29% Similarity=0.628 Sum_probs=18.6
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
..+|..||..+.- .+. ...++||.||.+
T Consensus 3 ~y~C~~CG~~~~~----------------~~~---~~~~~Cp~CG~~ 30 (46)
T PRK00398 3 EYKCARCGREVEL----------------DEY---GTGVRCPYCGYR 30 (46)
T ss_pred EEECCCCCCEEEE----------------CCC---CCceECCCCCCe
Confidence 4689999876532 222 125799999986
No 92
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=59.08 E-value=5.4 Score=27.93 Aligned_cols=31 Identities=29% Similarity=0.350 Sum_probs=23.6
Q ss_pred eeecccCcccccc---hHHHHHHHHHcccCCCCc
Q 020560 5 SLKCGDCGALLRS---VQEAQEHAELTSHSNFSE 35 (324)
Q Consensus 5 ~L~C~~C~~v~~~---~~eaq~hae~TgH~~F~E 35 (324)
.-.|..|+.++-+ ..-++.|...|||..+-.
T Consensus 11 l~~CL~C~~~~c~~~~~~h~~~H~~~t~H~~~~~ 44 (50)
T smart00290 11 LWLCLTCGQVGCGRYQLGHALEHFEETGHPLVVK 44 (50)
T ss_pred eEEecCCCCcccCCCCCcHHHHHhhhhCCCEEEE
Confidence 3478888888843 345999999999987653
No 93
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=58.66 E-value=5 Score=33.77 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=18.0
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.+..|..||...... . ..+.||.||+.
T Consensus 69 ~~~~C~~Cg~~~~~~-------------~--------~~~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPE-------------I--------DLYRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecC-------------C--------cCccCcCCcCC
Confidence 467899998654221 0 13689999985
No 94
>PF15236 CCDC66: Coiled-coil domain-containing protein 66
Probab=58.58 E-value=1.4e+02 Score=26.89 Aligned_cols=6 Identities=33% Similarity=0.213 Sum_probs=2.2
Q ss_pred CCCHHH
Q 020560 177 SLTPEE 182 (324)
Q Consensus 177 ~lT~EE 182 (324)
|-+-+|
T Consensus 43 pa~~eE 48 (157)
T PF15236_consen 43 PAQIEE 48 (157)
T ss_pred HHHHHH
Confidence 333333
No 95
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=57.11 E-value=5.9 Score=33.32 Aligned_cols=10 Identities=20% Similarity=0.544 Sum_probs=7.8
Q ss_pred ceeecccCcc
Q 020560 4 VSLKCGDCGA 13 (324)
Q Consensus 4 ~~L~C~~C~~ 13 (324)
.+.+|..||.
T Consensus 69 ~~~~C~~Cg~ 78 (114)
T PRK03681 69 AECWCETCQQ 78 (114)
T ss_pred cEEEcccCCC
Confidence 4678999985
No 96
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=56.35 E-value=9.8 Score=34.46 Aligned_cols=30 Identities=27% Similarity=0.637 Sum_probs=20.7
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.--.|..|| ...+..+|-+ .+|.||.||..
T Consensus 116 ~~Y~Cp~C~-~rytf~eA~~-----------------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCH-IRFTFDEAME-----------------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCC-cEEeHHHHhh-----------------cCCcCCCCCCC
Confidence 445788888 4555555532 26999999986
No 97
>PF14353 CpXC: CpXC protein
Probab=56.13 E-value=6.3 Score=33.10 Aligned_cols=12 Identities=25% Similarity=1.057 Sum_probs=9.8
Q ss_pred hhhcccCCCCCC
Q 020560 40 VLNLVCATCGKP 51 (324)
Q Consensus 40 v~e~~C~~Cg~~ 51 (324)
.-.++||.||..
T Consensus 36 l~~~~CP~Cg~~ 47 (128)
T PF14353_consen 36 LFSFTCPSCGHK 47 (128)
T ss_pred cCEEECCCCCCc
Confidence 446899999986
No 98
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=55.80 E-value=9.5 Score=22.28 Aligned_cols=20 Identities=30% Similarity=0.579 Sum_probs=17.7
Q ss_pred ecccCcccccchHHHHHHHH
Q 020560 7 KCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae 26 (324)
+|..||..+.....=+.|..
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 69999999999998888877
No 99
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=55.02 E-value=22 Score=35.05 Aligned_cols=40 Identities=28% Similarity=0.541 Sum_probs=32.1
Q ss_pred cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEH 153 (324)
Q Consensus 113 vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H 153 (324)
+...+|..|-+ -|=+.--|++||..|++ |+|.|++||-..
T Consensus 4 ita~~VKeLRe~TgAGMmdCKkAL~E~~G-d~EkAie~LR~k 44 (296)
T COG0264 4 ITAALVKELREKTGAGMMDCKKALEEANG-DIEKAIEWLREK 44 (296)
T ss_pred ccHHHHHHHHHHhCCcHHHHHHHHHHcCC-CHHHHHHHHHHh
Confidence 45566777764 47888899999999966 999999999763
No 100
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=54.70 E-value=6.7 Score=37.15 Aligned_cols=88 Identities=19% Similarity=0.213 Sum_probs=53.0
Q ss_pred eeecccCcccccchHHHHHHHH------HcccCCCCchh------hhhhhcccCCCCCCCCCcccccccccccccccccc
Q 020560 5 SLKCGDCGALLRSVQEAQEHAE------LTSHSNFSEST------EAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD 72 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae------~TgH~~F~E~~------e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd 72 (324)
..+|..||.......- .+.- ...-.+|.++- +......|..|++. ....-+..+.+.|+
T Consensus 133 ~~~c~~c~~~~~~~~~--~~~~~l~yp~~~~~~tf~~~Le~sl~~e~~~~a~C~~C~~~-------~~~~~~r~i~~LPp 203 (295)
T PF13423_consen 133 TIRCTSCGHESVKESS--TLVLDLPYPPSNSNVTFSQVLEHSLNREQQTRAWCEKCNKY-------QPTEQRRTIRSLPP 203 (295)
T ss_pred eecccccCCeEEeecc--eeeeeccCCCCCccchHHHHHHHHHhhcccccccccccccc-------cceeeeeeccCCCc
Confidence 4678888886522111 0000 01233555541 33444799999986 44555667899999
Q ss_pred chhhccccccccc--Cccc---cCCccccccCCC
Q 020560 73 KTSEAAKPISLEV--PKAT---ADSEEAIDVDMS 101 (324)
Q Consensus 73 ~L~v~~~r~~l~~--p~K~---~~~~~~lDl~~~ 101 (324)
+|+|++.+...+. +.+. +.+|..++++.+
T Consensus 204 VL~In~~~~~~~~~w~~~~~~~~~ip~~i~~~~~ 237 (295)
T PF13423_consen 204 VLSINLNRYSEEEFWPKKNWLKIWIPPSINLPHF 237 (295)
T ss_pred EEEEEccCCCcccccccccCCceecceeeecccc
Confidence 9999999888883 4444 334444555543
No 101
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=53.37 E-value=11 Score=25.07 Aligned_cols=16 Identities=31% Similarity=0.744 Sum_probs=11.5
Q ss_pred CCCceeecccCccccc
Q 020560 1 MAGVSLKCGDCGALLR 16 (324)
Q Consensus 1 ~~~~~L~C~~C~~v~~ 16 (324)
|--+..+|..||..+.
T Consensus 1 Mp~Y~y~C~~Cg~~fe 16 (41)
T smart00834 1 MPIYEYRCEDCGHTFE 16 (41)
T ss_pred CCCEEEEcCCCCCEEE
Confidence 3446778999998663
No 102
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=53.20 E-value=4.4 Score=30.51 Aligned_cols=30 Identities=23% Similarity=0.628 Sum_probs=20.9
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
..|+|..||+++.. +.|+.. ++-+||.|..
T Consensus 3 ~tiRC~~CnKlLa~-------------a~~~~y----le~KCPrCK~ 32 (60)
T COG4416 3 QTIRCAKCNKLLAE-------------AEGQAY----LEKKCPRCKE 32 (60)
T ss_pred eeeehHHHhHHHHh-------------ccccee----eeecCCccce
Confidence 36899999998743 223333 5679999984
No 103
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=53.02 E-value=2.7e+02 Score=30.86 Aligned_cols=37 Identities=16% Similarity=0.299 Sum_probs=25.3
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
...++....-+|||.....+|-...+. ...-++-|++
T Consensus 482 ~S~a~~iA~~~Glp~~ii~~A~~~~~~--~~~~~~~li~ 518 (771)
T TIGR01069 482 ESYAFEIAQRYGIPHFIIEQAKTFYGE--FKEEINVLIE 518 (771)
T ss_pred CcHHHHHHHHhCcCHHHHHHHHHHHHh--hHHHHHHHHH
Confidence 346788888899999999988766543 3334444444
No 104
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=52.92 E-value=7.4 Score=28.79 Aligned_cols=29 Identities=28% Similarity=0.764 Sum_probs=19.8
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
-++|..|++.+.-. |.+. .++.+||-||.
T Consensus 4 eiRC~~CnklLa~~----------g~~~-------~leIKCpRC~t 32 (51)
T PF10122_consen 4 EIRCGHCNKLLAKA----------GEVI-------ELEIKCPRCKT 32 (51)
T ss_pred ceeccchhHHHhhh----------cCcc-------EEEEECCCCCc
Confidence 47999999887321 2222 24579999997
No 105
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=52.89 E-value=6 Score=24.94 Aligned_cols=11 Identities=27% Similarity=0.857 Sum_probs=8.8
Q ss_pred hhhcccCCCCC
Q 020560 40 VLNLVCATCGK 50 (324)
Q Consensus 40 v~e~~C~~Cg~ 50 (324)
.+.|.||.||+
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 35699999994
No 106
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=52.62 E-value=2.9 Score=38.47 Aligned_cols=38 Identities=24% Similarity=0.566 Sum_probs=24.6
Q ss_pred eecccCcccccchHHHHHHHHHcc-cCCCCchhhhhhhcccCCCCCC
Q 020560 6 LKCGDCGALLRSVQEAQEHAELTS-HSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae~Tg-H~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
|.|.+||..+...- -.|- =-+|+++ .+.-|.|++||-+
T Consensus 1 ~~Cp~C~~~~~~~~------~~~~~IP~F~ev--ii~sf~C~~CGyr 39 (192)
T TIGR00310 1 IDCPSCGGECETVM------KTVNDIPYFGEV--LETSTICEHCGYR 39 (192)
T ss_pred CcCCCCCCCCEEEE------EEEcCCCCcceE--EEEEEECCCCCCc
Confidence 57999987542211 1233 4569997 2335999999976
No 107
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=52.57 E-value=10 Score=26.32 Aligned_cols=33 Identities=24% Similarity=0.556 Sum_probs=20.7
Q ss_pred CCceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 2 ~~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
.-+..+|..||..+. -...+++ .....||.||.
T Consensus 2 P~Yey~C~~Cg~~fe------------~~~~~~~----~~~~~CP~Cg~ 34 (42)
T PF09723_consen 2 PIYEYRCEECGHEFE------------VLQSISE----DDPVPCPECGS 34 (42)
T ss_pred CCEEEEeCCCCCEEE------------EEEEcCC----CCCCcCCCCCC
Confidence 345678999987663 2222333 23368999997
No 108
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=50.40 E-value=3e+02 Score=31.18 Aligned_cols=23 Identities=26% Similarity=0.396 Sum_probs=9.1
Q ss_pred HHHHHHHHHcHHHHHHHHHHHHH
Q 020560 233 KRILALRKAEKEEEKRAREKIRQ 255 (324)
Q Consensus 233 k~~~e~rkrEK~Ee~~ARerir~ 255 (324)
++..++|..+....+..++|-++
T Consensus 832 kr~~~eRe~e~~~ak~ekqr~re 854 (988)
T KOG2072|consen 832 KRTEEEREIENRVAKKEKQRQRE 854 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 33333333344333333444444
No 109
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=50.39 E-value=7.9 Score=32.70 Aligned_cols=12 Identities=42% Similarity=1.077 Sum_probs=8.7
Q ss_pred ceeecccCcccc
Q 020560 4 VSLKCGDCGALL 15 (324)
Q Consensus 4 ~~L~C~~C~~v~ 15 (324)
.+..|..||...
T Consensus 70 ~~~~C~~Cg~~~ 81 (117)
T PRK00564 70 VELECKDCSHVF 81 (117)
T ss_pred CEEEhhhCCCcc
Confidence 467899998543
No 110
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=49.92 E-value=3.2e+02 Score=28.41 Aligned_cols=8 Identities=0% Similarity=0.027 Sum_probs=3.6
Q ss_pred ccCCCCch
Q 020560 29 SHSNFSES 36 (324)
Q Consensus 29 gH~~F~E~ 36 (324)
|-+-|.+|
T Consensus 99 ginP~~gc 106 (429)
T PRK00247 99 GYNPLAGC 106 (429)
T ss_pred CCCchHHH
Confidence 44444443
No 111
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=48.83 E-value=3.9 Score=36.55 Aligned_cols=36 Identities=31% Similarity=0.621 Sum_probs=24.3
Q ss_pred ecccCcccccchHHHHHHHHHcccCCCCchhhhhh-hcccCCCCCC
Q 020560 7 KCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVL-NLVCATCGKP 51 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~-e~~C~~Cg~~ 51 (324)
-|.+||+.+. .+.-.|-=-+|.++ ++ -|.|++||-+
T Consensus 2 ~Cp~C~~~~~------~~~~~~~IP~F~ev---ii~sf~C~~CGyk 38 (160)
T smart00709 2 DCPSCGGNGT------TRMLLTSIPYFREV---IIMSFECEHCGYR 38 (160)
T ss_pred cCCCCCCCCE------EEEEEecCCCcceE---EEEEEECCCCCCc
Confidence 4999987642 22223445568887 44 5999999976
No 112
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=48.50 E-value=41 Score=30.77 Aligned_cols=39 Identities=21% Similarity=0.490 Sum_probs=29.6
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhC---CCCHHHHHHHHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSG---NANVEAAVNWVVE 152 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tg---n~~~E~A~~WL~~ 152 (324)
..+++..|.++||+...|.+|+...+ +.+++..+-|.+.
T Consensus 148 ~~e~~~aL~~LGy~~~~a~~ai~~~~~~~~~~~~~~ir~aLk 189 (194)
T PRK14605 148 NSDILATLTALGYSSSEAAKAISSLGDNGDLPLEERIKLALN 189 (194)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhccCCCCHHHHHHHHHH
Confidence 46789999999999999999998764 3356665555443
No 113
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=48.05 E-value=2.4e+02 Score=29.23 Aligned_cols=8 Identities=25% Similarity=0.547 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 020560 257 LEEDKAER 264 (324)
Q Consensus 257 Ie~Dk~eR 264 (324)
|++-|+.|
T Consensus 373 ~~~~~~~~ 380 (429)
T PRK00247 373 MARARARR 380 (429)
T ss_pred HHHHHHHH
Confidence 33334444
No 114
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=47.84 E-value=9 Score=40.93 Aligned_cols=52 Identities=8% Similarity=-0.005 Sum_probs=40.8
Q ss_pred hhhcccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCcccccc
Q 020560 40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDV 98 (324)
Q Consensus 40 v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r~~l~~----p~K~---~~~~~~lDl 98 (324)
..-|+|..|... ..|.++.+++..|.+|+++.+||+..- =+|+ ++.|..+.+
T Consensus 439 ~nky~c~~c~s~-------qeae~~l~~k~lp~~L~l~Lkrfk~~~~~~~~~kl~~~v~~plel~l 497 (587)
T KOG1864|consen 439 ENKYSCENCCSL-------QEAERRLKIKKLPYVLTLHLKRFKYSEQQNRYTKLLYRVVFPLELRL 497 (587)
T ss_pred CCcccccccCch-------hhHHHhccccCCcceeeeehhccccccccccccccccccccccceee
Confidence 345999999886 689999999999999999999999985 3444 444444444
No 115
>PF05907 DUF866: Eukaryotic protein of unknown function (DUF866); InterPro: IPR008584 This family consists of a number of hypothetical eukaryotic proteins of unknown function with an average length of around 165 residues.; PDB: 1ZSO_B.
Probab=47.58 E-value=3.7 Score=36.68 Aligned_cols=41 Identities=22% Similarity=0.541 Sum_probs=18.7
Q ss_pred CceeecccCccccc---chHHHHHH--HHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 3 GVSLKCGDCGALLR---SVQEAQEH--AELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 3 ~~~L~C~~C~~v~~---~~~eaq~h--ae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.|.|+|+.||.+-. .......| .-.+|.+|| -++|..|++.
T Consensus 28 ~fkvkCt~CgE~~~k~V~i~~~e~~e~~gsrG~aNf--------v~KCk~C~re 73 (161)
T PF05907_consen 28 FFKVKCTSCGEVHPKWVYINRFEKHEIPGSRGTANF--------VMKCKFCKRE 73 (161)
T ss_dssp EEEEEETTSS--EEEEEEE-TT-BEE-TTSS-EESE--------EE--SSSS--
T ss_pred EEEEEECCCCCccCcceEeecceEEecCCCccceEe--------EecCcCcCCc
Confidence 37899999998751 22222111 112344444 3799999875
No 116
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=46.40 E-value=7.6 Score=29.52 Aligned_cols=20 Identities=25% Similarity=0.449 Sum_probs=16.8
Q ss_pred HHHHhCCCCHHHHHHHHHHh
Q 020560 119 KELEAMGFPVARATRALHYS 138 (324)
Q Consensus 119 ~~L~~MGF~~~~a~kAL~~T 138 (324)
..|++|||++..|.+-++..
T Consensus 7 ~dLi~lGf~~~tA~~IIrqA 26 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQA 26 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 57999999999999877653
No 117
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=46.31 E-value=48 Score=30.27 Aligned_cols=32 Identities=19% Similarity=0.307 Sum_probs=25.5
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSGNANVEA 145 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~ 145 (324)
..++++.|+++||++..|.+|+..-.+.+++.
T Consensus 142 ~~ea~~AL~~LGy~~~ea~~a~~~~~~~~~ee 173 (183)
T PRK14601 142 KSEALAALLTLGFKQEKIIKVLASCQSTGTSE 173 (183)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHhcccCCHHH
Confidence 36889999999999999999998754434443
No 118
>PHA00733 hypothetical protein
Probab=45.34 E-value=16 Score=31.34 Aligned_cols=35 Identities=31% Similarity=0.582 Sum_probs=20.5
Q ss_pred eecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
..|..||+.+.....-..|.....| .|.|+.|++.
T Consensus 74 y~C~~Cgk~Fss~s~L~~H~r~h~~-----------~~~C~~CgK~ 108 (128)
T PHA00733 74 YVCPLCLMPFSSSVSLKQHIRYTEH-----------SKVCPVCGKE 108 (128)
T ss_pred ccCCCCCCcCCCHHHHHHHHhcCCc-----------CccCCCCCCc
Confidence 4577777776666666666552111 2577777764
No 119
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=45.15 E-value=13 Score=31.82 Aligned_cols=12 Identities=33% Similarity=0.827 Sum_probs=10.0
Q ss_pred hhhcccCCCCCC
Q 020560 40 VLNLVCATCGKP 51 (324)
Q Consensus 40 v~e~~C~~Cg~~ 51 (324)
..+|.||.||+.
T Consensus 84 ~~~~~CP~C~s~ 95 (115)
T COG0375 84 ELDYRCPKCGSI 95 (115)
T ss_pred hheeECCCCCCC
Confidence 677889999975
No 120
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=45.07 E-value=9.3 Score=33.17 Aligned_cols=44 Identities=20% Similarity=0.397 Sum_probs=26.1
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
+-.+|..||..+..+....-... -....|... ..=+.|+.||+-
T Consensus 90 ~~sRC~~CN~~L~~v~~~~v~~~-vp~~v~~~~---~~f~~C~~C~ki 133 (147)
T PF01927_consen 90 IFSRCPKCNGPLRPVSKEEVKDR-VPPYVYETY---DEFWRCPGCGKI 133 (147)
T ss_pred CCCccCCCCcEeeechhhccccc-cCccccccC---CeEEECCCCCCE
Confidence 34689999999976654322111 333344333 113899999974
No 121
>PF05672 MAP7: MAP7 (E-MAP-115) family; InterPro: IPR008604 The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115 kDa epithelial MAP (E-MAP-115) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin []. The binding of this microtubule associated protein is nucleotide independent [].
Probab=44.84 E-value=2.5e+02 Score=25.70 Aligned_cols=25 Identities=36% Similarity=0.353 Sum_probs=19.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhHHH
Q 020560 177 SLTPEEIKLKAQELRERARKKKEEE 201 (324)
Q Consensus 177 ~lT~EEk~~k~~el~~k~r~kr~ee 201 (324)
..++||+..-|.+.+..+|+.++.+
T Consensus 18 TtdaEEAtkiLAEkRRlAReQkErE 42 (171)
T PF05672_consen 18 TTDAEEATKILAEKRRLAREQKERE 42 (171)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhhhH
Confidence 4788999988999888887776544
No 122
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=44.57 E-value=4e+02 Score=28.75 Aligned_cols=16 Identities=25% Similarity=0.250 Sum_probs=10.8
Q ss_pred ccccccccccchhhcc
Q 020560 63 KRTGHTDFVDKTSEAA 78 (324)
Q Consensus 63 K~t~f~tFPd~L~v~~ 78 (324)
-...|-+|||...+++
T Consensus 19 d~epn~~fpdl~a~~a 34 (591)
T KOG2412|consen 19 DPEPNWNFPDLVAEIA 34 (591)
T ss_pred CCCCCCCchhHHHHhh
Confidence 3455667888877654
No 123
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=44.51 E-value=12 Score=33.93 Aligned_cols=40 Identities=30% Similarity=0.588 Sum_probs=21.4
Q ss_pred eeecccCcccccch--HHHHHHHHHcccC-CCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSV--QEAQEHAELTSHS-NFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~--~eaq~hae~TgH~-~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.-+|..||..+.-+ .++..-.... |+ +|.+- +.|+.||+.
T Consensus 97 ~~RCp~CN~~L~~vs~eev~~~Vp~~-~~~~~~~f------~~C~~Cgki 139 (165)
T COG1656 97 FSRCPECNGELEKVSREEVKEKVPEK-VYRNYEEF------YRCPKCGKI 139 (165)
T ss_pred cccCcccCCEeccCcHHHHhhccchh-hhhcccce------eECCCCccc
Confidence 35899999998333 2222211101 21 12222 679999974
No 124
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=44.19 E-value=16 Score=21.76 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=18.5
Q ss_pred eecccCcccccchHHHHHHHH
Q 020560 6 LKCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae 26 (324)
..|..|+..+.+...-+.|..
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 369999999999999999987
No 125
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=43.87 E-value=21 Score=20.24 Aligned_cols=20 Identities=35% Similarity=0.698 Sum_probs=15.0
Q ss_pred ecccCcccccchHHHHHHHH
Q 020560 7 KCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae 26 (324)
+|..|+.......+=+.|..
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHH
Confidence 68889998888888888876
No 126
>KOG3080 consensus Nucleolar protein-like/EBNA1-binding protein [RNA processing and modification]
Probab=43.85 E-value=1.5e+02 Score=29.46 Aligned_cols=55 Identities=29% Similarity=0.420 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 020560 187 AQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKA 241 (324)
Q Consensus 187 ~~el~~k~r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkr 241 (324)
.+..+.++-.+....++.++..+-++-++.||.+|.++-.....|-+..++..+.
T Consensus 182 MqKVr~~Li~eq~~ke~sE~ark~RelKKfgKqVQ~~~l~~Rq~EKk~~lekiKk 236 (328)
T KOG3080|consen 182 MQKVRQRLIKEQTAKERSEEARKQRELKKFGKQVQKAKLQERQREKKETLEKIKK 236 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444445555556667778899999888777666666666665543
No 127
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=43.75 E-value=31 Score=31.50 Aligned_cols=25 Identities=24% Similarity=0.405 Sum_probs=22.1
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 114 DKELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
..++++.|..+||++..+.+|+...
T Consensus 147 ~~e~~~aL~~LGy~~~e~~~ai~~~ 171 (191)
T TIGR00084 147 RDELFEALVSLGYKPQEIQQALKKI 171 (191)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4688999999999999999998765
No 128
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=43.62 E-value=18 Score=25.59 Aligned_cols=16 Identities=25% Similarity=0.615 Sum_probs=11.8
Q ss_pred CCCceeecccCccccc
Q 020560 1 MAGVSLKCGDCGALLR 16 (324)
Q Consensus 1 ~~~~~L~C~~C~~v~~ 16 (324)
|--+..+|..||..+.
T Consensus 1 MP~Yey~C~~Cg~~fe 16 (52)
T TIGR02605 1 MPIYEYRCTACGHRFE 16 (52)
T ss_pred CCCEEEEeCCCCCEeE
Confidence 3446789999998664
No 129
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=42.59 E-value=4.1e+02 Score=30.18 Aligned_cols=25 Identities=32% Similarity=0.266 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHcHHHH
Q 020560 222 EAKRIEEENERKRILALRKAEKEEE 246 (324)
Q Consensus 222 e~k~~~ee~e~k~~~e~rkrEK~Ee 246 (324)
.+-++.+|...++.-|.+.+++.++
T Consensus 802 ~~~re~EEEr~Rr~EEe~~ae~~ee 826 (988)
T KOG2072|consen 802 AYYREIEEERARREEEEANAERQEE 826 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555555555555
No 130
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=42.53 E-value=1e+02 Score=22.77 Aligned_cols=45 Identities=20% Similarity=0.345 Sum_probs=33.1
Q ss_pred cccCHHHHHHHH--hCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 020560 111 PEVDKELLKELE--AMGFPVARATRALHYSGNANVEAAVNWVVEHEND 156 (324)
Q Consensus 111 ~~vd~~~l~~L~--~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H~dD 156 (324)
+.|.++++.+.. =-|-|++...+-|..|+ -++..|+|-|++..|+
T Consensus 6 ~~vPedlI~q~q~VLqgksR~vIirELqrTn-LdVN~AvNNlLsRDde 52 (53)
T PF11547_consen 6 SQVPEDLINQAQVVLQGKSRNVIIRELQRTN-LDVNLAVNNLLSRDDE 52 (53)
T ss_dssp GGS-HHHHHHHHHHSTTS-HHHHHHHHHHTT-T-HHHHHHHHHHHH--
T ss_pred ccCCHHHHHHHHHHHcCCcHHHHHHHHHHhc-ccHHHHHHHHhccccC
Confidence 456777776654 47999999999999995 6999999999987654
No 131
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=42.38 E-value=3.8e+02 Score=30.40 Aligned_cols=9 Identities=67% Similarity=0.892 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q 020560 207 REREKERIR 215 (324)
Q Consensus 207 ~ekE~~Rrk 215 (324)
++.|.+|++
T Consensus 243 ~eeEEer~~ 251 (1064)
T KOG1144|consen 243 REEEEERRR 251 (1064)
T ss_pred HHHHHHHHH
Confidence 333444443
No 132
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=42.14 E-value=1.9e+02 Score=30.95 Aligned_cols=38 Identities=42% Similarity=0.501 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHH
Q 020560 221 LEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLE 258 (324)
Q Consensus 221 ~e~k~~~ee~e~k~~~e~rkrEK~Ee~~ARerir~qIe 258 (324)
+++.-++...|..|.+++-|.-|+|+..-|+=||+...
T Consensus 414 leae~e~kreearrkaeeer~~keee~arrefirqey~ 451 (708)
T KOG3654|consen 414 LEAEKEQKREEARRKAEEERAPKEEEVARREFIRQEYE 451 (708)
T ss_pred HHHHHHHHHHHHHHhhHhhhcchhhhhhHHHHHHHHHH
Confidence 34444455556666677777788888888888877653
No 133
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=41.76 E-value=3.1e+02 Score=28.98 Aligned_cols=14 Identities=29% Similarity=0.292 Sum_probs=7.9
Q ss_pred hCCCCHHHHH-HHHH
Q 020560 123 AMGFPVARAT-RALH 136 (324)
Q Consensus 123 ~MGF~~~~a~-kAL~ 136 (324)
..||+..-|. -|.+
T Consensus 95 aygY~~~~a~~lA~f 109 (489)
T PF05262_consen 95 AYGYSDEDAETLATF 109 (489)
T ss_pred hcCCChhhHHHHHHH
Confidence 5788775443 4443
No 134
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=41.25 E-value=14 Score=30.81 Aligned_cols=12 Identities=33% Similarity=0.919 Sum_probs=8.0
Q ss_pred ceeecccCcccc
Q 020560 4 VSLKCGDCGALL 15 (324)
Q Consensus 4 ~~L~C~~C~~v~ 15 (324)
.+.+|..||...
T Consensus 69 ~~~~C~~Cg~~~ 80 (113)
T PF01155_consen 69 ARARCRDCGHEF 80 (113)
T ss_dssp -EEEETTTS-EE
T ss_pred CcEECCCCCCEE
Confidence 467899998765
No 135
>PF05835 Synaphin: Synaphin protein; InterPro: IPR008849 This family consists of several eukaryotic synaphin 1 and 2 proteins. Synaphin/complexin is a cytosolic protein that preferentially binds to syntaxin within the SNARE complex. Synaphin promotes SNAREs to form precomplexes that oligomerise into higher order structures. A peptide from the central, syntaxin binding domain of synaphin competitively inhibits these two proteins from interacting and prevents SNARE complexes from oligomerising. It is thought that oligomerisation of SNARE complexes into a higher order structure creates a SNARE scaffold for efficient, regulated fusion of synaptic vesicles []. Synaphin promotes neuronal exocytosis by promoting interaction between the complementary syntaxin and synaptobrevin transmembrane regions that reside in opposing membranes prior to fusion [].; GO: 0019905 syntaxin binding, 0006836 neurotransmitter transport; PDB: 3RL0_m 3RK3_E 1L4A_E 1KIL_E.
Probab=41.13 E-value=61 Score=28.57 Aligned_cols=19 Identities=42% Similarity=0.735 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCC
Q 020560 248 RAREKIRQKLEEDKAERRRRLGLPPE 273 (324)
Q Consensus 248 ~ARerir~qIe~Dk~eR~~k~~~~~~ 273 (324)
+.|+++|++| |.||+++.-
T Consensus 59 aERe~mRq~I-------RdKY~l~k~ 77 (139)
T PF05835_consen 59 AEREKMRQHI-------RDKYGLKKK 77 (139)
T ss_dssp HHHHHHHHHH-------HHHHT----
T ss_pred HHHHHHHHHH-------Hhhcccccc
Confidence 4578888888 456776654
No 136
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=41.01 E-value=49 Score=30.05 Aligned_cols=26 Identities=23% Similarity=0.317 Sum_probs=23.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCC
Q 020560 115 KELLKELEAMGFPVARATRALHYSGN 140 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~Tgn 140 (324)
.+++..|..+||+...|.+++...+.
T Consensus 150 ~ev~~aL~~LG~~~~~a~~~~~~~~~ 175 (192)
T PRK00116 150 EEAVSALVALGYKPKEASKAVAKILK 175 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence 68999999999999999999988764
No 137
>PF04615 Utp14: Utp14 protein; InterPro: IPR006709 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. This entry contains Utp14, a large ribonuclear protein associated with snoRNA U3 [].; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=40.72 E-value=1.8e+02 Score=31.78 Aligned_cols=25 Identities=20% Similarity=0.392 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC
Q 020560 246 EKRAREKIRQKLEEDKAERRRRLGL 270 (324)
Q Consensus 246 e~~ARerir~qIe~Dk~eR~~k~~~ 270 (324)
+.-+|+-|-+|+...+.-|+.-.+.
T Consensus 300 d~~~R~al~eql~~~~eL~~Ki~~~ 324 (735)
T PF04615_consen 300 DEEARQALQEQLRRGEELTRKIEGE 324 (735)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4457777888888888777666554
No 138
>KOG3634 consensus Troponin [Cytoskeleton]
Probab=40.59 E-value=1.5e+02 Score=29.94 Aligned_cols=12 Identities=33% Similarity=0.457 Sum_probs=4.4
Q ss_pred HHHHHHHcHHHH
Q 020560 235 ILALRKAEKEEE 246 (324)
Q Consensus 235 ~~e~rkrEK~Ee 246 (324)
..+.||++.+++
T Consensus 130 ~~e~RR~~~aee 141 (361)
T KOG3634|consen 130 RIEERRREEAEE 141 (361)
T ss_pred hHHhhhhchHHH
Confidence 333333333333
No 139
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.54 E-value=68 Score=29.32 Aligned_cols=24 Identities=29% Similarity=0.501 Sum_probs=21.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
.++++.|+++||++..|.+|+...
T Consensus 144 ~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 144 HESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 678999999999999999999865
No 140
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.46 E-value=67 Score=29.32 Aligned_cols=37 Identities=16% Similarity=0.288 Sum_probs=27.5
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHhC-CCCHHHHHHHH
Q 020560 114 DKELLKELEAMGFPVARATRALHYSG-NANVEAAVNWV 150 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~Tg-n~~~E~A~~WL 150 (324)
..+++..|+++||++..|.+||..-. +.+++..+-+.
T Consensus 145 ~~e~~~aL~~LGy~~~ea~~al~~v~~~~~~eelir~a 182 (186)
T PRK14600 145 NDDALAALISLGYEKTKAFNAIQKIKPNLSTQDIIRKA 182 (186)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhhcCCCHHHHHHHH
Confidence 36789999999999999999997653 23555544443
No 141
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=39.89 E-value=70 Score=29.51 Aligned_cols=25 Identities=20% Similarity=0.267 Sum_probs=22.1
Q ss_pred CHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 114 DKELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 114 d~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
..+++..|+++||++..|.+||...
T Consensus 155 ~~ea~~AL~~LGy~~~ea~~av~~~ 179 (203)
T PRK14602 155 FRDALAGLANLGYGEEEARPVLKEV 179 (203)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3678999999999999999999765
No 142
>KOG0435 consensus Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=39.80 E-value=22 Score=39.01 Aligned_cols=77 Identities=23% Similarity=0.439 Sum_probs=43.6
Q ss_pred eeecccCcccccchHH-HHHHHH---HcccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccccccchhhcccc
Q 020560 5 SLKCGDCGALLRSVQE-AQEHAE---LTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKP 80 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~e-aq~hae---~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~r 80 (324)
-++|.+||.|-....+ +-.+-+ -|+.-+=-...+.-++..||.||++. -.-+.-..||.|.-.-..|=
T Consensus 436 ivhc~~cG~vpVpes~LPV~LP~l~~~~~kG~Pls~~~e~vn~~cP~cg~pA--------kRETDTMDTFvDSsWYYlRy 507 (876)
T KOG0435|consen 436 IVHCDDCGAVPVPESELPVTLPELNDFTPKGPPLSKADEWVNVDCPRCGEPA--------KRETDTMDTFVDSSWYYLRY 507 (876)
T ss_pred eEEcCCCCcccCcHHHCCcccccccccCCCCCcccchhhheeccCccCCCcc--------cccccccchhhccceeeEee
Confidence 4789999988755544 222222 12211111124777889999999872 11233367888877766653
Q ss_pred cccccCccc
Q 020560 81 ISLEVPKAT 89 (324)
Q Consensus 81 ~~l~~p~K~ 89 (324)
.+--||-.+
T Consensus 508 lDpkN~e~~ 516 (876)
T KOG0435|consen 508 LDPKNPEEP 516 (876)
T ss_pred cCCCCcccc
Confidence 333454444
No 143
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=39.61 E-value=20 Score=28.45 Aligned_cols=17 Identities=24% Similarity=0.546 Sum_probs=14.7
Q ss_pred CCHHHHHHHHHHhcCCC
Q 020560 141 ANVEAAVNWVVEHENDP 157 (324)
Q Consensus 141 ~~~E~A~~WL~~H~dD~ 157 (324)
..++.||+||-+||++-
T Consensus 59 ~tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 59 PTLDLAIAWIGEHMPHI 75 (79)
T ss_pred ccHHHHHHHHHhcccch
Confidence 36999999999999873
No 144
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=39.55 E-value=13 Score=35.27 Aligned_cols=50 Identities=12% Similarity=0.366 Sum_probs=29.1
Q ss_pred CCceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 2 ~~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
.-|.++|..||.-..-..---.--+..|..++-...=.-.-..|+.|+.+
T Consensus 39 TPF~~RCL~C~~YI~K~~rfNavkE~~~dK~y~~~kiYRf~I~C~~C~n~ 88 (272)
T COG5134 39 TPFPVRCLNCENYIQKGTRFNAVKEEIGDKSYYTTKIYRFSIKCHLCSNP 88 (272)
T ss_pred cCcceeecchhhhhhcccchhHHHHHhcccccceeEEEEEEEEccCCCCc
Confidence 46899999999876443322222233344455443222233579999975
No 145
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=38.31 E-value=13 Score=36.28 Aligned_cols=57 Identities=21% Similarity=0.417 Sum_probs=41.6
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCCCCcccccccccccc
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTG 66 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~ 66 (324)
-+-+|..||+.......= +-|..|.=+.+...-+.|+.||+...|..+...|+.+..
T Consensus 129 ~r~~c~eCgk~ysT~snL------srHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~ 185 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNL------SRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT 185 (279)
T ss_pred Cceecccccccccccccc------chhhcccccccccccccCCCCCceeeehHHHhhHhhccC
Confidence 467899999998654332 346667776666778999999998777777776665543
No 146
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=38.10 E-value=9.7 Score=32.56 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=16.8
Q ss_pred hhhhhcccCCCCCCCCCcccccccccccc
Q 020560 38 EAVLNLVCATCGKPCRSKTETDLHRKRTG 66 (324)
Q Consensus 38 e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~ 66 (324)
..+++-+||.||-. ++.-|+-+++
T Consensus 70 ga~I~~kCpkCghe-----~m~Y~T~QlR 93 (116)
T KOG2907|consen 70 GAVIKHKCPKCGHE-----EMSYHTLQLR 93 (116)
T ss_pred ccchhccCcccCCc-----hhhhhhhhcc
Confidence 57889999999965 4555554444
No 147
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=38.10 E-value=19 Score=30.73 Aligned_cols=9 Identities=33% Similarity=1.147 Sum_probs=7.5
Q ss_pred cccCCCCCC
Q 020560 43 LVCATCGKP 51 (324)
Q Consensus 43 ~~C~~Cg~~ 51 (324)
+.||.||+.
T Consensus 93 ~~CP~Cgs~ 101 (124)
T PRK00762 93 IECPVCGNK 101 (124)
T ss_pred CcCcCCCCC
Confidence 579999975
No 148
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=36.78 E-value=19 Score=26.44 Aligned_cols=30 Identities=27% Similarity=0.657 Sum_probs=19.6
Q ss_pred CceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 3 ~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
-+.-+|..||..+ +.........||.||..
T Consensus 4 ~~~Y~C~~Cg~~~-------------------~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 4 MMEYKCARCGREV-------------------ELDQETRGIRCPYCGSR 33 (49)
T ss_pred eEEEEhhhcCCee-------------------ehhhccCceeCCCCCcE
Confidence 3456888898765 11223345799999975
No 149
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=36.68 E-value=26 Score=23.84 Aligned_cols=30 Identities=30% Similarity=0.727 Sum_probs=21.3
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
|..|..||.+ =|..|... ..+-+|+.||..
T Consensus 1 Rr~C~~Cg~~--------------Yh~~~~pP---~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 1 RRICPKCGRI--------------YHIEFNPP---KVEGVCDNCGGE 30 (36)
T ss_dssp EEEETTTTEE--------------EETTTB-----SSTTBCTTTTEB
T ss_pred CcCcCCCCCc--------------cccccCCC---CCCCccCCCCCe
Confidence 4678888875 47888876 566789999863
No 150
>COG4008 Predicted metal-binding transcription factor [Transcription]
Probab=36.48 E-value=1e+02 Score=27.23 Aligned_cols=40 Identities=20% Similarity=0.156 Sum_probs=35.0
Q ss_pred cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 020560 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152 (324)
Q Consensus 111 ~~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~ 152 (324)
.+++.+.+..|.+-|.+++.|++||..+| ++-.||.-|..
T Consensus 111 s~~~~e~v~v~a~a~v~~eeAr~aleeag--Dl~~A~k~l~~ 150 (153)
T COG4008 111 SEPPVEEVEVLADAFVTPEEAREALEEAG--DLRTAMKILRM 150 (153)
T ss_pred CCCcHHHHHHHHHhcCCHHHHHHHHHHcC--CHHHHHHHHHH
Confidence 45677889999999999999999999998 79999987754
No 151
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.31 E-value=29 Score=31.70 Aligned_cols=11 Identities=36% Similarity=1.117 Sum_probs=9.1
Q ss_pred hhcccCCCCCC
Q 020560 41 LNLVCATCGKP 51 (324)
Q Consensus 41 ~e~~C~~Cg~~ 51 (324)
.+|+||.||..
T Consensus 131 ~~F~Cp~Cg~~ 141 (176)
T COG1675 131 LGFTCPKCGED 141 (176)
T ss_pred hCCCCCCCCch
Confidence 34999999986
No 152
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=36.27 E-value=82 Score=28.97 Aligned_cols=24 Identities=21% Similarity=0.272 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
.+++..|+.+||++..|.+||...
T Consensus 153 ~ea~~AL~~LGy~~~ea~~al~~i 176 (197)
T PRK14603 153 EDAVLALLALGFREAQVRSVVAEL 176 (197)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999999764
No 153
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=36.12 E-value=3.1e+02 Score=24.27 Aligned_cols=20 Identities=10% Similarity=0.235 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 020560 245 EEKRAREKIRQKLEEDKAER 264 (324)
Q Consensus 245 Ee~~ARerir~qIe~Dk~eR 264 (324)
|...+...++++|-.+=-+.
T Consensus 130 Ek~~a~~elk~eii~~~~~~ 149 (167)
T PRK08475 130 EVRKMEREVVEEVLNELFES 149 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 44455666666666555444
No 154
>PRK05978 hypothetical protein; Provisional
Probab=35.89 E-value=20 Score=31.87 Aligned_cols=48 Identities=23% Similarity=0.348 Sum_probs=27.4
Q ss_pred CceeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCCCCccccccccccccccccccchhhcc
Q 020560 3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAA 78 (324)
Q Consensus 3 ~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~ 78 (324)
|++.+|-.||.-. - |... ..+.-.|+.||-.+ ..-+.. .+|-|+++.+
T Consensus 31 Gl~grCP~CG~G~---------------L-F~g~--Lkv~~~C~~CG~~~--------~~~~a~--DgpAy~~i~i 78 (148)
T PRK05978 31 GFRGRCPACGEGK---------------L-FRAF--LKPVDHCAACGEDF--------THHRAD--DLPAYLVIVI 78 (148)
T ss_pred HHcCcCCCCCCCc---------------c-cccc--cccCCCccccCCcc--------ccCCcc--ccCcchhHHH
Confidence 6788999998533 2 2222 12345899999751 111222 4777777654
No 155
>KOG0608 consensus Warts/lats-like serine threonine kinases [Cell cycle control, cell division, chromosome partitioning]
Probab=35.59 E-value=23 Score=39.00 Aligned_cols=42 Identities=21% Similarity=0.268 Sum_probs=39.0
Q ss_pred cccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH
Q 020560 109 VEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWV 150 (324)
Q Consensus 109 ~~~~vd~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL 150 (324)
...++|..++.-|+.-||.+.-+..||..+++.++++|+.+|
T Consensus 84 a~s~sn~qmlq~lv~ag~d~~~a~~al~~pns~sie~sie~~ 125 (1034)
T KOG0608|consen 84 AGSESNSQMLQGLVGAGNDRHMALGALATPNSRSIEASIETI 125 (1034)
T ss_pred cccccchhhhHhhhhccccchhhhhhhcCCCccccchhhhcc
Confidence 345789999999999999999999999999999999999998
No 156
>PF02029 Caldesmon: Caldesmon; InterPro: IPR006018 This group of proteins includes two protein families: caldesmon and lymphocyte specific protein. Caldesmon (CDM) is an actin- and myosin-binding protein implicated in the regulation of actomyosin interactions in smooth muscle and non-muscle cells, possibly acting as a bridge between myosin and actin filaments []. CDM is believed to be an elongated molecule, with an N-terminal myosin/calmodulin- binding domain and a C-terminal tropomyosin/actin/calmodulin-binding domain, separated by a 40nm-long central helix []. A high-molecular-weight form of CDM is predominantly expressed in smooth muscles, while a low-molecular-weight form is widely distributed in non- muscle tissues and cells (the protein is not expressed in skeletal muscle or heart).
Probab=35.56 E-value=3.4e+02 Score=28.72 Aligned_cols=52 Identities=21% Similarity=0.414 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcC-CCCCCCcCCCCCCCchhhhhc---ccCCCCCccHHHHHHHHH
Q 020560 248 RAREKIRQKLEEDKAERRRRLG-LPPEDPATTKSSAPVVEEKKS---MLPIRPATKVEQMRECLR 308 (324)
Q Consensus 248 ~ARerir~qIe~Dk~eR~~k~~-~~~~~~~~~~~~~~~~~~~~~---~~~~~p~~~~e~~r~~l~ 308 (324)
..+.+.++.|+.-+++.+.+-. +|..-. .+.++. +.|..|-.|+.+=.++|+
T Consensus 311 EEkRr~kEeierrraeaAEKRqk~~e~~~---------se~~~~f~~~~p~~~s~ki~er~e~ln 366 (492)
T PF02029_consen 311 EEKRREKEEIERRRAEAAEKRQKMPEDGS---------SEDKKPFKCFSPKGSSLKIGERAEFLN 366 (492)
T ss_pred hhhhhhhHHHHHhhhhhhHhhhhccccCc---------ccccccccccCCCccceeehhhhhhhh
Confidence 3456777777776665555443 333211 122333 334444556666677774
No 157
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=35.36 E-value=1e+02 Score=28.33 Aligned_cols=24 Identities=29% Similarity=0.409 Sum_probs=21.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
.+++..|+.+||++..|.+|+..-
T Consensus 150 ~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 150 RELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999998754
No 158
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=35.33 E-value=48 Score=28.70 Aligned_cols=38 Identities=21% Similarity=0.328 Sum_probs=30.2
Q ss_pred ccCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHH
Q 020560 112 EVDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWV 150 (324)
Q Consensus 112 ~vd~~~l~~L~~-MGF~~~~a~kAL~~Tgn~~~E~A~~WL 150 (324)
.++++-+...++ -|-|++.|.+||..+|+ ++-.|+--|
T Consensus 82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~G-DlaeAIm~L 120 (122)
T COG1308 82 DISEEDIKLVMEQAGVSREEAIKALEEAGG-DLAEAIMKL 120 (122)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHHHHHHcCC-cHHHHHHHh
Confidence 477777776664 69999999999999987 777777554
No 159
>PF05890 Ebp2: Eukaryotic rRNA processing protein EBP2; InterPro: IPR008610 This family consists of several eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis [].
Probab=34.88 E-value=2.8e+02 Score=26.91 Aligned_cols=53 Identities=25% Similarity=0.369 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 020560 188 QELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240 (324)
Q Consensus 188 ~el~~k~r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rk 240 (324)
+.++.++-......+..+.+.+-++-.+-||.+|..+-..+..+.+..++..+
T Consensus 121 ~KVr~kLl~~~~~ie~~E~~rk~Re~KKfgKqvQ~ek~~eR~keKk~~le~Ik 173 (271)
T PF05890_consen 121 EKVRQKLLKEQKRIEASEEARKQRELKKFGKQVQVEKLQERAKEKKEMLEKIK 173 (271)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444555555666777889999987776666555555555443
No 160
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=34.46 E-value=3.7e+02 Score=24.70 Aligned_cols=11 Identities=9% Similarity=0.305 Sum_probs=4.6
Q ss_pred HHHHHHHHHHH
Q 020560 248 RAREKIRQKLE 258 (324)
Q Consensus 248 ~ARerir~qIe 258 (324)
.++..++.+|.
T Consensus 159 ~a~~~Lk~ei~ 169 (205)
T PRK06231 159 ELKEQLQKESV 169 (205)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 161
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=34.28 E-value=26 Score=24.85 Aligned_cols=18 Identities=39% Similarity=0.621 Sum_probs=13.3
Q ss_pred hcccCCCCCCCCCcccccccccccc
Q 020560 42 NLVCATCGKPCRSKTETDLHRKRTG 66 (324)
Q Consensus 42 e~~C~~Cg~~~~~~~e~~~a~K~t~ 66 (324)
..+||.||.. .++.++|.
T Consensus 19 ~irC~~CG~r-------IlyK~R~~ 36 (44)
T smart00659 19 VVRCRECGYR-------ILYKKRTK 36 (44)
T ss_pred ceECCCCCce-------EEEEeCCC
Confidence 3699999986 66666654
No 162
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=34.21 E-value=17 Score=28.78 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=20.6
Q ss_pred cccCCCCCCCCCccccccccccccccccccchhhccc
Q 020560 43 LVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAK 79 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~L~v~~~ 79 (324)
-.|+.||++ .. .+.|.-||+-.++|..
T Consensus 79 ~~C~vC~k~--------l~--~~~f~~~p~~~v~H~~ 105 (109)
T PF10367_consen 79 TKCSVCGKP--------LG--NSVFVVFPCGHVVHYS 105 (109)
T ss_pred CCccCcCCc--------CC--CceEEEeCCCeEEecc
Confidence 579999997 22 2679999998877753
No 163
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=33.90 E-value=22 Score=26.78 Aligned_cols=26 Identities=23% Similarity=0.378 Sum_probs=17.2
Q ss_pred cccCCCCCCCCCccccccccccccccccccc
Q 020560 43 LVCATCGKPCRSKTETDLHRKRTGHTDFVDK 73 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a~K~t~f~tFPd~ 73 (324)
+.||.||.+- .......|.++.||=|
T Consensus 5 i~CP~CgnKT-----R~kir~DT~LkNfPly 30 (55)
T PF14205_consen 5 ILCPICGNKT-----RLKIREDTVLKNFPLY 30 (55)
T ss_pred EECCCCCCcc-----ceeeecCceecccccc
Confidence 5799999651 2345566777777744
No 164
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=33.84 E-value=22 Score=27.85 Aligned_cols=27 Identities=22% Similarity=0.262 Sum_probs=21.3
Q ss_pred CHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 020560 127 PVARATRALHYSGNANVEAAVNWVVEHE 154 (324)
Q Consensus 127 ~~~~a~kAL~~Tgn~~~E~A~~WL~~H~ 154 (324)
|....+.||++... +++.|++||++..
T Consensus 45 ~e~~i~eal~~~~f-DvekAl~~Ll~~~ 71 (79)
T PF08938_consen 45 PEEQIKEALWHYYF-DVEKALDYLLSKF 71 (79)
T ss_dssp -CCHHHHHHHHTTT--CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHHcC-CHHHHHHHHHHhc
Confidence 77888899988875 9999999998854
No 165
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=33.71 E-value=19 Score=24.78 Aligned_cols=40 Identities=10% Similarity=0.076 Sum_probs=20.2
Q ss_pred cccCCCCCCCCCc-cccccccccccccccccchhhcccccc
Q 020560 43 LVCATCGKPCRSK-TETDLHRKRTGHTDFVDKTSEAAKPIS 82 (324)
Q Consensus 43 ~~C~~Cg~~~~~~-~e~~~a~K~t~f~tFPd~L~v~~~r~~ 82 (324)
..||.||....-. --...-.....+-.+|=+|.+..+||.
T Consensus 3 ~~Cp~Cg~~~~~~~g~~~r~i~~l~~~~~~~~L~i~~~R~~ 43 (47)
T PF14690_consen 3 PRCPHCGSPSVHRHGYKTRRIRHLPIGGRPVYLRIRKRRYR 43 (47)
T ss_pred ccCCCcCCCceECCceEEEEEeecccCCEEEEEEEEeEEEE
Confidence 4799999762000 001112223345556666666666653
No 166
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=32.50 E-value=11 Score=38.83 Aligned_cols=19 Identities=37% Similarity=0.707 Sum_probs=14.1
Q ss_pred cccCCCCCCCCCccccccc
Q 020560 43 LVCATCGKPCRSKTETDLH 61 (324)
Q Consensus 43 ~~C~~Cg~~~~~~~e~~~a 61 (324)
|.|..||++||-++=...|
T Consensus 357 ~~C~~C~KkFrRqAYLrKH 375 (500)
T KOG3993|consen 357 FSCHTCGKKFRRQAYLRKH 375 (500)
T ss_pred eecHHhhhhhHHHHHHHHh
Confidence 9999999998766543333
No 167
>PF06107 DUF951: Bacterial protein of unknown function (DUF951); InterPro: IPR009296 This family consists of several short hypothetical bacterial proteins of unknown function.
Probab=32.05 E-value=24 Score=26.71 Aligned_cols=14 Identities=36% Similarity=0.895 Sum_probs=11.8
Q ss_pred CCceeecccCcccc
Q 020560 2 AGVSLKCGDCGALL 15 (324)
Q Consensus 2 ~~~~L~C~~C~~v~ 15 (324)
+.|+|+|..||.+.
T Consensus 28 aDikikC~gCg~~i 41 (57)
T PF06107_consen 28 ADIKIKCLGCGRQI 41 (57)
T ss_pred CcEEEEECCCCCEE
Confidence 47899999999865
No 168
>PLN03086 PRLI-interacting factor K; Provisional
Probab=31.57 E-value=3.7e+02 Score=28.94 Aligned_cols=11 Identities=18% Similarity=0.416 Sum_probs=5.3
Q ss_pred HHHHHHHHHHH
Q 020560 253 IRQKLEEDKAE 263 (324)
Q Consensus 253 ir~qIe~Dk~e 263 (324)
|.+|+++|..-
T Consensus 56 ~~~~~~~~~~~ 66 (567)
T PLN03086 56 IEAQIKADQQM 66 (567)
T ss_pred HHHHHHHHHHH
Confidence 44555555433
No 169
>PF07767 Nop53: Nop53 (60S ribosomal biogenesis); InterPro: IPR011687 This entry contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60) []. This protein has been found to interact with herpes simplex type 1 regulatory proteins, but its exact role in the life cycle of the virus is not known [].
Probab=31.56 E-value=5.1e+02 Score=25.89 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=11.6
Q ss_pred CccHHHHHHHHHHHHh
Q 020560 297 ATKVEQMRECLRSLKQ 312 (324)
Q Consensus 297 ~~~~e~~r~~l~~lk~ 312 (324)
|.-+++|-.-||.||-
T Consensus 359 V~L~dEL~gSLR~Lkp 374 (387)
T PF07767_consen 359 VQLSDELSGSLRTLKP 374 (387)
T ss_pred ccChhhhhhhHhhcCC
Confidence 3347888888888864
No 170
>KOG4031 consensus Vesicle coat protein clathrin, light chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.35 E-value=4.6e+02 Score=24.86 Aligned_cols=15 Identities=47% Similarity=0.561 Sum_probs=13.0
Q ss_pred cHHHHHHHHHHHHhh
Q 020560 299 KVEQMRECLRSLKQN 313 (324)
Q Consensus 299 ~~e~~r~~l~~lk~~ 313 (324)
..+.||.+|-+||++
T Consensus 198 D~SRlrslL~~LK~a 212 (216)
T KOG4031|consen 198 DVSRLRSLLISLKQA 212 (216)
T ss_pred cHHHHHHHHHHhhhC
Confidence 368999999999984
No 171
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=31.24 E-value=3.9e+02 Score=28.70 Aligned_cols=46 Identities=17% Similarity=0.306 Sum_probs=24.7
Q ss_pred HHHHHHHHhCCCCHHH----------HHHHHHHhCCCCHHHHHHHHHHhcCCCCCC
Q 020560 115 KELLKELEAMGFPVAR----------ATRALHYSGNANVEAAVNWVVEHENDPDID 160 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~----------a~kAL~~Tgn~~~E~A~~WL~~H~dD~did 160 (324)
++.++.|.+-|.+-|- ---+|++.-..+.-..+-+++++.-||.+-
T Consensus 404 p~~ie~lken~lsgnf~~~pe~~~~ltsT~LH~aa~qg~~k~v~~~Leeg~Dp~~k 459 (591)
T KOG2505|consen 404 PDSIEALKENLLSGNFDVTPEANDYLTSTFLHYAAAQGARKCVKYFLEEGCDPSTK 459 (591)
T ss_pred hhHHHHHHhcCCcccccccccccccccchHHHHHHhcchHHHHHHHHHhcCCchhc
Confidence 5667777766655421 113455543334444555666666777653
No 172
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=31.08 E-value=54 Score=23.54 Aligned_cols=38 Identities=39% Similarity=0.667 Sum_probs=29.4
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
...|..||. ..+..+=..|.. +-|.+ +. ..+.||.|..
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~-~~H~~--~~----~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCE-DEHRS--ES----KNVVCPICSS 39 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHH-hHCcC--CC----CCccCCCchh
Confidence 357999999 788888999998 67765 11 2479999975
No 173
>PLN03086 PRLI-interacting factor K; Provisional
Probab=30.98 E-value=2.6e+02 Score=30.13 Aligned_cols=18 Identities=22% Similarity=0.228 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 020560 244 EEEKRAREKIRQKLEEDK 261 (324)
Q Consensus 244 ~Ee~~ARerir~qIe~Dk 261 (324)
.+...|..+..++.++-+
T Consensus 53 ~~~~~~~~~~~~~~~~~~ 70 (567)
T PLN03086 53 LDAIEAQIKADQQMQESL 70 (567)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444555554443
No 174
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=30.37 E-value=25 Score=36.59 Aligned_cols=31 Identities=29% Similarity=0.257 Sum_probs=25.2
Q ss_pred eecccCcccc---cchHHHHHHHHHcccCCCCch
Q 020560 6 LKCGDCGALL---RSVQEAQEHAELTSHSNFSES 36 (324)
Q Consensus 6 L~C~~C~~v~---~~~~eaq~hae~TgH~~F~E~ 36 (324)
..|..||.|+ +-..-|+.|=+.|||.+-=+-
T Consensus 241 wicliCg~vgcgrY~eghA~rHweet~H~yalel 274 (493)
T KOG0804|consen 241 WICLICGNVGCGRYKEGHARRHWEETGHCYALEL 274 (493)
T ss_pred EEEEEccceecccccchhHHHHHHhhcceEEEee
Confidence 4688888888 556779999999999987664
No 175
>KOG2703 consensus C4-type Zn-finger protein [General function prediction only]
Probab=30.30 E-value=20 Score=36.87 Aligned_cols=27 Identities=33% Similarity=0.876 Sum_probs=0.0
Q ss_pred cccCcccccchHHHHHHHHHccc--------CCCCchhhhhhh-cccCCCCCC
Q 020560 8 CGDCGALLRSVQEAQEHAELTSH--------SNFSESTEAVLN-LVCATCGKP 51 (324)
Q Consensus 8 C~~C~~v~~~~~eaq~hae~TgH--------~~F~E~~e~v~e-~~C~~Cg~~ 51 (324)
|.+||| +|- -+|-|. |+- |.||+||.+
T Consensus 42 Cm~Cg~--------------nG~TRlllT~IP~fREv---VimSF~CpHCG~k 77 (460)
T KOG2703|consen 42 CMNCGE--------------NGTTRLLLTSIPYFREV---VIMSFECPHCGHK 77 (460)
T ss_pred hhhccc--------------CCceeEEEeecchhhee---eeEEeecCccCCc
No 176
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=29.82 E-value=31 Score=29.99 Aligned_cols=17 Identities=24% Similarity=0.640 Sum_probs=12.3
Q ss_pred ccCCCCchhhhhhhcccCCCCCC
Q 020560 29 SHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 29 gH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
||.+|=.. -.|+.||++
T Consensus 36 G~v~~PPr------~~Cp~C~~~ 52 (140)
T COG1545 36 GRVYFPPR------AYCPKCGSE 52 (140)
T ss_pred CeEEcCCc------ccCCCCCCC
Confidence 56667655 479999986
No 177
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.80 E-value=8.5 Score=34.61 Aligned_cols=39 Identities=26% Similarity=0.525 Sum_probs=21.5
Q ss_pred eecccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCCC
Q 020560 6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC 52 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~~ 52 (324)
..|..|+....|. -|.+ |-..|+. ....-.+|..||+++
T Consensus 40 ~~Cp~C~~~IrG~----y~v~--gv~~~g~--~~~~PsYC~~CGkpy 78 (158)
T PF10083_consen 40 TSCPNCSTPIRGD----YHVE--GVFGLGG--HYEAPSYCHNCGKPY 78 (158)
T ss_pred HHCcCCCCCCCCc----eecC--CeeeeCC--CCCCChhHHhCCCCC
Confidence 3566677666554 2332 3333422 223557888888874
No 178
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=29.73 E-value=37 Score=28.81 Aligned_cols=45 Identities=16% Similarity=0.445 Sum_probs=28.1
Q ss_pred eeecccCcccc--------------cchHHHHHHHHHcccCCCCchhhhhhhcccCCCC
Q 020560 5 SLKCGDCGALL--------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCG 49 (324)
Q Consensus 5 ~L~C~~C~~v~--------------~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg 49 (324)
.++|.+||+.. .+...+.++.++.--..|.=..=.+.-++|-+|-
T Consensus 20 ~V~C~nCgr~vPKDKAIkrf~irniVe~aa~rDl~~a~v~~~y~lPKly~k~~YCVSCA 78 (108)
T PTZ00172 20 PVRCSNCGRCVPKDKAIKRFVVRNIVDAASVRDIAEASVYYGYPLPKLYMKQQYCVSCA 78 (108)
T ss_pred cEEeCCccccccccceEEEEeccCCccHHHHHHHHHhhchhccccccceeeeEEeeehh
Confidence 58999999986 4455566666644433332222334457999995
No 179
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=29.52 E-value=4.1e+02 Score=23.66 Aligned_cols=9 Identities=11% Similarity=0.482 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 020560 249 AREKIRQKL 257 (324)
Q Consensus 249 ARerir~qI 257 (324)
|..-||.++
T Consensus 116 Al~elr~ev 124 (154)
T PRK06568 116 ASKELQDEF 124 (154)
T ss_pred HHHHHHHHH
Confidence 333344443
No 180
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=29.38 E-value=6.2e+02 Score=26.82 Aligned_cols=8 Identities=13% Similarity=-0.433 Sum_probs=3.8
Q ss_pred ccchhhcc
Q 020560 71 VDKTSEAA 78 (324)
Q Consensus 71 Pd~L~v~~ 78 (324)
-.|.||++
T Consensus 49 ~~y~ii~~ 56 (489)
T PF05262_consen 49 GRYYIIHA 56 (489)
T ss_pred CcEEEEEe
Confidence 44555444
No 181
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=29.16 E-value=64 Score=29.92 Aligned_cols=24 Identities=29% Similarity=0.343 Sum_probs=21.3
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAMGFPVARATRALHYS 138 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~T 138 (324)
+++++.|+++||++..|.+|+..-
T Consensus 145 ~ea~~AL~~LGy~~~ea~~al~~v 168 (196)
T PRK13901 145 KELEQSIVNMGFDRKLVNSAIKEI 168 (196)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 578999999999999999998653
No 182
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=29.04 E-value=17 Score=39.87 Aligned_cols=29 Identities=24% Similarity=0.316 Sum_probs=15.4
Q ss_pred HhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 020560 122 EAMGFPVARATRALHYSGNANVEAAVNWVV 151 (324)
Q Consensus 122 ~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~ 151 (324)
.+||||+-.-.-++...+ .+.+.|++.+-
T Consensus 628 k~~~~PPf~~l~~v~~~~-~~~~~~~~~~~ 656 (730)
T COG1198 628 KELGLPPFSRLAAVIASA-KNEEKALEFAR 656 (730)
T ss_pred HhcCCCChhhheeeEecC-CCHHHHHHHHH
Confidence 355666554444444444 35666666553
No 183
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=28.86 E-value=10 Score=28.87 Aligned_cols=13 Identities=31% Similarity=0.690 Sum_probs=9.5
Q ss_pred eecccCcccccch
Q 020560 6 LKCGDCGALLRSV 18 (324)
Q Consensus 6 L~C~~C~~v~~~~ 18 (324)
.+|..||+.+.+.
T Consensus 8 ~~CtSCg~~i~~~ 20 (59)
T PRK14890 8 PKCTSCGIEIAPR 20 (59)
T ss_pred ccccCCCCcccCC
Confidence 4688898887643
No 184
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=28.81 E-value=33 Score=25.40 Aligned_cols=31 Identities=29% Similarity=0.707 Sum_probs=19.4
Q ss_pred CceeecccCcccccchHHHHHHHHHcccCCCC--chhhhhhhcccCCCCC
Q 020560 3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFS--ESTEAVLNLVCATCGK 50 (324)
Q Consensus 3 ~~~L~C~~C~~v~~~~~eaq~hae~TgH~~F~--E~~e~v~e~~C~~Cg~ 50 (324)
.+.|-|..|.. |.... +.-+.+ .|+|+.||.
T Consensus 20 r~aLIC~~C~~----------------hNGla~~~~~~~i-~y~C~~Cg~ 52 (54)
T PF10058_consen 20 RYALICSKCFS----------------HNGLAPKEEFEEI-QYRCPYCGA 52 (54)
T ss_pred ceeEECcccch----------------hhcccccccCCce-EEEcCCCCC
Confidence 46788888863 33332 332333 699999985
No 185
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=28.35 E-value=3.7e+02 Score=22.87 Aligned_cols=27 Identities=30% Similarity=0.341 Sum_probs=22.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHhhHHH
Q 020560 175 KSSLTPEEIKLKAQELRERARKKKEEE 201 (324)
Q Consensus 175 k~~lT~EEk~~k~~el~~k~r~kr~ee 201 (324)
+-.||.||.+.-+++|.++++..+.+-
T Consensus 36 kGeln~eEak~~vddl~~q~k~~~~e~ 62 (108)
T COG3937 36 KGELNAEEAKRFVDDLLRQAKEAQGEL 62 (108)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHhhhH
Confidence 347999999999999999998666433
No 186
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=28.21 E-value=1.1e+02 Score=30.70 Aligned_cols=40 Identities=28% Similarity=0.483 Sum_probs=34.8
Q ss_pred cCHHHHHHHH-hCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 113 VDKELLKELE-AMGFPVARATRALHYSGNANVEAAVNWVVEH 153 (324)
Q Consensus 113 vd~~~l~~L~-~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H 153 (324)
....+|.+|- .-|+|...|++||...|| |+..|..||-.-
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~g-Dl~~A~~~L~k~ 85 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGG-DLVLAEEWLHKK 85 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCC-cHHHHHHHHHHH
Confidence 4678888886 689999999999999986 999999999643
No 187
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=28.13 E-value=3.7e+02 Score=28.33 Aligned_cols=20 Identities=40% Similarity=0.518 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHhhH
Q 020560 180 PEEIKLKAQELRERARKKKE 199 (324)
Q Consensus 180 ~EEk~~k~~el~~k~r~kr~ 199 (324)
-|||+-.+++||+++++.+.
T Consensus 249 HEeKQ~~AeeLRekLqE~Ka 268 (672)
T KOG4722|consen 249 HEEKQKHAEELREKLQEAKA 268 (672)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 57888999999999988764
No 188
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=27.93 E-value=2e+02 Score=26.59 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHcHHHHH
Q 020560 222 EAKRIEEENERKRILALRKAEKEEEK 247 (324)
Q Consensus 222 e~k~~~ee~e~k~~~e~rkrEK~Ee~ 247 (324)
.++++|++..-++..+.+.++++++.
T Consensus 87 aAR~RmQEE~dakA~~~kEKq~q~EE 112 (190)
T PF06936_consen 87 AARRRMQEELDAKAEEYKEKQKQEEE 112 (190)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555544444433333
No 189
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=27.91 E-value=60 Score=28.59 Aligned_cols=14 Identities=29% Similarity=0.795 Sum_probs=11.3
Q ss_pred ceeecccCcccccc
Q 020560 4 VSLKCGDCGALLRS 17 (324)
Q Consensus 4 ~~L~C~~C~~v~~~ 17 (324)
+.++|..|+.....
T Consensus 104 ~~~~C~~C~~~~~~ 117 (178)
T PF02146_consen 104 FRLRCSKCGKEYDR 117 (178)
T ss_dssp EEEEETTTSBEEEG
T ss_pred ceeeecCCCccccc
Confidence 56899999997754
No 190
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=27.80 E-value=4.9e+02 Score=27.28 Aligned_cols=6 Identities=67% Similarity=1.248 Sum_probs=2.8
Q ss_pred CCCCCC
Q 020560 269 GLPPED 274 (324)
Q Consensus 269 ~~~~~~ 274 (324)
.+|+++
T Consensus 371 ~lp~EP 376 (460)
T KOG1363|consen 371 SLPPEP 376 (460)
T ss_pred cCCCCC
Confidence 345544
No 191
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=27.60 E-value=80 Score=22.89 Aligned_cols=22 Identities=27% Similarity=0.415 Sum_probs=17.8
Q ss_pred HHHHHHHHhC---CCCHHHHHHHHH
Q 020560 115 KELLKELEAM---GFPVARATRALH 136 (324)
Q Consensus 115 ~~~l~~L~~M---GF~~~~a~kAL~ 136 (324)
..+.+||++- ||+.+.|..|+.
T Consensus 22 ~~l~~QL~se~ge~Ft~e~A~YAv~ 46 (48)
T PF07553_consen 22 QGLYDQLTSEYGEGFTEEEAQYAVD 46 (48)
T ss_pred HHHHHHHHhhcccCCCHHHHHHHHH
Confidence 4677889876 899999998874
No 192
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=27.29 E-value=5.4e+02 Score=24.37 Aligned_cols=9 Identities=33% Similarity=0.427 Sum_probs=3.8
Q ss_pred HHHHHHHHH
Q 020560 301 EQMRECLRS 309 (324)
Q Consensus 301 e~~r~~l~~ 309 (324)
.+++..|..
T Consensus 192 ~~~~~~l~~ 200 (250)
T PRK14474 192 AQILESLHQ 200 (250)
T ss_pred HHHHHHHHH
Confidence 344444443
No 193
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=27.16 E-value=45 Score=30.01 Aligned_cols=47 Identities=19% Similarity=0.370 Sum_probs=32.3
Q ss_pred eeecccCcccccchHHHHHHHHHcccCCCCch-hhhhh--hcccCCCCCC
Q 020560 5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSES-TEAVL--NLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~~eaq~hae~TgH~~F~E~-~e~v~--e~~C~~Cg~~ 51 (324)
...|..||..+........-++.-+|+.|.+. .+... -+.||.|..+
T Consensus 114 ~~~C~~Cg~~f~~~k~i~~~~~~l~~~~~~~~~~~~~~~~~~~Cp~Cr~k 163 (181)
T PRK08222 114 LQRCSRCERPFAPQKTVALAAELLAQQQNAPQNREMLRAQASVCPECKQR 163 (181)
T ss_pred cCcCcccCCccCcHhHHHHHHHHhhhccCcHhhHHHHHHHhccCHHHHhh
Confidence 34699999999877776666666677777654 23332 2589999754
No 194
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=26.99 E-value=32 Score=23.50 Aligned_cols=12 Identities=17% Similarity=0.706 Sum_probs=9.5
Q ss_pred hhhcccCCCCCC
Q 020560 40 VLNLVCATCGKP 51 (324)
Q Consensus 40 v~e~~C~~Cg~~ 51 (324)
.++..||.|++.
T Consensus 3 ~i~v~CP~C~s~ 14 (36)
T PF03811_consen 3 KIDVHCPRCQST 14 (36)
T ss_pred cEeeeCCCCCCC
Confidence 367899999974
No 195
>PF03801 Ndc80_HEC: HEC/Ndc80p family; InterPro: IPR005550 Members of this family are components of the mitotic spindle. It has been shown that Ndc80 from yeast is part of a complex called the Ndc80p complex []. This complex is thought to bind to the microtubules of the spindle.; PDB: 3IZ0_E 2VE7_B 2IGP_A.
Probab=26.91 E-value=71 Score=28.27 Aligned_cols=41 Identities=27% Similarity=0.591 Sum_probs=30.3
Q ss_pred ccCHHHHHHHHhCCCCH-HHHHHHHHHhCCC----CHHHHHHHHHH
Q 020560 112 EVDKELLKELEAMGFPV-ARATRALHYSGNA----NVEAAVNWVVE 152 (324)
Q Consensus 112 ~vd~~~l~~L~~MGF~~-~~a~kAL~~Tgn~----~~E~A~~WL~~ 152 (324)
-+.++++..|..+|||. ...+-+|..-|.. .+=+|+.||.+
T Consensus 92 k~eeev~~~lK~L~YP~~~isKS~L~a~gs~hsWP~lL~~L~WLv~ 137 (157)
T PF03801_consen 92 KFEEEVPFLLKALGYPFATISKSSLQAPGSPHSWPHLLGALHWLVE 137 (157)
T ss_dssp THHHHHHHHHHHTT-SS----HHHHHSTTSTTTHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhCCCccccCHHHccCCCCcccHHHHHHHHHHHHH
Confidence 45678899999999999 9999999888764 36789999964
No 196
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=26.59 E-value=28 Score=35.42 Aligned_cols=42 Identities=24% Similarity=0.374 Sum_probs=32.2
Q ss_pred ecccCcccc--c-chHHHHHHHHHcccCCCCchhhhhhhcccCCCCC
Q 020560 7 KCGDCGALL--R-SVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK 50 (324)
Q Consensus 7 ~C~~C~~v~--~-~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~ 50 (324)
-|.+||++. . ++.-|..|+..+||.-|-... ....+|-.|+-
T Consensus 30 ~CL~cg~~~~g~~~~~ha~~H~~~~~H~~~v~l~--t~~~yc~~~~~ 74 (440)
T cd02669 30 ACLVCGKYFQGRGKGSHAYTHSLEDNHHVFLNLE--TLKFYCLPDNY 74 (440)
T ss_pred EEcccCCeecCCCCCcHHHHHhhccCCCEEEECC--CCCEEEeCCCC
Confidence 799999654 2 455799999999999886642 24578999985
No 197
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=26.04 E-value=6.8e+02 Score=25.08 Aligned_cols=73 Identities=27% Similarity=0.300 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH--HHHHHHHcHHHHHHHHHHHHH
Q 020560 183 IKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKR--ILALRKAEKEEEKRAREKIRQ 255 (324)
Q Consensus 183 k~~k~~el~~k~r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~--~~e~rkrEK~Ee~~ARerir~ 255 (324)
++.++..-..+--+...+++++.+.+.|...|..-|+..++.+-.....+.. -+-.+--||.+++..|.+-+.
T Consensus 324 kkrqlerqekqeleqmaeeekkr~eeaeerqraeekeq~eaee~~ra~kr~egvkllkf~fekieareerrkqke 398 (445)
T KOG2891|consen 324 KKRQLERQEKQELEQMAEEEKKREEEAEERQRAEEKEQKEAEELERARKREEGVKLLKFEFEKIEAREERRKQKE 398 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhH
No 198
>PLN00186 ribosomal protein S26; Provisional
Probab=26.04 E-value=55 Score=27.83 Aligned_cols=42 Identities=14% Similarity=0.405 Sum_probs=27.6
Q ss_pred eeecccCcccc--------------cchHHHHHHHHHcccCCCCch---hhhhhhcccCCCC
Q 020560 5 SLKCGDCGALL--------------RSVQEAQEHAELTSHSNFSES---TEAVLNLVCATCG 49 (324)
Q Consensus 5 ~L~C~~C~~v~--------------~~~~eaq~hae~TgH~~F~E~---~e~v~e~~C~~Cg 49 (324)
.++|.+||+.. .+...+.++.++.- |... .=.+--++|-+|-
T Consensus 20 ~V~C~nCgr~vPKDKAIkrf~irniVe~aa~rDl~~a~v---y~~y~lPKly~K~~YCVSCA 78 (109)
T PLN00186 20 RIRCSNCGKCVPKDKAIKRFLVRNIVEQAALRDVQEACV---YDGYTLPKLYAKVQYCISCA 78 (109)
T ss_pred ceeeCCCcccccccceEEEEecccCccHHHHHHHHhhhc---ccccccchhhhceEEEEeeh
Confidence 58999999987 35556667776543 4443 2223448899995
No 199
>PRK11546 zraP zinc resistance protein; Provisional
Probab=25.92 E-value=4.7e+02 Score=23.20 Aligned_cols=62 Identities=21% Similarity=0.227 Sum_probs=32.8
Q ss_pred CCCCHHHHHH----------HHHHHHHHHHHhhHHHHHHHHHHH--HHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 020560 176 SSLTPEEIKL----------KAQELRERARKKKEEEEKRMERER--EKERIRIGKELLEAKRIEEENERKRILA 237 (324)
Q Consensus 176 ~~lT~EEk~~----------k~~el~~k~r~kr~eeek~~~~ek--E~~Rrk~GKe~~e~k~~~ee~e~k~~~e 237 (324)
.+||+|.-.. +...||+++..|+.+-.......+ +..=+..-+|+...+.++.++..+..++
T Consensus 42 ~~LT~EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~~~~~~ 115 (143)
T PRK11546 42 APLTTEQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRVKRDIA 115 (143)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4799885432 245666666666654433322211 2333455677777777666655544433
No 200
>smart00355 ZnF_C2H2 zinc finger.
Probab=25.72 E-value=61 Score=18.26 Aligned_cols=20 Identities=30% Similarity=0.830 Sum_probs=14.8
Q ss_pred ecccCcccccchHHHHHHHH
Q 020560 7 KCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 7 ~C~~C~~v~~~~~eaq~hae 26 (324)
+|..|+..+.+...-+.|..
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 57778877777777777765
No 201
>PF03879 Cgr1: Cgr1 family; InterPro: IPR005579 Cgr1 is involved in nucleolar integrity and is required for processing pre-rRNA for the 60S ribosome subunit. In Saccharomyces cerevisiae, this protein is conserved and contributes to compartmentalisation of nucleolar constituents []. Cgr1 is a small hydrophilic protein and members of this family are coiled-coil proteins []. Its primary role appears to be in ribosome biogenesis [, ]. Expression of CGR1 is also associated with a cessation of yeast cell growth, which is a prerequisite for germination in this organism [].
Probab=25.44 E-value=4.2e+02 Score=22.46 Aligned_cols=12 Identities=25% Similarity=0.224 Sum_probs=6.5
Q ss_pred CCCCCHHHHHHH
Q 020560 175 KSSLTPEEIKLK 186 (324)
Q Consensus 175 k~~lT~EEk~~k 186 (324)
.+.+|.=|++.+
T Consensus 27 ~~~~tSwekr~~ 38 (108)
T PF03879_consen 27 KKKRTSWEKRME 38 (108)
T ss_pred ccccCcHHHHHH
Confidence 345666655544
No 202
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=25.40 E-value=78 Score=33.79 Aligned_cols=49 Identities=24% Similarity=0.535 Sum_probs=27.8
Q ss_pred ceeecccCcccccchH-HHHHHHHHcccCCCCch--hhhh--hhcccCCCCCCCC
Q 020560 4 VSLKCGDCGALLRSVQ-EAQEHAELTSHSNFSES--TEAV--LNLVCATCGKPCR 53 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~-eaq~hae~TgH~~F~E~--~e~v--~e~~C~~Cg~~~~ 53 (324)
--..|.+||...+--- --...+. .+|.+++.. ++.+ -+.+||.||.+..
T Consensus 87 plv~c~~c~~~yRADHLiEe~l~~-~~~~~~~~~e~~~ii~~~~ir~p~~g~~l~ 140 (558)
T COG0423 87 PLVECKKCGERYRADHLIEEYLGK-DGHGNMSPEELTEIIREYDIRCPECGGELN 140 (558)
T ss_pred ceeeccccchhhhhhHHHHHHhhh-cccccCCHHHHHHHHHHcCCcCCCcCCccC
Confidence 3578999999884211 1112222 335556554 2223 2379999998753
No 203
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=25.40 E-value=8.5e+02 Score=26.01 Aligned_cols=26 Identities=23% Similarity=0.335 Sum_probs=14.4
Q ss_pred CCCH---HHHHHHHHHhCC-CCHHHHHHHH
Q 020560 125 GFPV---ARATRALHYSGN-ANVEAAVNWV 150 (324)
Q Consensus 125 GF~~---~~a~kAL~~Tgn-~~~E~A~~WL 150 (324)
||++ .|+-|||+--++ ...-.+++-+
T Consensus 72 gFDpeaLERaAKAlrein~s~~aK~vfel~ 101 (630)
T KOG0742|consen 72 GFDPEALERAAKALREINHSPYAKDVFELA 101 (630)
T ss_pred CCChHHHHHHHHHHHhhccCccHHHHHHHH
Confidence 7776 466677765443 2344455443
No 204
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=25.37 E-value=50 Score=27.45 Aligned_cols=41 Identities=22% Similarity=0.469 Sum_probs=25.5
Q ss_pred eeecccCcccc--------------cchHHHHHHHHHcccCCCCchhhhhhhcccCCCC
Q 020560 5 SLKCGDCGALL--------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCG 49 (324)
Q Consensus 5 ~L~C~~C~~v~--------------~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg 49 (324)
.++|..||+.. .+...+.+..++ | +++.-. .+.-++|.+|-
T Consensus 20 ~V~C~nCgr~vPKDKAIkrf~i~n~Ve~a~~rdl~~a-~-~~lpk~--~~k~~YCvSCA 74 (95)
T PRK09335 20 YVQCDNCGRRVPRDKAVCVTKMYSPVDPQLAKELEKK-G-AIIARY--PVTKCYCVNCA 74 (95)
T ss_pred cEEeCCCCCcCcCCceEEEEEecCCCCHHHHHHHHhC-c-eeeeee--eeeeEEechhh
Confidence 58999999987 445556666663 2 111111 14458999995
No 205
>PF12898 Stc1: Stc1 domain; InterPro: IPR024630 The domain contains 8 conserved cysteines that may bind to zinc. In S. pombe, proteins containing the domain act as protein linkers, which link the chromatin modifying CLRC complex to RNAi by tethering it to the RITS complex. This domain has a slightly different arrangement of its CxxC pairs from the LIM domain, hence it is not part of that family []. The tandem zinc-finger structure could mediate protein-protein interactions.
Probab=25.35 E-value=57 Score=26.01 Aligned_cols=27 Identities=30% Similarity=0.572 Sum_probs=20.1
Q ss_pred hhhhhcccCCCCCCCCCcccccccccccccc
Q 020560 38 EAVLNLVCATCGKPCRSKTETDLHRKRTGHT 68 (324)
Q Consensus 38 e~v~e~~C~~Cg~~~~~~~e~~~a~K~t~f~ 68 (324)
..+.|+.|..||+. ...+.|+|+++..
T Consensus 46 ~q~~El~C~~C~~~----k~ld~FSK~QR~~ 72 (84)
T PF12898_consen 46 GQVVELTCSPCGKT----KPLDEFSKNQRRK 72 (84)
T ss_pred CCcCcCEeccCCCC----cCHHHHhHHhhcC
Confidence 67889999999963 2347778877754
No 206
>KOG2357 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.11 E-value=1.9e+02 Score=30.03 Aligned_cols=9 Identities=22% Similarity=0.158 Sum_probs=6.1
Q ss_pred ccccccCCC
Q 020560 93 EEAIDVDMS 101 (324)
Q Consensus 93 ~~~lDl~~~ 101 (324)
.+..||+.|
T Consensus 242 ke~~DLs~F 250 (440)
T KOG2357|consen 242 KEMRDLSRF 250 (440)
T ss_pred HHHHHHHHH
Confidence 456777766
No 207
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=25.08 E-value=4.5e+02 Score=22.74 Aligned_cols=15 Identities=20% Similarity=0.085 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHH
Q 020560 181 EEIKLKAQELRERAR 195 (324)
Q Consensus 181 EEk~~k~~el~~k~r 195 (324)
++++.++..-...+.
T Consensus 52 ~~R~~~I~~~l~~Ae 66 (156)
T CHL00118 52 DERKEYIRKNLTKAS 66 (156)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455555444444443
No 208
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=24.96 E-value=74 Score=28.32 Aligned_cols=9 Identities=33% Similarity=1.143 Sum_probs=7.8
Q ss_pred cccCCCCCC
Q 020560 43 LVCATCGKP 51 (324)
Q Consensus 43 ~~C~~Cg~~ 51 (324)
+.||.||+.
T Consensus 33 v~CP~Cgs~ 41 (148)
T PF06676_consen 33 VSCPVCGST 41 (148)
T ss_pred ccCCCCCCC
Confidence 699999974
No 209
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.69 E-value=43 Score=26.01 Aligned_cols=11 Identities=55% Similarity=1.407 Sum_probs=9.1
Q ss_pred hhcccCCCCCC
Q 020560 41 LNLVCATCGKP 51 (324)
Q Consensus 41 ~e~~C~~Cg~~ 51 (324)
+.-.||+||++
T Consensus 6 ~~v~CP~Cgkp 16 (65)
T COG3024 6 ITVPCPTCGKP 16 (65)
T ss_pred ccccCCCCCCc
Confidence 44689999998
No 210
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=24.61 E-value=15 Score=33.11 Aligned_cols=37 Identities=19% Similarity=0.419 Sum_probs=23.1
Q ss_pred cccCcccccchHHHHHHHHHcccCCCCchhhhhhhcccCCCCCC
Q 020560 8 CGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP 51 (324)
Q Consensus 8 C~~C~~v~~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg~~ 51 (324)
|.+||... -..+...|-=-+|.+. .+.-|.|++||-+
T Consensus 1 CP~Cg~~~-----~~~~~~~~~IP~F~ev--ii~sf~C~~CGyr 37 (163)
T TIGR00340 1 CPVCGSRT-----LKAVTYDYDIPYFGKI--MLSTYICEKCGYR 37 (163)
T ss_pred CCCCCCcc-----eEeeeEeccCCCcceE--EEEEEECCCCCCc
Confidence 88888641 0111223555678887 2335999999976
No 211
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=24.58 E-value=40 Score=29.95 Aligned_cols=45 Identities=18% Similarity=0.396 Sum_probs=25.9
Q ss_pred eeecccCcccccch----HHHHHHHHHcccCCCCch-hhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALLRSV----QEAQEHAELTSHSNFSES-TEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~~~~----~eaq~hae~TgH~~F~E~-~e~v~e~~C~~Cg~~ 51 (324)
-+.|..||.+..=. .+...+.. .-..|.-. ...++.-.|+.|+++
T Consensus 100 H~iC~~CGki~~i~~~~l~~~~~~~~--~~~gf~i~~~~l~~~GiC~~C~~~ 149 (169)
T PRK11639 100 MFICDRCGAVKEECAEGVEDIMHTLA--AKMGFALRHNVIEAHGLCAACVEV 149 (169)
T ss_pred eEEeCCCCCEEEecccHHHHHHHHHH--HHcCCEEeccEEEEEEEChhhcCc
Confidence 38999999999321 22232222 12245433 244555679999875
No 212
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=24.33 E-value=1.2e+03 Score=27.23 Aligned_cols=80 Identities=28% Similarity=0.390 Sum_probs=47.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH--HHHHHHHHHHcHHHHHHHHHH
Q 020560 177 SLTPEEIKLKAQELRERARKKKE--EEEKRMEREREKERIRIGKELLEAKRIEEENE--RKRILALRKAEKEEEKRAREK 252 (324)
Q Consensus 177 ~lT~EEk~~k~~el~~k~r~kr~--eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e--~k~~~e~rkrEK~Ee~~ARer 252 (324)
.-|++|-++++.+|.++....|- .+.+..-++=++.+|.- ..+++.|-++-+++ ..|.+...|.|+.+-..++++
T Consensus 223 skte~eLr~QvrdLtEkLetlR~kR~EDk~Kl~Elekmkiql-eqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~ 301 (1243)
T KOG0971|consen 223 SKTEEELRAQVRDLTEKLETLRLKRAEDKAKLKELEKMKIQL-EQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKER 301 (1243)
T ss_pred ccchHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45889999999999999754432 22333333334444432 33455665554433 345566666677777777777
Q ss_pred HHHHH
Q 020560 253 IRQKL 257 (324)
Q Consensus 253 ir~qI 257 (324)
-+..+
T Consensus 302 ~k~em 306 (1243)
T KOG0971|consen 302 YKEEM 306 (1243)
T ss_pred HHHHH
Confidence 66654
No 213
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=24.27 E-value=44 Score=22.52 Aligned_cols=13 Identities=31% Similarity=1.094 Sum_probs=9.0
Q ss_pred CceeecccCcccc
Q 020560 3 GVSLKCGDCGALL 15 (324)
Q Consensus 3 ~~~L~C~~C~~v~ 15 (324)
|..++|..||.+.
T Consensus 23 g~~v~C~~C~~~f 35 (36)
T PF13717_consen 23 GRKVRCSKCGHVF 35 (36)
T ss_pred CcEEECCCCCCEe
Confidence 5677777777654
No 214
>PF10147 CR6_interact: Growth arrest and DNA-damage-inducible proteins-interacting protein 1; InterPro: IPR018472 Members of this family of proteins act as negative regulators of G1 to S cell cycle phase progression by inhibiting cyclin-dependent kinases. Inhibitory effects are additive with GADD45 proteins but occur also in the absence of GADD45 proteins. Furthermore, they act as a repressor of the orphan nuclear receptor NR4A1 by inhibiting AB domain-mediated transcriptional activity []. They may be involved in the hormone-mediated regulation of NR4A1 transcriptional activity.; GO: 0007049 cell cycle, 0005634 nucleus
Probab=24.13 E-value=6.2e+02 Score=23.97 Aligned_cols=84 Identities=30% Similarity=0.441 Sum_probs=0.0
Q ss_pred CHHHHHHH----------HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHH
Q 020560 179 TPEEIKLK----------AQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKR 248 (324)
Q Consensus 179 T~EEk~~k----------~~el~~k~r~kr~eeek~~~~ekE~~Rrk~GKe~~e~k~~~ee~e~k~~~e~rkrEK~Ee~~ 248 (324)
|+|+-.+. ++++.+..+.++.+++.... .+++.=-.--.-|-++..++..+..++ +.+..+++.
T Consensus 83 t~eelee~e~Ee~~~~~sl~em~k~~~~~~~~k~~k~~-~Rek~Ia~nM~Kmpk~i~e~~~~~~kk-----~~~~~~~k~ 156 (217)
T PF10147_consen 83 TPEELEEQEYEEVEWPPSLQEMLKELREKKEEKEEKRL-AREKEIAKNMAKMPKWIAEWKAKIAKK-----EAKAQAAKE 156 (217)
T ss_pred CHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhHHHHHHHHHHHHHHH-----HHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHhcC--CCCCCC
Q 020560 249 AREKIRQKLEEDKAERRRRLG--LPPEDP 275 (324)
Q Consensus 249 ARerir~qIe~Dk~eR~~k~~--~~~~~~ 275 (324)
.++|+.+.| +.+|| +++-+|
T Consensus 157 rkerl~eEv-------re~fGy~vDprdp 178 (217)
T PF10147_consen 157 RKERLIEEV-------REHFGYKVDPRDP 178 (217)
T ss_pred HHHHHHHHH-------HHHhCCcCCCCCh
No 215
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=23.70 E-value=74 Score=32.21 Aligned_cols=21 Identities=14% Similarity=0.482 Sum_probs=17.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHH
Q 020560 115 KELLKELEAMGFPVARATRAL 135 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL 135 (324)
.++++.+..|||+++.++--+
T Consensus 322 ddvidKv~~MGf~rDqV~a~v 342 (358)
T PF07223_consen 322 DDVIDKVASMGFRRDQVRATV 342 (358)
T ss_pred HHHHHHHHHcCCcHHHHHHHH
Confidence 478999999999999987443
No 216
>COG4481 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.59 E-value=41 Score=25.45 Aligned_cols=14 Identities=36% Similarity=0.990 Sum_probs=11.1
Q ss_pred CCceeecccCcccc
Q 020560 2 AGVSLKCGDCGALL 15 (324)
Q Consensus 2 ~~~~L~C~~C~~v~ 15 (324)
+..+++|..||.+.
T Consensus 31 aDIkikC~nC~h~v 44 (60)
T COG4481 31 ADIKIKCENCGHSV 44 (60)
T ss_pred CcEEEEecCCCcEE
Confidence 46789999998765
No 217
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=23.55 E-value=49 Score=25.43 Aligned_cols=9 Identities=67% Similarity=1.582 Sum_probs=8.0
Q ss_pred cccCCCCCC
Q 020560 43 LVCATCGKP 51 (324)
Q Consensus 43 ~~C~~Cg~~ 51 (324)
..||.||++
T Consensus 7 v~CP~C~k~ 15 (62)
T PRK00418 7 VNCPTCGKP 15 (62)
T ss_pred ccCCCCCCc
Confidence 689999997
No 218
>COG2868 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]
Probab=23.54 E-value=28 Score=29.56 Aligned_cols=19 Identities=32% Similarity=0.672 Sum_probs=14.1
Q ss_pred HcccCCCCchhhhhhhcccCCC
Q 020560 27 LTSHSNFSESTEAVLNLVCATC 48 (324)
Q Consensus 27 ~TgH~~F~E~~e~v~e~~C~~C 48 (324)
.|||++|+|. -.|.+|.+=
T Consensus 18 ~sGHA~~ge~---G~DiVCAav 36 (109)
T COG2868 18 ASGHADFGEH---GSDIVCAAV 36 (109)
T ss_pred Eecccccccc---CCcEEEeeh
Confidence 4899999998 455677543
No 219
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=23.17 E-value=38 Score=29.62 Aligned_cols=13 Identities=38% Similarity=0.986 Sum_probs=11.2
Q ss_pred hhhhcccCCCCCC
Q 020560 39 AVLNLVCATCGKP 51 (324)
Q Consensus 39 ~v~e~~C~~Cg~~ 51 (324)
.++++.||.||.|
T Consensus 25 kML~~hCp~Cg~P 37 (131)
T COG1645 25 KMLAKHCPKCGTP 37 (131)
T ss_pred HHHHhhCcccCCc
Confidence 4788999999987
No 220
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=22.97 E-value=5.2e+02 Score=22.65 Aligned_cols=7 Identities=29% Similarity=0.135 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 020560 182 EIKLKAQ 188 (324)
Q Consensus 182 Ek~~k~~ 188 (324)
+++..+.
T Consensus 41 ~R~~~I~ 47 (167)
T PRK14475 41 AYAAKIQ 47 (167)
T ss_pred HHHHHHH
Confidence 3333333
No 221
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=22.97 E-value=6e+02 Score=23.39 Aligned_cols=14 Identities=14% Similarity=0.088 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHH
Q 020560 181 EEIKLKAQELRERA 194 (324)
Q Consensus 181 EEk~~k~~el~~k~ 194 (324)
++|..++..-...+
T Consensus 83 e~R~~~I~~~L~~A 96 (204)
T PRK09174 83 ETRRDRIAQDLDQA 96 (204)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444443
No 222
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=22.75 E-value=5.4e+02 Score=22.75 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHhhH
Q 020560 181 EEIKLKAQELRERARKKKE 199 (324)
Q Consensus 181 EEk~~k~~el~~k~r~kr~ 199 (324)
++.+..+++++..++...+
T Consensus 12 ~~a~~e~~~I~~ea~~~~~ 30 (188)
T PRK02292 12 DEARARASEIRAEADEEAE 30 (188)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4556667777777665544
No 223
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=22.64 E-value=9.5e+02 Score=27.81 Aligned_cols=22 Identities=18% Similarity=0.200 Sum_probs=16.4
Q ss_pred HHHHHhCCCCHHHHHHHHHHhcCC
Q 020560 133 RALHYSGNANVEAAVNWVVEHEND 156 (324)
Q Consensus 133 kAL~~Tgn~~~E~A~~WL~~H~dD 156 (324)
+|++..|. ...|+.|+.--...
T Consensus 724 ra~y~~~~--~~eak~~ll~a~~~ 745 (1018)
T KOG2002|consen 724 RAWYEAGK--LQEAKEALLKARHL 745 (1018)
T ss_pred HHHHHhhh--HHHHHHHHHHHHHh
Confidence 67777664 89999999765554
No 224
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=22.59 E-value=1.7e+02 Score=23.30 Aligned_cols=35 Identities=23% Similarity=0.352 Sum_probs=25.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 020560 115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH 153 (324)
Q Consensus 115 ~~~l~~L~~MGF~~~~a~kAL~~Tgn~~~E~A~~WL~~H 153 (324)
..++..|..+|||...|.+.....|. .|++-|.+|
T Consensus 9 ~~~~~~L~~~gl~~~~a~kl~~~yg~----~ai~~l~~n 43 (94)
T PF14490_consen 9 RELMAFLQEYGLSPKLAMKLYKKYGD----DAIEILKEN 43 (94)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHH-T----THHHHHHH-
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhH----HHHHHHHHC
Confidence 46789999999999999999988875 466777554
No 225
>PF01283 Ribosomal_S26e: Ribosomal protein S26e; InterPro: IPR000892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. One of these families, the S26E family, includes mammalian S26 []; Octopus S26 []; Drosophila S26 (DS31) []; plant cytoplasmic S26; and fungal S26 []. These proteins have 114 to 127 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3U5G_a 3U5C_a 2XZM_5 2XZN_5.
Probab=22.37 E-value=22 Score=30.42 Aligned_cols=46 Identities=15% Similarity=0.409 Sum_probs=24.3
Q ss_pred ceeecccCcccc--------------cchHHHHHHHHHcccCCCCchhhhhhhcccCCCC
Q 020560 4 VSLKCGDCGALL--------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCG 49 (324)
Q Consensus 4 ~~L~C~~C~~v~--------------~~~~eaq~hae~TgH~~F~E~~e~v~e~~C~~Cg 49 (324)
..++|..||+.. .+...+.+..++.-+..|.=-.=.+.-++|.+|-
T Consensus 19 ~~V~C~nCgr~vPKDKAIkrf~i~niVeaaa~rdi~~a~v~~~y~lPKlyvK~~YCvSCA 78 (113)
T PF01283_consen 19 QPVRCDNCGRCVPKDKAIKRFVIRNIVEAAAVRDISEASVYDAYVLPKLYVKLYYCVSCA 78 (113)
T ss_dssp -EEE-TTTB-EEECCCSEEEEEEEESS-CCCHHHHHHCB-SSS--S-EEEEEEEE-CHHH
T ss_pred cCEeeCcccccCcCCceEEEEEccCCccHHHHHHHhhcceeeecccccceeEEEEeeeee
Confidence 358999999876 3444566777755554443222235568999994
No 226
>KOG1265 consensus Phospholipase C [Lipid transport and metabolism]
Probab=22.17 E-value=5e+02 Score=29.90 Aligned_cols=10 Identities=20% Similarity=0.428 Sum_probs=6.8
Q ss_pred HHHHHHHHHH
Q 020560 251 EKIRQKLEED 260 (324)
Q Consensus 251 erir~qIe~D 260 (324)
.-|++||+.+
T Consensus 1156 ~~~leql~e~ 1165 (1189)
T KOG1265|consen 1156 LEVLEQLAEE 1165 (1189)
T ss_pred HHHHHHHHHh
Confidence 4577777766
No 227
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=22.04 E-value=5.5e+02 Score=22.58 Aligned_cols=10 Identities=20% Similarity=0.431 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 020560 248 RAREKIRQKL 257 (324)
Q Consensus 248 ~ARerir~qI 257 (324)
.++..++.+|
T Consensus 130 ~a~~~l~~qi 139 (174)
T PRK07352 130 RVIAQLRREA 139 (174)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 228
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=21.49 E-value=5.1e+02 Score=22.01 Aligned_cols=15 Identities=47% Similarity=0.862 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHH
Q 020560 245 EEKRAREKIRQKLEE 259 (324)
Q Consensus 245 Ee~~ARerir~qIe~ 259 (324)
+...++..++.++..
T Consensus 112 e~~~a~~~l~~~~~~ 126 (156)
T PRK05759 112 ERKRAREELRKQVAD 126 (156)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444433
No 229
>PF09805 Nop25: Nucleolar protein 12 (25kDa); InterPro: IPR019186 Nop12 is a novel nucleolar protein required for pre-large subunit rRNA processing and in yeast normal rates of cell growth at low temperatures [].
Probab=21.23 E-value=3.3e+02 Score=23.56 Aligned_cols=20 Identities=35% Similarity=0.458 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHcHHHHHHH
Q 020560 230 NERKRILALRKAEKEEEKRA 249 (324)
Q Consensus 230 ~e~k~~~e~rkrEK~Ee~~A 249 (324)
+.+...++.|++-+++-+..
T Consensus 45 k~r~er~eeRk~~R~erk~~ 64 (137)
T PF09805_consen 45 KEREERIEERKEIREERKEE 64 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444443333
No 230
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=21.12 E-value=47 Score=28.83 Aligned_cols=45 Identities=22% Similarity=0.493 Sum_probs=27.4
Q ss_pred eeecccCcccc----cchHHHHHHHHHcccCCCCch-hhhhhhcccCCCCCC
Q 020560 5 SLKCGDCGALL----RSVQEAQEHAELTSHSNFSES-TEAVLNLVCATCGKP 51 (324)
Q Consensus 5 ~L~C~~C~~v~----~~~~eaq~hae~TgH~~F~E~-~e~v~e~~C~~Cg~~ 51 (324)
-+.|..||.+. .+....+.... .+..|.=. ....+--.|+.|+..
T Consensus 93 HliC~~CG~v~e~~~~~i~~~~~~~~--~~~Gf~i~~~~l~~~G~C~~C~~~ 142 (145)
T COG0735 93 HLICLDCGKVIEFEDDEIEALQEEIA--KKLGFKLKDHTLEIYGICPDCQAK 142 (145)
T ss_pred EEEecCCCCEEEecchhHHHHHHHHH--HhcCCeeeeeEEEEEEECcchHhh
Confidence 47899999998 23445555555 44555433 122333459999864
No 231
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=21.04 E-value=53 Score=22.16 Aligned_cols=13 Identities=31% Similarity=0.654 Sum_probs=9.6
Q ss_pred CceeecccCcccc
Q 020560 3 GVSLKCGDCGALL 15 (324)
Q Consensus 3 ~~~L~C~~C~~v~ 15 (324)
..|+.|..||+|-
T Consensus 20 r~R~vC~~Cg~Ih 32 (34)
T PF14803_consen 20 RERLVCPACGFIH 32 (34)
T ss_dssp S-EEEETTTTEEE
T ss_pred ccceECCCCCCEE
Confidence 4678899998874
No 232
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=20.99 E-value=50 Score=25.19 Aligned_cols=28 Identities=25% Similarity=0.558 Sum_probs=22.6
Q ss_pred ceeecccCcccccchHHHHHHHHHcccCC
Q 020560 4 VSLKCGDCGALLRSVQEAQEHAELTSHSN 32 (324)
Q Consensus 4 ~~L~C~~C~~v~~~~~eaq~hae~TgH~~ 32 (324)
.-|+|..||.++..+.+-..|.. -.|-+
T Consensus 16 ~~lrCPRC~~~FR~~K~Y~RHVN-KaH~~ 43 (65)
T COG4049 16 EFLRCPRCGMVFRRRKDYIRHVN-KAHGW 43 (65)
T ss_pred eeeeCCchhHHHHHhHHHHHHhh-HHhhh
Confidence 45899999999999999888887 45544
No 233
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=20.93 E-value=46 Score=29.65 Aligned_cols=9 Identities=44% Similarity=1.357 Sum_probs=7.9
Q ss_pred cccCCCCCC
Q 020560 43 LVCATCGKP 51 (324)
Q Consensus 43 ~~C~~Cg~~ 51 (324)
++||.||.+
T Consensus 1 m~cp~c~~~ 9 (154)
T PRK00464 1 MRCPFCGHP 9 (154)
T ss_pred CcCCCCCCC
Confidence 589999987
No 234
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=20.33 E-value=6e+02 Score=22.36 Aligned_cols=14 Identities=21% Similarity=0.565 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHH
Q 020560 246 EKRAREKIRQKLEE 259 (324)
Q Consensus 246 e~~ARerir~qIe~ 259 (324)
...++..++.+|..
T Consensus 127 ~~~a~~~l~~~i~~ 140 (175)
T PRK14472 127 KRRALDVLRNEVAD 140 (175)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444443
No 235
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=20.30 E-value=5.6e+02 Score=22.05 Aligned_cols=14 Identities=21% Similarity=0.278 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHH
Q 020560 246 EKRAREKIRQKLEE 259 (324)
Q Consensus 246 e~~ARerir~qIe~ 259 (324)
...|...++.++..
T Consensus 111 k~~a~~el~~~~~~ 124 (159)
T PRK09173 111 ETDAINAVRSSAVD 124 (159)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444445554433
No 236
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=20.23 E-value=87 Score=18.78 Aligned_cols=21 Identities=29% Similarity=0.790 Sum_probs=15.9
Q ss_pred eecccCcccccchHHHHHHHH
Q 020560 6 LKCGDCGALLRSVQEAQEHAE 26 (324)
Q Consensus 6 L~C~~C~~v~~~~~eaq~hae 26 (324)
.+|..|+..+.....=..|..
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHC
T ss_pred CCCCccCCccCChhHHHHHhH
Confidence 478888888887777777764
Done!